Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 68 of 136
Found at i:22520553 original size:39 final size:40
Alignment explanation
Indices: 22520510--22520597 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
22520500 CGAATTATGG
*
22520510 AATACTGAATATTGTCT-TG-ATTACTG-AGTGAATTGTGAA
1 AATACTGAATATTGT-TATGCA-TAATGCAGTGAATTGTGAA
*
22520549 AATACTGAATATTGTTATGCATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGCATAATGCAGTGAATTGTGAA
*
22520589 ATTACTGAA
1 AATACTGAA
22520598 GTAAAGAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 21 0.49
40 21 0.49
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (40 bp):
AATACTGAATATTGTTATGCATAATGCAGTGAATTGTGAA
Found at i:22531287 original size:23 final size:23
Alignment explanation
Indices: 22531243--22531310 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 23
22531233 ATATATCAAC
* *
22531243 TATAT-ATTAAAT-ATTGAAATA
1 TATATAATTACATAATTCAAATA
22531264 TA-ATAATTACA-AATTCAAATA
1 TATATAATTACATAATTCAAATA
** *
22531285 TATATTGTTACATATTTCAAATA
1 TATATAATTACATAATTCAAATA
22531308 TAT
1 TAT
22531311 TTCGAGAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 2 0.05
21 17 0.45
22 7 0.18
23 12 0.32
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (23 bp):
TATATAATTACATAATTCAAATA
Found at i:22532919 original size:17 final size:18
Alignment explanation
Indices: 22532897--22532939 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22532887 AATTCAACAG
22532897 TTGTATTTA-AAAAATAA
1 TTGTATTTACAAAAATAA
* *
22532914 TTGTATTTACCAATATAA
1 TTGTATTTACAAAAATAA
22532932 TTGTATTT
1 TTGTATTT
22532940 GTAATGCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (18 bp):
TTGTATTTACAAAAATAA
Found at i:22543020 original size:20 final size:20
Alignment explanation
Indices: 22542992--22543032 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22542982 TAATAATGAG
22542992 AATACCAATTTTAAAATAAT
1 AATACCAATTTTAAAATAAT
* *
22543012 AATATCAATTTTATAATAAT
1 AATACCAATTTTAAAATAAT
22543032 A
1 A
22543033 TCAATAATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (20 bp):
AATACCAATTTTAAAATAAT
Found at i:22543485 original size:50 final size:49
Alignment explanation
Indices: 22543386--22543495 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 49
22543376 AAAAGACAAT
* * **
22543386 AATAAATAAATAAATAAATAAATCATGAAAGGTTGAAATTGCCATAATA
1 AATAAATAAATAAATAAAAAAATCATGAAAAGTTGAAATTGAAATAATA
*
22543435 AATAAGTAAAT-AATAAAAAAATTTCATGAAAAGTTGAAATT-AAATAAATA
1 AATAAATAAATAAATAAAAAAA--TCATGAAAAGTTGAAATTGAAAT-AATA
*
22543485 AATAATTAAAT
1 AATAAATAAAT
22543496 TTAAATTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
48 9 0.17
49 12 0.23
50 31 0.60
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (49 bp):
AATAAATAAATAAATAAAAAAATCATGAAAAGTTGAAATTGAAATAATA
Found at i:22546096 original size:28 final size:27
Alignment explanation
Indices: 22546063--22546161 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
22546053 TAATGAGATT
22546063 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* **
22546090 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
*
22546119 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
22546147 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22546162 TACTTATTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 56 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:22549908 original size:27 final size:27
Alignment explanation
Indices: 22549878--22549937 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
22549868 TTTTAATTAT
22549878 TTTCTTTAAAGGTCGAAATTTGTATCA
1 TTTCTTTAAAGGTCGAAATTTGTATCA
22549905 TTTCTTTAAAGGTCGAAATTTGTATCA
1 TTTCTTTAAAGGTCGAAATTTGTATCA
22549932 -TTCTTT
1 TTTCTTT
22549938 TTTTCTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (27 bp):
TTTCTTTAAAGGTCGAAATTTGTATCA
Found at i:22553440 original size:22 final size:23
Alignment explanation
Indices: 22553383--22553440 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
22553373 GTGATTATGT
* **
22553383 TTTATTTCTATTTCCACGGGGTAG
1 TTTAGTTCTA-TTCCACAAGGTAG
*
22553407 GTTAGTTC-ATTCCACAAGGTAG
1 TTTAGTTCTATTCCACAAGGTAG
22553429 TTTA-TTCTATTC
1 TTTAGTTCTATTC
22553441 TGTGACTGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 3 0.11
22 18 0.64
23 1 0.04
24 6 0.21
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (23 bp):
TTTAGTTCTATTCCACAAGGTAG
Found at i:22556107 original size:44 final size:44
Alignment explanation
Indices: 22556050--22556533 Score: 307
Period size: 44 Copynumber: 10.8 Consensus size: 44
22556040 TTGTAATTTC
* * *
22556050 AATCTACTCCACTGCAACTTCAAGGAGATGAGATTCGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTT
* * ** * *
22556094 AACCTGTTCCACTGCAA-TTTTAGCAAGACAAGATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTAGCTTT
* * * *
22556138 AATCTGCTCCACTTCAACTTCAGGGAGATAAGGTTTGTAGTTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTT
* * *
22556182 AATCTGTTCC-CTTGCAACTTCAAGGAGATAACATTTGTAGTTTT
1 AATCTGCTCCAC-TGCAACTTCAAGGAGATAAGATTTGTAGCTTT
* * * * * * *
22556226 GATTTGCTCCACTACAACTTCAGGGAGATAAGATTCGTAACTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTT
** * * * * * * *
22556270 AATCCAACT-CATTGTAAATTC-AGGGGTATAGGATTTTTAGCTTC
1 AAT-CTGCTCCACTGCAACTTCAAGGAG-ATAAGATTTGTAGCTTT
*
22556314 AATCTGCTCCACTGCAACTTC-AGAAAGATAAGATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTAGCTTT
* * * * * *
22556358 AATCAGCTTCACTGCAACTTTAGGGAGATAAGATTTACCATGGTAACTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TT----T-GTAGCTTT
* * * * * * *
22556408 AATCCGGC-CCATTGCGACTT-TAGGAGTATAGGATTTTTTAGCTTC
1 AAT-CTGCTCCACTGCAACTTCAAGGAG-ATAAGA-TTTGTAGCTTT
* * *
22556453 AATCTACTGCACTGCAACTTCATGGAGATAAGATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTT
* ** * *
22556497 AATATATTCCACTGCAACTTTAGGGAGATAAGATTTG
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTG
22556534 CTATGATAGA
Statistics
Matches: 332, Mismatches: 89, Indels: 38
0.72 0.19 0.08
Matches are distributed among these distances:
43 11 0.03
44 249 0.75
45 33 0.10
46 5 0.02
49 5 0.02
50 26 0.08
51 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTT
Found at i:22556482 original size:139 final size:131
Alignment explanation
Indices: 22556047--22556532 Score: 396
Period size: 132 Copynumber: 3.6 Consensus size: 131
22556037 GTATTGTAAT
* *
22556047 TTCAATCTACTCCACTGCAACTTCAAGGAGATGAGATTCGTAGCTTTAACCT-G-TTCCACTGCA
1 TTCAATCTACTCCACTGCAACTTC-AGGAGATAAGATTTGTAGCTTTAA--TAGCTT-CACTGCA
* ** * * * ** *
22556110 ATTTTAGCAAGACAAGATTT-GTAGCTTTAAT-CTGCTCCACTT-CAACTTCAGGGAG-ATAAGG
62 ACTTTAGGGAGATAAGATTTCGTAACTTCAATCCAAC-CCA-TTGCAAATTCA-GGAGTAT-AGG
* *
22556171 -TTTGTAGT
123 ATTTTTAGC
* ** * * * * * *
22556179 TTTAATCTGTTCC-CTTGCAACTTCAAGGAGATAACATTTGTAGTTTTGATTTGCTCCACTACAA
1 TTCAATCTACTCCAC-TGCAACTTC-AGGAGATAAGATTTGTAGCTTT-AATAGCTTCACTGCAA
* * * *
22556243 CTTCAGGGAGATAAGA-TTCGTAACTTCAATCCAACTCATTGTAAATTCAGGGGTATAGGATTTT
63 CTTTAGGGAGATAAGATTTCGTAACTTCAATCCAACCCATTGCAAATTCAGGAGTATAGGATTTT
22556307 TAGC
128 TAGC
* *
22556311 TTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATTTGTAGCTTTAATCAGCTTCACTGCAAC
1 TTCAATCTACTCCACTGCAACTTCAG-GAGATAAGATTTGTAGCTTTAAT-AGCTTCACTGCAAC
** * * *
22556376 TTTAGGGAGATAAGATTTACCATGGTAACTTCAATCCGGCCCATTGCGACTTTAGGAGTATAGGA
64 TTTAGGGAGATAAGATTT--C---GTAACTTCAATCCAACCCATTGCAAATTCAGGAGTATAGGA
22556441 TTTTTTAGC
124 -TTTTTAGC
* **
22556450 TTCAATCTACTGCACTGCAACTTCATGGAGATAAGATTTGTAGCTTTAATATATTCCACTGCAAC
1 TTCAATCTACTCCACTGCAACTTCA-GGAGATAAGATTTGTAGCTTTAATAGCTT-CACTGCAAC
22556515 TTTAGGGAGATAAGATTT
64 TTTAGGGAGATAAGATTT
22556533 GCTATGATAG
Statistics
Matches: 285, Mismatches: 48, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
131 16 0.06
132 144 0.51
133 7 0.02
135 1 0.00
138 36 0.13
139 80 0.28
140 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (131 bp):
TTCAATCTACTCCACTGCAACTTCAGGAGATAAGATTTGTAGCTTTAATAGCTTCACTGCAACTT
TAGGGAGATAAGATTTCGTAACTTCAATCCAACCCATTGCAAATTCAGGAGTATAGGATTTTTAG
C
Found at i:22556548 original size:139 final size:138
Alignment explanation
Indices: 22556295--22556552 Score: 387
Period size: 139 Copynumber: 1.9 Consensus size: 138
22556285 AAATTCAGGG
*
22556295 GTATAGGATTTTTAGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATTTGTAGCTTTAA
1 GTATAGGATTTTTAGCTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATTTGTAGCTTTAA
* *
22556360 TCAGCTTCACTGCAACTTTAGGGAGATAAGATTTACCATGGTAACTTCAATCCGGCCCATTGCGA
66 TCAGATTCACTGCAACTTTAGGGAGATAAGATTTACCATGATAACTTCAATCCGGCCCATTGCGA
22556425 CTTTAGGA
131 CTTTAGGA
* *
22556433 GTATAGGATTTTTTAGCTTCAATCTACTGCACTGCAACTTCATG-GAGATAAGATTTGTAGCTTT
1 GTATAGGA-TTTTTAGCTTCAATCTACTCCACTGCAACTTCA-GAAAGATAAGATTTGTAGCTTT
* * *
22556497 AAT-ATATTCCACTGCAACTTTAGGGAGATAAGATTTGCTATGATAGA-TTCAATCCG
64 AATCAGATT-CACTGCAACTTTAGGGAGATAAGATTTACCATGATA-ACTTCAATCCG
22556553 ATCCACTGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
138 11 0.10
139 95 0.88
140 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (138 bp):
GTATAGGATTTTTAGCTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATTTGTAGCTTTAA
TCAGATTCACTGCAACTTTAGGGAGATAAGATTTACCATGATAACTTCAATCCGGCCCATTGCGA
CTTTAGGA
Found at i:22561911 original size:9 final size:9
Alignment explanation
Indices: 22561897--22561927 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22561887 GTTAAACGAA
22561897 TCGAGTTAT
1 TCGAGTTAT
*
22561906 TCGAGTTAA
1 TCGAGTTAT
22561915 TCGAGTTAT
1 TCGAGTTAT
22561924 TCGA
1 TCGA
22561928 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:22561998 original size:9 final size:9
Alignment explanation
Indices: 22561981--22562017 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22561971 TGAGTTTTCG
22561981 AATTCGAAT
1 AATTCGAAT
*
22561990 AACTCGAAT
1 AATTCGAAT
22561999 AATTCGAAT
1 AATTCGAAT
22562008 AATTCGAAT
1 AATTCGAAT
22562017 A
1 A
22562018 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22563574 original size:24 final size:23
Alignment explanation
Indices: 22563537--22563584 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
22563527 TTTAAAATAC
*
22563537 TTTAAAAATATTTTTATTTTTAT
1 TTTAAAAATATTTTTATGTTTAT
*
22563560 TTTAAAAATATTTTTTGTGTTTAT
1 TTTAAAAATA-TTTTTATGTTTAT
22563584 T
1 T
22563585 AAAAATCGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTAAAAATATTTTTATGTTTAT
Found at i:22570254 original size:15 final size:16
Alignment explanation
Indices: 22570229--22570269 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
22570219 NNNNNNNNNN
*
22570229 TATATTTTAATTATAA
1 TATATTTTAATAATAA
22570245 TATA-TTTAATAATAA
1 TATATTTTAATAATAA
22570260 T-TATGTTTAA
1 TATAT-TTTAA
22570270 ATATGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 11 0.50
16 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATATTTTAATAATAA
Found at i:22570519 original size:17 final size:16
Alignment explanation
Indices: 22570485--22570537 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
22570475 GATTTGCTAT
22570485 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
22570501 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
22570518 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
22570534 TACA
1 TACA
22570538 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:22570659 original size:15 final size:15
Alignment explanation
Indices: 22570636--22570687 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
22570626 GTAAGTGGAC
*
22570636 TTGGATTTTTATTTT
1 TTGGTTTTTTATTTT
*
22570651 TTGG-TTTTTATATT
1 TTGGTTTTTTATTTT
*
22570665 CT-GTTTGTTTATTTT
1 TTGGTTT-TTTATTTT
22570680 TTGGTTTT
1 TTGGTTTT
22570688 AAGCTGGCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 1 0.03
14 12 0.40
15 13 0.43
16 4 0.13
ACGTcount: A:0.10, C:0.02, G:0.15, T:0.73
Consensus pattern (15 bp):
TTGGTTTTTTATTTT
Found at i:22572349 original size:3 final size:3
Alignment explanation
Indices: 22572328--22572385 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
22572318 ATAATAGGAC
* ** * *
22572328 AAT AAT AAC AAT GAA- AAT AAT AAT TGT GAT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22572373 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
22572386 TCTAAATTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22572431 original size:12 final size:12
Alignment explanation
Indices: 22572414--22572462 Score: 64
Period size: 12 Copynumber: 3.9 Consensus size: 12
22572404 GAAAGTAGCA
22572414 AATAAATAAAAG
1 AATAAATAAAAG
22572426 AATAAATAAAAG
1 AATAAATAAAAG
22572438 -ATACAATAAAAG
1 AATA-AATAAAAG
22572450 AAAATAAATAAAA
1 --AATAAATAAAA
22572463 AGAAGCCGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.09
12 20 0.61
14 7 0.21
15 3 0.09
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (12 bp):
AATAAATAAAAG
Found at i:22572767 original size:52 final size:53
Alignment explanation
Indices: 22572670--22572773 Score: 138
Period size: 52 Copynumber: 1.9 Consensus size: 53
22572660 AAAAAAAACG
* * *
22572670 AAATAGATAAAATATGTATACAAAATGTTAAGTTTAAATATTTTAAGAGTAAAAA
1 AAATAGATAAAATA--TATACAAAATATTAAATTTAAATATTTTAAAAGTAAAAA
**
22572725 AAATAGATAAAATA-ATACCTAATATTAAATTTAAATATTTTAAAAGTAA
1 AAATAGATAAAATATATACAAAATATTAAATTTAAATATTTTAAAAGTAA
22572774 GAGAATGATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
52 30 0.68
55 14 0.32
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (53 bp):
AAATAGATAAAATATATACAAAATATTAAATTTAAATATTTTAAAAGTAAAAA
Found at i:22584426 original size:19 final size:17
Alignment explanation
Indices: 22584392--22584426 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
22584382 CTAAAATAGT
22584392 AACAAAATTAACAATAA
1 AACAAAATTAACAATAA
22584409 AACAAGAATTATACAATA
1 AACAA-AATTA-ACAATA
22584427 TCCAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (17 bp):
AACAAAATTAACAATAA
Found at i:22587156 original size:13 final size:13
Alignment explanation
Indices: 22587138--22587164 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22587128 CCTACTTGTG
22587138 TCATGGTTCACAT
1 TCATGGTTCACAT
22587151 TCATGGTTCACAT
1 TCATGGTTCACAT
22587164 T
1 T
22587165 TAAGACTCGA
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:0.22, G:0.15, T:0.41
Consensus pattern (13 bp):
TCATGGTTCACAT
Found at i:22588218 original size:28 final size:28
Alignment explanation
Indices: 22588173--22588229 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
22588163 AAAAGTGTCC
22588173 ATACTTTAAGCAATGTACAAATACTTTA
1 ATACTTTAAGCAATGTACAAATACTTTA
22588201 ATACTTTAAGCGAA-GTACAAATACTTTA
1 ATACTTTAAGC-AATGTACAAATACTTTA
22588229 A
1 A
22588230 GTAAACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (28 bp):
ATACTTTAAGCAATGTACAAATACTTTA
Found at i:22591772 original size:193 final size:191
Alignment explanation
Indices: 22591437--22591812 Score: 463
Period size: 193 Copynumber: 2.0 Consensus size: 191
22591427 GTAATCTATA
* * **
22591437 ATGGGTTTAAGTCATTGATTTTCATTTGTAGCTTTGTGATTAAAACACAATTATTACTTGAATGG
1 ATGGGTTCAAGTCATTGATTTTCATTTGTAACTTTGTGATTAAAACACAACAATTACTTGAATGG
* * * * * * *
22591502 AAATGCATTTGCATCTGTGTATCCTGCAATGCTATTTAATTGAACTTTGGGGTTGGAATTGTTAT
66 AAATGCACTTGCATCTGTATATCCTGCAAAGCTATTTAA-TCAACTTTGGAGTTGAAATAGTTAT
* *
22591567 TAGGAAGTAATTGATGTTTTTATGT-TGATGTTAATGAATACAATAGACTAAGTTGAATTTTTT
130 TAGGAAGTAATTGATGTTTTT-T-TATGATGTTAATGAACACAATAGACCAAGTTGAATTTTTT
* * *
22591630 ATGGGTTCGAGTCATTGGTTTTCATTTG-AACTTTGTGATTACAACACAACAATTTACTTGAATG
1 ATGGGTTCAAGTCATTGATTTTCATTTGTAACTTTGTGATTAAAACACAACAA-TTACTTGAATG
** * *
22591694 GAAATGCACTTGTGT-TTTCATATCCTGCAAAGCTTCTTTAGA-CAACTTTGGAGTTGAAATAGT
65 GAAATGCACTTGCATCTGT-ATATCCTGCAAAGC-TATTTA-ATCAACTTTGGAGTTGAAATAGT
* *
22591757 TATTAGGATGTAATTGATGTTTTTTTATGATGTTAATGAACATAATAGACCAAGTT
127 TATTAGGAAGTAATTGATGTTTTTTTATGATGTTAATGAACACAATAGACCAAGTT
22591813 TGGGACCTTT
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
191 1 0.01
192 49 0.31
193 100 0.64
194 5 0.03
195 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (191 bp):
ATGGGTTCAAGTCATTGATTTTCATTTGTAACTTTGTGATTAAAACACAACAATTACTTGAATGG
AAATGCACTTGCATCTGTATATCCTGCAAAGCTATTTAATCAACTTTGGAGTTGAAATAGTTATT
AGGAAGTAATTGATGTTTTTTTATGATGTTAATGAACACAATAGACCAAGTTGAATTTTTT
Found at i:22600875 original size:15 final size:15
Alignment explanation
Indices: 22600855--22600896 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
22600845 AATTAAACAC
*
22600855 TAATAAAAATGATCA
1 TAATAATAATGATCA
* *
22600870 TAATAATAATAATGA
1 TAATAATAATGATCA
22600885 TAATAATAATGA
1 TAATAATAATGA
22600897 AATGTATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (15 bp):
TAATAATAATGATCA
Found at i:22600878 original size:18 final size:18
Alignment explanation
Indices: 22600855--22600894 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
22600845 AATTAAACAC
*
22600855 TAATAAAAATGATCATAA
1 TAATAAAAATGATAATAA
*
22600873 TAATAATAATGATAATAA
1 TAATAAAAATGATAATAA
22600891 TAAT
1 TAAT
22600895 GAAATGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (18 bp):
TAATAAAAATGATAATAA
Found at i:22600887 original size:12 final size:12
Alignment explanation
Indices: 22600872--22600896 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22600862 AATGATCATA
22600872 ATAATAATAATG
1 ATAATAATAATG
22600884 ATAATAATAATG
1 ATAATAATAATG
22600896 A
1 A
22600897 AATGTATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:22601889 original size:28 final size:28
Alignment explanation
Indices: 22601835--22601889 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
22601825 AAGGGTTGTA
* *
22601835 AAAATAAAAAAAAACATAAAAATAAAAT
1 AAAATAAAAAAAAACACAAAAACAAAAT
* *
22601863 AAAATAAAACAAAACACAAGAACAAAA
1 AAAATAAAAAAAAACACAAAAACAAAA
22601890 AATATAAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.80, C:0.09, G:0.02, T:0.09
Consensus pattern (28 bp):
AAAATAAAAAAAAACACAAAAACAAAAT
Found at i:22603202 original size:90 final size:90
Alignment explanation
Indices: 22603049--22603227 Score: 340
Period size: 90 Copynumber: 2.0 Consensus size: 90
22603039 ACCAAATGAG
*
22603049 CACTTTCAAACTTAATCATGCTTCAACCTTTTTTCCTTTTGCACACAATGAGAAATGAGCTCATT
1 CACTTTCAAACTTAATCATGCTTCAACCTTTTTTCCTCTTGCACACAATGAGAAATGAGCTCATT
22603114 TAGAGTCTATTTCTCCTTTTGACAA
66 TAGAGTCTATTTCTCCTTTTGACAA
*
22603139 CACTTTCAGACTTAATCATGCTTCAACCTTTTTTCCTCTTGCACACAATGAGAAATGAGCTCATT
1 CACTTTCAAACTTAATCATGCTTCAACCTTTTTTCCTCTTGCACACAATGAGAAATGAGCTCATT
22603204 TAGAGTCTATTTCTCCTTTTGACA
66 TAGAGTCTATTTCTCCTTTTGACA
22603228 GTTGTAACTT
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.39
Consensus pattern (90 bp):
CACTTTCAAACTTAATCATGCTTCAACCTTTTTTCCTCTTGCACACAATGAGAAATGAGCTCATT
TAGAGTCTATTTCTCCTTTTGACAA
Found at i:22608756 original size:2 final size:2
Alignment explanation
Indices: 22608749--22608782 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22608739 NNNNNNNNNN
22608749 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22608783 AAAGAGGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22610559 original size:3 final size:3
Alignment explanation
Indices: 22610551--22610586 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
22610541 AAAGAAATTA
22610551 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22610587 TAGTTAATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22617253 original size:159 final size:153
Alignment explanation
Indices: 22616964--22617325 Score: 413
Period size: 159 Copynumber: 2.3 Consensus size: 153
22616954 ATGAAATTCG
* * * * * * **
22616964 ATCAGTTCTTGATACATGTATTCAACTCAGCCTCAACACGTATTTATAATGAAAGTTTATCATCT
1 ATCAGTTCATGATACATGCATTCAGCTCAGCCTCAGCACATATTTGTTGTGAAAGTTTATCATCT
* * * * *
22617029 TTATGCAGACGTTGATGTTGTCAAGCCTTCTTCCATCTTCCATCCGACCATGGTTGATCACGGAT
66 TTATGCAGACATTAATGATGTCAAGCCTACTCCCATCTTCCATCCGACCATGGTTGATCACGGAT
22617094 TTGATTTCCGCACTCAATGGCACATATCC
131 TTGATTTCCG---T-AA--GCACATATCC
* * *
22617123 ATCAGTTCATGAGACATGCATTCAGCTCAGCCTCAGCACATATTTGTTGTGAAATTTTTTCATCT
1 ATCAGTTCATGATACATGCATTCAGCTCAGCCTCAGCACATATTTGTTGTGAAAGTTTATCATCT
* * * **
22617188 TTATGCA-ACCATTAATGATGTCGATCCTACTCCCA-CTTCCAGTCTGACCATGGTTGATTGCGG
66 TTATGCAGA-CATTAATGATGTCAAGCCTACTCCCATCTTCCA-TCCGACCATGGTTGATCACGG
*
22617251 ATTTGATTTCCGTGAGCACATATCC
129 ATTTGATTTCCGTAAGCACATATCC
* **
22617276 ATCATTTCATGATACATGCATTCAGCAAAGCCTCAGCACATATTTGTTGT
1 ATCAGTTCATGATACATGCATTCAGCTCAGCCTCAGCACATATTTGTTGT
22617326 CCATAACCTT
Statistics
Matches: 175, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
153 56 0.32
155 1 0.01
156 1 0.01
158 7 0.04
159 110 0.63
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (153 bp):
ATCAGTTCATGATACATGCATTCAGCTCAGCCTCAGCACATATTTGTTGTGAAAGTTTATCATCT
TTATGCAGACATTAATGATGTCAAGCCTACTCCCATCTTCCATCCGACCATGGTTGATCACGGAT
TTGATTTCCGTAAGCACATATCC
Found at i:22618129 original size:2 final size:2
Alignment explanation
Indices: 22618122--22618147 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22618112 ATTTGAATCT
22618122 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
22618148 GGTTAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22619914 original size:22 final size:23
Alignment explanation
Indices: 22619876--22619919 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
22619866 TGATAACCTA
*
22619876 TAATCTATTTAATTATA-ATATG
1 TAATCTATCTAATTATATATATG
22619898 TAATCTATCT-ATCTATATATAT
1 TAATCTATCTAAT-TATATATAT
22619920 ATATGTGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.11
22 13 0.68
23 4 0.21
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (23 bp):
TAATCTATCTAATTATATATATG
Found at i:22635765 original size:115 final size:113
Alignment explanation
Indices: 22635541--22635766 Score: 362
Period size: 115 Copynumber: 2.0 Consensus size: 113
22635531 ATTTTTGGGT
* *
22635541 CAAAATTAAAATGCTTAAATTAAATTAGTACTTTTTTGAGGGGCCAAATTAAAAAAAATTAATTT
1 CAAAATTAAAATGCTTAAATTAAATTACTACTTTTTAGAGGGGCCAAATTAAAAAAAATTAATTT
* * *
22635606 GACCGAAGTCTAAAAAAGGTTAAATTGAATTTTTTTAAGTTTTGGGGC
66 GACCAAAGTCTAAAAAAGGTAAAATTGAATTTTTTTAAGGTTTGGGGC
* *
22635654 CAAAGTTAAAATGCTTAAATTAAATTACTACTTTTTAGAGGGGCCACAATTAAAAAAAAATTCAT
1 CAAAATTAAAATGCTTAAATTAAATTACTACTTTTTAGAGGGGCCA-AATT-AAAAAAAATTAAT
*
22635719 TTGACCAAAGTCTAAGAAAGGTAAAATTGAATTTTTTTAAGGTTTGGG
64 TTGACCAAAGTCTAAAAAAGGTAAAATTGAATTTTTTTAAGGTTTGGG
22635767 AGGGGCTAGA
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
113 43 0.42
114 4 0.04
115 56 0.54
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (113 bp):
CAAAATTAAAATGCTTAAATTAAATTACTACTTTTTAGAGGGGCCAAATTAAAAAAAATTAATTT
GACCAAAGTCTAAAAAAGGTAAAATTGAATTTTTTTAAGGTTTGGGGC
Found at i:22636308 original size:2 final size:2
Alignment explanation
Indices: 22636301--22636334 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22636291 TGGTCCTTAG
22636301 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22636335 CCCACACACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22638492 original size:19 final size:19
Alignment explanation
Indices: 22638465--22638515 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
22638455 AAAGCTTTAT
* *
22638465 TTTAATATTTTTCATAAGC
1 TTTACTATTTTTCACAAGC
*
22638484 TTTACTATTATTACACAAGC
1 TTTACTATT-TTTCACAAGC
*
22638504 TTTTCT-TTTTTC
1 TTTACTATTTTTC
22638516 TTTAACTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 3 0.12
19 10 0.38
20 13 0.50
ACGTcount: A:0.25, C:0.16, G:0.04, T:0.55
Consensus pattern (19 bp):
TTTACTATTTTTCACAAGC
Found at i:22644126 original size:17 final size:17
Alignment explanation
Indices: 22644100--22644137 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22644090 GAAAATGACT
*
22644100 TAAAAGTATA-TCAAATA
1 TAAAACTATATTCAAA-A
22644117 TAAAACTATATTCAAAA
1 TAAAACTATATTCAAAA
22644134 TAAA
1 TAAA
22644138 TATCGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (17 bp):
TAAAACTATATTCAAAA
Found at i:22644399 original size:12 final size:12
Alignment explanation
Indices: 22644382--22644424 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
22644372 CTCTTAAACC
22644382 TATTTAAATTAA
1 TATTTAAATTAA
22644394 TATTTATAATTAA
1 TATTTA-AATTAA
*
22644407 -ATTTTAAATAAA
1 TA-TTTAAATTAA
22644419 TATTTA
1 TATTTA
22644425 TTAATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATTTAAATTAA
Found at i:22654452 original size:12 final size:11
Alignment explanation
Indices: 22654419--22654452 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
22654409 ATTTAAAAAA
22654419 TAAAAAAAATT
1 TAAAAAAAATT
22654430 TAAGAAAAAATT
1 TAA-AAAAAATT
22654442 TAAAAATAAAT
1 TAAAAA-AAAT
22654453 AGCATGAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
TAAAAAAAATT
Found at i:22658731 original size:30 final size:30
Alignment explanation
Indices: 22658697--22658801 Score: 86
Period size: 31 Copynumber: 3.4 Consensus size: 30
22658687 CTTTAATTTT
*
22658697 TTTTTTAAAATTTCAATTAGACTTCTCAAA
1 TTTTTTAAAATTTTAATTAGACTTCTCAAA
* * * *
22658727 TTTTTTTGTAAATTTTAATTAAACCTCTAAAA
1 -TTTTTT-AAAATTTTAATTAGACTTCTCAAA
* * *
22658759 TTTTTGAAAGTTTTAATTAGAACTGC-CAAAA
1 TTTTTTAAAATTTTAATTAG-ACTTCTC-AAA
*
22658790 TTATTTAAAATT
1 TTTTTTAAAATT
22658802 CTCATTAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
30 11 0.20
31 26 0.46
32 19 0.34
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (30 bp):
TTTTTTAAAATTTTAATTAGACTTCTCAAA
Found at i:22658731 original size:32 final size:32
Alignment explanation
Indices: 22658657--22658763 Score: 92
Period size: 32 Copynumber: 3.3 Consensus size: 32
22658647 TTAACTCGAT
* *
22658657 TAAAATTCTTTTGTTAAATTCTC-ATTAAATCT-
1 TAAAATTTTTTTG-TAAATT-TCAATTAAACCTC
* * * * *
22658689 TTAATTTTTTTTTTAAAATTTCAATTAGACTTC
1 TAAAATTTTTTTGT-AAATTTCAATTAAACCTC
* *
22658722 TCAAATTTTTTTGTAAATTTTAATTAAACCTC
1 TAAAATTTTTTTGTAAATTTCAATTAAACCTC
22658754 TAAAATTTTT
1 TAAAATTTTT
22658764 GAAAGTTTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
31 3 0.05
32 44 0.76
33 11 0.19
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (32 bp):
TAAAATTTTTTTGTAAATTTCAATTAAACCTC
Found at i:22658790 original size:31 final size:30
Alignment explanation
Indices: 22658729--22658825 Score: 76
Period size: 31 Copynumber: 3.2 Consensus size: 30
22658719 TTCTCAAATT
*
22658729 TTTTTGTAAATTTTAATTAAACCTCTAAAA
1 TTTTTGTAAATTTTAATTAAACCTCCAAAA
22658759 TTTTTG-AAAGTTTTAATTAGAA-CTGCCAAAA
1 TTTTTGTAAA-TTTTAATTA-AACCT-CCAAAA
* * *
22658790 TTATTT-AAAATTCTCATTAAAACC-CTCAAAA
1 TT-TTTGTAAATTTTAATT-AAACCTC-CAAAA
22658821 TTTTT
1 TTTTT
22658826 AAAAATTTAG
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
29 3 0.05
30 21 0.38
31 24 0.43
32 8 0.14
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.43
Consensus pattern (30 bp):
TTTTTGTAAATTTTAATTAAACCTCCAAAA
Found at i:22669941 original size:14 final size:13
Alignment explanation
Indices: 22669914--22669938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22669904 AATAAATTAG
22669914 TTTTTTAAATAAT
1 TTTTTTAAATAAT
22669927 TTTTTTAAATAA
1 TTTTTTAAATAA
22669939 ATTAATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTTAAATAAT
Found at i:22669945 original size:21 final size:22
Alignment explanation
Indices: 22669921--22669962 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
22669911 TAGTTTTTTA
*
22669921 AATAATTTTTTTAAA-TAAATT
1 AATAATTTTTTAAAATTAAATT
22669942 AATAATTTTTTAAAATTAAAT
1 AATAATTTTTTAAAATTAAAT
22669963 GATTAAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATAATTTTTTAAAATTAAATT
Found at i:22672345 original size:356 final size:357
Alignment explanation
Indices: 22671680--22672393 Score: 1421
Period size: 356 Copynumber: 2.0 Consensus size: 357
22671670 TATAGTATTA
22671680 TATATTACTATAAATTTAATTTTTAGGTATTATAAAATTACATAATATATAAAAAGTAAAATAAT
1 TATATTACTATAAATTTAATTTTTAGGTATTATAAAATTACATAATATATAAAAAGTAAAATAAT
22671745 ATAATATATTACAAAATTTAGAAAATGGATTGGGTCAAACTCGAGCTGACGTATTATATAATATA
66 ATAATATATTACAAAATTTAGAAAATGGATTGGGTCAAACTCGAGCTGACGTATTATATAATATA
22671810 TTACACCCCATACCCAACTTGATCATTGGGTCAGACTCTCTTACTAATTGTTAGTTGTTCAAGGA
131 TTACACCCCATACCCAACTTGATCATTGGGTCAGACTCTCTTACTAATTGTTAGTTGTTCAAGGA
22671875 CTTAAGTATAAAGTTTCAATCTATCGAGTTGACGTTGCAACTTTGAGAATTCCACGTCGCAATGT
196 CTTAAGTATAAAGTTTCAATCTATCGAGTTGACGTTGCAACTTTGAGAATTCCACGTCGCAATGT
22671940 CATTCATTGACTTTGGCTCGTCGTGATGTGTGCTCTGTTTTCATGAAAACCATACTTTTCAATTT
261 CATTCATTGACTTTGGCTCGTCGTGATGTGTGCTCTGTTTTCATGAAAACCATACTTTTCAATTT
22672005 ACAACACCTAAATCAATACTTGTTTAGCACTT
326 ACAACACCTAAATCAATACTTGTTTAGCACTT
22672037 TATATTACTAT-AATTTAATTTTTAGGTATTATAAAATTACATAATATATAAAAAGTAAAATAAT
1 TATATTACTATAAATTTAATTTTTAGGTATTATAAAATTACATAATATATAAAAAGTAAAATAAT
22672101 ATAATATATTACAAAATTTAGAAAATGGATTGGGTCAAACTCGAGCTGACGTATTATATAATATA
66 ATAATATATTACAAAATTTAGAAAATGGATTGGGTCAAACTCGAGCTGACGTATTATATAATATA
22672166 TTACACCCCATACCCAACTTGATCATTGGGTCAGACTCTCTTACTAATTGTTAGTTGTTCAAGGA
131 TTACACCCCATACCCAACTTGATCATTGGGTCAGACTCTCTTACTAATTGTTAGTTGTTCAAGGA
22672231 CTTAAGTATAAAGTTTCAATCTATCGAGTTGACGTTGCAACTTTGAGAATTCCACGTCGCAATGT
196 CTTAAGTATAAAGTTTCAATCTATCGAGTTGACGTTGCAACTTTGAGAATTCCACGTCGCAATGT
22672296 CATTCATTGACTTTGGCTCGTCGTGATGTGTGCTCTGTTTTCATGAAAACCATACTTTTCAATTT
261 CATTCATTGACTTTGGCTCGTCGTGATGTGTGCTCTGTTTTCATGAAAACCATACTTTTCAATTT
22672361 ACAACACCTAAATCAATACTTGTTTAGCACTT
326 ACAACACCTAAATCAATACTTGTTTAGCACTT
22672393 T
1 T
22672394 TCAACCAATT
Statistics
Matches: 357, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
356 346 0.97
357 11 0.03
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (357 bp):
TATATTACTATAAATTTAATTTTTAGGTATTATAAAATTACATAATATATAAAAAGTAAAATAAT
ATAATATATTACAAAATTTAGAAAATGGATTGGGTCAAACTCGAGCTGACGTATTATATAATATA
TTACACCCCATACCCAACTTGATCATTGGGTCAGACTCTCTTACTAATTGTTAGTTGTTCAAGGA
CTTAAGTATAAAGTTTCAATCTATCGAGTTGACGTTGCAACTTTGAGAATTCCACGTCGCAATGT
CATTCATTGACTTTGGCTCGTCGTGATGTGTGCTCTGTTTTCATGAAAACCATACTTTTCAATTT
ACAACACCTAAATCAATACTTGTTTAGCACTT
Found at i:22672827 original size:11 final size:11
Alignment explanation
Indices: 22672811--22672835 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22672801 AATGAATTTA
22672811 ATTAAATGCTC
1 ATTAAATGCTC
22672822 ATTAAATGCTC
1 ATTAAATGCTC
22672833 ATT
1 ATT
22672836 TCCACTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (11 bp):
ATTAAATGCTC
Found at i:22674668 original size:3 final size:3
Alignment explanation
Indices: 22674660--22674684 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22674650 GTGGAATGGA
22674660 GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG GAG GAG G
22674685 CAACTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:22674781 original size:3 final size:3
Alignment explanation
Indices: 22674773--22674801 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22674763 GTGGAATGGA
22674773 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
22674802 AATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:22675340 original size:27 final size:27
Alignment explanation
Indices: 22675310--22675383 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
22675300 ATGAAATGCT
* *
22675310 CCGAAGAGCCACTATCATTAAGTTGCA
1 CCGAAGTGCCACTATCACTAAGTTGCA
* * *
22675337 CCGAAGTGCCTCTATCACTGATTTGCA
1 CCGAAGTGCCACTATCACTAAGTTGCA
* *
22675364 CCAAAGTGCCACAATCACTA
1 CCGAAGTGCCACTATCACTA
22675384 TATGCATTGA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (27 bp):
CCGAAGTGCCACTATCACTAAGTTGCA
Found at i:22678925 original size:36 final size:32
Alignment explanation
Indices: 22678882--22678969 Score: 133
Period size: 31 Copynumber: 2.7 Consensus size: 32
22678872 AATTTATATC
22678882 TACTATTTATATTATTGAATTAAATTTCATATTTTG
1 TACTATTTATATTATT-AATT---TTTCATATTTTG
22678918 TACTATTTATATTATTAA-TTTTCATATTTTG
1 TACTATTTATATTATTAATTTTTCATATTTTG
22678949 TACTATTTATATTATTAATTT
1 TACTATTTATATTATTAATTT
22678970 GTTTAATCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
31 30 0.59
32 2 0.04
34 1 0.02
35 2 0.04
36 16 0.31
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (32 bp):
TACTATTTATATTATTAATTTTTCATATTTTG
Found at i:22679106 original size:18 final size:19
Alignment explanation
Indices: 22679063--22679107 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
22679053 AGTATCAATT
*
22679063 TCACATTTTATTTTAAAAA
1 TCACATTTTATTTAAAAAA
*
22679082 T-AAATTTTA-TTAAAAAA
1 TCACATTTTATTTAAAAAA
22679099 TCACATTTT
1 TCACATTTT
22679108 TTACCTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 8 0.36
18 13 0.59
19 1 0.05
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (19 bp):
TCACATTTTATTTAAAAAA
Found at i:22679951 original size:15 final size:14
Alignment explanation
Indices: 22679908--22679964 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
22679898 AGGTAAATTA
*
22679908 CCTTTTCTTTCTTT
1 CCTTTTCTTTTTTT
*
22679922 CGTTCTTTCTTTTTTT
1 C-CT-TTTCTTTTTTT
*
22679938 TCTTTTCATTTTTTT
1 CCTTTTC-TTTTTTT
22679953 CCTTTT-TTTTTT
1 CCTTTTCTTTTTT
22679965 CTGTTTGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 6 0.17
14 5 0.14
15 14 0.40
16 10 0.29
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (14 bp):
CCTTTTCTTTTTTT
Found at i:22680872 original size:104 final size:102
Alignment explanation
Indices: 22680655--22680881 Score: 267
Period size: 104 Copynumber: 2.2 Consensus size: 102
22680645 AATCTTTGCC
* * * *
22680655 CTAGATACGAAAATTCAGGATCCTAGAGACAAATGTTTTAGGGAAAACAAAGAGTGTGTAATATA
1 CTAGATACGAAAA-TCAGGGTCCTAGAGACAAATATTTTAGGGAAAACAAAGAGTGTATAACATA
22680720 GGTTACAAACATTTGAACATTGATCGATGGTCAAGATT
65 GGTTACAAACATTTGAACATTGATCGATGGTCAAGATT
* * * * * * *
22680758 CAAAAAACGAAAATCAGGGTCCTGGTGATAAATATTTTAGGGAAAACTAAGAGTTTGTATAACAT
1 CTAGATACGAAAATCAGGGTCCTAGAGACAAATATTTTAGGGAAAACAAAGAG--TGTATAACAT
* ** * *
22680823 AGGTTACAATCATTTGAATGTTGATCGATGTTCAAAGCTT
64 AGGTTACAAACATTTGAACATTGATCGATGGTC-AAGATT
22680863 -TAGATACGAAAATCAGGGT
1 CTAGATACGAAAATCAGGGT
22680882 TTGAGCAATA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
102 34 0.33
103 10 0.10
104 53 0.52
105 5 0.05
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.28
Consensus pattern (102 bp):
CTAGATACGAAAATCAGGGTCCTAGAGACAAATATTTTAGGGAAAACAAAGAGTGTATAACATAG
GTTACAAACATTTGAACATTGATCGATGGTCAAGATT
Found at i:22686679 original size:8 final size:8
Alignment explanation
Indices: 22686660--22686692 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
22686650 TCTTTTATAA
22686660 TTTGATTTT
1 TTTGA-TTT
22686669 TTTGATTT
1 TTTGATTT
22686677 TTTGA-TT
1 TTTGATTT
22686684 TTTGATTT
1 TTTGATTT
22686692 T
1 T
22686693 ACTTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 11 0.48
9 5 0.22
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TTTGATTT
Found at i:22688578 original size:13 final size:13
Alignment explanation
Indices: 22688546--22688586 Score: 73
Period size: 13 Copynumber: 3.1 Consensus size: 13
22688536 GGATCAAGTG
22688546 AGAATATCTAAAA
1 AGAATATCTAAAA
22688559 TAGAATATCTAAAA
1 -AGAATATCTAAAA
22688573 AGAATATCTAAAA
1 AGAATATCTAAAA
22688586 A
1 A
22688587 TGGATGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.52
14 13 0.48
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.24
Consensus pattern (13 bp):
AGAATATCTAAAA
Found at i:22713673 original size:8 final size:8
Alignment explanation
Indices: 22713654--22713686 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
22713644 TCTTTTATAA
22713654 TTTGATTTT
1 TTTGA-TTT
22713663 TTTGATTT
1 TTTGATTT
22713671 TTTGA-TT
1 TTTGATTT
22713678 TTTGATTT
1 TTTGATTT
22713686 T
1 T
22713687 ACTTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 11 0.48
9 5 0.22
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TTTGATTT
Found at i:22715546 original size:13 final size:13
Alignment explanation
Indices: 22715528--22715554 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22715518 GGATCAAGTG
22715528 AGAATATCTAAAA
1 AGAATATCTAAAA
22715541 AGAATATCTAAAA
1 AGAATATCTAAAA
22715554 A
1 A
22715555 TGGATGAAGC
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:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (13 bp):
AGAATATCTAAAA
Found at i:22717299 original size:13 final size:13
Alignment explanation
Indices: 22717281--22717347 Score: 89
Period size: 13 Copynumber: 5.2 Consensus size: 13
22717271 AGTTCTTCAT
22717281 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
22717294 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
** *
22717307 TGCAATGGAAAAG
1 TGCTTTTGAAAAG
*
22717320 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
22717333 TTCTTTTGAAAAG
1 TGCTTTTGAAAAG
22717346 TG
1 TG
22717348 GTTTAAAATT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:22718717 original size:20 final size:21
Alignment explanation
Indices: 22718692--22718732 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22718682 CCCCTTCTGA
22718692 CTTAGGTAC-ATTTACTTGTT
1 CTTAGGTACAATTTACTTGTT
22718712 CTTAGGTACAATTTACTTGTT
1 CTTAGGTACAATTTACTTGTT
22718733 TTTCTATCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.49
Consensus pattern (21 bp):
CTTAGGTACAATTTACTTGTT
Found at i:22721145 original size:277 final size:265
Alignment explanation
Indices: 22720650--22721193 Score: 944
Period size: 277 Copynumber: 2.0 Consensus size: 265
22720640 TGACAAAGAA
22720650 TATGATGCGACAGCTGCATCACCAGTAACAGTAGAACCCTGCAAAACATATAACTTGGTAGTCTT
1 TATGATGCGACAGCTGCATCACCAGTAACAGTAGAACCCTGCAAAACATATAACTTGGTAGTCTT
* *
22720715 TCTTTGCCCTTTCATCACAACGAGGGAACCTTTGGAAATTTTTAAAACCTCACTTTCAGCTGTCT
66 TCTCTGCCCTTTCATCACAACGAGGGAACCTTTGGAAATTTTTAAAACCTCACTTTCAGCTATCT
22720780 ATTTGTACCCTTTTGAATCAAGTGTACTCAACGAAATTAAATTTCTCTTCAATTCTAGAACATGT
131 ATTTGTACCCTTTTGAATCAAGTGTACTCAACGAAATTAAATTTCTCTTCAATTCTAGAACATGT
22720845 CGTACGTCACTAAGTGTTTTGACAACTCCATCAAACATCTTAACTTTAATTGTTCCAACACCTAT
196 CGTACGTCACTAAGTGTTTTGACAACTCCATCAAACATCTTAACTTTAATTGTTCCAACACCTAT
22720910 AATTC
261 AATTC
22720915 TNNNNNNNNNNNNATGATGCGACAGCTGCATCACCAGTAACAGTAGAACCCTGCAAAACATATAA
1 T------------ATGATGCGACAGCTGCATCACCAGTAACAGTAGAACCCTGCAAAACATATAA
22720980 CTTGGTAGTCTTTCTCTGCCCTTTCATCACAACGAGGGAACCTTTGGAAATTTTTAAAACCTCAC
54 CTTGGTAGTCTTTCTCTGCCCTTTCATCACAACGAGGGAACCTTTGGAAATTTTTAAAACCTCAC
* *
22721045 TTTCAGTTATGTATTTGTACCCTTTTGAATCAAGTGTACTCAACGAAATTAAATTTCTCTTCAAT
119 TTTCAGCTATCTATTTGTACCCTTTTGAATCAAGTGTACTCAACGAAATTAAATTTCTCTTCAAT
22721110 TCTAGAACATGTCGTACGTCACTAAGTGTTTTGACAACTCCATCAAACATCTTAACTTTAATTGT
184 TCTAGAACATGTCGTACGTCACTAAGTGTTTTGACAACTCCATCAAACATCTTAACTTTAATTGT
22721175 TCCAACACCTATAATTC
249 TCCAACACCTATAATTC
22721192 TA
1 TA
22721194 CATGAAGCAT
Statistics
Matches: 263, Mismatches: 4, Indels: 24
0.90 0.01 0.08
Matches are distributed among these distances:
265 2 0.01
277 261 0.99
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.33
Consensus pattern (265 bp):
TATGATGCGACAGCTGCATCACCAGTAACAGTAGAACCCTGCAAAACATATAACTTGGTAGTCTT
TCTCTGCCCTTTCATCACAACGAGGGAACCTTTGGAAATTTTTAAAACCTCACTTTCAGCTATCT
ATTTGTACCCTTTTGAATCAAGTGTACTCAACGAAATTAAATTTCTCTTCAATTCTAGAACATGT
CGTACGTCACTAAGTGTTTTGACAACTCCATCAAACATCTTAACTTTAATTGTTCCAACACCTAT
AATTC
Found at i:22722189 original size:277 final size:277
Alignment explanation
Indices: 22721695--22722247 Score: 1079
Period size: 277 Copynumber: 2.0 Consensus size: 277
22721685 ATCAACTGTG
22721695 AGAGACTCGCGGCTATATAAAATCGTATCTTTAAAGGTCGAATAAGACGGGGGCAACGAACAAAG
1 AGAGACTCGCGGCTATATAAAATCGTATCTTTAAAGGTCGAATAAGACGGGGGCAACGAACAAAG
22721760 TAGAATCAACCCTAAATCTTCCTTATCATACTGAACCTCCATGGCCTCCAAGTTTGAGAAAATTT
66 TAGAATCAACCCTAAATCTTCCTTATCATACTGAACCTCCATGGCCTCCAAGTTTGAGAAAATTT
22721825 CTTTAAACACTGTTAAGTGTTCGTGCACAGATGCACCTTCCTCCAAATGATGAGCATAAAGATGC
131 CTTTAAACACTGTTAAGTGTTCGTGCACAGATGCACCTTCCTCCAAATGATGAGCATAAAGATGC
22721890 TACTTCATATGCAACTTGCTAGTTAGATTTTTCACATACATATTTGTTCCAACTTCTTCCATAAT
196 TACTTCATATGCAACTTGCTAGTTAGATTTTTCACATACATATTTGTTCCAACTTCTTCCATAAT
22721955 CTAGCGACGGTCTTCCC
261 CTAGCGACGGTCTTCCC
22721972 AGAGACTCGCGGCTATATAAAATCGTATCTTTAAAGGTCGAATAAGACGGGGGCAACGAACAAAG
1 AGAGACTCGCGGCTATATAAAATCGTATCTTTAAAGGTCGAATAAGACGGGGGCAACGAACAAAG
22722037 TAGAATCAACCCTAAATCTTCCTTATCATACTGAACCTCCATGGCCTCCAAGTTTGAGAAAATTT
66 TAGAATCAACCCTAAATCTTCCTTATCATACTGAACCTCCATGGCCTCCAAGTTTGAGAAAATTT
22722102 CTTTAAACACTGTTAAGTGTTCGTGCACAGATGCACCTTCCTCCAAATGATGAGCATAAAGATGC
131 CTTTAAACACTGTTAAGTGTTCGTGCACAGATGCACCTTCCTCCAAATGATGAGCATAAAGATGC
* *
22722167 TGCTTCATATGCAACTTGCTAGTTAGATTTTTCACATACATATTTGTTCCAACTTCTTCTATAAT
196 TACTTCATATGCAACTTGCTAGTTAGATTTTTCACATACATATTTGTTCCAACTTCTTCCATAAT
*
22722232 CTAGCGGCGGTCTTCC
261 CTAGCGACGGTCTTCC
22722248 AATTTATCAC
Statistics
Matches: 273, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
277 273 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (277 bp):
AGAGACTCGCGGCTATATAAAATCGTATCTTTAAAGGTCGAATAAGACGGGGGCAACGAACAAAG
TAGAATCAACCCTAAATCTTCCTTATCATACTGAACCTCCATGGCCTCCAAGTTTGAGAAAATTT
CTTTAAACACTGTTAAGTGTTCGTGCACAGATGCACCTTCCTCCAAATGATGAGCATAAAGATGC
TACTTCATATGCAACTTGCTAGTTAGATTTTTCACATACATATTTGTTCCAACTTCTTCCATAAT
CTAGCGACGGTCTTCCC
Found at i:22723536 original size:24 final size:24
Alignment explanation
Indices: 22723503--22723549 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
22723493 CTACTTTGTA
22723503 TTTTTCTTTT-ATAATTTGATTTTT
1 TTTTTCTTTTGAT-ATTTGATTTTT
* *
22723527 TTTTTTTTTTGATTTTTGATTTT
1 TTTTTCTTTTGATATTTGATTTT
22723550 ACTTTTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (24 bp):
TTTTTCTTTTGATATTTGATTTTT
Found at i:22728801 original size:19 final size:19
Alignment explanation
Indices: 22728772--22728820 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
22728762 GTCCCTCTAC
22728772 TTTGTATTTTTCTTTT-ATAA
1 TTTG-ATTTTT-TTTTGATAA
**
22728792 TTTGATTTTTTTTTGATTT
1 TTTGATTTTTTTTTGATAA
22728811 TTTGATTTTT
1 TTTGATTTTT
22728821 GATTTTACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 18 0.69
20 4 0.15
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTGATTTTTTTTTGATAA
Found at i:22742101 original size:6 final size:6
Alignment explanation
Indices: 22742085--22742144 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
22742075 TTATGCCTAA
*
22742085 AAAAAC AAAAAAC AAAAAC AAAAAC AAAAA- AGAAAAC AAAAA- AGAAAAG
1 AAAAAC -AAAAAC AAAAAC AAAAAC AAAAAC A-AAAAC AAAAAC A-AAAAC
*
22742134 AAAAAG AAAAA
1 AAAAAC AAAAA
22742145 TCAAGATGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
5 2 0.04
6 39 0.80
7 8 0.16
ACGTcount: A:0.85, C:0.08, G:0.07, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:22742109 original size:19 final size:18
Alignment explanation
Indices: 22742085--22742144 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
22742075 TTATGCCTAA
22742085 AAAAACAAAAAACAAAAAC
1 AAAAACAAAAAA-AAAAAC
*
22742104 AAAAACAAAAAAGAAAAC
1 AAAAACAAAAAAAAAAAC
* *
22742122 AAAAA-AGAAAAGAAAAAG
1 AAAAACA-AAAAAAAAAAC
22742140 AAAAA
1 AAAAA
22742145 TCAAGATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.85, C:0.08, G:0.07, T:0.00
Consensus pattern (18 bp):
AAAAACAAAAAAAAAAAC
Found at i:22742144 original size:17 final size:17
Alignment explanation
Indices: 22742099--22742137 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
22742089 ACAAAAAACA
*
22742099 AAAACAAAAACAAAAAAG
1 AAAACAAAAA-AGAAAAG
22742117 AAAACAAAAAAGAAAAG
1 AAAACAAAAAAGAAAAG
22742134 AAAA
1 AAAA
22742138 AGAAAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAACAAAAAAGAAAAG
Found at i:22743106 original size:77 final size:77
Alignment explanation
Indices: 22743003--22743631 Score: 595
Period size: 79 Copynumber: 8.1 Consensus size: 77
22742993 TTTGTCTCTT
**
22743003 AAAAATCAACTCATATTGTAAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTC
*
22743068 TGTTTTTCAAAA
66 TATTTTTCAAAA
* * * *
22743080 AAAAATTAACTCTTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTA----TTTTC
22743145 AATTTCTATTTTTC----
60 AATTTCTATTTTTCAAAA
* *
22743159 AAAAATCAAATCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTC
*
22743224 TGTTTTTCAAAA
66 TATTTTTCAAAA
* * * *
22743236 AAAAATTAACTCTTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTA----TTTTC
22743301 AATTTCTATTTTTC----
60 AATTTCTATTTTTCAAAA
* * * *
22743315 AAAAATCAAATCATAATGCGAGAGGTGAGTTGAGCCCCAGGCCG-CACGCCGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG--GTCACGCTGAGGTATTTTCAAT
****
22743379 TTCTATATTTT-TTTT
63 TTCTAT-TTTTCAAAA
* * * * * *
22743394 TAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCGGGCCGCATGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--TCACGCTGAGGTATTTTCAATT
*
22743459 TCTGTTATTTTCAAAAA
64 TCT-AT-TTTTC-AAAA
* **
22743476 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCCAAGGTATTTTCTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTT-TCAATT
* *
22743541 TATGTTTTTC----
64 TCTATTTTTCAAAA
* * * *
22743551 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAAG-CATGCTGAGGCATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGTCACGCTGAGGTATTTTCAATTT
22743615 CTATTTTTCAAAA
65 CTATTTTTCAAAA
22743628 AAAA
1 AAAA
22743632 CAATAATAAA
Statistics
Matches: 460, Mismatches: 55, Indels: 74
0.78 0.09 0.13
Matches are distributed among these distances:
73 31 0.07
74 3 0.01
75 59 0.13
76 6 0.01
77 90 0.20
78 2 0.00
79 162 0.35
80 22 0.05
81 4 0.01
82 47 0.10
83 34 0.07
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (77 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTC
TATTTTTCAAAA
Found at i:22743273 original size:156 final size:156
Alignment explanation
Indices: 22743003--22743588 Score: 681
Period size: 156 Copynumber: 3.7 Consensus size: 156
22742993 TTTGTCTCTT
* * *
22743003 AAAAATCAACTCATATTG-TAAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTT
1 AAAAATCAAATCATATTGCGAA-AGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTCAATTT
* * *
22743067 CTGTTTTTCAAAAAAAAATTAACTCTTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGA
65 CTGTTTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGA
22743132 GGTATTTCTTTTAAATTTCTATTTTTC
130 GGTATTTCTTTTAAATTTCTATTTTTC
*
22743159 AAAAATCAAATCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAAATCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTCAATTTC
* * *
22743224 TGTTTTTCAAAAAAAAATTAACTCTTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAG
66 TGTTTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAG
22743289 GTATTTCTTTTAAATTTCTATTTTTC
131 GTATTTCTTTTAAATTTCTATTTTTC
* * *
22743315 AAAAATCAAATCATAATGCGAGAGGTGAGTTGAGCCCCAGGCCG-CACGCCGAGGTATTTTCAAT
1 AAAAATCAAATCATATTGCGAAAGGTGAGTTGAGCCTC-GG--GTCACGCCGAGGTATTTTCAAT
* ***** * * * * *
22743379 TTCTATATTTT-TTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCGGGCCGCATGC
63 TTCTGT-TTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCACACGC
* * *
22743443 CGAGGTA----TTTTCAATTTCTGTTATTTTC
127 TGAGGTATTTCTTTTAAATTTCT-AT-TTTTC
* * * *
22743471 AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCCAAGGTATTTTCT
1 -----AAAAATCAAATCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA-TTT-T
*
22743536 CAATTTATGTTTTTC----AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
59 CAATTTCTGTTTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
22743589 GAAGCATGCT
Statistics
Matches: 383, Mismatches: 31, Indels: 31
0.86 0.07 0.07
Matches are distributed among these distances:
154 11 0.03
155 1 0.00
156 191 0.50
157 40 0.10
158 71 0.19
159 16 0.04
160 9 0.02
161 44 0.11
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (156 bp):
AAAAATCAAATCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTCAATTTC
TGTTTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAG
GTATTTCTTTTAAATTTCTATTTTTC
Found at i:22743769 original size:5 final size:5
Alignment explanation
Indices: 22743759--22743822 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
22743749 GTAGTTCATG
* * *
22743759 TTTTA TTTTA TTTTA TTTTA TCTTA TTTTA TATATA TGTATTT TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA T-T-TTA TTTTA
*
22743807 TTGTTA TATTA TTTTA
1 TT-TTA TTTTA TTTTA
22743823 AATTATGATT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
5 35 0.74
6 10 0.21
7 2 0.04
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:22743821 original size:34 final size:31
Alignment explanation
Indices: 22743769--22743834 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 31
22743759 TTTTATTTTA
* *
22743769 TTTTATTTTATCTTATTTTATATATATGTATTT
1 TTTTATTTTATATTATTTTAAAT-TATG-ATTT
22743802 TTTTATTGTTATATTATTTTAAATTATGATTT
1 TTTTATT-TTATATTATTTTAAATTATGATTT
22743834 T
1 T
22743835 CTGGGCCGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 5 0.17
33 11 0.37
34 14 0.47
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.68
Consensus pattern (31 bp):
TTTTATTTTATATTATTTTAAATTATGATTT
Found at i:22744143 original size:29 final size:29
Alignment explanation
Indices: 22744109--22744177 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
22744099 AATATTTTGT
*
22744109 AAATTACATTTAGGCCCTAAACTTTCTAG
1 AAATTACATTTAGGCCCCAAACTTTCTAG
** * * *
22744138 AAATTACATTTTTGCCCCATATTTTCTTG
1 AAATTACATTTAGGCCCCAAACTTTCTAG
22744167 AAATTACATTT
1 AAATTACATTT
22744178 TTACCCCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (29 bp):
AAATTACATTTAGGCCCCAAACTTTCTAG
Found at i:22744690 original size:9 final size:9
Alignment explanation
Indices: 22744672--22744735 Score: 60
Period size: 9 Copynumber: 7.0 Consensus size: 9
22744662 GGTTCGGCCC
*
22744672 GAAGAGAAA
1 GAAGAAAAA
22744681 GAAGAAAAA
1 GAAGAAAAA
22744690 GAGAGAAGAAA
1 GA-AGAA-AAA
*
22744701 -AAGAGAAA
1 GAAGAAAAA
22744709 GAA-AAGAAA
1 GAAGAA-AAA
22744718 GAAGAAAAA
1 GAAGAAAAA
*
22744727 AAAGAAAAA
1 GAAGAAAAA
22744736 ATATATATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 4 0.09
9 32 0.70
10 7 0.15
11 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
GAAGAAAAA
Found at i:22744698 original size:13 final size:13
Alignment explanation
Indices: 22744680--22744726 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
22744670 CCGAAGAGAA
22744680 AGAAGAAAAAGAG
1 AGAAGAAAAAGAG
22744693 AGAAGAAAAAGAG
1 AGAAGAAAAAGAG
*
22744706 A-AAG-AAAAGAA
1 AGAAGAAAAAGAG
22744717 AGAAGAAAAA
1 AGAAGAAAAA
22744727 AAAGAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 7 0.23
12 6 0.19
13 18 0.58
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAGAG
Found at i:22744718 original size:28 final size:27
Alignment explanation
Indices: 22744673--22744731 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
22744663 GTTCGGCCCG
*
22744673 AAGAGAAAGAAGAAAAAGAGAGAAGAAA
1 AAGAGAAAGAAGAAAAAGA-AGAAAAAA
22744701 AAGAGAAAGAA-AAGAAAGAAGAAAAAA
1 AAGAGAAAGAAGAA-AAAGAAGAAAAAA
22744728 AAGA
1 AAGA
22744732 AAAAATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (27 bp):
AAGAGAAAGAAGAAAAAGAAGAAAAAA
Found at i:22745589 original size:19 final size:18
Alignment explanation
Indices: 22745567--22745766 Score: 140
Period size: 18 Copynumber: 10.9 Consensus size: 18
22745557 TTTGTTTTTT
*
22745567 AAAAATTTTCATGTTTCA
1 AAAAATTTTCGTGTTTCA
** * * *
22745585 AAAAAAATTCTTGTGTCT
1 AAAAATTTTCGTGTTTCA
*
22745603 AAAAATTTTCGCGTTTTCA
1 AAAAATTTTCGTG-TTTCA
22745622 AAAAATTTTCGTGTTTCA
1 AAAAATTTTCGTGTTTCA
* *
22745640 AAAAATTTTCGCGTTTTAA
1 AAAAATTTTCGTG-TTTCA
*
22745659 AAAAAATTTCGTGTTTCA
1 AAAAATTTTCGTGTTTCA
*
22745677 AAAAA-TCTCGTGTTTTCAAA
1 AAAAATTTTCGTG-TTTC--A
* **
22745697 AAAAGATTCTCGCATTTC-
1 AAAA-ATTTTCGTGTTTCA
22745715 AAAAA-TTTCGTGTTTTCA
1 AAAAATTTTCGTG-TTTCA
*
22745733 AAAATTATTATCGTG-TT-A
1 AAAA--ATTTTCGTGTTTCA
*
22745751 CAAAATTTTCGTGTTT
1 AAAAATTTTCGTGTTT
22745767 TTAAAAAAAT
Statistics
Matches: 143, Mismatches: 26, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
16 12 0.08
17 13 0.09
18 64 0.45
19 32 0.22
20 6 0.04
21 11 0.08
22 5 0.03
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.41
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTCA
Found at i:22745621 original size:37 final size:37
Alignment explanation
Indices: 22745566--22745775 Score: 175
Period size: 37 Copynumber: 5.7 Consensus size: 37
22745556 ATTTGTTTTT
* *
22745566 TAAAAATTTTCATG-TTTCAAAAAAAATTCTTGTGTC
1 TAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTC
* *
22745602 TAAAAATTTTCGCGTTTTC--AAAAAATTTTCGTGTTTC
1 TAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTG--TC
* * *
22745639 AAAAAATTTTCGCGTTTT-AAAAAAAATT-TCGTGTT
1 TAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTC
* * *
22745674 TCAAAAAATCTCGTGTTTTCAAAAAAAGATTCTCGCATTTC
1 T-AAAAATTTTCGTGTTTTCAAAAAAA-ATTCTCG--TGTC
** *
22745715 -AAAAA-TTTCGTGTTTTCAAAAATTATTATCGTGT-
1 TAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTC
*
22745749 TACAAAATTTTCGTGTTTTTAAAAAAA
1 TA-AAAATTTTCGTGTTTTCAAAAAAA
22745776 TCCCGTGTTT
Statistics
Matches: 140, Mismatches: 20, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
35 16 0.11
36 30 0.21
37 57 0.41
38 27 0.19
39 8 0.06
41 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (37 bp):
TAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTC
Found at i:22745662 original size:55 final size:54
Alignment explanation
Indices: 22745551--22745774 Score: 158
Period size: 55 Copynumber: 4.1 Consensus size: 54
22745541 AAAAAAAAGA
* * ** ** *
22745551 AAAAAATTT-GT-TTTT-TAAAAATTTTCATGTTTCAAAAAAAATTCTTGTGTCT
1 AAAAAATTTCGTGTTTTCAAAAAATTTTCGTGTTTCAAAAAATTTTCGCGT-TTT
* *
22745603 AAAAATTTTCGCGTTTTCAAAAAATTTTCGTGTTTCAAAAAATTTTCGCGTTTT
1 AAAAAATTTCGTGTTTTCAAAAAATTTTCGTGTTTCAAAAAATTTTCGCGTTTT
* * *
22745657 AAAAAAAATTTCGTG-TTTCAAAAAA-TCTCGTGTTTTCAAAAAAAGATTCTCGC-ATTT
1 --AAAAAATTTCGTGTTTTCAAAAAATTTTCGTG-TTTC--AAAAA-ATTTTCGCGTTTT
* * * *
22745714 CAAAAATTTCGTGTTTTCAAAAATTATTATCGTG-TT-ACAAAATTTTCGTGTTTTT
1 AAAAAATTTCGTGTTTTCAAAAA--ATTTTCGTGTTTCAAAAAATTTTCGCG-TTTT
22745769 AAAAAA
1 AAAAAA
22745775 ATCCCGTGTT
Statistics
Matches: 136, Mismatches: 21, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
52 8 0.06
53 7 0.05
54 16 0.12
55 61 0.45
56 20 0.15
57 10 0.07
58 8 0.06
59 6 0.04
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (54 bp):
AAAAAATTTCGTGTTTTCAAAAAATTTTCGTGTTTCAAAAAATTTTCGCGTTTT
Found at i:22749180 original size:27 final size:28
Alignment explanation
Indices: 22749133--22749185 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
22749123 TAAATTATCT
**
22749133 TTGAGTTTTTCTTTTTCAAGAATTTTTC
1 TTGAGTTTTTCTTTTAAAAGAATTTTTC
*
22749161 TTGAG-TTTTCTTTTAAAAGAGTTTT
1 TTGAGTTTTTCTTTTAAAAGAATTTT
22749186 AACAACCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (28 bp):
TTGAGTTTTTCTTTTAAAAGAATTTTTC
Found at i:22750423 original size:16 final size:16
Alignment explanation
Indices: 22750402--22750441 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
22750392 CCAAAATAAA
*
22750402 CCAAACTTGAAATGAT
1 CCAAACTCGAAATGAT
* *
22750418 CTAAACTCGAATTGAT
1 CCAAACTCGAAATGAT
22750434 CCAAACTC
1 CCAAACTC
22750442 AAAACGATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (16 bp):
CCAAACTCGAAATGAT
Found at i:22750553 original size:32 final size:31
Alignment explanation
Indices: 22750507--22750651 Score: 84
Period size: 32 Copynumber: 4.6 Consensus size: 31
22750497 ATCTAAACTC
*
22750507 AAAATAACCCAAATTTAAAAATGACACGAAT
1 AAAATAACCTAAATTTAAAAATGACACGAAT
* * * *
22750538 AAAAATTACCTAAA-TTCAAAATTAAACTGAACT
1 -AAAATAACCTAAATTTAAAAATGACAC-GAA-T
* * ***
22750571 AAAATAACTTGAAATTTTTAAAAT---TTTAA-
1 AAAATAACCT-AAA-TTTAAAAATGACACGAAT
*
22750600 AAAATAACCCAAATTTAAAAATGACACGAAT
1 AAAATAACCTAAATTTAAAAATGACACGAAT
* *
22750631 AAAAATTACCTAAATTCAAAA
1 -AAAATAACCTAAATTTAAAA
22750652 TTAAACTGAA
Statistics
Matches: 83, Mismatches: 20, Indels: 20
0.67 0.16 0.16
Matches are distributed among these distances:
27 8 0.10
28 3 0.04
29 8 0.10
30 2 0.02
31 12 0.14
32 39 0.47
33 4 0.05
35 7 0.08
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (31 bp):
AAAATAACCTAAATTTAAAAATGACACGAAT
Found at i:22750615 original size:93 final size:93
Alignment explanation
Indices: 22750507--22750692 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
22750497 ATCTAAACTC
22750507 AAAATAACCCAAATTTAAAAATGACACGAATAAAAATTACCTAAATTCAAAATTAAACTGAACTA
1 AAAATAACCCAAATTTAAAAATGACACGAATAAAAATTACCTAAATTCAAAATTAAACTGAACTA
22750572 AAATAACTTGAAATTTTTAAAATTTTAA
66 AAATAACTTGAAATTTTTAAAATTTTAA
22750600 AAAATAACCCAAATTTAAAAATGACACGAATAAAAATTACCTAAATTCAAAATTAAACTGAACTA
1 AAAATAACCCAAATTTAAAAATGACACGAATAAAAATTACCTAAATTCAAAATTAAACTGAACTA
22750665 AAATAACTTGAAATTTTTAAAATTTTAA
66 AAATAACTTGAAATTTTTAAAATTTTAA
22750693 TTAATATGAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (93 bp):
AAAATAACCCAAATTTAAAAATGACACGAATAAAAATTACCTAAATTCAAAATTAAACTGAACTA
AAATAACTTGAAATTTTTAAAATTTTAA
Found at i:22751781 original size:2 final size:2
Alignment explanation
Indices: 22751774--22751801 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22751764 ATAAGATTTC
22751774 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22751802 GTAATAGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22752966 original size:3 final size:3
Alignment explanation
Indices: 22752958--22752982 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22752948 GATAAGTACA
22752958 AGC AGC AGC AGC AGC AGC AGC AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC A
22752983 ACGGCAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:22753420 original size:30 final size:31
Alignment explanation
Indices: 22753364--22753425 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
22753354 TGAAAGTTGT
* *
22753364 CCAAAATATTATTTTTCAATTTTTAAGGTGTC
1 CCAAAATAATATTTTTCAACTTTTAAGG-GTC
22753396 CCAAAA-AATATTTTT-AACTTTTAAGGGTC
1 CCAAAATAATATTTTTCAACTTTTAAGGGTC
22753425 C
1 C
22753426 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 10 0.36
31 8 0.29
32 6 0.21
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.42
Consensus pattern (31 bp):
CCAAAATAATATTTTTCAACTTTTAAGGGTC
Found at i:22753480 original size:15 final size:15
Alignment explanation
Indices: 22753462--22753490 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22753452 CTTTAAAAAA
22753462 AAAGTTTTCTCTAAG
1 AAAGTTTTCTCTAAG
22753477 AAAGTTTTCTCTAA
1 AAAGTTTTCTCTAA
22753491 CTTTTAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (15 bp):
AAAGTTTTCTCTAAG
Found at i:22757529 original size:20 final size:19
Alignment explanation
Indices: 22757506--22757551 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
22757496 CTCTTTTTTT
22757506 TTAAAGACCTAATTTTTATG
1 TTAAA-ACCTAATTTTTATG
*
22757526 TTAAAACTTAATTTTTATG
1 TTAAAACCTAATTTTTATG
22757545 TTAAAAC
1 TTAAAAC
22757552 TCAATTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (19 bp):
TTAAAACCTAATTTTTATG
Found at i:22757537 original size:19 final size:19
Alignment explanation
Indices: 22757515--22757559 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
22757505 TTTAAAGACC
22757515 TAATTTTTATGTTAAAACT
1 TAATTTTTATGTTAAAACT
22757534 TAATTTTTATGTTAAAACT
1 TAATTTTTATGTTAAAACT
*
22757553 CAATTTT
1 TAATTTT
22757560 AGAGTCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (19 bp):
TAATTTTTATGTTAAAACT
Found at i:22764898 original size:17 final size:17
Alignment explanation
Indices: 22764876--22764911 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
22764866 TTGAAAACCG
22764876 TGCTAGATAAATACACA
1 TGCTAGATAAATACACA
*
22764893 TGCTAGATAAATACCCA
1 TGCTAGATAAATACACA
22764910 TG
1 TG
22764912 TTCAAGACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (17 bp):
TGCTAGATAAATACACA
Found at i:22767970 original size:10 final size:10
Alignment explanation
Indices: 22767955--22767984 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
22767945 TACTTGCATA
22767955 ACTTTTATAT
1 ACTTTTATAT
22767965 ACTTTTATAT
1 ACTTTTATAT
*
22767975 ACATTTATAT
1 ACTTTTATAT
22767985 TTTATATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (10 bp):
ACTTTTATAT
Found at i:22768003 original size:17 final size:17
Alignment explanation
Indices: 22767961--22768004 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
22767951 CATAACTTTT
22767961 ATATAC-TTTTATATAC
1 ATATACATTTTATATAC
* * *
22767977 ATTTATATTTTATATAG
1 ATATACATTTTATATAC
22767994 ATATACATTTT
1 ATATACATTTT
22768005 TGTAATATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:22770253 original size:13 final size:13
Alignment explanation
Indices: 22770237--22770266 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22770227 TTGTATTGCA
*
22770237 TGTTTGATTTTCT
1 TGTTTGATTTCCT
22770250 TGTTTGATTTCCT
1 TGTTTGATTTCCT
22770263 TGTT
1 TGTT
22770267 AGACATGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.10, G:0.17, T:0.67
Consensus pattern (13 bp):
TGTTTGATTTCCT
Found at i:22771118 original size:5 final size:5
Alignment explanation
Indices: 22771108--22771184 Score: 65
Period size: 5 Copynumber: 15.6 Consensus size: 5
22771098 AAAAAAATAT
* *
22771108 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA TTATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA -TATTA
22771154 -A-TA TATTA TATTA TATTA TA-TA TATATA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT-TA TAT
22771185 CAAAAGAAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.13
5 31 0.52
6 16 0.27
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:22771160 original size:19 final size:19
Alignment explanation
Indices: 22771136--22771184 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
22771126 ATTATGTTTT
22771136 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
22771155 TATATTATATTATATTATA
1 TATATTATATTATATTATA
22771174 TATATATATAT
1 TATAT-TATAT
22771185 CAAAAGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:22772743 original size:45 final size:45
Alignment explanation
Indices: 22772678--22772782 Score: 158
Period size: 45 Copynumber: 2.3 Consensus size: 45
22772668 ATGCGCCGAC
* * *
22772678 TACTGTTACTGTTACTGATTC-GATACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAATACTGT
*
22772723 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
22772768 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
22772783 TGCTACCGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
Found at i:22772773 original size:6 final size:6
Alignment explanation
Indices: 22772762--22772803 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
22772752 GTGTGTTGAA
* *
22772762 TACTGT TACTGT TACTGT TACTGC TACCGT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG
22772804 ATCAGGTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:22777078 original size:16 final size:16
Alignment explanation
Indices: 22777057--22777092 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
22777047 TTGAATTGCT
22777057 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
22777073 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
22777089 ATTA
1 ATTA
22777093 TGGCGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:22777268 original size:80 final size:80
Alignment explanation
Indices: 22777137--22777296 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
22777127 TCAATTGAAT
*
22777137 TTTTTTTAATTTTTTTATCCTTAAACCTTAAATTTATAAGTAGATTTTTAAAAGAAATTGTAATT
1 TTTTTTTAATATTTTTATCCTTAAACCTTAAATTTATAAGTAGATTTTTAAAAGAAATTGTAATT
22777202 AAGACGATTTTTTAA
66 AAGACGATTTTTTAA
*
22777217 TTTTTTTACTATTTTTATCCTTAAACCTTAAATTTATAAGTAGATTTTTAAAAGAAATTGTAATT
1 TTTTTTTAATATTTTTATCCTTAAACCTTAAATTTATAAGTAGATTTTTAAAAGAAATTGTAATT
22777282 AAGACGATTTTTTAA
66 AAGACGATTTTTTAA
22777297 ATAAAAAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (80 bp):
TTTTTTTAATATTTTTATCCTTAAACCTTAAATTTATAAGTAGATTTTTAAAAGAAATTGTAATT
AAGACGATTTTTTAA
Found at i:22777883 original size:17 final size:15
Alignment explanation
Indices: 22777862--22777896 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22777852 GTGAAACTGT
* *
22777862 ATATATAATAATATA
1 ATATATAAAAAAATA
22777877 ATATATAAAAAAATA
1 ATATATAAAAAAATA
22777892 ATATA
1 ATATA
22777897 GAAATTAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATATAAAAAAATA
Found at i:22777940 original size:22 final size:22
Alignment explanation
Indices: 22777914--22777959 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
22777904 GGAACTATCA
* *
22777914 TCGGTAATAGTAACTAATTCTT
1 TCGGTAACAATAACTAATTCTT
22777936 TCGGTAACAATAACTAATTCTT
1 TCGGTAACAATAACTAATTCTT
22777958 TC
1 TC
22777960 ATTACGAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (22 bp):
TCGGTAACAATAACTAATTCTT
Found at i:22778885 original size:30 final size:32
Alignment explanation
Indices: 22778850--22778931 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 32
22778840 TTATATATTT
22778850 AGAATTTAGTCCATTTTAC-TTTCAT-TTTCA
1 AGAATTTAGTCCATTTTACTTTTCATATTTCA
* *
22778880 AGAATTTATTCC-CTTTACTTTTCATATTTCA
1 AGAATTTAGTCCATTTTACTTTTCATATTTCA
* *
22778911 AAAATTCAAGTCCAATTTTAC
1 AGAATT-TAGTCC-ATTTTAC
22778932 CATAACTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 5 0.12
30 17 0.41
31 10 0.24
32 4 0.10
34 5 0.12
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.46
Consensus pattern (32 bp):
AGAATTTAGTCCATTTTACTTTTCATATTTCA
Found at i:22785734 original size:20 final size:20
Alignment explanation
Indices: 22785709--22785748 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22785699 CCCTTGGTCT
22785709 CCTTTTTCTTTTAGTTTTCG
1 CCTTTTTCTTTTAGTTTTCG
22785729 CCTTTTTCTTTTAGTTTTCG
1 CCTTTTTCTTTTAGTTTTCG
22785749 TTTCTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.20, G:0.10, T:0.65
Consensus pattern (20 bp):
CCTTTTTCTTTTAGTTTTCG
Found at i:22786107 original size:3 final size:3
Alignment explanation
Indices: 22786099--22786125 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22786089 GGTGCATCAA
22786099 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
22786126 ATTTTTGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:22791059 original size:27 final size:27
Alignment explanation
Indices: 22791029--22791082 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
22791019 GTTATGTGTG
*
22791029 TAATTACAAGTAATTATAATAAATTAC
1 TAATCACAAGTAATTATAATAAATTAC
** *
22791056 TAATCACGTGTAATTATAATTAATTAC
1 TAATCACAAGTAATTATAATAAATTAC
22791083 ATCTAAATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (27 bp):
TAATCACAAGTAATTATAATAAATTAC
Found at i:22793125 original size:24 final size:24
Alignment explanation
Indices: 22793098--22793151 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
22793088 AATCAAAGTC
* *
22793098 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
22793122 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
22793146 AAATAT
1 AAATAT
22793152 TCTAGAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:22796164 original size:2 final size:2
Alignment explanation
Indices: 22796157--22796184 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22796147 TAAAAACAAC
22796157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22796185 TAAATCTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22798784 original size:24 final size:25
Alignment explanation
Indices: 22798751--22798797 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
22798741 TTATTTATTT
*
22798751 ATTTCATAATATAATAATTAATATA
1 ATTTCATAATATAATAATAAATATA
*
22798776 ATTT-ATAATTTAATAATAAATA
1 ATTTCATAATATAATAATAAATA
22798798 AAACCTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTTCATAATATAATAATAAATATA
Found at i:22800772 original size:24 final size:24
Alignment explanation
Indices: 22800730--22800781 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
22800720 AATCAAAGTC
** *
22800730 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
22800754 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
22800778 AAAT
1 AAAT
22800782 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:22803186 original size:29 final size:29
Alignment explanation
Indices: 22803119--22803193 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
22803109 TTTAATTAAA
*
22803119 AAAATCAAAGTTG-G-GGTCAAAATTCAAT
1 AAAATAAAAGTTGAGTGGT-AAAATTCAAT
* *
22803147 AAAATTTAAAGTTTAGTGGTAAAATTCAAT
1 AAAA-TAAAAGTTGAGTGGTAAAATTCAAT
22803177 AACAA-AAAAGTTGAGTG
1 AA-AATAAAAGTTGAGTG
22803194 TATATTTTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 4 0.10
29 17 0.44
30 13 0.33
31 5 0.13
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (29 bp):
AAAATAAAAGTTGAGTGGTAAAATTCAAT
Found at i:22805344 original size:71 final size:71
Alignment explanation
Indices: 22805228--22805363 Score: 186
Period size: 71 Copynumber: 1.9 Consensus size: 71
22805218 ATGATTTCAT
* * * *
22805228 ACATATTTTTCGGTTTTATCGACTAGCGTAGAGCGCATCTATTGTCGGTTATACCGA-TCAGTGC
1 ACATATTTTTCGGTTCTACCGACCAGCGTAGAGCGCATCTATTGTCAGTTATACCGACT-AGTGC
22805292 TGGACAG
65 TGGACAG
* *
22805299 ACATATTTGTT-GGTTCTACCGACCAGCGTAGGGCGCATTTATTGTCAGTTATACCGACTAGTGC
1 ACATATTT-TTCGGTTCTACCGACCAGCGTAGAGCGCATCTATTGTCAGTTATACCGACTAGTGC
22805363 T
65 T
22805364 AGGCACACTC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 54 0.95
72 3 0.05
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (71 bp):
ACATATTTTTCGGTTCTACCGACCAGCGTAGAGCGCATCTATTGTCAGTTATACCGACTAGTGCT
GGACAG
Found at i:22806516 original size:4 final size:4
Alignment explanation
Indices: 22806507--22806580 Score: 148
Period size: 4 Copynumber: 18.5 Consensus size: 4
22806497 TGTAACAATG
22806507 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
22806555 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
22806581 TCCTTAATTC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 70 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:22810487 original size:19 final size:18
Alignment explanation
Indices: 22810458--22810517 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
22810448 AAATATCGAA
22810458 AAATTCAAAAAATATATAT
1 AAATTC-AAAAATATATAT
* * *
22810477 AATTTTTAAAATTATATTAT
1 AA-ATTCAAAAATATA-TAT
*
22810497 AAATTCAAAAATATATCT
1 AAATTCAAAAATATATAT
22810515 AAA
1 AAA
22810518 AGTTAAGGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
18 5 0.16
19 20 0.62
20 7 0.22
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTCAAAAATATATAT
Found at i:22815051 original size:2 final size:2
Alignment explanation
Indices: 22815044--22815068 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22815034 TTTTCTCTTT
22815044 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22815069 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22815210 original size:25 final size:25
Alignment explanation
Indices: 22815157--22815211 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
22815147 CGATTTGATC
* *
22815157 AAATAAATTATTTAAAAAATTCATAA
1 AAATAAAATATTTAAAAAA-TCAGAA
22815183 AAATAAAATATTTAAAAAA-CAGAGA
1 AAATAAAATATTTAAAAAATCAGA-A
22815208 AAAT
1 AAAT
22815212 CAATTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.12
25 5 0.19
26 18 0.69
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (25 bp):
AAATAAAATATTTAAAAAATCAGAA
Found at i:22815729 original size:27 final size:28
Alignment explanation
Indices: 22815664--22815736 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 28
22815654 ACTTGTGACG
22815664 AAAAAATTTAGGTACCAACTTTGAAGCAA
1 AAAAAATTTAGGTACC-ACTTTGAAGCAA
** * *
22815693 AATTAGTTTAGGTACCAC-TTGTAA-TAA
1 AAAAAATTTAGGTACCACTTTG-AAGCAA
*
22815720 AAAAAATTTAAGTACCA
1 AAAAAATTTAGGTACCA
22815737 AGATGGGAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
27 18 0.51
28 4 0.11
29 13 0.37
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (28 bp):
AAAAAATTTAGGTACCACTTTGAAGCAA
Found at i:22816108 original size:31 final size:31
Alignment explanation
Indices: 22816074--22816131 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
22816064 TTTTATACTT
22816074 TTTTTA-ATACTTTTT-AATTTTTAAAAATAA
1 TTTTTATATA-TTTTTAAATTTTTAAAAATAA
22816104 TTTTTATATATTTTTAAATTTTTAAAAA
1 TTTTTATATATTTTTAAATTTTTAAAAA
22816132 ATTCCAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTTATATATTTTTAAATTTTTAAAAATAA
Found at i:22816515 original size:6 final size:6
Alignment explanation
Indices: 22816504--22816528 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22816494 ATATTTTCTA
22816504 TAAATT TAAATT TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
22816529 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:22816905 original size:416 final size:417
Alignment explanation
Indices: 22816134--22816967 Score: 1661
Period size: 416 Copynumber: 2.0 Consensus size: 417
22816124 TTTAAAAAAT
22816134 TCCAAAGTTAATTAAATGTTGATGTGTCATCCACGTGGTGATCTATGTGTATACCATATCAACAA
1 TCCAAAGTTAATTAAATGTTGATGTGTCATCCACGTGGTGATCTATGTGTATACCATATCAACAA
22816199 TGTTAAAAAGAAGTTTACTTTTTTATCCATTTTGAGGTGATTTGATAAAAATATAAATTTAAAGA
66 TGTTAAAAAGAAGTTTACTTTTTTATCCATTTTGAGGTGATTTGATAAAAATATAAATTTAAAGA
22816264 CTCAAAAGATAAAAAATTAAATAAAAAACTAAAATAAATTTGTTTTGTAAAATTAAAAGATAAAT
131 CTCAAAAGATAAAAAATTAAATAAAAAACTAAAATAAATTTGTTTTGTAAAATTAAAAGATAAAT
22816329 AAATCATTATGCTTTTAATAAAAAAAAAAACTGCGAACCTTCCGGTAAAGGTGGGGACAAAGTAG
196 AAATCATTATGCTTTTAATAAAAAAAAAAACTGCGAACCTTCCGGTAAAGGTGGGGACAAAGTAG
22816394 GCCAAATCGTGCCAAAAAGCAATAAAAAAATACAAATTACTTACTAAATATATAATTTTTAATTT
261 GCCAAATCGTGCCAAAAAGCAATAAAAAAATACAAATTACTTACTAAATATATAATTTTTAATTT
22816459 GGGTTTCTTTTCGTTATCTATTGACCAAATCCTTTATATTTTCTATAAATTTAAATTTAAATTTA
326 GGGTTTCTTTTCGTTATCTATTGACCAAATCCTTTATATTTTCTATAAATTTAAATTTAAATTTA
22816524 AATTTTTTATTTTTTT-AAAAATTCTA
391 AATTTTTTATTTTTTTAAAAAATTCTA
22816550 TCCAAAGTTAATTAAATGTTGATGTGTCATCCACGTGGTGATCTATGTGTATACCATATCAACAA
1 TCCAAAGTTAATTAAATGTTGATGTGTCATCCACGTGGTGATCTATGTGTATACCATATCAACAA
22816615 TGTTAAAAAGAAGTTTACTTTTTTATCCATTTTGAGGTGATTTGATAAAAATATAAATTTAAAGA
66 TGTTAAAAAGAAGTTTACTTTTTTATCCATTTTGAGGTGATTTGATAAAAATATAAATTTAAAGA
22816680 CTCAAAAGATAAAAAATTAAATAAAAAACTAAAATAAATTTGTTTTGTAAAATTAAAAGATAAAT
131 CTCAAAAGATAAAAAATTAAATAAAAAACTAAAATAAATTTGTTTTGTAAAATTAAAAGATAAAT
22816745 AAATCATTATGCTTTTAATAAAAAAAAAAACTGCGAACCTTCCGGTAAAGGTGGGGACAAAGTAG
196 AAATCATTATGCTTTTAATAAAAAAAAAAACTGCGAACCTTCCGGTAAAGGTGGGGACAAAGTAG
22816810 GCCAAATCGTGCCAAAAAGCAATAAAAAAATACAAATTACTTACTAAATATATAATTTTTAATTT
261 GCCAAATCGTGCCAAAAAGCAATAAAAAAATACAAATTACTTACTAAATATATAATTTTTAATTT
22816875 GGGTTTCTTTTCGTTATCTATTGACCAAATCCTTTATATTTTCTATAAATTTAAATTTAAATTTA
326 GGGTTTCTTTTCGTTATCTATTGACCAAATCCTTTATATTTTCTATAAATTTAAATTTAAATTTA
22816940 AATTTTTTATTTTTTTAAAAAATTCTA
391 AATTTTTTATTTTTTTAAAAAATTCTA
22816967 T
1 T
22816968 TTACTTTTCA
Statistics
Matches: 417, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
416 406 0.97
417 11 0.03
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (417 bp):
TCCAAAGTTAATTAAATGTTGATGTGTCATCCACGTGGTGATCTATGTGTATACCATATCAACAA
TGTTAAAAAGAAGTTTACTTTTTTATCCATTTTGAGGTGATTTGATAAAAATATAAATTTAAAGA
CTCAAAAGATAAAAAATTAAATAAAAAACTAAAATAAATTTGTTTTGTAAAATTAAAAGATAAAT
AAATCATTATGCTTTTAATAAAAAAAAAAACTGCGAACCTTCCGGTAAAGGTGGGGACAAAGTAG
GCCAAATCGTGCCAAAAAGCAATAAAAAAATACAAATTACTTACTAAATATATAATTTTTAATTT
GGGTTTCTTTTCGTTATCTATTGACCAAATCCTTTATATTTTCTATAAATTTAAATTTAAATTTA
AATTTTTTATTTTTTTAAAAAATTCTA
Found at i:22816931 original size:6 final size:6
Alignment explanation
Indices: 22816920--22816944 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22816910 ATATTTTCTA
22816920 TAAATT TAAATT TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
22816945 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:22817490 original size:17 final size:18
Alignment explanation
Indices: 22817463--22817517 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
22817453 ATTGAACCTG
22817463 TTTAATAATTTTTTTTAAT
1 TTTAAT-ATTTTTTTTAAT
* *
22817482 TTT-ATATTTTTATGAAT
1 TTTAATATTTTTTTTAAT
* *
22817499 TTTAATAATTTATTTAAT
1 TTTAATATTTTTTTTAAT
22817517 T
1 T
22817518 ATTTTTACTC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 13 0.45
18 13 0.45
19 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTAATATTTTTTTTAAT
Done.