Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 4 of 105
Found at i:295466 original size:21 final size:23
Alignment explanation
Indices: 295432--295478 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
295422 TAACAAATAA
295432 AAAATCATAAAAAAT-AAT-TTT
1 AAAATCATAAAAAATAAATGTTT
295453 AAAAT-ATAAAAAAATAAATGTTT
1 AAAATCAT-AAAAAATAAATGTTT
295476 AAA
1 AAA
295479 GACTATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.09
21 12 0.52
22 3 0.13
23 6 0.26
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAATCATAAAAAATAAATGTTT
Found at i:312611 original size:17 final size:18
Alignment explanation
Indices: 312589--312624 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
312579 GAGAGAAAAG
312589 AAAAGAAAAAGAAA-GAA
1 AAAAGAAAAAGAAATGAA
312606 AAAAGAAAAAGAAATGAA
1 AAAAGAAAAAGAAATGAA
312624 A
1 A
312625 TGAAAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAGAAATGAA
Found at i:313670 original size:21 final size:19
Alignment explanation
Indices: 313646--313694 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
313636 TATTAATGAG
*
313646 ATAATATTATTTTATTAACAA
1 ATAATATTAATTT-TTAA-AA
313667 ATAATTATTAATTTTTAAAA
1 ATAA-TATTAATTTTTAAAA
313687 ATTAATAT
1 A-TAATAT
313695 ATCAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.24
21 11 0.44
22 8 0.32
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATATTAATTTTTAAAA
Found at i:323102 original size:18 final size:18
Alignment explanation
Indices: 323079--323116 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
323069 AGAAACATTG
*
323079 GTATGAAAATTTGATGAT
1 GTATGAAAATCTGATGAT
323097 GTATGAAAATCTGATGAT
1 GTATGAAAATCTGATGAT
323115 GT
1 GT
323117 TTTGATATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.37
Consensus pattern (18 bp):
GTATGAAAATCTGATGAT
Found at i:325592 original size:14 final size:14
Alignment explanation
Indices: 325570--325599 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
325560 AATAGATAAA
325570 TATCAATTTAATTT
1 TATCAATTTAATTT
*
325584 TATCTATTTAATTT
1 TATCAATTTAATTT
325598 TA
1 TA
325600 AAAGTCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
TATCAATTTAATTT
Found at i:331828 original size:3 final size:3
Alignment explanation
Indices: 331820--331845 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
331810 AAAGCTTAAT
331820 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
331846 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:331904 original size:17 final size:18
Alignment explanation
Indices: 331882--331916 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
331872 GATTATTGAT
331882 ATTTTATA-TTTTCTTAA
1 ATTTTATAGTTTTCTTAA
*
331899 ATTTTATAGTTTTTTTAA
1 ATTTTATAGTTTTCTTAA
331917 TGAAAAATAT
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:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTATAGTTTTCTTAA
Found at i:332440 original size:30 final size:30
Alignment explanation
Indices: 332406--332500 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
332396 GTTACATTTT
332406 AATAAATCTTTAATTTTTAATTTGTATATA
1 AATAAATCTTTAATTTTTAATTTGTATATA
* ** *
332436 AATAAA-CACTTAAACTTTAATTTGTATCTA
1 AATAAATC-TTTAATTTTTAATTTGTATATA
* *
332466 AATAAAT-TTTTATCTTTTAATTTATATATA
1 AATAAATCTTTAAT-TTTTAATTTGTATATA
332496 AATAA
1 AATAA
332501 GCTCTTAATA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
29 4 0.08
30 48 0.92
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.48
Consensus pattern (30 bp):
AATAAATCTTTAATTTTTAATTTGTATATA
Found at i:332604 original size:29 final size:30
Alignment explanation
Indices: 332529--332604 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
332519 TTTTTTATTT
*
332529 AAAATAAAAGTTTATTTGAATACAAATCAA
1 AAAATAAAAATTTATTTGAATACAAATCAA
*
332559 AGAATAAAAATTTATTTGAATAC-AAT-AA
1 AAAATAAAAATTTATTTGAATACAAATCAA
332587 AAATATAAAAATTTATTT
1 AAA-ATAAAAATTTATTT
332605 TAAAAAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 4 0.10
29 17 0.40
30 21 0.50
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (30 bp):
AAAATAAAAATTTATTTGAATACAAATCAA
Found at i:332705 original size:3 final size:3
Alignment explanation
Indices: 332654--332690 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
332644 CCTAAATAAA
*
332654 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
332691 GAAATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:333195 original size:16 final size:16
Alignment explanation
Indices: 333174--333205 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
333164 CACTCTTTCA
333174 ACCTATTTTAGTGCTT
1 ACCTATTTTAGTGCTT
*
333190 ACCTATTTTATTGCTT
1 ACCTATTTTAGTGCTT
333206 TTGTATTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (16 bp):
ACCTATTTTAGTGCTT
Found at i:333290 original size:15 final size:15
Alignment explanation
Indices: 333248--333298 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
333238 CTTAATTTTA
* *
333248 TAATTATATGTTTGTT
1 TAATTATA-ATTTATT
*
333264 TATTTA-AATTTATT
1 TAATTATAATTTATT
333278 TAATTATAATTTATT
1 TAATTATAATTTATT
333293 T-ATTAT
1 TAATTAT
333299 TTATGAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 15 0.50
15 10 0.33
16 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (15 bp):
TAATTATAATTTATT
Found at i:333295 original size:19 final size:20
Alignment explanation
Indices: 333271--333321 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
333261 GTTTATTTAA
*
333271 ATTTATTTAATTAT-AATTT
1 ATTTATTTAATTATGAATAT
*
333290 ATTTA-TTATTTATGAATAT
1 ATTTATTTAATTATGAATAT
333309 ATTTATTT-ATTAT
1 ATTTATTTAATTAT
333322 TTATAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 7 0.26
19 18 0.67
20 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTATTTAATTATGAATAT
Found at i:333316 original size:23 final size:23
Alignment explanation
Indices: 333286--333337 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
333276 TTTAATTATA
* *
333286 ATTTATTTATTATTTATGAATAT
1 ATTTATTTATTATTTATAAATAC
333309 ATTTATTTATTATTTATAAATAC
1 ATTTATTTATTATTTATAAATAC
333332 ATTTAT
1 ATTTAT
333338 ATATATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTATTTATTATTTATAAATAC
Found at i:333391 original size:24 final size:23
Alignment explanation
Indices: 333285--333394 Score: 71
Period size: 23 Copynumber: 4.5 Consensus size: 23
333275 ATTTAATTAT
* *
333285 AATTTATTTATTATTTATGAATA-
1 AATTTATTTAATATTTAT-AAAAC
* *
333308 TATTTATTTATTATTTATAAATAC
1 AATTTATTTAATATTTATAAA-AC
* *
333332 ATTTATATATATTAATATTTGT-AAAC
1 A---ATTTAT-TTAATATTTATAAAAC
*
333358 ATATTCATTTAATATTTATAAAAC
1 A-ATTTATTTAATATTTATAAAAC
333382 AAGTTTATTTAAT
1 AA-TTTATTTAAT
333395 TTAAATGAGC
Statistics
Matches: 69, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
22 2 0.03
23 29 0.42
24 19 0.28
26 3 0.04
27 7 0.10
28 9 0.13
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.53
Consensus pattern (23 bp):
AATTTATTTAATATTTATAAAAC
Found at i:335421 original size:5 final size:5
Alignment explanation
Indices: 335411--335450 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
335401 GTGTAAGGGG
*
335411 TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTAC TGTTC
1 TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC
335451 CAGCCCTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.03, C:0.20, G:0.20, T:0.57
Consensus pattern (5 bp):
TGTTC
Found at i:340666 original size:17 final size:17
Alignment explanation
Indices: 340617--340662 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
340607 AATTTTTTTG
340617 TTAACTATTTTTTATA-T
1 TTAA-TATTTTTTATATT
*
340634 TTAATAGTTTTTATATT
1 TTAATATTTTTTATATT
340651 TTAAT-TTTTTTA
1 TTAATATTTTTTA
340663 ATATGGTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTAATATTTTTTATATT
Found at i:341891 original size:28 final size:30
Alignment explanation
Indices: 341832--341893 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
341822 TTTTACTTTA
341832 TATTTATATATTATTATAATAATAAAGTTAT
1 TATTTATATATTATTATAATAATAAAG-TAT
*
341863 TATTTAATATTTTATT-TAATAA-AAA-TAT
1 TATTT-ATATATTATTATAATAATAAAGTAT
341891 TAT
1 TAT
341894 ATTTATACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.21
30 3 0.10
31 11 0.38
32 9 0.31
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
TATTTATATATTATTATAATAATAAAGTAT
Found at i:341945 original size:221 final size:220
Alignment explanation
Indices: 341542--341945 Score: 616
Period size: 221 Copynumber: 1.8 Consensus size: 220
341532 GAATCAAATT
** *
341542 AGGGTTTAGGTTTTCTGTCATACTTCAAGTTATAAACAATTTTATTTTTAATTATTGATTTTATT
1 AGGGTTTAGGTTTTCTGTCATACTTCAAGACATAAACAATTCTATTTTTAATTATTGATTTTATT
* * * *
341607 CTATATTTATATGTTATTATATTAATAAAATTATTATTTAATATTTTTGTTTAATGAAAATATTA
66 CTATATTTATATATTATTATAATAATAAAATTATTATTTAATATTTTTATTTAATAAAAATATTA
* * * *
341672 TATTTATATATAATTAAAATTTAATTCATGCGTGCATCCAACTTTTTTATAGAATATATTCCTTT
131 TATTTATACATAATTAAAATTTAATTCATGCGTACATCCAACTATCTTATAGAATATATTCCTTT
341737 TAAAAAATTAGGATCGGATCGAATA
196 TAAAAAATTAGGATCGGATCGAATA
* * *
341762 AGGGTTTAGGGTTTTCTGTTATGCTTCAAGCACATATACAATTCTATTTTTAATTATTGATTTTA
1 AGGGTTTA-GGTTTTCTGTCATACTTCAAG-ACATAAACAATTCTATTTTTAATTATTGATTTTA
*
341827 CTT-TATATTTATATATTATTATAATAATAAAGTTATTATTTAATA-TTTTATTTAATAAAAATA
64 -TTCTATATTTATATATTATTATAATAATAAAATTATTATTTAATATTTTTATTTAATAAAAATA
341890 TTATATTTATACATAATTAAAATTTAATTCATGCGTACATCCAA-TCATCTTATAGA
128 TTATATTTATACATAATTAAAATTTAATTCATGCGTACATCCAACT-ATCTTATAGA
341946 TAAATCATAT
Statistics
Matches: 165, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
220 9 0.05
221 85 0.52
222 69 0.42
223 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (220 bp):
AGGGTTTAGGTTTTCTGTCATACTTCAAGACATAAACAATTCTATTTTTAATTATTGATTTTATT
CTATATTTATATATTATTATAATAATAAAATTATTATTTAATATTTTTATTTAATAAAAATATTA
TATTTATACATAATTAAAATTTAATTCATGCGTACATCCAACTATCTTATAGAATATATTCCTTT
TAAAAAATTAGGATCGGATCGAATA
Found at i:344609 original size:14 final size:16
Alignment explanation
Indices: 344572--344629 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
344562 TTCGACTTTC
*
344572 TATATATAAATAATGA
1 TATATATATATAATGA
*
344588 TATCTATATA-AATGA
1 TATATATATATAATGA
* *
344603 -ATATATATCTAATAA
1 TATATATATATAATGA
*
344618 TTTATATATATA
1 TATATATATATA
344630 TTTTAGTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
14 7 0.21
15 9 0.27
16 17 0.52
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (16 bp):
TATATATATATAATGA
Found at i:344964 original size:6 final size:6
Alignment explanation
Indices: 344953--344979 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
344943 CCTCGCCTCC
344953 AACTCA AACTCA AACTCA AACTCA AAC
1 AACTCA AACTCA AACTCA AACTCA AAC
344980 AATCGATCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (6 bp):
AACTCA
Found at i:348069 original size:1 final size:1
Alignment explanation
Indices: 348063--348095 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
348053 GTGTGTGGGC
*
348063 GGGGGGGGGGGGGGGGGGGGGGGGGGGGAGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
348096 AGGGTTTCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:350476 original size:4 final size:4
Alignment explanation
Indices: 350467--350495 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
350457 AGACATGCAG
350467 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
350496 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:354185 original size:3 final size:3
Alignment explanation
Indices: 354177--354210 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
354167 ATCCAAACTG
354177 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
354211 ATTAAGCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:355131 original size:3 final size:3
Alignment explanation
Indices: 355123--355170 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
355113 AATTTACCAA
355123 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
355171 AACAATAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:355180 original size:3 final size:3
Alignment explanation
Indices: 355169--355198 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
355159 CATCATCATC
*
355169 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
355199 TTCCAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:355460 original size:4 final size:4
Alignment explanation
Indices: 355443--355473 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
355433 TCACCAGGTT
*
355443 ATAC ATAC ACAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
355474 TATATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:361637 original size:20 final size:19
Alignment explanation
Indices: 361587--361629 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
361577 AACATAAACG
*
361587 AATAAA-AT-AATTTTTTT
1 AATAAATATAAATATTTTT
361604 AATAAATATAAATATTTTT
1 AATAAATATAAATATTTTT
361623 AA-AAATA
1 AATAAATA
361630 AATAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 7 0.30
19 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAAATATAAATATTTTT
Found at i:361720 original size:18 final size:18
Alignment explanation
Indices: 361699--361742 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
361689 CGTTTTTCAT
*
361699 TATTTATTCCCTTTTAGA
1 TATTTACTCCCTTTTAGA
361717 TATTTACTCCCTTTTAGA
1 TATTTACTCCCTTTTAGA
361735 TATTTACT
1 TATTTACT
361743 GTCCAAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTTACTCCCTTTTAGA
Found at i:362450 original size:33 final size:34
Alignment explanation
Indices: 362392--362477 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
362382 TGAAATTTTG
* *
362392 ATTTTTCAAAAATTCATTTTTAAAAAGATACAT-A
1 ATTTTT-AAAATTTCATTTTCAAAAAGATACATGA
* * *
362426 ATTTTTAAAATTTTATTTTCAAAAAGTTATATGA
1 ATTTTTAAAATTTCATTTTCAAAAAGATACATGA
*
362460 TTTTTTAAAATTTCATTT
1 ATTTTTAAAATTTCATTT
362478 ATGAAAACAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 21 0.48
34 23 0.52
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (34 bp):
ATTTTTAAAATTTCATTTTCAAAAAGATACATGA
Found at i:373706 original size:19 final size:17
Alignment explanation
Indices: 373682--373725 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
373672 TTTGAATCTA
*
373682 ATTAAATTTTATTTATT
1 ATTAAATTTTATTGATT
373699 CGATTAAATTTTATTGATT
1 --ATTAAATTTTATTGATT
373718 ATTAAATT
1 ATTAAATT
373726 AAAAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
19 16 0.67
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (17 bp):
ATTAAATTTTATTGATT
Found at i:375373 original size:2 final size:2
Alignment explanation
Indices: 375366--375403 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
375356 TGTCTCTTCA
375366 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
375404 CCTTATGGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:376028 original size:6 final size:6
Alignment explanation
Indices: 376019--376046 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
376009 TTTGTTGTTG
376019 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
376047 GGTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:376277 original size:14 final size:15
Alignment explanation
Indices: 376252--376281 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
376242 CACGAGAATA
376252 TGTTTGATTTTTATT
1 TGTTTGATTTTTATT
376267 TGTTT-ATTTTTATT
1 TGTTTGATTTTTATT
376281 T
1 T
376282 ATTAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (15 bp):
TGTTTGATTTTTATT
Found at i:376398 original size:20 final size:20
Alignment explanation
Indices: 376369--376407 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
376359 TTTGTTTAAA
376369 ATTTGATTATATTTATTTAG
1 ATTTGATTATATTTATTTAG
* *
376389 ATTTGCTTATGTTTATTTA
1 ATTTGATTATATTTATTTA
376408 TTGTTTAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.62
Consensus pattern (20 bp):
ATTTGATTATATTTATTTAG
Found at i:377022 original size:20 final size:21
Alignment explanation
Indices: 376982--377022 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
376972 TCCGCACGTC
376982 AAATGCAAATAAGATTTTTTT
1 AAATGCAAATAAGATTTTTTT
377003 AAATGCAAATAAGATTTTTT
1 AAATGCAAATAAGATTTTTT
377023 CAAAGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (21 bp):
AAATGCAAATAAGATTTTTTT
Found at i:377032 original size:20 final size:21
Alignment explanation
Indices: 376980--377032 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
376970 TTTCCGCACG
*
376980 TCAAATGCAAATAAGATTTTT
1 TCAAATGAAAATAAGATTTTT
* *
377001 TTAAATGCAAATAAGATTTTT
1 TCAAATGAAAATAAGATTTTT
377022 TCAAA-GAAAAT
1 TCAAATGAAAAT
377033 TATAATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (21 bp):
TCAAATGAAAATAAGATTTTT
Found at i:377416 original size:30 final size:30
Alignment explanation
Indices: 377376--377443 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
377366 TATTTTTAAT
* * *
377376 TAAT-TTTTTAATTATATATATTTATATAA
1 TAATATTTTTAAATATATATATTTAAAAAA
*
377405 TAATATTTTTAAATATTTATATTTAAAAAA
1 TAATATTTTTAAATATATATATTTAAAAAA
377435 TAATATTTT
1 TAATATTTT
377444 ATATTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TAATATTTTTAAATATATATATTTAAAAAA
Found at i:377446 original size:21 final size:22
Alignment explanation
Indices: 377416--377467 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
377406 AATATTTTTA
377416 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
377436 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
377458 AATATTTTAT
1 AATATTTTAT
377468 TAATTTCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:382288 original size:25 final size:25
Alignment explanation
Indices: 382230--382289 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
382220 CTTCTATTTT
*
382230 AGGCCTTCATTGTCGAACCCTGTTT
1 AGGCCTTCATTGTCGAACCCTGTTA
* *
382255 AGACTTTCATTGTCGAACCCTGTTA
1 AGGCCTTCATTGTCGAACCCTGTTA
382280 AGGCCTTCAT
1 AGGCCTTCAT
382290 AGTCATTCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (25 bp):
AGGCCTTCATTGTCGAACCCTGTTA
Found at i:386024 original size:22 final size:22
Alignment explanation
Indices: 385999--386042 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
385989 TATGTAGTTA
* *
385999 TATTTGTATATCTAGAATTAAG
1 TATTTATATACCTAGAATTAAG
*
386021 TATTTATATCCCTAGAATTAAG
1 TATTTATATACCTAGAATTAAG
386043 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTATATACCTAGAATTAAG
Found at i:396309 original size:15 final size:15
Alignment explanation
Indices: 396289--396319 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
396279 TTTACTCCTG
396289 TCAGTATGTCCTCCA
1 TCAGTATGTCCTCCA
396304 TCAGTATGTCCTCCA
1 TCAGTATGTCCTCCA
396319 T
1 T
396320 TTTTCTGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (15 bp):
TCAGTATGTCCTCCA
Found at i:401707 original size:33 final size:33
Alignment explanation
Indices: 401665--401763 Score: 189
Period size: 33 Copynumber: 3.0 Consensus size: 33
401655 TTTTTCTTTT
401665 TTTTTTTTAACTTTAAACTAGATGGATCTGCTG
1 TTTTTTTTAACTTTAAACTAGATGGATCTGCTG
401698 TTTTTTTTAACTTTAAACTAGATGGATCTGCTG
1 TTTTTTTTAACTTTAAACTAGATGGATCTGCTG
*
401731 TTTTTTTTAACTTTAAACTAGATAGATCTGCTG
1 TTTTTTTTAACTTTAAACTAGATGGATCTGCTG
401764 CTTCAATTAA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.48
Consensus pattern (33 bp):
TTTTTTTTAACTTTAAACTAGATGGATCTGCTG
Found at i:413300 original size:77 final size:77
Alignment explanation
Indices: 413142--413301 Score: 173
Period size: 77 Copynumber: 2.1 Consensus size: 77
413132 ATATATTTTT
* * * * **
413142 AAATTTTTATAAAATCAAAATAATTATTTTATATATATATATTAAAATAAAATTTTGTTAATTTG
1 AAATTTCTATAAAATAAAAATAATTATTTTATATATATATATTAAAATAAAATTTTATTAAATAA
* **
413207 TATATATATTTT
66 TATATAAATTAA
* *
413219 AAATTTCTATAAAATAAAAATAATTATTTTATATATA-A-A-TATATTAAAATTTTATTAAAATA
1 AAATTTCTATAAAATAAAAATAATTATTTTATATATATATATTAAAATAAAATTTTATT-AAATA
413281 ATATATAAAATATAA
65 ATATAT-AAAT-TAA
413296 AAATTT
1 AAATTT
413302 AAAATTTAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
74 14 0.20
75 9 0.13
76 4 0.06
77 42 0.61
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (77 bp):
AAATTTCTATAAAATAAAAATAATTATTTTATATATATATATTAAAATAAAATTTTATTAAATAA
TATATAAATTAA
Found at i:413746 original size:22 final size:22
Alignment explanation
Indices: 413718--413762 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
413708 GGGCTGCACT
413718 TTGGTGTATAATTATTAGTTGC
1 TTGGTGTATAATTATTAGTTGC
413740 TTGGTGTATAATTATTAGTTGC
1 TTGGTGTATAATTATTAGTTGC
413762 T
1 T
413763 CTGATTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.51
Consensus pattern (22 bp):
TTGGTGTATAATTATTAGTTGC
Found at i:415832 original size:34 final size:34
Alignment explanation
Indices: 415789--415890 Score: 204
Period size: 34 Copynumber: 3.0 Consensus size: 34
415779 TAGACGGGAC
415789 CAACACCAAACCAAACCCTGGGACCTTATGCTAT
1 CAACACCAAACCAAACCCTGGGACCTTATGCTAT
415823 CAACACCAAACCAAACCCTGGGACCTTATGCTAT
1 CAACACCAAACCAAACCCTGGGACCTTATGCTAT
415857 CAACACCAAACCAAACCCTGGGACCTTATGCTAT
1 CAACACCAAACCAAACCCTGGGACCTTATGCTAT
415891 TAATAGAGGG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.35, C:0.35, G:0.12, T:0.18
Consensus pattern (34 bp):
CAACACCAAACCAAACCCTGGGACCTTATGCTAT
Found at i:420036 original size:11 final size:11
Alignment explanation
Indices: 420000--420038 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
419990 TTTATAAATT
420000 ATTTAAATTTA
1 ATTTAAATTTA
* **
420011 ATTAAAATAAA
1 ATTTAAATTTA
420022 ATTTAAATTTA
1 ATTTAAATTTA
420033 ATTTAA
1 ATTTAA
420039 TTATTATCAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:420379 original size:25 final size:25
Alignment explanation
Indices: 420331--420381 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
420321 TAAAATTTAA
* *
420331 TTAAATTCGAATCGAATTTTAAATT
1 TTAAATTCGAATCGAAGTTCAAATT
420356 TTAAATATCGAATC-AAGTTCAAATT
1 TTAAAT-TCGAATCGAAGTTCAAATT
420381 T
1 T
420382 AATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (25 bp):
TTAAATTCGAATCGAAGTTCAAATT
Found at i:427893 original size:2 final size:2
Alignment explanation
Indices: 427888--427917 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
427878 TGGTTTGGGG
427888 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
427918 ACGCAGTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:428508 original size:75 final size:75
Alignment explanation
Indices: 428360--428516 Score: 214
Period size: 75 Copynumber: 2.1 Consensus size: 75
428350 AATTATATAT
* * *
428360 TTTTATTAA-TT-TATATATTTTTAAAATTTTTATAAAATCAAAATAATTATTTTATATATATAT
1 TTTTATTAATTTGTATATATTTTTAAAATTTCTATAAAATAAAAATAATTATTTTATATATAAAT
428423 TAAAATAAAA
66 TAAAATAAAA
*
428433 TTTTGTTAATTTGTATATATATTTT-AAATTTCTATAAAATAAAAATAATTATTTTATATATAAA
1 TTTTATTAATTTGTATATAT-TTTTAAAATTTCTATAAAATAAAAATAATTATTTTATATATAAA
* *
428497 -TATATTAAAAA
65 TTAAAAT-AAAA
428508 TTTTATTAA
1 TTTTATTAA
428517 AATAATATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
73 8 0.11
74 6 0.08
75 55 0.75
76 4 0.05
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (75 bp):
TTTTATTAATTTGTATATATTTTTAAAATTTCTATAAAATAAAAATAATTATTTTATATATAAAT
TAAAATAAAA
Found at i:428510 original size:24 final size:24
Alignment explanation
Indices: 428458--428532 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
428448 TATATATTTT
*
428458 AAATTTCTA-TAAAATAA-AAATAA
1 AAATTT-TATTAAAATAATATATAA
**
428481 TTATTTTATATATAAAT-ATAT-TAA
1 AAATTTTAT-TA-AAATAATATATAA
428505 AAATTTTATTAAAATAATATATAA
1 AAATTTTATTAAAATAATATATAA
428529 AAAT
1 AAAT
428533 ATAAAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
22 6 0.15
23 10 0.24
24 20 0.49
25 5 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATTTTATTAAAATAATATATAA
Found at i:428988 original size:22 final size:22
Alignment explanation
Indices: 428960--429004 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
428950 GGGCTGCACT
428960 TTGGTGTATAATTATTAGTTGC
1 TTGGTGTATAATTATTAGTTGC
*
428982 TTGGTGTATACTTATTAGTTGC
1 TTGGTGTATAATTATTAGTTGC
429004 T
1 T
429005 CTGATTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.07, G:0.22, T:0.51
Consensus pattern (22 bp):
TTGGTGTATAATTATTAGTTGC
Found at i:429326 original size:21 final size:22
Alignment explanation
Indices: 429295--429347 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
429285 ATATATAATT
429295 ATATATTTATA-TTTAAAAAATA
1 ATAT-TTTATATTTTAAAAAATA
429317 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
429339 ATATTTTAT
1 ATATTTTAT
429348 TAATTTCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:435211 original size:11 final size:11
Alignment explanation
Indices: 435175--435213 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
435165 TTTATAAATT
435175 ATTTAAATTTA
1 ATTTAAATTTA
* **
435186 ATTAAAATAAA
1 ATTTAAATTTA
435197 ATTTAAATTTA
1 ATTTAAATTTA
435208 ATTTAA
1 ATTTAA
435214 TTATTATCAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:435555 original size:25 final size:25
Alignment explanation
Indices: 435507--435557 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
435497 TAAAATTTAA
* *
435507 TTAAATTCGAATCGAATTTTAAATT
1 TTAAATTCGAATCGAAGTTCAAATT
435532 TTAAATATCGAATC-AAGTTCAAATT
1 TTAAAT-TCGAATCGAAGTTCAAATT
435557 T
1 T
435558 AATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (25 bp):
TTAAATTCGAATCGAAGTTCAAATT
Found at i:450163 original size:13 final size:14
Alignment explanation
Indices: 450142--450174 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
450132 GGTCGCCATT
450142 GACAACAAAAGAGA
1 GACAACAAAAGAGA
450156 GA-AAC-AAAGAGA
1 GACAACAAAAGAGA
450168 GACAACA
1 GACAACA
450175 GAGTCCCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
12 9 0.53
13 6 0.35
14 2 0.12
ACGTcount: A:0.64, C:0.15, G:0.21, T:0.00
Consensus pattern (14 bp):
GACAACAAAAGAGA
Found at i:454821 original size:2 final size:2
Alignment explanation
Indices: 454814--454843 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
454804 TAAAACCACC
454814 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
454844 TTGTTTACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:455337 original size:18 final size:18
Alignment explanation
Indices: 455270--455337 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
455260 AAATCAATAT
* * *
455270 AATTTTAATATAATTTTA
1 AATTTGAATTTAAATTTA
* *
455288 AGTTTGAATTT-GATTATA
1 AATTTGAATTTAAATT-TA
455306 AATTTGAGATTTAAATTTA
1 AATTTGA-ATTTAAATTTA
*
455325 AATTTTAATTTAA
1 AATTTGAATTTAA
455338 TCAAATTTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 2 0.05
18 22 0.56
19 12 0.31
20 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (18 bp):
AATTTGAATTTAAATTTA
Found at i:455369 original size:19 final size:19
Alignment explanation
Indices: 455318--455369 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
455308 TTTGAGATTT
455318 AAATTTAAATTTTAATTTAATC
1 AAATTT-AATTTT--TTTAATC
* *
455340 AAATTTTATTTTTTTATTC
1 AAATTTAATTTTTTTAATC
*
455359 AAGTTTAATTT
1 AAATTTAATTT
455370 AAGATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 15 0.58
21 5 0.19
22 6 0.23
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
AAATTTAATTTTTTTAATC
Found at i:455475 original size:21 final size:20
Alignment explanation
Indices: 455451--455490 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
455441 ATATTTGATA
* *
455451 AAATTTTAATTATTTATATTT
1 AAATTTAAAATATTT-TATTT
455472 AAATTTAAAATATTTTATT
1 AAATTTAAAATATTTTATT
455491 AATTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AAATTTAAAATATTTTATTT
Found at i:455549 original size:21 final size:18
Alignment explanation
Indices: 455492--455541 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
455482 TATTTTATTA
* *
455492 ATTAAAATAATTAAATAT-
1 ATTAAAAT-ATAAAATTTG
455510 ATTAAAATATAAAATTTG
1 ATTAAAATATAAAATTTG
455528 ATTAAAATTATAAA
1 ATTAAAA-TATAAA
455542 TTATTTGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.25
18 15 0.54
19 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTAAAATATAAAATTTG
Found at i:463257 original size:4 final size:4
Alignment explanation
Indices: 463248--463272 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
463238 CAAAAGAATA
463248 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
463273 TGGCTTTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:463510 original size:92 final size:92
Alignment explanation
Indices: 463344--463517 Score: 267
Period size: 92 Copynumber: 1.9 Consensus size: 92
463334 TAGTATTCTC
* * * *
463344 CATTGGCCCAAACTTTTTGGCCTAACCACTCCCTCTTCCAATAACAAATTACAATCCTCTTATTG
1 CATTAGCCAAAACTTTTTGGCCTAACCACTCCCTCTTCCAATAACAAATTACAATCCTATCATTG
463409 AATAATTTATCATGCTTCAATTAATGT
66 AATAATTTATCATGCTTCAATTAATGT
* *
463436 CATTAGCCAAAACTTTTTGGCCTAACCACTCCCTCTTCCAATTACAAATTACAATCTTATCATTG
1 CATTAGCCAAAACTTTTTGGCCTAACCACTCCCTCTTCCAATAACAAATTACAATCCTATCATTG
* * *
463501 GATTATTTATCGTGCTT
66 AATAATTTATCATGCTT
463518 GTTTTGTATT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (92 bp):
CATTAGCCAAAACTTTTTGGCCTAACCACTCCCTCTTCCAATAACAAATTACAATCCTATCATTG
AATAATTTATCATGCTTCAATTAATGT
Found at i:474208 original size:9 final size:9
Alignment explanation
Indices: 474196--474246 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
474186 TTATTTAAAT
*
474196 ATAATATGA
1 ATAATATAA
474205 ATAAATATAA
1 AT-AATATAA
474215 ATAATATAA
1 ATAATATAA
*
474224 ATAATATGA
1 ATAATATAA
*
474233 ATATACATAA
1 ATA-ATATAA
474243 ATAA
1 ATAA
474247 ATACGAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 21 0.58
10 15 0.42
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (9 bp):
ATAATATAA
Found at i:474209 original size:15 final size:15
Alignment explanation
Indices: 474191--474235 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
474181 TTAATTTATT
474191 TAAATATAATATGAA
1 TAAATATAATATGAA
474206 TAAATATAA-AT-AA
1 TAAATATAATATGAA
474219 TATAA-ATAATATGAA
1 TA-AATATAATATGAA
474234 TA
1 TA
474236 TACATAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 8 0.30
14 6 0.22
15 13 0.48
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
TAAATATAATATGAA
Found at i:474220 original size:19 final size:19
Alignment explanation
Indices: 474196--474249 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
474186 TTATTTAAAT
*
474196 ATAATATGAATAAATATAA
1 ATAATATAAATAAATATAA
*
474215 ATAATATAAAT-AATATGA
1 ATAATATAAATAAATATAA
*
474233 ATATACATAAATAAATA
1 ATA-ATATAAATAAATA
474250 CGAATAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.30
19 17 0.57
20 4 0.13
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
ATAATATAAATAAATATAA
Found at i:474236 original size:15 final size:15
Alignment explanation
Indices: 474196--474242 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
474186 TTATTTAAAT
474196 ATAATATGAATA-AA
1 ATAATATGAATATAA
474210 TATAA-AT-AATATAA
1 -ATAATATGAATATAA
*
474224 ATAATATGAATATAC
1 ATAATATGAATATAA
474239 ATAA
1 ATAA
474243 ATAAATACGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 8 0.29
14 6 0.21
15 14 0.50
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (15 bp):
ATAATATGAATATAA
Found at i:474259 original size:19 final size:19
Alignment explanation
Indices: 474204--474278 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
474194 ATATAATATG
** *
474204 AATAAATATAAATAATATA
1 AATAAATACGAATAACATA
*
474223 AAT-AATATGAATATACATA
1 AATAAATACGAATA-ACATA
*
474242 AATAAATACGAATAACATT
1 AATAAATACGAATAACATA
* * *
474261 GATATATACGAATGACAT
1 AATAAATACGAATAACAT
474279 GATTATCACA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
18 9 0.19
19 29 0.62
20 9 0.19
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (19 bp):
AATAAATACGAATAACATA
Found at i:474382 original size:25 final size:24
Alignment explanation
Indices: 474344--474409 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 24
474334 TATATCATTT
* *
474344 ATAATTTAATAAATTTGACATATTA
1 ATAATATAAAAAATTT-ACATATTA
474369 ATAATATAAAAAATACTTACATATTA
1 ATAATATAAAAAAT--TTACATATTA
* *
474395 AAAAAATAAAAAATT
1 ATAATATAAAAAATT
474410 AATATTCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.03
25 12 0.34
26 20 0.57
27 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (24 bp):
ATAATATAAAAAATTTACATATTA
Found at i:474727 original size:19 final size:18
Alignment explanation
Indices: 474696--474736 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
474686 TAAATTCAAA
474696 TAAATATAAAAAATATAT
1 TAAATATAAAAAATATAT
*
474714 TAAATATATTAAAATATAT
1 TAAATATA-AAAAATATAT
474733 TAAA
1 TAAA
474737 CGTGTACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAATATAAAAAATATAT
Found at i:474730 original size:10 final size:10
Alignment explanation
Indices: 474705--474736 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
474695 ATAAATATAA
474705 AAAATATATT
1 AAAATATATT
474715 -AAATATATT
1 AAAATATATT
474724 AAAATATATT
1 AAAATATATT
474734 AAA
1 AAA
474737 CGTGTACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATATATT
Found at i:477788 original size:2 final size:2
Alignment explanation
Indices: 477775--477810 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
477765 GTCATTTATC
*
477775 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
477811 GAGGGCAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:480468 original size:14 final size:15
Alignment explanation
Indices: 480438--480470 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
480428 GTAATATGGT
*
480438 ATAAAAATAATATAA
1 ATAAAAATAATAAAA
480453 ATAAAAAT-ATAAAA
1 ATAAAAATAATAAAA
480467 ATAA
1 ATAA
480471 TTAAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAAAATAATAAAA
Found at i:482721 original size:267 final size:268
Alignment explanation
Indices: 482128--483007 Score: 1402
Period size: 267 Copynumber: 3.3 Consensus size: 268
482118 ATAACCTTGG
* * * *
482128 TGAAACTTCTTGTG-AGGTGCAGGCAAGTCATCCTTGGCTACCGAACA-AGACTCTTATCGTCAT
1 TGAAACCTCTTG-GAAGGAGCAGGCAAGTCATCCTTGGCTACCAAACAGA-ACTCTTATCTTCAT
* * * *
482191 GGAAGACTTCTCTTCCTCGTATGCATGCTTCATTATGATCCCGAACATTTCCTTGATTCCTTTCG
64 GGAAGACCTCTCTTCCTCGTATGCATGCTTCATTGTGATCCCAAACATTTCCTCGATTCCTTTCG
* * * *
482256 CTCCATATATCC--A----AGCTTACCCGTACATACGTTGACAAGGGGAGGAAGACAGGGCCTAG
129 CTCCATATATCCAAATTCTAGATTAGCCGTACGTACGTTGACAAGGGGAGGAAGACAAGGCCTAG
* *
482315 CATGAAAGAAAAGAGCCTGTCAAGTTAGCCAGGGTGACTGCCTGGGACCCAACAAGGGTTTTAGA
194 CATGAAAGAAAAGAGCCTGTCAAGTTAGCCAAGGTGACTGCCTGGGACCCAACAAGGG-TTTACA
482380 GAGATTTGATT
258 GAGATTTGATT
*
482391 TGAAACCTCTTAGAAGGAGCAGGCAAGTCATCCTTGGCTACCAAACAGAACTCTTATCTTCATGG
1 TGAAACCTCTTGGAAGGAGCAGGCAAGTCATCCTTGGCTACCAAACAGAACTCTTATCTTCATGG
*
482456 AAGACCTCTCTTCCTCGTATGCATGCTCCATTGTGATCCCAAACATTTCCTCGATTCCTTTCGCT
66 AAGACCTCTCTTCCTCGTATGCATGCTTCATTGTGATCCCAAACATTTCCTCGATTCCTTTCGCT
482521 CCATATATCCAAATTCTAGATTAGCCGTACGTACGTTGACAAGGGG-GGAAGACAAGGCCTAGCA
131 CCATATATCCAAATTCTAGATTAGCCGTACGTACGTTGACAAGGGGAGGAAGACAAGGCCTAGCA
* *
482585 TGAAAGAAAAGAGCCTGTCAAGTTAGCCAAGGTGACTGCTTGGGACCCAACAAAGGTTTACAGAG
196 TGAAAGAAAAGAGCCTGTCAAGTTAGCCAAGGTGACTGCCTGGGACCCAACAAGGGTTTACAGAG
482650 ATTTGATT
261 ATTTGATT
*
482658 TAAAACCTCTTGGAAGGAGCAGGCAAGTCATCCTTGGCTACCAAACAGAACTCTTATCTTCATGG
1 TGAAACCTCTTGGAAGGAGCAGGCAAGTCATCCTTGGCTACCAAACAGAACTCTTATCTTCATGG
* *
482723 AAGATCTCTCTTCCTCGTATGCATGCTTCATTGTGATTCCAAACATTTCCTCGATTCCTTTCGCT
66 AAGACCTCTCTTCCTCGTATGCATGCTTCATTGTGATCCCAAACATTTCCTCGATTCCTTTCGCT
*
482788 CCATATATCCAAATTCTAGATTAGCCGTACGTACGTTGACAAGGGGAGAAAGACAAGGCCTAGCA
131 CCATATATCCAAATTCTAGATTAGCCGTACGTACGTTGACAAGGGGAGGAAGACAAGGCCTAGCA
* *
482853 TGAAGGAAAAGAGCCTGTCAAGTTAGCCAAGGTGACTGCCCT-GGACCCAACAAGGGTTTTCGAG
196 TGAAAGAAAAGAGCCTGTCAAGTTAGCCAAGGTGACTG-CCTGGGACCCAACAAGGGTTTAC-AG
482917 AGATTTGATT
259 AGATTTGATT
*
482927 TGAAACCTCTTGGAAGGAGCAGGCAAGTCATCCTTGGCTACCAAACAGAACTCTTATCTTCATGT
1 TGAAACCTCTTGGAAGGAGCAGGCAAGTCATCCTTGGCTACCAAACAGAACTCTTATCTTCATGG
* *
482992 TAGACCTTTCTTCCTC
66 AAGACCTCTCTTCCTC
483008 TCTTGAATTT
Statistics
Matches: 573, Mismatches: 33, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
262 1 0.00
263 126 0.22
264 1 0.00
265 1 0.00
267 187 0.33
268 141 0.25
269 116 0.20
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (268 bp):
TGAAACCTCTTGGAAGGAGCAGGCAAGTCATCCTTGGCTACCAAACAGAACTCTTATCTTCATGG
AAGACCTCTCTTCCTCGTATGCATGCTTCATTGTGATCCCAAACATTTCCTCGATTCCTTTCGCT
CCATATATCCAAATTCTAGATTAGCCGTACGTACGTTGACAAGGGGAGGAAGACAAGGCCTAGCA
TGAAAGAAAAGAGCCTGTCAAGTTAGCCAAGGTGACTGCCTGGGACCCAACAAGGGTTTACAGAG
ATTTGATT
Found at i:491444 original size:21 final size:22
Alignment explanation
Indices: 491403--491444 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
491393 GCTAAGCCAT
*
491403 CCAAGAAAAAACAAATGAAAGA
1 CCAAGAAAAAACAAATCAAAGA
491425 CCAA-AAAAAA-AAACTCAAAG
1 CCAAGAAAAAACAAA-TCAAAG
491445 TAGTGTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 3 0.17
21 11 0.61
22 4 0.22
ACGTcount: A:0.69, C:0.17, G:0.10, T:0.05
Consensus pattern (22 bp):
CCAAGAAAAAACAAATCAAAGA
Found at i:492201 original size:21 final size:21
Alignment explanation
Indices: 492183--492228 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
492173 TATTAAAATT
492183 TTACTATATTATTTTAAAAAA
1 TTACTATATTATTTTAAAAAA
492204 TTACTATATTATTTTAAAAAA
1 TTACTATATTATTTTAAAAAA
492225 TTAC
1 TTAC
492229 AAATTTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
TTACTATATTATTTTAAAAAA
Found at i:498279 original size:3 final size:3
Alignment explanation
Indices: 498271--498317 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
498261 ATATTTCTGC
*
498271 ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
498318 ATCCAACCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:498678 original size:22 final size:22
Alignment explanation
Indices: 498661--498905 Score: 97
Period size: 23 Copynumber: 10.3 Consensus size: 22
498651 TTATAACTAC
*
498661 TATTATATTTATAAATAAATAA
1 TATTATATTAATAAATAAATAA
498683 TATTATATTAATAATAATATAATAA
1 TATTATATTAAT-A-AATA-AATAA
* * *
498708 TAAATATTATTAATTTAATTAATAAA
1 T-ATTA-TATTAA-TAAATAAAT-AA
498734 TAATGTACTATTAATATAATATATTAATAAA
1 T-AT-TA-TATT-A-ATAA-ATA--AAT-AA
* * *
498765 TATTATAATAATATATGAATAAA
1 TATTATATTAATAAATAAAT-AA
* *
498788 TAATATATT-ATTAATAAATAA
1 TATTATATTAATAAATAAATAA
*
498809 TA-TACTATTAATATAATATATTAA
1 TATTA-TATTAATA-AATA-AATAA
* *
498833 TAAATATTATTAATAAATATTATAA
1 T-ATTA-TATTAATAAATA-AATAA
* *
498858 TAATATATGAATAAAT-AAT-A
1 TATTATATTAATAAATAAATAA
*
498878 TA-T-TATTAATAAATAATATAC
1 TATTATATTAATAAATAA-ATAA
498899 TATTATA
1 TATTATA
498906 AATAATAATT
Statistics
Matches: 174, Mismatches: 25, Indels: 47
0.71 0.10 0.19
Matches are distributed among these distances:
18 10 0.06
19 2 0.01
20 7 0.04
21 12 0.07
22 21 0.12
23 30 0.17
24 13 0.07
25 21 0.12
26 24 0.14
27 13 0.07
28 7 0.04
29 5 0.03
30 2 0.01
31 7 0.04
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (22 bp):
TATTATATTAATAAATAAATAA
Found at i:498816 original size:72 final size:71
Alignment explanation
Indices: 498687--498931 Score: 258
Period size: 72 Copynumber: 3.4 Consensus size: 71
498677 AAATAATATT
* *
498687 ATATTAATAATAATATAATAATAAATATTATTAATTTAATTAATAAATAATGTACTATTAATATA
1 ATATT-ATAATAATAT-ATAATAAATAATA-T-A-TT-ATTAATAAATAATATACTATTAATATA
498752 ATATATTAATAA
60 ATATATTAATAA
498764 ATATTATAATAATATATGAATAAATAATATATTATTAATAAATAATATACTATTAATATAATATA
1 ATATTATAATAATATAT-AATAAATAATATATTATTAATAAATAATATACTATTAATATAATATA
498829 TTAATAA
65 TTAATAA
* * *
498836 ATATTATTAATAA-ATATTAT-AAT-A-ATA-TATGAATAAATAATATATTATTAATA-AATA-A
1 ATATTA-TAATAATATATAATAAATAATATATTATTAATAAATAATATACTATTAATATAATATA
498894 -T-AT-A
65 TTAATAA
*
498898 CTATTATAAATAATAATTATTAATAAATAATATA
1 ATATTAT-AATAAT-A-TA-TAATAAATAATATA
498932 AAAATAATAA
Statistics
Matches: 151, Mismatches: 7, Indels: 28
0.81 0.04 0.15
Matches are distributed among these distances:
61 1 0.01
62 11 0.07
63 2 0.01
64 2 0.01
65 3 0.02
66 7 0.05
67 27 0.18
68 4 0.03
69 4 0.03
70 3 0.02
71 2 0.01
72 48 0.32
73 8 0.05
74 1 0.01
75 3 0.02
76 20 0.13
77 5 0.03
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (71 bp):
ATATTATAATAATATATAATAAATAATATATTATTAATAAATAATATACTATTAATATAATATAT
TAATAA
Found at i:498846 original size:85 final size:87
Alignment explanation
Indices: 498742--498926 Score: 322
Period size: 85 Copynumber: 2.1 Consensus size: 87
498732 AATAATGTAC
498742 TATTAATATAATATATTAATAAATATTATAATAATATATGAATAAATAATATATTATTAATAAAT
1 TATTAATA-AATATATTAATAAATATTATAATAATATATGAATAAATAATATATTATTAATAAAT
*
498807 AATATACTATTA-ATATAAT-A-
65 AATATACTATTATAAATAATAAT
498827 TATTAATAAATATTATTAATAAATATTATAATAATATATGAATAAATAATATATTATTAATAAAT
1 TATTAATAAATA-TATTAATAAATATTATAATAATATATGAATAAATAATATATTATTAATAAAT
498892 AATATACTATTATAAATAATAAT
65 AATATACTATTATAAATAATAAT
498915 TATTAATAAATA
1 TATTAATAAATA
498927 ATATAAAAAT
Statistics
Matches: 95, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
84 4 0.04
85 72 0.76
86 6 0.06
87 1 0.01
88 12 0.13
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (87 bp):
TATTAATAAATATATTAATAAATATTATAATAATATATGAATAAATAATATATTATTAATAAATA
ATATACTATTATAAATAATAAT
Found at i:499012 original size:11 final size:13
Alignment explanation
Indices: 498981--499016 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
498971 ACATAATATT
498981 TTATATATTAAATA
1 TTAT-TATTAAATA
498995 TTATTATTAAAATA
1 TTATTATT-AAATA
499009 TTATTATT
1 TTATTATT
499017 TTTTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATTATTAAATA
Found at i:499037 original size:15 final size:15
Alignment explanation
Indices: 499017--499057 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
499007 TATTATTATT
*
499017 TTTTAATATTAATAA
1 TTTTAATATAAATAA
499032 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
499048 CTTTAATATA
1 TTTTAATATA
499058 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:499062 original size:26 final size:26
Alignment explanation
Indices: 499025--499090 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
499015 TTTTTTAATA
499025 TTAATA-ATTTTAATAATAAATAACT
1 TTAATATATTTTAATAATAAATAACT
*
499050 TTAATATATTTTAATAATAAATAATT
1 TTAATATATTTTAATAATAAATAACT
*
499076 TTTA-ATATTTTAATA
1 TTAATATATTTTAATA
499091 GTTATATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 17 0.45
26 21 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
TTAATATATTTTAATAATAAATAACT
Found at i:499082 original size:10 final size:9
Alignment explanation
Indices: 499020--499090 Score: 53
Period size: 9 Copynumber: 8.2 Consensus size: 9
499010 TATTATTTTT
*
499020 TAATATTAA
1 TAATTTTAA
499029 TAATTTTAA
1 TAATTTTAA
*
499038 TAA--TAAA
1 TAATTTTAA
*
499045 TAACTTTAA
1 TAATTTTAA
499054 TATATTTTAA
1 TA-ATTTTAA
*
499064 TAA--TAAA
1 TAATTTTAA
499071 TAATTTTTAA
1 TAA-TTTTAA
499081 T-ATTTTAA
1 TAATTTTAA
499089 TA
1 TA
499091 GTTATATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
7 12 0.24
8 7 0.14
9 18 0.37
10 12 0.24
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (9 bp):
TAATTTTAA
Found at i:503573 original size:12 final size:12
Alignment explanation
Indices: 503542--503575 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
503532 TCAGCTGAAC
*
503542 AAGAAAAAAAAA
1 AAGAAAACAAAA
503554 AAGAAAACAAAA
1 AAGAAAACAAAA
*
503566 AGGAAAACAA
1 AAGAAAACAA
503576 TCAGAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (12 bp):
AAGAAAACAAAA
Found at i:508630 original size:16 final size:16
Alignment explanation
Indices: 508599--508638 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
508589 ATTGTATTTG
*
508599 ATTAATA-TATAAAAA
1 ATTAATATTAAAAAAA
508614 ATTAATATTAAAAAAA
1 ATTAATATTAAAAAAA
508630 ATTAATATT
1 ATTAATATT
508639 CTCTTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAATATTAAAAAAA
Found at i:513718 original size:70 final size:70
Alignment explanation
Indices: 513623--513762 Score: 208
Period size: 70 Copynumber: 2.0 Consensus size: 70
513613 TTTCATACTG
* * *
513623 GAATCTAGTGTTCCACTTTTAATTATGGAAATTATCATATTAAAACCATCTACTAAGTACTCATA
1 GAATCTAGTATTCCACTCTTAATTATGGAAATTATCATATTAAAACCATCTACTAAGCACTCATA
513688 CACTA
66 CACTA
* * * * *
513693 GAATCTAGTATTTCACTCTTAATTATGGAAATTGTTATATTAAAACCATCTACTGAGCGCTCATA
1 GAATCTAGTATTCCACTCTTAATTATGGAAATTATCATATTAAAACCATCTACTAAGCACTCATA
513758 CACTA
66 CACTA
513763 TTATTAAGCA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (70 bp):
GAATCTAGTATTCCACTCTTAATTATGGAAATTATCATATTAAAACCATCTACTAAGCACTCATA
CACTA
Found at i:514786 original size:61 final size:61
Alignment explanation
Indices: 514703--514835 Score: 223
Period size: 61 Copynumber: 2.2 Consensus size: 61
514693 ATCTTTAAAC
* *
514703 TTTAAAAGA-TAACATATTAATCCTTATCTTCATCAAATCTATAATTGAATCATGCAAAGA
1 TTTAAAAAATTAACATATTAATCCTTATCTTCATCAAATCTATAATTGAATCATGAAAAGA
*
514763 TTTAAAAAATTAACATATTAATCCTTATCTTCGTCAAATCTATAATTGAATCATGAAAAGA
1 TTTAAAAAATTAACATATTAATCCTTATCTTCATCAAATCTATAATTGAATCATGAAAAGA
*
514824 TTAAAAAAATTA
1 TTTAAAAAATTA
514836 TAAAGTAGGA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
60 8 0.12
61 60 0.88
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (61 bp):
TTTAAAAAATTAACATATTAATCCTTATCTTCATCAAATCTATAATTGAATCATGAAAAGA
Found at i:515462 original size:18 final size:18
Alignment explanation
Indices: 515429--515463 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
515419 AATTTTTGAA
* *
515429 GAAATATTTTATAATAAT
1 GAAATATTGTAAAATAAT
515447 GAAATATTGTAAAATAA
1 GAAATATTGTAAAATAA
515464 ATTATACATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (18 bp):
GAAATATTGTAAAATAAT
Found at i:516950 original size:21 final size:22
Alignment explanation
Indices: 516919--516971 Score: 90
Period size: 21 Copynumber: 2.4 Consensus size: 22
516909 TTATATAATT
516919 ATATATTTATATTTAAAAAAT-A
1 ATAT-TTTATATTTAAAAAATAA
516941 ATATTTTATATTTAAAAAATAA
1 ATATTTTATATTTAAAAAATAA
516963 ATATTTTAT
1 ATATTTTAT
516972 TAATTTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATTTTATATTTAAAAAATAA
Found at i:525167 original size:24 final size:27
Alignment explanation
Indices: 525140--525200 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
525130 TATAATTTTT
*
525140 TTATTTTATTAAA-TTCA-T-ATATAA
1 TTATTTTATTAAATTTAACTCATATAA
*
525164 TTATTACTA-TAAATTTAACTCATATAA
1 TTATT-TTATTAAATTTAACTCATATAA
525191 TTATTTTATT
1 TTATTTTATT
525201 TTATTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
24 9 0.31
25 5 0.17
26 3 0.10
27 12 0.41
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (27 bp):
TTATTTTATTAAATTTAACTCATATAA
Found at i:525206 original size:27 final size:27
Alignment explanation
Indices: 525129--525206 Score: 68
Period size: 29 Copynumber: 2.8 Consensus size: 27
525119 AAAATATAAA
* * *
525129 ATATAATTTTTTTATTTTATTAAATTC
1 ATATAATTATTTTATTTTATTTAACTC
* **
525156 ATAT-ATAATTATTACTATAAATTTAACTC
1 ATATAATTATT-TTA-T-TTTATTTAACTC
525185 ATATAATTATTTTATTTTATTT
1 ATATAATTATTTTATTTTATTT
525207 TTATATCATA
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
26 4 0.11
27 12 0.32
28 2 0.05
29 15 0.39
30 5 0.13
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATAATTATTTTATTTTATTTAACTC
Found at i:526349 original size:14 final size:14
Alignment explanation
Indices: 526322--526366 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 14
526312 AGATGAAATA
526322 AAAAATTTTA--TT
1 AAAAATTTTATTTT
526334 AAAAATTTTATTTT
1 AAAAATTTTATTTT
526348 AAAAATATTTATTTAT
1 AAAAAT-TTTATTT-T
526364 AAA
1 AAA
526367 TTATTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.34
14 8 0.28
15 7 0.24
16 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAAAATTTTATTTT
Found at i:526358 original size:15 final size:15
Alignment explanation
Indices: 526320--526366 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 15
526310 TGAGATGAAA
*
526320 TAAAAA-ATTT-TAT
1 TAAAAATATTTATTT
526333 TAAAAAT-TTTATTT
1 TAAAAATATTTATTT
526347 TAAAAATATTTATTT
1 TAAAAATATTTATTT
526362 ATAAA
1 -TAAA
526367 TTATTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.31
14 9 0.31
15 7 0.24
16 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAAAATATTTATTT
Found at i:526367 original size:14 final size:13
Alignment explanation
Indices: 526322--526368 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
526312 AGATGAAATA
526322 AAAAATTTTA-TT
1 AAAAATTTTATTT
526334 AAAAATTTTATTTT
1 AAAAATTTTA-TTT
526348 AAAAATATTTATTT
1 AAAAAT-TTTATTT
*
526362 ATAAATT
1 AAAAATT
526369 ATTTTTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 10 0.32
13 1 0.03
14 16 0.52
15 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAAAATTTTATTT
Found at i:526367 original size:28 final size:26
Alignment explanation
Indices: 526322--526376 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 26
526312 AGATGAAATA
526322 AAAAATTTTATTAAAAATT-TTATTTT
1 AAAAATTTTATTAAAAATTATT-TTTT
*
526348 AAAAATATTTATTTATAAATTATTTTTT
1 AAAAAT-TTTA-TTAAAAATTATTTTTT
526376 A
1 A
526377 TATATTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 6 0.24
27 4 0.16
28 13 0.52
29 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AAAAATTTTATTAAAAATTATTTTTT
Found at i:526376 original size:14 final size:14
Alignment explanation
Indices: 526326--526384 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
526316 GAAATAAAAA
*
526326 ATTTTATTAAAAATT
1 ATTTT-TTATAAATT
*
526341 -TTATTTTA-AAAAT
1 ATT-TTTTATAAATT
526354 ATTTATTTATAAATT
1 ATTT-TTTATAAATT
*
526369 ATTTTTTATATATT
1 ATTTTTTATAAATT
526383 AT
1 AT
526385 AATATTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.14
14 22 0.59
15 10 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTTTATAAATT
Found at i:526398 original size:12 final size:12
Alignment explanation
Indices: 526351--526402 Score: 56
Period size: 11 Copynumber: 4.5 Consensus size: 12
526341 TTATTTTAAA
526351 AATATTTATTTAT
1 AATA-TTATTTAT
*
526364 AA-ATTATTTTT
1 AATATTATTTAT
*
526375 TATA-TA-TTAT
1 AATATTATTTAT
526385 AATATTATTTAT
1 AATATTATTTAT
526397 AATATT
1 AATATT
526403 TAAAATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
10 6 0.19
11 12 0.38
12 12 0.38
13 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
AATATTATTTAT
Found at i:526401 original size:22 final size:21
Alignment explanation
Indices: 526360--526409 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
526350 AAATATTTAT
* *
526360 TTATAAATTATTTTTTATATA
1 TTATAAATTATTTATAATATA
526381 TTATAATATTATTTATAATAT-
1 TTATAA-ATTATTTATAATATA
526402 TTA-AAATT
1 TTATAAATT
526410 TAAAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 9 0.35
22 12 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATAAATTATTTATAATATA
Found at i:526930 original size:22 final size:23
Alignment explanation
Indices: 526905--526970 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 23
526895 AAAATTATAA
526905 AATAAATTTATTAATTTTTT-AT
1 AATAAATTTATTAATTTTTTAAT
526927 AATAAATAAGTT-TT-ATTTTTTAAAT
1 AATAAAT---TTATTAATTTTTT-AAT
*
526952 AATAAATTAATTAATTTTT
1 AATAAATTTATTAATTTTT
526971 AATTAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
22 8 0.22
23 9 0.25
24 8 0.22
25 11 0.31
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATAAATTTATTAATTTTTTAAT
Found at i:526987 original size:35 final size:36
Alignment explanation
Indices: 526941--527013 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 36
526931 AATAAGTTTT
*
526941 ATTTTTTAAATAATAAATTAA-TT-AATTTTTAATTA
1 ATTTTATAAATAATAAA-TAATTTAAATTTTTAATTA
* *
526976 ATTTTATAAATATTAAATAATTTAAATTTTTTATTA
1 ATTTTATAAATAATAAATAATTTAAATTTTTAATTA
527012 AT
1 AT
527014 ATAATTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 3 0.09
35 17 0.52
36 13 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (36 bp):
ATTTTATAAATAATAAATAATTTAAATTTTTAATTA
Found at i:527138 original size:21 final size:21
Alignment explanation
Indices: 527109--527159 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
527099 TAATTAATTA
* * *
527109 TAATCTTATCATTATAATATT
1 TAATTTTATCATTACAATAAT
527130 TAATTTTATCATTACAATAAT
1 TAATTTTATCATTACAATAAT
527151 TAATTTTAT
1 TAATTTTAT
527160 TTCTATCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTTTATCATTACAATAAT
Found at i:527970 original size:15 final size:15
Alignment explanation
Indices: 527935--527975 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
527925 TAAATATTAA
527935 TTTTAA-TAAAA-TT
1 TTTTAATTAAAATTT
527948 TTTT-ATTAAAATTT
1 TTTTAATTAAAATTT
*
527962 TTTTAATTATAATT
1 TTTTAATTAAAATT
527976 ATAGTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.04
13 9 0.38
14 6 0.25
15 8 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTAATTAAAATTT
Found at i:531765 original size:2 final size:2
Alignment explanation
Indices: 531758--531822 Score: 78
Period size: 2 Copynumber: 32.5 Consensus size: 2
531748 TTATAAAGGA
* * * *
531758 AT AT AT AT AT AT AT AT AT AT AC AC AT -T CAC AG AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
531800 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
531823 AAGAGTAGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:534243 original size:20 final size:20
Alignment explanation
Indices: 534220--534266 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
534210 TAAATATATT
534220 TTAAAAATTTTAAAATAAAA
1 TTAAAAATTTTAAAATAAAA
* * *
534240 TTAATAATTTTATATTAAAA
1 TTAAAAATTTTAAAATAAAA
534260 TTAAAAA
1 TTAAAAA
534267 AATTAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAAAATTTTAAAATAAAA
Found at i:538695 original size:21 final size:21
Alignment explanation
Indices: 538669--538723 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
538659 TATTTTAAAA
*
538669 ATATATTTATAAATTATTTTT
1 ATATATTTATAAATTATTTAT
538690 ATATA-TTATAATATTATTTAT
1 ATATATTTATAA-ATTATTTAT
538711 A-ATATTTA-AAATT
1 ATATATTTATAAATT
538724 TAAAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 3 0.10
20 11 0.35
21 17 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATATTTATAAATTATTTAT
Found at i:538712 original size:12 final size:12
Alignment explanation
Indices: 538668--538716 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 12
538658 TTATTTTAAA
538668 AATA-TATTTAT
1 AATATTATTTAT
538679 AA-ATTATTT-T
1 AATATTATTTAT
*
538689 TATA-TA-TTAT
1 AATATTATTTAT
538699 AATATTATTTAT
1 AATATTATTTAT
538711 AATATT
1 AATATT
538717 TAAAATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
9 2 0.06
10 9 0.29
11 10 0.32
12 10 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATATTATTTAT
Found at i:539246 original size:22 final size:23
Alignment explanation
Indices: 539218--539283 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 23
539208 AAAATTATAA
539218 AATAAATTTATTAATTTTTT-AT
1 AATAAATTTATTAATTTTTTAAT
539240 AATAAATAAGTT-TT-ATTTTTTAAAT
1 AATAAAT---TTATTAATTTTTT-AAT
*
539265 AATAAATTAATTAATTTTT
1 AATAAATTTATTAATTTTT
539284 AATTAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
22 8 0.22
23 9 0.25
24 8 0.22
25 11 0.31
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATAAATTTATTAATTTTTTAAT
Found at i:539300 original size:35 final size:36
Alignment explanation
Indices: 539254--539326 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 36
539244 AATAAGTTTT
*
539254 ATTTTTTAAATAATAAATTAA-TT-AATTTTTAATTA
1 ATTTTATAAATAATAAA-TAATTTAAATTTTTAATTA
* *
539289 ATTTTATAAATATTAAATAATTTAAATTTTTTATTA
1 ATTTTATAAATAATAAATAATTTAAATTTTTAATTA
539325 AT
1 AT
539327 ATAATTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 3 0.09
35 17 0.52
36 13 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (36 bp):
ATTTTATAAATAATAAATAATTTAAATTTTTAATTA
Found at i:539304 original size:30 final size:29
Alignment explanation
Indices: 539270--539348 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 29
539260 TAAATAATAA
539270 ATTAATTAATTTTTAATTAATTTTATAAAT
1 ATTAATTAATTTTTAATT-ATTTTATAAAT
* * *
539300 ATTAAATAA-TTTAAATT-TTTTATTAAT
1 ATTAATTAATTTTTAATTATTTTATAAAT
*
539327 A-TAATTTATTTTCTAA-TATTTT
1 ATTAATTAATTTT-TAATTATTTT
539349 TATTTTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
26 5 0.12
27 14 0.35
28 6 0.15
29 7 0.17
30 8 0.20
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (29 bp):
ATTAATTAATTTTTAATTATTTTATAAAT
Found at i:539447 original size:21 final size:21
Alignment explanation
Indices: 539418--539468 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
539408 TAATTAATTA
* * *
539418 TAATCTTATCATTATAATATT
1 TAATTTTATCATTACAATAAT
**
539439 TAATTTTATTGTTACAATAAT
1 TAATTTTATCATTACAATAAT
539460 TAATTTTAT
1 TAATTTTAT
539469 TTCTATCACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (21 bp):
TAATTTTATCATTACAATAAT
Found at i:540278 original size:14 final size:14
Alignment explanation
Indices: 540244--540283 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
540234 TAAATATTAA
540244 TTTTAA-TAAAATT
1 TTTTAATTAAAATT
540257 TTTT-ATTAAAATT
1 TTTTAATTAAAATT
*
540270 TTTTAATTATAATT
1 TTTTAATTAAAATT
540284 ATAGTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 1 0.04
13 15 0.62
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAATTAAAATT
Found at i:544062 original size:2 final size:2
Alignment explanation
Indices: 544055--544119 Score: 78
Period size: 2 Copynumber: 32.5 Consensus size: 2
544045 TTATAAAGGA
* * * *
544055 AT AT AT AT AT AT AT AT AT AT AC AC AT -T CAC AG AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
544097 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
544120 AAGAGTAGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:550636 original size:16 final size:16
Alignment explanation
Indices: 550589--550638 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
550579 TATTTTTTAA
*
550589 TTAATTATTTATATATAT
1 TTAAATATTTATAT-T-T
* *
550607 TTAAATAATGATATTT
1 TTAAATATTTATATTT
550623 TTAAATATTTATATTT
1 TTAAATATTTATATTT
550639 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 15 0.56
17 1 0.04
18 11 0.41
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTAAATATTTATATTT
Found at i:550656 original size:21 final size:21
Alignment explanation
Indices: 550626--550676 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
550616 GATATTTTTA
550626 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
550646 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
550667 AATATTTTAT
1 AATATTTTAT
550677 TAATTTCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:550831 original size:17 final size:17
Alignment explanation
Indices: 550806--550840 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
550796 AACCTGACCC
*
550806 GATGTCAACCCTACTTA
1 GATGGCAACCCTACTTA
550823 GATGGCAACCCTACTTA
1 GATGGCAACCCTACTTA
550840 G
1 G
550841 GAATCAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (17 bp):
GATGGCAACCCTACTTA
Found at i:559170 original size:15 final size:15
Alignment explanation
Indices: 559150--559213 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 15
559140 ATTTAAGTAT
559150 TTAAATTTAAATTTA
1 TTAAATTTAAATTTA
*
559165 TTAAATATT--ATTTT
1 TTAAAT-TTAAATTTA
* *
559179 TTAAAATATAAATAT-
1 TT-AAATTTAAATTTA
559194 TTAAATTTAAATTTA
1 TTAAATTTAAATTTA
559209 TTAAA
1 TTAAA
559214 AGTTATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.44
15 17 0.44
16 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAATTTAAATTTA
Found at i:559195 original size:44 final size:44
Alignment explanation
Indices: 559137--559224 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
559127 AGATAGAAAA
* *
559137 AAAATTTAAGTATTTAAATTTAAATTTATTAAATA-TTATTTTTT
1 AAAATATAAATATTTAAATTTAAATTTATTAAA-AGTTATTTTTT
559181 AAAATATAAATATTTAAATTTAAATTTATTAAAAGTTATTTTTT
1 AAAATATAAATATTTAAATTTAAATTTATTAAAAGTTATTTTTT
559225 TAAGAATAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (44 bp):
AAAATATAAATATTTAAATTTAAATTTATTAAAAGTTATTTTTT
Found at i:559935 original size:13 final size:13
Alignment explanation
Indices: 559914--559953 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
559904 TTTTAATCTA
559914 TTAATTTTTATTT
1 TTAATTTTTATTT
* *
559927 TTGATTTTTAATT
1 TTAATTTTTATTT
559940 TTAATTTTTGATTT
1 TTAATTTTT-ATTT
559954 AAATTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (13 bp):
TTAATTTTTATTT
Found at i:559937 original size:20 final size:20
Alignment explanation
Indices: 559914--559953 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
559904 TTTTAATCTA
*
559914 TTAATTTTTATTTTTGATTT
1 TTAATTTTAATTTTTGATTT
559934 TTAATTTTAATTTTTGATTT
1 TTAATTTTAATTTTTGATTT
559954 AAATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TTAATTTTAATTTTTGATTT
Done.