Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168071.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_32, 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: 761692
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 5 of 17
Found at i:180444 original size:8 final size:8
Alignment explanation
Indices: 180395--180453 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
180385 TTATATTCAT
180395 TAATTATA
1 TAATTATA
180403 TATATTA-A
1 TA-ATTATA
180411 TAATTAT-
1 TAATTATA
*
180418 TAA-GATTA
1 TAATTA-TA
180426 TAATATATA
1 TAAT-TATA
180435 TAATTATA
1 TAATTATA
*
180443 TAATAATA
1 TAATTATA
180451 TAA
1 TAA
180454 GATTATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
6 1 0.02
7 8 0.19
8 22 0.52
9 10 0.24
10 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (8 bp):
TAATTATA
Found at i:180458 original size:18 final size:17
Alignment explanation
Indices: 180424--180474 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
180414 TTATTAAGAT
180424 TATAAT-ATATATAATTA
1 TATAATAATATA-AATTA
180441 TATAATAATATAAGATTA
1 TATAATAATATAA-ATTA
180459 T-TAA-AATATAAATTA
1 TATAATAATATAAATTA
180474 T
1 T
180475 GATTATTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 10 0.31
18 10 0.31
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TATAATAATATAAATTA
Found at i:181810 original size:472 final size:474
Alignment explanation
Indices: 180829--182121 Score: 1780
Period size: 473 Copynumber: 2.7 Consensus size: 474
180819 AAGTAAGAAG
* * * *
180829 AAAAATAAAGTCT-ATTGTTTTAAGCTCCAAAAACCTTTATAACTTACACTTAAAACTGTGAAAA
1 AAAAACAAAGTCTGA-TGTTTTAAGCTCCAAAATCCTTTACAACTTACACTTAACACTGTGAAAA
* * * *
180893 ATCAAAACAAACGCAAGTTTTACTATGTTTCTTT-TTCGAGCATGTTTAAAACATTGGATTTTAA
65 ATTAAAACAAACGCAAGTTTTACTATATTTCTTTGTTCGAGCAAGTTTAAAACATTGGATTTCAA
* * * *
180957 GATATTCAAATTCTTTTTACATTTAAAAACCTGCTAAAACAATGCTTTCATATTTTAAAGCTCGA
130 GATATTCAAAGTC-ATTTCCATTTAAAAACCTGCTAAAACAATGCTTTCATATTTTAAAGCTTGA
* * * *
181022 CTCCGATGAAAATCATTTTCAAAGTAAAACATAAAATTTCAAAAGTATTACGCTCCAACTGCTAT
194 CTCAG-TGAAAATCATTTTCAAAGCAAAACATAAAATTTCAAAAGTATTACGCTTCGACTGCTA-
*
181087 CCC-TATAAAACTGTTAAAACAAGTTAGCACATAATTTATAACATCAAGCGCCAATAACAACTTC
257 CCCTTAT-AAACTGTTAAAACAAGTTAGCACAAAATTTATAACATCAAGCGCCAATAACAACTTC
* * *
181151 ACAAATAATAT-ACAAATATCTATATCTTTCATATGTAATCCCATAAGTTGCTTAGAGCACTTTA
321 ACAAATAATATCA-AAATATCTAGATCTTTCATATGTAATCCCATAAGTTCCTTAGAGCACTCTA
181215 AAAATGTATCTAAAAGAAAATAAATATGAAACACACTGAAAAATTAAAATCGTGCAAAAATTGCG
385 AAAATGTATCTAAAAGAAAATAAATATGAAACACACTGAAAAATTAAAATCGTGCAAAAATTGCG
*
181280 TGAGTAGTTTTATGCCAAATTGTTC
450 CGAGTAGTTTTATGCCAAATTGTTC
**
181305 AAAAACAACTTCTGATGTTTTAAGCTCCAAAATCCTTTACAACTTACACTTAACACTGTGAAAAA
1 AAAAACAAAGTCTGATGTTTTAAGCTCCAAAATCCTTTACAACTTACACTTAACACTGTGAAAAA
* * *
181370 TTAAAATAAACGCAAGTTTTACTAT-TTTCTTTGTTCGAGCACGTTTAAAACATTGGATTTGAAG
66 TTAAAACAAACGCAAGTTTTACTATATTTCTTTGTTCGAGCAAGTTTAAAACATTGGATTTCAAG
* *
181434 ATATTCAAA-TCATTTCCATTTAAAAACCTGTTAAAACAATTCTTTCATATTTTAAAGCTTGACT
131 ATATTCAAAGTCATTTCCATTTAAAAACCTGCTAAAACAATGCTTTCATATTTTAAAGCTTGACT
* * * * * *
181498 CAAGTAAAAATAATTTTCAAAACAAAACATAAAATTTTAAAAATATTACACTTCGACTGCTACCC
196 C-AGTGAAAATCATTTTCAAAGCAAAACATAAAATTTCAAAAGTATTACGCTTCGACTGCTACCC
* * *
181563 TTATAAATTGTTAAAACAAGTTAGCACAAAATTTATAACATCAAGCGCTAATAACAACTTCATAA
260 TTATAAACTGTTAAAACAAGTTAGCACAAAATTTATAACATCAAGCGCCAATAACAACTTCACAA
*
181628 ATAATATCAAAATATCTAGATCTTTCATATGTAATCCCATAAGTTCCTTATAGCAC-CTAAAAAT
325 ATAATATCAAAATATCTAGATCTTTCATATGTAATCCCATAAGTTCCTTAGAGCACTCTAAAAAT
* * * *
181692 GTATCTAAAAGTAAATAAGTATGAAACACATTGAAAAATTAAAATCGTGCAAAAATTGTGCGAGT
390 GTATCTAAAAGAAAATAAATATGAAACACACTGAAAAATTAAAATCGTGCAAAAATTGCGCGAGT
*
181757 -GTTTTTATGCCAGATTGTTC
455 AG-TTTTATGCCAAATTGTTC
*
181777 AAAAACAAAGTCTGATGTTTTAAGCTTCAAAATCCTTTACAACTTACACTTAACACTGTGAAAAA
1 AAAAACAAAGTCTGATGTTTTAAGCTCCAAAATCCTTTACAACTTACACTTAACACTGTGAAAAA
* * * *
181842 TTAAAACCAACGCAAGTTTTACCATATTTCTTTGTTTGAGCAAGTTTAAAA-ACTTGGA-TACAA
66 TTAAAACAAACGCAAGTTTTACTATATTTCTTTGTTCGAGCAAGTTTAAAACA-TTGGATTTCAA
* * *
181905 GATATGCAAAGTCATATCCATTTAGAAACCTGCTAAAACAATGCTTTCATATTTTAAAGCTTGAC
130 GATATTCAAAGTCATTTCCATTTAAAAACCTGCTAAAACAATGCTTTCATATTTTAAAGCTTGAC
* * * * * * * *
181970 TTTAGCGACAATCATTTTCAAAGCAAAACATAAAATCTCGAAAGCATTAGGCTTCGAGTGCT-CC
195 -TCAGTGAAAATCATTTTCAAAGCAAAACATAAAATTTCAAAAGTATTACGCTTCGACTGCTACC
* * * * * * * * *
182034 CTCTATAAACTGCTAAAATAAGTTAGCACACAATTAATCACATCAAACACCAATAGCAACATCAC
259 CT-TATAAACTGTTAAAACAAGTTAGCACAAAATTTATAACATCAAGCGCCAATAACAACTTCAC
* *
182099 AAATAATATCCAAATATCAAGAT
323 AAATAATATCAAAATATCTAGAT
182122 TAATAATATG
Statistics
Matches: 724, Mismatches: 82, Indels: 25
0.87 0.10 0.03
Matches are distributed among these distances:
471 1 0.00
472 185 0.26
473 306 0.42
474 103 0.14
475 10 0.01
476 118 0.16
477 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (474 bp):
AAAAACAAAGTCTGATGTTTTAAGCTCCAAAATCCTTTACAACTTACACTTAACACTGTGAAAAA
TTAAAACAAACGCAAGTTTTACTATATTTCTTTGTTCGAGCAAGTTTAAAACATTGGATTTCAAG
ATATTCAAAGTCATTTCCATTTAAAAACCTGCTAAAACAATGCTTTCATATTTTAAAGCTTGACT
CAGTGAAAATCATTTTCAAAGCAAAACATAAAATTTCAAAAGTATTACGCTTCGACTGCTACCCT
TATAAACTGTTAAAACAAGTTAGCACAAAATTTATAACATCAAGCGCCAATAACAACTTCACAAA
TAATATCAAAATATCTAGATCTTTCATATGTAATCCCATAAGTTCCTTAGAGCACTCTAAAAATG
TATCTAAAAGAAAATAAATATGAAACACACTGAAAAATTAAAATCGTGCAAAAATTGCGCGAGTA
GTTTTATGCCAAATTGTTC
Found at i:183207 original size:498 final size:495
Alignment explanation
Indices: 182157--183559 Score: 1928
Period size: 497 Copynumber: 2.8 Consensus size: 495
182147 CTTAACCACT
* * *
182157 AAAATCATTTATAACTTACACTGAACACTGTGAAAAATTAAAACCAACACAAGATTTACCATGTT
1 AAAATCCTTTATAACTTACACTTAACACTGTGAAAAATTAAAACCAACACAAGTTTTACCATGTT
* * *
182222 TTTTTGTTTGAGCAAGTTTAAAACATTGGATTCAA-AAATTCAAATTCATTTGT-ATTTAAAAAC
66 TCTTTGTTCGAGCAAGTTTAAAACATTGGATTCAAGATATTCAAATTCATTT-TCATTTAAAAAC
* *
182285 CTGCTAAAACAATGCTTTCATATTTTAAAA-TGCGACTACAATGAAAATCATTTTCAAAGCAAAA
130 CTTCTAAAACAATGCTTTCATATTTTAAAACT-CGACT-CAGTGAAAATCATTTTCAAAGCAAAA
* * * * * * *
182349 CATAAAATTGCAAAAGCATTAGACTTTGAGTGCTCTCGTATAAACTACTAAAACAAGTTAACACA
193 CATAAAATTTCAAAAGCATTAGGCTTCGAGTGCTCCCCTATAAACTGCTAAAACAAGTTAGCACA
*
182414 CAATTAATCACTTCAAGTGCCAATATCAACTTCACAAAAAAATCCAAATATCAAGATCATTCATA
258 CAATTAATCACATCAAGTGCCAATA-CAACTTCACAAAAAAATCCAAATATCAAGATCATTCATA
* *
182479 TGTAATCCCACGAGTTCTTTATAGCACCTAAAAATGTATCTAAAAACAAATAAGTATAAAACATA
322 TGTAATCCCACAAGTTCTTTATAGCACCTAAAAATGTATCTAAAAGCAAATAAGTATAAAACATA
* * * * *
182544 ACGAAAAATTAAAATCAGGCAAAATTGGTTTTTATTCAAAATTTAAAATTGTGCAAATTGTTTTT
387 ACGAAAAATTAAAATCATGCAAAATTGGCTTCTATTCAAAATTAAAAATTGTGCAAATGGTTTTT
* *
182609 ATGCCCAAAATTGTTCAAAAATAAAGTCTGATGTTTTAAGCTCC
452 ACGCCCAAAATTGTTCAAAAATAAAGTCTGAAGTTTTAAGCTCC
* * * * *
182653 AAAATCCTTTATAACTTACACTTAATACTATGAAAAATTAAAACAAACGCAAGTTTTACAATGTT
1 AAAATCCTTTATAACTTACACTTAACACTGTGAAAAATTAAAACCAACACAAGTTTTACCATGTT
*** *
182718 TCTTTGTTCGAGTGTGTTTAAAACATTAGATTCAAGATATTCAAATTCATTTTCATTTAAAAACC
66 TCTTTGTTCGAGCAAGTTTAAAACATTGGATTCAAGATATTCAAATTCATTTTCATTTAAAAACC
* * *
182783 TTCTAAAACAATTCTCTCATATTTTAAAACTCGACTCTAGCGAAAATCATTTTCAAAG-AAATAC
131 TTCTAAAACAATGCTTTCATATTTTAAAACTCGACTC-AGTGAAAATCATTTTCAAAGCAAA-AC
* *
182847 ATAAAATTTCAAAAGCTTTAGGCTTCGAGTGGTCCCCCTATAAACTGCTAAAACAAGTTAGCACA
194 ATAAAATTTCAAAAGCATTAGGCTTCGAGTGCT-CCCCTATAAACTGCTAAAACAAGTTAGCACA
**
182912 CAATTAATCACATCAAGCACCAATAACAACTTCACAAAAAAATCCAAATATCAAGATCATTCA-A
258 CAATTAATCACATCAAGTGCCAAT-ACAACTTCACAAAAAAATCCAAATATCAAGATCATTCATA
* * * * *
182976 TGTAATCTCACAAGTTCTTTAAAGCACCTAAAAATGTATTTAATAGCAAATAAGTATGAAACATA
322 TGTAATCCCACAAGTTCTTTATAGCACCTAAAAATGTATCTAAAAGCAAATAAGTATAAAACATA
* *
183041 ACGAAAAATTAAAATCATGCAAAATTGGCTTCTATGTCACAATTAAAAATTGTGCGAATGGTTTT
387 ACGAAAAATTAAAATCATGCAAAATTGGCTTCTAT-TCAAAATTAAAAATTGTGCAAATGGTTTT
** * *
183106 TACGTTCAAAATTGTTTAAAAATAAAGTCTGAAGTTTTAAGTTCC
451 TACGCCCAAAATTGTTCAAAAATAAAGTCTGAAGTTTTAAGCTCC
* *
183151 AAAATCC-TTAGTAACTTATACTTAACACTGTGAAAAATTAAAGCCAACACAAGTTTTACCA--T
1 AAAATCCTTTA-TAACTTACACTTAACACTGTGAAAAATTAAAACCAACACAAGTTTTACCATGT
* *
183213 TTCTTTGTTGGAGCACGTTTAAAACATTGGATTCAAGATATTCAAATTCATTTTCATTTAAAAA-
65 TTCTTTGTTCGAGCAAGTTTAAAACATTGGATTCAAGATATTCAAATTCATTTTCATTTAAAAAC
* * *
183277 CTTGCCTAAAACAATGCTTTAATATTTTAAAGCTCGACTCCAGTGAAAATTATTTTCAAAGCAAA
130 CTT--CTAAAACAATGCTTTCATATTTTAAAACTCGACT-CAGTGAAAATCATTTTCAAAGCAAA
* * *
183342 ACATAAAATTTCAAAAGAATTAGGCTTCGACTACTCCCCTATAAACTGCTAAAACAAGTTAGCAC
192 ACATAAAATTTCAAAAGCATTAGGCTTCGAGTGCTCCCCTATAAACTGCTAAAACAAGTTAGCAC
* * * * * *
183407 ACAATTTATAACATCAAGTGCCCAT--AACTTCACAAATAATATCCAAATATCTAGATCACTCAT
257 ACAATTAATCACATCAAGTGCCAATACAACTTCACAAA-AAAATCCAAATATCAAGATCATTCAT
* * * * *
183470 ATGTAATCCCATAAGTTCCTTATAGCCCCTAAAAATGTATCTAAAAGCAAATAAGTATAAAATAC
321 ATGTAATCCCACAAGTTCTTTATAGCACCTAAAAATGTATCTAAAAGCAAATAAGTATAAAACAT
* *
183535 AATGAAAAATTAAAATCGTGCAAAA
386 AACGAAAAATTAAAATCATGCAAAA
183560 CTTGCACGAG
Statistics
Matches: 797, Mismatches: 95, Indels: 31
0.86 0.10 0.03
Matches are distributed among these distances:
493 11 0.01
494 22 0.03
495 81 0.10
496 201 0.25
497 277 0.35
498 204 0.26
499 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (495 bp):
AAAATCCTTTATAACTTACACTTAACACTGTGAAAAATTAAAACCAACACAAGTTTTACCATGTT
TCTTTGTTCGAGCAAGTTTAAAACATTGGATTCAAGATATTCAAATTCATTTTCATTTAAAAACC
TTCTAAAACAATGCTTTCATATTTTAAAACTCGACTCAGTGAAAATCATTTTCAAAGCAAAACAT
AAAATTTCAAAAGCATTAGGCTTCGAGTGCTCCCCTATAAACTGCTAAAACAAGTTAGCACACAA
TTAATCACATCAAGTGCCAATACAACTTCACAAAAAAATCCAAATATCAAGATCATTCATATGTA
ATCCCACAAGTTCTTTATAGCACCTAAAAATGTATCTAAAAGCAAATAAGTATAAAACATAACGA
AAAATTAAAATCATGCAAAATTGGCTTCTATTCAAAATTAAAAATTGTGCAAATGGTTTTTACGC
CCAAAATTGTTCAAAAATAAAGTCTGAAGTTTTAAGCTCC
Found at i:184126 original size:13 final size:13
Alignment explanation
Indices: 184106--184184 Score: 61
Period size: 13 Copynumber: 5.7 Consensus size: 13
184096 AATTTTTATT
184106 TAATTATTACTAA
1 TAATTATTACTAA
* *
184119 TTATTATTGATATAA
1 TAATTATT-A-CTAA
* *
184134 TATATTAATACTACC
1 TA-ATTATTACTA-A
184149 TAATTAATTA-TAA
1 TAATT-ATTACTAA
184162 TAATTAGTTACTAA
1 TAATTA-TTACTAA
184176 TAATTATTA
1 TAATTATTA
184185 AATTATTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
12 1 0.02
13 18 0.35
14 17 0.33
15 10 0.20
16 5 0.10
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (13 bp):
TAATTATTACTAA
Found at i:184393 original size:24 final size:21
Alignment explanation
Indices: 184366--184423 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 21
184356 ATTTTTTTAA
184366 AATAATCTTAATTTATAATAAGTT
1 AATAAT-TTAATTTAT-ATAA-TT
*
184390 AATAATTT-ATATATATAATT
1 AATAATTTAATTTATATAATT
184410 AATATATATTAATT
1 AATA-AT-TTAATT
184424 AAAACAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 6 0.21
21 6 0.21
22 7 0.24
23 4 0.14
24 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
AATAATTTAATTTATATAATT
Found at i:184409 original size:13 final size:13
Alignment explanation
Indices: 184391--184425 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
184381 TAATAAGTTA
*
184391 ATAATTTATATAT
1 ATAATTAATATAT
184404 ATAATTAATATAT
1 ATAATTAATATAT
184417 ATTAATTAA
1 A-TAATTAA
184426 AACAATTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATAATTAATATAT
Found at i:184411 original size:20 final size:18
Alignment explanation
Indices: 184374--184413 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
184364 AAAATAATCT
*
184374 TAATTTATAATAAGTTAA
1 TAATTTATAATAAATTAA
184392 TAATTTATATATATAATTAA
1 TAATTTATA-ATA-AATTAA
184412 TA
1 TA
184414 TATATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATTTATAATAAATTAA
Found at i:184573 original size:23 final size:23
Alignment explanation
Indices: 184540--184615 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 23
184530 TCTTATTTAC
*
184540 TATAA-TATATATTATCTATATA
1 TATAATTATATATTATATATATA
*
184562 TATAATTATATATTATATAAATA
1 TATAATTATATATTATATATATA
184585 -ATTAATTATTATATT-TAT-TA-A
1 TA-TAATTA-TATATTATATATATA
184606 -ATAATTATAT
1 TATAATTATAT
184616 TATAATATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 3 0.06
20 6 0.12
21 2 0.04
22 7 0.15
23 24 0.50
24 6 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
TATAATTATATATTATATATATA
Found at i:184580 original size:19 final size:20
Alignment explanation
Indices: 184540--184598 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
184530 TCTTATTTAC
184540 TATAATATATATTATCTATATA
1 TATAAT-TATATTAT-TATATA
184562 TATAATTATA-TATTATATA
1 TATAATTATATTATTATATA
*
184581 AATAATTA-ATTATTATAT
1 TATAATTATATTATTATAT
184599 TTATTAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 21 0.60
20 3 0.09
21 4 0.11
22 6 0.17
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATTATATTATTATATA
Found at i:184606 original size:24 final size:26
Alignment explanation
Indices: 184560--184624 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
184550 ATTATCTATA
*
184560 TATATAATTATATATTATATAAATAAT
1 TATATTATTATAT-TTATATAAATAAT
184587 TA-ATTATTATATTTAT-TAAATAAT
1 TATATTATTATATTTATATAAATAAT
*
184611 TATATTATAATATT
1 TATATTATTATATT
184625 ATTTTTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 10 0.29
25 14 0.40
26 9 0.26
27 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATATTATTATATTTATATAAATAAT
Found at i:184626 original size:24 final size:22
Alignment explanation
Indices: 184545--184627 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 22
184535 TTTACTATAA
*
184545 TATATATTATCTATAT-ATATAAT
1 TATATATTAT-TAAATAAT-TAAT
184568 TATATATTATATAAATAATTAAT
1 TATATATTAT-TAAATAATTAAT
184591 TATTATATTTATTAAATAATTATAT
1 TA-TATA-TTATTAAATAATTA-AT
184616 TATAATATTATT
1 TAT-ATATTATT
184628 TTTAAATATT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
23 20 0.38
24 22 0.42
25 11 0.21
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (22 bp):
TATATATTATTAAATAATTAAT
Found at i:184822 original size:14 final size:15
Alignment explanation
Indices: 184784--184839 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
184774 GACTAGAATA
*
184784 ATATAA-TATATTATG
1 ATATAATTA-ATTATT
184799 ATAATAATTAATTATT
1 AT-ATAATTAATTATT
184815 AT-TAATTAA-TATT
1 ATATAATTAATTATT
*
184828 TTATAATTAATT
1 ATATAATTAATT
184840 TATAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 5 0.14
14 14 0.40
15 3 0.09
16 11 0.31
17 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATAATTAATTATT
Found at i:184831 original size:18 final size:19
Alignment explanation
Indices: 184800--184860 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
184790 TATATTATGA
184800 TAATAATTAATTATTATTAAT
1 TAATAATT--TTATTATTAAT
*
184821 TAAT-ATTTTATAATTAAT
1 TAATAATTTTATTATTAAT
* *
184839 TTATAATTTATATTATAAAT
1 TAATAATTT-TATTATTAAT
184859 TA
1 TA
184861 TTAAATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 13 0.39
19 4 0.12
20 12 0.36
21 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATTTTATTATTAAT
Found at i:185262 original size:22 final size:22
Alignment explanation
Indices: 185220--185264 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
185210 TTAATTATTG
*
185220 TTATTAATTAATATTAGTTAAT
1 TTATTAATTAACATTAGTTAAT
185242 TTATTAATTAACATTTA-TTAAT
1 TTATTAATTAACA-TTAGTTAAT
185264 T
1 T
185265 AGTAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTAATTAACATTAGTTAAT
Found at i:185292 original size:18 final size:18
Alignment explanation
Indices: 185269--185321 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
185259 TTAATTAGTA
185269 AATTAATAATATATAATT
1 AATTAATAATATATAATT
*
185287 AATTAAT-ATATA-ATTT
1 AATTAATAATATATAATT
185303 AATATAATAAT-T-TAATT
1 AAT-TAATAATATATAATT
185320 AA
1 AA
185322 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 6 0.20
17 15 0.50
18 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAATAATATATAATT
Found at i:185312 original size:13 final size:13
Alignment explanation
Indices: 185279--185318 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
185269 AATTAATAAT
185279 ATATAATTAA-TTA
1 ATATAA-TAATTTA
185292 ATAT-ATAATTTA
1 ATATAATAATTTA
185304 ATATAATAATTTA
1 ATATAATAATTTA
185317 AT
1 AT
185319 TAAACAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 8 0.32
13 14 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATAATAATTTA
Found at i:185577 original size:23 final size:24
Alignment explanation
Indices: 185538--185604 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 24
185528 AATATTTAAA
*
185538 ATAATT-AATA-AATTATTTATTT
1 ATAATTAAATATAATTATTAATTT
185560 ATAATTAAATATAA-TATTAATTT
1 ATAATTAAATATAATTATTAATTT
185583 ATAA--AAATATAAATTATGTAAT
1 ATAATTAAATAT-AATTAT-TAAT
185605 GAATTATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
21 6 0.15
22 8 0.21
23 19 0.49
24 6 0.15
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (24 bp):
ATAATTAAATATAATTATTAATTT
Found at i:185685 original size:27 final size:26
Alignment explanation
Indices: 185635--185697 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
185625 ATTGTATATT
* * *
185635 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
185662 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
185688 TATAATAATT
1 T-TAATAATT
185698 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:185693 original size:16 final size:15
Alignment explanation
Indices: 185672--185706 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
185662 TTAATAATTT
185672 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
185688 TATAATAATTAAATG
1 TATAATAATCAAATG
185703 TATA
1 TATA
185707 TGTGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:185784 original size:14 final size:15
Alignment explanation
Indices: 185761--185810 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 15
185751 AATTAAATAA
*
185761 TAAAAATTAAATATT
1 TAAAATTTAAATATT
*
185776 T-TAATTTAAATATT
1 TAAAATTTAAATATT
185790 TAAAATTTAAA-ATT
1 TAAAATTTAAATATT
185804 TAAAATT
1 TAAAATT
185811 ATTAACATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 22 0.71
15 9 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAAATTTAAATATT
Found at i:186055 original size:90 final size:88
Alignment explanation
Indices: 185912--186091 Score: 220
Period size: 90 Copynumber: 2.0 Consensus size: 88
185902 TATGACTATT
* *
185912 TAAACTTGTTTGGTAAACAAATTTATTTTTTAAATATCCAACTTTTAATTTTTAGAATATTAATA
1 TAAACTTGTTTGATAAACAAATTTATTTTTTAAATATCCAACTTTTAATTTTTAGAATATTAACA
185977 AATTAATA-AATTTTATTTAGAA
66 AATTAATATAATTTTATTTAGAA
* *** *
185999 TAAACTTGTTTGAATAAA-ATAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTAGAATTTT
1 TAAACTTGTTTG-ATAAACA-A-ATTTATTTTTTAAATATCCAACTT-TTAATTTTTAGAATATT
* * *
186063 AACAAATTAGTATTATTTTATTTTGAA
62 AACAAATTAATATAATTTTATTTAGAA
186090 TA
1 TA
186092 TGCTTTTATG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
87 13 0.17
88 5 0.06
89 20 0.26
90 26 0.33
91 14 0.18
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (88 bp):
TAAACTTGTTTGATAAACAAATTTATTTTTTAAATATCCAACTTTTAATTTTTAGAATATTAACA
AATTAATATAATTTTATTTAGAA
Found at i:186371 original size:18 final size:19
Alignment explanation
Indices: 186348--186394 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
186338 GAATATCTAA
186348 ATATATTATAAAATAAT-T
1 ATATATTATAAAATAATGT
* * *
186366 ATATATAATATATTAATGT
1 ATATATTATAAAATAATGT
186385 ATA-ATTATAA
1 ATATATTATAA
186395 TTTATATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATATATTATAAAATAATGT
Found at i:186409 original size:22 final size:21
Alignment explanation
Indices: 186360--186467 Score: 68
Period size: 22 Copynumber: 5.2 Consensus size: 21
186350 ATATTATAAA
*
186360 ATAATTAT-A-TATAATATAT
1 ATAATTATAATTATAATTTAT
186379 -TAATGTATAATTATAATTTAT
1 ATAAT-TATAATTATAATTTAT
** *
186400 ATAATTTATAAGAATAATTTGT
1 ATAA-TTATAATTATAATTTAT
*
186422 ATTAATTATTAA-AATAA-TTA-
1 A-TAATTA-TAATTATAATTTAT
186442 ACT-ATTATAATTATAATTTAAT
1 A-TAATTATAATTATAATTT-AT
186464 ATAA
1 ATAA
186468 ATAAAATTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 21
0.71 0.07 0.21
Matches are distributed among these distances:
18 7 0.10
19 11 0.16
20 5 0.07
21 13 0.19
22 27 0.39
23 7 0.10
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (21 bp):
ATAATTATAATTATAATTTAT
Found at i:186674 original size:14 final size:14
Alignment explanation
Indices: 186655--186682 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
186645 ATAAACTTAT
186655 TGATCAAATTATTG
1 TGATCAAATTATTG
186669 TGATCAAATTATTG
1 TGATCAAATTATTG
186683 CTAAATACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TGATCAAATTATTG
Found at i:186977 original size:16 final size:15
Alignment explanation
Indices: 186931--186977 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
186921 TGTATATTAA
*
186931 TATATAAATTATTAAT
1 TATATAAATTA-CAAT
186947 TATAT-AATT-CAAT
1 TATATAAATTACAAT
186960 TATATAAATTAACAAT
1 TATATAAATT-ACAAT
186976 TA
1 TA
186978 GAATATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 4 0.15
16 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATAAATTACAAT
Found at i:187323 original size:26 final size:25
Alignment explanation
Indices: 187268--187323 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
187258 CAAATAAATA
* *
187268 TTATTTTATTAACAATAATTATAGT
1 TTATATTATTAACAATAATTATAAT
*
187293 ATATATTATT-ACTAATGAATTATAAT
1 TTATATTATTAAC-AAT-AATTATAAT
187319 TTATA
1 TTATA
187324 AATTTGTGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 11 0.44
26 12 0.48
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (25 bp):
TTATATTATTAACAATAATTATAAT
Found at i:187628 original size:20 final size:21
Alignment explanation
Indices: 187597--187658 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 21
187587 TAATGAAATG
187597 TATATTAATAATTAATATTAAT
1 TATA-TAATAATTAATATTAAT
**
187619 TATA-AATAATT--TATTTTT
1 TATATAATAATTAATATTAAT
187637 TATATAA-AATTAATAATTAAT
1 TATATAATAATTAAT-ATTAAT
187658 T
1 T
187659 TATGAGTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
18 13 0.41
19 2 0.06
20 8 0.25
21 5 0.16
22 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATAATAATTAATATTAAT
Found at i:187727 original size:18 final size:19
Alignment explanation
Indices: 187704--187747 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
187694 GTTAAATTTA
*
187704 TATTAAATAATTATTA-AT
1 TATTAAATAATAATTATAT
187722 TATT-AATAATAATTATAT
1 TATTAAATAATAATTATAT
187740 TATTAAAT
1 TATTAAAT
187748 TTATATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 10 0.43
19 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTAAATAATAATTATAT
Found at i:187742 original size:25 final size:25
Alignment explanation
Indices: 187695--187773 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
187685 ATGCTTTTCG
*
187695 TTAAATTTATAT--TAAATA-ATTA
1 TTAAATTTATATAATAATTATATTA
*
187717 TTAATTATTA-ATAATAATTATATTA
1 TTAAAT-TTATATAATAATTATATTA
*
187742 TTAAATTTATATAATACTTAT-TTA
1 TTAAATTTATATAATAATTATATTA
187766 TTATAATT
1 TTA-AATT
187774 ATAACATTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
22 7 0.15
23 3 0.06
24 14 0.30
25 23 0.49
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (25 bp):
TTAAATTTATATAATAATTATATTA
Found at i:188201 original size:17 final size:17
Alignment explanation
Indices: 188137--188202 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 17
188127 TATTAATAAA
188137 ATTATAATACTATAATTA-T
1 ATTATAATA--AT-ATTATT
188156 ATTATAAGTAA-ACTTATAT
1 ATTATAA-TAATA-TTAT-T
188175 ATTAATAATAATATTATT
1 ATT-ATAATAATATTATT
188193 ATTATAATAA
1 ATTATAATAA
188203 ATTTATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
16 1 0.02
17 10 0.24
18 5 0.12
19 18 0.44
20 7 0.17
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTATAATAATATTATT
Found at i:188208 original size:17 final size:18
Alignment explanation
Indices: 188153--188214 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 18
188143 ATACTATAAT
*
188153 TATATTATAAGTAAACTTA
1 TATATTATAA-TAAATTTA
188172 TATATTAATAAT-AATATTA
1 TATATT-ATAATAAAT-TTA
188191 T-TATTATAATAAATTTA
1 TATATTATAATAAATTTA
188208 TAT-TTAT
1 TATATTAT
188215 TTATGATGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 13 0.34
18 10 0.26
19 11 0.29
20 4 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TATATTATAATAAATTTA
Found at i:188312 original size:27 final size:29
Alignment explanation
Indices: 188282--188342 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
188272 ATTTATTAGC
*
188282 ATTATATTTTATAA-AAAATTATTT-ATA
1 ATTATATATTATAATAAAATTATTTAATA
*
188309 ATTA-ATATTATAATATAATTATTTAATA
1 ATTATATATTATAATAAAATTATTTAATA
*
188337 AATATA
1 ATTATA
188343 ATAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 8 0.29
27 13 0.46
28 6 0.21
29 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTATATATTATAATAAAATTATTTAATA
Found at i:188978 original size:18 final size:18
Alignment explanation
Indices: 188957--189003 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
188947 ATCAATAATT
*
188957 TATATATTTTATTTTAAA
1 TATATATTTTATATTAAA
188975 TATA-ATTTATATATTAAA
1 TATATATTT-TATATTAAA
* *
188993 TTTATTTTTTA
1 TATATATTTTA
189004 GTAAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 4 0.17
18 17 0.71
19 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATTTTATATTAAA
Found at i:189823 original size:31 final size:30
Alignment explanation
Indices: 189787--189846 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
189777 ATAACTATTG
189787 TTATTT-AATTATTAT-TATAATTATTATAATA
1 TTATTTGAA-TATTATAT-TAATT-TTATAATA
189818 TTATTTGAATATTATATTAATTTTATAAT
1 TTATTTGAATATTATATTAATTTTATAAT
189847 TAAAAATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 7 0.26
31 17 0.63
32 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (30 bp):
TTATTTGAATATTATATTAATTTTATAATA
Found at i:189934 original size:27 final size:28
Alignment explanation
Indices: 189888--189953 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
189878 AATATAATAT
*
189888 AATT-TTATT-AATTATATTA-TACTTA
1 AATTATTATTAAATCATATTATTACTTA
*
189913 AATTATTATTAAATCATATTATTATTTA
1 AATTATTATTAAATCATATTATTACTTA
*
189941 AATTAAT-TTAAAT
1 AATTATTATTAAAT
189954 AAAGATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.11
26 5 0.14
27 15 0.43
28 11 0.31
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (28 bp):
AATTATTATTAAATCATATTATTACTTA
Found at i:190027 original size:12 final size:12
Alignment explanation
Indices: 190007--190046 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
189997 TTGTTACTCA
*
190007 TAAAATATTAAT
1 TAAACTATTAAT
190019 TAAACTATTTAAT
1 TAAACTA-TTAAT
*
190032 TAAACTACTAAT
1 TAAACTATTAAT
190044 TAA
1 TAA
190047 TAATAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAACTATTAAT
Found at i:190032 original size:13 final size:13
Alignment explanation
Indices: 190014--190038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190004 TCATAAAATA
190014 TTAATTAAACTAT
1 TTAATTAAACTAT
190027 TTAATTAAACTA
1 TTAATTAAACTA
190039 CTAATTAATA
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:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAATTAAACTAT
Found at i:190677 original size:13 final size:14
Alignment explanation
Indices: 190614--190679 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 14
190604 CTTTAACAAT
*
190614 ATATTAAATAAATTA
1 ATATT-AATTAATTA
* *
190629 TTATTAATTATTTA
1 ATATTAATTAATTA
*
190643 ATA-TAA-T-A-GA
1 ATATTAATTAATTA
190653 ATATTAATTAATTA
1 ATATTAATTAATTA
190667 ATATT-ATTAATTA
1 ATATTAATTAATTA
190680 TGTAAATATT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
10 4 0.10
11 3 0.08
12 2 0.05
13 12 0.30
14 15 0.38
15 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
ATATTAATTAATTA
Found at i:190789 original size:21 final size:19
Alignment explanation
Indices: 190751--190826 Score: 73
Period size: 19 Copynumber: 3.8 Consensus size: 19
190741 TTATTATATA
190751 ATTAAATTATATAATATTT
1 ATTAAATTATATAATATTT
*
190770 ATTATATTATAATAAATATTT
1 ATTAAATTAT-AT-AATATTT
* *
190791 AATTTAAA-TATTTAATATAT
1 -A-TTAAATTATATAATATTT
*
190811 AATAAATTATATAATA
1 ATTAAATTATATAATA
190827 AATAAATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 4 0.09
19 18 0.39
20 8 0.17
21 8 0.17
22 4 0.09
23 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTAAATTATATAATATTT
Found at i:190800 original size:13 final size:13
Alignment explanation
Indices: 190782--190806 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190772 TATATTATAA
190782 TAAATATTTAATT
1 TAAATATTTAATT
190795 TAAATATTTAAT
1 TAAATATTTAAT
190807 ATATAATAAA
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:0.00, T:0.52
Consensus pattern (13 bp):
TAAATATTTAATT
Found at i:190847 original size:16 final size:16
Alignment explanation
Indices: 190804--190847 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
190794 TTAAATATTT
190804 AATATATAATAAATTA
1 AATATATAATAAATTA
*
190820 TATA-ATAAATAAATTA
1 AATATAT-AATAAATTA
*
190836 AATATATTATAA
1 AATATATAATAA
190848 TGATAAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATATAATAAATTA
Found at i:191466 original size:30 final size:31
Alignment explanation
Indices: 191409--191481 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
191399 TATTAATAAT
* * *
191409 TATTTTTAATAAAATAATGTACTATTATCAA
1 TATTTTTATTAAAATAATATAATATTATCAA
*
191440 -ATTTTTATTAAAAT-ATATAATAATTATTAA
1 TATTTTTATTAAAATAATATAAT-ATTATCAA
*
191470 TATTTTAATTAA
1 TATTTTTATTAA
191482 TAAGTATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 5 0.14
30 20 0.57
31 10 0.29
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (31 bp):
TATTTTTATTAAAATAATATAATATTATCAA
Found at i:192057 original size:181 final size:181
Alignment explanation
Indices: 191626--192196 Score: 442
Period size: 181 Copynumber: 3.2 Consensus size: 181
191616 TTTAATAATA
* * * * * ** *
191626 TAATA-TTCTAAAAGTTAACAAGTAAGAGATTTAAAAAATAAAT-GTATTCGTTGAACCAATTCA
1 TAATATTTC-AAAAATTAAGAAGTAGGAGATTTAAAACATAAATCAT-TTTATTGAATCAATTCA
* * * * * *
191689 AATAGTTAAGACTA-TTATAATAATTTTCTATTTCAAATCATTCT-AACCTTTTG-TTTAGTCAT
64 AATAGTTATGACCATTTA-AACAATTATCTATTTAAAATCATTTTGAA-CTTTTGTTTTA-TCAT
* * * * * **
191751 AAAATAATTG---TTCAGTCCATACATGCTTATTTGAAATAAAATAATACTA-TTTAT
126 AAAACAATTGTTTTTCA-T-CATAAAAGCCTAATCAAAATAAAATAATACTACTTTAT
* * * * * ** * *
191805 TAACA-TTCAAAAAATTAATAAGCA--AGTAATTAAAAAATAAATC-TATTTA-CCAAACACGTT
1 TAATATTTC-AAAAATTAAGAAGTAGGAG-ATTTAAAACATAAATCAT-TTTATTGAATCA-ATT
* * *
191865 TAAATAGTTATGACTATTTAAACAATTATC-ATTTTAAAATC-TTTATGACCTTTTGTTTTATCA
62 CAAATAGTTATGACCATTTAAACAATTATCTA-TTTAAAATCATTT-TGAACTTTTGTTTTATCA
* * *
191928 TAAAACAATT-TTTTT-ATTTCGTAAAAG-CTTATCCAAAATAAAATAATATTACTTTAT
125 TAAAACAATTGTTTTTCA--TCATAAAAGCCTAAT-CAAAATAAAATAATACTACTTTAT
*
191985 TAATATTTCAAAAATTAAGAAGTTGGAGATTTAAAACATAAATCATTTTATTGAATCAATTCAAA
1 TAATATTTCAAAAATTAAGAAGTAGGAGATTTAAAACATAAATCATTTTATTGAATCAATTCAAA
* * * * *
192050 TAGTTATGGCCATTTGAACAATTATCTATTTCAAATCATTTTGAACTTTTGTTTTGTCATAAAAG
66 TAGTTATGACCATTTAAACAATTATCTATTTAAAATCATTTTGAACTTTTGTTTTATCATAAAAC
* * * *
192115 AATTGTTTTTCATCATACAAGCCTAATTATAATAAAATAATACTAGTTTAT
131 AATTGTTTTTCATCATAAAAGCCTAATCAAAATAAAATAATACTACTTTAT
*
192166 TAATATTTCAAAAATTAATAAGTAGGAGATT
1 TAATATTTCAAAAATTAAGAAGTAGGAGATT
192197 ATCTGTTTGT
Statistics
Matches: 311, Mismatches: 57, Indels: 46
0.75 0.14 0.11
Matches are distributed among these distances:
177 9 0.03
178 71 0.23
179 48 0.15
180 24 0.08
181 138 0.44
182 20 0.06
183 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (181 bp):
TAATATTTCAAAAATTAAGAAGTAGGAGATTTAAAACATAAATCATTTTATTGAATCAATTCAAA
TAGTTATGACCATTTAAACAATTATCTATTTAAAATCATTTTGAACTTTTGTTTTATCATAAAAC
AATTGTTTTTCATCATAAAAGCCTAATCAAAATAAAATAATACTACTTTAT
Found at i:192933 original size:14 final size:15
Alignment explanation
Indices: 192893--192934 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
192883 ATTTAATTAT
*
192893 AAAATTAGTAAT-TA
1 AAAATTACTAATATA
*
192907 AATATTACTAATATA
1 AAAATTACTAATATA
192922 AAAATTA-TAATAT
1 AAAATTACTAATAT
192935 TAACAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
AAAATTACTAATATA
Found at i:193631 original size:19 final size:18
Alignment explanation
Indices: 193607--193659 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
193597 TTAAGACTAT
*
193607 TATAATAATTATATATTTC
1 TATAATAATTACA-ATTTC
* *
193626 TATAATTATTACAATTTG
1 TATAATAATTACAATTTC
193644 TAATAATAATTA-AATT
1 T-ATAATAATTACAATT
193660 ATTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TATAATAATTACAATTTC
Found at i:193673 original size:21 final size:21
Alignment explanation
Indices: 193647--193687 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
193637 CAATTTGTAA
193647 TAATAATTAAATTATTAAATT
1 TAATAATTAAATTATTAAATT
* *
193668 TAATAATTTATTTATTAAAT
1 TAATAATTAAATTATTAAAT
193688 AAATAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATAATTAAATTATTAAATT
Found at i:193789 original size:14 final size:15
Alignment explanation
Indices: 193770--193859 Score: 75
Period size: 14 Copynumber: 6.3 Consensus size: 15
193760 TTTAATTTGA
193770 AATTATAA-ATAAAT
1 AATTATAATATAAAT
*
193784 AATTATAATAT-ATT
1 AATTATAATATAAAT
*
193798 AATTATAATATATAT
1 AATTATAATATAAAT
* * *
193813 CTATTATAAGATATAT
1 -AATTATAATATAAAT
*
193829 -ATTATAATATTAAT
1 AATTATAATATAAAT
193843 AATT-T-AT-TAAAT
1 AATTATAATATAAAT
193855 AATTA
1 AATTA
193860 GAAGTATCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
12 8 0.13
13 2 0.03
14 33 0.53
15 6 0.10
16 13 0.21
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (15 bp):
AATTATAATATAAAT
Found at i:194850 original size:10 final size:9
Alignment explanation
Indices: 194821--194869 Score: 52
Period size: 8 Copynumber: 5.8 Consensus size: 9
194811 AATTTAATAC
194821 TTATAATTA
1 TTATAATTA
*
194830 ATATTAATTA
1 TTA-TAATTA
194840 TTATAA--A
1 TTATAATTA
194847 TTATAA-TA
1 TTATAATTA
194855 TTAT-ATTA
1 TTATAATTA
194863 TTATAAT
1 TTATAAT
194870 GTTAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
7 8 0.24
8 11 0.32
9 7 0.21
10 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTATAATTA
Found at i:194859 original size:34 final size:34
Alignment explanation
Indices: 194805--194914 Score: 86
Period size: 34 Copynumber: 3.2 Consensus size: 34
194795 TGAGAATGCC
*
194805 ATTAAAAATT-TAATACTTATAATTAATATTAATT
1 ATTATAAATTATAATA-TTATAATTAATATTAATT
*
194839 ATTATAAATTATAATATTAT-ATTATTA-TAATGTT
1 ATTATAAATTATAATATTATAATTAATATTAA--TT
* * *
194873 AATT-TAAATAATAATATAAAAATTAATAATTAA-T
1 -ATTATAAATTATAATATTATAATTAAT-ATTAATT
194907 ATTTATAA
1 A-TTATAA
194915 TTTAAATGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
32 3 0.05
33 7 0.11
34 31 0.51
35 16 0.26
36 1 0.02
37 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (34 bp):
ATTATAAATTATAATATTATAATTAATATTAATT
Found at i:195001 original size:15 final size:15
Alignment explanation
Indices: 194972--195009 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
194962 AATATTAATA
* *
194972 ATTATATTTTTAATT
1 ATTATATTATAAATT
194987 ATTATATTATAAATT
1 ATTATATTATAAATT
195002 ATT-TATTA
1 ATTATATTA
195010 CCAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATATTATAAATT
Found at i:195338 original size:8 final size:8
Alignment explanation
Indices: 195289--195347 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
195279 TTATATTCAT
195289 TAATTATA
1 TAATTATA
195297 TATATTA-A
1 TA-ATTATA
195305 TAATTAT-
1 TAATTATA
*
195312 TAA-GATTA
1 TAATTA-TA
195320 TAATATATA
1 TAAT-TATA
195329 TAATTATA
1 TAATTATA
*
195337 TAATAATA
1 TAATTATA
195345 TAA
1 TAA
195348 GATTATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
6 1 0.02
7 8 0.19
8 22 0.52
9 10 0.24
10 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (8 bp):
TAATTATA
Found at i:195352 original size:18 final size:17
Alignment explanation
Indices: 195318--195368 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
195308 TTATTAAGAT
195318 TATAAT-ATATATAATTA
1 TATAATAATATA-AATTA
195335 TATAATAATATAAGATTA
1 TATAATAATATAA-ATTA
195353 T-TAA-AATATAAATTA
1 TATAATAATATAAATTA
195368 T
1 T
195369 GATTATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 10 0.31
18 10 0.31
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TATAATAATATAAATTA
Found at i:195449 original size:13 final size:14
Alignment explanation
Indices: 195422--195450 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
195412 TATTAAATAT
195422 TTTAATAATATTAA
1 TTTAATAATATTAA
195436 TTTAATAA-ATTAA
1 TTTAATAATATTAA
195449 TT
1 TT
195451 ATATTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATAATATTAA
Found at i:195823 original size:33 final size:31
Alignment explanation
Indices: 195747--195849 Score: 81
Period size: 28 Copynumber: 3.3 Consensus size: 31
195737 ATCAACCAAA
*
195747 TTATATTAATATATT-T--AATATTTAATAT
1 TTATATTAATAAATTATAAAATATTTAATAT
195775 TTATATTAATAAATTATAAAATATTTACA-AT
1 TTATATTAATAAATTATAAAATATTTA-ATAT
* * *
195806 TGTATAATTTATAAATTAATCAATATAGTTAAT-T
1 T-TAT-ATTAATAAATT-AT-AAAATATTTAATAT
195840 ATTATATTAA
1 -TTATATTAA
195850 CTATTTGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
28 14 0.23
29 1 0.02
31 11 0.18
32 4 0.07
33 14 0.23
34 7 0.12
35 9 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (31 bp):
TTATATTAATAAATTATAAAATATTTAATAT
Found at i:196400 original size:19 final size:20
Alignment explanation
Indices: 196359--196397 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
196349 AAACACATTT
*
196359 ATTTTTTAAATCACTTATTA
1 ATTTTTGAAATCACTTATTA
196379 ATTTTTGAAAT-AC-TATTA
1 ATTTTTGAAATCACTTATTA
196397 A
1 A
196398 ATTAGTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTTTTGAAATCACTTATTA
Found at i:197991 original size:21 final size:21
Alignment explanation
Indices: 197967--198022 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 21
197957 ATTATTATTT
*
197967 AATTTATTAATTTAAATTTTA
1 AATTTATTAATTTAAATTATA
*
197988 AA-TT-TTAATTT-AATTATC
1 AATTTATTAATTTAAATTATA
198006 AATTTATTTAA-TTAAAT
1 AATTTA-TTAATTTAAAT
198023 AGAAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 7 0.24
19 9 0.31
20 4 0.14
21 9 0.31
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTATTAATTTAAATTATA
Found at i:198499 original size:35 final size:34
Alignment explanation
Indices: 198451--198518 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
198441 TGTTTAATTT
*
198451 AAATTTAAATTAATTCA-TAAATATAATAAATATTC
1 AAATTTAAATTAATTAATTAAA-AT-ATAAATATTC
* *
198486 AAATTTTATTTAATTAATTAAAATATAAATATT
1 AAATTTAAATTAATTAATTAAAATATAAATATT
198519 TAATTAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 9 0.31
35 16 0.55
36 4 0.14
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (34 bp):
AAATTTAAATTAATTAATTAAAATATAAATATTC
Found at i:198741 original size:13 final size:14
Alignment explanation
Indices: 198712--198743 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
198702 AATAATTTAA
198712 TAAATTATATAATT
1 TAAATTATATAATT
198726 TAAATTATAT-ATT
1 TAAATTATATAATT
198739 TAAAT
1 TAAAT
198744 CATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTATATAATT
Found at i:199317 original size:17 final size:18
Alignment explanation
Indices: 199295--199335 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
199285 TAATAAATTG
199295 ATAATTAAATATT-AATA
1 ATAATTAAATATTAAATA
*
199312 ATAATT-CATATTAAATA
1 ATAATTAAATATTAAATA
*
199329 ATTATTA
1 ATAATTA
199336 TAAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATTAAATATTAAATA
Found at i:199588 original size:29 final size:30
Alignment explanation
Indices: 199534--199593 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
199524 AAATAAATAA
* *
199534 ATTAATATAAACTAGTAATAATTAT-ATTT
1 ATTAATATAAAATAGTAATAAATATAATTT
*
199563 ATTAATTATAAAATAG-ATTAAATATAATTT
1 ATTAA-TATAAAATAGTAATAAATATAATTT
199593 A
1 A
199594 ATTTGATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (30 bp):
ATTAATATAAAATAGTAATAAATATAATTT
Found at i:199952 original size:24 final size:21
Alignment explanation
Indices: 199925--199970 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 21
199915 TTATAATTAC
199925 TATAAATAAATTAATAATTATATT
1 TATAAAT-AATT-A-AATTATATT
199949 TATAAATAATTAAATTATATT
1 TATAAATAATTAAATTATATT
199970 T
1 T
199971 TATTCATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 1 0.05
23 4 0.18
24 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAAATAATTAAATTATATT
Found at i:200055 original size:15 final size:15
Alignment explanation
Indices: 200037--200072 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
200027 ATAATATATT
200037 ATTATATTATTATAA
1 ATTATATTATTATAA
* *
200052 ATTAGATTATTATTA
1 ATTATATTATTATAA
200067 ATTATA
1 ATTATA
200073 ACAATTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTATATTATTATAA
Found at i:200126 original size:19 final size:20
Alignment explanation
Indices: 200084--200124 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
200074 CAATTATTTT
*
200084 AATTTTAAATTAATAAGTAA
1 AATTTTAAATTAATAAATAA
200104 AATTTT-AATTATATAAATAA
1 AATTTTAAATTA-ATAAATAA
200124 A
1 A
200125 TTAGATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AATTTTAAATTAATAAATAA
Found at i:200144 original size:23 final size:24
Alignment explanation
Indices: 200118--200171 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
200108 TTAATTATAT
200118 AAATAAAT-TAGATT-TAATATTTA
1 AAATAAATATAGATTATAATA-TTA
* *
200141 AAATTAATATATATTATAATATTA
1 AAATAAATATAGATTATAATATTA
200165 AATATAA
1 AA-ATAA
200172 CTAGTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 7 0.28
24 10 0.40
25 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATAAATATAGATTATAATATTA
Found at i:200189 original size:24 final size:25
Alignment explanation
Indices: 200162--200218 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
200152 TATTATAATA
200162 TTAAATATAACTAGTAAAATATAT-
1 TTAAATATAACTAGTAAAATATATG
* * *
200186 TT-AATAATAATTATTAAAATATTTG
1 TTAAAT-ATAACTAGTAAAATATATG
200211 TTAAATAT
1 TTAAATAT
200219 TTTGAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 3 0.11
24 17 0.63
25 4 0.15
26 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
TTAAATATAACTAGTAAAATATATG
Found at i:200864 original size:92 final size:92
Alignment explanation
Indices: 200697--200871 Score: 224
Period size: 92 Copynumber: 1.9 Consensus size: 92
200687 TTGCATGAAC
* * ** * * * * *
200697 AGAACCAATTTTTTTATGACAAAACAAAATGTCATAATATTTTGAAATAGATAATTGTTTAGATA
1 AGAAACAATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATA
*
200762 GTCATAACTATTTCAACTTGATCGATA
66 GACATAACTATTTCAACTTGATCGATA
* *
200789 AGAAACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATG
1 AGAAACAATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATA
* *
200854 GACATGACTATTTGAACT
66 GACATAACTATTTCAACT
200872 GGTTCAGCAA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
92 69 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (92 bp):
AGAAACAATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATA
GACATAACTATTTCAACTTGATCGATA
Found at i:201438 original size:16 final size:16
Alignment explanation
Indices: 201404--201438 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
201394 TATTTAATTA
**
201404 TATAATTTAATATTGC
1 TATAATTTAATATAAC
201420 TATAATTTAATATAAC
1 TATAATTTAATATAAC
201436 TAT
1 TAT
201439 TATATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (16 bp):
TATAATTTAATATAAC
Found at i:201523 original size:4 final size:4
Alignment explanation
Indices: 201506--201588 Score: 50
Period size: 4 Copynumber: 21.2 Consensus size: 4
201496 TTATGTATTA
* * *
201506 TAAT TAA- TAGAT TAAT TAAT TAAT TAA- AAAT TAA- GAAT T-AT TATAA
1 TAAT TAAT TA-AT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA-AT
* * *
201552 TAAT TTAT TAAT TAAT AAATT TAAA T-AT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAA-T TAAT TAAT TAAT TAAT T
201589 GAATATTATT
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
3 11 0.19
4 40 0.68
5 8 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (4 bp):
TAAT
Found at i:201531 original size:20 final size:20
Alignment explanation
Indices: 201506--201587 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 20
201496 TTATGTATTA
*
201506 TAATTAATAGATTAATTAAT
1 TAATTAATAAATTAATTAAT
*
201526 TAATTAA-AAATTAA-GAAT
1 TAATTAATAAATTAATTAAT
*
201544 T-ATT-AT-AA-TAATTTAT
1 TAATTAATAAATTAATTAAT
*
201560 TAATTAATAAATTTAAAT-AT
1 TAATTAATAAA-TTAATTAAT
201580 TAATTAAT
1 TAATTAAT
201588 TGAATATTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
15 3 0.06
16 6 0.12
17 6 0.12
18 6 0.12
19 8 0.16
20 17 0.34
21 4 0.08
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TAATTAATAAATTAATTAAT
Found at i:201545 original size:34 final size:35
Alignment explanation
Indices: 201507--201572 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
201497 TATGTATTAT
*
201507 AATTAATAGATTAATTAATTAATTAA-AAATTAAG
1 AATTAATAGAATAATTAATTAATTAATAAATTAAG
* * *
201541 AATTATTATAATAATTTATTAATTAATAAATT
1 AATTAATAGAATAATTAATTAATTAATAAATT
201573 TAAATATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 22 0.81
35 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (35 bp):
AATTAATAGAATAATTAATTAATTAATAAATTAAG
Found at i:201809 original size:22 final size:25
Alignment explanation
Indices: 201774--201830 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
201764 TTATTAAAAC
* *
201774 TAATAAATATTTAAATAT-TT-T-A
1 TAATATATAATTAAATATATTGTAA
201796 TAATATATAATTAAATATATTGTAA
1 TAATATATAATTAAATATATTGTAA
201821 TAAT-TATAAT
1 TAATATATAAT
201831 ATAATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 16 0.53
23 2 0.07
24 7 0.23
25 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TAATATATAATTAAATATATTGTAA
Found at i:201922 original size:26 final size:27
Alignment explanation
Indices: 201871--201938 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
201861 TGTATCAAGT
*
201871 TATTAATATAATTTATATTTATTTTAA
1 TATTAATATAATTTATATTTAGTTTAA
*
201898 TATTAA-ATAGTTTATTATTT-GTTTAA
1 TATTAATATAATTTA-TATTTAGTTTAA
*
201924 -AATAATATATATTTA
1 TATTAATATA-ATTTA
201939 AAATAATAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 4 0.12
26 15 0.44
27 15 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (27 bp):
TATTAATATAATTTATATTTAGTTTAA
Found at i:201984 original size:21 final size:20
Alignment explanation
Indices: 201940--201986 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
201930 ATATATTTAA
*
201940 AATAATAAGTATTATTATGT
1 AATAATAAGCATTATTATGT
*
201960 --TAATTAGCATTATTAATGT
1 AATAATAAGCATTATT-ATGT
201979 AATAATAA
1 AATAATAA
201987 ATTTATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 5
0.72 0.10 0.17
Matches are distributed among these distances:
18 12 0.57
19 4 0.19
21 5 0.24
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.43
Consensus pattern (20 bp):
AATAATAAGCATTATTATGT
Found at i:202203 original size:21 final size:21
Alignment explanation
Indices: 202177--202216 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
202167 TTTATATTAG
* *
202177 ATTAAATTTATTTAATTATCT
1 ATTAAATTCAGTTAATTATCT
202198 ATTAAATTCAGTTAATTAT
1 ATTAAATTCAGTTAATTAT
202217 ATAATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTAAATTCAGTTAATTATCT
Found at i:202366 original size:17 final size:17
Alignment explanation
Indices: 202346--202383 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
202336 TATGAATCAT
202346 AATAATT-ATTTATTTTA
1 AATAATTAATTTA-TTTA
202363 AAT-ATTAATTTATTTA
1 AATAATTAATTTATTTA
202379 AATAA
1 AATAA
202384 ATAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAATTAATTTATTTA
Found at i:202462 original size:13 final size:14
Alignment explanation
Indices: 202437--202484 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
202427 TAATTATATG
202437 AAATTATAATAATT
1 AAATTATAATAATT
202451 AAATTA-AATAATTT
1 AAATTATAATAA-TT
* *
202465 TAATTTTAAT-ATT
1 AAATTATAATAATT
202478 AAATTAT
1 AAATTAT
202485 TAAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 12 0.43
14 13 0.46
15 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTATAATAATT
Found at i:202468 original size:22 final size:22
Alignment explanation
Indices: 202438--202486 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
202428 AATTATATGA
202438 AATTATAATAATTAA-ATTAAAT
1 AATTATAAT-ATTAATATTAAAT
* *
202460 AATTTTAATTTTAATATTAAAT
1 AATTATAATATTAATATTAAAT
*
202482 TATTA
1 AATTA
202487 AAATGATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTATAATATTAATATTAAAT
Found at i:203041 original size:19 final size:19
Alignment explanation
Indices: 203019--203136 Score: 72
Period size: 19 Copynumber: 6.3 Consensus size: 19
203009 ATAATTTCGC
203019 AATTATAATTAATTATAAT
1 AATTATAATTAATTATAAT
* *
203038 AATTATTA-TAATGATTAAT
1 AATTATAATTAATTA-TAAT
203057 -ATATATAATTAGATTAT-AT
1 AAT-TATAATTA-ATTATAAT
203076 ATATTA-AATT-ATTAATAAT
1 A-ATTATAATTAATT-ATAAT
* * *
203095 AATTTTTATTATTTAT-AT
1 AATTATAATTAATTATAAT
203113 AATT-TAAATTAA-TATTAAT
1 AATTAT-AATTAATTA-TAAT
203132 AATTA
1 AATTA
203137 AATCCTAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 27
0.68 0.08 0.24
Matches are distributed among these distances:
17 6 0.08
18 23 0.30
19 35 0.46
20 7 0.09
21 5 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AATTATAATTAATTATAAT
Found at i:203047 original size:12 final size:12
Alignment explanation
Indices: 203023--203067 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
203013 TTTCGCAATT
203023 ATAATTAATTATA
1 ATAATT-ATTATA
203036 ATAATTATTATA
1 ATAATTATTATA
* *
203048 ATGATTAATATA
1 ATAATTATTATA
203060 TATAATTA
1 -ATAATTA
203068 GATTATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
ATAATTATTATA
Found at i:203123 original size:18 final size:18
Alignment explanation
Indices: 203070--203123 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
203060 TATAATTAGA
203070 TTATAT-ATATTAAATTAT
1 TTATATAAT-TTAAATTAT
* **
203088 TAATAATAATTTTTATTAT
1 TTAT-ATAATTTAAATTAT
203107 TTATATAATTTAAATTA
1 TTATATAATTTAAATTA
203124 ATATTAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
18 14 0.50
19 12 0.43
20 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATAATTTAAATTAT
Found at i:203381 original size:14 final size:14
Alignment explanation
Indices: 203354--203387 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
203344 AAATATTATA
*
203354 TAATATAAATATAAT
1 TAAT-TAAAAATAAT
203369 TAATTAAAAATAAT
1 TAATTAAAAATAAT
203383 TAATT
1 TAATT
203388 TATTTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATTAAAAATAAT
Found at i:203600 original size:22 final size:21
Alignment explanation
Indices: 203575--203638 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
203565 ATTATATACT
203575 ATTTAATTATTTATATAAATTA
1 ATTTAATTA-TTATATAAATTA
* *
203597 ATTTTAAATAATATATAAATT-
1 A-TTTAATTATTATATAAATTA
203618 A-TTAATTATTATTATAAATTA
1 ATTTAATTATTA-TATAAATTA
203639 TAGTTATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 8 0.23
20 8 0.23
21 1 0.03
22 11 0.31
23 7 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTAATTATTATATAAATTA
Found at i:203989 original size:28 final size:30
Alignment explanation
Indices: 203921--203988 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 30
203911 ATAATCATAT
*
203921 TTAATTAATTATAACTTAATTATAAAATAGA
1 TTAATTAATAATAACTTAATTAT-AAATAGA
*
203952 TTAAATAATAATATACTTAATTATTATAATA-A
1 TTAATTAATAATA-ACTTAATTA-TA-AATAGA
203984 TTAAT
1 TTAAT
203989 AAACACTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
31 11 0.35
32 15 0.48
33 5 0.16
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (30 bp):
TTAATTAATAATAACTTAATTATAAATAGA
Found at i:204225 original size:21 final size:21
Alignment explanation
Indices: 204199--204245 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
204189 GTATTAAAAT
*
204199 AATTAAATCAA-TTAAAGTTTA
1 AATTAAATCAATTTAAA-CTTA
*
204220 AATTAAATTAATTTAAACTTA
1 AATTAAATCAATTTAAACTTA
204241 AATTA
1 AATTA
204246 GAATGATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTAAATCAATTTAAACTTA
Found at i:204241 original size:16 final size:15
Alignment explanation
Indices: 204216--204245 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
204206 TCAATTAAAG
204216 TTTAAATTAAATTAA
1 TTTAAATTAAATTAA
204231 TTTAAACTTAAATTA
1 TTTAAA-TTAAATTA
204246 GAATGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAATTAAATTAA
Found at i:204496 original size:26 final size:26
Alignment explanation
Indices: 204483--204538 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
204473 AATTATTAAT
204483 ATTATAATAAATATAATTATAATATA
1 ATTATAATAAATATAATTATAATATA
* *
204509 ATTATAATATATTTAA-TATAAATATA
1 ATTATAATAAATATAATTAT-AATATA
204535 ATTA
1 ATTA
204539 ATTTAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTATAATAAATATAATTATAATATA
Found at i:204508 original size:11 final size:11
Alignment explanation
Indices: 204473--204585 Score: 76
Period size: 11 Copynumber: 10.2 Consensus size: 11
204463 TTATATATCA
204473 AATTATTAATAT
1 AATTA-TAATAT
* *
204485 TATAATAAATAT
1 AATTAT-AATAT
204497 AATTATAATAT
1 AATTATAATAT
204508 AATTATAATAT
1 AATTATAATAT
204519 -ATT-TAATAT
1 AATTATAATAT
*
204528 AAATATAAT-T
1 AATTATAATAT
204538 AATT-TAATACTT
1 AATTATAATA--T
*
204550 AATTAT-TTATT
1 AATTATAATA-T
204561 AATTAAATAATAT
1 AATT--ATAATAT
*
204574 AA-TATTATAT
1 AATTATAATAT
204584 AA
1 AA
204586 ATATTATTAG
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
9 10 0.12
10 17 0.21
11 27 0.33
12 20 0.24
13 6 0.07
14 2 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (11 bp):
AATTATAATAT
Found at i:204510 original size:20 final size:20
Alignment explanation
Indices: 204485--204546 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
204475 TTATTAATAT
204485 TATAATA-AATATAATTATAA
1 TATAATATAATATAATT-TAA
204505 TATAATTATAATAT-ATTTAA
1 TATAA-TATAATATAATTTAA
204525 TATAAATATAAT-TAATTTAA
1 TAT-AATATAATATAATTTAA
204545 TA
1 TA
204547 CTTAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.03
20 25 0.66
21 7 0.18
22 5 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAATATAATATAATTTAA
Found at i:204579 original size:23 final size:23
Alignment explanation
Indices: 204522--204580 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
204512 ATAATATATT
*
204522 TAATATAA-ATATAATTAATTTAA
1 TAATATAATAT-TAATTAATTAAA
* *
204545 TACT-TAATTATTTATTAATTAAA
1 TAATATAA-TATTAATTAATTAAA
204568 TAATATAATATTA
1 TAATATAATATTA
204581 TATAAATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
22 3 0.11
23 20 0.71
24 5 0.18
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATATAATATTAATTAATTAAA
Found at i:204580 original size:15 final size:15
Alignment explanation
Indices: 204479--204603 Score: 53
Period size: 15 Copynumber: 8.1 Consensus size: 15
204469 ATCAAATTAT
204479 TAATATTATAATAAATA
1 TAATATTA-AAT-AATA
204496 TAAT-TATAATATAATTA
1 TAATAT-TAA-ATAA-TA
**
204513 TAATA-TATTTAATA
1 TAATATTAAATAATA
* *
204527 TAA-ATATAATTAATT
1 TAATAT-TAAATAATA
* *
204542 TAATACTT-AATTATT
1 TAATA-TTAAATAATA
*
204557 TATTAATTAAATAATA
1 TAAT-ATTAAATAATA
*
204573 TAATATTATATAA-A
1 TAATATTAAATAATA
* *
204587 TATTATTAGATAATA
1 TAATATTAAATAATA
204602 TA
1 TA
204604 TTTTAATATT
Statistics
Matches: 84, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
13 1 0.01
14 17 0.20
15 34 0.40
16 17 0.20
17 15 0.18
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (15 bp):
TAATATTAAATAATA
Found at i:204668 original size:84 final size:84
Alignment explanation
Indices: 204512--204666 Score: 187
Period size: 84 Copynumber: 1.9 Consensus size: 84
204502 TAATATAATT
* *
204512 ATAATATATTTAATATAAATATAATTAATTTAATACTTAATTATTTATTAATTAAATAATATAAT
1 ATAATATATTTAATATAAATATAATTAATATAATACTAAATTATTTATTAATTAAATAATATAAT
204577 ATTATATAAATATTATTAG
66 ATTATATAAATATTATTAG
* * *
204596 ATAATATATTTTAATATTACT-TAATTATATATAAT-CTAAATTAGATTTA-TAA-TATATAATA
1 ATAATATA-TTTAATATAAATATAATTA-ATATAATACTAAATT--ATTTATTAATTAAATAATA
204657 T-AT-TTATATA
62 TAATATTATATA
204667 TATTATAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
82 7 0.11
83 2 0.03
84 29 0.47
85 19 0.31
86 5 0.08
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (84 bp):
ATAATATATTTAATATAAATATAATTAATATAATACTAAATTATTTATTAATTAAATAATATAAT
ATTATATAAATATTATTAG
Found at i:204673 original size:20 final size:20
Alignment explanation
Indices: 204407--204679 Score: 73
Period size: 20 Copynumber: 13.6 Consensus size: 20
204397 TTAATTTAAT
*
204407 TTATAATATATTATAAATTAATA
1 TTATAATATATT-TATA-T-ATA
*
204430 TT-TAATATATTTTTATATA
1 TTATAATATATTTATATATA
204449 TTA-AA-ATAGTTTAGTTATATA
1 TTATAATATA-TTTA--TATATA
* *
204470 TCA-AAT-TATTAATAT-TA
1 TTATAATATATTTATATATA
* *
204487 TAATAAATATAATTATAATATAA
1 TTAT-AATATATTTAT-ATAT-A
204510 TTATAATATATTTA-ATATAA
1 TTATAATATATTTATATAT-A
*
204530 ATATAAT-TAATTTA-ATACT-
1 TTATAATAT-ATTTATATA-TA
* * * * *
204549 TAATTATTTATTAATTAAATA
1 TTATAATATATTTA-TATATA
* * *
204570 ATATAATATTATATAAATATTA
1 TTATAATA-TATTTATATA-TA
204592 TTAGATAATATATTT-TA-ATA
1 TT--ATAATATATTTATATATA
204612 TTACT--TA-A-TTATATATAA
1 TTA-TAATATATTTATATAT-A
*
204630 TCTA-AATTAGATTTATA-ATA
1 T-TATAA-TATATTTATATATA
204650 -TATAATATATTTATATATA
1 TTATAATATATTTATATATA
204669 TTATAAT-TATT
1 TTATAATATATT
204680 ATTTAAACTA
Statistics
Matches: 188, Mismatches: 28, Indels: 72
0.65 0.10 0.25
Matches are distributed among these distances:
15 2 0.01
16 3 0.02
17 8 0.04
18 20 0.11
19 34 0.18
20 44 0.23
21 29 0.15
22 32 0.17
23 10 0.05
24 6 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (20 bp):
TTATAATATATTTATATATA
Found at i:204684 original size:22 final size:18
Alignment explanation
Indices: 204505--204679 Score: 67
Period size: 18 Copynumber: 10.0 Consensus size: 18
204495 ATAATTATAA
204505 TATAAT-TATAATATATT
1 TATAATATATAATATATT
* *
204522 TAATATAAATATAAT-TAAT
1 T-ATA-ATATATAATATATT
204541 T-TAATACT-TAAT-TATT
1 TATAATA-TATAATATATT
204557 TATTAAT-TA-AATA-ATAT
1 TA-TAATATATAATATAT-T
* *
204574 AATATTATATAA-ATA-T
1 TATAATATATAATATATT
*
204590 TAT--TAGATAATATATT
1 TATAATATATAATATATT
*
204606 T-TAATATTACTTAAT-TATA
1 TATAATA-TA--TAATATATT
* *
204625 TATAATCTA-AATTAGATT
1 TATAATATATAA-TATATT
204643 TATAATATATAATATATT
1 TATAATATATAATATATT
204661 TATATATATTATAAT-TATT
1 TATA-ATA-TATAATATATT
204680 ATTTAAACTA
Statistics
Matches: 118, Mismatches: 15, Indels: 48
0.65 0.08 0.27
Matches are distributed among these distances:
14 6 0.05
15 4 0.03
16 26 0.22
17 12 0.10
18 30 0.25
19 20 0.17
20 20 0.17
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (18 bp):
TATAATATATAATATATT
Found at i:205138 original size:33 final size:34
Alignment explanation
Indices: 205067--205149 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 34
205057 ACATCACATT
*
205067 ATTATTAA-TATATTATAATTATAAGATTACAAA
1 ATTAATAATTATATTATAATTATAAGATTACAAA
*
205100 TTTAATAATTATA-TATAATTATAA-ATATA-ATAA
1 ATTAATAATTATATTATAATTATAAGAT-TACA-AA
*
205133 ATTAAT-ATTATTTTATA
1 ATTAATAATTATATTATA
205150 TTAAATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
32 8 0.19
33 30 0.71
34 4 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (34 bp):
ATTAATAATTATATTATAATTATAAGATTACAAA
Found at i:205140 original size:25 final size:26
Alignment explanation
Indices: 205067--205140 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 26
205057 ACATCACATT
* *
205067 ATTATTAATATATTATAATT-ATA-AG
1 ATTATAAATATAATA-AATTAATATAG
* *
205092 ATTACAAATTTAAT-AATTATATATA-
1 ATTATAAATATAATAAATTA-ATATAG
205117 ATTATAAATATAATAAATTAATAT
1 ATTATAAATATAATAAATTAATAT
205141 TATTTTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
23 4 0.10
25 29 0.74
26 6 0.15
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (26 bp):
ATTATAAATATAATAAATTAATATAG
Found at i:205171 original size:21 final size:21
Alignment explanation
Indices: 205113--205186 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
205103 AATAATTATA
*
205113 TATAATTATAAATATAATAAAT
1 TATAATTATAAA-ATATTAAAT
***
205135 TA-ATATTATTTTATATTAAAT
1 TATA-ATTATAAAATATTAAAT
*
205156 TATAATTATAAAATATAAAAT
1 TATAATTATAAAATATTAAAT
*
205177 AATAAATTAT
1 TAT-AATTAT
205187 TTATTCTAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
21 26 0.65
22 14 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATAATTATAAAATATTAAAT
Found at i:205883 original size:12 final size:12
Alignment explanation
Indices: 205866--205895 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
205856 TAAAATAGTA
205866 ATAATATATATT
1 ATAATATATATT
205878 ATAATATATATT
1 ATAATATATATT
205890 A-AATAT
1 ATAATAT
205896 TGTTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATATATATT
Found at i:205966 original size:10 final size:10
Alignment explanation
Indices: 205951--205976 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
205941 TAGAAAAATT
205951 ATTTATTTCA
1 ATTTATTTCA
205961 ATTTATTTCA
1 ATTTATTTCA
205971 ATTTAT
1 ATTTAT
205977 AAATATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTATTTCA
Found at i:206117 original size:16 final size:15
Alignment explanation
Indices: 206096--206128 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
206086 AATAATTTTG
206096 TAATAATAAAATAGTA
1 TAATAATAAAAT-GTA
206112 TAATAATAAAATGTA
1 TAATAATAAAATGTA
206127 TA
1 TA
206129 TGTGAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (15 bp):
TAATAATAAAATGTA
Found at i:206178 original size:24 final size:24
Alignment explanation
Indices: 206151--206196 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
206141 ATTGAATCAA
206151 TAATT-AAAATATTTATGATTATTT
1 TAATTCAAAATATTTAT-ATTATTT
* *
206175 TAATTCAATATCTTTATATTAT
1 TAATTCAAAATATTTATATTAT
206197 AATTAAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (24 bp):
TAATTCAAAATATTTATATTATTT
Found at i:206565 original size:90 final size:91
Alignment explanation
Indices: 206465--206631 Score: 246
Period size: 91 Copynumber: 1.8 Consensus size: 91
206455 CTTGTTTGGT
*
206465 AAATAGATTTATTTTTTAAATATCCAACTT-TTAATTTTTAGAATGTTAATAAATTAATATAATT
1 AAATAGATTTATTTTTTAAATATCCAACTTATTAATTTTTAGAATGTTAACAAATTAATATAATT
206529 TTATTTAGAATAAACTTGTTTAAATA
66 TTATTTAGAATAAACTTGTTTAAATA
* *** * * *
206555 AAATAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTAGAATTTTAACAAATTATTATTATT
1 AAATAGATTTATTTTTTAAATATCCAACTTATTAATTTTTAGAATGTTAACAAATTAATATAATT
*
206620 TTATTTTGAATA
66 TTATTTAGAATA
206632 TGCTTTTATG
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
90 26 0.39
91 41 0.61
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (91 bp):
AAATAGATTTATTTTTTAAATATCCAACTTATTAATTTTTAGAATGTTAACAAATTAATATAATT
TTATTTAGAATAAACTTGTTTAAATA
Found at i:207359 original size:17 final size:18
Alignment explanation
Indices: 207309--207369 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 18
207299 GTATGGGAAT
*
207309 ATTATTATTTTATTAA-A
1 ATTATTAATTTATTAATA
207326 ATATAGTT-ATTTATTAATA
1 AT-TA-TTAATTTATTAATA
*
207345 ATT-TTAATTTCTTAATA
1 ATTATTAATTTATTAATA
207362 ATTATTAA
1 ATTATTAA
207370 GAAATAAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 2 0.05
17 15 0.41
18 15 0.41
19 5 0.14
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTATTAATTTATTAATA
Found at i:207581 original size:11 final size:11
Alignment explanation
Indices: 207565--207598 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
207555 TGTATAGCTT
207565 ATAATTATATA
1 ATAATTATATA
207576 ATAATTATAT-
1 ATAATTATATA
207586 ATAA-TATATA
1 ATAATTATATA
207596 ATA
1 ATA
207599 TAATAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.23
10 7 0.32
11 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATTATATA
Found at i:207600 original size:27 final size:27
Alignment explanation
Indices: 207563--207625 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
207553 CTTGTATAGC
*
207563 TTATAAT-TATATAATAATTATA-TATAA
1 TTATAATATA-ATAAT-ATTATATTAAAA
*
207590 TATATAATATAATAGTATTATATTAAAA
1 T-TATAATATAATAATATTATATTAAAA
207618 TTATAATA
1 TTATAATA
207626 ATTATTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 14 0.45
28 15 0.48
29 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
TTATAATATAATAATATTATATTAAAA
Found at i:207620 original size:38 final size:37
Alignment explanation
Indices: 207568--207640 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 37
207558 ATAGCTTATA
207568 ATTATATAATAATTATATATAA-TATATAATATAATAGT
1 ATTATATAATAATTATA-ATAATTATATAAT-TAATAGT
*
207606 ATTATATTAA-AATTATAATAATTATTTAATTAATA
1 ATTATA-TAATAATTATAATAATTATATAATTAATA
207641 ATTTTTAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
37 9 0.28
38 20 0.62
39 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTATATAATAATTATAATAATTATATAATTAATAGT
Found at i:208140 original size:181 final size:177
Alignment explanation
Indices: 207726--208173 Score: 465
Period size: 181 Copynumber: 2.5 Consensus size: 177
207716 TAGTATTTTG
* * * * * ** *
207726 AAAACTAAGAAGTAAGAGATTT-AAAAATAAATTTGTTTACT-AAGCCAGTTCACTTAGTTATAA
1 AAAATTAATAAGTAAGAGATTTAAAAAATGAATTTATTTACTGAA-CAAGTTCAAATAGTTATGA
* * ** *
207789 CTATTTTAACAATTATTTATTTCAAATTGTTATGACCATTTGTTTTGTCATAAAACAATTGTTTC
65 CTATTTGAACAATTATCTATTTCAAATCATTATGACCATTTGTTTTATCATAAAACAATTGTTTC
* * * **
207854 TGTTTATCTAGTCTTGAAATAAAGTAATACTAATTTATTAATATTATG
130 TGTTCATCAAGTCTTAAAATAAAGTAATACTAATTTATTAATATTACA
* * * ** * * *
207902 AAAATTAATCAGTAACAGATTTAAAAAATGAATCTATTGGCAAGACCAA-TGCAAATAGTTATGA
1 AAAATTAATAAGTAAGAGATTTAAAAAATGAATTTATTTAC-TGAACAAGTTCAAATAGTTATGA
* * * * *
207966 CTGTTTGAGCAATTATCTATTTCAAATCATTATGATCTTTTGTTTTATCATAAAACAATTGTTTT
65 CTATTTGAACAATTATCTATTTCAAATCATTATGACCATTTGTTTTATCATAAAACAATTGTTTC
* *
208031 TGTTCATACAAGCTTATTTAAAATAACA-TAACT-CTAATTTATTAATATTCCA
130 TGTTCAT-CAAG--T-CTTAAAATAA-AGTAA-TACTAATTTATTAATATTACA
* *
208083 AAAATTAATAAGTAAGAGATTTAAAAAATGAATTTATTTTCTGAATAAGTTCAAATAGTTATGAC
1 AAAATTAATAAGTAAGAGATTTAAAAAATGAATTTATTTACTGAACAAGTTCAAATAGTTATGAC
*
208148 TATTTGAACAATTATCAATTTCAAAT
66 TATTTGAACAATTATCTATTTCAAAT
208174 AGCTATAGCT
Statistics
Matches: 217, Mismatches: 45, Indels: 15
0.78 0.16 0.05
Matches are distributed among these distances:
176 18 0.08
177 85 0.39
178 5 0.02
179 1 0.00
180 5 0.02
181 101 0.47
182 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (177 bp):
AAAATTAATAAGTAAGAGATTTAAAAAATGAATTTATTTACTGAACAAGTTCAAATAGTTATGAC
TATTTGAACAATTATCTATTTCAAATCATTATGACCATTTGTTTTATCATAAAACAATTGTTTCT
GTTCATCAAGTCTTAAAATAAAGTAATACTAATTTATTAATATTACA
Found at i:208524 original size:177 final size:178
Alignment explanation
Indices: 208247--208658 Score: 420
Period size: 177 Copynumber: 2.3 Consensus size: 178
208237 GTTAAGACTA
* * * ** * *
208247 TGAAAAATTATTTATTTCAACTTGTTATAACCTTTTGTTTTGTCATAAAACAATTATTTAAGCTC
1 TGAACAATTATCTATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTATTTAAGCTA
* * *
208312 ATAGAAGCTTGTTCGGAATAGAATAAAATTAATTTATTAATATTTCA-AAAATT-T-ATAAAAGA
66 ATAGAAGCTTGTTCGAAATAAAATAAAACTAATTTATTAATATTT-ATAAAATTATAATAAAAGA
*** *
208374 TTTAGAAAAT-AATTCTACTTATGTAACCAATTCAAATAATTATAACTATT
130 TTTA-AAAATAAATT-TACTTACCAAACCAATTCAAATAATTATAACCATT
* * * ** *
208424 T-ACACAATTATCTATTTCAAATCATTATTACTTTTTATTTTGTCATAAAACAATTGTTTTTGTT
1 TGA-ACAATTATCTATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTATTTAAGCT
* * * * *
208488 AATATAAGTTTGTTTGAAATAAAATAATACTAATTTATTAATATTTATAAAATTAATCAATAAGA
65 AATAGAAGCTTGTTCGAAATAAAATAAAACTAATTTATTAATATTTATAAAATT-AT-AATAAAA
* * * * * *
208553 GATTTAAAAGTAAATTTGCTTACCAAACCATTTCAAATAGTTTTGACCATT
128 GATTTAAAAATAAATTTACTTACCAAACCAATTCAAATAATTATAACCATT
* * * *
208604 TGAATAATTATCTATTTCAAATCATTATAACCTTTTATTTTATCATCAAATAATT
1 TGAACAATTATCTATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATT
208659 TGTTCTATTT
Statistics
Matches: 190, Mismatches: 37, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
176 2 0.01
177 94 0.49
179 1 0.01
180 77 0.41
181 16 0.08
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.43
Consensus pattern (178 bp):
TGAACAATTATCTATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTATTTAAGCTA
ATAGAAGCTTGTTCGAAATAAAATAAAACTAATTTATTAATATTTATAAAATTATAATAAAAGAT
TTAAAAATAAATTTACTTACCAAACCAATTCAAATAATTATAACCATT
Found at i:208758 original size:31 final size:31
Alignment explanation
Indices: 208709--208773 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
208699 AATATCTTTG
* *
208709 TTATATTATTATTATATTAACTTGATTAATA
1 TTATACTATTATTATATTAACTTAATTAATA
*
208740 TTATACTATTTATT-TATTAATTTAATTAATA
1 TTATACTA-TTATTATATTAACTTAATTAATA
208771 TTA
1 TTA
208774 ATTAATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (31 bp):
TTATACTATTATTATATTAACTTAATTAATA
Found at i:208777 original size:19 final size:19
Alignment explanation
Indices: 208750--208789 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
208740 TTATACTATT
*
208750 TATTTATTAATT-TAATTAA
1 TATTAATTAATTAT-ATTAA
208769 TATTAATTAATTATATTAA
1 TATTAATTAATTATATTAA
208788 TA
1 TA
208790 GTCATAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTAATTAATTATATTAA
Found at i:208840 original size:15 final size:15
Alignment explanation
Indices: 208804--208858 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
208794 TAACTAATTT
* *
208804 TATATTATTATTATT
1 TATATTATTATAATA
* *
208819 TAAATTATTATAATG
1 TATATTATTATAATA
208834 TATATTA--ATAATA
1 TATATTATTATAATA
208847 TA-ATTATTATAA
1 TATATTATTATAA
208859 AAAATTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
12 4 0.12
13 7 0.21
14 4 0.12
15 18 0.55
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
TATATTATTATAATA
Found at i:209188 original size:29 final size:30
Alignment explanation
Indices: 209153--209224 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
209143 TACAATAAAG
* **
209153 TTAATATTATTATACTATTAGATATATTAA
1 TTAATATTATTATACTATTAGAAATAGAAA
* *
209183 -TAATATTA-TATTCTATTATAAATAGAAA
1 TTAATATTATTATACTATTAGAAATAGAAA
209211 TTAATATTATTATA
1 TTAATATTATTATA
209225 ATTTTATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 15 0.44
29 16 0.47
30 3 0.09
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (30 bp):
TTAATATTATTATACTATTAGAAATAGAAA
Found at i:209395 original size:19 final size:19
Alignment explanation
Indices: 209354--209398 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
209344 TATAGTTATT
*
209354 TATATAATATAAAGTATTA
1 TATATAATATAAAGTAATA
209373 -ATATAGATATAAA-TAATA
1 TATATA-ATATAAAGTAATA
209391 TATATAAT
1 TATATAAT
209399 TTATTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
TATATAATATAAAGTAATA
Found at i:209444 original size:22 final size:22
Alignment explanation
Indices: 209418--209463 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
209408 AATAACATAT
209418 TAATATAAATAAATTA-TTATTA
1 TAATA-AAATAAATTATTTATTA
* *
209440 TAATAAGATTAATTATTTATTA
1 TAATAAAATAAATTATTTATTA
209462 TA
1 TA
209464 TAATATGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TAATAAAATAAATTATTTATTA
Found at i:209450 original size:17 final size:16
Alignment explanation
Indices: 209389--209456 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 16
209379 ATATAAATAA
*
209389 TATATATAATTTATTAT
1 TATA-ATAAATTATTAT
*
209406 T-TAATAACA-TATTAA
1 TATAATAA-ATTATTAT
209421 TATAAATAAATTATTAT
1 TAT-AATAAATTATTAT
209438 TATAATAAGATTAATTAT
1 TATAATAA-ATT-ATTAT
209456 T
1 T
209457 TATTATATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
15 10 0.24
16 9 0.21
17 17 0.40
18 6 0.14
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
TATAATAAATTATTAT
Found at i:210488 original size:180 final size:181
Alignment explanation
Indices: 209749--211326 Score: 1096
Period size: 180 Copynumber: 8.9 Consensus size: 181
209739 CTGTTTCTAT
** * * * ***
209749 TCATACAAAATTATT-AAAATAAAATAATACTATTTTATTACTATTTTGAAAA-T--TAA-TAAG
1 TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTACAAAAATTAATAAGTAAG
* * * * * * *
209809 AGATTTAAAAACTAAATCT-CTTTACCGAACCAGTTTAAATAGTTATGACTATTTGAATAATTAT
66 AGATTTAAAAA-TAAATCTAGTTTATCAAATCAGTTCAAATAGTTATGACTATTTAAACAATTAT
* * ** * * * * * * **
209873 CTATCTCCAATTGTTAT-TATTTTTATTTTATCGTAAAACATTTAATTTTTGT
130 CTATTTCAAATCATTATGAACTTTTGTTTTATCATAAAACAATT-GTTTTTCA
* * * * * * *
209925 TCA-ACAAGCTTATTCAGAGTACAATATTGCTAAATTAATAATATT-CTAAACATTAATAAGTAA
1 TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTAC-AAAAATTAATAAGTAA
* * ** *
209988 G-GATTTAACAAATAAATGT-GTTTGTTGAATCAGTTCAAATAGTTAGGACTA-TTAGAACAATT
65 GAGATTTAA-AAATAAATCTAGTTTATCAAATCAGTTCAAATAGTTATGACTATTTA-AACAATT
* * * * *
210050 ATCTATTTCAAATCGTTTTG-ACCTTTG-TTTAGTCATAAAATAATTG--CTTCAA
128 ATCTATTTCAAATCATTATGAACTTTTGTTTTA-TCATAAAACAATTGTTTTTC-A
* * * * *
210102 CTCATACATGCTTATTCAAAATAAAATAATACTAATTTATTAACTTTTA-GAAAATTATTAAGTA
1 -TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAA-TATTACAAAAATTAATAAGTA
* * * * * * *
210166 AGA-AATTAGAAAAAAAAACTA-TTTACCAAA-CAAGTTCAAATATTTTTGACTATTTGAACAAT
64 AGAGATTTA-AAAATAAATCTAGTTTATCAAATC-AGTTCAAATAGTTATGACTATTTAAACAA-
* ***
210228 TTATCTA-TTCAAATTCATTATG-ACTTTATATTTTATCATAAAACAATTGTTTTAGT
126 TTATCTATTTCAAA-TCATTATGAACTTT-TGTTTTATCATAAAACAATTGTTTTTCA
* * * * * *
210284 TCATAAAAGCTTA-TCTGAAATAAAATAATATTACTTTATTAATATTACAAAAATTGATAAGTTA
1 TCATACAAGCTTATTCAG-AATAAAATAATACTAATTTATTAATATTACAAAAATTAATAAGTAA
* * * *
210348 GAGATTTAAACATAAAT-TAGTTTATCAAATCAGTTCAAATAATTATGGCCATTTAAACAATTAT
65 GAGATTTAAAAATAAATCTAGTTTATCAAATCAGTTCAAATAGTTATGACTATTTAAACAATTAT
210412 CTATTTCAAATCATTATGAACTTTTGTTTTATCATAAAACAATTGTTTTTCA
130 CTATTTCAAATCATTATGAACTTTTGTTTTATCATAAAACAATTGTTTTTCA
* * ***
210464 TCATACAAGCCTATTCAGAATAAAATAATACTAATTTACTAATATTTTGAAAA-T--TAA-TAAG
1 TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTACAAAAATTAATAAGTAAG
* ** * * * *
210525 AGATTTAAAAACTATATCT-GTTTATCGGATCAATTCAAATAGTTATAACTATTTGAATAATTAT
66 AGATTTAAAAA-TAAATCTAGTTTATCAAATCAGTTCAAATAGTTATGACTATTTAAACAATTAT
* * * * *
210589 CTATCTCAAATCAATATGATC-TTTGTTTTGTCATGAAACAATTGTTTCTGTC-
130 CTATTTCAAATCATTATGAACTTTTGTTTTATCATAAAACAATTGTTT-T-TCA
* ** * * * ** * *
210641 -CATACAAACTTATTTGGAGTAAAATATTGCTAAACTAATAATATT-CTAAAAATTAATAACTAA
1 TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTAC-AAAAATTAATAAGTAA
* * * * * * *
210704 GAGATTTAAAAACTAAATGTA-TTTGTCGAACCAATTCAAATAGTTAAGACTA-TTATAATAATT
65 GAGATTTAAAAA-TAAATCTAGTTTATCAAATCAGTTCAAATAGTTATGACTATTTA-AACAATT
* * * ***
210767 ATCTATTTCAAATCATTCTGACCTTTTG-TTTAGTCATAAAATAATTGTTCAAC-
128 ATCTATTTCAAATCATTATGAACTTTTGTTTTA-TCATAAAACAATTGTTTTTCA
* * * *
210820 TCATACATGCTTATTC-GAAATAAAATAATACTATTTTATTAACATTTA-GAAAATTAATAAGTA
1 TCATACAAGCTTATTCAG-AATAAAATAATACTAATTTATTAATA-TTACAAAAATTAATAAGTA
* * *
210883 AG-GAATTAAAAAATAAATCT-GTTTA-CTAAATAAGTTTAAATAGTTATGACTATTTAAACAAT
64 AGAG-ATTTAAAAATAAATCTAGTTTATC-AAATCAGTTCAAATAGTTATGACTATTTAAACAAT
* ** *
210945 TATC-ATTTTGAAATTGTTATGACCTTTTGTTTTATCATAAAACAATTG--TTTCA
127 TATCTA-TTTCAAATCATTATGAACTTTTGTTTTATCATAAAACAATTGTTTTTCA
* * * * * * * * * *
210998 TTTTATAAAAGCTTATCCAAAATTAAATAATATTACTTTATTAATATTTCAAAAATTAAGAAGTT
1 --TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTACAAAAATTAATAAGTA
* * * * * *
211063 GGAGATTTAAAACATAAATC-ATTTTATCAAATCAATTCAAATAGTTATGGCCATTTGAACAATT
64 AGAGATTTAAAA-ATAAATCTAGTTTATCAAATCAGTTCAAATAGTTATGACTATTTAAACAATT
* * * *
211127 ATCTATTTCAAATCATTTTGAACTTTTGTTTTGTCACAAAACATTTGTTTTTCA
128 ATCTATTTCAAATCATTATGAACTTTTGTTTTATCATAAAACAATTGTTTTTCA
* * * *
211181 TCATACAAGCCTAATT-AGAATAAAATAATACTAGTTTATTAATATTTCAAAAATTAATAAGTAG
1 TCATACAAG-CTTATTCAGAATAAAATAATACTAATTTATTAATATTACAAAAATTAATAAGTAA
* * *
211245 GAGA--T-----T--ATCT-GTTTACTGAACT-AGTTCAAATAATTATGACTATTTAAACAATTA
65 GAGATTTAAAAATAAATCTAGTTTA-TCAAATCAGTTCAAATAGTTATGACTATTTAAACAATTA
* *
211299 TATATTTCAAGTCATTAT-AATCTTTTGT
129 TCTATTTCAAATCATTATGAA-CTTTTGT
211327 AATTAGTTAC
Statistics
Matches: 1095, Mismatches: 234, Indels: 151
0.74 0.16 0.10
Matches are distributed among these distances:
170 2 0.00
171 56 0.05
172 4 0.00
173 1 0.00
175 9 0.01
176 105 0.10
177 65 0.06
178 15 0.01
179 245 0.22
180 307 0.28
181 265 0.24
182 15 0.01
183 6 0.01
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (181 bp):
TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTACAAAAATTAATAAGTAAG
AGATTTAAAAATAAATCTAGTTTATCAAATCAGTTCAAATAGTTATGACTATTTAAACAATTATC
TATTTCAAATCATTATGAACTTTTGTTTTATCATAAAACAATTGTTTTTCA
Found at i:211028 original size:716 final size:717
Alignment explanation
Indices: 209761--211241 Score: 2098
Period size: 717 Copynumber: 2.1 Consensus size: 717
209751 ATACAAAATT
* * *
209761 ATTAAAATAAAATAATACTATTTTATTACTATTTTGAAAATTAATAAGAGATTTAAAAACTAAAT
1 ATTAGAATAAAATAATACTAATTTATTAATATTTTGAAAATTAATAAGAGATTTAAAAACTAAAT
* * * * *** *
209826 CTCTTTACCGAACCAGTTTAAATAGTTATGACTATTTGAATAATTATCTATCTCCAATTGTTATT
66 CTCTTTACCGAACCAATTCAAATAGTTATAACTATTTGAATAATTATCTATCTCAAATCAATATG
* * * * * * *
209891 ATTTTTATTTTATCGTAAAACATTTAATTTTTGTTCAACAAGCTTATTCAGAGTACAATATTGCT
131 ATCTTTATTTTATCATAAAACAATTAATTTCTGTCCAACAAACTTATTCAGAGTAAAATATTGCT
* * * * * * *
209956 AAATTAATAATATTCTAAACATTAATAAGTAAGGATTTAACAAATAAATGTGTTTGTTGAATCAG
196 AAACTAATAATATTCTAAAAATTAATAACTAAGGATTTAACAAATAAATGTATTTGTCGAACCAA
* * *
210021 TTCAAATAGTTAGGACTATTAGAACAATTATCTATTTCAAATCGTTTTGACCTTTGTTTAGTCAT
261 TTCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAATCATTCTGACCTTTGTTTAGTCAT
*
210086 AAAATAATTGCTTCAACTCATACATGCTTATTCAAAATAAAATAATACTAATTTATTAACTTTTA
326 AAAATAATTGCTTCAACTCATACATGCTTATTCAAAATAAAATAATACTAATTTATTAACATTTA
* * *
210151 GAAAATTATTAAGTAAGAAATTAGAAAAAAAAACTATTTACCAAACAAGTTCAAATATTTTTGAC
391 GAAAATTAATAAGTAAGAAATTAGAAAAAAAAACTATTTACCAAACAAGTTCAAATAGTTATGAC
* *
210216 TATTTGAACAATTTATCTATTCAAATTCATTATGACTTTATATTTTATCATAAAACAATTGTTTT
456 TATTTAAACAATTTATCTATTCAAATTCATTATGACTTTATATTTTATCATAAAACAATTGTTTC
** * *
210281 AGTTCATAAAAGCTTATCTGAAATAAAATAATATTACTTTATTAATATTACAAAAATTGATAAGT
521 AGTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATATTACAAAAATTAAGAAGT
* *
210346 TAGAGATTT-AAACATAAATTAGTTTATCAAATCAGTTCAAATAATTATGGCCATTTAAACAATT
586 TAGAGATTTAAAACATAAATCAGTTTATCAAATCAATTCAAATAATTATGGCCATTTAAACAATT
*
210410 ATCTATTTCAAATCATTATGAACTTTTGTTTTATCATAAAACAATTGTTTTTCATCATACAAGCC
651 ATCTATTTCAAATCATTATGAACTTTTGTTTTATCACAAAACAATTGTTTTTCATCATACAAGCC
210475 T-
716 TA
* *
210476 ATTCAGAATAAAATAATACTAATTTACTAATATTTTGAAAATTAATAAGAGATTTAAAAACTATA
1 ATT-AGAATAAAATAATACTAATTTATTAATATTTTGAAAATTAATAAGAGATTTAAAAACTAAA
* * * *
210541 TCTGTTTATCGGATCAATTCAAATAGTTATAACTATTTGAATAATTATCTATCTCAAATCAATAT
65 TCTCTTTACCGAACCAATTCAAATAGTTATAACTATTTGAATAATTATCTATCTCAAATCAATAT
* * * * **
210606 GATCTTTGTTTTGTCATGAAACAATT-GTTTCTGTCCATACAAACTTATTTGGAGTAAAATATTG
130 GATCTTTATTTTATCATAAAACAATTAATTTCTGTCCA-ACAAACTTATTCAGAGTAAAATATTG
210670 CTAAACTAATAATATTCTAAAAATTAATAACTAAGAGATTTAA-AAACTAAATGTATTTGTCGAA
194 CTAAACTAATAATATTCTAAAAATTAATAACTAAG-GATTTAACAAA-TAAATGTATTTGTCGAA
* *
210734 CCAATTCAAATAGTTAAGACTATTATAATAATTATCTATTTCAAATCATTCTGACCTTTTGTTTA
257 CCAATTCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAATCATTCTGACC-TTTGTTTA
* *
210799 GTCATAAAATAATTG-TTCAACTCATACATGCTTATTCGAAATAAAATAATACTATTTTATTAAC
321 GTCATAAAATAATTGCTTCAACTCATACATGCTTATTCAAAATAAAATAATACTAATTTATTAAC
* * * * * *
210863 ATTTAGAAAATTAATAAGTAAGGAATTA-AAAAATAAATCTGTTTACTAAATAAGTTTAAATAGT
386 ATTTAGAAAATTAATAAGTAAGAAATTAGAAAAA-AAAACTATTTACCAAACAAGTTCAAATAGT
* * * *
210927 TATGACTATTTAAACAA-TTATCATTTTGAAATT-GTTATGACCTTT-TGTTTTATCATAAAACA
450 TATGACTATTTAAACAATTTATC-TATTCAAATTCATTATGA-CTTTATATTTTATCATAAAACA
* * * *
210989 ATTGTTTCATTTTATAAAAGCTTATCCAAAATTAAATAATATTACTTTATTAATATTTCAAAAAT
513 ATTGTTTCAGTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATATTACAAAAAT
* * *
211054 TAAGAAGTTGGAGATTTAAAACATAAATCATTTTATCAAATCAATTCAAATAGTTATGGCCATTT
578 TAAGAAGTTAGAGATTTAAAACATAAATCAGTTTATCAAATCAATTCAAATAATTATGGCCATTT
* * * *
211119 GAACAATTATCTATTTCAAATCATTTTGAACTTTTGTTTTGTCACAAAACATTTGTTTTTCATCA
643 AAACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTATCACAAAACAATTGTTTTTCATCA
211184 TACAAGCCTA
708 TACAAGCCTA
* **
211194 ATTAGAATAAAATAATACTAGTTTATTAATATTTCAAAAATTAATAAG
1 ATTAGAATAAAATAATACTAATTTATTAATATTTTGAAAATTAATAAG
211242 TAGGAGATTA
Statistics
Matches: 674, Mismatches: 82, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
715 11 0.02
716 290 0.43
717 347 0.51
718 26 0.04
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (717 bp):
ATTAGAATAAAATAATACTAATTTATTAATATTTTGAAAATTAATAAGAGATTTAAAAACTAAAT
CTCTTTACCGAACCAATTCAAATAGTTATAACTATTTGAATAATTATCTATCTCAAATCAATATG
ATCTTTATTTTATCATAAAACAATTAATTTCTGTCCAACAAACTTATTCAGAGTAAAATATTGCT
AAACTAATAATATTCTAAAAATTAATAACTAAGGATTTAACAAATAAATGTATTTGTCGAACCAA
TTCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAATCATTCTGACCTTTGTTTAGTCAT
AAAATAATTGCTTCAACTCATACATGCTTATTCAAAATAAAATAATACTAATTTATTAACATTTA
GAAAATTAATAAGTAAGAAATTAGAAAAAAAAACTATTTACCAAACAAGTTCAAATAGTTATGAC
TATTTAAACAATTTATCTATTCAAATTCATTATGACTTTATATTTTATCATAAAACAATTGTTTC
AGTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATATTACAAAAATTAAGAAGT
TAGAGATTTAAAACATAAATCAGTTTATCAAATCAATTCAAATAATTATGGCCATTTAAACAATT
ATCTATTTCAAATCATTATGAACTTTTGTTTTATCACAAAACAATTGTTTTTCATCATACAAGCC
TA
Found at i:211580 original size:17 final size:19
Alignment explanation
Indices: 211560--211597 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
211550 TTATTAAGAA
211560 TATTAT-ATTATAA-TAGT
1 TATTATAATTATAATTAGT
211577 TATTATAAATTATAATTAGT
1 TATTAT-AATTATAATTAGT
211597 T
1 T
211598 GCTATTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TATTATAATTATAATTAGT
Found at i:211836 original size:6 final size:6
Alignment explanation
Indices: 211825--211857 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
211815 GATAAATCTT
*
211825 AATTTA AATTTA AATTTA AATTTA AATGTA AAT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AAT
211858 ATTGAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:212082 original size:16 final size:17
Alignment explanation
Indices: 212044--212092 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
212034 GTGAATAATC
212044 AATAA-TATATAATATTAT
1 AATAATTATAT-AT-TTAT
212062 AATAATTATATATTTAT
1 AATAATTATATATTTAT
212079 -ATAATTATACTATT
1 AATAATTATA-TATT
212093 AACTAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.31
17 8 0.28
18 7 0.24
19 5 0.17
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
AATAATTATATATTTAT
Done.