Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 60 of 117
Found at i:11117563 original size:2 final size:2
Alignment explanation
Indices: 11117556--11117582 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11117546 ATATGGAACT
11117556 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
11117583 GTTTTTCGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11121181 original size:11 final size:11
Alignment explanation
Indices: 11121167--11121205 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11121157 CTTATAAGAT
*
11121167 ATTTATTTGAG
1 ATTTGTTTGAG
*
11121178 ATTTGTTAGAG
1 ATTTGTTTGAG
11121189 ATTTGTTTGAG
1 ATTTGTTTGAG
*
11121200 AATTGT
1 ATTTGT
11121206 CAAATATTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (11 bp):
ATTTGTTTGAG
Found at i:11123485 original size:22 final size:23
Alignment explanation
Indices: 11123444--11123486 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11123434 AGTATGGCCC
11123444 ATTAATATTTTTTTAGAATTTTA
1 ATTAATATTTTTTTAGAATTTTA
*
11123467 ATTATTATTTTTTTA-AATTT
1 ATTAATATTTTTTTAGAATTT
11123487 CATCTATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTAATATTTTTTTAGAATTTTA
Found at i:11124118 original size:2 final size:2
Alignment explanation
Indices: 11124106--11124144 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
11124096 ACTAAAATCT
*
11124106 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11124145 AGTTTGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:11131395 original size:12 final size:12
Alignment explanation
Indices: 11131378--11131403 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11131368 TTTAATCAAT
11131378 GACTAATTCCTA
1 GACTAATTCCTA
11131390 GACTAATTCCTA
1 GACTAATTCCTA
11131402 GA
1 GA
11131404 AAGCGCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (12 bp):
GACTAATTCCTA
Found at i:11134888 original size:7 final size:7
Alignment explanation
Indices: 11134878--11134907 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11134868 TTTTAAATTA
11134878 ATAAAAT
1 ATAAAAT
11134885 ATAAAAT
1 ATAAAAT
11134892 A-AAAAT
1 ATAAAAT
11134898 ATAAAAT
1 ATAAAAT
11134905 ATA
1 ATA
11134908 GGGCTATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAAAT
Found at i:11134898 original size:13 final size:13
Alignment explanation
Indices: 11134880--11134905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11134870 TTAAATTAAT
11134880 AAAATATAAAATA
1 AAAATATAAAATA
11134893 AAAATATAAAATA
1 AAAATATAAAATA
11134906 TAGGGCTATA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATATAAAATA
Found at i:11135227 original size:32 final size:32
Alignment explanation
Indices: 11135185--11135250 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
11135175 TGTTAATTAG
*
11135185 TTTACTATATAATAATAAATTTTATTTATT-TA
1 TTTACTATATAATAATAAA-ATTATTTATTATA
*
11135217 TTTATTATATAATAATAAAATTATTTATTATA
1 TTTACTATATAATAATAAAATTATTTATTATA
11135249 TT
1 TT
11135251 AAATCACCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (32 bp):
TTTACTATATAATAATAAAATTATTTATTATA
Found at i:11137205 original size:321 final size:319
Alignment explanation
Indices: 11136623--11137575 Score: 1281
Period size: 321 Copynumber: 3.0 Consensus size: 319
11136613 AATGTCAAAT
* * * ** *
11136623 TTTGACTTAATAAACATTTATTTAATAGGTTTAGATGGTTAATGGGTATTCTTTATATTATATGG
1 TTTGACTTAATAAACGTGTATTTAACAGGTTTA-ATAATTAATGGGTATTCTTTGTATTATATGG
* * * * *
11136688 GTTGGGTTTTGATAGCATACATAAAAATATTTAAGTATTTATTTAGTTCAAATATCTTGATAAAT
65 GTTGGGTTTCGATAACAAAAATAAAAATATTTAAGTATTTATTGAGTTCAAATATCTTGATAAAT
* * * * * *
11136753 ATATAAATTCAAAAATAAAAACTTAAGATTAACAGATATCCTATCCGTTGACATTTTAATTAGTA
130 ATATAAATTCGAAAATGAGAACTCAAAATTAACAGATATCCTA-CCGTTGACATTCTAATTAGTA
* *
11136818 TTAACCAAAGATCTAAAAGGTTCTTATTATGTTTATATGTGTAAAGTACTCAAATATATTCAAAG
194 ATAACCAAAGATCTAAAAGGTTCTTATTATGTTTATATGTGTAAAGTACTCAAATTTATTCAAAG
* *
11136883 TGGAATCCATTATCATCTTTTTAACATTTCCTATCATGTAAAGGATGCTTCTGATGTAGCG
259 TGGAATCTATTATCATCTTTTTAACATTTCCTATCATGTAAAGGATGCTTCTAATGTAGCG
* *
11136944 TTTGACTTAATAAACGTGTATTTAACAGGTTTCCAATAATTAATGGGTATTCTTTGTGTTATACG
1 TTTGACTTAATAAACGTGTATTTAACAGGTTT--AATAATTAATGGGTATTCTTTGTATTATATG
*
11137009 GGTTGGGTTTCGATAACAAAAATAAAAATGTTTAAGTATTTATTGA-TTCAAATATCTTGATAAA
64 GGTTGGGTTTCGATAACAAAAATAAAAATATTTAAGTATTTATTGAGTTCAAATATCTTGATAAA
* * *
11137073 TATACAAATTCGAAAATGAGAACTCAAAATTAACAGATATCCCACCAGTTAACATTCTAATTAGT
129 TATATAAATTCGAAAATGAGAACTCAAAATTAACAGATATCCTACC-GTTGACATTCTAATTAGT
* * *
11137138 AATAACCCAAGA-CTTAAAAGGATCTTATGATGTTTATATGTGTAAAGTACTCAAATTTATTCAA
193 AATAACCAAAGATC-TAAAAGGTTCTTATTATGTTTATATGTGTAAAGTACTCAAATTTATTCAA
* * *
11137202 AGTGGAATCTATTATCATCCTTTTAACATTGCCTATCATGTAGAGGATGCTTCTAATGTAGCG
257 AGTGGAATCTATTATCATCTTTTTAACATTTCCTATCATGTAAAGGATGCTTCTAATGTAGCG
* * *
11137265 TTTAACTAAATAAA-G-G---TT--CAGATTGT--TAATT-A---GTATTCTTTGTATTATATGG
1 TTTGACTTAATAAACGTGTATTTAACAGGTT-TAATAATTAATGGGTATTCTTTGTATTATATGG
* *
11137317 GTTGGGTTTCGAT-AGAAAAATAAAAATATTTAAGTATTTATTGAGTTCAAATATCTTGACAAAT
65 GTTGGGTTTCGATAACAAAAATAAAAATATTTAAGTATTTATTGAGTTCAAATATCTTGATAAAT
* * **
11137381 ACATAGATTCGAAAATGAGAACTCAAAATTAATGGATATCCTACCCGTTGACATTCTAATTAGTA
130 ATATAAATTCGAAAATGAGAACTCAAAATTAACAGATATCCTA-CCGTTGACATTCTAATTAGTA
* * *
11137446 ATAACCGAAGATCTAAAAGGTTTTTATTATGTTTATATGTGTAAAGTACTCAAATTTATTTAAAG
194 ATAACCAAAGATCTAAAAGGTTCTTATTATGTTTATATGTGTAAAGTACTCAAATTTATTCAAAG
* * * *
11137511 TGGAATCTAGTATCATCTTTTTAACATATCCTATCATGTAAAGGATGCTTCTAATATATCG
259 TGGAATCTATTATCATCTTTTTAACATTTCCTATCATGTAAAGGATGCTTCTAATGTAGCG
11137572 TTTG
1 TTTG
11137576 GCATCATTTT
Statistics
Matches: 563, Mismatches: 61, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
306 29 0.05
307 219 0.39
308 3 0.01
310 1 0.00
311 5 0.01
314 5 0.01
315 1 0.00
316 2 0.00
319 1 0.00
320 4 0.01
321 227 0.40
322 65 0.12
323 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (319 bp):
TTTGACTTAATAAACGTGTATTTAACAGGTTTAATAATTAATGGGTATTCTTTGTATTATATGGG
TTGGGTTTCGATAACAAAAATAAAAATATTTAAGTATTTATTGAGTTCAAATATCTTGATAAATA
TATAAATTCGAAAATGAGAACTCAAAATTAACAGATATCCTACCGTTGACATTCTAATTAGTAAT
AACCAAAGATCTAAAAGGTTCTTATTATGTTTATATGTGTAAAGTACTCAAATTTATTCAAAGTG
GAATCTATTATCATCTTTTTAACATTTCCTATCATGTAAAGGATGCTTCTAATGTAGCG
Found at i:11137546 original size:307 final size:307
Alignment explanation
Indices: 11136990--11137574 Score: 915
Period size: 307 Copynumber: 1.9 Consensus size: 307
11136980 TAATTAATGG
* *
11136990 GTATTCTTTGTGTTATACGGGTTGGGTTTCGATAACAAAAATAAAAATGTTTAAGTATTTATTGA
1 GTATTCTTTGTATTATACGGGTTGGGTTTCGATAACAAAAATAAAAATATTTAAGTATTTATTGA
* *
11137055 TTCAAATATCTTGATAAATATACAAATTCGAAAATGAGAACTCAAAATTAACAGATATCCCACCA
66 TTCAAATATCTTGACAAATACACAAATTCGAAAATGAGAACTCAAAATTAACAGATATCCCACCA
11137120 GTTAACATTCTAATTAGTAATAACCCAAGACTTAAAAGGATCTTATGATGTTTATATGTGTAAAG
131 GTTAACATTCTAATTAGTAATAACCCAAGACTTAAAAGGATCTTATGATGTTTATATGTGTAAAG
* *
11137185 TACTCAAATTTATTCAAAGTGGAATCTATTATCATCCTTTTAACATTGCCTATCATGTAGAGGAT
196 TACTCAAATTTATTCAAAGTGGAATCTAGTATCATCCTTTTAACATTGCCTATCATGTAAAGGAT
*
11137250 GCTTCTAATGTAGCGTTTAACTAAATAAAGGTTCAGATTGTTAATTA
261 GCTTCTAATATAGCGTTTAACTAAATAAAGGTTCAGATTGTTAATTA
* *
11137297 GTATTCTTTGTATTATATGGGTTGGGTTTCGAT-AGAAAAATAAAAATATTTAAGTATTTATTGA
1 GTATTCTTTGTATTATACGGGTTGGGTTTCGATAACAAAAATAAAAATATTTAAGTATTTATTGA
* * ** *
11137361 GTTCAAATATCTTGACAAATACATAGATTCGAAAATGAGAACTCAAAATTAATGGATATCCTACC
66 -TTCAAATATCTTGACAAATACACAAATTCGAAAATGAGAACTCAAAATTAACAGATATCCCACC
* * * * * *
11137426 CGTTGACATTCTAATTAGTAATAACCGAAGA-TCTAAAAGGTTTTTATTATGTTTATATGTGTAA
130 AGTTAACATTCTAATTAGTAATAACCCAAGACT-TAAAAGGATCTTATGATGTTTATATGTGTAA
* *
11137490 AGTACTCAAATTTATTTAAAGTGGAATCTAGTATCATCTTTTTAACATAT-CCTATCATGTAAAG
194 AGTACTCAAATTTATTCAAAGTGGAATCTAGTATCATCCTTTTAACAT-TGCCTATCATGTAAAG
*
11137554 GATGCTTCTAATATATCGTTT
258 GATGCTTCTAATATAGCGTTT
11137575 GGCATCATTT
Statistics
Matches: 252, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
306 30 0.12
307 221 0.88
308 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (307 bp):
GTATTCTTTGTATTATACGGGTTGGGTTTCGATAACAAAAATAAAAATATTTAAGTATTTATTGA
TTCAAATATCTTGACAAATACACAAATTCGAAAATGAGAACTCAAAATTAACAGATATCCCACCA
GTTAACATTCTAATTAGTAATAACCCAAGACTTAAAAGGATCTTATGATGTTTATATGTGTAAAG
TACTCAAATTTATTCAAAGTGGAATCTAGTATCATCCTTTTAACATTGCCTATCATGTAAAGGAT
GCTTCTAATATAGCGTTTAACTAAATAAAGGTTCAGATTGTTAATTA
Found at i:11139867 original size:13 final size:13
Alignment explanation
Indices: 11139849--11139908 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
11139839 TTTGCATTTT
11139849 TTTTATTGCATGA
1 TTTTATTGCATGA
11139862 TTTTA-TG-AT-A
1 TTTTATTGCATGA
*
11139872 TTTAATTGCATGA
1 TTTTATTGCATGA
*
11139885 TTTTGTT--ATGA
1 TTTTATTGCATGA
11139896 TATTT-TTGCATGA
1 T-TTTATTGCATGA
11139909 ATATATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
10 5 0.13
11 11 0.29
12 7 0.18
13 15 0.39
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (13 bp):
TTTTATTGCATGA
Found at i:11139900 original size:26 final size:22
Alignment explanation
Indices: 11139850--11139908 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 22
11139840 TTGCATTTTT
11139850 TTTATTGCATGATTTTATGATA
1 TTTATTGCATGATTTTATGATA
11139872 TTTAATTGCATGATTTTGTTATGATA
1 TTT-ATTGCATGA--TT-TTATGATA
11139898 TTT-TTGCATGA
1 TTTATTGCATGA
11139909 ATATATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 3 0.09
23 9 0.27
24 8 0.24
25 2 0.06
26 11 0.33
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.54
Consensus pattern (22 bp):
TTTATTGCATGATTTTATGATA
Found at i:11140025 original size:26 final size:27
Alignment explanation
Indices: 11139996--11140062 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 27
11139986 TATTACATTA
*
11139996 ATTTTCTTGCATAATATTT-TTGCGTG
1 ATTTTCTTGCATAATATTTGTTGCATG
11140022 ATTTT-TT---T-ATATTTGTTGCATG
1 ATTTTCTTGCATAATATTTGTTGCATG
*
11140044 A-TATCTTGCATAATATTTG
1 ATTTTCTTGCATAATATTTG
11140063 GTATAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
21 8 0.24
22 10 0.30
25 3 0.09
26 12 0.36
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.55
Consensus pattern (27 bp):
ATTTTCTTGCATAATATTTGTTGCATG
Found at i:11144107 original size:2 final size:2
Alignment explanation
Indices: 11144100--11144126 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11144090 CAAGGGGGCT
11144100 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11144127 TTGGCTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11150135 original size:25 final size:26
Alignment explanation
Indices: 11150090--11150157 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 26
11150080 TATACATATT
*
11150090 ATAATAGTTACACAAATTAATGATTT-TA
1 ATAATAGTTA-A-AAA-TAATAATTTATA
11150118 ATAATAGTTAAAAATAATAATTTATA
1 ATAATAGTTAAAAATAATAATTTATA
*
11150144 A-AATA-TTAATAATA
1 ATAATAGTTAAAAATA
11150158 TTTTTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
24 8 0.22
25 12 0.32
26 6 0.16
27 1 0.03
28 10 0.27
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.38
Consensus pattern (26 bp):
ATAATAGTTAAAAATAATAATTTATA
Found at i:11151013 original size:2 final size:2
Alignment explanation
Indices: 11151006--11151038 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11150996 GACCAAGGAC
11151006 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11151039 GTTTGTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11153925 original size:18 final size:17
Alignment explanation
Indices: 11153906--11153971 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 17
11153896 ATATTAATTA
11153906 TTTTATAATAAAATATT
1 TTTTATAATAAAATATT
**
11153923 ATTAAATTAATAAATATATT
1 -TTTTA-TAATAAA-ATATT
* *
11153943 TTTTGATAGATAAATTAAT
1 TTTT-ATA-ATAAAATATT
11153962 TTTTATAATA
1 TTTTATAATA
11153972 TAACTTATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
17 3 0.08
18 6 0.16
19 18 0.47
20 11 0.29
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTATAATAAAATATT
Found at i:11153935 original size:22 final size:22
Alignment explanation
Indices: 11153882--11153935 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
11153872 TATTTAAAGA
* *
11153882 TAATAAATTATAAAATATTAAT
1 TAATTAATAATAAAATATTAAT
* *
11153904 TATTTTATAATAAAATATT-AT
1 TAATTAATAATAAAATATTAAT
11153925 TAAATTAATAA
1 T-AATTAATAA
11153936 ATATATTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATTAATAATAAAATATTAAT
Found at i:11154134 original size:15 final size:15
Alignment explanation
Indices: 11154110--11154140 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11154100 ATAATATTAG
11154110 TTTTACAATATAAAA
1 TTTTACAATATAAAA
*
11154125 TTTTATAATATAAAA
1 TTTTACAATATAAAA
11154140 T
1 T
11154141 AATTTCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTTACAATATAAAA
Found at i:11154778 original size:16 final size:16
Alignment explanation
Indices: 11154757--11154789 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11154747 TTAGATTTGA
11154757 GATGTTCATAGTTTAG
1 GATGTTCATAGTTTAG
11154773 GATGTTCATAGTTTAG
1 GATGTTCATAGTTTAG
11154789 G
1 G
11154790 TTAGGTCGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.42
Consensus pattern (16 bp):
GATGTTCATAGTTTAG
Found at i:11155069 original size:22 final size:22
Alignment explanation
Indices: 11155000--11155079 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 22
11154990 TTAACATATG
*
11155000 TATAAAAATTAAAATTAAAAATTA
1 TATAAAAATAAAAATT-A-AATTA
* *
11155024 TATATATAAGTTAAAAATAGAAATTA
1 TATA-A-AA-ATAAAAAT-TAAATTA
11155050 TATAAAAATAAAAATTAAATT-
1 TATAAAAATAAAAATTAAATTA
11155071 TAATAAAAA
1 T-ATAAAAA
11155080 AATATATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.02
22 12 0.26
23 7 0.15
24 6 0.13
25 2 0.04
26 11 0.24
27 7 0.15
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (22 bp):
TATAAAAATAAAAATTAAATTA
Found at i:11157060 original size:34 final size:34
Alignment explanation
Indices: 11156994--11157060 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
11156984 AAAAAAACAC
* *
11156994 TGCTAATTAAACTGCATTTTTATGATAGGAACGT
1 TGCTAATTAAACGGCATTTTTATGATAAGAACGT
*
11157028 TGCTAATTTAACGGCATTTTT-TAGATAAGAACG
1 TGCTAATTAAACGGCATTTTTAT-GATAAGAACG
11157061 CCACTACTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (34 bp):
TGCTAATTAAACGGCATTTTTATGATAAGAACGT
Found at i:11166036 original size:28 final size:28
Alignment explanation
Indices: 11165996--11166073 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 28
11165986 TTTTGTTTAA
* *
11165996 ATATTATGGTTTGTTGAATGGTATTGTATG
1 ATATTAT--TTTGCTGAATGGTATTATATG
11166026 ATATTATTTTGCTGAATGGTATTATATG
1 ATATTATTTTGCTGAATGGTATTATATG
**
11166054 ATATTGGTTTGCTGAATGGT
1 ATATTATTTTGCTGAATGGT
11166074 GTTTCTAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 37 0.84
30 7 0.16
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.49
Consensus pattern (28 bp):
ATATTATTTTGCTGAATGGTATTATATG
Found at i:11169548 original size:64 final size:60
Alignment explanation
Indices: 11169488--11169691 Score: 196
Period size: 64 Copynumber: 3.2 Consensus size: 60
11169478 TGTTTTAGGT
* * *
11169488 CAAAAATGCCTTCAAGAATCCGTTCCAACTTTTTTGTATGGATTATTGAAGGCATTTTTTAC
1 CAAAAATGCCTTCAACAATCC-TTCCAAATTTTTTGTATGGATTATTGAAGG-ATTTTTTGC
* * * * *
11169550 CAAAATTGCCTTCAATAATCCTTCATAAAAATTTATTGCT-TGGATTATTGAAGG-TGCTTTTGG
1 CAAAAATGCCTTCAACAATCCTTC---CAAATTTTTTG-TATGGATTATTGAAGGAT--TTTTTG
11169613 C
60 C
* * *
11169614 TAAAAATGCCTTCAACAATCCATTCCAAATTTTTTCTATAGATTATTGAAGGTATTTTTCTGC
1 CAAAAATGCCTTCAACAATCC-TTCCAAATTTTTTGTATGGATTATTGAAGG-ATTTTT-TGC
11169677 CAAAAATGCCTTCAA
1 CAAAAATGCCTTCAA
11169692 TATTTTCTCT
Statistics
Matches: 115, Mismatches: 16, Indels: 21
0.76 0.11 0.14
Matches are distributed among these distances:
61 4 0.03
62 45 0.39
63 16 0.14
64 46 0.40
65 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (60 bp):
CAAAAATGCCTTCAACAATCCTTCCAAATTTTTTGTATGGATTATTGAAGGATTTTTTGC
Found at i:11169560 original size:62 final size:61
Alignment explanation
Indices: 11169452--11169691 Score: 212
Period size: 62 Copynumber: 3.8 Consensus size: 61
11169442 TTTGTAATAA
* * * * * ** * *
11169452 AAATTTATTGTGTGGATTGTTAAAGGTGTTTTAGGTCAAAAATGCCTTCAAGAATCCGTTCC
1 AAATTTTTTGTATGGATTATTGAAGGTATTTTTTGCCAAAAATGCCTTCAACAATCC-TTCC
* * * * * *
11169514 AACTTTTTTGTATGGATTATTGAAGGCATTTTTTACCAAAATTGCCTTCAATAATCCTTCATAA
1 AAATTTTTTGTATGGATTATTGAAGGTATTTTTTGCCAAAAATGCCTTCAACAATCCTTC---C
* ** * *
11169578 AAATTTATTGCT-TGGATTATTGAAGGTGCTTTTGGCTAAAAATGCCTTCAACAATCCATTCC
1 AAATTTTTTG-TATGGATTATTGAAGGTATTTTTTGCCAAAAATGCCTTCAACAATCC-TTCC
* *
11169640 AAATTTTTTCTATAGATTATTGAAGGTATTTTTCTGCCAAAAATGCCTTCAA
1 AAATTTTTTGTATGGATTATTGAAGGTATTTTT-TGCCAAAAATGCCTTCAA
11169692 TATTTTCTCT
Statistics
Matches: 139, Mismatches: 32, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
61 4 0.03
62 70 0.50
63 16 0.12
64 45 0.32
65 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (61 bp):
AAATTTTTTGTATGGATTATTGAAGGTATTTTTTGCCAAAAATGCCTTCAACAATCCTTCC
Found at i:11169634 original size:126 final size:126
Alignment explanation
Indices: 11169404--11169693 Score: 372
Period size: 126 Copynumber: 2.3 Consensus size: 126
11169394 TAACAAAATG
* * * *
11169404 TTATTGAAAGCATTTTTTACCAAAATGGCTTTCAATAATTTGTAATAAAAATTTATTGTGTGGAT
1 TTATTGAAGGCATTTTTTACCAAAATTGCCTTCAATAATCTGTAATAAAAATTTATTGTGTGGAT
* * * * * *
11169469 TGTTAAAGGTGTTTTAGGTCAAAAATGCCTTCAAGAATCCGTTCCAACTTTTTTGTATGGA
66 TATTAAAGGTGTTTTAGGTCAAAAATGCCTTCAACAATCCATTCCAAATTTTTTCTATAGA
*
11169530 TTATTGAAGGCATTTTTTACCAAAATTGCCTTCAATAATCCT-TCATAAAAATTTATTGCT-TGG
1 TTATTGAAGGCATTTTTTACCAAAATTGCCTTCAATAAT-CTGTAATAAAAATTTATTG-TGTGG
*
11169593 ATTATTGAAGGTGCTTTT-GG-CTAAAAATGCCTTCAACAATCCATTCCAAATTTTTTCTATAGA
64 ATTATTAAAGGTG-TTTTAGGTC-AAAAATGCCTTCAACAATCCATTCCAAATTTTTTCTATAGA
* * *
11169656 TTATTGAAGGTATTTTTCTGCCAAAAATGCCTTCAATA
1 TTATTGAAGGCATTTTT-TACCAAAATTGCCTTCAATA
11169694 TTTTCTCTCC
Statistics
Matches: 144, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
125 1 0.01
126 119 0.83
127 24 0.17
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (126 bp):
TTATTGAAGGCATTTTTTACCAAAATTGCCTTCAATAATCTGTAATAAAAATTTATTGTGTGGAT
TATTAAAGGTGTTTTAGGTCAAAAATGCCTTCAACAATCCATTCCAAATTTTTTCTATAGA
Found at i:11170067 original size:64 final size:63
Alignment explanation
Indices: 11169873--11170081 Score: 183
Period size: 64 Copynumber: 3.3 Consensus size: 63
11169863 TTTTTTTACT
* * * * * * * *
11169873 AAAAATGCCATCAATAAT-CCC-ATGCAATTTTTTAATGGAATTATTAAAGGTATTTTTTACAA
1 AAAAATACCTTCAATAATCCCCTAT-CATTTTTTTAAAGGAATTATTCAAGGCATTTTCTATAA
* * * * *
11169935 AAAAATACCTTCAATAATCACCTA-CATTTTTTTATGAGGGGGATTATTCAAGGCATTATCTGT-
1 AAAAATACCTTCAATAATCCCCTATCATTTTTTTA--A-AGGAATTATTCAAGGCATTTTCTATA
*
11169998 C
63 A
* *
11169999 AAAAACACCTTCAATAATCCCCTATCCATTTTTTTAAAGAAATTATTCAAGGCATTTTCTATAA
1 AAAAATACCTTCAATAATCCCCTAT-CATTTTTTTAAAGGAATTATTCAAGGCATTTTCTATAA
* *
11170063 AAAAATGCCTTCAGTAATC
1 AAAAATACCTTCAATAATC
11170082 ACTCCAATTT
Statistics
Matches: 115, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
62 25 0.22
63 22 0.19
64 41 0.36
65 17 0.15
66 10 0.09
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (63 bp):
AAAAATACCTTCAATAATCCCCTATCATTTTTTTAAAGGAATTATTCAAGGCATTTTCTATAA
Found at i:11170279 original size:14 final size:14
Alignment explanation
Indices: 11170260--11170293 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11170250 AAGTGAAACG
11170260 CCACTACAAAACTA
1 CCACTACAAAACTA
*
11170274 CCACTACAAAACTG
1 CCACTACAAAACTA
11170288 CCACTA
1 CCACTA
11170294 ATCTTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.38, G:0.03, T:0.15
Consensus pattern (14 bp):
CCACTACAAAACTA
Found at i:11173881 original size:22 final size:22
Alignment explanation
Indices: 11173810--11173891 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 22
11173800 ATTACTCAAT
*
11173810 AAAAATAAATAAATAACAAAAACC
1 AAAAAT-AA-AAATAAAAAAAACC
* *
11173834 AGTAAAAT-AAAAT-AAAATAACT
1 A--AAAATAAAAATAAAAAAAACC
11173856 AAAAATAAAAATAAAAAAAACC
1 AAAAATAAAAATAAAAAAAACC
11173878 AAAAA-ACAAAATAA
1 AAAAATA-AAAATAA
11173892 TTAAAAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
20 5 0.10
21 6 0.12
22 26 0.54
23 4 0.08
24 2 0.04
26 5 0.10
ACGTcount: A:0.77, C:0.09, G:0.01, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAATAAAAAAAACC
Found at i:11173889 original size:28 final size:28
Alignment explanation
Indices: 11173857--11173927 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
11173847 AAAATAACTA
11173857 AAAATAAAAATAAAAAAAACCAAAAAAC
1 AAAATAAAAATAAAAAAAACCAAAAAAC
* * * **
11173885 AAAATAATTAA-AAATAAAATCAAAAATT
1 AAAATAA-AAATAAAAAAAACCAAAAAAC
*
11173913 AAAATTAAAATAAAA
1 AAAATAAAAATAAAA
11173928 GAAAGAAAAC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (28 bp):
AAAATAAAAATAAAAAAAACCAAAAAAC
Found at i:11174748 original size:3 final size:3
Alignment explanation
Indices: 11174740--11174797 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
11174730 CAAGAAAGAA
* *
11174740 AAT AAT AAT AAT AAT AAT AAT -AT ACT -AC AAT AATT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
11174783 CAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT A
11174798 CCATATAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
2 5 0.11
3 36 0.82
4 3 0.07
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11174779 original size:23 final size:24
Alignment explanation
Indices: 11174741--11174859 Score: 107
Period size: 23 Copynumber: 4.8 Consensus size: 24
11174731 AAGAAAGAAA
11174741 ATAATAATAATAATAATAATATACT
1 ATAATAAT-ATAATAATAATATACT
* * *
11174766 ACAATAAT-TAATAATAACATAAT
1 ATAATAATATAATAATAATATACT
* *
11174789 AAAATAATACCATATAATATACTATACT
1 ATAATAATA-TA-ATAATA-A-TATACT
* *
11174817 ATAATAATATACT-ATATTATACT
1 ATAATAATATAATAATAATATACT
*
11174840 ATAATAATATAATACTAATA
1 ATAATAATATAATAATAATA
11174860 ATGGATATAA
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
23 38 0.51
24 4 0.05
25 11 0.15
26 7 0.09
27 2 0.03
28 12 0.16
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAATAATATAATAATAATATACT
Found at i:11174851 original size:28 final size:28
Alignment explanation
Indices: 11174776--11174853 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
11174766 ACAATAATTA
* *
11174776 ATAATA-AC-ATAATAAAATAATACCAT
1 ATAATATACTATAATAATATAATAACAT
*
11174802 ATAATATACTATACT-ATAATAATATAC-T
1 ATAATATACTATAATAAT-ATAATA-ACAT
*
11174830 ATATTATACTATAATAATATAATA
1 ATAATATACTATAATAATATAATA
11174854 CTAATAATGG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 6 0.14
27 3 0.07
28 30 0.71
29 3 0.07
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAATATACTATAATAATATAATAACAT
Found at i:11175168 original size:55 final size:55
Alignment explanation
Indices: 11175106--11175452 Score: 275
Period size: 55 Copynumber: 6.3 Consensus size: 55
11175096 ATATGGACTA
* *
11175106 AGCCAAGATTGAATGATCGGGATTAAGCCATAAGTTAGGAAAATGATCTGA-ATTG
1 AGCCAAGATCGAATGATCGGGATTAA-CCATAAGTCAGGAAAATGATCTGAGATTG
* * * * *
11175161 AGTCAAGATCAAATGATCGAGATTGAACCATAAGTCAGGAAAATGATCT-AGACTA
1 AGCCAAGATCGAATGATCGGGATT-AACCATAAGTCAGGAAAATGATCTGAGATTG
* * *
11175216 AGCCAAGATCGAATGATCGGGA-TAGAGTCATAAGT-ATGAAAAATGATCT-AGACTG
1 AGCCAAGATCGAATGATCGGGATTA-A-CCATAAGTCA-GGAAAATGATCTGAGATTG
** * * * *
11175271 AGCCAAGATTAAATGA-CTGGAATTGAACTATAAGTCAAGAAAATGAT-TTAGACTT-
1 AGCCAAGATCGAATGATC-GGGATT-AACCATAAGTCAGGAAAATGATCTGAGA-TTG
* * * * *
11175326 AGCCAAGATCGAATGACCGGGACTGAATCACAAGTCTA-GAAAATTGAT-TTAGATTG
1 AGCCAAGATCGAATGATCGGGA-TTAACCATAAGTC-AGGAAAA-TGATCTGAGATTG
* ** *
11175382 AGCCAAGATCAAATGATCAAGATTAAACCATAAGTCATGAAAATGATCTG-GATTG
1 AGCCAAGATCGAATGATCGGGATT-AACCATAAGTCAGGAAAATGATCTGAGATTG
*
11175437 AGCCTAGATCGAATGA
1 AGCCAAGATCGAATGA
11175453 CCAGGACTGA
Statistics
Matches: 235, Mismatches: 38, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
53 1 0.00
54 6 0.03
55 176 0.75
56 51 0.22
57 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24
Consensus pattern (55 bp):
AGCCAAGATCGAATGATCGGGATTAACCATAAGTCAGGAAAATGATCTGAGATTG
Found at i:11175238 original size:110 final size:110
Alignment explanation
Indices: 11175064--11175452 Score: 412
Period size: 110 Copynumber: 3.5 Consensus size: 110
11175054 AAAATCGAAC
* * * * * * *
11175064 GATCGAAATTGAACTACAAGTCTAGAAAAATGATATGGACTAAGCCAAGATTGAATGATCGGGAT
1 GATCGAGATTGAACCATAAGTC-AGGAAAATGATCTAGACTAAGCCAAGATCGAATGATCGGGAT
* *
11175129 TAAGCCATAAGTTAGGAAAATGATCT-GAATTGAGTCAAGATCAAAT
65 TAAGTCATAAGTTAGGAAAATGATCTAG-ATTGAGCCAAGATCAAAT
11175175 GATCGAGATTGAACCATAAGTCAGGAAAATGATCTAGACTAAGCCAAGATCGAATGATCGGGA-T
1 GATCGAGATTGAACCATAAGTCAGGAAAATGATCTAGACTAAGCCAAGATCGAATGATCGGGATT
* * *
11175239 AGAGTCATAAG-TATGAAAAATGATCTAGACTGAGCCAAGATTAAAT
66 A-AGTCATAAGTTA-GGAAAATGATCTAGATTGAGCCAAGATCAAAT
* * * * * *
11175285 GACTGGA-ATTGAACTATAAGTCAAGAAAATGATTTAGACTTAGCCAAGATCGAATGACCGGGAC
1 GA-TCGAGATTGAACCATAAGTCAGGAAAATGATCTAGACTAAGCCAAGATCGAATGATCGGGA-
* * *
11175349 TGAA-TCACAAGTCTA-GAAAATTGATTTAGATTGAGCCAAGATCAAAT
64 TTAAGTCATAAGT-TAGGAAAA-TGATCTAGATTGAGCCAAGATCAAAT
* * * * * * *
11175396 GATCAAGATTAAACCATAAGTCATGAAAATGATCTGGATTGAGCCTAGATCGAATGA
1 GATCGAGATTGAACCATAAGTCAGGAAAATGATCTAGACTAAGCCAAGATCGAATGA
11175453 CCAGGACTGA
Statistics
Matches: 234, Mismatches: 34, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
109 4 0.02
110 136 0.58
111 91 0.39
112 3 0.01
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (110 bp):
GATCGAGATTGAACCATAAGTCAGGAAAATGATCTAGACTAAGCCAAGATCGAATGATCGGGATT
AAGTCATAAGTTAGGAAAATGATCTAGATTGAGCCAAGATCAAAT
Found at i:11175404 original size:25 final size:25
Alignment explanation
Indices: 11175376--11175474 Score: 63
Period size: 25 Copynumber: 3.8 Consensus size: 25
11175366 AAATTGATTT
11175376 AGATTGAGCCAAGATCAAATGATCA
1 AGATTGAGCCAAGATCAAATGATCA
* * * *
11175401 AGATTAAACCATAAGTCATGAAAATGATCT
1 AGATTGAGCC--AAG--AT-CAAATGATCA
* * * *
11175431 GGATTGAGCCTAGATCGAATGACCA
1 AGATTGAGCCAAGATCAAATGATCA
* *
11175456 GGACTGAGCCAAGATCAAA
1 AGATTGAGCCAAGATCAAA
11175475 CGACCGAGAT
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
25 30 0.56
26 2 0.04
27 3 0.06
28 2 0.04
29 2 0.04
30 15 0.28
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.20
Consensus pattern (25 bp):
AGATTGAGCCAAGATCAAATGATCA
Found at i:11181171 original size:5 final size:5
Alignment explanation
Indices: 11181161--11181231 Score: 51
Period size: 5 Copynumber: 14.4 Consensus size: 5
11181151 TAAAAACCAG
* * *
11181161 TAAAA TAAAA T-AAA -AAAT TAAAAA TAAAA TAAAA -ACCAA -AATA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TA-AAA TAAAA TAAAA
*
11181209 TAAAT TAAAA TAAAA TTAAAA TA
1 TAAAA TAAAA TAAAA -TAAAA TA
11181232 GAAAAAGAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
4 7 0.13
5 36 0.69
6 9 0.17
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:11181184 original size:19 final size:19
Alignment explanation
Indices: 11181162--11181243 Score: 76
Period size: 19 Copynumber: 4.2 Consensus size: 19
11181152 AAAAACCAGT
*
11181162 AAAATAAAATAAAAAATTA
1 AAAATAAAATAAAAAAATA
*
11181181 AAAATAAAATAAAAACCA-A
1 AAAATAAAATAAAAA-AATA
*
11181200 AATATAAAATAAATTAAAATA
1 AAAATAAAATAAA--AAAATA
* * *
11181221 AAATTAAAATAGAAAAAGA
1 AAAATAAAATAAAAAAATA
11181240 AAAA
1 AAAA
11181244 CCTACAATCA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
19 36 0.72
20 1 0.02
21 13 0.26
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAATAAAATAAAAAAATA
Found at i:11181193 original size:11 final size:11
Alignment explanation
Indices: 11181161--11181231 Score: 63
Period size: 11 Copynumber: 6.2 Consensus size: 11
11181151 TAAAAACCAG
11181161 TAAAATAAAATA
1 TAAAATAAAA-A
*
11181173 AAAAATTAAAAA
1 TAAAA-TAAAAA
11181185 TAAAATAAAAA
1 TAAAATAAAAA
*
11181196 CCAAAATATAAAA
1 -TAAAATA-AAAA
*
11181209 T-AAATTAAAA
1 TAAAATAAAAA
*
11181219 TAAAATTAAAA
1 TAAAATAAAAA
11181230 TA
1 TA
11181232 GAAAAAGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
10 5 0.10
11 21 0.42
12 15 0.30
13 9 0.18
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:11181193 original size:24 final size:24
Alignment explanation
Indices: 11181161--11181223 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
11181151 TAAAAACCAG
11181161 TAAAATAAAATAAAAAAT-TAAAAA
1 TAAAATAAAATAAAAAATAT-AAAA
*
11181185 TAAAATAAAA-ACCAAAATATAAAA
1 TAAAATAAAATA-AAAAATATAAAA
*
11181209 TAAATTAAAATAAAA
1 TAAAATAAAATAAAA
11181224 TTAAAATAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 1 0.03
24 30 0.91
25 2 0.06
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (24 bp):
TAAAATAAAATAAAAAATATAAAA
Found at i:11181629 original size:20 final size:20
Alignment explanation
Indices: 11181606--11181653 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
11181596 TAATCCTAAC
11181606 CCTAGAAAC-CCAAATCCAAA
1 CCTAGAAACTCCAAA-CCAAA
* *
11181626 CCTAGAATCTTCAAACCAAA
1 CCTAGAAACTCCAAACCAAA
11181646 CCTAGAAA
1 CCTAGAAA
11181654 TCTAAACCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.31, G:0.06, T:0.15
Consensus pattern (20 bp):
CCTAGAAACTCCAAACCAAA
Found at i:11181665 original size:20 final size:19
Alignment explanation
Indices: 11181606--11181661 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
11181596 TAATCCTAAC
* *
11181606 CCTAGAAACCCAAATCCAAA
1 CCTAGAAATCTAAA-CCAAA
11181626 CCTAG-AATCTTCAAACCAAA
1 CCTAGAAATC-T-AAACCAAA
11181646 CCTAGAAATCTAAACC
1 CCTAGAAATCTAAACC
11181662 CAAAATTCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 8 0.26
20 16 0.52
21 7 0.23
ACGTcount: A:0.46, C:0.32, G:0.05, T:0.16
Consensus pattern (19 bp):
CCTAGAAATCTAAACCAAA
Found at i:11182067 original size:8 final size:8
Alignment explanation
Indices: 11182056--11182093 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
11182046 CAATAACAAC
11182056 ATAATATA
1 ATAATATA
11182064 ATAATATA
1 ATAATATA
*
11182072 GTAATACT-
1 ATAATA-TA
11182080 ATAATATA
1 ATAATATA
11182088 ATAATA
1 ATAATA
11182094 GTAGTAGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 24 0.92
9 1 0.04
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:11182183 original size:25 final size:28
Alignment explanation
Indices: 11182126--11182185 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 28
11182116 TATAGTAATA
11182126 ATAAT-AATAATAATAATAGACTACAAT
1 ATAATAAATAATAATAATAGACTACAAT
* *
11182153 AAAATAAATAATAA-AATA-A-TACCAT
1 ATAATAAATAATAATAATAGACTACAAT
11182178 ATAATAAA
1 ATAATAAA
11182186 CTATACTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 12 0.41
26 1 0.03
27 8 0.28
28 8 0.28
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.27
Consensus pattern (28 bp):
ATAATAAATAATAATAATAGACTACAAT
Found at i:11182184 original size:3 final size:3
Alignment explanation
Indices: 11182008--11182173 Score: 62
Period size: 3 Copynumber: 57.3 Consensus size: 3
11181998 GGAAAAAAAG
* * * * * * *
11182008 AAT AAT AAT AAT AAT AAT AAT AAC AAC AAC AAC AAC AAC AAT AAC AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
11182055 CAT AAT -AT AAT AAT -AT AGT AAT ACT -AT AAT -AT AAT AAT AGT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
11182099 AGT AGT AGT AGT AGT AGT -AT AGT AAT AAT AAT AAT AAT AAT AAT AGACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T
*
11182148 -AC AAT AA- AAT AAAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
11182174 CCATATAATA
Statistics
Matches: 136, Mismatches: 15, Indels: 24
0.78 0.09 0.14
Matches are distributed among these distances:
2 13 0.10
3 118 0.87
4 4 0.03
5 1 0.01
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:11182213 original size:18 final size:18
Alignment explanation
Indices: 11182159--11182207 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
11182149 CAATAAAATA
* *
11182159 AATAATAAAATAATACCAT
1 AATAATAAACT-ATACTAT
11182178 -ATAATAAACTATACTAT
1 AATAATAAACTATACTAT
*
11182195 AATAATATACTAT
1 AATAATAAACTAT
11182208 TTTATACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATAAACTATACTAT
Found at i:11183965 original size:21 final size:21
Alignment explanation
Indices: 11183939--11183982 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11183929 TTTTTATAGT
*
11183939 TTATTT-TTTTCATGATTTTTA
1 TTATTTGTTTGCAT-ATTTTTA
*
11183960 TTATTTGTTTGCATTTTTTTA
1 TTATTTGTTTGCATATTTTTA
11183981 TT
1 TT
11183983 GCATGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.73
Consensus pattern (21 bp):
TTATTTGTTTGCATATTTTTA
Found at i:11183992 original size:13 final size:13
Alignment explanation
Indices: 11183976--11184015 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
11183966 GTTTGCATTT
11183976 TTTTATTGCATGA
1 TTTTATTGCATGA
11183989 TTTTA-TG-AT-A
1 TTTTATTGCATGA
*
11183999 TTTAATTGCATGA
1 TTTTATTGCATGA
11184012 TTTT
1 TTTT
11184016 GTTATGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 5 0.23
11 4 0.18
12 4 0.18
13 9 0.41
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.57
Consensus pattern (13 bp):
TTTTATTGCATGA
Found at i:11184154 original size:11 final size:11
Alignment explanation
Indices: 11184138--11184209 Score: 60
Period size: 12 Copynumber: 6.5 Consensus size: 11
11184128 CTTGCATAAT
11184138 ATTTTTGCATG
1 ATTTTTGCATG
**
11184149 ATTTTTTTTAT-
1 A-TTTTTGCATG
11184160 ATTTATTGCATG
1 ATTT-TTGCATG
*
11184172 ATTTTTGTATG
1 ATTTTTGCATG
*
11184183 ATTTTT--ATT
1 ATTTTTGCATG
11184192 ATTTTTGGCATG
1 ATTTTT-GCATG
11184204 ATTTTT
1 ATTTTT
11184210 TATTTGCAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
9 8 0.17
10 3 0.06
11 18 0.38
12 19 0.40
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.64
Consensus pattern (11 bp):
ATTTTTGCATG
Found at i:11184177 original size:34 final size:32
Alignment explanation
Indices: 11184138--11184209 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 32
11184128 CTTGCATAAT
* *
11184138 ATTTTTGCATGATTTTTTTTATATTTATTGCATG
1 ATTTTTGCATGATTTTTATTAT-TTT-TGGCATG
*
11184172 ATTTTTGTATGATTTTTATTATTTTTGGCATG
1 ATTTTTGCATGATTTTTATTATTTTTGGCATG
11184204 ATTTTT
1 ATTTTT
11184210 TATTTGCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 12 0.34
33 3 0.09
34 20 0.57
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.64
Consensus pattern (32 bp):
ATTTTTGCATGATTTTTATTATTTTTGGCATG
Found at i:11184186 original size:23 final size:22
Alignment explanation
Indices: 11184136--11184188 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
11184126 TGCTTGCATA
*
11184136 ATATTTTTGCATGATTTTTTTT
1 ATATTTTTGCATGATTTTTTGT
11184158 ATATTTATTGCATGA-TTTTTGT
1 ATATTT-TTGCATGATTTTTTGT
11184180 ATGATTTTT
1 AT-ATTTTT
11184189 ATTATTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.21, C:0.04, G:0.11, T:0.64
Consensus pattern (22 bp):
ATATTTTTGCATGATTTTTTGT
Found at i:11184195 original size:32 final size:34
Alignment explanation
Indices: 11184138--11184209 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 34
11184128 CTTGCATAAT
*
11184138 ATTTTTGCATGATTTTTTTTATATTTATT-GCATG
1 ATTTTTGCATGATTTTTTATATATTT-TTGGCATG
*
11184172 ATTTTTGTATGA-TTTTTAT-TATTTTTGGCATG
1 ATTTTTGCATGATTTTTTATATATTTTTGGCATG
11184204 ATTTTT
1 ATTTTT
11184210 TATTTGCAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 2 0.06
32 16 0.46
33 6 0.17
34 11 0.31
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.64
Consensus pattern (34 bp):
ATTTTTGCATGATTTTTTATATATTTTTGGCATG
Found at i:11187036 original size:17 final size:18
Alignment explanation
Indices: 11187014--11187048 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11187004 GGATTTTTTA
11187014 TTAAATTT-TTTATAATT
1 TTAAATTTATTTATAATT
*
11187031 TTAAATTTATTTTTAATT
1 TTAAATTTATTTATAATT
11187049 ATTTATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAAATTTATTTATAATT
Found at i:11187209 original size:18 final size:19
Alignment explanation
Indices: 11187179--11187214 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11187169 TTAAGAATTA
*
11187179 TAAAAATATTTTTTTTCAT
1 TAAAAATATTTTTCTTCAT
11187198 TAAAAATA-TTTTCTTCA
1 TAAAAATATTTTTCTTCA
11187215 ATTTATTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAAAATATTTTTCTTCAT
Found at i:11188386 original size:26 final size:26
Alignment explanation
Indices: 11188336--11188384 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
11188326 AGATTTTAAT
11188336 TTCAGTTTAAATAATTATCTAAAATA
1 TTCAGTTTAAATAATTATCTAAAATA
11188362 TTCAG-TTAAATAATTTAT-TAAAA
1 TTCAGTTTAAATAA-TTATCTAAAA
11188385 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (26 bp):
TTCAGTTTAAATAATTATCTAAAATA
Found at i:11192152 original size:14 final size:14
Alignment explanation
Indices: 11192133--11192159 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11192123 TTAAAAACTC
11192133 TTAAAATAAATACT
1 TTAAAATAAATACT
11192147 TTAAAATAAATAC
1 TTAAAATAAATAC
11192160 ATAAAAATTT
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:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAAATAAATACT
Found at i:11192294 original size:21 final size:21
Alignment explanation
Indices: 11192268--11192346 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
11192258 AATAAATATT
11192268 TTATTATTAATTTTAATTTTA
1 TTATTATTAATTTTAATTTTA
*
11192289 TTATTA-TAATAATTAAATTTATA
1 TTATTATTAAT--TTTAATTT-TA
* *
11192312 TTTATGATTATTTTTAATTTTA
1 -TTATTATTAATTTTAATTTTA
**
11192334 TTAAAATTAATTT
1 TTATTATTAATTT
11192347 CTATCGCTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.09
21 16 0.35
22 9 0.20
23 9 0.20
24 5 0.11
25 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (21 bp):
TTATTATTAATTTTAATTTTA
Found at i:11192829 original size:13 final size:14
Alignment explanation
Indices: 11192811--11192852 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
11192801 TAATGATTTT
11192811 AATAATAATTA-AA
1 AATAATAATTATAA
11192824 AATAATAATTTATAA
1 AATAATAA-TTATAA
* *
11192839 AATATTAATAATAA
1 AATAATAATTATAA
11192853 TTTATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.32
14 8 0.32
15 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAATAATTATAA
Found at i:11192845 original size:24 final size:25
Alignment explanation
Indices: 11192801--11192853 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
11192791 TCACACAAAT
*
11192801 TAATGATTTTAATAATAATTAAAAA
1 TAATAATTTTAATAATAATTAAAAA
*
11192826 TAATAATTTATAA-AAT-ATTAATAA
1 TAATAATTT-TAATAATAATTAAAAA
11192850 TAAT
1 TAAT
11192854 TTATTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.44
25 11 0.44
26 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TAATAATTTTAATAATAATTAAAAA
Found at i:11193385 original size:14 final size:14
Alignment explanation
Indices: 11193366--11193394 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11193356 ACTATATCAA
11193366 ACACTACCTTAAAG
1 ACACTACCTTAAAG
11193380 ACACTACCTTAAAG
1 ACACTACCTTAAAG
11193394 A
1 A
11193395 AGTTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.28, G:0.07, T:0.21
Consensus pattern (14 bp):
ACACTACCTTAAAG
Found at i:11196630 original size:21 final size:21
Alignment explanation
Indices: 11196588--11196630 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11196578 TGTAAAATAT
**
11196588 TAATAAAATATAATTATTTTA
1 TAATAAAATATAATTAAATTA
*
11196609 TAATAAAATATTATTAAATTA
1 TAATAAAATATAATTAAATTA
11196630 T
1 T
11196631 TAAATATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATAAAATATAATTAAATTA
Found at i:11197645 original size:13 final size:13
Alignment explanation
Indices: 11197622--11197661 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
11197612 ACATATGTAT
*
11197622 AAAATTAAAATTA
1 AAAATAAAAATTA
* *
11197635 TAAATATAAATTA
1 AAAATAAAAATTA
11197648 AAAATAAAAATTA
1 AAAATAAAAATTA
11197661 A
1 A
11197662 TTTTAATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATAAAAATTA
Found at i:11199972 original size:12 final size:12
Alignment explanation
Indices: 11199955--11199979 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11199945 AAAAATTATA
11199955 TTTTCTTTCAAC
1 TTTTCTTTCAAC
11199967 TTTTCTTTCAAC
1 TTTTCTTTCAAC
11199979 T
1 T
11199980 AAGCACACAA
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:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTCTTTCAAC
Found at i:11204634 original size:129 final size:129
Alignment explanation
Indices: 11204404--11204656 Score: 454
Period size: 129 Copynumber: 2.0 Consensus size: 129
11204394 ATACAAAGCA
* * *
11204404 TAAATATCAAATCCACATATAACAAAGTTAAATTCACATCGTAAGGTTCAAATGCATAGAAATTT
1 TAAATATCAAATCCACATATAACAAAGTTAAATTCACATCGTAAGATTCAAATACACAGAAATTT
11204469 CAAAACAATCCAAATTATAAAGTTGAAATCCATAAAATATAGTATTTGAAAACAACCCATAGCG
66 CAAAACAATCCAAATTATAAAGTTGAAATCCATAAAATATAGTATTTGAAAACAACCCATAGCG
*
11204533 TAAATATCTAATCCACATATAACAAAGTTAAATTCACATCGTATA-ATTCAAATACACAGAAATT
1 TAAATATCAAATCCACATATAACAAAGTTAAATTCACATCGTA-AGATTCAAATACACAGAAATT
11204597 TCAAAACAATCCAAATTATAAAGTTGAAATCCATAAAATATAGTATTTGAAAACAACCCA
65 TCAAAACAATCCAAATTATAAAGTTGAAATCCATAAAATATAGTATTTGAAAACAACCCA
11204657 AATCATCATA
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
129 118 0.99
130 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.27
Consensus pattern (129 bp):
TAAATATCAAATCCACATATAACAAAGTTAAATTCACATCGTAAGATTCAAATACACAGAAATTT
CAAAACAATCCAAATTATAAAGTTGAAATCCATAAAATATAGTATTTGAAAACAACCCATAGCG
Found at i:11205526 original size:157 final size:158
Alignment explanation
Indices: 11205234--11205676 Score: 523
Period size: 157 Copynumber: 2.8 Consensus size: 158
11205224 GTCATGATTG
* * * * *
11205234 AATATGCAACAGTTTTCACCTTTCACAAAGTTATTACATCTCAATATGCATAAAACACTATCTAG
1 AATACGCAACAGTTTTCACCTTTCACAAAGTCATTGCATTTCAATATGCACAAAACACTATCTAG
* * * * *
11205299 TTCAGTAAAGAATTTTC-TACAAATTTTAGGCTTTGAATTACTATAAATGTAGTTCATTAATAAG
66 TTCAATAAAGAA-TTTCATACAAATTTTAGGCTTTGAATTACTATAAAAGTAGTTCATCAACAAA
* * *
11205363 CCCAATACACAACTAGAATCACAAAGCAA
130 CACAATACACAACAAGAACCACAAAGCAA
* * *
11205392 AATA-GCAACAGTTTTCACCTTTCACAAAATCATTGCATTTCAACATGCACAAAACATTATCTAG
1 AATACGCAACAGTTTTCACCTTTCACAAAGTCATTGCATTTCAATATGCACAAAACACTATCTAG
* * * *
11205456 TTCAATAATGAATTTCACACAAAATTTAGGCTTTGAATTACAATAAAAGTAGTTCATCAACAAAC
66 TTCAATAAAGAATTTCATACAAATTTTAGGCTTTGAATTACTATAAAAGTAGTTCATCAACAAAC
11205521 ACAATACACAACAAGAACCACAAAGCAA
131 ACAATACACAACAAGAACCACAAAGCAA
* * * * ** ** *
11205549 AATACACAATAATGTGT-AATTTTCACAAAGTCATTGCATTTCAATACACACAAAACACCATCTA
1 AATACGCAACAGT-TTTCACCTTTCACAAAGTCATTGCATTTCAATATGCACAAAACACTATCTA
* * * * * * *
11205613 GTTTAATAAAGAATTTTATACAAATTTTAAGTTTTGAATTAGTGTAAAAATAGTTCATCAACAA
65 GTTCAATAAAGAATTTCATACAAATTTTAGGCTTTGAATTACTATAAAAGTAGTTCATCAACAA
11205677 GTACATTGTG
Statistics
Matches: 240, Mismatches: 42, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
156 4 0.02
157 133 0.55
158 101 0.42
159 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (158 bp):
AATACGCAACAGTTTTCACCTTTCACAAAGTCATTGCATTTCAATATGCACAAAACACTATCTAG
TTCAATAAAGAATTTCATACAAATTTTAGGCTTTGAATTACTATAAAAGTAGTTCATCAACAAAC
ACAATACACAACAAGAACCACAAAGCAA
Found at i:11210788 original size:11 final size:11
Alignment explanation
Indices: 11210774--11210798 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11210764 AGTTTTGAAA
11210774 TATGCTTATTT
1 TATGCTTATTT
11210785 TATGCTTATTT
1 TATGCTTATTT
11210796 TAT
1 TAT
11210799 ACTTTGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (11 bp):
TATGCTTATTT
Found at i:11211672 original size:2 final size:2
Alignment explanation
Indices: 11211665--11211689 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11211655 ATAAGTTTGA
11211665 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 A
11211690 CTTGCTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11211883 original size:19 final size:19
Alignment explanation
Indices: 11211859--11211912 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
11211849 TGATAGTTTT
*
11211859 AATGCATGAATATTTGGTC
1 AATGCATGAATATTTGGTA
11211878 AATGCATGAATATTTGGTA
1 AATGCATGAATATTTGGTA
*
11211897 AATGCATGAATCTTTG
1 AATGCATGAATATTTG
11211913 AACATGGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.37
Consensus pattern (19 bp):
AATGCATGAATATTTGGTA
Found at i:11214213 original size:21 final size:22
Alignment explanation
Indices: 11214184--11214225 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
11214174 TGAGTGAAAT
11214184 TCAAGAACCAATCGATCCCTTA
1 TCAAGAACCAATCGATCCCTTA
*
11214206 TCAA-AACCCATCGATCCCTT
1 TCAAGAACCAATCGATCCCTT
11214226 CGTCCCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.33, C:0.36, G:0.07, T:0.24
Consensus pattern (22 bp):
TCAAGAACCAATCGATCCCTTA
Found at i:11219057 original size:74 final size:74
Alignment explanation
Indices: 11218933--11219078 Score: 274
Period size: 74 Copynumber: 2.0 Consensus size: 74
11218923 CATGCGCAGA
*
11218933 GAAGAAAAGGAAATTTGGGTTTCAATTTAGGGAAAAATTAGAGGCATTTATTTTAAAAACACCAA
1 GAAGAAAAGGAAATTTGGGTTTCAATTTAGGGAAAAATTAGAAGCATTTATTTTAAAAACACCAA
11218998 TAATTTCTG
66 TAATTTCTG
*
11219007 GAAGAAAAGGAAATTTGGGTTTCAATTTAGGGAAAAATTAGAAGCTTTTATTTTAAAAACACCAA
1 GAAGAAAAGGAAATTTGGGTTTCAATTTAGGGAAAAATTAGAAGCATTTATTTTAAAAACACCAA
11219072 TAATTTC
66 TAATTTC
11219079 CAACTAACTG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (74 bp):
GAAGAAAAGGAAATTTGGGTTTCAATTTAGGGAAAAATTAGAAGCATTTATTTTAAAAACACCAA
TAATTTCTG
Found at i:11222643 original size:12 final size:13
Alignment explanation
Indices: 11222624--11222667 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 13
11222614 TATTTTTTTA
11222624 ATTT-TATATTAT
1 ATTTATATATTAT
11222636 -TTTATATATTAT
1 ATTTATATATTAT
*
11222648 ATTTA-ATTTTAT
1 ATTTATATATTAT
11222660 ATTTATAT
1 ATTTATAT
11222668 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 3 0.11
12 19 0.68
13 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTATATATTAT
Found at i:11222667 original size:18 final size:18
Alignment explanation
Indices: 11222626--11222671 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
11222616 TTTTTTTAAT
11222626 TTTATA-TT-ATTTTATA
1 TTTATATTTAATTTTATA
11222642 TATTATATTTAATTTTATA
1 T-TTATATTTAATTTTATA
11222661 TTTATATTTAA
1 TTTATATTTAA
11222672 AATAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.04
17 5 0.19
18 12 0.44
19 9 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATTTAATTTTATA
Found at i:11222679 original size:18 final size:18
Alignment explanation
Indices: 11222639--11222685 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
11222629 ATATTATTTT
** *
11222639 ATATATTATATTTAATTTT
1 ATAT-TTATATTTAAAATA
11222658 ATATTTATATTTAAAATA
1 ATATTTATATTTAAAATA
11222676 ATATTT-TATT
1 ATATTTATATT
11222686 AATTTCGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTATATTTAAAATA
Found at i:11229637 original size:12 final size:12
Alignment explanation
Indices: 11229620--11229662 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
11229610 TCTTCCCTCA
11229620 TTCTTTTTTGTT
1 TTCTTTTTTGTT
*
11229632 TTCTTTTTTTTT
1 TTCTTTTTTGTT
* *
11229644 TTCTAGTTTTGAT
1 TTCT-TTTTTGTT
11229657 TTCTTT
1 TTCTTT
11229663 GTAATCATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.05, C:0.09, G:0.07, T:0.79
Consensus pattern (12 bp):
TTCTTTTTTGTT
Found at i:11231692 original size:21 final size:22
Alignment explanation
Indices: 11231668--11231718 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
11231658 AACAGTAGAG
* *
11231668 GTGAGATTAG-TTATTGTAGCA
1 GTGAGATTAGAATAATGTAGCA
*
11231689 GTGAAATT-GAATAATGTAGCA
1 GTGAGATTAGAATAATGTAGCA
11231710 GTGAGATTA
1 GTGAGATTA
11231719 AAATTAGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.33
Consensus pattern (22 bp):
GTGAGATTAGAATAATGTAGCA
Found at i:11236355 original size:89 final size:89
Alignment explanation
Indices: 11236228--11236411 Score: 307
Period size: 89 Copynumber: 2.1 Consensus size: 89
11236218 AAAATATAAG
* *
11236228 TATTTATCTAAATAAAGTGATAAAGCTTAAGTTTTTTTTTAATAA-TTTACTTTATATTTAATTT
1 TATTTATCTAAATAAAGTGATAAAGCTTAAG-ATTTTTTTAATAATTTTACTCTATATTTAATTT
*
11236292 TGAGATGAATGCATTATATTATTTT
65 TAAGATGAATGCATTATATTATTTT
*
11236317 TATTTATCTAAATAAAGTGATAAAGTTTAAGATTTTTTTAATAATTTTACTCTATATTTAATTTT
1 TATTTATCTAAATAAAGTGATAAAGCTTAAGATTTTTTTAATAATTTTACTCTATATTTAATTTT
*
11236382 AAGATGAATGCGTTATATTATTTT
66 AAGATGAATGCATTATATTATTTT
11236406 TATTTA
1 TATTTA
11236412 AAATAAATTG
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 12 0.13
89 77 0.87
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (89 bp):
TATTTATCTAAATAAAGTGATAAAGCTTAAGATTTTTTTAATAATTTTACTCTATATTTAATTTT
AAGATGAATGCATTATATTATTTT
Found at i:11239216 original size:30 final size:30
Alignment explanation
Indices: 11239161--11239238 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
11239151 TAAATAAACT
*
11239161 TTTCAGATTGGCTAGATT-A--AAGATTGA
1 TTTCACATTGGCTAGATTAATCAAGATTGA
11239188 TTTCACATTGGC-AGAATTAATCAAGATTGA
1 TTTCACATTGGCTAG-ATTAATCAAGATTGA
11239218 TTTCACATTGGCTAGATTAAT
1 TTTCACATTGGCTAGATTAAT
11239239 GGGAATTTGC
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
26 2 0.04
27 14 0.31
28 1 0.02
30 26 0.58
31 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (30 bp):
TTTCACATTGGCTAGATTAATCAAGATTGA
Found at i:11239264 original size:34 final size:36
Alignment explanation
Indices: 11239219--11239296 Score: 88
Period size: 38 Copynumber: 2.2 Consensus size: 36
11239209 CAAGATTGAT
* *
11239219 TTCACATTGGCT-AG-ATTAATGGGAATTTGCTATA
1 TTCACACTGGCTGAGTATTAATGAGAATTTGCTATA
* *
11239253 TTCACACTGGCTGAGTTAATTAATTAGAATTTGCTATG
1 TTCACACTGGCTGAG-T-ATTAATGAGAATTTGCTATA
11239291 TTCACA
1 TTCACA
11239297 TTAAGGTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 11 0.31
35 2 0.06
38 23 0.64
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (36 bp):
TTCACACTGGCTGAGTATTAATGAGAATTTGCTATA
Found at i:11240334 original size:34 final size:34
Alignment explanation
Indices: 11240296--11240362 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
11240286 TCAATTTAGA
11240296 TATAATATG-TCTTTGATTTTGTTTAATTTTGGTT
1 TATAATATGCT-TTTGATTTTGTTTAATTTTGGTT
*
11240330 TATAATATGCTTTTGATTTTGTTTGATTTTGGT
1 TATAATATGCTTTTGATTTTGTTTAATTTTGGT
11240363 CTAGTTCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.19, C:0.03, G:0.16, T:0.61
Consensus pattern (34 bp):
TATAATATGCTTTTGATTTTGTTTAATTTTGGTT
Found at i:11240861 original size:22 final size:22
Alignment explanation
Indices: 11240809--11240862 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
11240799 AATAATTTTC
11240809 TTGATTTTTTTATTAGAAATTGT
1 TTGA-TTTTTTATTAGAAATTGT
** ***
11240832 TTCTTTTTTTATTATTTATTGT
1 TTGATTTTTTATTAGAAATTGT
11240854 TTGATTTTT
1 TTGATTTTT
11240863 ATTCGAGAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (22 bp):
TTGATTTTTTATTAGAAATTGT
Found at i:11241549 original size:24 final size:22
Alignment explanation
Indices: 11241517--11241562 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
11241507 TTTTTATCAA
11241517 TGTTGTATTATTATTATAAAGTTT
1 TGTTGTATTATT-TT-TAAAGTTT
*
11241541 TGTTTTATTATTTTTAAAGTTT
1 TGTTGTATTATTTTTAAAGTTT
11241563 ATTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
23 2 0.10
24 11 0.52
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (22 bp):
TGTTGTATTATTTTTAAAGTTT
Found at i:11241567 original size:21 final size:24
Alignment explanation
Indices: 11241522--11241568 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
11241512 ATCAATGTTG
*
11241522 TATTATTATTATAAAGTTTTGTTT
1 TATTATTATTATAAAGTTTTATTT
11241546 TATTATT-TT-TAAAG-TTTATTT
1 TATTATTATTATAAAGTTTTATTT
11241567 TA
1 TA
11241569 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 5 0.23
23 2 0.09
24 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
TATTATTATTATAAAGTTTTATTT
Found at i:11241644 original size:18 final size:18
Alignment explanation
Indices: 11241623--11241665 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11241613 CATTTAATCA
*
11241623 AATAAATATAAATATTTT
1 AATAAATATAAATATTAT
**
11241641 AATATGTATAAATATTAT
1 AATAAATATAAATATTAT
11241659 AA-AAATA
1 AATAAATA
11241666 ATATATATAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AATAAATATAAATATTAT
Found at i:11242588 original size:21 final size:22
Alignment explanation
Indices: 11242555--11242596 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11242545 GCGGCTGCCA
*
11242555 AAAAAAAAGAGAAAAATAAATG
1 AAAAAAAAGAGAAAAAGAAATG
*
11242577 AAAAAGAA-AGAAAAAGAAAT
1 AAAAAAAAGAGAAAAAGAAAT
11242597 AAATAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (22 bp):
AAAAAAAAGAGAAAAAGAAATG
Found at i:11242856 original size:49 final size:49
Alignment explanation
Indices: 11242759--11243420 Score: 825
Period size: 49 Copynumber: 13.6 Consensus size: 49
11242749 TTCTCTAATT
* *
11242759 AGAGGCTCAATAACTTTAAAA-T-TCATCTTGAAAAAGCTCCTCT-AAGC
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAA-C
* * * *
11242806 AGAGGCTCAACAATTTTAAAATTCTCATCTTGGAAAAGTTCATCTCAGC
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
* * *
11242855 AGAGGCTCAACAACTTTAAAATTTTTATCTTGAAAAAGCTCCTCTCAAC
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
* * * **
11242904 AGAGGCTCAACAACTTTAAAATTCACATATTAGAAAAGCTCCTCTCAGT
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
*
11242953 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGTTCCTCTCAAC
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
* * * * *
11243002 AAAGGCTCAACAACTTTCAAATTTTTATCTTGAAAAAGCTCCTCTCAAC
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
* * * * * *
11243051 AGAGGCTCAATAACTTTAAAATTCACATATTAGAAAAGCTCATCTCAAT
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
* * * *
11243100 AGAGACTCAACAACTTTAAAATTTTCATCTTGGAAAAGCTCTTCTCAAT
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
* * *
11243149 AGAGGCTTAACAACTTTAAAA-TCTCATCTTGGAAAAGCTCATCTCAGC
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
* * * * *
11243197 AGAGGCTTAACAACTTTAAAAATCTCATCTTGAAAAAGGCTCATCTCAGC
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAA-GCTCCTCTCAAC
* * * * * *
11243247 AAAGGCTGAATAACTTTAAAA-TCTCATCTTGGAAAAGCTTCTTTTAAC
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
*
11243295 AGAGGCTCAACAACTTTAAAA-TCTCATCTTGAAAAAGCTCCTCTCAAC
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
* * *
11243343 AGAAGCTCAACAACTTTAAAATTCTCATCTTGAAAAAGCTCCTATCAAC
1 AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
11243392 AGAGGCTCAACAACTTTAAAA-TCTCATCT
1 AGAGGCTCAACAACTTTAAAATTCTCATCT
11243421 GTTCTTGAAA
Statistics
Matches: 532, Mismatches: 77, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
47 19 0.04
48 121 0.23
49 361 0.68
50 31 0.06
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (49 bp):
AGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAAC
Found at i:11254106 original size:15 final size:15
Alignment explanation
Indices: 11254086--11254126 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
11254076 TATTTTGAGA
11254086 TTTTTTTGTT-TGTT
1 TTTTTTTGTTGTGTT
11254100 TTGTTTTTGCTTGTGTT
1 TT-TTTTTG-TTGTGTT
11254117 TTTTTTTGTT
1 TTTTTTTGTT
11254127 ACACACAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 8 0.33
16 8 0.33
17 6 0.25
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.80
Consensus pattern (15 bp):
TTTTTTTGTTGTGTT
Found at i:11254707 original size:7 final size:7
Alignment explanation
Indices: 11254691--11254724 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
11254681 TATTATTATT
11254691 ATTTTT-
1 ATTTTTA
11254697 ATTTTTA
1 ATTTTTA
11254704 ATTTTTA
1 ATTTTTA
11254711 ATTTTTTA
1 A-TTTTTA
11254719 ATTTTT
1 ATTTTT
11254725 TTTCTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
ATTTTTA
Found at i:11254743 original size:18 final size:17
Alignment explanation
Indices: 11254722--11254756 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11254712 TTTTTTAATT
*
11254722 TTTTTTCTTCTTTCTTTC
1 TTTTTCCTTCTTT-TTTC
11254740 TTTTTCCTTCTTTTTTC
1 TTTTTCCTTCTTTTTTC
11254757 CTTATCCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCCTTCTTTTTTC
Found at i:11255048 original size:18 final size:17
Alignment explanation
Indices: 11255015--11255063 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
11255005 ATCCTGCAAA
*
11255015 AAAAAAAAAAGTTTCC-
1 AAAAAAAAAATTTTCCT
11255031 AAAATAAAAAATTCTTCCT
1 AAAA-AAAAAATT-TTCCT
11255050 ACAAAAAAAAATTT
1 A-AAAAAAAAATTT
11255064 CAAACAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 5 0.18
19 9 0.32
20 3 0.11
ACGTcount: A:0.61, C:0.12, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAAAAAAAATTTTCCT
Found at i:11255752 original size:22 final size:21
Alignment explanation
Indices: 11255720--11255774 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
11255710 AAGTAAAATT
11255720 TTTTTTATATTTTATATATATCA
1 TTTTTTATATTTTA-AT-TATCA
11255743 TTTTTT-TATTTTAATTATCA
1 TTTTTTATATTTTAATTATCA
* *
11255763 TTCTTAATATTT
1 TTTTTTATATTT
11255775 ATGCATGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 9 0.31
21 7 0.24
22 7 0.24
23 6 0.21
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTTATATTTTAATTATCA
Found at i:11255839 original size:7 final size:7
Alignment explanation
Indices: 11255825--11255854 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11255815 GTTGTTTTAT
11255825 AATAATA
1 AATAATA
*
11255832 ATTAATA
1 AATAATA
11255839 AATAATA
1 AATAATA
11255846 AATAATA
1 AATAATA
11255853 AA
1 AA
11255855 ATATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:11256337 original size:21 final size:21
Alignment explanation
Indices: 11256311--11256357 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11256301 TTTTAAATAA
* *
11256311 AAAATTAATAAAACAATAAAT
1 AAAATTAATAAAAAAAGAAAT
**
11256332 AAAATTTCTAAAAAAAGAAAT
1 AAAATTAATAAAAAAAGAAAT
11256353 AAAAT
1 AAAAT
11256358 GTGTGCATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAATTAATAAAAAAAGAAAT
Found at i:11268291 original size:97 final size:97
Alignment explanation
Indices: 11268125--11268602 Score: 558
Period size: 97 Copynumber: 4.9 Consensus size: 97
11268115 AGAACAGACA
* * *
11268125 AGATTTTTAAAGTTGTTGAGCCTCTGTTGAA-AGGAGCTTTTCCAAAATGAATATTTAAAGTTGT
1 AGATTTTTAAAGTTGTTGAGCCTCTGTT-AAGAGGAGCTTTTTCAAAATAAATTTTTAAAGTTGT
* *
11268189 TGAGCCTCTGTTGA-AGGGAGTTTTTTCAAGATG
65 TGAGCCTCTGTTGAGA-GGAGCTTTTCCAAGATG
* * *
11268222 AGATTTTTAAAGTTGTTGAGCTTCTATTAAGAGGAGCTTTTTCAAAATAAATTTTTAAAGTTATT
1 AGATTTTTAAAGTTGTTGAGCCTCTGTTAAGAGGAGCTTTTTCAAAATAAATTTTTAAAGTTGTT
* *
11268287 GAGCCTCTGCTT-AAAGGAGCTTTCCCAAGATG
66 GAGCCTCTG-TTGAGAGGAGCTTTTCCAAGATG
* * * * * *
11268319 AGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACATTTTCAAGACTAAA-TTTTAAAGTTGT
1 AGATTTTTAAAGTTGTTGAGCCTCTGTTAAGAGGAGCTTTTTCAA-AATAAATTTTTAAAGTTGT
*
11268383 TGAGCCTCTGTTGAGAGGAGCTTTTCCAAAAT-
65 TGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATG
* *
11268415 -GATTTTTAAAGTTGTTGAGCCTCTGTTGAA-AGGAGCTTTTTCAAGATGAGATTTTTAAAGTTG
1 AGATTTTTAAAGTTGTTGAGCCTCTGTT-AAGAGGAGCTTTTTCAAAAT-AAATTTTTAAAGTTG
* * * *
11268478 TTGAGCCTCTGCTGAGAGAAGGTTTTTTCAAGATG
64 TTGAGCCTCTGTTGAGAGGA-GCTTTTCCAAGATG
* * * *
11268513 AAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAAACTGAA-TTTTAAAGTTGT
1 AGATTTTTAAAGTTGTTGAGCCTCTGTTAAGAGGAGCTTTTTCAAAA-TAAATTTTTAAAGTTGT
* *
11268577 TGAGCCTCTATTCAGAGGAGCCTTTT
65 TGAGCCTCTGTTGAGAGGAG-CTTTT
11268603 AAATTTTCAA
Statistics
Matches: 322, Mismatches: 45, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
94 1 0.00
95 39 0.12
96 34 0.11
97 166 0.52
98 40 0.12
99 41 0.13
100 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.37
Consensus pattern (97 bp):
AGATTTTTAAAGTTGTTGAGCCTCTGTTAAGAGGAGCTTTTTCAAAATAAATTTTTAAAGTTGTT
GAGCCTCTGTTGAGAGGAGCTTTTCCAAGATG
Found at i:11268512 original size:194 final size:191
Alignment explanation
Indices: 11268129--11268602 Score: 621
Period size: 194 Copynumber: 2.4 Consensus size: 191
11268119 CAGACAAGAT
* *
11268129 TTTTAAAGTTGTTGAGCCTCTGTTGAAAGGAGCTTTTCCAAAATGAATATTTAAAGTTGTTGAGC
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTT-CAAACTGAAT-TTTAAAGTTGTTGAGC
* * * *
11268194 CTCTGTTGA-AGGGAGTTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCTTCTATTAAGAGGAG
64 CTCTGTTGAGA-GGAGCTTTTCCAAAAT-AGATTTTTAAAGTTGTTGAGCCTCTATTAAGAGGAG
* * *
11268258 CTTTTTCAAAATAAATTTTTAAAGTTATTGAGCCTCTGCTTAAAGGAGCTTTCCCAAGATGAGAA
127 CTTTTTCAAAATAAATTTTTAAAGTTATTGAGCCTCTGCTGAAAGAAGCTTTCCCAAGATGAAAA
* * *
11268323 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACATTTTCAAGACTAAATTTTAAAGTTGTTGAGC
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGC-TTTTCAA-ACTGAATTTTAAAGTTGTTGAGC
*
11268388 CTCTGTTGAGAGGAGCTTTTCCAAAAT-GATTTTTAAAGTTGTTGAGCCTCTGTTGAA-AGGAGC
64 CTCTGTTGAGAGGAGCTTTTCCAAAATAGATTTTTAAAGTTGTTGAGCCTCTATT-AAGAGGAGC
* * * * * **
11268451 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGGTTTTTTCAAGATGAAA
128 TTTTTCAAAAT-AAATTTTTAAAGTTATTGAGCCTCTGCTGAAAGAA-GCTTTCCCAAGATGAAA
11268516 A
191 A
11268517 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAAACTGAATTTTAAAGTTGTTGAGC
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGC-TTTTC-AAACTGAATTTTAAAGTTGTTGAGC
* *
11268582 CTCTATTCAGAGGAGCCTTTT
64 CTCTGTTGAGAGGAG-CTTTT
11268603 AAATTTTCAA
Statistics
Matches: 246, Mismatches: 26, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
192 41 0.17
193 32 0.13
194 156 0.63
195 17 0.07
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (191 bp):
TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCAAACTGAATTTTAAAGTTGTTGAGCCT
CTGTTGAGAGGAGCTTTTCCAAAATAGATTTTTAAAGTTGTTGAGCCTCTATTAAGAGGAGCTTT
TTCAAAATAAATTTTTAAAGTTATTGAGCCTCTGCTGAAAGAAGCTTTCCCAAGATGAAAA
Found at i:11268594 original size:48 final size:47
Alignment explanation
Indices: 11268129--11268602 Score: 547
Period size: 48 Copynumber: 9.8 Consensus size: 47
11268119 CAGACAAGAT
* * *
11268129 TTTTAAAGTTGTTGAGCCTCTGTTGAAAGGAGCTTTTCCAAAATGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATGAA
*
11268176 TATTTAAAGTTGTTGAGCCTCTGTTGA-AGGGAGTTTTTTCAAGATGAGA
1 T-TTTAAAGTTGTTGAGCCTCTGTTGAGA-GGAGCTTTTTCAAGATGA-A
* * * * *
11268225 TTTTTAAAGTTGTTGAGCTTCTATTAAGAGGAGCTTTTTCAAAATAAA
1 -TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATGAA
* * **
11268273 TTTTTAAAGTTATTGAGCCTCTGCTT-AAAGGAGCTTTCCCAAGATGAGAA
1 -TTTTAAAGTTGTTGAGCCTCTG-TTGAGAGGAGCTTTTTCAAGAT--GAA
* * * *
11268323 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACATTTTCAAGACTAAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-TGAA
* * *
11268371 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAAATGAT
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATGAA
*
11268418 TTTTAAAGTTGTTGAGCCTCTGTTGAAAGGAGCTTTTTCAAGATGAGA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATGA-A
* * *
11268466 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGGTTTTTTCAAGATGAAAA
1 -TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGA-GCTTTTTCAAGATG--AA
*
11268517 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAAACTGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-TGAA
* * *
11268565 TTTTAAAGTTGTTGAGCCTCTATTCAGAGGAGCCTTTT
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTT
11268603 AAATTTTCAA
Statistics
Matches: 364, Mismatches: 47, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
47 47 0.13
48 154 0.42
49 112 0.31
50 49 0.13
51 1 0.00
52 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (47 bp):
TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATGAA
Found at i:11268785 original size:12 final size:12
Alignment explanation
Indices: 11268765--11268812 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
11268755 ATTATTATTA
11268765 TTTTT-TTCTTT
1 TTTTTCTTCTTT
11268776 TTTTTCTTCTTT
1 TTTTTCTTCTTT
* *
11268788 CTTTCCTTCTTT
1 TTTTTCTTCTTT
11268800 TTTCTTCTTCTTT
1 TTT-TTCTTCTTT
11268813 CCTTATCTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 5 0.16
12 18 0.58
13 8 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTTCTTT
Found at i:11268810 original size:21 final size:22
Alignment explanation
Indices: 11268775--11268816 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
11268765 TTTTTTTCTT
11268775 TTTTTTCTTCTTTCTTTCCTTC
1 TTTTTTCTTCTTTCTTTCCTTC
11268797 TTTTTTCTTC-TTCTTTCCTT
1 TTTTTTCTTCTTTCTTTCCTT
11268817 ATCTGGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTTCTTCTTTCTTTCCTTC
Found at i:11269824 original size:21 final size:23
Alignment explanation
Indices: 11269789--11269835 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
11269779 TTTTAAAATT
* *
11269789 TTTTATATATATTATTTTTATTA
1 TTTTATATATATTATTCTTAATA
11269812 TTTTA-AT-TATTATTCTTAATA
1 TTTTATATATATTATTCTTAATA
11269833 TTT
1 TTT
11269836 ATGCATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 2 0.09
23 5 0.23
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTATATATATTATTCTTAATA
Found at i:11269906 original size:17 final size:17
Alignment explanation
Indices: 11269884--11269918 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11269874 TTGTTGTTTT
11269884 ATAATAATAAT-TAATAA
1 ATAATAA-AATATAATAA
11269901 ATAATAAAATATAATAA
1 ATAATAAAATATAATAA
11269918 A
1 A
11269919 ATTTTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATAAAATATAATAA
Found at i:11272046 original size:34 final size:34
Alignment explanation
Indices: 11271940--11272039 Score: 130
Period size: 34 Copynumber: 2.9 Consensus size: 34
11271930 TATATTTCCG
* *
11271940 TAAGCTTTTAGAA-ATTTATAGAAATACAAATCCA
1 TAAGCTTTTA-AAGACTTACAGAAATACAAATCCA
*
11271974 TAAGCTTTTAAAGACTTACAGAAATTCAAATCCA
1 TAAGCTTTTAAAGACTTACAGAAATACAAATCCA
* * *
11272008 TAAGCTTTTAAAGGCTTAGAGAAATGCAAATC
1 TAAGCTTTTAAAGACTTACAGAAATACAAATC
11272040 TGTAAGCCTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 2 0.03
34 57 0.97
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (34 bp):
TAAGCTTTTAAAGACTTACAGAAATACAAATCCA
Found at i:11272224 original size:22 final size:23
Alignment explanation
Indices: 11272183--11272226 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11272173 TTTTGATTAA
*
11272183 AAAAAAAAAGTAGAGAAGAAAAG
1 AAAAAAAAAGGAGAGAAGAAAAG
*
11272206 AAAAAAAAAGGA-AGTAGAAAA
1 AAAAAAAAAGGAGAGAAGAAAA
11272227 AAGTGAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (23 bp):
AAAAAAAAAGGAGAGAAGAAAAG
Found at i:11272228 original size:24 final size:24
Alignment explanation
Indices: 11272182--11272229 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11272172 TTTTTGATTA
*
11272182 AAAAAAAAAAGTAGAGAAGAAAAG
1 AAAAAAAAAAGAAGAGAAGAAAAG
*
11272206 AAAAAAAAAGGAAGTAGAA-AAAAG
1 AAAAAAAAAAGAAG-AGAAGAAAAG
11272230 TGAATGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAAGAAGAGAAGAAAAG
Found at i:11272536 original size:3 final size:3
Alignment explanation
Indices: 11272528--11272556 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11272518 AATGAATTCT
11272528 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11272557 GTCATTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11273580 original size:44 final size:44
Alignment explanation
Indices: 11273526--11273618 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
11273516 TATAAAATGG
*
11273526 AGAAAAAGTAAAAATAACTAACGTAAAGTTTTTAAATATAGAGA
1 AGAAAAAGTAAAAATAACTAACGTAAAGTTTTGAAATATAGAGA
*
11273570 AGAAAAAGTAAAACTAACTAACGTAAAGTTTTGAAATATAGAGA
1 AGAAAAAGTAAAAATAACTAACGTAAAGTTTTGAAATATAGAGA
11273614 A-AAAA
1 AGAAAA
11273619 TAGACACAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 4 0.09
44 43 0.91
ACGTcount: A:0.58, C:0.05, G:0.14, T:0.23
Consensus pattern (44 bp):
AGAAAAAGTAAAAATAACTAACGTAAAGTTTTGAAATATAGAGA
Found at i:11274074 original size:11 final size:12
Alignment explanation
Indices: 11274051--11274083 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
11274041 TTATAAATGT
11274051 AAATTTTATATA
1 AAATTTTATATA
11274063 AAATTTTA-ATA
1 AAATTTTATATA
*
11274074 AATTTTTATA
1 AAATTTTATA
11274084 ATTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
AAATTTTATATA
Found at i:11274088 original size:19 final size:21
Alignment explanation
Indices: 11274050--11274090 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
11274040 CTTATAAATG
11274050 TAAATTTTATATAAAATTTTAA
1 TAAATTTTATAT-AAATTTTAA
11274072 TAAATTTT-TAT-AATTTTAA
1 TAAATTTTATATAAATTTTAA
11274091 ATTATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAAATTTTATATAAATTTTAA
Found at i:11276952 original size:8 final size:8
Alignment explanation
Indices: 11276939--11276963 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11276929 TACATCAACA
11276939 GGGGAGAG
1 GGGGAGAG
11276947 GGGGAGAG
1 GGGGAGAG
11276955 GGGGAGAG
1 GGGGAGAG
11276963 G
1 G
11276964 CTGGGGTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (8 bp):
GGGGAGAG
Found at i:11279130 original size:15 final size:17
Alignment explanation
Indices: 11279110--11279142 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11279100 ATAATTTTTT
11279110 ATCAA-TAAA-AATAAA
1 ATCAATTAAATAATAAA
11279125 ATCAATTAAATAATAAA
1 ATCAATTAAATAATAAA
11279142 A
1 A
11279143 ACAACTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 4 0.25
17 7 0.44
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
ATCAATTAAATAATAAA
Found at i:11287317 original size:14 final size:14
Alignment explanation
Indices: 11287294--11287329 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11287284 TAGCATTTAG
11287294 TAAA-TTTGATATT
1 TAAATTTTGATATT
11287307 TAAATTTTGATATT
1 TAAATTTTGATATT
11287321 TATAATTTT
1 TA-AATTTT
11287330 TTTTTATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.19
14 11 0.52
15 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
TAAATTTTGATATT
Found at i:11292684 original size:24 final size:24
Alignment explanation
Indices: 11292612--11292684 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
11292602 ATATTAGAGA
* * *
11292612 ATTTACTAATAAATTATTGAAAAGGT
1 ATTTACTATTAAAATATT-AAAA-AT
* **
11292638 -TTTACTATTAAAATACTGCAAAT
1 ATTTACTATTAAAATATTAAAAAT
11292661 ATTTACTATTAAAATATTAAAAAT
1 ATTTACTATTAAAATATTAAAAAT
11292685 TTAGCACTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
23 1 0.03
24 22 0.59
25 14 0.38
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (24 bp):
ATTTACTATTAAAATATTAAAAAT
Found at i:11292816 original size:26 final size:26
Alignment explanation
Indices: 11292750--11292830 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 26
11292740 ATTAAAATGT
*
11292750 TATTTATATTAATATAAATGATTAAAAA
1 TATTTATATTATTA-AAAT-ATTAAAAA
*
11292778 TAATAATAGATATTATTAAAATATTAAAAA
1 T-AT--T-TATATTATTAAAATATTAAAAA
*
11292808 TATTTATATTATTAATATATTAA
1 TATTTATATTATTAAAATATTAA
11292831 TATTTCGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
26 17 0.38
27 1 0.02
28 1 0.02
29 4 0.09
30 9 0.20
31 5 0.11
32 8 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
TATTTATATTATTAAAATATTAAAAA
Found at i:11293118 original size:22 final size:23
Alignment explanation
Indices: 11293090--11293132 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
11293080 TTAAATTATT
11293090 ATTTATTATATTAAT-ATTAATA
1 ATTTATTATATTAATAATTAATA
*
11293112 ATTTATTATTTTAATAATTAA
1 ATTTATTATATTAATAATTAA
11293133 ATAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTATTATATTAATAATTAATA
Found at i:11295283 original size:20 final size:18
Alignment explanation
Indices: 11295258--11295302 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11295248 TACTTAATCC
11295258 AAATAAACAGAATAATAATA
1 AAATAAACAG-ATAA-AATA
* *
11295278 AAATAAATAGATAAATTA
1 AAATAAACAGATAAAATA
11295296 AAATAAA
1 AAATAAA
11295303 AATTGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 4 0.17
20 9 0.39
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATAAACAGATAAAATA
Found at i:11299837 original size:41 final size:41
Alignment explanation
Indices: 11299792--11299899 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
11299782 TAGATGAAGC
11299792 TTACTTTTTCAAACGTTATCTATTATGATAAAAGATAACAT
1 TTACTTTTTCAAACGTTATCTATTATGATAAAAGATAACAT
* * * *
11299833 TTACTTTTTAAAATGTCT-TCTATTATGATAATAGATGACAT
1 TTACTTTTTCAAACGT-TATCTATTATGATAAAAGATAACAT
* *
11299874 TTACATTTTCAAACGTAATCTATTAT
1 TTACTTTTTCAAACGTTATCTATTAT
11299900 ATATATATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 56 0.98
42 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (41 bp):
TTACTTTTTCAAACGTTATCTATTATGATAAAAGATAACAT
Found at i:11300303 original size:41 final size:41
Alignment explanation
Indices: 11300229--11300316 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
11300219 TTATATTTTT
* ** * * *
11300229 TATTATGATAATAGATGATGTTTATTTTTTC-AAATGTCATC
1 TATTATGATAATAAATGACATTTACTTTCTCAAAAT-CCATC
11300270 TATTATGATAATAAATGACATTTACTTTCTCAAAATCCATC
1 TATTATGATAATAAATGACATTTACTTTCTCAAAATCCATC
11300311 TATTAT
1 TATTAT
11300317 ATTACAAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 36 0.90
42 4 0.10
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (41 bp):
TATTATGATAATAAATGACATTTACTTTCTCAAAATCCATC
Found at i:11306702 original size:9 final size:9
Alignment explanation
Indices: 11306688--11306721 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
11306678 GCTAAATTAT
11306688 TAAATAACC
1 TAAATAACC
*
11306697 TAAATAATC
1 TAAATAACC
11306706 TAAAATAACC
1 T-AAATAACC
11306716 TAAATA
1 TAAATA
11306722 TATGTAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAATAACC
Found at i:11306915 original size:16 final size:16
Alignment explanation
Indices: 11306896--11306937 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11306886 GTCATATTAA
11306896 TATATACATATATATG
1 TATATACATATATATG
*
11306912 TATATATATATATATG
1 TATATACATATATATG
* *
11306928 GATATCCATA
1 TATATACATA
11306938 ATTTTCATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (16 bp):
TATATACATATATATG
Found at i:11308217 original size:21 final size:20
Alignment explanation
Indices: 11308193--11308237 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
11308183 TTTTCTTGTC
11308193 CTTTCAATACTTTATCATTA
1 CTTTCAATACTTTATCATTA
* * *
11308213 TCTTTCGATATTTTATCTTTA
1 -CTTTCAATACTTTATCATTA
11308234 CTTT
1 CTTT
11308238 TTACACACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.22, C:0.18, G:0.02, T:0.58
Consensus pattern (20 bp):
CTTTCAATACTTTATCATTA
Found at i:11315804 original size:24 final size:25
Alignment explanation
Indices: 11315777--11315834 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
11315767 GTGTTATTGA
*
11315777 CATTATAATTTCA-TATG-TTACTAT
1 CATTATAATTACATTATGTTTA-TAT
*
11315801 CATTATAATTACATTTTGTTTATAT
1 CATTATAATTACATTATGTTTATAT
11315826 CATTATAAT
1 CATTATAAT
11315835 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 12 0.40
25 15 0.50
26 3 0.10
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.52
Consensus pattern (25 bp):
CATTATAATTACATTATGTTTATAT
Found at i:11322949 original size:42 final size:41
Alignment explanation
Indices: 11322871--11322956 Score: 109
Period size: 42 Copynumber: 2.1 Consensus size: 41
11322861 TGTCTAAAAC
* * *
11322871 TATGATAATATATAACATTTACTTTTTCAAATATCATCTAT
1 TATGATAATAAATAACATTTACTTTCTCAAACATCATCTAT
* * *
11322912 TATGATAATAAATGATAGTTTACTTTCTCAAGCATCATCTAT
1 TATGATAATAAATAACA-TTTACTTTCTCAAACATCATCTAT
11322954 TAT
1 TAT
11322957 ATATAGATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
41 14 0.37
42 24 0.63
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (41 bp):
TATGATAATAAATAACATTTACTTTCTCAAACATCATCTAT
Done.