Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 112 of 131
Found at i:19977847 original size:22 final size:21
Alignment explanation
Indices: 19977799--19977852 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
19977789 TAATTAGAAA
* * *
19977799 AGATAAATCAAAAATTATTAT
1 AGATAAATAAAAAAATAATAT
19977820 AGGATAAATAAAAAAATAATAT
1 A-GATAAATAAAAAAATAATAT
*
19977842 CAGATATATAA
1 -AGATAAATAA
19977853 TTAGATAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (21 bp):
AGATAAATAAAAAAATAATAT
Found at i:19977886 original size:17 final size:16
Alignment explanation
Indices: 19977864--19977910 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
19977854 TAGATAAACA
19977864 AAAATACAAAAATAAAT
1 AAAATA-AAAAATAAAT
* *
19977881 AAAATAAAAGATAAAA
1 AAAATAAAAAATAAAT
19977897 AATAATAAAAAATA
1 AA-AATAAAAAATA
19977911 TAAATATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAATAAAAAATAAAT
Found at i:19977901 original size:19 final size:19
Alignment explanation
Indices: 19977877--19977914 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19977867 ATACAAAAAT
19977877 AAATAA-AATAAAAGATAAA
1 AAATAATAA-AAAAGATAAA
*
19977896 AAATAATAAAAAATATAAA
1 AAATAATAAAAAAGATAAA
19977915 TATTACTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAATAATAAAAAAGATAAA
Found at i:19977907 original size:23 final size:23
Alignment explanation
Indices: 19977863--19977916 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
19977853 TTAGATAAAC
19977863 AAAAATACAAAAATAAATAAAAT
1 AAAAATACAAAAATAAATAAAAT
*
19977886 AAAAGATA-AAAAATAATAAAAAAT
1 AAAA-ATACAAAAATAA-ATAAAAT
*
19977910 ATAAATA
1 AAAAATA
19977917 TTACTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (23 bp):
AAAAATACAAAAATAAATAAAAT
Found at i:19977946 original size:16 final size:16
Alignment explanation
Indices: 19977896--19977948 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
19977886 AAAAGATAAA
* *
19977896 AAATAATAAAAAATAT
1 AAATAATAAAATACAT
19977912 AAATATTACTAATAATACAT
1 AAATA--A-TAA-AATACAT
19977932 AAATAATAAAATACAT
1 AAATAATAAAATACAT
19977948 A
1 A
19977949 GGATATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 13 0.42
17 3 0.10
18 2 0.06
19 3 0.10
20 10 0.32
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAATAAAATACAT
Found at i:19987309 original size:31 final size:31
Alignment explanation
Indices: 19987252--19987373 Score: 122
Period size: 32 Copynumber: 3.9 Consensus size: 31
19987242 TAATAAATTT
* * *
19987252 ATTTTTTAATATGATATGGGAATTTTTACATA
1 ATTTTTTAAAATGATATAGAAATTTTTAC-TA
* * *
19987284 GTATTTTAAAATGATATAG-AATTTTTATTTA
1 ATTTTTTAAAATGATATAGAAATTTTTA-CTA
* *
19987315 ATTTTTTAAACTAATATAGAAATTTTTATCTA
1 ATTTTTTAAAATGATATAGAAATTTTTA-CTA
*
19987347 ATTTTTTAAAATGATAT-GTAATTTTTA
1 ATTTTTTAAAATGATATAGAAATTTTTA
19987374 AAAAATTATT
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
31 34 0.45
32 41 0.55
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (31 bp):
ATTTTTTAAAATGATATAGAAATTTTTACTA
Found at i:19988581 original size:439 final size:439
Alignment explanation
Indices: 19987763--19988628 Score: 1680
Period size: 439 Copynumber: 2.0 Consensus size: 439
19987753 AAATTTTATT
19987763 TTATATTAAAAACAAAAAATATAATAATATAATTTTAAATTTAATATTATAGAATATATAAAATC
1 TTATATTAAAAACAAAAAATATAATAATATAATTTTAAATTTAATATTATAGAATATATAAAATC
19987828 TTGAGATAATTTCATCTTTTATCCTTAAATTTTGAAAAAATTTTATTTCAATATTTATTACATCA
66 TTGAGATAATTTCATCTTTTATCCTTAAATTTTGAAAAAATTTTATTTCAATATTTATTACATCA
19987893 TGTAATATGCTAGCTGACATTATCACTTGACGCCAATTGGTATTGCCATCAACTTAGACAGTTTC
131 TGTAATATGCTAGCTGACATTATCACTTGACGCCAATTGGTATTGCCATCAACTTAGACAGTTTC
19987958 ATAAATGAAAGAACCAAAATAAGATAATTTTGGATAATTAGGAATCTGATTATAATTTTTTAAAT
196 ATAAATGAAAGAACCAAAATAAGATAATTTTGGATAATTAGGAATCTGATTATAATTTTTTAAAT
19988023 ATTAAGGACTAAAATAAAATTTGTGACAAAGTTTAAGGATTACAAGTGCTATTAATCCTTATTTT
261 ATTAAGGACTAAAATAAAATTTGTGACAAAGTTTAAGGATTACAAGTGCTATTAATCCTTATTTT
*
19988088 AAATATGTGTTAAAAAGGGTGAGCCACTAGAGAAGTTAAAAATTAAGGTTGTCCAGGCATGAGAA
326 AAATATGTGTTAAAAAGGGTGAGCCACTAGAAAAGTTAAAAATTAAGGTTGTCCAGGCATGAGAA
*
19988153 AAAATAAGGAGAAAGGAGAGTTATCAGTTGATCAAGTATAATTAATAAA
391 AAAATAAGGAGAAAGGAGAGTTATCAATTGATCAAGTATAATTAATAAA
*
19988202 TTATATT-ACAACAAAAAATATAATAATATAATTTTAAATTTAATATTATAGAATATATAAAATC
1 TTATATTAAAAACAAAAAATATAATAATATAATTTTAAATTTAATATTATAGAATATATAAAATC
19988266 TTGAGATAATTTCATCTTTTATCCTTAAATTTTGAAAAAATTTTATTTCAATATTTATTACATCA
66 TTGAGATAATTTCATCTTTTATCCTTAAATTTTGAAAAAATTTTATTTCAATATTTATTACATCA
19988331 TGTAATATGCTAGCTGACATTATCACTTGACGCCAATTGGTAATTGCCATCAACTTAGACAGTTT
131 TGTAATATGCTAGCTGACATTATCACTTGACGCCAATTGGT-ATTGCCATCAACTTAGACAGTTT
19988396 CATAAATGAAAGAACCAAAATAAGATAATTTTGGATAATTAGGAATCTGATTATAATTTTTTAAA
195 CATAAATGAAAGAACCAAAATAAGATAATTTTGGATAATTAGGAATCTGATTATAATTTTTTAAA
19988461 TATTAAGGACTAAAATAAAATTTGTGACAAAGTTTAAGGATTACAAGTGCTATTAATCCTTATTT
260 TATTAAGGACTAAAATAAAATTTGTGACAAAGTTTAAGGATTACAAGTGCTATTAATCCTTATTT
19988526 TAAATATGTGTTAAAAAGGGTGAGCCACTAGAAAAGTTAAAAATTAAGGTTGTCCAGGCATGAGA
325 TAAATATGTGTTAAAAAGGGTGAGCCACTAGAAAAGTTAAAAATTAAGGTTGTCCAGGCATGAGA
*
19988591 AAAAATAAGGAGAAAGGAGAGTTATTAATTGATCAAGT
390 AAAAATAAGGAGAAAGGAGAGTTATCAATTGATCAAGT
19988629 GATTGAACAG
Statistics
Matches: 422, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
438 162 0.38
439 260 0.62
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.35
Consensus pattern (439 bp):
TTATATTAAAAACAAAAAATATAATAATATAATTTTAAATTTAATATTATAGAATATATAAAATC
TTGAGATAATTTCATCTTTTATCCTTAAATTTTGAAAAAATTTTATTTCAATATTTATTACATCA
TGTAATATGCTAGCTGACATTATCACTTGACGCCAATTGGTATTGCCATCAACTTAGACAGTTTC
ATAAATGAAAGAACCAAAATAAGATAATTTTGGATAATTAGGAATCTGATTATAATTTTTTAAAT
ATTAAGGACTAAAATAAAATTTGTGACAAAGTTTAAGGATTACAAGTGCTATTAATCCTTATTTT
AAATATGTGTTAAAAAGGGTGAGCCACTAGAAAAGTTAAAAATTAAGGTTGTCCAGGCATGAGAA
AAAATAAGGAGAAAGGAGAGTTATCAATTGATCAAGTATAATTAATAAA
Found at i:19991453 original size:73 final size:74
Alignment explanation
Indices: 19991330--19991474 Score: 195
Period size: 73 Copynumber: 2.0 Consensus size: 74
19991320 TGTAAATAAG
* *
19991330 TAAAAGATAGAACTTGGGGATACGAATAAGCTACTCACAGTTAATGGTGAGCCAAATGCAATTAA
1 TAAAAGATA-AACTTGGGGATACGAATAAGCTACTCACAGTTAATAGTGAGCCAAATGAAATTAA
19991395 TTTTGAGCAA
65 TTTTGAGCAA
* * * * *
19991405 TAAAAGAT-AACTTTGGGATACGAATAAG-TCAGTCACAGTTAGTAGTGAGCCACATGAAATTAG
1 TAAAAGATAAACTTGGGGATACGAATAAGCT-ACTCACAGTTAATAGTGAGCCAAATGAAATTAA
19991468 TTTTGAG
65 TTTTGAG
19991475 TATGATGAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
72 1 0.02
73 53 0.85
75 8 0.13
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (74 bp):
TAAAAGATAAACTTGGGGATACGAATAAGCTACTCACAGTTAATAGTGAGCCAAATGAAATTAAT
TTTGAGCAA
Found at i:19993451 original size:12 final size:11
Alignment explanation
Indices: 19993420--19993453 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
19993410 ATTTATTGTG
19993420 ATATATTATTT
1 ATATATTATTT
19993431 ATATATTATTAT
1 ATATATTATT-T
*
19993443 ATTTATTATTT
1 ATATATTATTT
19993454 TAGGTCTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATATATTATTT
Found at i:20001251 original size:14 final size:14
Alignment explanation
Indices: 20001232--20001258 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20001222 TTTTTATATT
20001232 ATTTTAATTTAATA
1 ATTTTAATTTAATA
20001246 ATTTTAATTTAAT
1 ATTTTAATTTAAT
20001259 CATTAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTAATTTAATA
Found at i:20001379 original size:21 final size:22
Alignment explanation
Indices: 20001337--20001381 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
20001327 GTTCATAGAT
* *
20001337 TTTTTTTATTTCATTTTATTGA
1 TTTTTTTATGTCATATTATTGA
*
20001359 TTTTTTTATGTGATATT-TTGA
1 TTTTTTTATGTCATATTATTGA
20001380 TT
1 TT
20001382 GATGTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (22 bp):
TTTTTTTATGTCATATTATTGA
Found at i:20004805 original size:18 final size:18
Alignment explanation
Indices: 20004782--20004822 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
20004772 ATTCATATTA
20004782 ATGAAATATAACCTAAAG
1 ATGAAATATAACCTAAAG
20004800 ATGAAATATAACCTAAAG
1 ATGAAATATAACCTAAAG
20004818 ATGAA
1 ATGAA
20004823 GTTTTCAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (18 bp):
ATGAAATATAACCTAAAG
Found at i:20005602 original size:159 final size:157
Alignment explanation
Indices: 20005223--20005766 Score: 511
Period size: 159 Copynumber: 3.4 Consensus size: 157
20005213 ATTTGTTATA
* * * * * * *
20005223 TGATTCTTGTTGGGTATTGTGATTGTTGATTAAGTAGATTGTATAGTAATTGAAAGCCTAATCAC
1 TGATTCTAGTTGTGTATTGTGATTGTTGATGAAGTAGATAGTATAGAAATTGAAAG-CTAAACAT
* * * ** * *
20005288 TATAAGAAATTCAATATTAAACTAAATAGTACTTTGTACGTATTTAAATGAGATCAATGTTATGA
65 TAT-AGAAATTTAGTATTAAACTAAATAGTATTTTGTGTGTATTGAGATGAGATCAATGTTATG-
* * *
20005353 AAAGTGAATACTATTGCATATTTTACTTTG
128 AAAGTAAAAACTATTGTATATTTTACTTTG
* * * * * * * * * * *
20005383 TCATTCTAGTGGTATATTCTAATTGTTGATGAAATAGATTGTGTAGTAATTAAAAACTAAACATT
1 TGATTCTAGTTGTGTATTGTGATTGTTGATGAAGTAGATAGTATAGAAATTGAAAGCTAAACATT
* *
20005448 ATATGAAATTTAGTATTAAACTAAATAGTATTTTATGTGTATTGAGATGAGATCAATGTTGTAGA
66 ATA-GAAATTTAGTATTAAACTAAATAGTATTTTGTGTGTATTGAGATGAGATCAATGTTAT-GA
* ** *
20005513 AGGTAAAAACTATTGTGCATTTTATTTTG
129 AAGTAAAAACTATTGTATATTTTACTTTG
* * * *
20005542 TGATTCTGGTTGTGTATTATGATTATTGATGAAGTAGATAGTATAGAAATTGAAAGCTAAA-A-C
1 TGATTCTAGTTGTGTATTGTGATTGTTGATGAAGTAGATAGTATAGAAATTGAAAGCTAAACATT
* * * * * *
20005605 ATAGCAAAATGAATGGTATTAAACTATATAGTATTTTGTGTTTATTGAGATGCA-ATGACT-TTA
66 ATAG--AAAT--TTAGTATTAAACTAAATAGTATTTTGTGTGTATTGAGATG-AGATCAATGTTA
* *
20005668 TGAAAGTAAAAACTATTATAATATTTTGCTTTG
126 TGAAAGTAAAAACTATTGT-ATATTTTACTTTG
** *
20005701 AAATTTTAGTTGTGTATTGTGATTGTTGATGAAGTAGATAGTATAGAAATTGAAAGCTAAAACAT
1 TGATTCTAGTTGTGTATTGTGATTGTTGATGAAGTAGATAGTATAGAAATTGAAAGCT-AAACAT
20005766 T
65 T
20005767 GCAAAATGAA
Statistics
Matches: 308, Mismatches: 65, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
156 1 0.00
157 3 0.01
158 22 0.07
159 193 0.63
160 87 0.28
161 2 0.01
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (157 bp):
TGATTCTAGTTGTGTATTGTGATTGTTGATGAAGTAGATAGTATAGAAATTGAAAGCTAAACATT
ATAGAAATTTAGTATTAAACTAAATAGTATTTTGTGTGTATTGAGATGAGATCAATGTTATGAAA
GTAAAAACTATTGTATATTTTACTTTG
Found at i:20006288 original size:21 final size:22
Alignment explanation
Indices: 20006272--20006315 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
20006262 ACTTTTGTAG
*
20006272 ATGTTATGGAT-ATTTTTATGT
1 ATGTTATGAATAATTTTTATGT
20006293 ATGTTATGAATAATTTTTA-GT
1 ATGTTATGAATAATTTTTATGT
20006314 AT
1 AT
20006316 TATATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (22 bp):
ATGTTATGAATAATTTTTATGT
Found at i:20006710 original size:13 final size:13
Alignment explanation
Indices: 20006692--20006722 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20006682 ATTATCGATG
*
20006692 GATTTTACTGATA
1 GATTTTACTAATA
20006705 GATTTTACTAATA
1 GATTTTACTAATA
20006718 GATTT
1 GATTT
20006723 CTGACGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (13 bp):
GATTTTACTAATA
Found at i:20006896 original size:31 final size:31
Alignment explanation
Indices: 20006850--20006918 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
20006840 ATTTCGTTGG
* *
20006850 TAAAAATATTGTCGATGAAAAATTCTATTGA
1 TAAAAATATTATCGATAAAAAATTCTATTGA
* *
20006881 TAAAAGTATTATCGATAAAAAATTTTATT-A
1 TAAAAATATTATCGATAAAAAATTCTATTGA
20006911 GTAAAAAT
1 -TAAAAAT
20006919 GATATTTCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.36
Consensus pattern (31 bp):
TAAAAATATTATCGATAAAAAATTCTATTGA
Found at i:20006908 original size:16 final size:15
Alignment explanation
Indices: 20006850--20006901 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
20006840 ATTTCGTTGG
*
20006850 TAAAAATATTGTCGA
1 TAAAAATATTATCGA
*
20006865 TGAAAAAT-TCTATTGA
1 T-AAAAATAT-TATCGA
*
20006881 TAAAAGTATTATCGA
1 TAAAAATATTATCGA
20006896 TAAAAA
1 TAAAAA
20006902 ATTTTATTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.33
Consensus pattern (15 bp):
TAAAAATATTATCGA
Found at i:20010688 original size:21 final size:22
Alignment explanation
Indices: 20010654--20010694 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20010644 ACCTTGAATA
20010654 ATTTTATAAAAAAA-ATCAATT
1 ATTTTATAAAAAAAGATCAATT
* *
20010675 ATTTTATGAGAAAAGATCAA
1 ATTTTATAAAAAAAGATCAA
20010695 CATCTATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (22 bp):
ATTTTATAAAAAAAGATCAATT
Found at i:20011485 original size:38 final size:40
Alignment explanation
Indices: 20011395--20011499 Score: 169
Period size: 38 Copynumber: 2.6 Consensus size: 40
20011385 TGAAAGTTAA
20011395 AAGAAATCATGAAACCTAAAAAAAGAACAAAAACAAAAGTG
1 AAGAAATCATGAAACCT-AAAAAAGAACAAAAACAAAAGTG
* *
20011436 AAGAAACCATGAAACCTAAAAAA-AAGAAAAA-AAAAGTG
1 AAGAAATCATGAAACCTAAAAAAGAACAAAAACAAAAGTG
20011474 AAGAAATCATGAAACCTAAAAAAGAA
1 AAGAAATCATGAAACCTAAAAAAGAA
20011500 ATAAAACTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
38 29 0.48
39 9 0.15
40 6 0.10
41 16 0.27
ACGTcount: A:0.67, C:0.11, G:0.12, T:0.10
Consensus pattern (40 bp):
AAGAAATCATGAAACCTAAAAAAGAACAAAAACAAAAGTG
Found at i:20011662 original size:31 final size:34
Alignment explanation
Indices: 20011591--20011663 Score: 80
Period size: 36 Copynumber: 2.2 Consensus size: 34
20011581 TAATGATTTG
* **
20011591 TGATTTTTCTTTTCTCTATCATCAATTAAATTTAA
1 TGATTTTTCTTTTCTCTACCATCAATTAAAGGT-A
20011626 GTGATTTTTCTTTTCTCTACCATCAA-T-AAGGT-
1 -TGATTTTTCTTTTCTCTACCATCAATTAAAGGTA
20011658 TGATTT
1 TGATTT
20011664 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 6 0.18
34 3 0.09
35 1 0.03
36 24 0.71
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.52
Consensus pattern (34 bp):
TGATTTTTCTTTTCTCTACCATCAATTAAAGGTA
Found at i:20016630 original size:436 final size:433
Alignment explanation
Indices: 20015801--20016672 Score: 1106
Period size: 436 Copynumber: 2.0 Consensus size: 433
20015791 GACAAAAAAC
* **
20015801 TAAAAAATAATAAAAAATCAAATACTAAAAAGATACACCAATTGACTAAAAGCAAACTTAAAATA
1 TAAAAAATAATAAAAAATCAAATACTAAAAAGATACACCAATGGACTAAAAAAAAACTTAAAATA
* * * *
20015866 CCAAATAAAAATTCATAAATTATGATTATAAAATCAAAAAATTATAAAAATGTAAACAAAATGAA
66 CCAAACAAAAAATCATAAATTATGATTACAAAATCAAAAAATTATAAAAATGCAAACAAAATGAA
*
20015931 AAACAAATATCATAACTAGAAAAAAAAAGTAGACATGAAATACACTTATTAATTCTCCCATATAA
131 AAACAAATATCATAACTAGAAAAAAAAAGTAGACATGAAATACACTTATTAATTATCCCA-ATAA
** * * *
20015996 AAAAAGAAAAAACATAAGTCATGTGAAATCCAAAGTCAAAACATATATGTTAGAAAATCAAAGGT
195 AAAAAG-AAAAACATAAGTCATAAGAAATCAAAAGTCAAAACATAAATGTTAGAAAATCAAAGAT
* * * *
20016061 TTCAATAAATTTTAACAAATAATGGTTTTTAAAAACATGAATAAGAGAAAATCAAAAGTCATGAA
259 TTCAATAAAATTTAACAAATAACGGTTTCTAAAAACATAAATAAGAGAAAATCAAAAGTCATGAA
* * *
20016126 TCCATATAAATGTTAGGCAACCAAAAGGTTGTTGGATTTTAAGTAATAAAATTAAAAGATACATG
324 TCCATATAAATATTAGGCAACCAAAAGATTCTTGGATTTTAAGTAATAAAATTAAAAGATACATG
*
20016191 TTTAGTA-TTATGTAAAAAAAGAATTGGCATTTATCGTAAAATATT
389 TTTAGAATTTATGT-AAAAAAGAATTGGCATTTATCGTAAAATATT
* * *
20016236 TAAAAACATAAT-AAAAATGCAAATATTAAAAA-ATA-GCCAATGGACTAAAAAAAAAACTTGAA
1 TAAAAA-ATAATAAAAAAT-CAAATACTAAAAAGATACACCAATGGACT-AAAAAAAAACTTAAA
* * * *
20016298 ATACCGAACAAAAAATCATAAATTATGATTACAAAATTTAAAAAATTTATGAAAATGCAAACACA
63 ATACCAAACAAAAAATCATAAATTATGATTACAAAA-TCAAAAAA-TTATAAAAATGCAAACAAA
* * * * *
20016363 AT-AAAAA-AAATCTTATGATTGGAAAAAATATAA-TAGAAACATGAAATACA-TTCATATAATT
126 ATGAAAAACAAATATCATAACTAGAAAAAA-A-AAGTAG--ACATGAAATACACTT-AT-TAATT
* * *
20016424 ATGCC-ATAAAAAATG-AAATCATAAG-CTATAAGAAAATCAAAAGTCAAAACATAAATGTTAGA
185 ATCCCAATAAAAAAAGAAAAACATAAGTC-ATAAG-AAATCAAAAGTCAAAACATAAATGTTAGA
20016486 AAATCAAAGATTTCAATAAAATTTAACAAATAACGG-TTCTAAAGAACATAAATAAGAGAAAATC
248 AAATCAAAGATTTCAATAAAATTTAACAAATAACGGTTTCTAAA-AACATAAATAAGAGAAAATC
*
20016550 AAAAGTCATGAATCCATATAAATATTAGGCAACCAAAA-ATCTCTTGGATTTTATGTAATAAAAT
312 AAAAGTCATGAATCCATATAAATATTAGGCAACCAAAAGAT-TCTTGGATTTTAAGTAATAAAAT
* * * *
20016614 T-AAGGAATAGATGTTTAGAATTTATGTAAAAAAGACTTGGCATTTATTGTAAAATATT
376 TAAAAG-ATACATGTTTAGAATTTATGTAAAAAAGAATTGGCATTTATCGTAAAATATT
20016672 T
1 T
20016673 GAATTTTATA
Statistics
Matches: 379, Mismatches: 41, Indels: 33
0.84 0.09 0.07
Matches are distributed among these distances:
434 10 0.03
435 97 0.26
436 213 0.56
437 37 0.10
438 14 0.04
439 8 0.02
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.27
Consensus pattern (433 bp):
TAAAAAATAATAAAAAATCAAATACTAAAAAGATACACCAATGGACTAAAAAAAAACTTAAAATA
CCAAACAAAAAATCATAAATTATGATTACAAAATCAAAAAATTATAAAAATGCAAACAAAATGAA
AAACAAATATCATAACTAGAAAAAAAAAGTAGACATGAAATACACTTATTAATTATCCCAATAAA
AAAAGAAAAACATAAGTCATAAGAAATCAAAAGTCAAAACATAAATGTTAGAAAATCAAAGATTT
CAATAAAATTTAACAAATAACGGTTTCTAAAAACATAAATAAGAGAAAATCAAAAGTCATGAATC
CATATAAATATTAGGCAACCAAAAGATTCTTGGATTTTAAGTAATAAAATTAAAAGATACATGTT
TAGAATTTATGTAAAAAAGAATTGGCATTTATCGTAAAATATT
Found at i:20016973 original size:20 final size:20
Alignment explanation
Indices: 20016940--20016977 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
20016930 ATTAAAGCTT
20016940 TTTTATTATATATTTAATCAC
1 TTTTATTATATA-TTAATCAC
*
20016961 TTTT-TTATCTATTAATC
1 TTTTATTATATATTAATC
20016978 TCCTATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 6 0.38
21 4 0.25
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTATTATATATTAATCAC
Found at i:20020125 original size:13 final size:13
Alignment explanation
Indices: 20020107--20020131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20020097 ATTTGCTAAA
20020107 ATATTATTGAAAG
1 ATATTATTGAAAG
20020120 ATATTATTGAAA
1 ATATTATTGAAA
20020132 TTGCACCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATATTATTGAAAG
Found at i:20020237 original size:20 final size:20
Alignment explanation
Indices: 20020212--20020262 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
20020202 TAATTTATGT
20020212 TTAACTAAAATAGATTTAAA
1 TTAACTAAAATAGATTTAAA
20020232 TTAACTAAAATAGATTTAAA
1 TTAACTAAAATAGATTTAAA
20020252 -TAACGTAAAAT
1 TTAAC-TAAAAT
20020263 TAATGAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (20 bp):
TTAACTAAAATAGATTTAAA
Found at i:20020285 original size:18 final size:17
Alignment explanation
Indices: 20020262--20020295 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20020252 TAACGTAAAA
20020262 TTAATGAAGAATTTTGAG
1 TTAATGAA-AATTTTGAG
*
20020280 TTAATGCAAATTTTGA
1 TTAATGAAAATTTTGA
20020296 TTTTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTAATGAAAATTTTGAG
Found at i:20023057 original size:25 final size:25
Alignment explanation
Indices: 20023027--20023084 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
20023017 CTCGATTCGT
20023027 ATACTCGACAAGAGTTCGATTATTC
1 ATACTCGACAAGAGTTCGATTATTC
20023052 ATACTCGACAAGAGTTCGATTATTC
1 ATACTCGACAAGAGTTCGATTATTC
20023077 ATACTCGA
1 ATACTCGA
20023085 ATTCGAACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (25 bp):
ATACTCGACAAGAGTTCGATTATTC
Found at i:20028500 original size:14 final size:15
Alignment explanation
Indices: 20028468--20028500 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20028458 TTAAAATATC
20028468 AATTTTTTCTTAAAT
1 AATTTTTTCTTAAAT
*
20028483 AATTTTTTTTTAAA-
1 AATTTTTTCTTAAAT
20028497 AATT
1 AATT
20028501 GAGAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
AATTTTTTCTTAAAT
Found at i:20028551 original size:52 final size:52
Alignment explanation
Indices: 20028304--20028580 Score: 222
Period size: 52 Copynumber: 5.2 Consensus size: 52
20028294 TCTTTTTATT
* ** * * *
20028304 TATTTATTTTTTTTGAATAAAAT-TTTTTAAAAATTTAAGAAAAAGTTAAAC
1 TATTAATTTTTTTAAAATAAAATATTTTTAAAAATTTGAGAAAAAATTAAAA
**
20028355 TATTAATTTTTTTAAAAT-AAA-ATTTCAAAAAATTTGGAAGAAAAAATTAAAA
1 TATTAATTTTTTTAAAATAAAATATTTTTAAAAATTT-G-AGAAAAAATTAAAA
* * * ** * *
20028407 TATCAAATTTTCTTCT-AAAGAAAATAATTTCCAACATTTGAAAAAAAAAAGTTAAAA
1 TAT-TAATTTT-TT-TAAAATAAAATATTTTTAAAAATTTG--AGAAAAAA-TTAAAA
* * ** *
20028464 TATCAATTTTTTCTTAAATAATTTTTTTTTAAAAA-TTGAGAAAAAATTAAAA
1 TATTAATTTTTT-TAAAATAAAATATTTTTAAAAATTTGAGAAAAAATTAAAA
* *
20028516 TATTAATTTTTTTAAAATAAAATATATTTTTAAAATTTGTGAAAAAATTAAAA
1 TATTAATTTTTTTAAAATAAAATAT-TTTTAAAAATTTGAGAAAAAATTAAAA
20028569 TATTATATTTTT
1 TATTA-ATTTTT
20028581 CTCTAAACAA
Statistics
Matches: 179, Mismatches: 33, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
50 14 0.08
51 24 0.13
52 40 0.22
53 34 0.19
54 11 0.06
55 12 0.07
56 35 0.20
57 9 0.05
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.43
Consensus pattern (52 bp):
TATTAATTTTTTTAAAATAAAATATTTTTAAAAATTTGAGAAAAAATTAAAA
Found at i:20028628 original size:19 final size:21
Alignment explanation
Indices: 20028606--20028648 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
20028596 AGAAAAAAAA
*
20028606 TTAAAATA-TCAATTTT-TAT
1 TTAAAATATTAAATTTTCTAT
20028625 TT-AAATATTAAATTTTCTAT
1 TTAAAATATTAAATTTTCTAT
20028645 TTAA
1 TTAA
20028649 TTTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 5 0.25
21 1 0.05
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAAATATTAAATTTTCTAT
Found at i:20028797 original size:51 final size:50
Alignment explanation
Indices: 20028690--20028837 Score: 125
Period size: 50 Copynumber: 2.9 Consensus size: 50
20028680 TCTTTAAAAC
* * **
20028690 AAAAATAATTCTTAAAAAAATTAAAAGAAAGAATTAAAATATTAATCTTTCCT
1 AAAAATAATT-TT-AAAAAATTTAAAGAAA-AATTAAAATATCAAAATTTCCT
* **
20028743 AAAAAATAATTTTAAAAGATTTAAAGAAAAATTAAAATATCAAAATTTTTT
1 -AAAAATAATTTTAAAAAATTTAAAGAAAAATTAAAATATCAAAATTTCCT
* ** * ** * *
20028794 AAAATTAATTTCGAGATTTTTAATGAAAAATTAGAATATCAAAA
1 AAAAATAATTTTAAAAAATTTAAAGAAAAATTAAAATATCAAAA
20028838 ATTCTTTGAA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
50 36 0.46
51 17 0.22
52 14 0.18
53 2 0.03
54 10 0.13
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (50 bp):
AAAAATAATTTTAAAAAATTTAAAGAAAAATTAAAATATCAAAATTTCCT
Found at i:20029237 original size:22 final size:23
Alignment explanation
Indices: 20029207--20029255 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
20029197 ATAAATTTAT
* **
20029207 TAAATAATTAATCGTATTT-AAA
1 TAAAAAATTAATAATATTTAAAA
20029229 TAAAAAATTAATAATATTTAAAA
1 TAAAAAATTAATAATATTTAAAA
20029252 TAAA
1 TAAA
20029256 TCTATAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAAAAATTAATAATATTTAAAA
Found at i:20040786 original size:2 final size:2
Alignment explanation
Indices: 20040767--20040835 Score: 93
Period size: 2 Copynumber: 34.5 Consensus size: 2
20040757 CCTTAAACAA
* * *
20040767 AT AT AC AT AT AC AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
20040809 AT AT AT AT AG AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20040836 GTAGCCTTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:20043898 original size:23 final size:23
Alignment explanation
Indices: 20043836--20043885 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
20043826 AAATTTATTT
**
20043836 AATTTATTT-ATATTCGTAAATA
1 AATTTATTTGATATTTATAAATA
20043858 AATTTATTTGATATTTATAAATA
1 AATTTATTTGATATTTATAAATA
20043881 AATTT
1 AATTT
20043886 GATTATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
AATTTATTTGATATTTATAAATA
Found at i:20045591 original size:14 final size:14
Alignment explanation
Indices: 20045554--20045592 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
20045544 AAAATTATTA
*
20045554 ATAAATTAAAAATC
1 ATAAATTAAAAAAC
* *
20045568 AAAAAATAAAAAAC
1 ATAAATTAAAAAAC
20045582 ATAAATTAAAA
1 ATAAATTAAAA
20045593 GATCTCGTTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAATTAAAAAAC
Found at i:20045678 original size:17 final size:15
Alignment explanation
Indices: 20045650--20045681 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
20045640 AAATTGTGAT
20045650 ATATTTTTTAAATAA
1 ATATTTTTTAAATAA
20045665 ATA-TTTTT-AATAA
1 ATATTTTTTAAATAA
20045678 ATAT
1 ATAT
20045682 GTTATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.50
14 5 0.31
15 3 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTTTTAAATAA
Found at i:20046314 original size:26 final size:26
Alignment explanation
Indices: 20046271--20046320 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
20046261 TCTTCCTCTT
*
20046271 TTTTATTTTCTTTGTTTTTTTTAAGC
1 TTTTATTTTCTTTGTTTTTCTTAAGC
* * *
20046297 TTTTGTTTTTTTTTTTTTTCTTAA
1 TTTTATTTTCTTTGTTTTTCTTAA
20046321 AAACTTTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.78
Consensus pattern (26 bp):
TTTTATTTTCTTTGTTTTTCTTAAGC
Found at i:20051934 original size:25 final size:25
Alignment explanation
Indices: 20051904--20051961 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
20051894 CTCGATTCGT
20051904 ATACTCGACAAGAGTTCGATTATTC
1 ATACTCGACAAGAGTTCGATTATTC
20051929 ATACTCGACAAGAGTTCGATTATTC
1 ATACTCGACAAGAGTTCGATTATTC
20051954 ATACTCGA
1 ATACTCGA
20051962 ATTCGAACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (25 bp):
ATACTCGACAAGAGTTCGATTATTC
Found at i:20055355 original size:3 final size:3
Alignment explanation
Indices: 20055340--20055370 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
20055330 TAATCAAGAT
*
20055340 ATC ATC TTC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
20055371 GACGATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:20057425 original size:22 final size:22
Alignment explanation
Indices: 20057397--20057442 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
20057387 ATTTCTATAC
* *
20057397 TTTT-AAACTTATTTATTTGATT
1 TTTTAAAAATTATATATTT-ATT
20057419 TTTTAAAAATTATATATTTATT
1 TTTTAAAAATTATATATTTATT
20057441 TT
1 TT
20057443 GTAGATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTAAAAATTATATATTTATT
Found at i:20059921 original size:26 final size:26
Alignment explanation
Indices: 20059892--20059951 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
20059882 TATTAATTTT
20059892 AATTTAAATAAAATAAAATAAAATAA
1 AATTTAAATAAAATAAAATAAAATAA
* * * * * *
20059918 AATTTATATAATATCAAATTAGATCA
1 AATTTAAATAAAATAAAATAAAATAA
20059944 AATTTAAA
1 AATTTAAA
20059952 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (26 bp):
AATTTAAATAAAATAAAATAAAATAA
Found at i:20060005 original size:68 final size:67
Alignment explanation
Indices: 20059899--20060029 Score: 167
Period size: 68 Copynumber: 1.9 Consensus size: 67
20059889 TTTAATTTAA
* *
20059899 ATAAAATAAAATAAAATAAAATTTATATAATATCAAATTAGATCAAATTTAAAAATAAA-AAAAT
1 ATAAAATAAAATAAAATAAAATTTATATAATATAAAATTAAATCAAATTT-AAAATAAATAAAAT
20059963 TTT
65 TTT
* * * *
20059966 ATAAAATCAAATTAAATTTAAATATTATA-AATATAAAATTAAATCAACTTTAAAATAAATAAAA
1 ATAAAAT-AAAATAAAATAAAAT-TTATATAATATAAAATTAAATCAAATTTAAAATAAATAAAA
20060030 ATTCGATCTG
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
67 15 0.27
68 35 0.64
69 5 0.09
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.33
Consensus pattern (67 bp):
ATAAAATAAAATAAAATAAAATTTATATAATATAAAATTAAATCAAATTTAAAATAAATAAAATT
TT
Found at i:20061788 original size:19 final size:21
Alignment explanation
Indices: 20061746--20061795 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
20061736 CTTGAAATTA
20061746 ATAAAATATTATTTTTTAAGT
1 ATAAAATATTATTTTTTAAGT
20061767 ATAAAATATTA-TTTTTAA-T
1 ATAAAATATTATTTTTTAAGT
20061786 AT-AAATATTA
1 ATAAAATATTA
20061796 AATTAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.28
19 3 0.10
20 7 0.24
21 11 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAGT
Found at i:20061795 original size:18 final size:19
Alignment explanation
Indices: 20061743--20061795 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 19
20061733 TGACTTGAAA
20061743 TTAATA-AAATATTATTTT
1 TTAATATAAATATTATTTT
20061761 TTAAGTATAAAATATTA-TTT
1 TTAA-TAT-AAATATTATTTT
20061781 TTAATATAAATATTA
1 TTAATATAAATATTA
20061796 AATTAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 12 0.38
19 5 0.16
20 7 0.22
21 8 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TTAATATAAATATTATTTT
Found at i:20061814 original size:16 final size:16
Alignment explanation
Indices: 20061790--20061820 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20061780 TTTAATATAA
*
20061790 ATATTAAATTAAATAT
1 ATATAAAATTAAATAT
20061806 ATATAAAATTAAATA
1 ATATAAAATTAAATA
20061821 AATAATTTAT
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:0.00, T:0.39
Consensus pattern (16 bp):
ATATAAAATTAAATAT
Found at i:20061831 original size:21 final size:22
Alignment explanation
Indices: 20061784--20061824 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
20061774 ATTATTTTTA
20061784 ATATAAATATTAAATTAAATAT
1 ATATAAATATTAAATTAAATAT
20061806 ATATAAA-ATTAAA-TAAATA
1 ATATAAATATTAAATTAAATA
20061825 ATTTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATATAAATATTAAATTAAATAT
Found at i:20063425 original size:32 final size:32
Alignment explanation
Indices: 20063361--20063426 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
20063351 TTTAAAACAC
* * * * * *
20063361 AATACCAATATATAAATTTTTATATTTTATAT
1 AATACAAATATATAAATTATCACATCTAATAT
20063393 AATACAAATATATAAATTATCACATCTAATAT
1 AATACAAATATATAAATTATCACATCTAATAT
20063425 AA
1 AA
20063427 GTCACCCAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (32 bp):
AATACAAATATATAAATTATCACATCTAATAT
Found at i:20064692 original size:6 final size:6
Alignment explanation
Indices: 20064649--20064689 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
20064639 TAAAAATCAT
*
20064649 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAT ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
20064690 TATGTATACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (6 bp):
ATATAC
Found at i:20065288 original size:21 final size:21
Alignment explanation
Indices: 20065249--20065289 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20065239 CAAAAAATAA
**
20065249 AAAATAAAAAATAGTAATTTT
1 AAAATAAAAAATAAAAATTTT
*
20065270 AAAATAAAAAGTAAAAATTT
1 AAAATAAAAAATAAAAATTT
20065290 AAATGTTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAATAAAAAATAAAAATTTT
Found at i:20070345 original size:13 final size:13
Alignment explanation
Indices: 20070291--20070350 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
20070281 ATGGAAAGAC
*
20070291 TATTATTATCTAA
1 TATTATTATCAAA
* *
20070304 CATTATTATCTAAT
1 TATTATTATC-AAA
*
20070318 TAATGATTA--AAA
1 T-ATTATTATCAAA
20070330 TATTATTATCAAA
1 TATTATTATCAAA
20070343 TATTATTA
1 TATTATTA
20070351 CCTAATTACT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
11 6 0.17
12 3 0.08
13 20 0.56
14 1 0.03
15 6 0.17
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (13 bp):
TATTATTATCAAA
Found at i:20073946 original size:17 final size:17
Alignment explanation
Indices: 20073914--20073947 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20073904 TCATTCTTTT
*
20073914 TTTTTTTTCAATTATCC
1 TTTTTTTTCAAATATCC
*
20073931 TTTTTTTTGAAATATCC
1 TTTTTTTTCAAATATCC
20073948 ATATACATTT
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:0.21, C:0.15, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTTTTTCAAATATCC
Found at i:20081929 original size:21 final size:22
Alignment explanation
Indices: 20081905--20081948 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
20081895 CAATACGGAT
* *
20081905 TAAAAAAATTAATAAAT-TACA
1 TAAAAAAATAAACAAATATACA
*
20081926 TAAATAAATAAACAAATATACA
1 TAAAAAAATAAACAAATATACA
20081948 T
1 T
20081949 TTGAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAAAAATAAACAAATATACA
Found at i:20092825 original size:23 final size:22
Alignment explanation
Indices: 20092765--20092829 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
20092755 ATATATTTTT
* *
20092765 TAATTTTTATTAAATTTATA-TA
1 TAATTTTT-TTAATTTTAAATTA
20092787 TAATTTTTTTAATTTTAAATTA
1 TAATTTTTTTAATTTTAAATTA
* * *
20092809 TACTTTTTTTATTTTTTAATT
1 TAATTTTTTTAATTTTAAATT
20092830 TTCTTATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 9 0.24
22 28 0.76
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
TAATTTTTTTAATTTTAAATTA
Found at i:20093213 original size:23 final size:23
Alignment explanation
Indices: 20093187--20093231 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
20093177 AAGTTATTAA
* *
20093187 TTTTGTTTAATAAAATTAAATTT
1 TTTTATTTAATAAAAATAAATTT
*
20093210 TTTTATTTATTAAAAATAAATT
1 TTTTATTTAATAAAAATAAATT
20093232 AAATTATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTATTTAATAAAAATAAATTT
Found at i:20093856 original size:46 final size:44
Alignment explanation
Indices: 20093805--20093896 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 44
20093795 AATAAATGAT
*
20093805 TTTTTG-ACATGAGATGCATGGAAATTTTTATTATATTTTTATATAA
1 TTTTTGAACATGAGATACAT--AAATTTTTATTATATTTTT-TATAA
* *
20093851 TTTTTGATATATGAGATACATAATTTTTTATTATATTTTTTATAA
1 TTTTTGA-ACATGAGATACATAAATTTTTATTATATTTTTTATAA
20093896 T
1 T
20093897 ATGTGCATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 6 0.15
46 24 0.59
48 11 0.27
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (44 bp):
TTTTTGAACATGAGATACATAAATTTTTATTATATTTTTTATAA
Found at i:20094946 original size:13 final size:13
Alignment explanation
Indices: 20094928--20094952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20094918 TTGAATTTTG
20094928 AAATTTTTAATTA
1 AAATTTTTAATTA
20094941 AAATTTTTAATT
1 AAATTTTTAATT
20094953 TTATTATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATTTTTAATTA
Found at i:20095955 original size:12 final size:12
Alignment explanation
Indices: 20095938--20095962 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20095928 GCGGCGAGTT
20095938 GAACTTTTAGCA
1 GAACTTTTAGCA
20095950 GAACTTTTAGCA
1 GAACTTTTAGCA
20095962 G
1 G
20095963 GCGGTGAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GAACTTTTAGCA
Found at i:20096106 original size:16 final size:16
Alignment explanation
Indices: 20096085--20096128 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
20096075 GATATTTAAA
20096085 TTAAATTTTTTAAAAT
1 TTAAATTTTTTAAAAT
*
20096101 TTAAA-TATTTAAAAT
1 TTAAATTTTTTAAAAT
* *
20096116 ATAAATTTATTAA
1 TTAAATTTTTTAA
20096129 TTAATATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAATTTTTTAAAAT
Found at i:20096111 original size:15 final size:15
Alignment explanation
Indices: 20096076--20096121 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
20096066 ATTTAATATG
20096076 ATATTT-AAA-TTAA
1 ATATTTAAAATTTAA
*
20096089 ATTTTTTAAAATTTAA
1 A-TATTTAAAATTTAA
*
20096105 ATATTTAAAATATAA
1 ATATTTAAAATTTAA
20096120 AT
1 AT
20096122 TTATTAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 4 0.15
15 17 0.63
16 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTTAAAATTTAA
Found at i:20096228 original size:16 final size:17
Alignment explanation
Indices: 20096192--20096240 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
20096182 ATAAATAATT
20096192 TTTAAAAATTATATTAA
1 TTTAAAAATTATATTAA
20096209 -TTAATAAATT-TA-TAA
1 TTTAA-AAATTATATTAA
* *
20096224 TTTAAATATTATGTTAA
1 TTTAAAAATTATATTAA
20096241 AAATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
15 7 0.27
16 11 0.42
17 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTAAAAATTATATTAA
Found at i:20096258 original size:29 final size:29
Alignment explanation
Indices: 20096183--20096275 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 29
20096173 AAATAATAAA
*
20096183 TAAATAATTTTTAAAAATT--ATATTA-AT
1 TAAA-AATTTTTAAAATTTAAATATTATAT
* *
20096210 TAATAAA--TTTATAATTTAAATATTATGT
1 TAA-AAATTTTTAAAATTTAAATATTATAT
20096238 TAAAAATTTTTAAAATTTAAATATTATAT
1 TAAAAATTTTTAAAATTTAAATATTATAT
*
20096267 TAAATATTT
1 TAAAAATTT
20096276 CTCAATAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
25 8 0.15
27 14 0.26
28 5 0.09
29 27 0.50
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TAAAAATTTTTAAAATTTAAATATTATAT
Found at i:20096872 original size:1 final size:1
Alignment explanation
Indices: 20096866--20096892 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
20096856 CACCATAACC
20096866 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
20096893 CAACCTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:20107854 original size:50 final size:52
Alignment explanation
Indices: 20107769--20107870 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 52
20107759 TCTTTTTATT
* ** ** *
20107769 TATTTATTTTTTTTGAATAAAATTTTTTAAAAATTT-AAGAAAAAGTTAAAC
1 TATTAATTTTTTTAAAATAAAATTTTCAAAAAATTTGAAGAAAAAATTAAAC
20107820 TATTAATTTTTTTAAAATAAAA-TTTCAAAAAATTTGGAAGAAAAAATTAAA
1 TATTAATTTTTTTAAAATAAAATTTTCAAAAAATTT-GAAGAAAAAATTAAA
20107871 ATATCAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
50 11 0.26
51 19 0.44
52 13 0.30
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (52 bp):
TATTAATTTTTTTAAAATAAAATTTTCAAAAAATTTGAAGAAAAAATTAAAC
Found at i:20108041 original size:19 final size:21
Alignment explanation
Indices: 20108019--20108061 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
20108009 AGAAAAAAAA
*
20108019 TTAAAATA-TCAATTTT-TAT
1 TTAAAATATTAAATTTTCTAT
20108038 TT-AAATATTAAATTTTCTAT
1 TTAAAATATTAAATTTTCTAT
20108058 TTAA
1 TTAA
20108062 TTTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 5 0.25
21 1 0.05
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAAATATTAAATTTTCTAT
Found at i:20108210 original size:51 final size:50
Alignment explanation
Indices: 20108103--20108250 Score: 125
Period size: 50 Copynumber: 2.9 Consensus size: 50
20108093 TCTTTAAAAC
* * **
20108103 AAAAATAATTCTTAAAAAAATTAAAAGAAAGAATTAAAATATTAATCTTTCCT
1 AAAAATAATT-TT-AAAAAATTTAAAGAAA-AATTAAAATATCAAAATTTCCT
* **
20108156 AAAAAATAATTTTAAAAGATTTAAAGAAAAATTAAAATATCAAAATTTTTT
1 -AAAAATAATTTTAAAAAATTTAAAGAAAAATTAAAATATCAAAATTTCCT
* ** * ** * *
20108207 AAAATTAATTTCGAGATTTTTAATGAAAAATTAGAATATCAAAA
1 AAAAATAATTTTAAAAAATTTAAAGAAAAATTAAAATATCAAAA
20108251 ATTCTTTGAA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
50 36 0.46
51 17 0.22
52 14 0.18
53 2 0.03
54 10 0.13
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (50 bp):
AAAAATAATTTTAAAAAATTTAAAGAAAAATTAAAATATCAAAATTTCCT
Found at i:20108650 original size:22 final size:23
Alignment explanation
Indices: 20108620--20108668 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
20108610 ATAAATTTAT
* **
20108620 TAAATAATTAATCGTATTT-AAA
1 TAAAAAATTAATAATATTTAAAA
20108642 TAAAAAATTAATAATATTTAAAA
1 TAAAAAATTAATAATATTTAAAA
20108665 TAAA
1 TAAA
20108669 TCTATAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAAAAATTAATAATATTTAAAA
Found at i:20119688 original size:2 final size:2
Alignment explanation
Indices: 20119681--20119710 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20119671 GAAAATTTGC
20119681 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20119711 AGAATGAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20120190 original size:2 final size:2
Alignment explanation
Indices: 20120171--20120219 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
20120161 CCTTAAACAA
* * * *
20120171 AT AT AC AT AT AC AT AT AT AT AT AT AT AG AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20120213 AT AT AT A
1 AT AT AT A
20120220 GTAGCCTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:20123260 original size:23 final size:23
Alignment explanation
Indices: 20123198--20123247 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
20123188 AAATTTATTT
**
20123198 AATTTATTT-ATATTCGTAAATA
1 AATTTATTTGATATTTATAAATA
20123220 AATTTATTTGATATTTATAAATA
1 AATTTATTTGATATTTATAAATA
20123243 AATTT
1 AATTT
20123248 GATTATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
AATTTATTTGATATTTATAAATA
Found at i:20125570 original size:26 final size:25
Alignment explanation
Indices: 20125518--20125569 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 25
20125508 GAATTGCTTT
20125518 ATTAAAAATTATTAAAAAAAATTAAA
1 ATTAAAAATTA-TAAAAAAAATTAAA
20125544 ATTAAAAATTA-AAAAATAAATTAAA
1 ATTAAAAATTATAAAAA-AAATTAAA
20125569 A
1 A
20125570 AATCTCGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 5 0.20
25 9 0.36
26 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (25 bp):
ATTAAAAATTATAAAAAAAATTAAA
Found at i:20125572 original size:12 final size:11
Alignment explanation
Indices: 20125521--20125571 Score: 57
Period size: 13 Copynumber: 4.2 Consensus size: 11
20125511 TTGCTTTATT
20125521 AAAAATTATTAAA
1 AAAAATTA--AAA
20125534 AAAAATTAAAA
1 AAAAATTAAAA
20125545 TTAAAAATTAAAA
1 --AAAAATTAAAA
20125558 AATAAATTAAAA
1 AA-AAATTAAAA
20125570 AA
1 AA
20125572 TCTCGTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.14
12 11 0.31
13 19 0.54
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAATTAAAA
Found at i:20128429 original size:2 final size:2
Alignment explanation
Indices: 20128418--20128460 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
20128408 AAAAGACAAT
*
20128418 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20128459 TA
1 TA
20128461 AAACCAATGC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20131964 original size:18 final size:18
Alignment explanation
Indices: 20131941--20131978 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20131931 TCTAACTTTG
* *
20131941 ATCAAATTTTAAATTAAA
1 ATCAAAATTGAAATTAAA
20131959 ATCAAAATTGAAATTAAA
1 ATCAAAATTGAAATTAAA
20131977 AT
1 AT
20131979 TTCAAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (18 bp):
ATCAAAATTGAAATTAAA
Found at i:20134901 original size:18 final size:20
Alignment explanation
Indices: 20134880--20134917 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
20134870 ACTTAACTTT
20134880 TTAA-TAAAAGTT-TTAAAA
1 TTAATTAAAAGTTATTAAAA
*
20134898 TTAATTAAAATTTATTAAAA
1 TTAATTAAAAGTTATTAAAA
20134918 AGATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TTAATTAAAAGTTATTAAAA
Found at i:20135575 original size:28 final size:28
Alignment explanation
Indices: 20135521--20135575 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
20135511 TTTGCTTTTT
*
20135521 TAATAATTATAAATATTTAAAAGTTATG
1 TAATAATTATAAATATCTAAAAGTTATG
* *
20135549 TAATAA-TATAATTATCTATAAATTTAT
1 TAATAATTATAAATATCTA-AAAGTTAT
20135576 TTTCTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (28 bp):
TAATAATTATAAATATCTAAAAGTTATG
Found at i:20140835 original size:52 final size:52
Alignment explanation
Indices: 20140735--20140837 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
20140725 TTTAAATTTC
* * * *
20140735 TAAAGTTTTAATGCCTTTGTTGATAAAGAGCTTTTTTGGTTGCAAATTTTTT
1 TAAAGTTTCAATACCTTTGTTGAGAAAGAGCTTTTTTGGTTACAAATTTTTT
**
20140787 TAAAGTTTCAATACCTTTGTTGAG-AAGAAGCTTTTTTGGTTATGAATTTTT
1 TAAAGTTTCAATACCTTTGTTGAGAAAG-AGCTTTTTTGGTTACAAATTTTT
20140838 AAATTTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
51 3 0.07
52 41 0.93
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (52 bp):
TAAAGTTTCAATACCTTTGTTGAGAAAGAGCTTTTTTGGTTACAAATTTTTT
Found at i:20140967 original size:42 final size:42
Alignment explanation
Indices: 20140840--20140968 Score: 118
Period size: 42 Copynumber: 3.0 Consensus size: 42
20140830 GAATTTTTAA
* * *
20140840 ATTTT-TAAATGTTTCAAAG-TTTCTGTTGAGTGGGAGCATTTT
1 ATTTTCTAAA-GTTTCAAAGCCTT-TGTTAAGAGGGAGCATTTT
* * * * ** *
20140882 GTTTTTCAAAAGTTTCAAAACCTTTGTTAAAAGATAGCTTTTT
1 -ATTTTCTAAAGTTTCAAAGCCTTTGTTAAGAGGGAGCATTTT
*
20140925 ATTTTCTAAAGTTTCAAAGCCTTTGTTAAGAGGGAACATTTT
1 ATTTTCTAAAGTTTCAAAGCCTTTGTTAAGAGGGAGCATTTT
20140967 AT
1 AT
20140969 CCAACAAAGA
Statistics
Matches: 66, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
42 36 0.55
43 25 0.38
44 5 0.08
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.44
Consensus pattern (42 bp):
ATTTTCTAAAGTTTCAAAGCCTTTGTTAAGAGGGAGCATTTT
Found at i:20141870 original size:19 final size:18
Alignment explanation
Indices: 20141848--20141900 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
20141838 ATTTCTGAAA
20141848 TTTTTTGGAATTTTGGGAT
1 TTTTTTGGAATTTTGGG-T
* *
20141867 TTTTTAGGAATGTTAGGGT
1 TTTTTTGGAAT-TTTGGGT
*
20141886 TTTTATTTGAATTTT
1 TTTT-TTGGAATTTT
20141901 TTAGCAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (18 bp):
TTTTTTGGAATTTTGGGT
Found at i:20142263 original size:5 final size:5
Alignment explanation
Indices: 20142255--20142332 Score: 72
Period size: 5 Copynumber: 15.6 Consensus size: 5
20142245 TCATTTTTCT
* * * *
20142255 TTTTA TTTTCA ATTT- TTTTA TTTTGA TTTTA TTTCA TTTTA TTTTC TAGTTA
1 TTTTA TTTT-A TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA T-TTTA
20142307 TTTTA TTTT- TTTTA TTTT- TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
20142333 GTTTCATTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
4 11 0.19
5 36 0.61
6 12 0.20
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:20142278 original size:26 final size:26
Alignment explanation
Indices: 20142249--20142332 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 26
20142239 CAGTTTTCAT
20142249 TTTTCTTTTTATTTTCAATTTTTTTA
1 TTTTCTTTTTATTTTCAATTTTTTTA
**
20142275 TTTTGATTTTA-TTTC-A---TTTTA
1 TTTTCTTTTTATTTTCAATTTTTTTA
** *
20142296 TTTTCTAGTTATTTT-ATTTTTTTTA
1 TTTTCTTTTTATTTTCAATTTTTTTA
20142321 -TTT-TTTTTATTT
1 TTTTCTTTTTATTT
20142333 GTTTCATTCT
Statistics
Matches: 44, Mismatches: 9, Indels: 13
0.67 0.14 0.20
Matches are distributed among these distances:
21 12 0.27
22 3 0.07
23 7 0.16
24 4 0.09
25 9 0.20
26 9 0.20
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTTCTTTTTATTTTCAATTTTTTTA
Found at i:20142286 original size:11 final size:11
Alignment explanation
Indices: 20142270--20142332 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 11
20142260 TTTTCAATTT
*
20142270 TTTTATTTTGA
1 TTTTATTTTCA
20142281 TTTTA-TTTCA
1 TTTTATTTTCA
20142291 TTTTATTTTC-
1 TTTTATTTTCA
*
20142301 TAGTTATTTT-A
1 T-TTTATTTTCA
20142312 TTTT-TTTT-A
1 TTTTATTTTCA
20142321 TTTT-TTTT-A
1 TTTTATTTTCA
20142330 TTT
1 TTT
20142333 GTTTCATTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
9 17 0.37
10 12 0.26
11 17 0.37
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:20142366 original size:21 final size:21
Alignment explanation
Indices: 20142269--20142369 Score: 63
Period size: 21 Copynumber: 4.9 Consensus size: 21
20142259 ATTTTCAATT
*
20142269 TTTTTATTT-TGATTTTATTTCA
1 TTTTTATTTATTATTTT-TTT-A
*
20142291 -TTTTATTT-TCTAGTTATTTTA
1 TTTTTATTTAT-TA-TTTTTTTA
20142312 TTTTT-TTTA-T-TTTTTTTA
1 TTTTTATTTATTATTTTTTTA
* *
20142330 TTTGT-TTCATTCTATTTTTTTA
1 TTTTTATTTA-T-TATTTTTTTA
20142352 TTTTTATTTATTATTTTT
1 TTTTTATTTATTATTTTT
20142370 AATTATGATT
Statistics
Matches: 63, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
18 14 0.22
20 1 0.02
21 21 0.33
22 21 0.33
23 6 0.10
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (21 bp):
TTTTTATTTATTATTTTTTTA
Found at i:20142367 original size:13 final size:13
Alignment explanation
Indices: 20142309--20142375 Score: 50
Period size: 13 Copynumber: 5.1 Consensus size: 13
20142299 TCTAGTTATT
20142309 TTATTTTT-TTTA
1 TTATTTTTATTTA
* *
20142321 TTTTTTTTATTTGT
1 TTATTTTTATTT-A
20142335 TTCATTCTATT-TTT-
1 TT-ATT-T-TTATTTA
20142349 TTATTTTTATTTA
1 TTATTTTTATTTA
*
20142362 TTATTTTTAATTA
1 TTATTTTTATTTA
20142375 T
1 T
20142376 GATTGAGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
11 2 0.05
12 11 0.25
13 19 0.43
14 4 0.09
15 2 0.05
16 4 0.09
17 2 0.05
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (13 bp):
TTATTTTTATTTA
Found at i:20143553 original size:101 final size:101
Alignment explanation
Indices: 20143393--20143587 Score: 309
Period size: 101 Copynumber: 1.9 Consensus size: 101
20143383 TAAGGCAATT
* * *
20143393 CCTTGTTTGTGACAAAGTAAGTTTTTATTTTAATTTTAGATGGATATTTGCAGTAAAATTCTTAT
1 CCTTGTTTCTGACAAAGTAAGTTTTTATTTTAATTTAAGATGGATATTTGCAATAAAATTCTTAT
*
20143458 TTTCTACCAGTCTTATGACTGATTTTGATTATAATC
66 TTTCTACCAGTCTCATGACTGATTTTGATTATAATC
* * * *
20143494 CCTTGTTTCTGGCAAAGTAAGTTTTTATTTTTATTTAAGATGGATATTTGTAATAAAATTTTTAT
1 CCTTGTTTCTGACAAAGTAAGTTTTTATTTTAATTTAAGATGGATATTTGCAATAAAATTCTTAT
*
20143559 TTTCTACTAGTCTCATGACTGATTTTGAT
66 TTTCTACCAGTCTCATGACTGATTTTGAT
20143588 CTTTTTAATC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 85 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (101 bp):
CCTTGTTTCTGACAAAGTAAGTTTTTATTTTAATTTAAGATGGATATTTGCAATAAAATTCTTAT
TTTCTACCAGTCTCATGACTGATTTTGATTATAATC
Found at i:20145426 original size:3 final size:3
Alignment explanation
Indices: 20145420--20145454 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
20145410 AATATAATAA
20145420 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
20145455 AAAGAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20146884 original size:21 final size:21
Alignment explanation
Indices: 20146842--20146886 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20146832 AAGGTTTATT
* *
20146842 TAAACAATATAAAAAGAGTAA
1 TAAAAAATATAAAAAGAATAA
20146863 TAAAAAATA-AAAAAGAAATAA
1 TAAAAAATATAAAAAG-AATAA
20146884 TAA
1 TAA
20146887 TAATTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (21 bp):
TAAAAAATATAAAAAGAATAA
Found at i:20148939 original size:16 final size:17
Alignment explanation
Indices: 20148910--20148961 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
20148900 TTAGAATGCA
* *
20148910 TTTTGAATTTGAATTAT
1 TTTTTAATTCGAATTAT
20148927 TTTTT-ATTCGAATT-T
1 TTTTTAATTCGAATTAT
* *
20148942 TTTTTAATTTGAATAAT
1 TTTTTAATTCGAATTAT
20148959 TTT
1 TTT
20148962 AGATTCAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.21
16 15 0.52
17 8 0.28
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (17 bp):
TTTTTAATTCGAATTAT
Found at i:20150119 original size:16 final size:16
Alignment explanation
Indices: 20150065--20150133 Score: 70
Period size: 16 Copynumber: 4.3 Consensus size: 16
20150055 CAATTTTGAG
* *
20150065 TTTTTTAGGATTCGGA
1 TTTTTTTGGATTCGAA
*
20150081 TTTTTTTGAATTCAGAA
1 TTTTTTTGGATTC-GAA
20150098 -TTTTTTGGATTCGAA
1 TTTTTTTGGATTCGAA
*
20150113 TTTTTTTCGGA-TCAAA
1 TTTTTTT-GGATTCGAA
20150129 TTTTT
1 TTTTT
20150134 CTAGATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 3 0.07
16 37 0.82
17 5 0.11
ACGTcount: A:0.22, C:0.07, G:0.16, T:0.55
Consensus pattern (16 bp):
TTTTTTTGGATTCGAA
Found at i:20150428 original size:16 final size:16
Alignment explanation
Indices: 20150407--20150465 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
20150397 AGTTTTGAGA
20150407 TTTTTTGGATTCGGAT
1 TTTTTTGGATTCGGAT
** **
20150423 TTTTTTTAATTTAGAT
1 TTTTTTGGATTCGGAT
*
20150439 TTTTTTGGATTCGAAT
1 TTTTTTGGATTCGGAT
20150455 TTTTTTCGGAT
1 TTTTTT-GGAT
20150466 CAAATTTTTC
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
16 29 0.88
17 4 0.12
ACGTcount: A:0.17, C:0.05, G:0.17, T:0.61
Consensus pattern (16 bp):
TTTTTTGGATTCGGAT
Found at i:20150429 original size:17 final size:17
Alignment explanation
Indices: 20150407--20150465 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
20150397 AGTTTTGAGA
20150407 TTTTTTGGATTCGGATT
1 TTTTTTGGATTCGGATT
* **
20150424 TTTTTT-AATTTAGA-T
1 TTTTTTGGATTCGGATT
*
20150439 TTTTTTGGATTCGAATT
1 TTTTTTGGATTCGGATT
*
20150456 TTTTTCGGAT
1 TTTTTTGGAT
20150466 CAAATTTTTC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
15 7 0.22
16 9 0.28
17 16 0.50
ACGTcount: A:0.17, C:0.05, G:0.17, T:0.61
Consensus pattern (17 bp):
TTTTTTGGATTCGGATT
Found at i:20150471 original size:16 final size:16
Alignment explanation
Indices: 20150407--20150474 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
20150397 AGTTTTGAGA
**
20150407 TTTTTTGGATTCGGAT
1 TTTTTTGGATTCAAAT
** * *
20150423 TTTTTTTAATTTAGAT
1 TTTTTTGGATTCAAAT
*
20150439 TTTTTTGGATTCGAAT
1 TTTTTTGGATTCAAAT
20150455 TTTTTTCGGA-TCAAAT
1 TTTTTT-GGATTCAAAT
20150471 TTTT
1 TTTT
20150475 CTAGATTTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 38 0.93
17 3 0.07
ACGTcount: A:0.19, C:0.06, G:0.15, T:0.60
Consensus pattern (16 bp):
TTTTTTGGATTCAAAT
Found at i:20151563 original size:12 final size:12
Alignment explanation
Indices: 20151546--20151585 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
20151536 GTTCTTGTTT
20151546 TATACATATATA
1 TATACATATATA
*
20151558 TATACATGTATA
1 TATACATATATA
**
20151570 TATATGTATATA
1 TATACATATATA
20151582 TATA
1 TATA
20151586 TAAATTCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (12 bp):
TATACATATATA
Found at i:20151582 original size:10 final size:10
Alignment explanation
Indices: 20151546--20151584 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
20151536 GTTCTTGTTT
* *
20151546 TATACATATA
1 TATATATATG
*
20151556 TATATACATG
1 TATATATATG
20151566 TATATATATG
1 TATATATATG
20151576 TATATATAT
1 TATATATAT
20151585 ATAAATTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (10 bp):
TATATATATG
Found at i:20152545 original size:29 final size:31
Alignment explanation
Indices: 20152494--20152569 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 31
20152484 TTATCATTTT
* *
20152494 ATTTAAATAAAT-TTATATACTTTGA-TTAC
1 ATTTAAATAAGTCTTATATACTTTAATTTAC
* *
20152523 ATTTAAATAAGTCTTTTAT-CTTTAATTTAT
1 ATTTAAATAAGTCTTATATACTTTAATTTAC
*
20152553 ATTTGAATAAGCTCTTA
1 ATTTAAATAAG-TCTTA
20152570 AGTTTTAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 16 0.42
30 18 0.47
31 4 0.11
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (31 bp):
ATTTAAATAAGTCTTATATACTTTAATTTAC
Found at i:20152577 original size:30 final size:29
Alignment explanation
Indices: 20152543--20152631 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 29
20152533 GTCTTTTATC
* *
20152543 TTTAATTTATATTTGAATAAGCTCTTAAGT
1 TTTAATTTATATTTAAATAA-CTCTTAACT
* * *
20152573 TTTAATTTTTATTCAAATGAATTCTTAACT
1 TTTAATTTATATTTAAAT-AACTCTTAACT
* *
20152603 TTTAATTTGTATTTAAATAAACTTTTAAC
1 TTTAATTTATATTTAAAT-AACTCTTAAC
20152632 ATAAATCAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
30 46 0.96
31 2 0.04
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.52
Consensus pattern (29 bp):
TTTAATTTATATTTAAATAACTCTTAACT
Found at i:20155172 original size:11 final size:11
Alignment explanation
Indices: 20155158--20155231 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
20155148 TTTTATAACT
20155158 TATTTAATTAA
1 TATTTAATTAA
20155169 TATTTAATTAA
1 TATTTAATTAA
**
20155180 TAATTTTTTTATA
1 T-ATTTAATTA-A
*
20155193 TTTTCTTAATTAA
1 -TAT-TTAATTAA
*
20155206 TATTT--TTGA
1 TATTTAATTAA
20155215 TAATTTAATTAA
1 T-ATTTAATTAA
20155227 TATTT
1 TATTT
20155232 CCTTATTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
9 4 0.08
10 4 0.08
11 18 0.38
12 13 0.27
13 3 0.06
14 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (11 bp):
TATTTAATTAA
Found at i:20155645 original size:13 final size:14
Alignment explanation
Indices: 20155627--20155655 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20155617 TTAACTTATT
20155627 TATAG-AATAAATA
1 TATAGAAATAAATA
20155640 TATAGAAATAAATA
1 TATAGAAATAAATA
20155654 TA
1 TA
20155656 GGTAATTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (14 bp):
TATAGAAATAAATA
Found at i:20165580 original size:7 final size:7
Alignment explanation
Indices: 20165565--20165618 Score: 54
Period size: 7 Copynumber: 7.3 Consensus size: 7
20165555 TTTCCAATTC
*
20165565 TTTACTT
1 TTTATTT
20165572 TTTATTT
1 TTTATTT
*
20165579 TTTATTAAA
1 TTTATT--T
20165588 TTTATTT
1 TTTATTT
*
20165595 TTTACTTA
1 TTTA-TTT
20165603 TTTATTT
1 TTTATTT
20165610 TTTATTT
1 TTTATTT
20165617 TT
1 TT
20165619 ATTGGATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
7 27 0.69
8 6 0.15
9 6 0.15
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTATTT
Found at i:20165591 original size:16 final size:14
Alignment explanation
Indices: 20165572--20165621 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 14
20165562 TTCTTTACTT
20165572 TTTATTTTTTATTAAA
1 TTTATTTTTTATT--A
20165588 TTTATTTTTTACTTA
1 TTTATTTTTTA-TTA
20165603 TTTATTTTTTATT-
1 TTTATTTTTTATTA
20165616 TTTATT
1 TTTATT
20165622 GGATAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.18
14 2 0.06
15 12 0.36
16 11 0.33
17 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTTTTATTA
Found at i:20166618 original size:17 final size:17
Alignment explanation
Indices: 20166596--20166628 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20166586 TTAGAAAATT
20166596 TAAGAAA-ACAAAAATAA
1 TAAGAAAGA-AAAAATAA
20166613 TAAGAAAGAAAAAATA
1 TAAGAAAGAAAAAATA
20166629 TGGCTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (17 bp):
TAAGAAAGAAAAAATAA
Found at i:20171195 original size:10 final size:10
Alignment explanation
Indices: 20171182--20171239 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
20171172 TTTTTCTTAC
20171182 ATTTTTACTA
1 ATTTTTACTA
*
20171192 ATTTTTA-TT
1 ATTTTTACTA
*
20171201 ATTTTTATTA
1 ATTTTTACTA
*
20171211 ATTTTATTAATA
1 A-TTT-TTACTA
20171223 ATTTTTACTA
1 ATTTTTACTA
*
20171233 TTTTTTA
1 ATTTTTA
20171240 TTTTTAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 8 0.20
10 20 0.50
11 6 0.15
12 6 0.15
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTTACTA
Found at i:20172235 original size:36 final size:37
Alignment explanation
Indices: 20172195--20172283 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 37
20172185 TGACAGATTT
20172195 TTTTTTTATTTTTTTGGCAAGGTTTT-TCTTTT-TGGG
1 TTTTTTT-TTTTTTTGGCAAGGTTTTCTCTTTTGTGGG
* *
20172231 TTTTTTTTTTTTATTGTCAAGGTTTTCCTTTTTTGTGGG
1 TTTTTTTTTTTT-TTGGCAAGGTTTT-CTCTTTTGTGGG
20172270 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
20172284 ATCATTTTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
35 5 0.11
36 19 0.40
38 7 0.15
39 16 0.34
ACGTcount: A:0.07, C:0.06, G:0.16, T:0.72
Consensus pattern (37 bp):
TTTTTTTTTTTTTTGGCAAGGTTTTCTCTTTTGTGGG
Found at i:20172511 original size:11 final size:13
Alignment explanation
Indices: 20172485--20172513 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20172475 AGAAAAGACT
20172485 AAAAAAGAGAAGA
1 AAAAAAGAGAAGA
20172498 AAAAAAGAGAA-A
1 AAAAAAGAGAAGA
20172510 AAAA
1 AAAA
20172514 TCATAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAAGAGAAGA
Found at i:20172904 original size:51 final size:48
Alignment explanation
Indices: 20172834--20173037 Score: 174
Period size: 51 Copynumber: 4.1 Consensus size: 48
20172824 CTCATTTTAC
* * *
20172834 AAAAGCTTATCTAAATAGAGGTTCAACAACTTCTAAAAATATCCATCTTGA
1 AAAAACTTTTCTAAGTAGAGGTTCAACAACTT-TAAAAAT-T-CATCTTGA
* * * * *
20172885 AAAAACTCTTCTAATTAGAGATTCAATAACTTTAAAAATTTTATCTTGA
1 AAAAACTTTTCTAAGTAGAGGTTCAACAACTTTAAAAA-TTCATCTTGA
* * * * *
20172934 AAAAACTTTTTTAAGCAGATGCTCAATAACATTTTAAAAAGTTCATCTTGA
1 AAAAACTTTTCTAAGTAGAGGTTCAACAAC--TTTAAAAA-TTCATCTTGA
* * * **
20172985 AAAAGCTTTTCTAAGTAAAGGTTTAACAACTTTCAAAAGCTCATCTTGA
1 AAAAACTTTTCTAAGTAGAGGTTCAACAACTTT-AAAAATTCATCTTGA
20173034 AAAA
1 AAAA
20173038 GCTCCTTTAT
Statistics
Matches: 123, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
49 46 0.37
50 11 0.09
51 66 0.54
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (48 bp):
AAAAACTTTTCTAAGTAGAGGTTCAACAACTTTAAAAATTCATCTTGA
Found at i:20172981 original size:100 final size:99
Alignment explanation
Indices: 20172856--20173232 Score: 302
Period size: 100 Copynumber: 3.8 Consensus size: 99
20172846 AAATAGAGGT
* * * * * *
20172856 TCAACAACTTCTAAAAATATCCATCTTGAAAAAACTCTTCTAATTAGAGATTCAATAACTTTAAA
1 TCAATAACTTTTAAAAA-ATTCATCTTGAAAAAACTCTTCTAAGTAAAGGTTCAATAACTTTAAA
*
20172921 AATTTTATCTTGAAAAAACTTTTTTAAGCAGATGC
65 AATTTTATCTTGAAAAAACTTCTTTAAGCAGATGC
* * * * * *
20172956 TCAATAACATTTTAAAAAGTTCATCTTGAAAAAGCTTTTCTAAGTAAAGGTTTAACAACTTTCAA
1 TCAATAAC-TTTTAAAAAATTCATCTTGAAAAAACTCTTCTAAGTAAAGGTTCAATAACTTTAAA
** * * * * *
20173021 AAGCTCATCTTGAAAAAGCTCCTTT-A--TG-T-A
65 AATTTTATCTTGAAAAAACTTCTTTAAGCAGATGC
* * * * *
20173051 TCAATAACTTTAAAAAAAATTCATTTTGGAAAAACTAC-TCTAAGTAAAGGTTTAATAACTGTAA
1 TCAATAACTTT-TAAAAAATTCATCTTGAAAAAACT-CTTCTAAGTAAAGGTTCAATAACTTTAA
* * * *
20173115 AAATTTTATTTTGAAAAAA-TTCTCTAAGCAAAAGC
64 AAATTTTATCTTGAAAAAACTTCTTTAAGCAGATGC
* * * * * * *
20173150 TCAACAACTTTTTAAAAAAATCTATCTTGAAAAAGCTCTTCTAAGTAGATGCTCAATAATTTTAA
1 TCAATAAC-TTTTAAAAAATTC-ATCTTGAAAAAACTCTTCTAAGTAAAGGTTCAATAACTTTAA
* *
20173215 AATTTTTACCTT-AAAAAA
64 AAATTTTATCTTGAAAAAA
20173233 GCTCCTATAA
Statistics
Matches: 211, Mismatches: 55, Indels: 23
0.73 0.19 0.08
Matches are distributed among these distances:
94 7 0.03
95 65 0.31
96 1 0.00
97 1 0.00
99 23 0.11
100 106 0.50
101 8 0.04
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (99 bp):
TCAATAACTTTTAAAAAATTCATCTTGAAAAAACTCTTCTAAGTAAAGGTTCAATAACTTTAAAA
ATTTTATCTTGAAAAAACTTCTTTAAGCAGATGC
Found at i:20173035 original size:49 final size:49
Alignment explanation
Indices: 20172752--20173040 Score: 220
Period size: 49 Copynumber: 5.8 Consensus size: 49
20172742 TCCTCTATGC
* * * **
20172752 AGAGGCTCACCAACTTTAAAAAGCTCATTTTGAAAAAGCTCCTCTAAGT
1 AGAGGTTCAACAACTTTAAAAAGCTCATCTTGAAAAAGCTTTTCTAAGT
* ** ** * * * *
20172801 ATAGACTCAGTAATTTTAAAAAGCTCAT-TTTACAAAAGCTTATCTAAAT
1 AGAGGTTCAACAACTTTAAAAAGCTCATCTTGA-AAAAGCTTTTCTAAGT
** * * *
20172850 AGAGGTTCAACAACTTCTAAAAATATCCATCTTGAAAAAACTCTTCTAATT
1 AGAGGTTCAACAACTT-TAAAAAGCT-CATCTTGAAAAAGCTTTTCTAAGT
* * ** * * * *
20172901 AGAGATTCAATAACTTTAAAAATTTTATCTTGAAAAAACTTTTTTAAGC
1 AGAGGTTCAACAACTTTAAAAAGCTCATCTTGAAAAAGCTTTTCTAAGT
* * * *
20172950 AGATGCTCAATAACATTTTAAAAAGTTCATCTTGAAAAAGCTTTTCTAAGT
1 AGAGGTTCAACAAC--TTTAAAAAGCTCATCTTGAAAAAGCTTTTCTAAGT
* * *
20173001 AAAGGTTTAACAACTTTCAAAAGCTCATCTTGAAAAAGCT
1 AGAGGTTCAACAACTTTAAAAAGCTCATCTTGAAAAAGCT
20173041 CCTTTATGTA
Statistics
Matches: 189, Mismatches: 45, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
48 3 0.02
49 100 0.53
50 15 0.08
51 68 0.36
52 3 0.02
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (49 bp):
AGAGGTTCAACAACTTTAAAAAGCTCATCTTGAAAAAGCTTTTCTAAGT
Found at i:20173454 original size:9 final size:9
Alignment explanation
Indices: 20173440--20173467 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
20173430 AAATGCATAT
20173440 ACTAAATGC
1 ACTAAATGC
20173449 ACTAAATGC
1 ACTAAATGC
20173458 ACTAAATGC
1 ACTAAATGC
20173467 A
1 A
20173468 ATGCATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.21
Consensus pattern (9 bp):
ACTAAATGC
Found at i:20177572 original size:124 final size:123
Alignment explanation
Indices: 20177411--20177673 Score: 348
Period size: 124 Copynumber: 2.1 Consensus size: 123
20177401 GCTTATCTTC
* * *
20177411 TTATTTTATTAATTTTAACAAATCAGAAGGTAATGTGTAATTATTTGAATCTTTTTCATTATTAA
1 TTATTTTATT-ATTTCAACAAATCAGAAGGCAATGTGTAATTATTTGAATCTTTTTCATTATCAA
* * *
20177476 GTTCAGT-AGCATGAATTGGTTTTTCAAAATAAAATTCAAGATTATTGTCATGATTATCT
65 GTTCA-TCAACATCAATTGGTTTTTCAAAATAAAATCCAAGATTATTGTCATGATTATCT
*
20177535 TTATATTTATTATTTCAACAAATCAGGAGGCAATGTGTAATTATTTGAATCTTTTTCATTATCAA
1 TTAT-TTTATTATTTCAACAAATCAGAAGGCAATGTGTAATTATTTGAATCTTTTTCATTATCAA
* * ** * *
20177600 GTTCATCAATATCACTTGGTTTTTTGAAATCAAATCCAAGATTATTGTTATGATTATCT
65 GTTCATCAACATCAATTGGTTTTTCAAAATAAAATCCAAGATTATTGTCATGATTATCT
* *
20177659 TCATGTTCATTATTT
1 TTAT-TTTATTATTT
20177674 AAGACCCTGT
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
123 1 0.01
124 114 0.94
125 6 0.05
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (123 bp):
TTATTTTATTATTTCAACAAATCAGAAGGCAATGTGTAATTATTTGAATCTTTTTCATTATCAAG
TTCATCAACATCAATTGGTTTTTCAAAATAAAATCCAAGATTATTGTCATGATTATCT
Found at i:20183891 original size:27 final size:26
Alignment explanation
Indices: 20183861--20183924 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
20183851 TGAAAAAATA
*
20183861 ATTTTTTTATTTTGT-TTTTTTTTTTAG
1 ATTTTTTT-TTTTGTCTTATTTTTTT-G
20183888 ATTTTTTGTTTTTGTCTTATTTTTTTG
1 ATTTTTT-TTTTTGTCTTATTTTTTTG
20183915 -TTTTTTTTTT
1 ATTTTTTTTTT
20183925 ATTACACATG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
25 4 0.12
26 6 0.18
27 14 0.41
28 10 0.29
ACGTcount: A:0.08, C:0.02, G:0.08, T:0.83
Consensus pattern (26 bp):
ATTTTTTTTTTTGTCTTATTTTTTTG
Found at i:20183926 original size:19 final size:19
Alignment explanation
Indices: 20183862--20183927 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
20183852 GAAAAAATAA
*
20183862 TTTTTTTA-TTTTGT-TTT
1 TTTTTTTATTTTTTTGTTT
*
20183879 TTTTTTTAGATTTTTTGTTT
1 TTTTTTTA-TTTTTTTGTTT
* *
20183899 TTGTCTTATTTTTTTGTTT
1 TTTTTTTATTTTTTTGTTT
20183918 TTTTTTTATT
1 TTTTTTTATT
20183928 ACACATGACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 8 0.20
19 23 0.57
20 9 0.22
ACGTcount: A:0.08, C:0.02, G:0.08, T:0.83
Consensus pattern (19 bp):
TTTTTTTATTTTTTTGTTT
Found at i:20185349 original size:22 final size:22
Alignment explanation
Indices: 20185324--20185374 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
20185314 ACATTTTTAC
*
20185324 TAATTTTTATTAATTTTATTAA
1 TAATTTTTACTAATTTTATTAA
* **
20185346 TAATTTTTACTATTTTTATTTT
1 TAATTTTTACTAATTTTATTAA
20185368 TAATTTT
1 TAATTTT
20185375 AAAATTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TAATTTTTACTAATTTTATTAA
Found at i:20185360 original size:9 final size:10
Alignment explanation
Indices: 20185316--20185363 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
20185306 TTTTTCTTAC
20185316 ATTTTTACTA
1 ATTTTTACTA
*
20185326 ATTTTTATTA
1 ATTTTTACTA
*
20185336 ATTTTATTAATA
1 A-TTT-TTACTA
20185348 ATTTTTACT-
1 ATTTTTACTA
20185357 ATTTTTA
1 ATTTTTA
20185364 TTTTTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 7 0.21
10 14 0.42
11 6 0.18
12 6 0.18
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTACTA
Found at i:20186515 original size:3 final size:3
Alignment explanation
Indices: 20186507--20186536 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
20186497 AAAATAAATA
20186507 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20186537 TGGTGTCCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20190750 original size:23 final size:23
Alignment explanation
Indices: 20190720--20190768 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20190710 ATAAAAATTC
20190720 AAAATAATAAAAAAAATATTAAA
1 AAAATAATAAAAAAAATATTAAA
** * *
20190743 AAAATAATTCAAAAAATTTTTAA
1 AAAATAATAAAAAAAATATTAAA
20190766 AAA
1 AAA
20190769 TTTGTTTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAATAATAAAAAAAATATTAAA
Found at i:20190756 original size:12 final size:12
Alignment explanation
Indices: 20190720--20190759 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
20190710 ATAAAAATTC
*
20190720 AAAATAATAAAA
1 AAAATAATTAAA
20190732 AAAAT-ATTAAA
1 AAAATAATTAAA
*
20190743 AAAATAATTCAA
1 AAAATAATTAAA
20190755 AAAAT
1 AAAAT
20190760 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATAATTAAA
Found at i:20191498 original size:18 final size:18
Alignment explanation
Indices: 20191465--20191499 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20191455 TTCTTTTCTA
*
20191465 TTTTTTTTAGGGTTTTTT
1 TTTTTTTTAGCGTTTTTT
20191483 TTTTTTTTAGC-TTTTTT
1 TTTTTTTTAGCGTTTTTT
20191500 CTTTGATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.06, C:0.03, G:0.11, T:0.80
Consensus pattern (18 bp):
TTTTTTTTAGCGTTTTTT
Found at i:20191750 original size:11 final size:12
Alignment explanation
Indices: 20191716--20191757 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
20191706 AGAAGAGATT
* *
20191716 AGAAAAGAGAAG
1 AGAAAAAAGAAA
*
20191728 AGAAAAAGGAAA
1 AGAAAAAAGAAA
20191740 A-AAAAAAGAAA
1 AGAAAAAAGAAA
20191751 AGAAAAA
1 AGAAAAA
20191758 CAAATAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AGAAAAAAGAAA
Found at i:20194833 original size:1 final size:1
Alignment explanation
Indices: 20194827--20194852 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
20194817 TATGAAGTTC
20194827 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
20194853 GACGTTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:20195508 original size:19 final size:21
Alignment explanation
Indices: 20195480--20195522 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
20195470 TTGATGATTT
* *
20195480 TTTTTCAAAATAA-TAAT-TA
1 TTTTTAAAAAAAATTAATATA
20195499 TTTTTAAAAAAAATTAATATA
1 TTTTTAAAAAAAATTAATATA
20195520 TTT
1 TTT
20195523 ATACATCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 4 0.20
21 5 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTTAAAAAAAATTAATATA
Found at i:20195912 original size:17 final size:16
Alignment explanation
Indices: 20195886--20195917 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
20195876 AAAATAAATC
20195886 TAATTATTTATATATT
1 TAATTATTTATATATT
20195902 TAATATATTTATATAT
1 TAAT-TATTTATATAT
20195918 AATAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTATTTATATATT
Found at i:20202949 original size:87 final size:87
Alignment explanation
Indices: 20202815--20203541 Score: 705
Period size: 87 Copynumber: 8.3 Consensus size: 87
20202805 GATGGCCATG
* * * * * * *
20202815 ACAGTAGATAGTTCAGCTGAGAAGATGAAGAAAGAGACTGCCATGACAGTAAATAGCTCGGCTGA
1 ACAGTAAATAGCTCAGCTGAGAAGATGAAGAAGGAGACGGCCTTGACAATAAATAGCTCAGCTGA
* **
20202880 GAAGATTAGAAAAGAGACGGTT
66 GAAGATGAGAAAAGAGACGCCT
* *
20202902 ACAGTAAATAGCTCAGCTGAGAAGATGAAGAAGGAGATGGCCTTGACAATTAATAGCTCAGCTGA
1 ACAGTAAATAGCTCAGCTGAGAAGATGAAGAAGGAGACGGCCTTGACAATAAATAGCTCAGCTGA
* * * * *
20202967 GAAGATTAGAAAGGAGGCACAT
66 GAAGATGAGAAAAGAGACGCCT
** * * *
20202989 ACAGTATTTAGCTCAGCTGAGAGGATGAAGAAGGAGACGGCCTTGACAATTAGTAGCTCAGCTGA
1 ACAGTAAATAGCTCAGCTGAGAAGATGAAGAAGGAGACGGCCTTGACAATAAATAGCTCAGCTGA
* *
20203054 GAAGATTAGAAAAGAGACACCT
66 GAAGATGAGAAAAGAGACGCCT
** * * * *
20203076 ACAGTATTTAGCTCAGCTGAGAGGATGAAGAAGGAGACGGCCTTGATAATTAGTAGCTCAGCTGA
1 ACAGTAAATAGCTCAGCTGAGAAGATGAAGAAGGAGACGGCCTTGACAATAAATAGCTCAGCTGA
* * *
20203141 CAAGATTAGAAAAGAGACACCT
66 GAAGATGAGAAAAGAGACGCCT
** * *
20203163 ACAGTATTTAGCTCAGCTGAGAGGATGAAGAAGGAGACGGCCTTGACAATTAATAGCTCAGCTGA
1 ACAGTAAATAGCTCAGCTGAGAAGATGAAGAAGGAGACGGCCTTGACAATAAATAGCTCAGCTGA
*
20203228 GAAGATGA-AGAAAGAGGCAGCCAT
66 GAAGATGAGA-AAAGAGAC-GCC-T
* * * *
20203252 GACAGTAAATAGCTCAGCTGAGAAGATG-AGACAAGAGA-TGAC-T-ACAGTAAATAGCTCAGCT
1 -ACAGTAAATAGCTCAGCTGAGAAGATGAAGA-AGGAGACGGCCTTGACAATAAATAGCTCAGCT
* *
20203313 GAGAAGCTGA-AGAAAGAGACGGTCTT
64 GAGAAGATGAGA-AAAGAGAC-G-CCT
* * * * * **
20203339 GACAATTAATAGCTCAGCTGAGAAGATGAAGAAAGA-AGCAGCCATGACGGTAAATAGCTCAGCT
1 -ACAGTAAATAGCTCAGCTGAGAAGATGAAGAAGGAGA-CGGCCTTGACAATAAATAGCTCAGCT
** * *
20203403 GAGAAGATGAGACGAGAGATGACT
64 GAGAAGATGAGAAAAGAGACGCCT
* * * *
20203427 ACAGTAAATAGCTCAGCTGAGAAGCTGAAGAAAGAGACAGCCTTGACATTAAATAGCTCAGCTGA
1 ACAGTAAATAGCTCAGCTGAGAAGATGAAGAAGGAGACGGCCTTGACAATAAATAGCTCAGCTGA
* *
20203492 GAAGATGA-AGAAAGAGATGGCT
66 GAAGATGAGA-AAAGAGACGCCT
* *
20203514 ACGGCAGTGAATGGCTCAGCTGAGAAGA
1 A---CAGTAAATAGCTCAGCTGAGAAGA
20203542 CAGAGAAACA
Statistics
Matches: 558, Mismatches: 65, Indels: 31
0.85 0.10 0.05
Matches are distributed among these distances:
86 3 0.01
87 454 0.81
88 11 0.02
89 8 0.01
90 81 0.15
91 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.28, T:0.18
Consensus pattern (87 bp):
ACAGTAAATAGCTCAGCTGAGAAGATGAAGAAGGAGACGGCCTTGACAATAAATAGCTCAGCTGA
GAAGATGAGAAAAGAGACGCCT
Done.