Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 152 of 295
Found at i:47732750 original size:22 final size:21
Alignment explanation
Indices: 47732712--47732752 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
47732702 ATTATTATAA
**
47732712 AACAAAGAGAATTATAGAATG
1 AACAAAGAGAAGAATAGAATG
47732733 AACAAGAGAGAAGAATAGAA
1 AACAA-AGAGAAGAATAGAA
47732753 AAATGAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.61, C:0.05, G:0.22, T:0.12
Consensus pattern (21 bp):
AACAAAGAGAAGAATAGAATG
Found at i:47733648 original size:396 final size:394
Alignment explanation
Indices: 47732882--47733671 Score: 1143
Period size: 396 Copynumber: 2.0 Consensus size: 394
47732872 GGGTTATAAA
* * *
47732882 AGTTACAAGAAAATGAATTCTTCGAGATTATGACAGTTATATGGACATCAATTTTGCAACACTCC
1 AGTTACAAGAAAATGAATTATTCGAGATTATGACAGTTATATAGACATCAATTTTACAACACTCC
* * * *
47732947 TCATTGGATGCCCATCAATGAAAGCGTGTCTCGTTAAAACCTTATAGGAAAAACCATGTGGGCTA
66 TCATTGGATGCCCATCAATGAAAGCGTGCCTCATTAAAACCTTATAAGAAAAACCATGTGGGATA
* *
47733012 AAAACCTAATGAAGGAAAAAATTTCAAAATCTCCTATTACAAGTTGTCTCGTTAAAATCCTTTAC
131 AAAACCTAATGAAGGAAAAAAGTTCAAAATCTCCAATTACAAGTTGTCTCGTTAAAATCCTTTAC
* **
47733077 CAGGAAAACACAGTGGGACAAAACCTTGGTTAAATAAAAGAGTGCAACGCATGTTTGACTCTTCT
196 CAGGAAAACACAGTGGGACAAAACCTTGGTTAAATAAAAGAGTGCAACGCATATTTGACTCCCCT
* * * ** * * *
47733142 TAATAACAATATTACATTATATCTTTGAGTTGACGCGTTCTAATGTCTACACGTTGGAGAATAAC
261 TAATAACAACATCACATTACATCTTTGAGTCAACGCATTCTAATGTCTACACGTCGGAGAAAAAC
* * * *
47733207 TAAATCTTGCTAACAAGTTTACAATGAAAGCTATAGCAGGTCTTGTGTTGTTTGCACGATACATC
326 TAAACCTTACTAACAAGTTTACAATGAAAGCTATAGCAAGTCTTGTGTTGTTTGCAAGATACATC
47733272 AATG
391 AATG
* * ** *
47733276 AGTTACAAGAAAATGAATTATTCGGGGTTATGGGAGTTATATAGATATTC-ATTTTACAACACTC
1 AGTTACAAGAAAATGAATTATTCGAGATTATGACAGTTATATAGACA-TCAATTTTACAACACTC
* *
47733340 CTC-TTGGATGTCCATCAATGAAAGTGTGCCTCATTAAAACCTTATTAAGAAAAACCATGTGGGA
65 CTCATTGGATGCCCATCAATGAAAGCGTGCCTCATTAAAACCTTA-TAAGAAAAACCATGTGGGA
*
47733404 TAAAAACCTAATGAAGGAAAAAGAGTTCAAAATCTCCAATTACAAGTTGTCTCGTTAAAATCTTT
129 TAAAAACCTAATGAAGGAAAAA-AGTTCAAAATCTCCAATTACAAGTTGTCTCGTTAAAATCCTT
* * **
47733469 TACCAGGAAAACCCAGTGGGACAAAACCTTGGTTAAATAAAAAGAGTGCAATGTGTATTTGACTC
193 TACCAGGAAAACACAGTGGGACAAAACCTTGGTTAAAT-AAAAGAGTGCAACGCATATTTGACTC
* **
47733534 CCCTTAATAACAACATCACATTACATCTTTGAGTCAACGCATTTTAATGTCTACGTGTCGGAGAA
257 CCCTTAATAACAACATCACATTACATCTTTGAGTCAACGCATTCTAATGTCTACACGTCGGAGAA
* * * *
47733599 AAACTAAACCTTACTAATAAGTTTATAGTGAAAGCTATATCAAGTCTTGTGTTGTTTGCAAGATA
322 AAACTAAACCTTACTAACAAGTTTACAATGAAAGCTATAGCAAGTCTTGTGTTGTTTGCAAGATA
47733664 CATCAATG
387 CATCAATG
47733672 CCCTTATGGC
Statistics
Matches: 349, Mismatches: 43, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
393 37 0.11
394 95 0.27
395 78 0.22
396 139 0.40
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (394 bp):
AGTTACAAGAAAATGAATTATTCGAGATTATGACAGTTATATAGACATCAATTTTACAACACTCC
TCATTGGATGCCCATCAATGAAAGCGTGCCTCATTAAAACCTTATAAGAAAAACCATGTGGGATA
AAAACCTAATGAAGGAAAAAAGTTCAAAATCTCCAATTACAAGTTGTCTCGTTAAAATCCTTTAC
CAGGAAAACACAGTGGGACAAAACCTTGGTTAAATAAAAGAGTGCAACGCATATTTGACTCCCCT
TAATAACAACATCACATTACATCTTTGAGTCAACGCATTCTAATGTCTACACGTCGGAGAAAAAC
TAAACCTTACTAACAAGTTTACAATGAAAGCTATAGCAAGTCTTGTGTTGTTTGCAAGATACATC
AATG
Found at i:47736076 original size:12 final size:12
Alignment explanation
Indices: 47735979--47736082 Score: 53
Period size: 12 Copynumber: 9.0 Consensus size: 12
47735969 TTATTTTAAT
47735979 ATATTTAATATTA
1 ATATTTAAT-TTA
47735992 A-ATTTAATTTA
1 ATATTTAATTTA
*
47736003 ATACTT-ATCTTA
1 ATATTTAAT-TTA
*
47736015 ATA-GT-ATTT-
1 ATATTTAATTTA
47736024 -TA-TTAATTTA
1 ATATTTAATTTA
* * *
47736034 ATATTAAAGTGA
1 ATATTTAATTTA
*
47736046 TTATCTTAATATTA
1 ATAT-TTAAT-TTA
47736060 A-ATTTAATTTA
1 ATATTTAATTTA
*
47736071 ATATTTATTTTA
1 ATATTTAATTTA
47736083 TAGATAAATA
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 2 0.03
11 15 0.21
12 38 0.54
13 6 0.09
14 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (12 bp):
ATATTTAATTTA
Found at i:47736179 original size:58 final size:60
Alignment explanation
Indices: 47736053--47736187 Score: 143
Period size: 58 Copynumber: 2.3 Consensus size: 60
47736043 TGATTATCTT
* * * *
47736053 AATATTAAATTTAATTTAATATTTATTTTATAGATAAATATTCTATTAATATAATAGATTT
1 AATATTAAATTTAATCTAATATTTATTCTATAGATAAATATTATATTAATATAATA-ATTG
* * *
47736114 AATATTAATTTTAATCTAATATTTA-TCT-T-GATAAGTATTATATTAATTTAAT-ATTG
1 AATATTAAATTTAATCTAATATTTATTCTATAGATAAATATTATATTAATATAATAATTG
*
47736170 AAGTGATTAAGTTTAATC
1 AA-T-ATTAAATTTAATC
47736188 ATAGTTGAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 32 0.50
59 1 0.02
60 2 0.03
61 23 0.36
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (60 bp):
AATATTAAATTTAATCTAATATTTATTCTATAGATAAATATTATATTAATATAATAATTG
Found at i:47739308 original size:22 final size:21
Alignment explanation
Indices: 47739283--47739326 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
47739273 TATAATAATT
47739283 ATTTA-ATATAATTATAATATAA
1 ATTTATATAT-ATTATAAT-TAA
*
47739305 ATTTATTTATATTATAATTAA
1 ATTTATATATATTATAATTAA
47739326 A
1 A
47739327 GGTTGACATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTATATATATTATAATTAA
Found at i:47739407 original size:21 final size:18
Alignment explanation
Indices: 47739392--47739432 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
47739382 TATATTGTAT
47739392 TAATTTAAAAACATATTA
1 TAATTTAAAAACATATTA
47739410 TAATTT-AAAA-ATATTA
1 TAATTTAAAAACATATTA
*
47739426 TTATTTA
1 TAATTTA
47739433 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.52
17 4 0.19
18 6 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTTAAAAACATATTA
Found at i:47739423 original size:16 final size:16
Alignment explanation
Indices: 47739392--47739437 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
47739382 TATATTGTAT
47739392 TAATTTAAAAACATATTA
1 TAATTT-AAAA-ATATTA
47739410 TAATTTAAAAATATTA
1 TAATTTAAAAATATTA
* *
47739426 TTATTTACAAAT
1 TAATTTAAAAAT
47739438 TTAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 16 0.62
17 4 0.15
18 6 0.23
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATTTAAAAATATTA
Found at i:47739427 original size:19 final size:19
Alignment explanation
Indices: 47739363--47739429 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 19
47739353 GTAAAATCTA
47739363 ATTATTATAATTTTAAAATTAT
1 ATTATTATAA-TTTAAAA--AT
* *
47739385 ATT-GTATTAATTTAAAAAC
1 ATTATTA-TAATTTAAAAAT
47739404 A-TATTATAATTTAAAAAT
1 ATTATTATAATTTAAAAAT
47739422 ATTATTAT
1 ATTATTAT
47739430 TTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
18 13 0.34
19 10 0.26
21 9 0.24
22 6 0.16
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
ATTATTATAATTTAAAAAT
Found at i:47742007 original size:72 final size:72
Alignment explanation
Indices: 47741890--47742033 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
47741880 ACACTATCAG
47741890 CAAATCATTCTCATGCTATGTTTTATCCCTTCCTAATTTATGTTGGTTGAATTTGGAAAGGAGGA
1 CAAATCATTCTCATGCTATGTTTTATCCCTTCCTAATTTATGTTGGTTGAATTTGGAAAGGAGGA
47741955 GGAGTGA
66 GGAGTGA
47741962 CAAATCATTCTCATGCTATGTTTTATCCCTTCCTAATTTATGTTGGTTGAATTTGGAAAGGAGGA
1 CAAATCATTCTCATGCTATGTTTTATCCCTTCCTAATTTATGTTGGTTGAATTTGGAAAGGAGGA
47742027 GGAGTGA
66 GGAGTGA
47742034 GGATTGGCAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (72 bp):
CAAATCATTCTCATGCTATGTTTTATCCCTTCCTAATTTATGTTGGTTGAATTTGGAAAGGAGGA
GGAGTGA
Found at i:47765820 original size:23 final size:22
Alignment explanation
Indices: 47765784--47765841 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
47765774 TATTATGTTC
* *
47765784 TTATTATTATTCTTGTCATTAT
1 TTATTTTTATTCTTGTAATTAT
* *
47765806 TATTTTTTTATTCTTTTAATTAT
1 T-TATTTTTATTCTTGTAATTAT
47765829 TTATTTTTATTCT
1 TTATTTTTATTCT
47765842 ATTGGTTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.71
Consensus pattern (22 bp):
TTATTTTTATTCTTGTAATTAT
Found at i:47767394 original size:6 final size:6
Alignment explanation
Indices: 47767381--47767444 Score: 83
Period size: 6 Copynumber: 10.3 Consensus size: 6
47767371 GTCTGATTAT
* * *
47767381 TTTTTA TGTTTA TGTTTA TCTTTA TTTTTA TCTTTTA TCTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA T-TTTTA TTTTTA
47767431 TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TT
47767445 CTTTTTGTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
6 41 0.76
7 13 0.24
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:47767424 original size:26 final size:26
Alignment explanation
Indices: 47767395--47767449 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
47767385 TATGTTTATG
47767395 TTTATCTTTATTTTTATCTTTTA-TCT
1 TTTATCTTTATTTTTAT-TTTTATTCT
*
47767421 TTTATTTTTATTTTTATTTTTATTCT
1 TTTATCTTTATTTTTATTTTTATTCT
47767447 TTT
1 TTT
47767450 TGTTATGTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTATCTTTATTTTTATTTTTATTCT
Found at i:47767455 original size:18 final size:19
Alignment explanation
Indices: 47767377--47767455 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 19
47767367 TTGAGTCTGA
* *
47767377 TTATTTTTTATGTTTA-TG
1 TTATCTTTTATTTTTATTG
*
47767395 TTTATC-TTTATTTTTATCTT
1 -TTATCTTTTATTTTTAT-TG
*
47767415 TTATCTTTTATTTTTATTT
1 TTATCTTTTATTTTTATTG
47767434 TTAT-TTTTATTCTTT-TTG
1 TTATCTTTTATT-TTTATTG
47767452 TTAT
1 TTAT
47767456 GTCTATTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
18 22 0.42
19 18 0.35
20 12 0.23
ACGTcount: A:0.15, C:0.05, G:0.04, T:0.76
Consensus pattern (19 bp):
TTATCTTTTATTTTTATTG
Found at i:47771287 original size:10 final size:10
Alignment explanation
Indices: 47771274--47771333 Score: 68
Period size: 10 Copynumber: 6.1 Consensus size: 10
47771264 AATTGTAAAA
*
47771274 AATAAAAATC
1 AATAAAAATT
47771284 AAT-AAAATT
1 AATAAAAATT
*
47771293 TATAAAAATT
1 AATAAAAATT
* *
47771303 ATTAAAATTT
1 AATAAAAATT
*
47771313 AATAAAAAAT
1 AATAAAAATT
47771323 AATAAAAATT
1 AATAAAAATT
47771333 A
1 A
47771334 GAATAAAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
9 7 0.17
10 33 0.82
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (10 bp):
AATAAAAATT
Found at i:47771299 original size:19 final size:19
Alignment explanation
Indices: 47771274--47771329 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
47771264 AATTGTAAAA
47771274 AATAAAAATCAATAAAATTT
1 AATAAAAAT-AATAAAATTT
*
47771294 -ATAAAAATTATTAAAATTT
1 AATAAAAA-TAATAAAATTT
47771313 AATAAAAAATAATAAAA
1 AAT-AAAAATAATAAAA
47771330 ATTAGAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 16 0.52
20 10 0.32
21 5 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAAAATAATAAAATTT
Found at i:47771338 original size:22 final size:21
Alignment explanation
Indices: 47771296--47771369 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 21
47771286 TAAAATTTAT
* * *
47771296 AAAAATTATTAAAATTTAATA
1 AAAAATAATAAAAATTGAATA
47771317 AAAAATAATAAAAATTAGAAT-
1 AAAAATAATAAAAATT-GAATA
* *
47771338 -AAAAT-ATAAAAATCGTA-A
1 AAAAATAATAAAAATTGAATA
*
47771356 AAAAATAAAAAAAA
1 AAAAATAATAAAAA
47771370 ATTGTAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.05
19 13 0.30
20 11 0.26
21 14 0.33
22 3 0.07
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (21 bp):
AAAAATAATAAAAATTGAATA
Found at i:47771378 original size:29 final size:29
Alignment explanation
Indices: 47771338--47771418 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 29
47771328 AAATTAGAAT
*
47771338 AAAA-TATAAAAATCGTAAAAAAATAAAAA
1 AAAATTAT-AAAATCATAAAAAAATAAAAA
* ** * * *
47771367 AAAATTGTAAAATTTTATAAAAATCATAA
1 AAAATTATAAAATCATAAAAAAATAAAAA
47771396 AAAATTATAAAATACATAAAAAA
1 AAAATTATAAAAT-CATAAAAAA
47771419 TGCTCTCTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
29 32 0.80
30 8 0.20
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (29 bp):
AAAATTATAAAATCATAAAAAAATAAAAA
Found at i:47771413 original size:19 final size:19
Alignment explanation
Indices: 47771314--47771419 Score: 72
Period size: 19 Copynumber: 5.5 Consensus size: 19
47771304 TTAAAATTTA
* *
47771314 ATAAAAAATAATAAAAATT
1 ATAAAAAATTATAAAAATC
*
47771333 AGAATAAAA-TATAAAAATC
1 ATAA-AAAATTATAAAAATC
* * * *
47771352 GTAAAAAAATAAAAAAAAATT
1 AT-AAAAAAT-TATAAAAATC
* **
47771373 GTAAAATTTTATAAAAATC
1 ATAAAAAATTATAAAAATC
47771392 ATAAAAAATTAT-AAAATAC
1 ATAAAAAATTATAAAAAT-C
47771411 ATAAAAAAT
1 ATAAAAAAT
47771420 GCTCTCTAGT
Statistics
Matches: 66, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
18 5 0.08
19 41 0.62
20 11 0.17
21 9 0.14
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
ATAAAAAATTATAAAAATC
Found at i:47771605 original size:10 final size:10
Alignment explanation
Indices: 47771586--47771739 Score: 56
Period size: 10 Copynumber: 15.9 Consensus size: 10
47771576 TTTTGGTACG
47771586 ATAA-TTTTT
1 ATAATTTTTT
47771595 ATAATTTTTT
1 ATAATTTTTT
47771605 ATTAA--TTTT
1 A-TAATTTTTT
47771614 AT-ATTTCTTT
1 ATAATTT-TTT
* *
47771624 ACATTTTTTT
1 ATAATTTTTT
47771634 ATAATTTTCTT
1 ATAATTTT-TT
**
47771645 AT--TACTTT
1 ATAATTTTTT
* ** *
47771653 AAAAAATTTC
1 ATAATTTTTT
47771663 ATAATTTTTT
1 ATAATTTTTT
* *
47771673 -TCTATATTTT
1 AT-AATTTTTT
47771683 ATAATTTTTT
1 ATAATTTTTT
***
47771693 ACGTTTTTTT
1 ATAATTTTTT
* *
47771703 TTATTTTTTT
1 ATAATTTTTT
**
47771713 ATAATTTTAA
1 ATAATTTTTT
47771723 AT-ATTTTTT
1 ATAATTTTTT
47771732 AT-ATTTTT
1 ATAATTTTT
47771740 ATTAAAATTT
Statistics
Matches: 104, Mismatches: 30, Indels: 22
0.67 0.19 0.14
Matches are distributed among these distances:
7 1 0.01
8 4 0.04
9 26 0.25
10 62 0.60
11 11 0.11
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.67
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:47771722 original size:68 final size:68
Alignment explanation
Indices: 47771595--47771723 Score: 165
Period size: 68 Copynumber: 1.9 Consensus size: 68
47771585 GATAATTTTT
*
47771595 ATAATTTTTTATTAATTTTATATTTCTTTACATTTTTTTATAATTTTCTTATTACTTTAAAAAAT
1 ATAATTTTTTATTAATTTTATATTTCTTTACATTTTTTTATAATTTTCTTATAACTTTAAAAAAT
47771660 TTC
66 TTC
* * * *
47771663 ATAATTTTTT-TCTATATTTTATAATTT-TTTACGTTTTTTT-TTATTTTTTTATAATTTTAAA
1 ATAATTTTTTAT-TA-ATTTTAT-ATTTCTTTACATTTTTTTATAATTTTCTTATAACTTTAAA
47771724 TATTTTTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
67 1 0.02
68 29 0.55
69 19 0.36
70 4 0.08
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (68 bp):
ATAATTTTTTATTAATTTTATATTTCTTTACATTTTTTTATAATTTTCTTATAACTTTAAAAAAT
TTC
Found at i:47771750 original size:29 final size:29
Alignment explanation
Indices: 47771697--47771771 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
47771687 TTTTTTACGT
* *
47771697 TTTTTTTTATTTTT-TTATAATTTTAAATA
1 TTTTTTATATTTTTATTATAAATTT-AATA
47771726 TTTTTTATATTTTTATTA-AAATTTAATA
1 TTTTTTATATTTTTATTATAAATTTAATA
* *
47771754 ATTTTTATAACTTTTATT
1 TTTTTTAT-ATTTTTATT
47771772 TATTTTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 11 0.28
29 26 0.65
30 3 0.08
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTTTATATTTTTATTATAAATTTAATA
Found at i:47771779 original size:29 final size:28
Alignment explanation
Indices: 47771700--47771779 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 28
47771690 TTTACGTTTT
** * *
47771700 TTTTTATTTTTTTA-TAATTTTAAATAT
1 TTTTTATAATTTTATTAATTTTTAATAA
* **
47771727 TTTTTATATTTTTATTAAAATTTAATAA
1 TTTTTATAATTTTATTAATTTTTAATAA
*
47771755 TTTTTATAACTTTTATTTATTTTTA
1 TTTTTATAA-TTTTATTAATTTTTA
47771780 TTTTTTCTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 13 0.31
28 17 0.40
29 12 0.29
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTTATAATTTTATTAATTTTTAATAA
Found at i:47772120 original size:13 final size:13
Alignment explanation
Indices: 47772102--47772127 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47772092 CGTGTTTCCA
47772102 AAAACCATTTGTT
1 AAAACCATTTGTT
47772115 AAAACCATTTGTT
1 AAAACCATTTGTT
47772128 TGCATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:47775946 original size:20 final size:20
Alignment explanation
Indices: 47775921--47775975 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
47775911 GGCGTGTGTG
47775921 ACCACACGGGCGTGTCCCAA
1 ACCACACGGGCGTGTCCCAA
47775941 ACCACACGGGCGTGTCCCAA
1 ACCACACGGGCGTGTCCCAA
47775961 ACCACACGGGCGTGT
1 ACCACACGGGCGTGT
47775976 GACCCCTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.24, C:0.38, G:0.27, T:0.11
Consensus pattern (20 bp):
ACCACACGGGCGTGTCCCAA
Found at i:47781876 original size:43 final size:42
Alignment explanation
Indices: 47781810--47782120 Score: 284
Period size: 43 Copynumber: 7.5 Consensus size: 42
47781800 AAAACGCAAC
* * *
47781810 AAAAGATCAAGACTTTTAGCGGCGTTTGTGAGAAAATCGCCGCT
1 AAAAG-TCATGACTTTTAGCGGCGTTTGTG-GGAAAGCGCCGCT
* *
47781854 AAAAGTCATGACCTTTAGCGGCGTTTGTTGGGGAAGCGCCGCT
1 AAAAGTCATGACTTTTAGCGGCGTTTG-TGGGAAAGCGCCGCT
* * *
47781897 -AAAG----GGCTTTTAGCGGCGTTTGTGAGAAAATCGCCGCT
1 AAAAGTCATGACTTTTAGCGGCGTTTGTG-GGAAAGCGCCGCT
* *
47781935 AAAAGTCATGACCTTTAGCGGCGTTTGTTGGGGAAGCGCCGCT
1 AAAAGTCATGACTTTTAGCGGCGTTTG-TGGGAAAGCGCCGCT
* * *
47781978 -AAAG----GGCTTTTAGCGGCGTTTGTTGGGGAAGTGCCGCT
1 AAAAGTCATGACTTTTAGCGGCGTTTG-TGGGAAAGCGCCGCT
* * *
47782016 -AAAGGCAATGACTTTTAGCGGCGTTTGTGAGAAAAGCGCTGCT
1 AAAAGTC-ATGACTTTTAGCGGCGTTTGTG-GGAAAGCGCCGCT
* * *
47782059 AAAAGCCATGACTTTTAGCGGCATTTTTTGGGAAAGCGCCGCT
1 AAAAGTCATGACTTTTAGCGGC-GTTTGTGGGAAAGCGCCGCT
*
47782102 AAAAGCCATGACTTTTAGC
1 AAAAGTCATGACTTTTAGC
47782121 AGCGCTTTTT
Statistics
Matches: 223, Mismatches: 28, Indels: 33
0.79 0.10 0.12
Matches are distributed among these distances:
37 2 0.01
38 61 0.27
39 4 0.02
42 10 0.04
43 127 0.57
44 19 0.09
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (42 bp):
AAAAGTCATGACTTTTAGCGGCGTTTGTGGGAAAGCGCCGCT
Found at i:47781918 original size:38 final size:38
Alignment explanation
Indices: 47781867--47782043 Score: 194
Period size: 38 Copynumber: 4.4 Consensus size: 38
47781857 AGTCATGACC
47781867 TTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGGGCT
1 TTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGGGCT
** * * *
47781905 TTTAGCGGCGTTTG-TGAGAAAATCGCCGCTAAAAGTCATGACC
1 TTTAGCGGCGTTTGTTG-GGGAAGCGCCGCT-AAAG----GGCT
47781948 TTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGGGCT
1 TTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGGGCT
*
47781986 TTTAGCGGCGTTTGTTGGGGAAGTGCCGCTAAAGGCAATGACT
1 TTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGG----G-CT
47782029 TTTAGCGGCGTTTGT
1 TTTAGCGGCGTTTGT
47782044 GAGAAAAGCG
Statistics
Matches: 116, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
37 2 0.02
38 60 0.52
39 4 0.03
42 5 0.04
43 43 0.37
44 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.28
Consensus pattern (38 bp):
TTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGGGCT
Found at i:47781957 original size:81 final size:81
Alignment explanation
Indices: 47781822--47782043 Score: 367
Period size: 81 Copynumber: 2.7 Consensus size: 81
47781812 AAGATCAAGA
47781822 CTTTTAGCGGCGTTTGTGAGAAAATCGCCGCTAAAAGTCATGACCTTTAGCGGCGTTTGTTGGGG
1 CTTTTAGCGGCGTTTGTGAGAAAATCGCCGCTAAAAGTCATGACCTTTAGCGGCGTTTGTTGGGG
47781887 AAGCGCCGCTAAAGGG
66 AAGCGCCGCTAAAGGG
47781903 CTTTTAGCGGCGTTTGTGAGAAAATCGCCGCTAAAAGTCATGACCTTTAGCGGCGTTTGTTGGGG
1 CTTTTAGCGGCGTTTGTGAGAAAATCGCCGCTAAAAGTCATGACCTTTAGCGGCGTTTGTTGGGG
47781968 AAGCGCCGCTAAAGGG
66 AAGCGCCGCTAAAGGG
* * * * *
47781984 CTTTTAGCGGCGTTTGTTGGGGAAGT-GCCGCT-AAAGGCAATGACTTTTAGCGGCGTTTGT
1 CTTTTAGCGGCGTTTG-TGAGAAAATCGCCGCTAAAAGTC-ATGACCTTTAGCGGCGTTTGT
47782044 GAGAAAAGCG
Statistics
Matches: 134, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
80 5 0.04
81 123 0.92
82 6 0.04
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (81 bp):
CTTTTAGCGGCGTTTGTGAGAAAATCGCCGCTAAAAGTCATGACCTTTAGCGGCGTTTGTTGGGG
AAGCGCCGCTAAAGGG
Found at i:47782044 original size:124 final size:119
Alignment explanation
Indices: 47781867--47782104 Score: 359
Period size: 124 Copynumber: 2.0 Consensus size: 119
47781857 AGTCATGACC
*
47781867 TTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGGGCTTTTAGCGGCGTTTGTGAGAAAATCGCC
1 TTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGGGCTTTTAGCGGCGTTTGTGAGAAAAGCGCC
* * *
47781932 GCTAAAAGTCATGACCTTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGGGCT
66 GCTAAAAGCCATGACCTTTAGCGGCATTTGTTGGGAAAGCGCCGCTAAAGGGCT
*
47781986 TTTAGCGGCGTTTGTTGGGGAAGTGCCGCTAAAGGCAATGACTTTTAGCGGCGTTTGTGAGAAAA
1 TTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGG----G-CTTTTAGCGGCGTTTGTGAGAAAA
* * *
47782051 GCGCTGCTAAAAGCCATGACTTTTAGCGGCATTTTTTGGGAAAGCGCCGCTAAA
61 GCGCCGCTAAAAGCCATGACCTTTAGCGGCATTTGTTGGGAAAGCGCCGCTAAA
47782105 AGCCATGACT
Statistics
Matches: 106, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
119 34 0.32
123 1 0.01
124 71 0.67
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.27
Consensus pattern (119 bp):
TTTAGCGGCGTTTGTTGGGGAAGCGCCGCTAAAGGGCTTTTAGCGGCGTTTGTGAGAAAAGCGCC
GCTAAAAGCCATGACCTTTAGCGGCATTTGTTGGGAAAGCGCCGCTAAAGGGCT
Found at i:47782143 original size:43 final size:43
Alignment explanation
Indices: 47782010--47782146 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 43
47782000 TTGGGGAAGT
* * * * * *
47782010 GCCGCTAAAGGCAATGACTTTTAGCGGC-GTTTGTGAGAAAAGC
1 GCCGCTAAAAGCCATGACTTTTAGCGGCATTTTTTCA-CAAAGC
* ***
47782053 GCTGCTAAAAGCCATGACTTTTAGCGGCATTTTTTGGGAAAGC
1 GCCGCTAAAAGCCATGACTTTTAGCGGCATTTTTTCACAAAGC
47782096 GCCGCTAAAAGCCATGACTTTTAGCAGCGC-TTTTTTCACAAAG-
1 GCCGCTAAAAGCCATGACTTTTAGC-G-GCATTTTTTCACAAAGC
47782139 GCCGCTAA
1 GCCGCTAA
47782147 TTTTGGCAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
43 62 0.77
44 16 0.20
45 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAAGCCATGACTTTTAGCGGCATTTTTTCACAAAGC
Found at i:47782146 original size:86 final size:86
Alignment explanation
Indices: 47781820--47782120 Score: 234
Period size: 81 Copynumber: 3.6 Consensus size: 86
47781810 AAAAGATCAA
* * * * *
47781820 GACTTTTAGCGGCGTTTG-TGAGAAAATCGCCGCTAAAAGTC-ATGACCTTTAGCGGCGTTTGTT
1 GACTTTTAGCGGCATTTGTTG-GGAAAGCGCCGCTAAAAG-CAATGACTTTTAGCGGCGTTTGTC
* **
47781883 GGGGAAGCGCCGCT-AAAG----
64 AGAAAAGCGCCGCTAAAAGCCAT
* * * * * *
47781901 GGCTTTTAGCGGCGTTTG-TGAGAAAATCGCCGCTAAAAGTC-ATGACCTTTAGCGGCGTTTGTT
1 GACTTTTAGCGGCATTTGTTG-GGAAAGCGCCGCTAAAAG-CAATGACTTTTAGCGGCGTTTGTC
* **
47781964 GGGGAAGCGCCGCT-AAAG----
64 AGAAAAGCGCCGCTAAAAGCCAT
* * * * * *
47781982 GGCTTTTAGCGGCGTTTGTTGGGGAAGTGCCGCTAAAGGCAATGACTTTTAGCGGCGTTTGTGAG
1 GACTTTTAGCGGCATTTGTTGGGAAAGCGCCGCTAAAAGCAATGACTTTTAGCGGCGTTTGTCAG
*
47782047 AAAAGCGCTGCTAAAAGCCAT
66 AAAAGCGCCGCTAAAAGCCAT
* *
47782068 GACTTTTAGCGGCATTTTTTGGGAAAGCGCCGCTAAAAGCCATGACTTTTAGC
1 GACTTTTAGCGGCATTTGTTGGGAAAGCGCCGCTAAAAGCAATGACTTTTAGC
47782121 AGCGCTTTTT
Statistics
Matches: 194, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
80 1 0.01
81 141 0.73
82 6 0.03
86 46 0.24
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (86 bp):
GACTTTTAGCGGCATTTGTTGGGAAAGCGCCGCTAAAAGCAATGACTTTTAGCGGCGTTTGTCAG
AAAAGCGCCGCTAAAAGCCAT
Found at i:47782526 original size:21 final size:21
Alignment explanation
Indices: 47782501--47782558 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
47782491 TGCTCTACTG
47782501 CCATCGCTGCTGCCTCTGCCT
1 CCATCGCTGCTGCCTCTGCCT
* * *
47782522 TCATCGCTGCTACCGCTGCCT
1 CCATCGCTGCTGCCTCTGCCT
* *
47782543 CCCTCTCTGCTGCCTC
1 CCATCGCTGCTGCCTC
47782559 CGCTCTAAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.05, C:0.48, G:0.17, T:0.29
Consensus pattern (21 bp):
CCATCGCTGCTGCCTCTGCCT
Found at i:47782993 original size:13 final size:14
Alignment explanation
Indices: 47782967--47782995 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47782957 ACTAATGATG
47782967 AATTAAACCATTAT
1 AATTAAACCATTAT
47782981 AATTAAA-CATTAT
1 AATTAAACCATTAT
47782994 AA
1 AA
47782996 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:47788120 original size:9 final size:9
Alignment explanation
Indices: 47788106--47788366 Score: 109
Period size: 9 Copynumber: 30.1 Consensus size: 9
47788096 TATGTATTAC
*
47788106 GTAAGTTAA
1 GTAAGTTAT
*
47788115 GTAAGTTTT
1 GTAAGTTAT
47788124 GTAAGTTAT
1 GTAAGTTAT
47788133 GTAAGTTAT
1 GTAAGTTAT
* *
47788142 GATATGATAT
1 G-TAAGTTAT
* *
47788152 -AAATTTAT
1 GTAAGTTAT
*
47788160 GTAAGGTAT
1 GTAAGTTAT
47788169 GTAAGTTAT
1 GTAAGTTAT
*
47788178 GTAAATTAT
1 GTAAGTTAT
* *
47788187 G-ATA-TAAA
1 GTA-AGTTAT
* *
47788195 ATATATTTAT
1 GTA-AGTTAT
*
47788205 GT-A-TTAC
1 GTAAGTTAT
*
47788212 GTAAGCTAT
1 GTAAGTTAT
47788221 GTAAGTTAT
1 GTAAGTTAT
* *
47788230 AT-ATTTAT
1 GTAAGTTAT
*
47788238 -TTA-TTAT
1 GTAAGTTAT
* *
47788245 TTAAGTTTT
1 GTAAGTTAT
47788254 GTAAGTTAT
1 GTAAGTTAT
47788263 GTAAGTTAT
1 GTAAGTTAT
* *
47788272 GTAAATTAA
1 GTAAGTTAT
* **
47788281 GATATGAAAT
1 G-TAAGTTAT
* *
47788291 AT-ATTTAT
1 GTAAGTTAT
*
47788299 GT-A-TTAC
1 GTAAGTTAT
*
47788306 ATAAGTTAT
1 GTAAGTTAT
47788315 GTAAGTTAT
1 GTAAGTTAT
* *
47788324 AT-ATTTAT
1 GTAAGTTAT
47788332 GT-A-TTAT
1 GTAAGTTAT
*
47788339 GTAAGTTTT
1 GTAAGTTAT
47788348 GTAAGTTAT
1 GTAAGTTAT
47788357 GTAAGTTAT
1 GTAAGTTAT
47788366 G
1 G
47788367 ATATGATATA
Statistics
Matches: 185, Mismatches: 52, Indels: 30
0.69 0.19 0.11
Matches are distributed among these distances:
7 20 0.11
8 30 0.16
9 123 0.66
10 12 0.06
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:47788233 original size:33 final size:33
Alignment explanation
Indices: 47788195--47788356 Score: 156
Period size: 33 Copynumber: 5.1 Consensus size: 33
47788185 ATGATATAAA
*
47788195 ATATATTTATGTATTACGTAAGCTATGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
* ** *
47788228 ATATATTTATTTATTATTTAAGTTTTGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
* * ** *
47788261 ATGTAAGTTATGTA--AATTAAGATATG-AA---
1 ATAT-ATTTATGTATTACGTAAGTTATGTAAGTT
*
47788289 ATATATTTATGTATTACATAAGTTATGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
* *
47788322 ATATATTTATGTATTATGTAAGTTTTGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
47788355 AT
1 AT
47788357 GTAAGTTATG
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
27 8 0.08
28 3 0.03
29 9 0.09
30 2 0.02
31 2 0.02
32 9 0.09
33 63 0.61
34 7 0.07
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (33 bp):
ATATATTTATGTATTACGTAAGTTATGTAAGTT
Found at i:47788279 original size:94 final size:94
Alignment explanation
Indices: 47788174--47788366 Score: 332
Period size: 94 Copynumber: 2.1 Consensus size: 94
47788164 GGTATGTAAG
* * *
47788174 TTATGTAAATTATGATATAAAATATATTTATGTATTACGTAAGCTATGTAAGTTATATATTTATT
1 TTATGTAAATTAAGATATAAAATATATTTATGTATTACATAAGCTATGTAAGTTATATATTTATG
*
47788239 TATTATTTAAGTTTTGTAAGTTATGTAAG
66 TATTATGTAAGTTTTGTAAGTTATGTAAG
* *
47788268 TTATGTAAATTAAGATATGAAATATATTTATGTATTACATAAGTTATGTAAGTTATATATTTATG
1 TTATGTAAATTAAGATATAAAATATATTTATGTATTACATAAGCTATGTAAGTTATATATTTATG
47788333 TATTATGTAAGTTTTGTAAGTTATGTAAG
66 TATTATGTAAGTTTTGTAAGTTATGTAAG
47788362 TTATG
1 TTATG
47788367 ATATGATATA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (94 bp):
TTATGTAAATTAAGATATAAAATATATTTATGTATTACATAAGCTATGTAAGTTATATATTTATG
TATTATGTAAGTTTTGTAAGTTATGTAAG
Found at i:47792812 original size:152 final size:153
Alignment explanation
Indices: 47792598--47793060 Score: 507
Period size: 152 Copynumber: 3.0 Consensus size: 153
47792588 AAAATGCCAA
* * * *
47792598 AAAACG-CGCTACT-CCCTAAATTTCCAATTAAAACGACGACGTTTAAGATGAACTATTATGTTT
1 AAAACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTAAGATAAACTATTATG-TT
* * * *
47792661 TTTTGCGGCG-TATTTCTCCTCTAAATCTCCAATTAAAACGACGCCGTTCTCGTTATACTATTTT
65 TTTTGCGGCGCTATTTATCCCCTAAATCTCCAATTAAAACGATGTCGTTCTCGTTATACTATTTT
47792725 GCTTTTTTGCGGCTTTTTTTTAT-
130 GCTTTTTTGCGGCTTTTTTTTATC
* *
47792748 AAGACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTAGGATAAACTATTATGTTT
1 AAAACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTAAGATAAACTATTATGTTT
** ** * * *
47792813 TTTGCAAAAAAACGCTGCTAATCCCCTAAATCTCCAATTAAAACGGTGTCGTTTTCGTTATACTA
66 TTTGC-----GGCGCTATTTATCCCCTAAATCTCCAATTAAAACGATGTCGTTCTCGTTATACTA
* * *
47792878 TATTGC-TTTTTGCGGC--GTTTATATC
126 TTTTGCTTTTTTGCGGCTTTTTTTTATC
* * * *
47792903 AAAACGCCGCTAATCCCCTAAATCTCCTATT--AA-AACGTCGTTTACGAGAAACTATTATGTTT
1 AAAACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTAAGATAAACTATTATGTTT
* * *
47792965 TTTGCGGCGTTTTTTAAAATCCCCTAAATCTCCAATTAAAAAGATGTCGTTCTCGTTATACTATT
66 TTTGCGGCGCTATTT---ATCCCCTAAATCTCCAATTAAAACGATGTCGTTCTCGTTATACTATT
* *
47793030 TTGCTTCTTTGCGGCTTTTTTTTGT-
128 TTGCTTTTTTGCGGCTTTTTTTTATC
47793055 AAAACG
1 AAAACG
47793061 TCACTAATGT
Statistics
Matches: 259, Mismatches: 39, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
147 4 0.02
150 52 0.20
151 23 0.09
152 80 0.31
153 7 0.03
154 6 0.02
155 29 0.11
156 12 0.05
157 46 0.18
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37
Consensus pattern (153 bp):
AAAACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTAAGATAAACTATTATGTTT
TTTGCGGCGCTATTTATCCCCTAAATCTCCAATTAAAACGATGTCGTTCTCGTTATACTATTTTG
CTTTTTTGCGGCTTTTTTTTATC
Found at i:47792888 original size:73 final size:73
Alignment explanation
Indices: 47792751--47792969 Score: 185
Period size: 73 Copynumber: 2.9 Consensus size: 73
47792741 TTTTTATAAG
* *
47792751 ACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTAGGATAAACTATTATGTTTTTT
1 ACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTACGATAAACTATTATGCTTTTT
47792816 GCAAAAAA
66 GCAAAAAA
* *** * * * *
47792824 ACGCTGCTAATCCCCTAAATCTCCAATTAAAACGGTGTCGTTTTCGTTATACTA-TATTGCTTTT
1 ACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTACGATAAACTATTA-TGCTTTT
*
47792888 TGCGGCGTTTATATCAAA
65 T---GC----A-A-AAAA
* * * *
47792906 ACGCCGCTAATCCCCTAAATCTCCTATT--AA-AACGTCGTTTACGAGAAACTATTATGTTTTTT
1 ACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTACGATAAACTATTATGCTTTTT
47792968 GC
66 GC
47792970 GGCGTTTTTT
Statistics
Matches: 114, Mismatches: 21, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
72 2 0.02
73 52 0.46
76 4 0.04
79 21 0.18
80 5 0.04
81 1 0.01
82 29 0.25
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.34
Consensus pattern (73 bp):
ACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTACGATAAACTATTATGCTTTTT
GCAAAAAA
Found at i:47793420 original size:14 final size:14
Alignment explanation
Indices: 47793403--47793557 Score: 91
Period size: 14 Copynumber: 10.9 Consensus size: 14
47793393 CCATAAACAC
*
47793403 TAAACTCTAAACCT
1 TAAACCCTAAACCT
47793417 TAAACCCTAAATCCT
1 TAAACCCTAAA-CCT
* *
47793432 T-AACCCTTAACCCC
1 TAAACCC-TAAACCT
* *
47793446 TAACCCCTAACCCT
1 TAAACCCTAAACCT
* * *
47793460 TAGACTCTAAACCA
1 TAAACCCTAAACCT
*
47793474 TAAACCTCTAACCCT
1 TAAACC-CTAAACCT
* *
47793489 T-AACCCTTAACCCA
1 TAAACCC-TAAACCT
*
47793503 TAACCCCTAAACCT
1 TAAACCCTAAACCT
* *
47793517 TAAACTCT-AACTAT
1 TAAACCCTAAAC-CT
* *
47793531 TAAACCATAAACCA
1 TAAACCCTAAACCT
*
47793545 TAATCCCTAAACC
1 TAAACCCTAAACC
47793558 CATAATTCAT
Statistics
Matches: 106, Mismatches: 27, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
13 4 0.04
14 77 0.73
15 25 0.24
ACGTcount: A:0.39, C:0.37, G:0.01, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:47793439 original size:7 final size:7
Alignment explanation
Indices: 47793414--47793519 Score: 79
Period size: 7 Copynumber: 14.9 Consensus size: 7
47793404 AAACTCTAAA
47793414 CCTTAAAC
1 CCTT-AAC
* *
47793422 CCTAAAT
1 CCTTAAC
47793429 CCTTAAC
1 CCTTAAC
47793436 CCTTAAC
1 CCTTAAC
*
47793443 CCCTAAC
1 CCTTAAC
*
47793450 CCCTAAC
1 CCTTAAC
47793457 CCTTAGAC
1 CCTTA-AC
* *
47793465 TC-TAAA
1 CCTTAAC
* *
47793471 CCATAAA
1 CCTTAAC
47793478 CCTCTAAC
1 CCT-TAAC
47793486 CCTTAAC
1 CCTTAAC
47793493 CCTTAAC
1 CCTTAAC
*
47793500 CCATAAC
1 CCTTAAC
* *
47793507 CCCTAAA
1 CCTTAAC
47793514 CCTTAA
1 CCTTAA
47793520 ACTCTAACTA
Statistics
Matches: 80, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
6 2 0.03
7 66 0.82
8 12 0.15
ACGTcount: A:0.35, C:0.41, G:0.01, T:0.24
Consensus pattern (7 bp):
CCTTAAC
Found at i:47793446 original size:57 final size:57
Alignment explanation
Indices: 47793382--47793526 Score: 195
Period size: 57 Copynumber: 2.5 Consensus size: 57
47793372 CCTAAGCCTC
* * * *
47793382 TAACCCCTATCCCATAAACAC-TAAACTCTAAACCTTAAACC-CTAAATCCTTAACCCT
1 TAACCCCTAACCCCTAAAC-CTTAAACTCTAAACCATAAACCTCT-AACCCTTAACCCT
* *
47793439 TAACCCCTAACCCCTAACCCTTAGACTCTAAACCATAAACCTCTAACCCTTAACCCT
1 TAACCCCTAACCCCTAAACCTTAAACTCTAAACCATAAACCTCTAACCCTTAACCCT
*
47793496 TAACCCATAACCCCTAAACCTTAAACTCTAA
1 TAACCCCTAACCCCTAAACCTTAAACTCTAA
47793527 CTATTAAACC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
56 1 0.01
57 74 0.96
58 2 0.03
ACGTcount: A:0.37, C:0.39, G:0.01, T:0.23
Consensus pattern (57 bp):
TAACCCCTAACCCCTAAACCTTAAACTCTAAACCATAAACCTCTAACCCTTAACCCT
Found at i:47793517 original size:21 final size:21
Alignment explanation
Indices: 47793414--47793519 Score: 97
Period size: 21 Copynumber: 5.0 Consensus size: 21
47793404 AAACTCTAAA
*
47793414 CCTTAAACCCTAAATCCTTAAC
1 CCTTAACCCCTAAA-CCTTAAC
* *
47793436 CCTTAACCCCTAACCCCTAAC
1 CCTTAACCCCTAAACCTTAAC
* * *
47793457 CCTTAGA-CTCTAAACCATAAA
1 CCTTA-ACCCCTAAACCTTAAC
* *
47793478 CCTCTAACCCTTAACCCTTAAC
1 CCT-TAACCCCTAAACCTTAAC
*
47793500 CCATAACCCCTAAACCTTAA
1 CCTTAACCCCTAAACCTTAA
47793520 ACTCTAACTA
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
21 40 0.61
22 26 0.39
ACGTcount: A:0.35, C:0.41, G:0.01, T:0.24
Consensus pattern (21 bp):
CCTTAACCCCTAAACCTTAAC
Found at i:47793527 original size:21 final size:21
Alignment explanation
Indices: 47793466--47793527 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
47793456 CCCTTAGACT
*
47793466 CTAAACCATAAACCTCTAACCC
1 CTAAACCTTAAA-CTCTAACCC
* * *
47793488 TTAACCCTT-AACCCATAACCC
1 CTAAACCTTAAACTC-TAACCC
47793509 CTAAACCTTAAACTCTAAC
1 CTAAACCTTAAACTCTAAC
47793528 TATTAAACCA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
20 2 0.06
21 19 0.61
22 10 0.32
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (21 bp):
CTAAACCTTAAACTCTAACCC
Found at i:47793535 original size:57 final size:56
Alignment explanation
Indices: 47793369--47793562 Score: 189
Period size: 57 Copynumber: 3.4 Consensus size: 56
47793359 AATTAATCTA
* * * * *
47793369 AAACC-TAAGCCTCTAACCCCTATCCCATAAACAC-TAAACTCTAAACCTTAAACCCT
1 AAACCTTAACCCT-TAACCCATAACCCCTAAAC-CTTAAACTCTAAACATTAAACCCT
* * *
47793425 AAATCCTTAACCCTTAACCCCTAACCCCTAACCCTTAGACTCTAAACCA-TAAACCTCT
1 AAA-CCTTAACCCTTAACCCATAACCCCTAAACCTTAAACTCTAAA-CATTAAACC-CT
* *
47793483 AACCCTTAACCCTTAACCCATAACCCCTAAACCTTAAACTCT-AACTATTAAACCAT
1 AAACCTTAACCCTTAACCCATAACCCCTAAACCTTAAACTCTAAAC-ATTAAACCCT
* *
47793539 AAACCATAATCCCTAAACCCATAA
1 AAACCTTAA-CCCTTAACCCATAA
47793563 TTCATAAACC
Statistics
Matches: 116, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
55 1 0.01
56 15 0.13
57 89 0.77
58 11 0.09
ACGTcount: A:0.39, C:0.37, G:0.01, T:0.23
Consensus pattern (56 bp):
AAACCTTAACCCTTAACCCATAACCCCTAAACCTTAAACTCTAAACATTAAACCCT
Found at i:47793555 original size:21 final size:20
Alignment explanation
Indices: 47793466--47793562 Score: 61
Period size: 21 Copynumber: 4.5 Consensus size: 20
47793456 CCCTTAGACT
*
47793466 CTAAACCATAAACCTCTAACC
1 CTAAACCATAAACC-ATAACC
* * *
47793487 CTTAACCCTTAACCCATAACCC
1 C-TAAACCATAAACCATAA-CC
* *
47793509 CTAAACCTTAAACTC-TAACTA
1 CTAAACCATAAAC-CATAAC-C
*
47793530 TTAAACCATAAACCATAATCC
1 CTAAACCATAAACCATAA-CC
47793551 CTAAACCCATAA
1 CTAAA-CCATAA
47793563 TTCATAAACC
Statistics
Matches: 58, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
20 2 0.03
21 35 0.60
22 21 0.36
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (20 bp):
CTAAACCATAAACCATAACC
Found at i:47793570 original size:15 final size:15
Alignment explanation
Indices: 47793535--47793572 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
47793525 AACTATTAAA
47793535 CCATAAA-CCATAAT
1 CCATAAACCCATAAT
*
47793549 CCCTAAACCCATAAT
1 CCATAAACCCATAAT
*
47793564 TCATAAACC
1 CCATAAACC
47793573 TTCAAATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:47793620 original size:14 final size:14
Alignment explanation
Indices: 47793596--47793640 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
47793586 TCTTAACCCT
*
47793596 TAAACCCTAAACTA
1 TAAATCCTAAACTA
* *
47793610 TATATCCTAAACCA
1 TAAATCCTAAACTA
47793624 TAAATCCTAAACTA
1 TAAATCCTAAACTA
47793638 TAA
1 TAA
47793641 TCATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAATCCTAAACTA
Found at i:47793668 original size:14 final size:14
Alignment explanation
Indices: 47793649--47793695 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
47793639 AATCATAATT
47793649 AATTCAATATTTTA
1 AATTCAATATTTTA
*
47793663 AATTCAATA--CT-
1 AATTCAATATTTTA
47793674 -ATTCAATATTTTA
1 AATTCAATATTTTA
47793687 AATTCAATA
1 AATTCAATA
47793696 CTATCTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 8 0.30
12 2 0.07
14 17 0.63
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTCAATATTTTA
Found at i:47793682 original size:24 final size:24
Alignment explanation
Indices: 47793650--47793699 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
47793640 ATCATAATTA
47793650 ATTCAATATTTTAAATTCAATACT
1 ATTCAATATTTTAAATTCAATACT
47793674 ATTCAATATTTTAAATTCAATACT
1 ATTCAATATTTTAAATTCAATACT
47793698 AT
1 AT
47793700 CTCTTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTCAATATTTTAAATTCAATACT
Found at i:47794140 original size:40 final size:39
Alignment explanation
Indices: 47794059--47794162 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 39
47794049 TTTCACGGTG
* * *
47794059 TTTTTAAATAAGCACCGTTAATTAGTCGATCTATAGCGGCA
1 TTTTTAAA-AAGCGCCGTTAA-TGGTAGATCTATAGCGGCA
*
47794100 TTTTTACAAAAGCGCCGTTAATGGTAGATCTATAGTGGCA
1 TTTTTA-AAAAGCGCCGTTAATGGTAGATCTATAGCGGCA
*
47794140 TTTTTATAAAAGCGCCGCTAATG
1 TTTTTA-AAAAGCGCCGTTAATG
47794163 CTTAGCATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 37 0.66
41 17 0.30
42 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (39 bp):
TTTTTAAAAAGCGCCGTTAATGGTAGATCTATAGCGGCA
Found at i:47794496 original size:42 final size:41
Alignment explanation
Indices: 47794397--47794532 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 41
47794387 GTCATATCTC
* * * * * *
47794397 AGATATGGTTATATATGTAATCTCGTATCGATGCCAATAGCCT
1 AGATATGGTTTTACA-GAAATCTCATATCGATG-TAATATCCT
* *
47794440 AGCTATGGTCTTACACGAAATCTCATATCGATGTAATATCCT
1 AGATATGGTTTTACA-GAAATCTCATATCGATGTAATATCCT
* * * *
47794482 AGATATGGTTTTACATAAAGTCTCATATAGATGTCATATCCC
1 AGATATGGTTTTACAGAAA-TCTCATATCGATGTAATATCCT
47794524 AGATATGGT
1 AGATATGGT
47794533 CTTAACATAG
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
41 3 0.04
42 48 0.62
43 26 0.34
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (41 bp):
AGATATGGTTTTACAGAAATCTCATATCGATGTAATATCCT
Found at i:47797051 original size:13 final size:13
Alignment explanation
Indices: 47797033--47797058 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47797023 CGTGTTTCTA
47797033 AAAACCATTTGTT
1 AAAACCATTTGTT
47797046 AAAACCATTTGTT
1 AAAACCATTTGTT
47797059 TGCGTGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:47797442 original size:13 final size:14
Alignment explanation
Indices: 47797410--47797447 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
47797400 ATAGATACAG
47797410 ATAT-CAGAATCAA
1 ATATACAGAATCAA
*
47797423 ATGTACAGAA-CAA
1 ATATACAGAATCAA
47797436 ATATACAGAATC
1 ATATACAGAATC
47797448 CTACCCCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (14 bp):
ATATACAGAATCAA
Found at i:47806871 original size:25 final size:24
Alignment explanation
Indices: 47806806--47806872 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
47806796 GTTGATATAA
* *
47806806 ATTTTGATTTTTGAAAATATTTTAT
1 ATTTTTATTTTT-AAAATATTTCAT
**
47806831 ATTTTTATTTAAAAAATAGGTTTCAT
1 ATTTTTATTTTTAAAATA--TTTCAT
47806857 -TTTTTATTTTTAAAAT
1 ATTTTTATTTTTAAAAT
47806873 TAGAAAACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 23 0.68
26 5 0.15
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTTTATTTTTAAAATATTTCAT
Found at i:47810169 original size:33 final size:33
Alignment explanation
Indices: 47810132--47810200 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
47810122 AAATCATATT
* *
47810132 AAGATTAATTAAAATTTTTAATAGCATATATAA
1 AAGATTAATTAAAACTGTTAATAGCATATATAA
47810165 AAGATTAATTAAAACTGTTAATAGCATATATAA
1 AAGATTAATTAAAACTGTTAATAGCATATATAA
47810198 AAG
1 AAG
47810201 GGTAAATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (33 bp):
AAGATTAATTAAAACTGTTAATAGCATATATAA
Found at i:47812449 original size:31 final size:31
Alignment explanation
Indices: 47812414--47812472 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
47812404 TTTCCGTTAA
47812414 TCATTAAATTATTCGTAAA-TTTTTATTTTGG
1 TCATTAAATTATT-GTAAATTTTTTATTTTGG
* *
47812445 TCATTGAATTATTTTAAATTTTTTATTT
1 TCATTAAATTATTGTAAATTTTTTATTT
47812473 AAGTTATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (31 bp):
TCATTAAATTATTGTAAATTTTTTATTTTGG
Found at i:47812795 original size:31 final size:32
Alignment explanation
Indices: 47812760--47812832 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
47812750 AAAACTTTTT
*
47812760 TTAAAAGAAAAAAATTT-AATAGTCCAGTGAC
1 TTAAAAGAAAAAAATTTGAATAGTCCAGCGAC
* * * *
47812791 TT-AAATAAAAAATTTTGAATAGTTCAGCGAT
1 TTAAAAGAAAAAAATTTGAATAGTCCAGCGAC
*
47812822 TTAAACGAAAA
1 TTAAAAGAAAA
47812833 CTTTAAAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 12 0.36
31 15 0.45
32 6 0.18
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (32 bp):
TTAAAAGAAAAAAATTTGAATAGTCCAGCGAC
Found at i:47827476 original size:11 final size:11
Alignment explanation
Indices: 47827401--47827476 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
47827391 ATTTCAAAAA
*
47827401 TAATATTATTT
1 TAATATTAATT
47827412 TAATAGATTAATAT
1 TAAT--ATTAAT-T
47827426 TAA-ATTTAATT
1 TAATA-TTAATT
*
47827437 TAATATTGATCT
1 TAATATTAAT-T
*
47827449 TAATAGT-ATT
1 TAATATTAATT
47827459 T--TATTAATT
1 TAATATTAATT
47827468 TAATATTAA
1 TAATATTAA
47827477 AATTATTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 13 0.25
13 5 0.10
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (11 bp):
TAATATTAATT
Found at i:47827482 original size:20 final size:18
Alignment explanation
Indices: 47827404--47827508 Score: 58
Period size: 20 Copynumber: 5.7 Consensus size: 18
47827394 TCAAAAATAA
*
47827404 TATTATTTTAATAGATTAA-
1 TATTAATTTAAT--ATTAAT
47827423 TATTAAATTTAAT-TTAA-
1 TATT-AATTTAATATTAAT
* * *
47827440 TATTGATCTTAATAGTATTT
1 TATTAAT-TTAATATTA-AT
47827460 TATTAATTTAATATTAAAAT
1 TATTAATTTAATATT--AAT
*
47827480 TATT-ATCTTAACATTAAT
1 TATTAAT-TTAATATTAAT
47827498 T-TTAATTTAAT
1 TATTAATTTAAT
47827509 TTTTATCTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
16 2 0.03
17 19 0.28
18 8 0.12
19 13 0.19
20 25 0.37
21 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TATTAATTTAATATTAAT
Found at i:47833811 original size:18 final size:19
Alignment explanation
Indices: 47833777--47833813 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
47833767 TGGTAGATAT
*
47833777 AAATTTCAAAATTTATAAA
1 AAATTTCAAAATATATAAA
47833796 AAATTT-AAAATATATAAA
1 AAATTTCAAAATATATAAA
47833814 TTAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATTTCAAAATATATAAA
Found at i:47839926 original size:27 final size:26
Alignment explanation
Indices: 47839854--47839948 Score: 91
Period size: 28 Copynumber: 3.5 Consensus size: 26
47839844 TTGATAAAAC
* *
47839854 TTCAAGATACCCAAATAATAGAAAAAGT
1 TTCAAGAAATCCAAA-AATAG-AAAAGT
**
47839882 TTCAAGAAAAACATAAAATAGAAAATGT
1 TTCAAGAAATCCA-AAAATAGAAAA-GT
*
47839910 TTCAAGAAATCCAAAAATAAGAAAAGC
1 TTCAAGAAATCCAAAAAT-AGAAAAGT
*
47839937 ATCAAGAAATCC
1 TTCAAGAAATCC
47839949 CCAAAACTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
27 21 0.37
28 34 0.60
29 2 0.04
ACGTcount: A:0.57, C:0.14, G:0.11, T:0.19
Consensus pattern (26 bp):
TTCAAGAAATCCAAAAATAGAAAAGT
Found at i:47861298 original size:10 final size:10
Alignment explanation
Indices: 47861283--47861310 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
47861273 ACTTTATAGA
47861283 AATTTTATAT
1 AATTTTATAT
47861293 AATTTTATAT
1 AATTTTATAT
47861303 AATTTTAT
1 AATTTTAT
47861311 GTTAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
AATTTTATAT
Found at i:47862279 original size:14 final size:14
Alignment explanation
Indices: 47862260--47862326 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
47862250 GTTTGCAGGT
*
47862260 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
47862274 AAAATGATTTCTGG
1 AAAATGATTTCTGG
* *
47862288 AAAATAATTTCTTGA
1 AAAATGATTTC-TGG
47862303 AAAATGATTTCTGG
1 AAAATGATTTCTGG
47862317 AAAATGATTT
1 AAAATGATTT
47862327 ACTTTTCTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:47866690 original size:17 final size:16
Alignment explanation
Indices: 47866671--47866701 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47866661 TTAAATGAAA
47866671 AAAAGAATTTAAAATT
1 AAAAGAATTTAAAATT
*
47866687 AAAAGAATTTTAAAT
1 AAAAGAATTTAAAAT
47866702 AAAGTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
AAAAGAATTTAAAATT
Found at i:47867822 original size:33 final size:34
Alignment explanation
Indices: 47867780--47867844 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
47867770 ACAAGATAAA
*
47867780 TAAATAAAATTTAAAATAAAAATACTTAATTAAC
1 TAAATAAAATTCAAAATAAAAATACTTAATTAAC
* *
47867814 TAAA-AAAATTCAAAATAAAATTATTTAATTA
1 TAAATAAAATTCAAAATAAAAATACTTAATTA
47867845 TGTACAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.34
Consensus pattern (34 bp):
TAAATAAAATTCAAAATAAAAATACTTAATTAAC
Found at i:47869705 original size:21 final size:21
Alignment explanation
Indices: 47869676--47869716 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47869666 TTCAAAGAAT
*
47869676 TAGATATGAGGTTAGATCTCA
1 TAGAGATGAGGTTAGATCTCA
*
47869697 TAGAGATGAGGTTAGCTCTC
1 TAGAGATGAGGTTAGATCTC
47869717 GACTATTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (21 bp):
TAGAGATGAGGTTAGATCTCA
Found at i:47882886 original size:10 final size:9
Alignment explanation
Indices: 47882873--47882906 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
47882863 TTTTATTGAA
47882873 TTTTGTATTT
1 TTTTG-ATTT
47882883 TTTTGATTT
1 TTTTGATTT
*
47882892 TTTTGACTT
1 TTTTGATTT
47882901 TTTTGA
1 TTTTGA
47882907 CTGATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.74
Consensus pattern (9 bp):
TTTTGATTT
Found at i:47889769 original size:22 final size:22
Alignment explanation
Indices: 47889744--47889789 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
47889734 TTAAGACATG
47889744 TTTGGGACATGCATTGGCCACA
1 TTTGGGACATGCATTGGCCACA
47889766 TTTGGGACATGCATTGGCCACA
1 TTTGGGACATGCATTGGCCACA
47889788 TT
1 TT
47889790 ATGAGAGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (22 bp):
TTTGGGACATGCATTGGCCACA
Found at i:47889860 original size:47 final size:47
Alignment explanation
Indices: 47889790--47890018 Score: 200
Period size: 47 Copynumber: 4.9 Consensus size: 47
47889780 TGGCCACATT
*
47889790 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATAGGC-TCGAG
* * * *
47889838 ATGAGTGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATAGG-CTCGAG
* * *
47889884 ACGTA-AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCT-CGAG
* * * * * * * *
47889930 ATTATAGTCAGTGTAAGACCCTGTTTGGGACATGGCATTGACTTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCTCGAG
* * *
47889977 AT-ATGAGCCAGTGTAAGACCATATCTAGGACATGACATAGGC
1 ATGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATAGGC
47890019 ACCTTACCCC
Statistics
Matches: 148, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
45 3 0.02
46 60 0.41
47 62 0.42
48 23 0.16
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCTCGAG
Found at i:47897037 original size:26 final size:26
Alignment explanation
Indices: 47897007--47897059 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
47896997 TCACTTACTA
47897007 TTAAGCTTGGAAGCTTGGCCAAACCC
1 TTAAGCTTGGAAGCTTGGCCAAACCC
47897033 TTAAGCTTGGAAGCTTGGCCAAACCC
1 TTAAGCTTGGAAGCTTGGCCAAACCC
47897059 T
1 T
47897060 AACCATAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (26 bp):
TTAAGCTTGGAAGCTTGGCCAAACCC
Found at i:47898316 original size:55 final size:54
Alignment explanation
Indices: 47898229--47898483 Score: 217
Period size: 55 Copynumber: 4.8 Consensus size: 54
47898219 ATTAGGGTTT
* *
47898229 AAGGATACCATGTAAGACCATCCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATACCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * * *
47898284 AAGGAAATCATGTAAGACCAAATCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATACCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * * * * *
47898339 AAAGG-TCCCATGTAAAACCTTGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGT
1 -AAGGATACCATGTAAGACCATACCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
**
47898392 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATACCAAGACATGGCAATTGGTAAGTTTCTAAGGC
*
47898441 AAGGATACCATGTAAGACCATGA-CAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCAT-ACCAAGACATGGCAATTGGTAAG
47898484 GTACCCGTGT
Statistics
Matches: 163, Mismatches: 29, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
49 40 0.25
52 7 0.04
53 38 0.23
54 12 0.07
55 62 0.38
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATACCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:47898435 original size:108 final size:110
Alignment explanation
Indices: 47898236--47898436 Score: 273
Period size: 108 Copynumber: 1.8 Consensus size: 110
47898226 TTTAAGGATA
* *
47898236 CCATGTAAGACCATCCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAAACCATCCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
47898301 CCAAATCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCAAATCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * * *
47898346 CCATGTAAAACCTTGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGTAAGGATACCATGTAAG
1 CCATGTAAAACCATCCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
** *
47898408 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCAAATCAAGACATGGCAATGATAAGTT
47898437 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.57
109 7 0.09
110 24 0.30
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAAACCATCCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCAAATCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:47898589 original size:23 final size:24
Alignment explanation
Indices: 47898552--47898596 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
47898542 AAGGTAAGGT
**
47898552 AAGGTAAGATGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
47898575 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
47898597 GAAGAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:47900352 original size:7 final size:6
Alignment explanation
Indices: 47900335--47900378 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
47900325 GAATTCTAAG
*
47900335 AAAATA AAAATAA AAAATA AAAAT- AAAATA AAGATA AAAATA AA
1 AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AA
47900379 GTTGAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.15
6 23 0.68
7 6 0.18
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:47900386 original size:12 final size:12
Alignment explanation
Indices: 47900335--47900379 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 12
47900325 GAATTCTAAG
*
47900335 AAAATAAAAATAA
1 AAAATAAAGAT-A
*
47900348 AAAATAAAAAT-
1 AAAATAAAGATA
47900359 AAAATAAAGATA
1 AAAATAAAGATA
47900371 AAAATAAAG
1 AAAATAAAG
47900380 TTGAAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.33
12 9 0.30
13 11 0.37
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (12 bp):
AAAATAAAGATA
Found at i:47904599 original size:18 final size:17
Alignment explanation
Indices: 47904576--47904617 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
47904566 TACACTTCAT
47904576 AAAAATAAAAAGAATTAA
1 AAAAATAAAAA-AATTAA
* *
47904594 AAAAATTAAAAAATTCA
1 AAAAATAAAAAAATTAA
47904611 AAAAATA
1 AAAAATA
47904618 TAAATTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAAATAAAAAAATTAA
Found at i:47904600 original size:9 final size:9
Alignment explanation
Indices: 47904576--47904621 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
47904566 TACACTTCAT
47904576 AAAAA-TAA
1 AAAAATTAA
47904584 AAAGAATTAA
1 AAA-AATTAA
47904594 AAAAATT-A
1 AAAAATTAA
*
47904602 AAAAATTCA
1 AAAAATTAA
47904611 AAAAATATAA
1 AAAAAT-TAA
47904621 A
1 A
47904622 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 11 0.33
9 13 0.39
10 9 0.27
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAAATTAA
Found at i:47904621 original size:18 final size:19
Alignment explanation
Indices: 47904571--47904621 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
47904561 TATATTACAC
47904571 TTCATAAAAATA-AAAAGAA
1 TTCA-AAAAATATAAAAGAA
*
47904590 TTAAAAAAAT-TAAAA-AA
1 TTCAAAAAATATAAAAGAA
47904607 TTCAAAAAATATAAA
1 TTCAAAAAATATAAA
47904622 TTTATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 11 0.39
18 14 0.50
19 3 0.11
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (19 bp):
TTCAAAAAATATAAAAGAA
Found at i:47907510 original size:16 final size:16
Alignment explanation
Indices: 47907486--47907522 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
47907476 CTTAACCAAA
*
47907486 TTAGATTACTTTTAAT
1 TTAGGTTACTTTTAAT
47907502 TTAGGTTACTTTTAAT
1 TTAGGTTACTTTTAAT
47907518 TTAGG
1 TTAGG
47907523 CTAACCTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (16 bp):
TTAGGTTACTTTTAAT
Found at i:47907555 original size:43 final size:42
Alignment explanation
Indices: 47907502--47907587 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 42
47907492 TACTTTTAAT
* *
47907502 TTAGGTTACTTTTAATTTAGGCTAACCTATCATGATAGTCAAA
1 TTAGATTACTTTTAATTTAGGCTAACCTATCACGATAGT-AAA
47907545 TTAGATTACTTTTAATTTAGGCTAACCTATCACGATAGTAAA
1 TTAGATTACTTTTAATTTAGGCTAACCTATCACGATAGTAAA
47907587 T
1 T
47907588 AATAACATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (42 bp):
TTAGATTACTTTTAATTTAGGCTAACCTATCACGATAGTAAA
Found at i:47909369 original size:30 final size:29
Alignment explanation
Indices: 47909309--47909369 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
47909299 GAACTATTAT
* * *
47909309 CATGGCCTGAAGCCAAATCATCAGATATG
1 CATGGCCAGAAGCCAAATCATAAAATATG
*
47909338 CATGGCCAGAAGCCAAATCGGTAAAATATG
1 CATGGCCAGAAGCCAAATC-ATAAAATATG
47909368 CA
1 CA
47909370 CCTGAAGTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (29 bp):
CATGGCCAGAAGCCAAATCATAAAATATG
Found at i:47911877 original size:19 final size:20
Alignment explanation
Indices: 47911849--47911892 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
47911839 AACACATGTA
*
47911849 TTCATAAAATTTTATAA-TT
1 TTCATAAAATTTTACAACTT
*
47911868 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
47911888 TTCAT
1 TTCAT
47911893 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:47916582 original size:15 final size:15
Alignment explanation
Indices: 47916562--47916597 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
47916552 ATTTCTTCCT
47916562 GAATTCAGCCTAGAA
1 GAATTCAGCCTAGAA
*
47916577 GAATTCAGCCTGGAA
1 GAATTCAGCCTAGAA
47916592 GAATTC
1 GAATTC
47916598 CCATGTGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (15 bp):
GAATTCAGCCTAGAA
Found at i:47920152 original size:42 final size:42
Alignment explanation
Indices: 47920089--47920170 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
47920079 GTTATAGGGC
* *
47920089 GTGTCTCTCAGCCACATGACCATGTATCTCAGTCACACGGAT
1 GTGTCTCTCAACCACAGGACCATGTATCTCAGTCACACGGAT
* *
47920131 GTGTCTCTCAACCATAGGACCATGTATCTCAGTTACACGG
1 GTGTCTCTCAACCACAGGACCATGTATCTCAGTCACACGG
47920171 GCATGTTCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (42 bp):
GTGTCTCTCAACCACAGGACCATGTATCTCAGTCACACGGAT
Found at i:47923248 original size:40 final size:40
Alignment explanation
Indices: 47923204--47923283 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
47923194 GAGAGAGGAG
47923204 AATGAGTATGAAAGGAAAATTGGTGACAACAGTTTTTTCT
1 AATGAGTATGAAAGGAAAATTGGTGACAACAGTTTTTTCT
47923244 AATGAGTATGAAAGGAAAATTGGTGACAACAGTTTTTTCT
1 AATGAGTATGAAAGGAAAATTGGTGACAACAGTTTTTTCT
47923284 CTACGTAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.33
Consensus pattern (40 bp):
AATGAGTATGAAAGGAAAATTGGTGACAACAGTTTTTTCT
Found at i:47937606 original size:38 final size:38
Alignment explanation
Indices: 47937564--47937667 Score: 136
Period size: 38 Copynumber: 2.7 Consensus size: 38
47937554 TAAAGACCCG
** *
47937564 CAGGCTTCGTGCTGGTAAAATATTCGGGTTAAATCCCA
1 CAGGCTTCGTGCTGGTATTATATTCGGGATAAATCCCA
* **
47937602 CAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCTG
1 CAGGCTTCGTGCTGGTATTATATTCGGGATAAATCCCA
* *
47937640 CAGGCCTAGTGCTGGTATTATATTCGGG
1 CAGGCTTCGTGCTGGTATTATATTCGGG
47937668 CCTTCGTGCC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTATTATATTCGGGATAAATCCCA
Found at i:47937708 original size:43 final size:43
Alignment explanation
Indices: 47937660--47937809 Score: 282
Period size: 43 Copynumber: 3.5 Consensus size: 43
47937650 GCTGGTATTA
*
47937660 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
47937703 TATTCGGGCCTTCGTGCCTAGAAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
47937746 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
47937789 TATTCGGGCCTTCGTGCCTAG
1 TATTCGGGCCTTCGTGCCTAG
47937810 TAGACGTAAT
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 104 1.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:47937827 original size:86 final size:86
Alignment explanation
Indices: 47937660--47937827 Score: 273
Period size: 86 Copynumber: 2.0 Consensus size: 86
47937650 GCTGGTATTA
47937660 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGA
* * **
47937725 AGGCTTCGTGCCGGTGATGTG
66 AGACGTAATGCCGGTGATGTG
* *
47937746 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGT
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGA
*
47937811 AGACGTAATGCTGGTGA
66 AGACGTAATGCCGGTGA
47937828 AATGATATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 75 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.30
Consensus pattern (86 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGA
AGACGTAATGCCGGTGATGTG
Found at i:47955319 original size:12 final size:12
Alignment explanation
Indices: 47955302--47955335 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
47955292 TGGGGGTAGG
*
47955302 ATTTGTGTCTGT
1 ATTTGTATCTGT
47955314 ATTTGTATCTGT
1 ATTTGTATCTGT
*
47955326 ATATGTATCT
1 ATTTGTATCT
47955336 AATATGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.56
Consensus pattern (12 bp):
ATTTGTATCTGT
Found at i:47955782 original size:33 final size:31
Alignment explanation
Indices: 47955740--47955802 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
47955730 TTTTCAAAAT
47955740 TAACAACTTAGAAAT-TTCTACTGTAAAATAAAG
1 TAACAACTT--AAATGTT-TACTGTAAAATAAAG
* *
47955773 TAACCACTTAAATGTTTTCTGTAAAATAAA
1 TAACAACTTAAATGTTTACTGTAAAATAAA
47955803 TATCTTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 17 0.63
32 2 0.07
33 8 0.30
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (31 bp):
TAACAACTTAAATGTTTACTGTAAAATAAAG
Found at i:47957725 original size:43 final size:43
Alignment explanation
Indices: 47957678--47957793 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
47957668 TGTGATTACA
* *
47957678 TGTAAAACCATGTCTGGGACATTGGCATTG-TATTGAGATTAAG
1 TGTAAAACCATGTCTGGGACATTGGCATCGTTAAT-AGATTAAG
* **
47957721 TGTAAAACCATGTCTGGGACATTGGCGTCGTTAATAGATTTTG
1 TGTAAAACCATGTCTGGGACATTGGCATCGTTAATAGATTAAG
* * *
47957764 TGTAAGACCCTGTCTGGGACAGTGGCATCG
1 TGTAAAACCATGTCTGGGACATTGGCATCG
47957794 ATATGTGTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 60 0.95
44 3 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
TGTAAAACCATGTCTGGGACATTGGCATCGTTAATAGATTAAG
Found at i:47960413 original size:62 final size:63
Alignment explanation
Indices: 47960342--47960463 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 63
47960332 TGTGCAGAAG
*
47960342 TCACATGGGTAGGACATACGAGCG-TGTCCA-AGCTGTGTAACTCATTGAGTTCAGATTTGAAA
1 TCACATGGGTAGGACACACGAGCGCTGTCCATAGC-GTGTAACTCATTGAGTTCAGATTTGAAA
** * * *
47960404 TCACATGGGTAGGGGACACGGGCGTCTGTCCATATCGTGTAACTCTTTGAGTTCAGATTT
1 TCACATGGGTAGGACACACGAGCG-CTGTCCATAGCGTGTAACTCATTGAGTTCAGATTT
47960464 AGAGTTATAC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
62 20 0.39
64 29 0.57
65 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (63 bp):
TCACATGGGTAGGACACACGAGCGCTGTCCATAGCGTGTAACTCATTGAGTTCAGATTTGAAA
Found at i:47961277 original size:10 final size:10
Alignment explanation
Indices: 47961262--47961286 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47961252 AGTTTGTATT
47961262 CAAAATCTAC
1 CAAAATCTAC
47961272 CAAAATCTAC
1 CAAAATCTAC
47961282 CAAAA
1 CAAAA
47961287 GGATCTCCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (10 bp):
CAAAATCTAC
Found at i:47964544 original size:47 final size:46
Alignment explanation
Indices: 47964435--47964558 Score: 171
Period size: 47 Copynumber: 2.7 Consensus size: 46
47964425 TTATTGTGAG
* * *
47964435 CTAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTACTAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTACGAGAA
47964481 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT-TGATACGAGAA
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATAT--TACGAGAA
47964529 CTAGTGTAAGACATGTCTGGGACATGCATC
1 CTAGTGTAAGACATGTCTGGGACATGCATC
47964559 AGCCTCGAGA
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
46 17 0.24
47 30 0.42
48 24 0.34
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTACGAGAA
Found at i:47965839 original size:21 final size:22
Alignment explanation
Indices: 47965800--47965840 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47965790 TCGAATTGGT
*
47965800 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGATGCCCCTCC
47965822 CACACGGGCGT-ATGCCCCT
1 CACACGGGCGTGATGCCCCT
47965841 GTGGCTAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTGATGCCCCTCC
Found at i:47969155 original size:48 final size:49
Alignment explanation
Indices: 47969042--47969155 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 49
47969032 ATATAATTAT
*
47969042 TTTTA-TTTTAAATTAATAAAATATATTAATTTAAAATTATAATTCACCA
1 TTTTATTTTTAAATTAAT-AAATAGATTAATTTAAAATTATAATTCACCA
* * *
47969091 TTTCATGTTTTTAATTAAT-AGTAGA-TAATTTAAAATTATAA-TCACCAA
1 TTTTAT-TTTTAAATTAATAAATAGATTAATTTAAAATTATAATTCACC-A
47969139 CTTTTATTTTTAAATTA
1 -TTTTATTTTTAAATTA
47969156 CTAGAATACA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
47 5 0.09
48 26 0.47
49 13 0.24
51 11 0.20
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (49 bp):
TTTTATTTTTAAATTAATAAATAGATTAATTTAAAATTATAATTCACCA
Found at i:47971147 original size:11 final size:11
Alignment explanation
Indices: 47971117--47971177 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
47971107 ATATTCAAAC
*
47971117 AATAATAACAA
1 AATAATAGCAA
*
47971128 AATAGTAGCAA
1 AATAATAGCAA
*
47971139 TATAATAGCAA
1 AATAATAGCAA
* * *
47971150 GATGATAGTAA
1 AATAATAGCAA
**
47971161 AACGATAGCAA
1 AATAATAGCAA
47971172 AATAAT
1 AATAAT
47971178 GAAAAAAGTA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.57, C:0.08, G:0.13, T:0.21
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:47973893 original size:24 final size:24
Alignment explanation
Indices: 47973861--47973909 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
47973851 TTGATATTCA
47973861 TAGGTGTTGAATTCTATAGAAAAT
1 TAGGTGTTGAATTCTATAGAAAAT
*
47973885 TAGGTGTTGAGTTCTATAGAAAAT
1 TAGGTGTTGAATTCTATAGAAAAT
47973909 T
1 T
47973910 TTGATCTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (24 bp):
TAGGTGTTGAATTCTATAGAAAAT
Found at i:47974432 original size:35 final size:35
Alignment explanation
Indices: 47974386--47974457 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
47974376 GGACCATGCC
47974386 GTAGACTAATATGTCGCAGACTGATCCTGAAGGTA
1 GTAGACTAATATGTCGCAGACTGATCCTGAAGGTA
47974421 GTAGACTAATATGTCGCAGACTGATCCTGAAGGTA
1 GTAGACTAATATGTCGCAGACTGATCCTGAAGGTA
47974456 GT
1 GT
47974458 CCAATTGCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (35 bp):
GTAGACTAATATGTCGCAGACTGATCCTGAAGGTA
Found at i:47980603 original size:50 final size:48
Alignment explanation
Indices: 47980475--47980650 Score: 152
Period size: 50 Copynumber: 3.7 Consensus size: 48
47980465 GTATAATGCT
* * *
47980475 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCGAAATCG-AGGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCAC-A-C-ATATCGTA-GTC
** * *
47980524 GACACCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GTC
1 GATGCCATGTCCTAGACATGGTCTTACACTAG--CACACATAT-CGTAGTC
* *
47980574 GATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATCTTGTAGTC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCGTAGTC
47980620 GATG-CATGTCCTAGACAT-GTCTTACACTAGC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGC
47980651 CTTTCATAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
44 10 0.09
45 17 0.16
46 13 0.12
49 29 0.27
50 33 0.31
51 3 0.03
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCGTAGTC
Found at i:47985415 original size:46 final size:44
Alignment explanation
Indices: 47985327--47985446 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 44
47985317 ATTGAGACGA
* *
47985327 GTGCTAGTGTAAGACATGTTTCGGACATGCATCTGCCTCGAGAC
1 GTGCTAGTGTAAGACATGTCTAGGACATGCATCTGCCTCGAGAC
* *
47985371 GTAAGCTAGTGTAAGACATGTCTAGGACATGCATC-GGCTACGAGAT
1 GT--GCTAGTGTAAGACATGTCTAGGACATGCATCTGCCT-CGAGAC
47985417 GTG-TCAGTGTAAGACCATGTCTAGGACATG
1 GTGCT-AGTGTAAGA-CATGTCTAGGACATG
47985447 GCGTCGACAC
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
43 1 0.01
44 12 0.18
45 18 0.27
46 36 0.54
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (44 bp):
GTGCTAGTGTAAGACATGTCTAGGACATGCATCTGCCTCGAGAC
Found at i:47987441 original size:37 final size:36
Alignment explanation
Indices: 47987391--47987461 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 36
47987381 ATTTTTCTTG
47987391 TGATTTTGGTAATAAGGATGAATGATTCATCCAATA
1 TGATTTTGGTAATAAGGATGAATGATTCATCCAATA
47987427 TGATTTTCGGTAATAAGGATGAATGATTCATCCAA
1 TGATTTT-GGTAATAAGGATGAATGATTCATCCAA
47987462 AAGCATGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 7 0.21
37 27 0.79
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (36 bp):
TGATTTTGGTAATAAGGATGAATGATTCATCCAATA
Found at i:48004889 original size:22 final size:22
Alignment explanation
Indices: 48004858--48004900 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
48004848 ACACACGGTC
*
48004858 GTGTCGCACTTGACTGAGTCAT
1 GTGTCACACTTGACTGAGTCAT
48004880 GTGTCACACTTGACTGAGTCA
1 GTGTCACACTTGACTGAGTCA
48004901 CACGCCCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (22 bp):
GTGTCACACTTGACTGAGTCAT
Found at i:48007166 original size:21 final size:21
Alignment explanation
Indices: 48007137--48007192 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
48007127 CTAGAAGATG
*
48007137 AAAA-GAATGAAAACCTAGCT
1 AAAACGAATGAAAAACTAGCT
48007157 AAAACGAATGAAAAACTAGCT
1 AAAACGAATGAAAAACTAGCT
*
48007178 AAAACTAATGAAAAA
1 AAAACGAATGAAAAA
48007193 TGTAGCAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.61, C:0.12, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAACGAATGAAAAACTAGCT
Found at i:48013936 original size:27 final size:27
Alignment explanation
Indices: 48013906--48014083 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
48013896 ATATTGAGTC
** *
48013906 CGCACACACAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
48013933 CGCACACTTAGTGCTACGA-AATCAAAT
1 CGCACACTTAGTGCTAC-ATAATCAACT
*
48013960 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
48013988 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
48014015 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
48014042 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
48014069 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48014084 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:48021780 original size:13 final size:13
Alignment explanation
Indices: 48021758--48021792 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
48021748 AAATTTTTCT
48021758 AAAGTACTTCTCA
1 AAAGTACTTCTCA
*
48021771 AAAGTTCTTCTCA
1 AAAGTACTTCTCA
48021784 AAAGTACTT
1 AAAGTACTT
48021793 TTCCATAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (13 bp):
AAAGTACTTCTCA
Found at i:48026306 original size:48 final size:48
Alignment explanation
Indices: 48025975--48026308 Score: 277
Period size: 48 Copynumber: 7.0 Consensus size: 48
48025965 AGGGTGAATT
* **
48025975 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACACGTCGA-G
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC-ATG
** ** * *
48026023 GTAGATGCCATGTCCCAAACATGGTCTTACACTTTCTCTA-GTCTCAAT-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-ACATATC-ATG
* * *
48026071 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCGT-ACATATCAAT-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGC-TCACATATC-ATG
* * * * * *
48026119 ACCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT-ATCATG
* * * ** *
48026167 GCCAATGCCATGTCCCAGACGTGGTCTTACACTGGCTTTCAT-TACATT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT-CATG
* * * *
48026215 GTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCATG
* * *
48026263 GCCGATGCTATGTCCCAAACATGGTCTTACACTAGCACACATATCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCA
48026309 CCTAAATGTC
Statistics
Matches: 230, Mismatches: 46, Indels: 20
0.78 0.16 0.07
Matches are distributed among these distances:
46 1 0.00
47 3 0.01
48 221 0.96
49 5 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCATG
Found at i:48029589 original size:59 final size:60
Alignment explanation
Indices: 48029518--48029634 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
48029508 ATCACTTTAA
* * * * * *
48029518 TATTAAATTAATATAATCTTTATCT-TGATAAATATTAGATTAAATTTAATATTAAACCT
1 TATTAAAATAATAGAATCTTTATCTAAGATAAATATTAAAGTAAATTAAATATTAAACCT
*
48029577 TATTAAAATAATAGAATGTTTATCTACAAGATAAATATTAAAGTAAATTAAATATTAA
1 TATTAAAATAATAGAATCTTTATCT--AAGATAAATATTAAAGTAAATTAAATATTAA
48029635 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 22 0.46
62 26 0.54
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (60 bp):
TATTAAAATAATAGAATCTTTATCTAAGATAAATATTAAAGTAAATTAAATATTAAACCT
Found at i:48029976 original size:25 final size:25
Alignment explanation
Indices: 48029941--48030013 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
48029931 CTGCTAGTTC
* *
48029941 GGTTTGAGTCAATGATGACCCGACT
1 GGTTTGGGTCAAAGATGACCCGACT
*
48029966 GGTTTGGGTCAAAGACGACCCGACT
1 GGTTTGGGTCAAAGATGACCCGACT
48029991 GGTTTGGGTCAAAGATGACCCGA
1 GGTTTGGGTCAAAGATGACCCGA
48030014 TCGGTCTAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.23
Consensus pattern (25 bp):
GGTTTGGGTCAAAGATGACCCGACT
Found at i:48030027 original size:50 final size:50
Alignment explanation
Indices: 48029941--48030035 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
48029931 CTGCTAGTTC
* * **
48029941 GGTTTGAGTCAATGATGACCCGACTGGTTTGGGTCAAAGACGACCCGACT
1 GGTTTGAGTCAAAGATGACCCGACTGGTCTAAGTCAAAGACGACCCGACT
* *
48029991 GGTTTGGGTCAAAGATGACCCGA-TCGGTCTAAGTCAATGACGACC
1 GGTTTGAGTCAAAGATGACCCGACT-GGTCTAAGTCAAAGACGACC
48030036 TAACCAGTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.03
50 37 0.97
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
GGTTTGAGTCAAAGATGACCCGACTGGTCTAAGTCAAAGACGACCCGACT
Found at i:48031375 original size:15 final size:15
Alignment explanation
Indices: 48031351--48031382 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48031341 TATGCATGTA
*
48031351 AAATATAAAAGACAT
1 AAATACAAAAGACAT
48031366 AAATACAAAAGACAT
1 AAATACAAAAGACAT
48031381 AA
1 AA
48031383 TAATGTGCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:48036650 original size:32 final size:32
Alignment explanation
Indices: 48036614--48036774 Score: 241
Period size: 32 Copynumber: 5.0 Consensus size: 32
48036604 TATAACTATG
48036614 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
48036646 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
48036678 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
48036710 ATACTTTTTTTATATGCAAAACTAATGTATGAT
1 CTAC-TTTTTTATATGTAAAACTAATGTATGAT
* *
48036743 CTACTTTTTTATAGGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
48036775 ATTTTTTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
32 86 0.75
33 28 0.25
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:48036732 original size:65 final size:64
Alignment explanation
Indices: 48036614--48036776 Score: 272
Period size: 65 Copynumber: 2.5 Consensus size: 64
48036604 TATAACTATG
* *
48036614 CTACTTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATATACTTTTTCATATGCAAAACTAATGTATGAT
* *
48036678 CTACTTTTTTATATGTGAACCTAATGTATGATATACTTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATATAC-TTTTTCATATGCAAAACTAATGTATGAT
*
48036743 CTACTTTTTTATAGGTAAACCTAATGTATGATAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATAT
48036777 TTTTTATGTT
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 33 0.36
65 59 0.64
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATATACTTTTTCATATGCAAAACTAATGTATGAT
Found at i:48038779 original size:21 final size:21
Alignment explanation
Indices: 48038753--48038805 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
48038743 CGCTGTTTCT
*
48038753 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
48038774 AATCTCACCGCTACAGTAACC
1 AATCTCACCGCTACAGTAACC
48038795 AATCTCACCGC
1 AATCTCACCGC
48038806 CACCACTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:48039304 original size:8 final size:7
Alignment explanation
Indices: 48039276--48039302 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
48039266 TAAGATATAA
48039276 TAAAAAT
1 TAAAAAT
48039283 TAAAAAT
1 TAAAAAT
48039290 TAAAAAT
1 TAAAAAT
48039297 TAAAAA
1 TAAAAA
48039303 ATATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAAAAT
Found at i:48039310 original size:14 final size:14
Alignment explanation
Indices: 48039274--48039320 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
48039264 TATAAGATAT
48039274 AATAAAAATTAAAA
1 AATAAAAATTAAAA
*
48039288 ATTAAAAATTAAAA
1 AATAAAAATTAAAA
*
48039302 AATATAAATATAAATA
1 AATAAAAAT-TAAA-A
48039318 AAT
1 AAT
48039321 TTATATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 20 0.71
15 4 0.14
16 4 0.14
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAAAAATTAAAA
Found at i:48044626 original size:42 final size:42
Alignment explanation
Indices: 48044579--48044661 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
48044569 ACTAAATTGG
* *
48044579 ATCCCCCACTCGTTAGTGCTTTGGTCAAGACACAGAGACCGA
1 ATCCCCCACTCATTAGTACTTTGGTCAAGACACAGAGACCGA
* * *
48044621 ATCCCCCACTCATTAGTACTTTGGTTAAGAGATAGAGACCG
1 ATCCCCCACTCATTAGTACTTTGGTCAAGACACAGAGACCG
48044662 GAAACGCACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (42 bp):
ATCCCCCACTCATTAGTACTTTGGTCAAGACACAGAGACCGA
Found at i:48049043 original size:43 final size:43
Alignment explanation
Indices: 48048982--48049135 Score: 166
Period size: 43 Copynumber: 3.6 Consensus size: 43
48048972 TACCGAGATA
* * *
48048982 TGATTACATGTAAGACCATTTCTGGGAAATTGGCATTGTATTG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTG
* * *
48049025 TGATTACGTGTAAGACCATGTCTGGGACATTGACATCGT-TATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TG
* * * * *
48049068 TGATTTCGTGTAAGACCATGTCTGGGACATTAGTATCGATAATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTG
* *
48049112 TGATAACATGTAAGACCATATCTG
1 TGATTACATGTAAGACCATGTCTG
48049136 AGATATGGCA
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 69 0.75
44 22 0.24
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTG
Found at i:48059547 original size:10 final size:9
Alignment explanation
Indices: 48059534--48059638 Score: 59
Period size: 10 Copynumber: 10.9 Consensus size: 9
48059524 ATAAAAAGAA
48059534 TTTATAACTT
1 TTTATAA-TT
*
48059544 TTTAGAATT
1 TTTATAATT
*
48059553 CTTAATAATT
1 -TTTATAATT
*
48059563 TTGATAATAT
1 TTTATAAT-T
*
48059573 TTTATAACTA
1 TTTATAA-TT
*
48059583 TTAATAATT
1 TTTATAATT
*
48059592 ATTAATAATT
1 -TTTATAATT
48059602 TTTATAATT
1 TTTATAATT
* *
48059611 TATAATTATT
1 T-TTATAATT
48059621 ATTTAATAA-T
1 -TTT-ATAATT
48059631 TTTATAAT
1 TTTATAAT
48059639 AATTTAAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
8 4 0.05
9 22 0.30
10 43 0.58
11 5 0.07
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (9 bp):
TTTATAATT
Found at i:48059575 original size:29 final size:29
Alignment explanation
Indices: 48059537--48059638 Score: 102
Period size: 29 Copynumber: 3.5 Consensus size: 29
48059527 AAAAGAATTT
* * *
48059537 ATAACTTTTTAGAATTCTTAATAATT-TTG
1 ATAA-TTTTTATAATTATTAATAATTATTA
*
48059566 ATAATATTTTATAACTATTAATAATTATTA
1 ATAAT-TTTTATAATTATTAATAATTATTA
*
48059596 ATAATTTTTATAATT-TATAATTATTATTTA
1 ATAATTTTTATAATTAT-TAATAATTA-TTA
48059626 ATAA-TTTTATAAT
1 ATAATTTTTATAAT
48059639 AATTTAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.03
29 47 0.75
30 14 0.22
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (29 bp):
ATAATTTTTATAATTATTAATAATTATTA
Found at i:48059577 original size:39 final size:39
Alignment explanation
Indices: 48059534--48059609 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
48059524 ATAAAAAGAA
* * *
48059534 TTTATAACTTTTTAGAATTCTTAATAATTTTGATAATAT
1 TTTATAACTATTAAGAATTATTAATAATTTTGATAATAT
* *
48059573 TTTATAACTATTAATAATTATTAATAATTTTTATAAT
1 TTTATAACTATTAAGAATTATTAATAATTTTGATAAT
48059610 TTATAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (39 bp):
TTTATAACTATTAAGAATTATTAATAATTTTGATAATAT
Done.