Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 60 of 109
Found at i:11931181 original size:6 final size:6
Alignment explanation
Indices: 11931170--11931283 Score: 88
Period size: 6 Copynumber: 17.7 Consensus size: 6
11931160 TTCTTCTTCA
*
11931170 TTTTAT TTTTAT TTTTATTT TTTGTAT TTTACAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTA--T TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT
* *
11931221 TTTTAT TTTTAT TATTAT TTTATAT ATGTATATAT TTTT-T TTCTTTT
1 TTTTAT TTTTAT TTTTAT TTT-TAT -T-T-T-TAT TTTTAT TT-TTAT
*
11931268 TTTTAT TATTAT TTTT
1 TTTTAT TTTTAT TTTT
11931284 TTATCTTAGG
Statistics
Matches: 90, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
5 8 0.09
6 51 0.57
7 16 0.18
8 6 0.07
9 4 0.04
10 5 0.06
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:11931298 original size:41 final size:41
Alignment explanation
Indices: 11931173--11931282 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 41
11931163 TTCTTCATTT
* * * * *
11931173 TATTTTTATTTTTA-TTTT-TT-GTATTTTACATTTTTATTT
1 TATTTTTATTTTTATTTTTATTATTATTTTATATATCTA-TA
*
11931212 TATTTTTATTTTTATTTTTATTATTATTTTATATATGTATA
1 TATTTTTATTTTTATTTTTATTATTATTTTATATATCTATA
*
11931253 TATTTTT-TTTCTTTTTTTTATTATTATTTT
1 TATTTTTATTT-TTATTTTTATTATTATTTT
11931283 TTTATCTTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
39 14 0.23
40 7 0.11
41 28 0.46
42 12 0.20
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (41 bp):
TATTTTTATTTTTATTTTTATTATTATTTTATATATCTATA
Found at i:11931384 original size:22 final size:21
Alignment explanation
Indices: 11931340--11931417 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 21
11931330 ATTATTTTTT
*
11931340 TCTGTTAATATTTATGTAA-TTA
1 TCTGTTAAT-TTT-TTTAATTTA
11931362 TCTGTT-ATTTAATTTTAATTTA
1 TCTGTTAATTT--TTTTAATTTA
* *
11931384 TTTGTTAATTTTTTTTATTTA
1 TCTGTTAATTTTTTTAATTTA
*
11931405 TCTGATTTATTTT
1 TCTG-TTAATTTT
11931418 CGTTTGATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
20 2 0.04
21 18 0.39
22 22 0.48
23 4 0.09
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.65
Consensus pattern (21 bp):
TCTGTTAATTTTTTTAATTTA
Found at i:11932302 original size:12 final size:12
Alignment explanation
Indices: 11932281--11932411 Score: 63
Period size: 12 Copynumber: 10.5 Consensus size: 12
11932271 TTTTTTTAAA
*
11932281 ATTTATTTATTT
1 ATTTTTTTATTT
*
11932293 ATTTTCTTATTT
1 ATTTTTTTATTT
*
11932305 GTTTTTTCTATTT
1 ATTTTTT-TATTT
*
11932318 ATTTTTTTATTAG
1 ATTTTTTTATT-T
**
11932331 ATTAGGTTTATTTAAT
1 ATT-TTTTTA-TT--T
*
11932347 ATTTTTTTATCT
1 ATTTTTTTATTT
*
11932359 -TTATTTTATTT
1 ATTTTTTTATTT
*
11932370 -TTATTTTCATTT
1 ATT-TTTTTATTT
11932382 -TTATTTTT-TTT
1 ATT-TTTTTATTT
*
11932393 ATTTTATTATTT
1 ATTTTTTTATTT
11932405 CATTTTT
1 -ATTTTT
11932412 ATTTTGTTTC
Statistics
Matches: 91, Mismatches: 19, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
11 18 0.20
12 39 0.43
13 19 0.21
14 5 0.05
15 6 0.07
16 4 0.04
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:11932361 original size:21 final size:20
Alignment explanation
Indices: 11932337--11932400 Score: 64
Period size: 19 Copynumber: 3.3 Consensus size: 20
11932327 TTAGATTAGG
11932337 TTTATTTAATATTTTTTTATC
1 TTTATTT-ATATTTTTTTATC
*
11932358 TTTATTT-TATTTTTATTTTC
1 TTTATTTATATTTTT-TTATC
*
11932378 ATT-TTTAT-TTTTTTTAT-
1 TTTATTTATATTTTTTTATC
11932395 TTTATT
1 TTTATT
11932401 ATTTCATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 15 0.42
20 7 0.19
21 7 0.19
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTATTTATATTTTTTTATC
Found at i:11932365 original size:11 final size:11
Alignment explanation
Indices: 11932337--11932416 Score: 76
Period size: 11 Copynumber: 7.2 Consensus size: 11
11932327 TTAGATTAGG
* *
11932337 TTTATTTAATA
1 TTTATTTTATT
*
11932348 TTT-TTTTATC
1 TTTATTTTATT
11932358 TTTATTTTATT
1 TTTATTTTATT
11932369 TTTATTTTCATT
1 TTTATTTT-ATT
11932381 TTTA-TTT-TT
1 TTTATTTTATT
11932390 TTTATTTTATT
1 TTTATTTTATT
11932401 ATTTCATTTTTATT
1 -TTT-A-TTTTATT
11932415 TT
1 TT
11932417 GTTTCATTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
9 6 0.10
10 11 0.19
11 22 0.37
12 10 0.17
13 3 0.05
14 7 0.12
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:11932371 original size:6 final size:6
Alignment explanation
Indices: 11932350--11932416 Score: 64
Period size: 6 Copynumber: 10.7 Consensus size: 6
11932340 ATTTAATATT
* * *
11932350 TTTTTA TCTTTA -TTTTA TTTTTA TTTTCA TTTTTA TTTTTTT TATTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA T-TTTTA
11932399 TTATTTCA TTTTTA TTTT
1 TT-TTT-A TTTTTA TTTT
11932417 GTTTCATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 4 0.08
6 27 0.54
7 16 0.32
8 3 0.06
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:11932406 original size:28 final size:28
Alignment explanation
Indices: 11932350--11932435 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 28
11932340 ATTTAATATT
11932350 TTTTTATCTTTATTTTATTTTTATTTTCA
1 TTTTTAT-TTTATTTTATTTTTATTTTCA
11932379 TTTTTATTTT-TTTTA-TTTTATTATTTCA
1 TTTTTATTTTATTTTATTTTTA-T-TTTCA
* *
11932407 TTTTTATTTTGTTTCATTATTCTATTTTC
1 TTTTTATTTTATTTTATT-TT-TATTTTC
11932436 TTTAAATAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
26 5 0.10
27 6 0.12
28 18 0.36
29 11 0.22
30 5 0.10
31 3 0.06
32 2 0.04
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (28 bp):
TTTTTATTTTATTTTATTTTTATTTTCA
Found at i:11932433 original size:24 final size:22
Alignment explanation
Indices: 11932358--11932439 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 22
11932348 TTTTTTTATC
11932358 TTTATTTTATTTTTATTTTCATT-
1 TTTA-TTT-TTTTTATTTTCATTA
11932381 TTTATTTTTTTTATTTT-ATTA
1 TTTATTTTTTTTATTTTCATTA
11932402 TTTCATTTTTATTT-TGTTTCATTA
1 TTT-ATTTTT-TTTAT-TTTCATTA
*
11932426 TTCTATTTTCTTTA
1 TT-TATTTTTTTTA
11932440 AATAAAAATA
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
20 3 0.06
21 13 0.25
22 10 0.20
23 13 0.25
24 11 0.22
25 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (22 bp):
TTTATTTTTTTTATTTTCATTA
Found at i:11932586 original size:117 final size:117
Alignment explanation
Indices: 11932450--11932845 Score: 546
Period size: 117 Copynumber: 3.4 Consensus size: 117
11932440 AATAAAAATA
* * *
11932450 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCTTTGAAAATCAAAGTTTTCAAAGA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAA
11932515 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
66 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** * *
11932567 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCCATTTTCCTTGAAAATCAAAGTTTCCAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAA
*
11932632 ATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAATTTTCC
66 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAATTTT-C
* * * *
11932686 AAAAAAAATATTTTTG-GAGAAAAATTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTTAAAA
1 -AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAA
* * **
11932749 AAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAA
64 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT-TC
* * *
11932804 AAAAAAAAAGTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
11932846 CTGCACAAAA
Statistics
Matches: 247, Mismatches: 24, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
116 34 0.14
117 103 0.42
118 14 0.06
119 20 0.08
120 76 0.31
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (117 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAA
ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:11932600 original size:58 final size:59
Alignment explanation
Indices: 11932450--11932845 Score: 473
Period size: 58 Copynumber: 6.7 Consensus size: 59
11932440 AATAAAAATA
* * * *
11932450 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCTTTGAAAATCAAAGTTTTC
1 AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAA-TTTTC
* * *
11932510 -AAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
1 AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
* * * *
11932567 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCCATTTTCCTTGAAAATCAAAGTTTC
1 AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
* * * * *
11932626 CAAAAAAT-ATTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAATTTTCC
1 AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATCAAATTTT-C
* * *
11932686 AAAAAAAATATTTTTG-GAGAAAAATTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTT
1 -AAAAAAATGTTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
**
11932745 AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTAAAA
1 AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTT--TC
* *
11932805 AAAAAAAAG-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
11932846 CTGCACAAAA
Statistics
Matches: 294, Mismatches: 32, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
57 5 0.02
58 130 0.44
59 99 0.34
60 16 0.05
61 13 0.04
62 31 0.11
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (59 bp):
AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
Found at i:11943884 original size:7 final size:7
Alignment explanation
Indices: 11943872--11943929 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
11943862 GAGCCATTTC
11943872 ATTTTTT
1 ATTTTTT
11943879 ATTTTTT
1 ATTTTTT
11943886 -TTTTTT
1 ATTTTTT
*
11943892 TTTTTTGT
1 ATTTTT-T
*
11943900 TTTTTATT
1 ATTTT-TT
11943908 AATTTTTT
1 -ATTTTTT
11943916 ATTTTTT
1 ATTTTTT
11943923 ATTTTTT
1 ATTTTTT
11943930 TAGTATTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
6 6 0.13
7 26 0.57
8 9 0.20
9 5 0.11
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.86
Consensus pattern (7 bp):
ATTTTTT
Found at i:11943913 original size:26 final size:25
Alignment explanation
Indices: 11943873--11943939 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
11943863 AGCCATTTCA
* * *
11943873 TTTTTTATTTTTTTTTTTTTTTTTT
1 TTTTTTATTATTTTTTATTTTTTAT
11943898 GTTTTTTATTAATTTTTTATTTTTTAT
1 -TTTTTTATT-ATTTTTTATTTTTTAT
*
11943925 TTTTTTAGTATTTTT
1 TTTTTTATTATTTTT
11943940 GTATGATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 6 0.17
26 17 0.47
27 13 0.36
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (25 bp):
TTTTTTATTATTTTTTATTTTTTAT
Found at i:11943939 original size:1 final size:1
Alignment explanation
Indices: 11943873--11943930 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
11943863 AGCCATTTCA
* * * ** * *
11943873 TTTTTTATTTTTTTTTTTTTTTTTTGTTTTTTATTAATTTTTTATTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11943931 AGTATTTTTG
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.10, C:0.00, G:0.02, T:0.88
Consensus pattern (1 bp):
T
Found at i:11949473 original size:23 final size:23
Alignment explanation
Indices: 11949443--11949486 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
11949433 AAAACCTTTG
11949443 AATGATGATCAAG-TGATGAAAAT
1 AATGATGATC-AGTTGATGAAAAT
11949466 AATGATGATCAGTTGATGAAA
1 AATGATGATCAGTTGATGAAA
11949487 CTTGTTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (23 bp):
AATGATGATCAGTTGATGAAAAT
Found at i:11949749 original size:20 final size:20
Alignment explanation
Indices: 11949724--11949778 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
11949714 TCTAAGTTGT
11949724 TGCATTTGCATCATTAACAA
1 TGCATTTGCATCATTAACAA
*
11949744 TGCATTTGCATCATTAAGAA
1 TGCATTTGCATCATTAACAA
*
11949764 GGCATTTGCATCATT
1 TGCATTTGCATCATT
11949779 GATCATGACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (20 bp):
TGCATTTGCATCATTAACAA
Found at i:11949867 original size:21 final size:21
Alignment explanation
Indices: 11949841--11949880 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11949831 AACCTTTTTT
*
11949841 ATGAGAGTCTTTGAATTTCTA
1 ATGAGAATCTTTGAATTTCTA
11949862 ATGAGAATCTTTGAATTTC
1 ATGAGAATCTTTGAATTTC
11949881 AAAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (21 bp):
ATGAGAATCTTTGAATTTCTA
Found at i:11949893 original size:21 final size:22
Alignment explanation
Indices: 11949846--11949896 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
11949836 TTTTTATGAG
* *
11949846 AGTCTTTGAATTTCTAATGAGA
1 AGTCTTTGAATTTCTAAAGAAA
11949868 A-TCTTTGAATTTC-AAAGAAA
1 AGTCTTTGAATTTCTAAAGAAA
11949888 AGTCTTTGA
1 AGTCTTTGA
11949897 GTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 19 0.73
22 1 0.04
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (22 bp):
AGTCTTTGAATTTCTAAAGAAA
Found at i:11950389 original size:42 final size:41
Alignment explanation
Indices: 11950294--11950851 Score: 554
Period size: 42 Copynumber: 13.4 Consensus size: 41
11950284 TCAATGAGTG
* *
11950294 ATTTATTTTTCCTAAAGTTATGGTTGCCTCTATTTAAAGAAGCA
1 ATTTATTTTT-C-AAAGTTAT-GTTGCCTCTATTTAGAGGAGCA
* * *
11950338 TTTTATTTTTCAAAGTTCTGTTGCATCTATTTAGAGGAGCA
1 ATTTATTTTTCAAAGTTATGTTGCCTCTATTTAGAGGAGCA
* * **
11950379 ATTTATTTTTTCAAAG-TCTGTTGCCTCTATTTATATAAGC-
1 ATTTA-TTTTTCAAAGTTATGTTGCCTCTATTTAGAGGAGCA
* * **
11950419 ATTTATTTTTTCAAAGTTTTGTTGCCTTTATTTAGATAAGCA
1 ATTTA-TTTTTCAAAGTTATGTTGCCTCTATTTAGAGGAGCA
* * *
11950461 ATTTATTTTTCTGAAG-T-T-TTACCTCTATTTAGATGAGCA
1 ATTTATTTTTC-AAAGTTATGTTGCCTCTATTTAGAGGAGCA
* * * *
11950500 ATTTATTTTTTCAAAGTTCTATTGCCTCTATTTAAAGGAAC-
1 ATTTA-TTTTTCAAAGTTATGTTGCCTCTATTTAGAGGAGCA
* *
11950541 ATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTATAGGAGCA
1 ATTTA-TTTTTCAAAGTTATGTTGCCTCTATTTAGAGGAGCA
* * * **
11950583 TTTTATTTTTCAAAGTTGTGTTTGCCTCTATTTAAAAAAGCA
1 ATTTATTTTTCAAAGTTATG-TTGCCTCTATTTAGAGGAGCA
* * * *
11950625 TTTTATTTTTCAAAGTTATAGTTGCCTTTATTTAGAAGAAC-
1 ATTTATTTTTCAAAGTTAT-GTTGCCTCTATTTAGAGGAGCA
*
11950666 ATTTATTTTTCCAAAGTTATGGTTGCCTCTATTTAAAGGAGCA
1 ATTTATTTTT-CAAAGTTAT-GTTGCCTCTATTTAGAGGAGCA
* * **
11950709 TTTTATTTTTTAAAGTTATAGTTGCCTCTATTTAGAGGAATA
1 ATTTATTTTTCAAAGTTAT-GTTGCCTCTATTTAGAGGAGCA
*
11950751 ATTTATTTTTCAAAGTTATGGTTGTCTCTATTTAGAGGAGCA
1 ATTTATTTTTCAAAGTTAT-GTTGCCTCTATTTAGAGGAGCA
* * * *
11950793 TTTTATTTTTCAAAGTTATGGCTACCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAGTTAT-GTTGCCTCTATTTAGAGGAGCA
*
11950835 ATTTATTTTACAAAGTT
1 ATTTATTTTTCAAAGTT
11950852 GTTGTATCTC
Statistics
Matches: 441, Mismatches: 60, Indels: 28
0.83 0.11 0.05
Matches are distributed among these distances:
39 26 0.06
40 24 0.05
41 133 0.30
42 238 0.54
43 11 0.02
44 9 0.02
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (41 bp):
ATTTATTTTTCAAAGTTATGTTGCCTCTATTTAGAGGAGCA
Found at i:11951148 original size:12 final size:11
Alignment explanation
Indices: 11951128--11951157 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
11951118 CTTTATTTTA
11951128 TTTTTTTTCTT
1 TTTTTTTTCTT
11951139 TTTCTTTTTCTT
1 TTT-TTTTTCTT
11951151 TTTTTTT
1 TTTTTTT
11951158 CATTTTAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:11951858 original size:8 final size:8
Alignment explanation
Indices: 11951829--11951887 Score: 73
Period size: 8 Copynumber: 6.9 Consensus size: 8
11951819 AGCCGTTTCA
11951829 TTTTTTAT
1 TTTTTTAT
11951837 TTCTTTTAT
1 TT-TTTTAT
*
11951846 TTTTTATTT
1 TTTTT-TAT
11951855 TTTTTGGTAT
1 TTTTT--TAT
11951865 TTTTTTAT
1 TTTTTTAT
11951873 TTTTTTAT
1 TTTTTTAT
11951881 TTTTTTA
1 TTTTTTA
11951888 GTATTTTTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
8 23 0.51
9 15 0.33
10 7 0.16
ACGTcount: A:0.12, C:0.02, G:0.03, T:0.83
Consensus pattern (8 bp):
TTTTTTAT
Found at i:11951870 original size:27 final size:27
Alignment explanation
Indices: 11951834--11951895 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
11951824 TTTCATTTTT
*
11951834 TATTTCTTTTA-TTTTTTATTTTTTTTGG
1 TATTT-TTTTATTTTTTTA-TTTTTTTAG
11951862 TATTTTTTTATTTTTTTATTTTTTTAG
1 TATTTTTTTATTTTTTTATTTTTTTAG
11951889 TATTTTT
1 TATTTTT
11951896 GCATGATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.81
Consensus pattern (27 bp):
TATTTTTTTATTTTTTTATTTTTTTAG
Found at i:11953079 original size:52 final size:52
Alignment explanation
Indices: 11953021--11953126 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
11953011 TTATTAAATC
11953021 TAGCTATAGATTTACAAATCTATATGTTATGATAGTCGTATTAAAAGATGTT
1 TAGCTATAGATTTACAAATCTATATGTTATGATAGTCGTATTAAAAGATGTT
*
11953073 TAGCTATAGATTTACGAATCTATATGTTATGATAGTCGTATTAAAAGATGTT
1 TAGCTATAGATTTACAAATCTATATGTTATGATAGTCGTATTAAAAGATGTT
11953125 TA
1 TA
11953127 CTCATAATTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.41
Consensus pattern (52 bp):
TAGCTATAGATTTACAAATCTATATGTTATGATAGTCGTATTAAAAGATGTT
Found at i:11953442 original size:47 final size:48
Alignment explanation
Indices: 11953373--11953487 Score: 196
Period size: 47 Copynumber: 2.4 Consensus size: 48
11953363 TCTTGGTTAA
11953373 TTTGTAAAAGGTGATAATTATTTTTCTTCTACTCACAAATGATTTTT-
1 TTTGTAAAAGGTGATAATTATTTTTCTTCTACTCACAAATGATTTTTC
11953420 TTTGTAAAAGGTGATAATTATTTTTCTTCTACTCACAAATGATTTTTC
1 TTTGTAAAAGGTGATAATTATTTTTCTTCTACTCACAAATGATTTTTC
* **
11953468 TTTCTAAAAGACGATAATTA
1 TTTGTAAAAGGTGATAATTA
11953488 ACAGATGGCT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
47 47 0.73
48 17 0.27
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.46
Consensus pattern (48 bp):
TTTGTAAAAGGTGATAATTATTTTTCTTCTACTCACAAATGATTTTTC
Found at i:11954033 original size:19 final size:19
Alignment explanation
Indices: 11953989--11954033 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
11953979 CCAAAAAAAT
* **
11953989 ATTTTTTTGAAAAATGTTT
1 ATTTTTTTGAAAAATATAG
*
11954008 ATATTTTTGAAAAATATAG
1 ATTTTTTTGAAAAATATAG
11954027 ATTTTTT
1 ATTTTTT
11954034 ATTATTTTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (19 bp):
ATTTTTTTGAAAAATATAG
Found at i:11954155 original size:17 final size:17
Alignment explanation
Indices: 11954130--11954172 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
11954120 ACTATTAAAA
* *
11954130 TATTAAAAATCATTTTT
1 TATTTAAAATCATTTAT
*
11954147 TATTTAAAATGATTTAT
1 TATTTAAAATCATTTAT
11954164 TA-TTAAAAT
1 TATTTAAAAT
11954173 TATTAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TATTTAAAATCATTTAT
Found at i:11954430 original size:17 final size:17
Alignment explanation
Indices: 11954406--11954580 Score: 105
Period size: 17 Copynumber: 11.1 Consensus size: 17
11954396 TTTTAATAAT
*
11954406 TATT-ATATTATTACAA
1 TATTCATATTATTAAAA
*
11954422 TATTCATATTATGAAAA
1 TATTCATATTATTAAAA
*
11954439 TATTCTTATTATTAAAA
1 TATTCATATTATTAAAA
* *
11954456 -ATTTCATAATACT-AAA
1 TA-TTCATATTATTAAAA
11954472 -A---ATATTATTAAAA
1 TATTCATATTATTAAAA
* *
11954485 TATT-TTTTTATT-AAA
1 TATTCATATTATTAAAA
** *
11954500 TCATTTTTGTTATTAAAA
1 T-ATTCATATTATTAAAA
11954518 TATTCATATTATTAAAA
1 TATTCATATTATTAAAA
*
11954535 TA---ATAGTATT-AAA
1 TATTCATATTATTAAAA
11954548 TA-T--TATTATTAAAA
1 TATTCATATTATTAAAA
11954562 TATTCATATT-TTCAAAA
1 TATTCATATTATT-AAAA
11954579 TA
1 TA
11954581 AAATTATTAT
Statistics
Matches: 127, Mismatches: 17, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.05
13 14 0.11
14 13 0.10
15 5 0.04
16 20 0.16
17 65 0.51
18 4 0.03
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (17 bp):
TATTCATATTATTAAAA
Found at i:11954571 original size:14 final size:14
Alignment explanation
Indices: 11954509--11954565 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
11954499 ATCATTTTTG
11954509 TTATTAAAATATTCATA
1 TTATTAAAATA-T--TA
*
11954526 TTATTAAAATAATA
1 TTATTAAAATATTA
*
11954540 GTATT-AAATATTA
1 TTATTAAAATATTA
11954553 TTATTAAAATATT
1 TTATTAAAATATT
11954566 CATATTTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 11 0.31
14 13 0.37
17 11 0.31
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
TTATTAAAATATTA
Found at i:11954615 original size:18 final size:19
Alignment explanation
Indices: 11954575--11954619 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
11954565 TCATATTTTC
* *
11954575 AAAATAAAATTATTATATT
1 AAAATAATATTATCATATT
11954594 -AAATAATATTATCA-ATT
1 AAAATAATATTATCATATT
11954611 AAAATAATA
1 AAAATAATA
11954620 AAATATTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATAATATTATCATATT
Found at i:11961350 original size:13 final size:13
Alignment explanation
Indices: 11961307--11961351 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
11961297 CTATATATGT
*
11961307 AATTAATATTAAA
1 AATTATTATTAAA
* *
11961320 AATTATAATT-AT
1 AATTATTATTAAA
11961332 AATTATTATTAAA
1 AATTATTATTAAA
11961345 AATTATT
1 AATTATT
11961352 TGACAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTATTATTAAA
Found at i:11966222 original size:26 final size:25
Alignment explanation
Indices: 11966190--11966246 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
11966180 AAAATATTAA
11966190 AAATTATTTATGAATAAAATGTATTC
1 AAATTATTTATGAATAAAAT-TATTC
* *
11966216 AAATTATTTATTATTAAAATTATTC
1 AAATTATTTATGAATAAAATTATTC
*
11966241 ATATTA
1 AAATTA
11966247 AAAATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
AAATTATTTATGAATAAAATTATTC
Found at i:11966235 original size:16 final size:16
Alignment explanation
Indices: 11966211--11966284 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
11966201 GAATAAAATG
*
11966211 TATTCAAATTATTTAT
1 TATTAAAATTATTTAT
*
11966227 TATTAAAATTATTCA-
1 TATTAAAATTATTTAT
11966242 TATTAAAA--ATTTAT
1 TATTAAAATTATTTAT
* *
11966256 ATTTTAATAATAATATTTAA
1 -TATTAA-AAT--TATTTAT
11966276 TATTAAAAT
1 TATTAAAAT
11966285 ATTATGTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
13 4 0.09
15 13 0.29
16 15 0.33
18 3 0.07
19 5 0.11
20 5 0.11
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTAAAATTATTTAT
Found at i:11966364 original size:28 final size:28
Alignment explanation
Indices: 11966322--11966388 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
11966312 TATATTTTTT
11966322 ATTTATATTAATA-TTTTAAAATATTTA
1 ATTTATATTAATATTTTTAAAATATTTA
*
11966349 ATTTAATATTACTATTTTTAAAATA-TT-
1 ATTT-ATATTAATATTTTTAAAATATTTA
11966376 ATTT-TATTAATAT
1 ATTTATATTAATAT
11966389 AATAATAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 8 0.22
27 8 0.22
28 10 0.28
29 10 0.28
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTTATATTAATATTTTTAAAATATTTA
Found at i:11967866 original size:17 final size:18
Alignment explanation
Indices: 11967844--11967881 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11967834 ATTTTTAATG
11967844 TTAAAAAAT-AAAAAAAT
1 TTAAAAAATAAAAAAAAT
*
11967861 TTAAAATATAAAAAAAAT
1 TTAAAAAATAAAAAAAAT
11967879 TTA
1 TTA
11967882 GATGTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAAATAAAAAAAAT
Found at i:11968412 original size:17 final size:16
Alignment explanation
Indices: 11968383--11968429 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
11968373 TTTCTTTCCT
11968383 TTTATTTTTATTTGTA-
1 TTTATTTTTATTT-TAC
11968399 TTTATTTATTATTTTAC
1 TTTATTT-TTATTTTAC
*
11968416 TTTATTTTGATTTT
1 TTTATTTTTATTTT
11968430 GGTTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTATTTTTATTTTAC
Found at i:11969655 original size:18 final size:17
Alignment explanation
Indices: 11969609--11969656 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
11969599 AACAAAGTTG
* *
11969609 TAAATAAACAAGAATAAA
1 TAAATAAA-AATATTAAA
11969627 TAAATAAAAATATTAAA
1 TAAATAAAAATATTAAA
11969644 TAAAATAAAAATA
1 T-AAATAAAAATA
11969657 AAGTAGCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
TAAATAAAAATATTAAA
Found at i:11970073 original size:42 final size:43
Alignment explanation
Indices: 11969985--11970304 Score: 192
Period size: 43 Copynumber: 7.4 Consensus size: 43
11969975 AAGCCTTCTA
* * * * * *
11969985 AAATTTTAAAAAGTTGTTGAACCTCTATTTA-AATAAGCCTTCC
1 AAATTTTTAAAAGTTATCGAACCTCTATTTAGAA-GAGCTTTTC
11970028 AAATTTTTAAAA-TTATCGAACCTCTATTTAGAAGAGCTTTTC
1 AAATTTTTAAAAGTTATCGAACCTCTATTTAGAAGAGCTTTTC
* * *
11970070 AAATTTTCTAAAAGTTATCGAGCCTTTATTTAGAAGAACCTTTT-
1 AAATTTT-TAAAAGTTATCGAACCTCTATTTAGAAG-AGCTTTTC
* * * *
11970114 AAATTTTTTAAAAGTTGTCGACCCTCTACTTT-GAGGAGCATTTC
1 AAA-TTTTTAAAAGTTATCGAACCTCTA-TTTAGAAGAGCTTTTC
* ** *
11970158 AAATTTTTAAACGTTATCGAGTCTCTATTTTAG-AGAAGCCTTTC
1 AAATTTTTAAAAGTTATCGAACCTCTA-TTTAGAAG-AGCTTTTC
* * * ** * *
11970202 TAATTTTCAAACA-TTGTC-AAGTTTTACTTAGAAGAGCCTTTT-
1 AAATTTTTAAA-AGTTATCGAACCTCTATTTAGAAGAG-CTTTTC
* * * * * *
11970244 AAAATTTTAAAAGTTGTCAAACCT-TAGTTTAGATG-GACATTTA
1 AAATTTTTAAAAGTTATCGAACCTCTA-TTTAGAAGAG-CTTTTC
*
11970287 AAATTTTTAAAAATTATC
1 AAATTTTTAAAAGTTATC
11970305 AAGCTTCTGT
Statistics
Matches: 217, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
41 1 0.00
42 55 0.25
43 81 0.37
44 67 0.31
45 13 0.06
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (43 bp):
AAATTTTTAAAAGTTATCGAACCTCTATTTAGAAGAGCTTTTC
Found at i:11970103 original size:130 final size:129
Alignment explanation
Indices: 11969968--11970267 Score: 299
Period size: 130 Copynumber: 2.3 Consensus size: 129
11969958 CAAGTTTATC
* * * *
11969968 TTTAGAGAAGCCTTCTAAAATTTTAAAAAGTTGTTGAACCTCTA-TTTAAATAAGCCTTCCAAAT
1 TTTAGAGAAGCCTTTTAAAATTTT-AAAAGTTGTCGAACCTCTACTTT-AAGAAGCATTCCAAAT
* *
11970032 TTTTAAA-ATTATCGAACCTCTA-TTTAGA-AGAGCTTTTCAAATTTTCTAAA-AGTTATCGAGC
64 TTTTAAACATTATCGAACCTCTATTTTAGAGA-AGCCTTTCAAATTTTC-AAACA-TTATCAAG-
11970093 CTTTA
125 CTTTA
* * * * *
11970098 TTTAGAAGAA-CCTTTTAAATTTTTTAAAAGTTGTCGACCCTCTACTTTGAGGAGCATTTCAAAT
1 TTTAG-AGAAGCCTTTTAAA-ATTTTAAAAGTTGTCGAACCTCTACTTTAAGAAGCATTCCAAAT
* ** * * *
11970162 TTTTAAACGTTATCGAGTCTCTATTTTAGAGAAGCCTTTCTAATTTTCAAACATTGTCAAGTTTT
64 TTTTAAACATTATCGAACCTCTATTTTAGAGAAGCCTTTCAAATTTTCAAACATTATCAAGCTTT
11970227 A
129 A
* *
11970228 CTTAGA-AGAGCCTTTTAAAATTTTAAAAGTTGTCAAACCT
1 TTTAGAGA-AGCCTTTTAAAATTTTAAAAGTTGTCGAACCT
11970268 TAGTTTAGAT
Statistics
Matches: 140, Mismatches: 21, Indels: 19
0.78 0.12 0.11
Matches are distributed among these distances:
128 1 0.01
129 20 0.14
130 65 0.46
131 32 0.23
132 21 0.15
133 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (129 bp):
TTTAGAGAAGCCTTTTAAAATTTTAAAAGTTGTCGAACCTCTACTTTAAGAAGCATTCCAAATTT
TTAAACATTATCGAACCTCTATTTTAGAGAAGCCTTTCAAATTTTCAAACATTATCAAGCTTTA
Found at i:11970207 original size:44 final size:43
Alignment explanation
Indices: 11969968--11970208 Score: 220
Period size: 44 Copynumber: 5.5 Consensus size: 43
11969958 CAAGTTTATC
* * * * *
11969968 TTTAGAGAAGCCTTCTAAAATTTTAAAAAGTTGTTGAACCTCTA
1 TTTAGAGAAGCCTT-TCAAATTTTTAAAAGTTATCGAGCCTCTA
* * * *
11970012 TTTAAATAAGCCTTCCAAATTTTTAAAA-TTATCGAACCTCTA
1 TTTAGAGAAGCCTTTCAAATTTTTAAAAGTTATCGAGCCTCTA
* *
11970054 TTTAGA-AGAGCTTTTCAAATTTTCTAAAAGTTATCGAGCCTTTA
1 TTTAGAGA-AGCCTTTCAAATTTT-TAAAAGTTATCGAGCCTCTA
* * *
11970098 TTTAGAAGAA-CCTTTTAAATTTTTTAAAAGTTGTCGACCCTCTA
1 TTTAG-AGAAGCCTTTCAAA-TTTTTAAAAGTTATCGAGCCTCTA
* * * *
11970142 CTTT-GAGGAGCATTTCAAATTTTTAAACGTTATCGAGTCTCTA
1 -TTTAGAGAAGCCTTTCAAATTTTTAAAAGTTATCGAGCCTCTA
*
11970185 TTTTAGAGAAGCCTTTCTAATTTT
1 -TTTAGAGAAGCCTTTCAAATTTT
11970209 CAAACATTGT
Statistics
Matches: 160, Mismatches: 28, Indels: 18
0.78 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 30 0.19
43 42 0.26
44 77 0.48
45 9 0.06
46 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.40
Consensus pattern (43 bp):
TTTAGAGAAGCCTTTCAAATTTTTAAAAGTTATCGAGCCTCTA
Found at i:11970276 original size:43 final size:43
Alignment explanation
Indices: 11969937--11970298 Score: 210
Period size: 44 Copynumber: 8.3 Consensus size: 43
11969927 AGTAAAATGA
* *
11969937 TTTAAATTTTTAAAAAGTTGTC-AA-GTTTATCTTTAG-AGAAGCCT
1 TTTAAATTTTT-AAAAGTTGTCGAACCTCTA--TTTAGAAG-AGCCT
* * * *
11969981 TCTAAAATTTTAAAAAGTTGTTGAACCTCTATTTA-AATAAGCCT
1 T-TTAAATTTTTAAAAGTTGTCGAACCTCTATTTAGAA-GAGCCT
** *
11970025 TCCAAATTTTTAAAA-TTATCGAACCTCTATTTAGAAGAG-CT
1 TTTAAATTTTTAAAAGTTGTCGAACCTCTATTTAGAAGAGCCT
* * * *
11970066 TTTCAAATTTTCTAAAAGTTATCGAGCCTTTATTTAGAAGAACCT
1 TTT-AAATTTT-TAAAAGTTGTCGAACCTCTATTTAGAAGAGCCT
* * *
11970111 TTTAAATTTTTTAAAAGTTGTCGACCCTCTACTTT-GAGGAGCAT
1 TTTAAA-TTTTTAAAAGTTGTCGAACCTCTA-TTTAGAAGAGCCT
* * * **
11970155 TTCAAATTTTTAAACGTTATCGAGTCTCTATTTTAG-AGAAGCCT
1 TTTAAATTTTTAAAAGTTGTCGAACCTCTA-TTTAGAAG-AGCCT
* ** * *
11970199 TTCT-AATTTTCAAACA-TTGTC-AAGTTTTACTTAGAAGAGCCT
1 TT-TAAATTTTTAAA-AGTTGTCGAACCTCTATTTAGAAGAGCCT
* * * *
11970241 TTTAAAATTTTAAAAGTTGTCAAACCT-TAGTTTAGATG-GACAT
1 TTTAAATTTTTAAAAGTTGTCGAACCTCTA-TTTAGAAGAG-CCT
*
11970284 TTAAAATTTTTAAAA
1 TTTAAATTTTTAAAA
11970299 ATTATCAAGC
Statistics
Matches: 247, Mismatches: 49, Indels: 45
0.72 0.14 0.13
Matches are distributed among these distances:
41 5 0.02
42 52 0.21
43 72 0.29
44 93 0.38
45 22 0.09
46 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (43 bp):
TTTAAATTTTTAAAAGTTGTCGAACCTCTATTTAGAAGAGCCT
Found at i:11970620 original size:12 final size:11
Alignment explanation
Indices: 11970594--11970652 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
11970584 ATAATTTTTG
*
11970594 TTTCCTTTTAT
1 TTTCATTTTAT
11970605 TTTCATTTTCAT
1 TTTCATTTT-AT
11970617 TTTCA-TTTAT
1 TTTCATTTTAT
* *
11970627 TTATTATTTTAC
1 TT-TCATTTTAT
11970639 TTT-ATTTTTAT
1 TTTCA-TTTTAT
11970650 TTT
1 TTT
11970653 GTATTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.12
11 22 0.55
12 13 0.32
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTCATTTTAT
Found at i:11970635 original size:17 final size:16
Alignment explanation
Indices: 11970599--11970652 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
11970589 TTTTGTTTCC
* *
11970599 TTTTATTTTCATTTTCA
1 TTTTACTTT-ATTTTTA
11970616 TTTT-CATTTATTTATTA
1 TTTTAC-TTTATTT-TTA
11970633 TTTTACTTTATTTTTA
1 TTTTACTTTATTTTTA
11970649 TTTT
1 TTTT
11970653 GTATTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 11 0.34
17 20 0.62
18 1 0.03
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTACTTTATTTTTA
Found at i:11970659 original size:7 final size:6
Alignment explanation
Indices: 11970599--11970672 Score: 50
Period size: 6 Copynumber: 12.7 Consensus size: 6
11970589 TTTTGTTTCC
* * * *
11970599 TTTTAT TTTCAT TTTCAT TTTCA- -TTTAT TTATTA- TTTTA- CTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT
11970644 TTTTAT TTTGTAT TTTT-T TTTTAT CTTTT
1 TTTTAT TTT-TAT TTTTAT TTTTAT -TTTT
11970673 CTTGCTTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
4 3 0.05
5 12 0.21
6 29 0.51
7 13 0.23
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:11971681 original size:20 final size:22
Alignment explanation
Indices: 11971642--11971686 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
11971632 TATATTTATT
11971642 ATTTTTATATCTATTTTTTGTG
1 ATTTTTATATCTATTTTTTGTG
*
11971664 ATTTTTAT-TTTATTTTTGTGTG
1 ATTTTTATATCTATTTTT-TGTG
11971686 A
1 A
11971687 ACTTTAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.69
Consensus pattern (22 bp):
ATTTTTATATCTATTTTTTGTG
Found at i:11972175 original size:21 final size:20
Alignment explanation
Indices: 11972150--11972205 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
11972140 GAATCTTTTC
11972150 AATAAAATATTAAAAATGAAT
1 AATAAAATATTAAAAATG-AT
11972171 AATAAAA-ATTATAAAATGAT
1 AATAAAATATTA-AAAATGAT
*
11972191 AAAAAAATA-TAAAAA
1 AATAAAATATTAAAAA
11972206 CACTTAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.12
20 14 0.44
21 14 0.44
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (20 bp):
AATAAAATATTAAAAATGAT
Found at i:11977310 original size:14 final size:15
Alignment explanation
Indices: 11977291--11977338 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 15
11977281 TGGTAAAATA
*
11977291 TTTTTATCTT-TATT
1 TTTTTATATTATATT
11977305 TTTTTATATTATATTT
1 TTTTTATATTATA-TT
11977321 ATTTTTATATTTATATT
1 -TTTTTATA-TTATATT
11977338 T
1 T
11977339 AATGGGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 9 0.31
15 2 0.07
16 3 0.10
17 10 0.34
18 5 0.17
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTATATTATATT
Found at i:11977321 original size:19 final size:18
Alignment explanation
Indices: 11977293--11977339 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
11977283 GTAAAATATT
* *
11977293 TTTATCTTTATTTTTTTA
1 TTTATATTTATTTTTATA
11977311 TATTATATTTATTTTTATA
1 T-TTATATTTATTTTTATA
11977330 TTTATATTTA
1 TTTATATTTA
11977340 ATGGGTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATATTTATTTTTATA
Found at i:11977322 original size:6 final size:6
Alignment explanation
Indices: 11977307--11977339 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
11977297 TCTTTATTTT
*
11977307 TTTATA -TTATA TTTATT TTTATA TTTATA TTTA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTA
11977340 ATGGGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTATA
Found at i:11977566 original size:20 final size:21
Alignment explanation
Indices: 11977528--11977569 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
11977518 ATAAATCTAA
11977528 AAAAAACTTATATTGTTAAAT
1 AAAAAACTTATATTGTTAAAT
11977549 AAAAAA-TTA-ATTGATTAAAT
1 AAAAAACTTATATTG-TTAAAT
11977569 A
1 A
11977570 TATATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAAAACTTATATTGTTAAAT
Found at i:11977950 original size:61 final size:61
Alignment explanation
Indices: 11977876--11978041 Score: 278
Period size: 61 Copynumber: 2.7 Consensus size: 61
11977866 ATTAAAAGTG
* *
11977876 TTTTTGACCAAAAATACTTTCAATAATCCATTCAAAAAATTTTGGAGAGATTATTAAGGTA
1 TTTTCGACAAAAAATACTTTCAATAATCCATTCAAAAAATTTTGGAGAGATTATTAAGGTA
*
11977937 TTTTCGACAAAAAATACTTTCAATAATCCATTCAAAAAATTTTGGAGAGATTATTGAGGTA
1 TTTTCGACAAAAAATACTTTCAATAATCCATTCAAAAAATTTTGGAGAGATTATTAAGGTA
* *
11977998 TTTTCGACAAAAAATACCTTCAATAATCTATTCAAAAAAATTTT
1 TTTTCGACAAAAAATACTTTCAATAATCCATTC-AAAAAATTTT
11978042 TACATGGATT
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
61 89 0.90
62 10 0.10
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.36
Consensus pattern (61 bp):
TTTTCGACAAAAAATACTTTCAATAATCCATTCAAAAAATTTTGGAGAGATTATTAAGGTA
Found at i:11978362 original size:62 final size:63
Alignment explanation
Indices: 11978276--11978423 Score: 178
Period size: 64 Copynumber: 2.4 Consensus size: 63
11978266 CTATTGGCTA
* * * *
11978276 ACAAAAAA--TTGAATGAGATTATTGAATACGTTTTTTG-C-AAAATGCCTTAAAAAATTCAT
1 ACAAAAAATTTTGAAGGAGATTATTGAAGACGTTTTTGGCCAAAAATACCTTAAAAAATTCAT
* * * *
11978335 TCAAAAAATTTTGAAGAGAGATTATTGAAGATGTTTTTGGCCAAAAATACCTTTAATAATTCAT
1 ACAAAAAATTTTGAAG-GAGATTATTGAAGACGTTTTTGGCCAAAAATACCTTAAAAAATTCAT
*
11978399 ACAAAAAATTTTGAAGGGGATTATT
1 ACAAAAAATTTTGAAGGAGATTATT
11978424 AAAGGTATTT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
59 7 0.09
61 5 0.07
62 20 0.27
63 9 0.12
64 33 0.45
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (63 bp):
ACAAAAAATTTTGAAGGAGATTATTGAAGACGTTTTTGGCCAAAAATACCTTAAAAAATTCAT
Found at i:11978444 original size:63 final size:65
Alignment explanation
Indices: 11978314--11978458 Score: 177
Period size: 64 Copynumber: 2.3 Consensus size: 65
11978304 CGTTTTTTGC
* * * * *
11978314 AAAATGCCTTAAAAAATTCATTCAAAAAATTTTGAAGAGAGATTATTGAAGATGTTTTTGGC-CA
1 AAAATGCCTTAAATAATTCATACAAAAAATTTTGAAGAGAGATTATTAAAGATATTTTTGGCAAA
* * * * *
11978378 AAAATACCTTTAATAATTCATACAAAAAATTTTGAAG-GGGATTATTAAAGGTATTTTTGTCAAA
1 AAAATGCCTTAAATAATTCATACAAAAAATTTTGAAGAGAGATTATTAAAGATATTTTTGGCAAA
*
11978442 AAAATGCCTTCAATAAT
1 AAAATGCCTTAAATAAT
11978459 CCCTCATAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
63 19 0.28
64 49 0.72
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (65 bp):
AAAATGCCTTAAATAATTCATACAAAAAATTTTGAAGAGAGATTATTAAAGATATTTTTGGCAAA
Found at i:11978470 original size:64 final size:64
Alignment explanation
Indices: 11978336--11978473 Score: 154
Period size: 64 Copynumber: 2.2 Consensus size: 64
11978326 AAAATTCATT
* * * * *
11978336 CAAAAAATTTTGAAGAGAGATTATTGAAGATGTTTTTGGCCAAAAATACCTTTAATAATTCATA
1 CAAAAAATTTTGAAGAGAGATTATTAAAGATATTTTTGGCAAAAAATACCTTCAATAATCCATA
* * * * *
11978400 CAAAAAATTTTGAAG-GGGATTATTAAAGGTATTTTTGTCAAAAAAATGCCTTCAATAATCCCT-
1 CAAAAAATTTTGAAGAGAGATTATTAAAGATATTTTTGGC-AAAAAATACCTTCAATAATCCATA
11978463 CATAAAAATTT
1 CA-AAAAATTT
11978474 ATTAAGGGAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 21 0.34
64 41 0.66
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (64 bp):
CAAAAAATTTTGAAGAGAGATTATTAAAGATATTTTTGGCAAAAAATACCTTCAATAATCCATA
Found at i:11983762 original size:3 final size:3
Alignment explanation
Indices: 11983754--11983781 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11983744 ATCTAGTCAC
11983754 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11983782 ATAACTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11984109 original size:18 final size:19
Alignment explanation
Indices: 11984074--11984116 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
11984064 ATTTTTATTT
*
11984074 TATAAAAATTTAAAAAATA
1 TATAAAAATCTAAAAAATA
*
11984093 TATAAAAA-CTAAGAAATA
1 TATAAAAATCTAAAAAATA
11984111 TATAAA
1 TATAAA
11984117 GTTTGATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
TATAAAAATCTAAAAAATA
Found at i:11990198 original size:19 final size:19
Alignment explanation
Indices: 11990170--11990211 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11990160 AATAAGTCGC
*
11990170 ATATTGAAATTAAAAAAAT
1 ATATTAAAATTAAAAAAAT
* *
11990189 ATATTAAAATTTAAAACAT
1 ATATTAAAATTAAAAAAAT
11990208 ATAT
1 ATAT
11990212 ATATATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATTAAAATTAAAAAAAT
Found at i:12012921 original size:2 final size:2
Alignment explanation
Indices: 12012914--12012948 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12012904 ACCAAGATTG
12012914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12012949 CTTAGTTGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12013165 original size:7 final size:7
Alignment explanation
Indices: 12013142--12013183 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
12013132 ATATGAATAT
12013142 GAAACAAA
1 GAAA-AAA
12013150 GAGAAAAA
1 GA-AAAAA
12013158 GAAAAAA
1 GAAAAAA
*
12013165 GAAAAAG
1 GAAAAAA
12013172 GAAAAAA
1 GAAAAAA
12013179 GAAAA
1 GAAAA
12013184 GAAAAGGACG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 22 0.71
8 7 0.23
9 2 0.06
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:12013175 original size:14 final size:13
Alignment explanation
Indices: 12013151--12013188 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
12013141 TGAAACAAAG
12013151 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
12013164 AGAAAAAGGAAAAA
1 AGAAAAA-GAAAAA
12013178 AG-AAAAGAAAA
1 AGAAAAAGAAAA
12013189 GGACGGTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 11 0.46
14 8 0.33
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:12033110 original size:20 final size:21
Alignment explanation
Indices: 12033082--12033120 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12033072 CACATATAAT
12033082 AAATATA-TTATATTCATTTTA
1 AAATATATTTATA-TCATTTTA
12033103 AAAT-TATTTATATCATTT
1 AAATATATTTATATCATTT
12033121 AAATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATATATTTATATCATTTTA
Found at i:12033127 original size:17 final size:18
Alignment explanation
Indices: 12033081--12033133 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 18
12033071 ACACATATAA
12033081 TAAATATATTATATTCATTT
1 TAAATAT-TTATA-TCATTT
12033101 TAAAATTATTTATATCA-TT
1 T-AAA-TATTTATATCATTT
12033120 TAAATATTTATATC
1 TAAATATTTATATC
12033134 GTATCCTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.32
18 3 0.10
19 3 0.10
20 4 0.13
21 8 0.26
22 3 0.10
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TAAATATTTATATCATTT
Found at i:12033986 original size:166 final size:166
Alignment explanation
Indices: 12033712--12034044 Score: 594
Period size: 166 Copynumber: 2.0 Consensus size: 166
12033702 GCAAGGGGTA
12033712 TATTTTCTTAATATTGAAACTCGGGTGGGAACTATATGCATTGGAAACTCTTCTTTTGCGATTAA
1 TATTTTCTTAATATTGAAACTCGGGTGGGAACTATATGCATTGGAAACTCTTCTTTTGCGATTAA
12033777 ACTGCAAAAAACGAGCAACTCGACAAGAGCCCTGCAAAACCCTTAGACAGAAAACCTTCAACTGC
66 ACTGCAAAAAACGAGCAACTCGACAAGAGCCCTGCAAAACCCTTAGACAGAAAACCTTCAACTGC
* *
12033842 ACATGGAGACTTGGAAGAACCCATTGGACTACTGTG
131 ACACGGAGACTTGGAAGAACCCATTGGACTACCGTG
* * *
12033878 TATTTTCTTAATATTGAAACTCGGGTGGGAGCTATATGTATTGGAAACTCTTCTTTTGCGGTTAA
1 TATTTTCTTAATATTGAAACTCGGGTGGGAACTATATGCATTGGAAACTCTTCTTTTGCGATTAA
* **
12033943 ACTGCAAAAAACGAGCAACTCGACGAGAGCCCTGCAAAACCCTTAGACAGGCAACCTTCAACTGC
66 ACTGCAAAAAACGAGCAACTCGACAAGAGCCCTGCAAAACCCTTAGACAGAAAACCTTCAACTGC
12034008 ACACGGAGACTTGGAAGAACCCATTGGACTACCGTG
131 ACACGGAGACTTGGAAGAACCCATTGGACTACCGTG
12034044 T
1 T
12034045 TTAACAACTT
Statistics
Matches: 159, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
166 159 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (166 bp):
TATTTTCTTAATATTGAAACTCGGGTGGGAACTATATGCATTGGAAACTCTTCTTTTGCGATTAA
ACTGCAAAAAACGAGCAACTCGACAAGAGCCCTGCAAAACCCTTAGACAGAAAACCTTCAACTGC
ACACGGAGACTTGGAAGAACCCATTGGACTACCGTG
Found at i:12037823 original size:21 final size:21
Alignment explanation
Indices: 12037799--12037840 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12037789 TTTCATGATT
12037799 TAATGTGAAAAAATAAAAAAA
1 TAATGTGAAAAAATAAAAAAA
* * *
12037820 TAATTTTAAAATATAAAAAAA
1 TAATGTGAAAAAATAAAAAAA
12037841 GAATTTTACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (21 bp):
TAATGTGAAAAAATAAAAAAA
Found at i:12037845 original size:21 final size:21
Alignment explanation
Indices: 12037806--12037848 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12037796 ATTTAATGTG
*
12037806 AAAAAATAAAAAAATAATTTT
1 AAAAAATAAAAAAAGAATTTT
*
12037827 AAAATATAAAAAAAGAATTTT
1 AAAAAATAAAAAAAGAATTTT
12037848 A
1 A
12037849 CATGTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAAATAAAAAAAGAATTTT
Found at i:12038198 original size:38 final size:40
Alignment explanation
Indices: 12038121--12038198 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 40
12038111 TTTATCTTTT
*
12038121 AATTAAAAAATATATAACAATTTTTTAATTTTGCTTATAA
1 AATTAAAAAATATATAACAATTTTTTAATTTTGCATATAA
** * *
12038161 AATTAAAAAA-ATAT-ATTATTTTTTTATTTTTCATATAA
1 AATTAAAAAATATATAACAATTTTTTAATTTTGCATATAA
12038199 TTTAACTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 19 0.58
39 4 0.12
40 10 0.30
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (40 bp):
AATTAAAAAATATATAACAATTTTTTAATTTTGCATATAA
Found at i:12042095 original size:23 final size:24
Alignment explanation
Indices: 12042038--12042101 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
12042028 TTCATAATCC
* *
12042038 AAAAATCAA-TCTAAACCTAATTA
1 AAAAATCAATTCTAAACCGAATAA
* *
12042061 AAATATCTAATTC-AAATCGAATAA
1 AAAAATC-AATTCTAAACCGAATAA
12042085 AAAAATCAATT-TAAACC
1 AAAAATCAATTCTAAACC
12042102 AAATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
23 14 0.44
24 16 0.50
25 2 0.06
ACGTcount: A:0.56, C:0.16, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAAATCAATTCTAAACCGAATAA
Found at i:12042111 original size:23 final size:23
Alignment explanation
Indices: 12042038--12042111 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
12042028 TTCATAATCC
* *
12042038 AAAAATCAATCTAAACCTAA-TT
1 AAAAATCAATTTAAACCAAATTT
* * * **
12042060 AAAATATCTAATTCAAATCGAATAA
1 AAAA-ATC-AATTTAAACCAAATTT
12042085 AAAAATCAATTTAAACCAAATTT
1 AAAAATCAATTTAAACCAAATTT
12042108 AAAA
1 AAAA
12042112 CGAAATTCAA
Statistics
Matches: 38, Mismatches: 11, Indels: 5
0.70 0.20 0.09
Matches are distributed among these distances:
22 4 0.11
23 18 0.47
24 12 0.32
25 4 0.11
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (23 bp):
AAAAATCAATTTAAACCAAATTT
Found at i:12044263 original size:22 final size:22
Alignment explanation
Indices: 12044238--12044280 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
12044228 GAAAAAAGAG
12044238 ATAGTTTTGATAAAATTACAAT
1 ATAGTTTTGATAAAATTACAAT
12044260 ATAGTTTTGATAAAATTACAA
1 ATAGTTTTGATAAAATTACAA
12044281 GTTCTGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (22 bp):
ATAGTTTTGATAAAATTACAAT
Found at i:12047985 original size:17 final size:17
Alignment explanation
Indices: 12047955--12047988 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12047945 TGTTATTTTA
**
12047955 TAAAAAAATGTTATAAT
1 TAAAAAAAAATTATAAT
12047972 TAAAAAAAAATTATAAT
1 TAAAAAAAAATTATAAT
12047989 AAATTATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAAAAAAAATTATAAT
Found at i:12048983 original size:15 final size:15
Alignment explanation
Indices: 12048963--12048992 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12048953 TTTACATTTG
*
12048963 GAACATAAATAAATT
1 GAACATAAAAAAATT
12048978 GAACATAAAAAAATT
1 GAACATAAAAAAATT
12048993 TTAATAGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (15 bp):
GAACATAAAAAAATT
Found at i:12052915 original size:33 final size:33
Alignment explanation
Indices: 12052838--12052922 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 33
12052828 AATTATTAGG
* *
12052838 AATTATAATT-TAATTATGT---TATAATAGTT
1 AATTATAATTATAATTATATAAATATAATACTT
12052867 AATTAT--TTAATTAATTATATAAATATAATACTT
1 AATTATAATT-A-TAATTATATAAATATAATACTT
*
12052900 AATTATAATTATAATTTTATAAA
1 AATTATAATTATAATTATATAAA
12052923 AGTAAGATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
27 2 0.04
29 6 0.13
30 8 0.18
33 26 0.58
34 1 0.02
35 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (33 bp):
AATTATAATTATAATTATATAAATATAATACTT
Found at i:12056262 original size:12 final size:12
Alignment explanation
Indices: 12056235--12056275 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
12056225 TGTAATTTTT
12056235 TTTAA-AAAATAA
1 TTTAATAAAA-AA
*
12056247 TTTAATAAAAAT
1 TTTAATAAAAAA
12056259 TTTAATAAAAAA
1 TTTAATAAAAAA
12056271 TTTAA
1 TTTAA
12056276 ACCAGTAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TTTAATAAAAAA
Found at i:12056441 original size:10 final size:10
Alignment explanation
Indices: 12056426--12056452 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
12056416 ATATATATAA
12056426 AAAATTTTTC
1 AAAATTTTTC
12056436 AAAATTTTTC
1 AAAATTTTTC
12056446 AAAATTT
1 AAAATTT
12056453 GTGCACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (10 bp):
AAAATTTTTC
Found at i:12056512 original size:21 final size:20
Alignment explanation
Indices: 12056477--12056520 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
12056467 TATAATAAAA
12056477 AATTTTAATTTATCAATTT-T
1 AATTTTAATTTATC-ATTTCT
*
12056497 AATTTTTATTTAATCATTTCT
1 AATTTTAATTT-ATCATTTCT
12056518 AAT
1 AAT
12056521 AAAAAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTAATTTATCATTTCT
Found at i:12056907 original size:15 final size:15
Alignment explanation
Indices: 12056887--12056916 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12056877 CATAAATAAT
*
12056887 ATAATTAATTATTAA
1 ATAATTAAATATTAA
12056902 ATAATTAAATATTAA
1 ATAATTAAATATTAA
12056917 TTTTTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTAAATATTAA
Found at i:12057610 original size:13 final size:13
Alignment explanation
Indices: 12057592--12057630 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
12057582 CCAAAGCAGT
12057592 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
*
12057605 AAAAAAACAAAAC
1 AAAAAAAAAAAAC
*
12057618 AAAAACAAAAAAC
1 AAAAAAAAAAAAC
12057631 CACACTGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:12062926 original size:24 final size:24
Alignment explanation
Indices: 12062894--12062958 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
12062884 TTAATTTATG
12062894 TAATATAAAA-ATAATATAAAATTT
1 TAATATAAAATAT-ATATAAAATTT
* *
12062918 TAATGTAAATTATATATAAAATTT
1 TAATATAAAATATATATAAAATTT
* *
12062942 TAAAAATAAAAAATATA
1 T-AATATAAAATATATA
12062959 ATTTATAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 20 0.61
25 13 0.39
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
TAATATAAAATATATATAAAATTT
Found at i:12062957 original size:25 final size:24
Alignment explanation
Indices: 12062895--12062958 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
12062885 TAATTTATGT
12062895 AATATAAAAATAATATAAAATTTTAA
1 AATA-AAAAAT-ATATAAAATTTTAA
** **
12062921 TGTAAATTATATATAAAATTTTAAA
1 AATAAAAAATATATAAAATTTT-AA
12062946 AATAAAAAATATA
1 AATAAAAAATATA
12062959 ATTTATAATT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
24 12 0.41
25 15 0.52
26 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
AATAAAAAATATATAAAATTTTAA
Found at i:12063839 original size:3 final size:3
Alignment explanation
Indices: 12063833--12063865 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
12063823 TTAAATATAA
12063833 ATT ATT ATT -TAT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
12063866 TATTTTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.04
3 26 0.93
4 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12072042 original size:14 final size:13
Alignment explanation
Indices: 12071997--12072042 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
12071987 TAAATATTAA
12071997 TTTTAATAAAATT
1 TTTTAATAAAATT
*
12072010 TATTTAACATAAATT
1 T-TTTAATA-AAATT
12072025 TTTTAATAAAATT
1 TTTTAATAAAATT
12072038 ATTTT
1 -TTTT
12072043 TTTAATTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 6 0.21
14 16 0.57
15 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTAATAAAATT
Found at i:12072139 original size:33 final size:32
Alignment explanation
Indices: 12072087--12072149 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
12072077 GACAAAATTA
12072087 ATTATAATGAAATTAAAAATAATAATAAAAAGT
1 ATTATAATGAAATTAAAAAT-ATAATAAAAAGT
* *
12072120 ATTATAATTACAATT-AAAATATATTAAAAA
1 ATTATAATGA-AATTAAAAATATAATAAAAA
12072150 ATTTATATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 9 0.33
33 14 0.52
34 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (32 bp):
ATTATAATGAAATTAAAAATATAATAAAAAGT
Found at i:12072168 original size:15 final size:14
Alignment explanation
Indices: 12072139--12072176 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
12072129 ACAATTAAAA
12072139 TATATTAAAAAATT
1 TATATTAAAAAATT
*
12072153 TATATTGAATAAATT
1 TATATT-AAAAAATT
12072168 TA-ATTAAAA
1 TATATTAAAA
12072177 TTAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 3 0.14
14 9 0.43
15 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TATATTAAAAAATT
Found at i:12072780 original size:16 final size:16
Alignment explanation
Indices: 12072759--12072805 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
12072749 TTTTATGTTG
12072759 TATTAATTTAATTGTAT
1 TATTAATTTAATTG-AT
12072776 T-TTAATTTTTAATTGAT
1 TATTAA--TTTAATTGAT
*
12072793 TATTTATTTAATT
1 TATTAATTTAATT
12072806 ATTCAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 11 0.42
17 4 0.15
18 11 0.42
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (16 bp):
TATTAATTTAATTGAT
Found at i:12078350 original size:16 final size:16
Alignment explanation
Indices: 12078329--12078359 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12078319 AAGAACGGAT
12078329 CCCCTTATCTTCTAAC
1 CCCCTTATCTTCTAAC
12078345 CCCCTTATCTTCTAA
1 CCCCTTATCTTCTAA
12078360 GTACGTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.42, G:0.00, T:0.39
Consensus pattern (16 bp):
CCCCTTATCTTCTAAC
Found at i:12078878 original size:73 final size:73
Alignment explanation
Indices: 12078794--12078965 Score: 326
Period size: 73 Copynumber: 2.4 Consensus size: 73
12078784 AGCCAAGAGC
*
12078794 TTTGCATCAAATTTAAAATTCCACATATTATAGACACACACTTTCACATGAAAACAAGAAAAAGG
1 TTTGCATCAAATTTAAAATTCCACATAATATAGACACACACTTTCACATGAAAACAAGAAAAAGG
12078859 AACAAATA
66 AACAAATA
*
12078867 TTTGCATCAAATTTAAAATTCCACATAATATAGACACACACTTTCACATGAAAACAGGAAAAAGG
1 TTTGCATCAAATTTAAAATTCCACATAATATAGACACACACTTTCACATGAAAACAAGAAAAAGG
12078932 AACAAATA
66 AACAAATA
12078940 TTTGCATCAAATTTAAAATTCCACAT
1 TTTGCATCAAATTTAAAATTCCACAT
12078966 TAAATTAGAT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 97 1.00
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.26
Consensus pattern (73 bp):
TTTGCATCAAATTTAAAATTCCACATAATATAGACACACACTTTCACATGAAAACAAGAAAAAGG
AACAAATA
Found at i:12084161 original size:17 final size:17
Alignment explanation
Indices: 12084139--12084180 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
12084129 AGAGTAATAA
12084139 TTTTTTTATTCTTTTAT
1 TTTTTTTATTCTTTTAT
* *
12084156 TTTTTTTATTTTTTTCT
1 TTTTTTTATTCTTTTAT
12084173 TTTATTTT
1 TTT-TTTT
12084181 CCAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTATTCTTTTAT
Found at i:12096865 original size:29 final size:27
Alignment explanation
Indices: 12096823--12096877 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
12096813 TCCCCTCTCC
*
12096823 TTTATTTTTTTTTCTTTTGTATTCTTTTG
1 TTTATTTTTTTTTCATTT-T-TTCTTTTG
12096852 TTTATTTTTTTTTCATTTTTTCTTTT
1 TTTATTTTTTTTTCATTTTTTCTTTT
12096878 CATTTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.28
28 1 0.04
29 17 0.68
ACGTcount: A:0.07, C:0.07, G:0.04, T:0.82
Consensus pattern (27 bp):
TTTATTTTTTTTTCATTTTTTCTTTTG
Found at i:12096872 original size:13 final size:13
Alignment explanation
Indices: 12096856--12096886 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12096846 CTTTTGTTTA
12096856 TTTTTTTTTCATT
1 TTTTTTTTTCATT
*
12096869 TTTTCTTTTCATT
1 TTTTTTTTTCATT
12096882 TTTTT
1 TTTTT
12096887 GGTGTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTCATT
Found at i:12115451 original size:15 final size:15
Alignment explanation
Indices: 12115420--12115457 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
12115410 TTTTTTTTAC
12115420 TTAAAATTGTTAAAA
1 TTAAAATTGTTAAAA
*
12115435 TTTAAATT-TTAATAA
1 TTAAAATTGTTAA-AA
12115450 TTAAAATT
1 TTAAAATT
12115458 AAAATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAAATTGTTAAAA
Found at i:12119764 original size:22 final size:24
Alignment explanation
Indices: 12119739--12119789 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
12119729 TTTTAAAAAA
12119739 ATTTTAAACT-ATATTA-TTTTAT
1 ATTTTAAACTCATATTATTTTTAT
**
12119761 ATTTT-ATTTCATATTATTTTTAT
1 ATTTTAAACTCATATTATTTTTAT
12119784 ATTTTA
1 ATTTTA
12119790 TTTAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.08
22 11 0.46
23 11 0.46
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTTTAAACTCATATTATTTTTAT
Found at i:12119769 original size:12 final size:12
Alignment explanation
Indices: 12119752--12119792 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
12119742 TTAAACTATA
12119752 TTATTTTATATT
1 TTATTTTATATT
*
12119764 TTATTTCATATT
1 TTATTTTATATT
*
12119776 AT-TTTTATATT
1 TTATTTTATATT
12119787 TTATTT
1 TTATTT
12119793 AAAATTATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (12 bp):
TTATTTTATATT
Found at i:12119785 original size:23 final size:22
Alignment explanation
Indices: 12119749--12119792 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
12119739 ATTTTAAACT
12119749 ATATTATTTTATATTTTATTTC
1 ATATTATTTTATATTTTATTTC
12119771 ATATTATTTTTATATTTTATTT
1 ATATTA-TTTTATATTTTATTT
12119793 AAAATTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
ATATTATTTTATATTTTATTTC
Found at i:12119793 original size:11 final size:11
Alignment explanation
Indices: 12119756--12119793 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
12119746 ACTATATTAT
12119756 TTTATATTTTA
1 TTTATATTTTA
12119767 TTTCATATTATT-
1 TTT-ATATT-TTA
12119779 TTTATATTTTA
1 TTTATATTTTA
12119790 TTTA
1 TTTA
12119794 AAATTATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.08
11 12 0.50
12 8 0.33
13 2 0.08
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATATTTTA
Found at i:12119799 original size:23 final size:23
Alignment explanation
Indices: 12119751--12119800 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
12119741 TTTAAACTAT
* *
12119751 ATTA-TTTTATATTTTATTTCAT
1 ATTATTTTTATATTTTATTTAAA
12119773 ATTATTTTTATATTTTATTTAAA
1 ATTATTTTTATATTTTATTTAAA
12119796 ATTAT
1 ATTAT
12119801 CAAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTATTTTTATATTTTATTTAAA
Found at i:12120523 original size:19 final size:18
Alignment explanation
Indices: 12120480--12120523 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
12120470 AATTAATTTT
*
12120480 TAATATATTTTTAAAATA
1 TAATATATATTTAAAATA
12120498 -AATTATATAATTTAAAATA
1 TAA-TATAT-ATTTAAAATA
12120517 TAATATA
1 TAATATA
12120524 ATGATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 2 0.09
18 5 0.23
19 13 0.59
20 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATATATATTTAAAATA
Found at i:12120524 original size:17 final size:17
Alignment explanation
Indices: 12120502--12120591 Score: 57
Period size: 17 Copynumber: 5.5 Consensus size: 17
12120492 AAAATAAATT
12120502 ATATAATTTAAAATATA
1 ATATAATTTAAAATATA
*
12120519 ATATAA--T--GATATA
1 ATATAATTTAAAATATA
* **
12120532 ATATAA-ATATGATATGA
1 ATATAATTTAAAATAT-A
12120549 ATATAAATTATAAAA-ATA
1 ATAT-AATT-TAAAATATA
*
12120567 ATATAATTTAAAATTTA
1 ATATAATTTAAAATATA
*
12120584 ATAAAATT
1 ATATAATT
12120592 ATATTTTTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
15 1 0.02
16 10 0.17
17 24 0.41
18 7 0.12
19 2 0.03
20 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATTTAAAATATA
Found at i:12120546 original size:11 final size:11
Alignment explanation
Indices: 12120502--12120572 Score: 61
Period size: 11 Copynumber: 6.0 Consensus size: 11
12120492 AAAATAAATT
*
12120502 ATATAATTTAAA
1 ATATAATAT-AA
12120514 ATATAATATAA
1 ATATAATATAA
12120525 TGATATAATATAA
1 --ATATAATATAA
* *
12120538 ATATGATATGA
1 ATATAATATAA
12120549 ATATAAATTATAA
1 ATAT-AA-TATAA
*
12120562 AAATAATATAA
1 ATATAATATAA
12120573 TTTAAAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
11 20 0.41
12 11 0.22
13 18 0.37
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (11 bp):
ATATAATATAA
Found at i:12120594 original size:23 final size:24
Alignment explanation
Indices: 12120568--12120644 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 24
12120558 ATAAAAATAA
12120568 TATAATTTAAAATTTAATA-AAAT
1 TATAATTTAAAATTTAATATAAAT
* * *
12120591 TATATTTTTATA-TTAATATAAAT
1 TATAATTTAAAATTTAATATAAAT
* * *
12120614 TATAAATTATAATCTTAATATAAAA
1 TATAATTTAAAAT-TTAATATAAAT
12120639 TATAAT
1 TATAAT
12120645 AAAAATATAT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 6 0.15
23 20 0.49
25 15 0.37
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAATTTAAAATTTAATATAAAT
Found at i:12120614 original size:57 final size:59
Alignment explanation
Indices: 12120543--12120654 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
12120533 TATAAATATG
* * *
12120543 ATATGAATATAAATTATAAA-AATAAT-ATAATTTAAAATTTAATAAAATTATATTTTT
1 ATATGAATATAAATTATAAATAATAATCATAATATAAAATATAATAAAAATATATTTTT
* * *
12120600 ATATTAATATAAATTATAAATTATAATCTTAATATAAAATATAATAAAAATATAT
1 ATATGAATATAAATTATAAATAATAATCATAATATAAAATATAATAAAAATATAT
12120655 AAATTTTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 19 0.40
58 5 0.11
59 23 0.49
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (59 bp):
ATATGAATATAAATTATAAATAATAATCATAATATAAAATATAATAAAAATATATTTTT
Found at i:12120664 original size:57 final size:56
Alignment explanation
Indices: 12120543--12120666 Score: 133
Period size: 57 Copynumber: 2.2 Consensus size: 56
12120533 TATAAATATG
* * * * **
12120543 ATATGAATATAAATTATAAAAATAATATAATTTAAAATTTAATAAAATTATATTTTT
1 ATATTAATATAAATTATAAAAATAATATAATATAAAATATAATAAAA-TATATATAA
* *
12120600 ATATTAATATAAATTATAAATTATAATCTTAATATAAAATATAATAAAA-ATATATAA
1 ATATTAATATAAATTATAAA-AATAAT-ATAATATAAAATATAATAAAATATATATAA
*
12120657 ATTTTAATAT
1 ATATTAATAT
12120667 TTTATACTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
57 33 0.59
58 5 0.09
59 18 0.32
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.43
Consensus pattern (56 bp):
ATATTAATATAAATTATAAAAATAATATAATATAAAATATAATAAAATATATATAA
Found at i:12126603 original size:22 final size:23
Alignment explanation
Indices: 12126553--12126620 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
12126543 CAAATTTTAC
* * * *
12126553 ATAAAAATTTTCATATAAAGTTT
1 ATAAAAATTTTAATAAAAAATTA
12126576 AT-AAAATTTTAA-AAAAAATTA
1 ATAAAAATTTTAATAAAAAATTA
*
12126597 ATAAAAATTTTAATTAAAAATTA
1 ATAAAAATTTTAATAAAAAATTA
12126620 A
1 A
12126621 AATTGATAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 8 0.21
22 19 0.50
23 11 0.29
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (23 bp):
ATAAAAATTTTAATAAAAAATTA
Found at i:12126610 original size:12 final size:12
Alignment explanation
Indices: 12126544--12126618 Score: 68
Period size: 13 Copynumber: 6.4 Consensus size: 12
12126534 GCATAGGGAC
12126544 AAATTTTACATAA
1 AAATTTTA-ATAA
* *
12126557 AAATTTTCATAT
1 AAATTTTAATAA
*
12126569 AAAGTTT-AT-A
1 AAATTTTAATAA
12126579 AAATTTTAA-AA
1 AAATTTTAATAA
*
12126590 AAA-ATTAATAA
1 AAATTTTAATAA
12126601 AAATTTTAATTAA
1 AAATTTTAA-TAA
12126614 AAATT
1 AAATT
12126619 AAAATTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
10 10 0.20
11 12 0.24
12 13 0.26
13 15 0.30
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (12 bp):
AAATTTTAATAA
Found at i:12129432 original size:13 final size:13
Alignment explanation
Indices: 12129414--12129439 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12129404 TAAATCATAT
12129414 CAATCAATACTCA
1 CAATCAATACTCA
12129427 CAATCAATACTCA
1 CAATCAATACTCA
12129440 TAGACCCTTT
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:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (13 bp):
CAATCAATACTCA
Found at i:12132715 original size:120 final size:121
Alignment explanation
Indices: 12132509--12132796 Score: 301
Period size: 120 Copynumber: 2.4 Consensus size: 121
12132499 GTTATTTGTC
* * * *
12132509 TCAAAAACTCATTTTTAAAAATTTAAACCTTCAAATATGTTGGTAAGGTTTATTTATATATTCAA
1 TCAAAAATTCATTTTT-AAAAGTAAAACCTTCAAATATGTTGATAAGGTTTATTTATATATTCAA
* * ** * * ** *
12132574 AATTTTATTTTTTAAAATTTAAACCTTTCAACATGTTGGTAAGATTTGTTT-GTTAT
65 AAGTTTATGTTCCAAAATTTAAACCTTCCAACATATTAATAAGATTTATTTAGTTAT
* * * * *
12132630 TCAAAAATTCAATTTTAAAAGTAAAATCTTCTAATATGTTGATAAGGTTTATTTATTTATTTAAA
1 TCAAAAATTCATTTTTAAAAGTAAAACCTTCAAATATGTTGATAAGGTTTATTTATATATTCAAA
* * *
12132695 AGTTTA-GTTCCAAAATTTTAAACCTTCCAATATATTAATAAGGTTTATTTATTTAT
66 AGTTTATGTTCCAAAA-TTTAAACCTTCCAACATATTAATAAGATTTATTTAGTTAT
* * ** * *
12132751 TCAAAAATTTATTTTTAAAATTTTAACCTTCCAATATGTTGGTAAG
1 TCAAAAATTCATTTTTAAAAGTAAAACCTTCAAATATGTTGATAAG
12132797 ATTTTATTAT
Statistics
Matches: 136, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
119 6 0.04
120 74 0.54
121 56 0.41
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.45
Consensus pattern (121 bp):
TCAAAAATTCATTTTTAAAAGTAAAACCTTCAAATATGTTGATAAGGTTTATTTATATATTCAAA
AGTTTATGTTCCAAAATTTAAACCTTCCAACATATTAATAAGATTTATTTAGTTAT
Found at i:12132804 original size:61 final size:60
Alignment explanation
Indices: 12132476--12132796 Score: 310
Period size: 61 Copynumber: 5.4 Consensus size: 60
12132466 AAAAAATCAC
* * * * * *
12132476 AAACCCTCCAATATGTCGGTAAGG-TTA-TT-TGT-CTCAAAAACTCATTTTTAAAAATTT
1 AAACCTTCCAATATGTTGGTAAGGTTTATTTATTTATTCAAAAATTTATTTTT-AAAATTT
* * *
12132533 AAACCTTCAAATATGTTGGTAAGGTTTATTTATATATTCAAAATTTTATTTTTTAAAATTT
1 AAACCTTCCAATATGTTGGTAAGGTTTATTTATTTATTCAAAAATTTA-TTTTTAAAATTT
* * * * * * * * *
12132594 AAACCTTTCAACATGTTGGTAAGATTTGTTT-GTTATTCAAAAATTCAATTTTAAAAGTA
1 AAACCTTCCAATATGTTGGTAAGGTTTATTTATTTATTCAAAAATTTATTTTTAAAATTT
* * * * * * **
12132653 AAATCTTCTAATATGTTGATAAGGTTTATTTATTTATTTAAAAGTTTAGTTCCAAAATTTT
1 AAACCTTCCAATATGTTGGTAAGGTTTATTTATTTATTCAAAAATTTATTTTTAAAA-TTT
* **
12132714 AAACCTTCCAATATATTAATAAGGTTTATTTATTTATTCAAAAATTTATTTTTAAAATTT
1 AAACCTTCCAATATGTTGGTAAGGTTTATTTATTTATTCAAAAATTTATTTTTAAAATTT
*
12132774 TAACCTTCCAATATGTTGGTAAG
1 AAACCTTCCAATATGTTGGTAAG
12132797 ATTTTATTAT
Statistics
Matches: 208, Mismatches: 49, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
57 21 0.10
58 3 0.01
59 35 0.17
60 54 0.26
61 90 0.43
62 5 0.02
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.44
Consensus pattern (60 bp):
AAACCTTCCAATATGTTGGTAAGGTTTATTTATTTATTCAAAAATTTATTTTTAAAATTT
Found at i:12132828 original size:61 final size:59
Alignment explanation
Indices: 12132521--12132829 Score: 243
Period size: 61 Copynumber: 5.1 Consensus size: 59
12132511 AAAAACTCAT
* * *
12132521 TTTTAAAAATTTAAACCTTCAAATATGTTGGTAAGGTTTATTTATATATTCAAAATTTTATT
1 TTTT-AAAATTTAAACCTTCCAATATGTTGGTAAGGTTTATTTAT-TATTC-AAATATTATA
* * * * * *
12132583 TTTTAAAATTTAAACCTTTCAACATGTTGGTAAGATTTGTTTGTTATTCAAAAATTCA-A
1 TTTTAAAATTTAAACCTTCCAATATGTTGGTAAGGTTTATTTATTATTCAAATATT-ATA
* * * * * *
12132642 TTTTAAAAGTAAAATCTTCTAATATGTTGATAAGGTTTATTTATTTATTTAAA-AGTT-TA
1 TTTTAAAATTTAAACCTTCCAATATGTTGGTAAGGTTTATTTA-TTATTCAAATA-TTATA
** * ** *
12132701 GTTCCAAAATTTTAAACCTTCCAATATATTAATAAGGTTTATTTATTTATTCAAAAATT-TA
1 -TTTTAAAA-TTTAAACCTTCCAATATGTTGGTAAGGTTTATTTA-TTATTCAAATATTATA
* *
12132762 TTTTTAAAATTTTAACCTTCCAATATGTTGGTAAGATTT-TATTATTATT-AATATTATTAATA
1 -TTTTAAAATTTAAACCTTCCAATATGTTGGTAAGGTTTAT-TTATTATTCAA-A-TATT-ATA
12132824 TTTTAA
1 TTTTAA
12132830 TTATTTTTTA
Statistics
Matches: 197, Mismatches: 38, Indels: 25
0.76 0.15 0.10
Matches are distributed among these distances:
58 2 0.01
59 47 0.24
60 53 0.27
61 88 0.45
62 7 0.04
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (59 bp):
TTTTAAAATTTAAACCTTCCAATATGTTGGTAAGGTTTATTTATTATTCAAATATTATA
Found at i:12132861 original size:17 final size:17
Alignment explanation
Indices: 12132839--12132903 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
12132829 ATTATTTTTT
12132839 AAAATAAAATAAATATC
1 AAAATAAAATAAATATC
12132856 AAAATAAAATAAA-A-C
1 AAAATAAAATAAATATC
*
12132871 AAGCAA-AGAAACAAATATC
1 AA--AATA-AAATAAATATC
12132890 AAAATAAAAATAAA
1 AAAAT-AAAATAAA
12132904 AACAAACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
15 3 0.08
16 2 0.05
17 23 0.59
18 7 0.18
19 4 0.10
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAATAAAATAAATATC
Found at i:12134066 original size:8 final size:9
Alignment explanation
Indices: 12134053--12134107 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
12134043 GACTCATTTT
12134053 TAATTT-TA
1 TAATTTATA
12134061 TAATTTATA
1 TAATTTATA
* *
12134070 TTATTTTTA
1 TAATTTATA
12134079 T-ATTTATA
1 TAATTTATA
12134087 TAAATATTATA
1 T-AAT-TTATA
12134098 TAATTTATA
1 TAATTTATA
12134107 T
1 T
12134108 TGTATAAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
8 13 0.32
9 16 0.40
10 5 0.12
11 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TAATTTATA
Found at i:12136632 original size:10 final size:10
Alignment explanation
Indices: 12136603--12136646 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
12136593 AAGTTTAAGG
12136603 AAAAATTGA-A
1 AAAAATT-ATA
12136613 AAATAATTATA
1 AAA-AATTATA
12136624 AAAAATTATA
1 AAAAATTATA
*
12136634 AAAAATAATA
1 AAAAATTATA
12136644 AAA
1 AAA
12136647 TAATACATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 23 0.74
11 8 0.26
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (10 bp):
AAAAATTATA
Found at i:12136644 original size:20 final size:21
Alignment explanation
Indices: 12136603--12136646 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
12136593 AAGTTTAAGG
*
12136603 AAAAATTGAAAAATAATTATA
1 AAAAATTGAAAAATAATAATA
12136624 AAAAATT-ATAAAA-AATAATA
1 AAAAATTGA-AAAATAATAATA
12136644 AAA
1 AAA
12136647 TAATACATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAAATTGAAAAATAATAATA
Found at i:12138147 original size:7 final size:7
Alignment explanation
Indices: 12138135--12138163 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
12138125 TTGATTAAGT
12138135 TGTTGTA
1 TGTTGTA
12138142 TGTTGTA
1 TGTTGTA
12138149 TGTTGTA
1 TGTTGTA
12138156 TGTTGTA
1 TGTTGTA
12138163 T
1 T
12138164 CTTTAATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (7 bp):
TGTTGTA
Found at i:12141040 original size:17 final size:17
Alignment explanation
Indices: 12141020--12141080 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 17
12141010 GTAAAAAAAA
12141020 TAAAAAATGAAAAATGT
1 TAAAAAATGAAAAATGT
12141037 TAAAAAAT--AAAATGT
1 TAAAAAATGAAAAATGT
* *
12141052 GAAAAAATGAGAAATGT
1 TAAAAAATGAAAAATGT
*
12141069 GAAAAAAATGAA
1 -TAAAAAATGAA
12141081 GAAAAATGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 14 0.38
17 14 0.38
18 9 0.24
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.20
Consensus pattern (17 bp):
TAAAAAATGAAAAATGT
Found at i:12141048 original size:15 final size:16
Alignment explanation
Indices: 12141021--12141080 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 16
12141011 TAAAAAAAAT
*
12141021 AAAAAATGAAAAATGTT
1 AAAAAATG-AAAATGTG
12141038 AAAAAAT-AAAATGTG
1 AAAAAATGAAAATGTG
12141053 AAAAAATGAGAAATGTG
1 AAAAAATGA-AAATGTG
12141070 AAAAAAATGAA
1 -AAAAAATGAA
12141081 GAAAAATGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 14 0.36
16 1 0.03
17 15 0.38
18 9 0.23
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (16 bp):
AAAAAATGAAAATGTG
Found at i:12141094 original size:19 final size:18
Alignment explanation
Indices: 12141053--12141096 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
12141043 ATAAAATGTG
**
12141053 AAAAAATGAGAAATGTGA
1 AAAAAATGAGAAAAATGA
12141071 AAAAAATGAAGAAAAATGA
1 AAAAAATG-AGAAAAATGA
12141090 GAAAAAA
1 -AAAAAA
12141097 GTAATACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.11
Consensus pattern (18 bp):
AAAAAATGAGAAAAATGA
Found at i:12142157 original size:158 final size:158
Alignment explanation
Indices: 12141774--12142231 Score: 748
Period size: 152 Copynumber: 2.9 Consensus size: 158
12141764 TAAAATTTTA
* * *
12141774 CCAAGTAATTAGTTGTTGGAAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
*
12141839 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
* *
12141904 ATTTATTAAAG--AAAAATCAAAATCAT
131 ATTAATTAAAGAAAAAAATCAAAATCAG
*
12141930 CC----AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
* *
12141991 AATTCCCTCACCTCAAGAGTATACAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
12142056 ATTAATTAAAGAAAAAAATCAAAATCAG
131 ATTAATTAAAGAAAAAAATCAAAATCAG
* *
12142084 CCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
* *
12142149 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCG
12142214 GATTAATTAAAGAAAAAA
130 GATTAATTAAAGAAAAAA
12142232 GAAAAAAAAA
Statistics
Matches: 279, Mismatches: 16, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
152 127 0.46
154 16 0.06
156 2 0.01
158 92 0.33
159 42 0.15
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (158 bp):
CCAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
ATTAATTAAAGAAAAAAATCAAAATCAG
Found at i:12142281 original size:1 final size:1
Alignment explanation
Indices: 12142277--12142306 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
12142267 AAAAAAATTC
12142277 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12142307 CCTGGAGCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12142284 original size:15 final size:14
Alignment explanation
Indices: 12142260--12142300 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
12142250 AAAATCAAAG
*
12142260 TCAAATAAAAAAAAT
1 TCAAA-AAAAAAAAA
12142275 TCAAAAAAAAAAAA
1 TCAAAAAAAAAAAA
12142289 --AAAAAAAAAAAA
1 TCAAAAAAAAAAAA
12142301 AAAAAACCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 12 0.48
14 8 0.32
15 5 0.20
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (14 bp):
TCAAAAAAAAAAAA
Found at i:12142673 original size:19 final size:19
Alignment explanation
Indices: 12142631--12142677 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
12142621 AGAACACCGG
*
12142631 TGCCGGATTCTGGAAATGT
1 TGCCGGAATCTGGAAATGT
* * *
12142650 CGCCGGAATCTGGAATTTT
1 TGCCGGAATCTGGAAATGT
12142669 TGCCGGAAT
1 TGCCGGAAT
12142678 ATGGCCGGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (19 bp):
TGCCGGAATCTGGAAATGT
Found at i:12143308 original size:3 final size:3
Alignment explanation
Indices: 12143300--12143325 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12143290 ATCTTACAAA
12143300 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
12143326 ATATATAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12143434 original size:13 final size:14
Alignment explanation
Indices: 12143418--12143451 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
12143408 ATAAAAATAC
*
12143418 AAAAGAAAA-GAAA
1 AAAAAAAAAGGAAA
12143431 AAAAAAAAAGGAAA
1 AAAAAAAAAGGAAA
12143445 AAAAAAA
1 AAAAAAA
12143452 TAATAATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGGAAA
Done.