Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 278 of 335
Found at i:84201433 original size:21 final size:21
Alignment explanation
Indices: 84201403--84201446 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
84201393 TTTTCCAAAG
* *
84201403 GTATGTATTGGATTGAATTGA
1 GTATGAATTGGATTAAATTGA
*
84201424 GTATGAATTGTATTAAATTGA
1 GTATGAATTGGATTAAATTGA
84201445 GT
1 GT
84201447 TAAATTCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (21 bp):
GTATGAATTGGATTAAATTGA
Found at i:84201894 original size:25 final size:25
Alignment explanation
Indices: 84201786--84202006 Score: 126
Period size: 25 Copynumber: 9.0 Consensus size: 25
84201776 CCGAGCGTCC
*
84201786 CGATAATTGGCTATCATGAGCTTGC-
1 CGATAATTGGCTCTCATGAGCTT-CT
* ** *
84201811 CG-TTATATGGCTCTCACAAGCTTCC
1 CGATAAT-TGGCTCTCATGAGCTTCT
* *
84201836 CGATTAA-TGGCT-TCTTGAGATT-T
1 CGA-TAATTGGCTCTCATGAGCTTCT
* *
84201859 CCGTTTA-TGGCTCGT-ATGAGCTTCT
1 -CGATAATTGGCTC-TCATGAGCTTCT
84201884 CGATAATTGGCTCTCCA-GAGCTT-T
1 CGATAATTGGCTCT-CATGAGCTTCT
84201908 CCGATAATTGGCTCTCCA-GAGCTT-T
1 -CGATAATTGGCTCT-CATGAGCTTCT
*
84201933 CCTATAATTGGCTCTCATGAGCTTCT
1 -CGATAATTGGCTCTCATGAGCTTCT
* ** *
84201959 TGATTAA-TGGCTCTCCGGAGCTCCT
1 CGA-TAATTGGCTCTCATGAGCTTCT
*
84201984 CGAT-ATTGGCTCGCATGAGCTTC
1 CGATAATTGGCTCTCATGAGCTTC
84202007 CCGTTTATGA
Statistics
Matches: 153, Mismatches: 27, Indels: 33
0.72 0.13 0.15
Matches are distributed among these distances:
23 8 0.05
24 40 0.26
25 98 0.64
26 5 0.03
27 2 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
CGATAATTGGCTCTCATGAGCTTCT
Found at i:84201930 original size:50 final size:50
Alignment explanation
Indices: 84201786--84202006 Score: 155
Period size: 50 Copynumber: 4.5 Consensus size: 50
84201776 CCGAGCGTCC
* *
84201786 CGATAATTGGCTATCATGAGCTTGC-CG-TTATATGGCTCTCACA-AGCTTCC
1 CGATAATTGGCTCTCATGAGCTT-CTCGATTA-ATGGCTCTC-CAGAGCTTCT
* * *
84201836 CGATTAA-TGGCT-TCTTGAGATT-TCCG-TTTATGGCTCGT--ATGAGCTTCT
1 CGA-TAATTGGCTCTCATGAGCTTCT-CGATTAATGGCTC-TCCA-GAGCTTCT
84201884 CGATAATTGGCTCTCCA-GAGCTT-TCCGA-TAATTGGCTCTCCAGAGCTT-T
1 CGATAATTGGCTCT-CATGAGCTTCT-CGATTAA-TGGCTCTCCAGAGCTTCT
* * * *
84201933 CCTATAATTGGCTCTCATGAGCTTCTTGATTAATGGCTCTCCGGAGCTCCT
1 -CGATAATTGGCTCTCATGAGCTTCTCGATTAATGGCTCTCCAGAGCTTCT
*
84201984 CGAT-ATTGGCTCGCATGAGCTTC
1 CGATAATTGGCTCTCATGAGCTTC
84202007 CCGTTTATGA
Statistics
Matches: 140, Mismatches: 13, Indels: 37
0.74 0.07 0.19
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 21 0.15
49 47 0.34
50 59 0.42
51 9 0.06
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (50 bp):
CGATAATTGGCTCTCATGAGCTTCTCGATTAATGGCTCTCCAGAGCTTCT
Found at i:84203523 original size:39 final size:39
Alignment explanation
Indices: 84203510--84203690 Score: 317
Period size: 39 Copynumber: 4.6 Consensus size: 39
84203500 TAACTTGCAA
84203510 ACCTTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGG
1 ACCTTAAGTCCGGA-TATAATTCCAGCATATAGCCTGCGG
* *
84203550 ACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCAG
1 ACCTTAAGTCCGGATATAATTCCAGCATATAGCCTGCGG
84203589 ACCTTAAGTCCGGATATAATTCCAGCATATAGCCTGCGG
1 ACCTTAAGTCCGGATATAATTCCAGCATATAGCCTGCGG
*
84203628 ACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGG
1 ACCTTAAGTCCGGATATAATTCCAGCATATAGCCTGCGG
*
84203667 ACCTTAAGTCCTGATATAATTCCA
1 ACCTTAAGTCCGGATATAATTCCA
84203691 AATATCATGC
Statistics
Matches: 134, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 120 0.90
40 14 0.10
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (39 bp):
ACCTTAAGTCCGGATATAATTCCAGCATATAGCCTGCGG
Found at i:84203635 original size:78 final size:78
Alignment explanation
Indices: 84203480--84203690 Score: 350
Period size: 78 Copynumber: 2.7 Consensus size: 78
84203470 AACTTCAAGC
** * * *
84203480 CCGGATATATTTCCAGCACGTAACTTGCAAACCTTAAGTCCGGATTATAATTCCAGCATATAGCC
1 CCGGATATATTTCCAGCATATAGCCTGCAGACCTTAAGTCCGGA-TATAATTCCAGCATATAGCC
84203545 TGCGGACCTTAAGT
65 TGCGGACCTTAAGT
84203559 CCGGATATATTTCCAGCATATAGCCTGCAGACCTTAAGTCCGGATATAATTCCAGCATATAGCCT
1 CCGGATATATTTCCAGCATATAGCCTGCAGACCTTAAGTCCGGATATAATTCCAGCATATAGCCT
84203624 GCGGACCTTAAGT
66 GCGGACCTTAAGT
* *
84203637 CCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCTGATATAATTCCA
1 CCGGATATATTTCCAGCATATAGCCTGCAGACCTTAAGTCCGGATATAATTCCA
84203691 AATATCATGC
Statistics
Matches: 125, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
78 86 0.69
79 39 0.31
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (78 bp):
CCGGATATATTTCCAGCATATAGCCTGCAGACCTTAAGTCCGGATATAATTCCAGCATATAGCCT
GCGGACCTTAAGT
Found at i:84204307 original size:2 final size:2
Alignment explanation
Indices: 84204300--84204324 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84204290 TGAATTTAAC
84204300 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
84204325 CCGAATGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:84214136 original size:14 final size:14
Alignment explanation
Indices: 84214117--84214148 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
84214107 AAACAAATTG
84214117 GAAAGATTTATTAT
1 GAAAGATTTATTAT
84214131 GAAAGATTTATTAT
1 GAAAGATTTATTAT
84214145 GAAA
1 GAAA
84214149 TACAATTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (14 bp):
GAAAGATTTATTAT
Found at i:84215393 original size:3 final size:3
Alignment explanation
Indices: 84215385--84215762 Score: 203
Period size: 3 Copynumber: 127.7 Consensus size: 3
84215375 ATTAATTAAT
** * * * **
84215385 TTA TTA TTA TT- TTA ACA -TA TTA TTA TTA TTC TTA TCA ATA ACA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
84215430 TTA TTA TTC TTC TTA TCAA TGTA TTA TTA TTA CTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA
*** * * * *
84215478 CCC TTA TTA TTA CTA TTA TT- TTAA TTT TTA TCA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* * *
84215523 TTA TTA TTA TTA TTA TTA CTA TT- GTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
84215570 TTA TTA TTA -TA TT- TTC TT- TTG TGT- TTA CTTA -TA GTT- TAA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA -TTA TTA T-TA
* * * * **
84215613 TTA TTA TTA TTA CTA TTA TTT TTA CTA TTA TTTA TTA TCA CCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * * *
84215659 TTA TTA CTG TTA ATA TTA TT- TT- TTA TTA CTA TT- TTA TT- TCTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * *
84215701 TTCT TTG TTA TTA TTA TTA TTA CTA TTA -TA TTA TTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
84215746 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
84215763 TATATTTTGT
Statistics
Matches: 288, Mismatches: 62, Indels: 50
0.72 0.16 0.12
Matches are distributed among these distances:
2 26 0.09
3 241 0.84
4 21 0.07
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:84215454 original size:23 final size:24
Alignment explanation
Indices: 84215401--84215461 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 24
84215391 TTATTTTAAC
84215401 ATATTATTATTATTCTTATCAATAA
1 ATATTATTATTATTCTTATCAAT-A
*
84215426 CATATTATTATTCTTCTTATCAAT-
1 -ATATTATTATTATTCTTATCAATA
*
84215450 GTATTATTATTA
1 ATATTATTATTA
84215462 CTATTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.31
26 22 0.69
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (24 bp):
ATATTATTATTATTCTTATCAATA
Found at i:84215461 original size:26 final size:26
Alignment explanation
Indices: 84215397--84215449 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
84215387 ATTATTATTT
84215397 TAACATATTATTATTATTCTTATCAA
1 TAACATATTATTATTATTCTTATCAA
*
84215423 TAACATATTATTATTCTTCTTATCAA
1 TAACATATTATTATTATTCTTATCAA
84215449 T
1 T
84215450 GTATTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (26 bp):
TAACATATTATTATTATTCTTATCAA
Found at i:84215768 original size:12 final size:12
Alignment explanation
Indices: 84215715--84215837 Score: 64
Period size: 12 Copynumber: 10.1 Consensus size: 12
84215705 TTGTTATTAT
84215715 TATTATTACTATTA
1 TATTATTA-T-TTA
84215729 TATTATTA-TTA
1 TATTATTATTTA
84215740 TTATTATTA-TTA
1 -TATTATTATTTA
84215752 TTATTATTATTTA
1 -TATTATTATTTA
*
84215765 TATT-TT-GTTA
1 TATTATTATTTA
*
84215775 TATTTTATATTTTA
1 TATTAT-TA-TTTA
84215789 TATTTACTTATTTA
1 TA-TTA-TTATTTA
*
84215803 T-TTGCTTATTT-
1 TATT-ATTATTTA
*
84215814 TATT-TTTTATTA
1 TATTATTAT-TTA
84215826 T-TTATTATTTA
1 TATTATTATTTA
84215837 T
1 T
84215838 TTGTTTAAAC
Statistics
Matches: 90, Mismatches: 6, Indels: 29
0.72 0.05 0.23
Matches are distributed among these distances:
10 10 0.11
11 15 0.17
12 39 0.43
13 3 0.03
14 18 0.20
15 4 0.04
16 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (12 bp):
TATTATTATTTA
Found at i:84215816 original size:34 final size:34
Alignment explanation
Indices: 84215734--84215840 Score: 110
Period size: 34 Copynumber: 3.0 Consensus size: 34
84215724 TATTATATTA
*
84215734 TTATTATTATTATTATTATTA-TTATTATTTATATTTTGT
1 TTATT-TTA-TATT-TTATTATTTATTA-TT-TA-TTTGC
84215773 TATATTTTATATTTTA-TATTTACTTATTTATTTGC
1 T-TATTTTATATTTTATTATTTA-TTATTTATTTGC
*
84215808 TTATTTTATTTTTTATTATTTATTATTTATTTG
1 TTATTTTATATTTTATTATTTATTATTTATTTG
84215841 TTTAAACTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
34 24 0.39
35 11 0.18
36 4 0.06
37 8 0.13
38 7 0.11
39 4 0.06
40 4 0.06
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (34 bp):
TTATTTTATATTTTATTATTTATTATTTATTTGC
Found at i:84216845 original size:20 final size:20
Alignment explanation
Indices: 84216820--84216858 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
84216810 TCCTTTATAT
*
84216820 ACACCTTTCAAAGAACCAAA
1 ACACCTCTCAAAGAACCAAA
84216840 ACACCTCTCAAAGAACCAA
1 ACACCTCTCAAAGAACCAA
84216859 TTTCACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.33, G:0.05, T:0.13
Consensus pattern (20 bp):
ACACCTCTCAAAGAACCAAA
Found at i:84220830 original size:19 final size:18
Alignment explanation
Indices: 84220781--84220831 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
84220771 ATGTCTCTAA
* *
84220781 AATAGTAACAAAATTAAC
1 AATAATAACAGAATTAAC
*
84220799 AATAA-AAGAAGAATTATAC
1 AATAATAA-CAGAATTA-AC
84220818 AATAATAACAGAAT
1 AATAATAACAGAAT
84220832 AGTAGTAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 2 0.08
18 10 0.38
19 12 0.46
20 2 0.08
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.22
Consensus pattern (18 bp):
AATAATAACAGAATTAAC
Found at i:84225063 original size:6 final size:6
Alignment explanation
Indices: 84225054--84225099 Score: 83
Period size: 6 Copynumber: 7.5 Consensus size: 6
84225044 ACTCAGACTT
84225054 AGATTC AGATTC AGATTC AGATTC AGATTC AGATTC AGATTAC AGA
1 AGATTC AGATTC AGATTC AGATTC AGATTC AGATTC AGATT-C AGA
84225100 AACATATATG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
6 35 0.90
7 4 0.10
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (6 bp):
AGATTC
Found at i:84225626 original size:46 final size:46
Alignment explanation
Indices: 84225557--84225646 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
84225547 TGGGCCTACA
*
84225557 TGCCTGTGTGGCTTACCTATGTAGGCCCACACGCCCAGATTGGCCT
1 TGCCTATGTGGCTTACCTATGTAGGCCCACACGCCCAGATTGGCCT
* *
84225603 TGCCTATGTGGCTTA-CTCGTGTAGGCCTACACGCCCAGATTGGC
1 TGCCTATGTGGCTTACCT-ATGTAGGCCCACACGCCCAGATTGGC
84225647 TTTACTCGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.27
Consensus pattern (46 bp):
TGCCTATGTGGCTTACCTATGTAGGCCCACACGCCCAGATTGGCCT
Found at i:84227821 original size:14 final size:14
Alignment explanation
Indices: 84227799--84227833 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
84227789 TATAAATATC
84227799 TATAAAATTTAAAA
1 TATAAAATTTAAAA
*
84227813 TATATAATTTAAAA
1 TATAAAATTTAAAA
*
84227827 AATAAAA
1 TATAAAA
84227834 ATATTTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TATAAAATTTAAAA
Found at i:84233599 original size:12 final size:12
Alignment explanation
Indices: 84233582--84233606 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84233572 TATTACCCGG
84233582 ATAGGAAGGATC
1 ATAGGAAGGATC
84233594 ATAGGAAGGATC
1 ATAGGAAGGATC
84233606 A
1 A
84233607 GTTGGTGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.32, T:0.16
Consensus pattern (12 bp):
ATAGGAAGGATC
Found at i:84238485 original size:14 final size:14
Alignment explanation
Indices: 84238451--84238502 Score: 77
Period size: 14 Copynumber: 3.6 Consensus size: 14
84238441 AAGCTTAAAT
*
84238451 TTTAGTTAATTAAAG
1 TTTAATTAATT-AAG
*
84238466 TTTAATTAATTAAT
1 TTTAATTAATTAAG
84238480 TTTAATTAATTAAG
1 TTTAATTAATTAAG
84238494 TTTAATTAA
1 TTTAATTAA
84238503 AAGTATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 24 0.71
15 10 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TTTAATTAATTAAG
Found at i:84238658 original size:2 final size:2
Alignment explanation
Indices: 84238651--84238679 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
84238641 CCTTTTCTTT
84238651 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
84238680 GTTTTTAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:84240998 original size:13 final size:13
Alignment explanation
Indices: 84240980--84241005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84240970 GCTATGTAAC
84240980 CTATGTGATATGT
1 CTATGTGATATGT
84240993 CTATGTGATATGT
1 CTATGTGATATGT
84241006 ATGTTAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
CTATGTGATATGT
Found at i:84241255 original size:5 final size:5
Alignment explanation
Indices: 84241245--84241320 Score: 55
Period size: 5 Copynumber: 15.2 Consensus size: 5
84241235 GGGGTAGAAC
* * * * * * *
84241245 ATGAT ATGAT ATGTT ATGCT GTGAT TTGAT ATGAC ATGAT ATAAT TTGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* *
84241295 -TCGAT ATGGT ATGAT ATGAT AAGAT A
1 AT-GAT ATGAT ATGAT ATGAT ATGAT A
84241321 CATTATACGA
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
4 1 0.02
5 53 0.96
6 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (5 bp):
ATGAT
Found at i:84246160 original size:27 final size:27
Alignment explanation
Indices: 84246097--84246150 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
84246087 ATTATCTTGA
*
84246097 GAACCCATTTTTATTTACGAAAATTCT
1 GAACCCATTTCTATTTACGAAAATTCT
84246124 GAACCCATTTCTATTTACGAAAATTCT
1 GAACCCATTTCTATTTACGAAAATTCT
84246151 TAGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.39
Consensus pattern (27 bp):
GAACCCATTTCTATTTACGAAAATTCT
Found at i:84258296 original size:24 final size:24
Alignment explanation
Indices: 84258241--84258341 Score: 193
Period size: 24 Copynumber: 4.2 Consensus size: 24
84258231 TGATACAAAT
84258241 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTT-CA
84258266 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
84258290 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
84258314 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
84258338 TGAT
1 TGAT
84258342 GGGAATTTAT
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
24 54 0.71
25 22 0.29
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.38
Consensus pattern (24 bp):
TGATAATGGTTAGGTAAATGTTCA
Found at i:84259997 original size:25 final size:26
Alignment explanation
Indices: 84259947--84260084 Score: 170
Period size: 27 Copynumber: 5.2 Consensus size: 26
84259937 GAGGAAGCGT
*
84259947 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-AATATCTGA
84259974 TCTGGTGGCTCTGCCA-AATATCTGA
1 TCTGGTGGCTCTGCCACAATATCTGA
*
84259999 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACA-ATATCTGA
*
84260026 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-AATATCTG-A
* * * *
84260054 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGA
84260080 TCTGG
1 TCTGG
84260085 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
25 25 0.25
26 6 0.06
27 53 0.53
28 16 0.16
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACAATATCTGA
Found at i:84260030 original size:52 final size:54
Alignment explanation
Indices: 84259947--84260084 Score: 192
Period size: 52 Copynumber: 2.6 Consensus size: 54
84259937 GAGGAAGCGT
* * *
84259947 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCA-AATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAATATCTGTA
*
84259999 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCAC-AATATCTGTA
* *
84260054 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
84260085 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
52 40 0.52
54 19 0.25
55 18 0.23
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAATATCTGTA
Found at i:84264086 original size:49 final size:50
Alignment explanation
Indices: 84264025--84264129 Score: 194
Period size: 49 Copynumber: 2.1 Consensus size: 50
84264015 TGATACAAAT
84264025 TGATAATAGGTTAGGTAAATGTTCATGATAATGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATGGTTAGGTAAATGTTTCA
*
84264074 TGATAATGGGTTAGGTAAATGTTCATGATAATGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATGGTTAGGTAAATGTTTCA
84264124 TGATAA
1 TGATAA
84264130 GAATTTCATG
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 44 0.81
50 10 0.19
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (50 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATGGTTAGGTAAATGTTTCA
Found at i:84264091 original size:25 final size:24
Alignment explanation
Indices: 84264025--84264129 Score: 183
Period size: 25 Copynumber: 4.2 Consensus size: 24
84264015 TGATACAAAT
84264025 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAAT-GGTTAGGTAAATGTTCA
84264050 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
84264074 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAAT-GGTTAGGTAAATGTTCA
84264099 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATG-TTCA
84264124 TGATAA
1 TGATAA
84264130 GAATTTCATG
Statistics
Matches: 78, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
24 37 0.47
25 41 0.53
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (24 bp):
TGATAATGGTTAGGTAAATGTTCA
Found at i:84265775 original size:27 final size:27
Alignment explanation
Indices: 84265734--84265872 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
84265724 GAGGAAGCGT
*
84265734 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
84265761 TCTGGTGGCTCTGCCATAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
84265788 TCTGGTGGCTCTG-CACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
84265814 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
84265842 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
84265868 TCTGG
1 TCTGG
84265873 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
26 28 0.29
27 55 0.56
28 15 0.15
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:84265818 original size:53 final size:55
Alignment explanation
Indices: 84265734--84265872 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
84265724 GAGGAAGCGT
* * * *
84265734 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCATAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
84265788 TCTGGTGGCTCTG-CACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
84265842 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
84265873 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
53 34 0.45
54 37 0.49
55 5 0.07
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:84268488 original size:14 final size:15
Alignment explanation
Indices: 84268471--84268500 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
84268461 CTGAAAAAAT
84268471 AAAAT-AAAAAATAA
1 AAAATAAAAAAATAA
84268485 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
84268500 A
1 A
84268501 GAACACACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:84268494 original size:8 final size:7
Alignment explanation
Indices: 84268471--84268500 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
84268461 CTGAAAAAAT
84268471 AAAATAA
1 AAAATAA
84268478 AAAATAA
1 AAAATAA
84268485 AAAATAAA
1 AAAAT-AA
84268493 AAAATAA
1 AAAATAA
84268500 A
1 A
84268501 GAACACACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:84270742 original size:12 final size:11
Alignment explanation
Indices: 84270718--84270742 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
84270708 TTTTAATTTT
84270718 AAAAAATTTAA
1 AAAAAATTTAA
84270729 AAAAAATTTAA
1 AAAAAATTTAA
84270740 AAA
1 AAA
84270743 TAAAAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAAATTTAA
Found at i:84270748 original size:17 final size:17
Alignment explanation
Indices: 84270726--84270761 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
84270716 TTAAAAAATT
*
84270726 TAAAAAAAATTTAAAAA
1 TAAAAAAAATATAAAAA
*
84270743 TAAAAAAACTATAAAAA
1 TAAAAAAAATATAAAAA
84270760 TA
1 TA
84270762 TTTTCAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
TAAAAAAAATATAAAAA
Found at i:84271415 original size:3 final size:3
Alignment explanation
Indices: 84271407--84271482 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
84271397 AATTGCAAAA
84271407 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
84271455 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
84271483 TAACAGATAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:84277960 original size:7 final size:7
Alignment explanation
Indices: 84277911--84277941 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
84277901 GAATAATTAT
84277911 ATTTTAA
1 ATTTTAA
84277918 ATTTTAA
1 ATTTTAA
84277925 ATTTTAA
1 ATTTTAA
84277932 ATTTTAA
1 ATTTTAA
84277939 ATT
1 ATT
84277942 CTTATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTTAA
Found at i:84277987 original size:32 final size:32
Alignment explanation
Indices: 84277908--84277996 Score: 76
Period size: 32 Copynumber: 2.8 Consensus size: 32
84277898 TAAGAATAAT
* **
84277908 TATATTTTAA-ATTTTAAATTTTAAATTTTAAA
1 TATACTTTAATATTTTAAA-TTTAAATTAAAAA
84277940 T-T-CTTATAATAATTTTAAATTTAAATTAAAAA
1 TATACTT-TAAT-ATTTTAAATTTAAATTAAAAA
* **
84277972 TATAGTTTAATATTTTTTATTTAAA
1 TATACTTTAATATTTTAAATTTAAA
84277997 CAATAGCATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
30 2 0.04
31 4 0.09
32 25 0.54
33 13 0.28
34 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (32 bp):
TATACTTTAATATTTTAAATTTAAATTAAAAA
Found at i:84279523 original size:21 final size:20
Alignment explanation
Indices: 84279487--84279532 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
84279477 GAAATATAAT
*
84279487 AATAATAATAAATTGATGTAA
1 AATAATAATAAATTGA-GGAA
**
84279508 AATAATAATATTTTGAGGAA
1 AATAATAATAAATTGAGGAA
84279528 AATAA
1 AATAA
84279533 CAAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.33
Consensus pattern (20 bp):
AATAATAATAAATTGAGGAA
Found at i:84281328 original size:22 final size:24
Alignment explanation
Indices: 84281300--84281346 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
84281290 ATTATTAAAA
*
84281300 TTAT-AAAAT-TATATTTTAATTT
1 TTATAAAAATATATAGTTTAATTT
84281322 TTATAAAAATATATAGTTTAATTT
1 TTATAAAAATATATAGTTTAATTT
84281346 T
1 T
84281347 ACTTTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 5 0.23
24 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTATAAAAATATATAGTTTAATTT
Found at i:84283126 original size:16 final size:17
Alignment explanation
Indices: 84283099--84283133 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
84283089 CCAAAAAAAC
84283099 TATTTTTATTGGCAAAT
1 TATTTTTATTGGCAAAT
*
84283116 TATTTTT-TTGGTAAAT
1 TATTTTTATTGGCAAAT
84283132 TA
1 TA
84283134 AAAAATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (17 bp):
TATTTTTATTGGCAAAT
Found at i:84283397 original size:12 final size:12
Alignment explanation
Indices: 84283380--84283405 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84283370 ATATTTTTGT
84283380 AAAAAAAAAGAA
1 AAAAAAAAAGAA
84283392 AAAAAAAAAGAA
1 AAAAAAAAAGAA
84283404 AA
1 AA
84283406 CTAGAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:84286668 original size:21 final size:21
Alignment explanation
Indices: 84286602--84286657 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
84286592 GTCTCCCGAA
84286602 CACACGGGCGTGTGTCATCTT
1 CACACGGGCGTGTGTCATCTT
84286623 CACACGGGCGTGTGTCATCTT
1 CACACGGGCGTGTGTCATCTT
*
84286644 CACACGGGTGTGTG
1 CACACGGGCGTGTG
84286658 ACTCCTTCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.14, C:0.27, G:0.32, T:0.27
Consensus pattern (21 bp):
CACACGGGCGTGTGTCATCTT
Found at i:84299257 original size:123 final size:123
Alignment explanation
Indices: 84298999--84299249 Score: 493
Period size: 123 Copynumber: 2.0 Consensus size: 123
84298989 GAATTATGTG
84298999 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
84299064 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
84299122 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
84299187 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
84299245 AAATG
1 AAATG
84299250 GAGTATGGCA
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 127 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:84306974 original size:43 final size:43
Alignment explanation
Indices: 84306927--84307012 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
84306917 ATCAGTGCAA
* *
84306927 CAATTAAAGGAATGATATTTTAGGATCTTTAGCTATATTAGTG
1 CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
84306970 CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
1 CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
84307013 GATGTATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.38
Consensus pattern (43 bp):
CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
Found at i:84310255 original size:22 final size:21
Alignment explanation
Indices: 84310220--84310261 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
84310210 ATTTACAGAA
*
84310220 TAATTATTTTTAAAGAATTTG
1 TAATTATTTTTAAAAAATTTG
*
84310241 TAATTTTTATTTAAAAAATTT
1 TAATTATT-TTTAAAAAATTT
84310262 ATAGACATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TAATTATTTTTAAAAAATTTG
Found at i:84311574 original size:28 final size:28
Alignment explanation
Indices: 84311526--84311580 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
84311516 TATGACATTT
84311526 TTTTATTTTATATGTTCAATTACTTTTAG
1 TTTTATTTTATATGTTCAATTA-TTTTAG
*
84311555 TTTTATTTATTTAT-TT-AATTATTTTA
1 TTTTATTT-TATATGTTCAATTATTTTA
84311581 TTAATTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 5 0.21
29 10 0.42
30 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (28 bp):
TTTTATTTTATATGTTCAATTATTTTAG
Found at i:84316363 original size:92 final size:92
Alignment explanation
Indices: 84316162--84316342 Score: 272
Period size: 92 Copynumber: 2.0 Consensus size: 92
84316152 TTGCGTATAT
* * * *
84316162 TTATTTGATCTAGCAGTTAAGCTGCAAATTACCGGTATAGCGGTTTACCGCATCGCATTGTACCG
1 TTATCTGATCTGGCAGTTAAGCTACAAATTACCGGTATAGCGGTTTACCGCATCGCACTGTACCG
* *
84316227 TATGTACGTTAGCTATGCTACGTACCA
66 CATGTACGTTAGCTACGCTACGTACCA
* * * *
84316254 TTATCTGATCTGGCAGTTAAGCTACAAATTATCGGTATAGCGGTTTACTGTATTGCACTGTACCG
1 TTATCTGATCTGGCAGTTAAGCTACAAATTACCGGTATAGCGGTTTACCGCATCGCACTGTACCG
84316319 CATGTACGTTAGCTACGCTACGTA
66 CATGTACGTTAGCTACGCTACGTA
84316343 TGTATATCTG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 79 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (92 bp):
TTATCTGATCTGGCAGTTAAGCTACAAATTACCGGTATAGCGGTTTACCGCATCGCACTGTACCG
CATGTACGTTAGCTACGCTACGTACCA
Found at i:84318235 original size:15 final size:15
Alignment explanation
Indices: 84318180--84318236 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
84318170 TTTATGCTAC
*
84318180 AAAACATTTATTATT
1 AAAATATTTATTATT
* *
84318195 AATATATTTATAATTATA
1 AAAATA-TT-T-ATTATT
84318213 ACAAATATTTATTATT
1 A-AAATATTTATTATT
84318229 AAAATATT
1 AAAATATT
84318237 AATATTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 11 0.33
16 8 0.24
17 2 0.06
18 8 0.24
19 4 0.12
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:84318357 original size:22 final size:22
Alignment explanation
Indices: 84318317--84318372 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
84318307 AATAAAATTG
*
84318317 AAATAGTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
84318337 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
84318359 TATTAATAATTTAT
1 AAATAATAAATTAT
84318373 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:84319098 original size:17 final size:17
Alignment explanation
Indices: 84319060--84319099 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
84319050 ACATTTAACT
* *
84319060 ATTTATTTATTTTTTTC
1 ATTTATTTAATTTTTTA
*
84319077 GTTTATTTAATTTTTTA
1 ATTTATTTAATTTTTTA
84319094 ATTTAT
1 ATTTAT
84319100 ATTTTGTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (17 bp):
ATTTATTTAATTTTTTA
Found at i:84320813 original size:18 final size:18
Alignment explanation
Indices: 84320790--84320824 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
84320780 TATCATACAG
84320790 TATCATCCAGACATTCAA
1 TATCATCCAGACATTCAA
84320808 TATCATCCAGACATTCA
1 TATCATCCAGACATTCA
84320825 GTAGTAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.29
Consensus pattern (18 bp):
TATCATCCAGACATTCAA
Found at i:84322830 original size:40 final size:40
Alignment explanation
Indices: 84322595--84322816 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
84322585 TCGAATGATG
* * *
84322595 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
84322635 TCCGGACTAAGAT-CCGAAGGCA-TTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84322673 T-CGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84322711 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84322751 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
84322792 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
84322817 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
36 9 0.05
37 21 0.13
38 5 0.03
39 14 0.09
40 112 0.68
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84330897 original size:40 final size:40
Alignment explanation
Indices: 84330659--84330883 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
84330649 TCGAATGATG
* * *
84330659 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
84330699 TCCGGACTAAGAT-CCAAAGGCATTCGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
84330739 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
84330778 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84330818 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
84330859 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
84330884 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 33 0.20
40 122 0.74
41 9 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84330905 original size:119 final size:119
Alignment explanation
Indices: 84330666--84330906 Score: 285
Period size: 119 Copynumber: 2.0 Consensus size: 119
84330656 ATGTCCGGGC
*
84330666 TAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCAAAGGCATTCGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTCGTGCGAG
* ** *
84330731 TTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCTGGGT
66 TTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCTCGGT
* * ** * *
84330785 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCAAAGGCATTCGTGCG
* *
84330848 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGT
64 AGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCTCGGT
84330904 TAA
1 TAA
84330907 ACTCCGAAGG
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
118 3 0.03
119 70 0.67
120 31 0.30
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTCGTGCGAG
TTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCTCGGT
Found at i:84332296 original size:18 final size:18
Alignment explanation
Indices: 84332273--84332311 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
84332263 CAGTCAACAA
*
84332273 TAATAATCAGTTAATCAG
1 TAATAACCAGTTAATCAG
* *
84332291 TAATAACCATTTATTCAG
1 TAATAACCAGTTAATCAG
84332309 TAA
1 TAA
84332312 CAGTCGTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.36
Consensus pattern (18 bp):
TAATAACCAGTTAATCAG
Found at i:84332489 original size:6 final size:6
Alignment explanation
Indices: 84332478--84332522 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
84332468 CACCGTGTTA
* * **
84332478 GTAACG GTAACG GTAACG GTAACA GTAACA GTAATA GTAACG GTA
1 GTAACG GTAACG GTAACG GTAACG GTAACG GTAACG GTAACG GTA
84332523 CACAGAGCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (6 bp):
GTAACG
Found at i:84332495 original size:12 final size:12
Alignment explanation
Indices: 84332477--84332527 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
84332467 ACACCGTGTT
84332477 AGTAACGGTAAC
1 AGTAACGGTAAC
*
84332489 GGTAACGGTAAC
1 AGTAACGGTAAC
* *
84332501 AGTAACAGTAAT
1 AGTAACGGTAAC
84332513 AGTAACGGTACAC
1 AGTAACGGTA-AC
84332526 AG
1 AG
84332528 AGCACCTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 29 0.91
13 3 0.09
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (12 bp):
AGTAACGGTAAC
Found at i:84332505 original size:18 final size:18
Alignment explanation
Indices: 84332477--84332527 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
84332467 ACACCGTGTT
*
84332477 AGTAACGGTAACGGTAAC
1 AGTAACGGTAACAGTAAC
* * *
84332495 GGTAACAGTAACAGTAAT
1 AGTAACGGTAACAGTAAC
84332513 AGTAACGGTACACAG
1 AGTAACGGTA-ACAG
84332528 AGCACCTCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (18 bp):
AGTAACGGTAACAGTAAC
Found at i:84332610 original size:51 final size:53
Alignment explanation
Indices: 84332498--84332616 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 53
84332488 CGGTAACGGT
* *
84332498 AACAGTAACAGTAATAGTAACGGTACACAGAGCACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTAACAGTAACGGTA-ACAGAGCACCTCATCGGAACAAATCCAG
* * * ** *
84332552 AATAGTAACAGTAACAGTAA-GGT-ACAGAGTACCTCTTCGGAATGAATTCAG
1 AACAGTAACAGTAACAGTAACGGTAACAGAGCACCTCATCGGAACAAATCCAG
*
84332603 AACAGTAATAGTAA
1 AACAGTAACAGTAA
84332617 GGCGACACTT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
51 34 0.62
53 3 0.05
54 18 0.33
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.19
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTAACGGTAACAGAGCACCTCATCGGAACAAATCCAG
Found at i:84333351 original size:2 final size:2
Alignment explanation
Indices: 84333344--84333381 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
84333334 TTATTTCCTT
84333344 TA TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
84333382 CTATTGAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:84333520 original size:31 final size:32
Alignment explanation
Indices: 84333469--84333537 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
84333459 TTGTCATGTT
84333469 TTAATTTATTTATTACATAAA-A-ATCTTATAA
1 TTAA-TTATTTATTACATAAATATATCTTATAA
*
84333500 TATAATTATTTAATTA-ATAAATATATTTTATAA
1 T-TAATTATTT-ATTACATAAATATATCTTATAA
84333533 TTAAT
1 TTAAT
84333538 AAATATCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
31 12 0.36
32 12 0.36
33 9 0.27
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (32 bp):
TTAATTATTTATTACATAAATATATCTTATAA
Found at i:84333533 original size:20 final size:21
Alignment explanation
Indices: 84333510--84333557 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
84333500 TATAATTATT
*
84333510 TAATTAATAAATATAT-TTTA
1 TAATTAATAAATATATATTAA
*
84333530 TAATTAATAAATATCTATTAA
1 TAATTAATAAATATATATTAA
84333551 TAATTAA
1 TAATTAA
84333558 AGACATATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTAATAAATATATATTAA
Found at i:84336180 original size:2 final size:2
Alignment explanation
Indices: 84336173--84336208 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
84336163 TTATTTCCTT
84336173 TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
84336209 CTATTTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:84342634 original size:21 final size:22
Alignment explanation
Indices: 84342609--84342657 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
84342599 TGAGCTTCTG
*
84342609 TTAACTCAT-ATGGGTTTCCGT
1 TTAACTCATGATGGGTTTCAGT
*
84342630 TTAAC-CCTGATGGGTTTCAGT
1 TTAACTCATGATGGGTTTCAGT
*
84342651 TCAACTC
1 TTAACTC
84342658 TTTTGAGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 20 0.87
22 1 0.04
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.39
Consensus pattern (22 bp):
TTAACTCATGATGGGTTTCAGT
Found at i:84346515 original size:20 final size:22
Alignment explanation
Indices: 84346471--84346521 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
84346461 AATAATTTGG
*
84346471 TTTATTATTTATTTTTGTTTGAT
1 TTTATTA-TTACTTTTGTTTGAT
84346494 TTTATTATTACTTTT-TTT-AT
1 TTTATTATTACTTTTGTTTGAT
*
84346514 TTTTTTAT
1 TTTATTAT
84346522 GGTTGTGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 3 0.12
22 7 0.27
23 7 0.27
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTATTATTACTTTTGTTTGAT
Found at i:84347280 original size:43 final size:43
Alignment explanation
Indices: 84347215--84347380 Score: 201
Period size: 43 Copynumber: 3.9 Consensus size: 43
84347205 AGCTCTTACA
* * * *
84347215 ATGCC-ATATCCCAGACATGGTCTTACATGTTATCAC-ATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAATA-CG
* * ** *
84347257 ATGCCATTGTCCTAGACAGGGTCTTACACAAAATCATAATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAATACG
*
84347300 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAATACG
* *
84347343 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACA
84347381 TCTCGATAAC
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 5 0.05
43 97 0.92
44 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAATACG
Found at i:84348636 original size:31 final size:31
Alignment explanation
Indices: 84348601--84348661 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
84348591 CAACTCTCCC
*
84348601 CTCTTAGGGATTTTTGTCCTCGAAAATCTTT
1 CTCTTAGGGATTTTTGTCCCCGAAAATCTTT
84348632 CTCTTAGGGATTTTTGTCCCCGAAAATCTT
1 CTCTTAGGGATTTTTGTCCCCGAAAATCTT
84348662 ACCAGTGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (31 bp):
CTCTTAGGGATTTTTGTCCCCGAAAATCTTT
Found at i:84354806 original size:16 final size:16
Alignment explanation
Indices: 84354787--84354817 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84354777 CTTCTTCACT
84354787 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
84354803 TACTTACTTACTTAA
1 TACTCACTTACTTAA
84354818 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:84354823 original size:20 final size:20
Alignment explanation
Indices: 84354784--84354823 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
84354774 AAACTTCTTC
* *
84354784 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
84354804 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
84354824 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:84354934 original size:23 final size:24
Alignment explanation
Indices: 84354896--84354940 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
84354886 TTTGCTCTTC
*
84354896 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
84354920 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
84354941 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:84355136 original size:53 final size:54
Alignment explanation
Indices: 84355009--84355259 Score: 239
Period size: 55 Copynumber: 4.7 Consensus size: 54
84354999 ACACGGGTAC
* * * * *
84355009 CTTACCATTGCCATGACTTGTCATGGTGTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
84355058 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
84355111 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATGGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
84355166 CTTATCAATGCGATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
84355219 CCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTAT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTAT
84355260 TCTTAAACCT
Statistics
Matches: 164, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 36 0.22
50 1 0.01
52 2 0.01
53 48 0.29
54 10 0.06
55 65 0.40
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:84355200 original size:108 final size:110
Alignment explanation
Indices: 84355056--84355256 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
84355046 ATCCTTTTGA
* *
84355056 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
84355119 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
* * * * *
84355164 AACTTATCAATGCGATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
84355229 TGTCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
84355257 TATTCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
Found at i:84355391 original size:17 final size:17
Alignment explanation
Indices: 84355369--84355402 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
84355359 CTTTGAATAA
84355369 TTTCATAAAATAAATTT
1 TTTCATAAAATAAATTT
84355386 TTTCATAAAATAAATTT
1 TTTCATAAAATAAATTT
84355403 ACACATGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTCATAAAATAAATTT
Found at i:84357580 original size:16 final size:16
Alignment explanation
Indices: 84357559--84357591 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
84357549 GATAATCTAT
*
84357559 AAAACATGGAAAGAAC
1 AAAACATGAAAAGAAC
84357575 AAAACATGAAAAGAAC
1 AAAACATGAAAAGAAC
84357591 A
1 A
84357592 CACAAAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.12, G:0.15, T:0.06
Consensus pattern (16 bp):
AAAACATGAAAAGAAC
Found at i:84357901 original size:43 final size:43
Alignment explanation
Indices: 84357835--84357997 Score: 184
Period size: 43 Copynumber: 3.8 Consensus size: 43
84357825 TCTTACAATG
* * * * *
84357835 CAATATCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGC
1 CAATGTCCCAGACAGGGTCTTACACGTAATCACAATA-CGATGC
* ** *
84357878 CATTGTCCCAGACAGGGTCTTACACAAAATCATAATACGATGC
1 CAATGTCCCAGACAGGGTCTTACACGTAATCACAATACGATGC
* * *
84357921 CAATGTCCCATATAGGGTCTTACACGTAATCACAATACAATGC
1 CAATGTCCCAGACAGGGTCTTACACGTAATCACAATACGATGC
* *
84357964 CAATGTCCCAGACATGGTCTTACATGTAATCACA
1 CAATGTCCCAGACAGGGTCTTACACGTAATCACA
84357998 TCTTGATAAC
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
43 96 0.97
44 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
CAATGTCCCAGACAGGGTCTTACACGTAATCACAATACGATGC
Found at i:84365265 original size:26 final size:26
Alignment explanation
Indices: 84365228--84365311 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
84365218 TGATACAAAT
* *
84365228 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
84365254 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
84365280 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
84365306 TGATAA
1 TGATAA
84365312 GAAATTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:84369201 original size:2 final size:2
Alignment explanation
Indices: 84369194--84369234 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
84369184 GATCTAAATC
*
84369194 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
84369235 TTATTACCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:84370804 original size:161 final size:163
Alignment explanation
Indices: 84370578--84371067 Score: 487
Period size: 161 Copynumber: 2.9 Consensus size: 163
84370568 ACATGTATAG
* * *
84370578 TAAAAGATATATAATTTGAAAACCAATTTACATATTAA-AATAAATACAAAATAAGT--TTCTAT
1 TAAAAGATATATAATTCGAAAACCATTTTAC---TTAATAATAAAGACAAAATAA-TCATT-TAT
* * * *
84370640 AATAAAATACTGATTTAGGTATGGCAAAAAGTGTATGATTTCAATAACCAAAGAAACATAAGCAT
61 AATAAAATA-TGGTTTAGGTATGGCAAAAAGTGTATGATTCCGATAACCAAAGAAA-ATAAGTAT
* * *
84370705 TTATAAAACATGATGGAGTGTAAA-TTT-AG-GC-ATCGC
124 TTATAAAACACGATGGAATATAAACTTTAAGAGCGATCGC
* *
84370741 TAAAAGGTATATAATTCGGAAACCATTTTACTTAATAATAAAGACAAAATAATCATTTATAATAA
1 TAAAAGATATATAATTCGAAAACCATTTTACTTAATAATAAAGACAAAATAATCATTTATAATAA
* * *
84370806 AATATAGGTTTAAGTAT--AATAAAAGATGTATGATTCCGATAACGAAAGTAAAATAAGTATTTA
66 AATAT-GGTTTAGGTATGGCA-AAAAG-TGTATGATTCCGATAACCAAAG-AAAATAAGTATTTA
* *
84370869 TAAAACACGATGGAATATAAACTTTAAGTATCGATCGT
127 TAAAACACGATGGAATATAAACTTTAAG-AGCGATCGC
* * *
84370907 TAAAAGATATATATAATTCGAAAACCGTTTTACTTATTAA-AATAGAAACAAAATAAGCATTTAT
1 TAAAAG--ATATATAATTCGAAAACCATTTTACTTAATAATAA-AG--ACAAAATAATCATTTAT
* ** *
84370971 AATAAAATAGAGGTTTAGGTATGGCGGAAGGTGTATGATTCCGATAACCAAAGAAAAATAAGTAT
61 AATAAAATA-TGGTTTAGGTATGGCAAAAAGTGTATGATTCCGATAACCAAAG-AAAATAAGTAT
* * *
84371036 TTATATAACACTCATAGAATATAAACTTTAAG
124 TTATAAAACAC-GATGGAATATAAACTTTAAG
84371068 TATCGTTAAG
Statistics
Matches: 273, Mismatches: 33, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
159 1 0.00
160 11 0.04
161 83 0.30
162 8 0.03
163 29 0.11
165 1 0.00
166 10 0.04
167 2 0.01
168 30 0.11
170 77 0.28
171 21 0.08
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.30
Consensus pattern (163 bp):
TAAAAGATATATAATTCGAAAACCATTTTACTTAATAATAAAGACAAAATAATCATTTATAATAA
AATATGGTTTAGGTATGGCAAAAAGTGTATGATTCCGATAACCAAAGAAAATAAGTATTTATAAA
ACACGATGGAATATAAACTTTAAGAGCGATCGC
Found at i:84370975 original size:170 final size:163
Alignment explanation
Indices: 84370578--84371597 Score: 591
Period size: 165 Copynumber: 6.3 Consensus size: 163
84370568 ACATGTATAG
* * * * *
84370578 TAAAAG-ATATATAATTTGAAAACCAATTTACATATTAAAATAAATACAAAATAAG-TTTCTATA
1 TAAAAGAATATATAATTCGAAAACCATTTTACTTATTAAAATAAAGACAAAATAAGCATT-TATA
* * * * *
84370641 ATAAAATACT-GATTTAGGTATGGCAAAAAGTGTATGATTTCAATAACCAAAGAAACATAAGCAT
65 ATAAAATA-TAGGTTTAGGTAT--AAAAAAGTGTATGATTCCGATAACCAAAGAAA-ATAAGTAT
* * * * *
84370705 TTATAAAACATGATGGAGTGTAAA-TTT-AGGCATCGC
126 TTATAAAACACGATGGAATATAAACTTTAAGTCATCGT
* * * *
84370741 TAAAAG-GTATATAATTCGGAAACCATTTTACTTA--ATAATAAAGACAAAATAATCATTTATAA
1 TAAAAGAATATATAATTCGAAAACCATTTTACTTATTAAAATAAAGACAAAATAAGCATTTATAA
* *
84370803 TAAAATATAGGTTTAAGTATAATAAAAGATGTATGATTCCGATAACGAAAGTAAAATAAGTATTT
66 TAAAATATAGGTTTAGGTATAA-AAAAG-TGTATGATTCCGATAACCAAAG-AAAATAAGTATTT
84370868 ATAAAACACGATGGAATATAAACTTTAAGTATCGATCGT
128 ATAAAACACGATGGAATATAAACTTTAAG--TC-ATCGT
*
84370907 TAAAAGATATATATAATTCGAAAACCGTTTTACTTATTAAAATAGAA-ACAAAATAAGCATTTAT
1 TAAAAGA-ATATATAATTCGAAAACCATTTTACTTATTAAAATA-AAGACAAAATAAGCATTTAT
* *** *
84370971 AATAAAATAGAGGTTTAGGTATGGCGGAAGGTGTATGATTCCGATAACCAAAGAAAAATAAGTAT
64 AATAAAATATAGGTTTAGGTAT--AAAAAAGTGTATGATTCCGATAACCAAAG-AAAATAAGTAT
* * *
84371036 TTATATAACACTCATAGAATATAAACTTTAAGT-ATCGT
126 TTATAAAACAC-GATGGAATATAAACTTTAAGTCATCGT
* * *
84371074 TAAGAG-ATATCTAATTTGAAAACC-TATTTACTTA-T----TAAA-AC-AAA-AA-CA---A-A
1 TAAAAGAATATATAATTCGAAAACCAT-TTTACTTATTAAAATAAAGACAAAATAAGCATTTATA
* * ** * * *
84371124 AT-ATATAGAGGTTTAGGTATAGTGAAGGTGTACGAATATTCCGATAACCAAAGAAAAATAAGCA
65 ATAAAATATAGGTTTAGGTATA-AAAAAGTGTATG---ATTCCGATAACCAAAG-AAAATAAGTA
* *
84371188 TTTATATAACATCCAT-G-----AAAC----A-T-ATCGT
125 TTTATAAAACA-CGATGGAATATAAACTTTAAGTCATCGT
* *** * * * * *
84371216 TAAAAG-ATATATAATTCAAAAATTGTTTGTACTTATTAAAACAAAAATAAATTACGCATTTATA
1 TAAAAGAATATATAATTCGAAAACCATTT-TACTTATTAAAATAAAGACAAAATAAGCATTTATA
* * *** * * **
84371280 ATAAAATAGAGGTATAGGTATGGTGAAAG-GCATATGGTTCTGATAACCAAAGCAAAATAAACAT
65 ATAAAATATAGGTTTAGGTAT-AAAAAAGTG--TATGATTCCGATAACCAAAG-AAAATAAGTAT
** * * *
84371344 TTATAGTACACAATGAAATATAAACTTTAAGT-ATTGT
126 TTATAAAACACGATGGAATATAAACTTTAAGTCATCGT
* * * *
84371381 TAAAAG-ATTTATAATTCGAAAACCATTTTACTTACTAAAACAAAAACAAAATAAGCATTTATAA
1 TAAAAGAATATATAATTCGAAAACCATTTTACTTATTAAAATAAAGACAAAATAAGCATTTATAA
* * * * * * ** *
84371445 TAAAATAGAGGTTTAGATATAGTAAAAG-GCATATGATTCGGATAATCGAAGCAAAATAAACAAT
66 TAAAATATAGGTTTAGGTATA-AAAAAGTG--TATGATTCCGATAACCAAAG-AAAATAAGTATT
* * ** *
84371509 TATATAACACTAATAAAATATAAACTTTAAG-CATAGT
127 TATAAAACAC-GATGGAATATAAACTTTAAGTCATCGT
* ** * * ** * *
84371546 TGAAAG-ATGGATAATTTGAAAACCAATTTAGGTATTAAAACAAAAACAAAAT
1 TAAAAGAATATATAATTCGAAAACCATTTTACTTATTAAAATAAAGACAAAAT
84371598 GCTTACTTTG
Statistics
Matches: 701, Mismatches: 99, Indels: 112
0.77 0.11 0.12
Matches are distributed among these distances:
142 26 0.04
143 8 0.01
144 1 0.00
147 4 0.01
148 3 0.00
149 1 0.00
150 12 0.02
151 18 0.03
152 6 0.01
153 41 0.06
154 4 0.01
155 33 0.05
156 6 0.01
157 23 0.03
158 6 0.01
159 5 0.01
160 12 0.02
161 84 0.12
162 8 0.01
163 31 0.04
164 97 0.14
165 120 0.17
166 10 0.01
167 10 0.01
168 25 0.04
169 1 0.00
170 83 0.12
171 23 0.03
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.30
Consensus pattern (163 bp):
TAAAAGAATATATAATTCGAAAACCATTTTACTTATTAAAATAAAGACAAAATAAGCATTTATAA
TAAAATATAGGTTTAGGTATAAAAAAGTGTATGATTCCGATAACCAAAGAAAATAAGTATTTATA
AAACACGATGGAATATAAACTTTAAGTCATCGT
Found at i:84371449 original size:164 final size:165
Alignment explanation
Indices: 84371214--84371597 Score: 484
Period size: 164 Copynumber: 2.3 Consensus size: 165
84371204 GAAACATATC
* *** * * *
84371214 GTTAAAAGATATATAATTCAAAAATTGTTTGTACTTATTAAAACAAAAATAAATTACGCATTTAT
1 GTTAAAAGATATATAATTCGAAAACCATTT-TACTTATTAAAACAAAAACAAAATAAGCATTTAT
* * * * * *
84371279 AATAAAATAGAGGTATAGGTATGGTGAAAGGCATATGGTTCTGATAACCAAAGCAAAATAAACAT
65 AATAAAATAGAGGTATAGATATAGTAAAAGGCATATGATTCGGATAACCAAAGCAAAATAAACAA
* * *
84371344 TTATAGT-ACAC-AATGAAATATAAACTTTAAGTATT
130 TTATA-TAACACTAATAAAATATAAACTTTAAGCATA
* *
84371379 GTTAAAAGATTTATAATTCGAAAACCATTTTACTTACTAAAACAAAAACAAAATAAGCATTTATA
1 GTTAAAAGATATATAATTCGAAAACCATTTTACTTATTAAAACAAAAACAAAATAAGCATTTATA
* * *
84371444 ATAAAATAGAGGTTTAGATATAGTAAAAGGCATATGATTCGGATAATCGAAGCAAAATAAACAAT
66 ATAAAATAGAGGTATAGATATAGTAAAAGGCATATGATTCGGATAACCAAAGCAAAATAAACAAT
84371509 TATATAACACTAATAAAATATAAACTTTAAGCATA
131 TATATAACACTAATAAAATATAAACTTTAAGCATA
* ** * * **
84371544 GTTGAAAGATGGATAATTTGAAAACCAATTTAGGTATTAAAACAAAAACAAAAT
1 GTTAAAAGATATATAATTCGAAAACCATTTTACTTATTAAAACAAAAACAAAAT
84371598 GCTTACTTTG
Statistics
Matches: 188, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
163 1 0.01
164 95 0.51
165 92 0.49
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.29
Consensus pattern (165 bp):
GTTAAAAGATATATAATTCGAAAACCATTTTACTTATTAAAACAAAAACAAAATAAGCATTTATA
ATAAAATAGAGGTATAGATATAGTAAAAGGCATATGATTCGGATAACCAAAGCAAAATAAACAAT
TATATAACACTAATAAAATATAAACTTTAAGCATA
Found at i:84378487 original size:27 final size:27
Alignment explanation
Indices: 84378449--84378566 Score: 139
Period size: 27 Copynumber: 4.3 Consensus size: 27
84378439 GTGACGAAGT
**
84378449 CACCAGATACAGATAATCATGGCAGAGC
1 CACCAGA-ACAGATAATTGTGGCAGAGC
84378477 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGAACAGATAAT-TGTGGCAGAGC
* *
84378504 CACCAGATCAGATATTTGTGGCAGAGC
1 CACCAGAACAGATAATTGTGGCAGAGC
** * *
84378531 CACCAGGTCAGATATTTGTGGCATAGC
1 CACCAGAACAGATAATTGTGGCAGAGC
84378558 CACCAGAAC
1 CACCAGAAC
84378567 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.03
27 70 0.88
28 8 0.10
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATAATTGTGGCAGAGC
Found at i:84378516 original size:54 final size:55
Alignment explanation
Indices: 84378449--84378564 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 55
84378439 GTGACGAAGT
84378449 CACCAGATACAGATAATCATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAATCATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* ** ** * *
84378504 CACCAGAT-CAGATATTTGTGGCAGAGCCACCAGGTCAGATATTTGTGGCATAGC
1 CACCAGATACAGATAATCATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
84378558 CACCAGA
1 CACCAGA
84378565 ACGCTTCCTC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 46 0.85
55 8 0.15
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (55 bp):
CACCAGATACAGATAATCATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:84380214 original size:26 final size:26
Alignment explanation
Indices: 84380176--84380233 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
84380166 CATGAAATTC
*
84380176 TTATTATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84380202 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84380228 TTATCA
1 TTATCA
84380234 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84382293 original size:29 final size:30
Alignment explanation
Indices: 84382231--84382293 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
84382221 TATTTACAAG
* * *
84382231 AATTGGATCAAATCAAAATTTTATGTATAA
1 AATTGCATAAAATCAAAAGTTTATGTATAA
*
84382261 AATTGCATAAAATC-AAAGTTTATGTATAT
1 AATTGCATAAAATCAAAAGTTTATGTATAA
84382290 AATT
1 AATT
84382294 TCACATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (30 bp):
AATTGCATAAAATCAAAAGTTTATGTATAA
Found at i:84383120 original size:22 final size:20
Alignment explanation
Indices: 84383086--84383127 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
84383076 TCATTGTTGA
*
84383086 GAAATTGATGAATTGAGCTT
1 GAAATTGATGAATTAAGCTT
84383106 GAAATTGATAGGAATTAAGCTT
1 GAAATTGAT--GAATTAAGCTT
84383128 AGATTATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
22 10 0.53
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (20 bp):
GAAATTGATGAATTAAGCTT
Found at i:84385072 original size:29 final size:29
Alignment explanation
Indices: 84385038--84385169 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
84385028 TACTCGATTT
** * *
84385038 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
84385067 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
84385096 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
84385125 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
84385154 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
84385170 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:84389680 original size:26 final size:26
Alignment explanation
Indices: 84389651--84389722 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
84389641 ACTATAACAA
* *
84389651 AGGTAAATGTTCCATGATAATGGGTT
1 AGGTAAATGTTTCATGATAATGGATT
84389677 AGGTAAATGTTTCATGATAATGGATT
1 AGGTAAATGTTTCATGATAATGGATT
84389703 AGGTAAATGTTTCATGATAA
1 AGGTAAATGTTTCATGATAA
84389723 GAATTTCATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
AGGTAAATGTTTCATGATAATGGATT
Found at i:84395219 original size:13 final size:13
Alignment explanation
Indices: 84395198--84395227 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
84395188 AAAGGGTTTA
*
84395198 TAATTTTTTAATT
1 TAATATTTTAATT
84395211 TAATATTTTAATT
1 TAATATTTTAATT
84395224 TAAT
1 TAAT
84395228 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATATTTTAATT
Found at i:84403597 original size:26 final size:26
Alignment explanation
Indices: 84403568--84403675 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
84403558 TGATAAAAAT
84403568 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
84403594 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84403620 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
84403646 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84403672 TGAT
1 TGAT
84403676 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:84406169 original size:29 final size:29
Alignment explanation
Indices: 84406128--84406209 Score: 164
Period size: 29 Copynumber: 2.8 Consensus size: 29
84406118 GCCGTATTTT
84406128 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
84406157 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
84406186 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCACGCACACTTAGTGCC
84406210 GATCTCGTCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:84412671 original size:39 final size:39
Alignment explanation
Indices: 84412623--84412709 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
84412613 GACTTAATGT
* * * *
84412623 CTAGAAGGCCTCGTTCCGCTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGATGATAAGTTCAAGTTTATAC
84412662 CTAGCAGGCCTCGTGCCGATGATAAGTTCAAGTTTATAC
1 CTAGCAGGCCTCGTGCCGATGATAAGTTCAAGTTTATAC
84412701 CTAGCAGGC
1 CTAGCAGGC
84412710 TAATTGCCGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGATGATAAGTTCAAGTTTATAC
Found at i:84417875 original size:47 final size:47
Alignment explanation
Indices: 84417821--84418105 Score: 428
Period size: 47 Copynumber: 6.1 Consensus size: 47
84417811 TTAGGATTTT
** * *
84417821 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
84417868 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
84417915 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
84417962 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
84418009 ATGTGATGAATGTGAACATGCATATATGTGACAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
84418056 ATGTGATAAACGTGGAA-GTGTATATATGTGATAAAGCCGAACGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
84418103 ATG
1 ATG
84418106 CGAAACGTGT
Statistics
Matches: 220, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 217 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:84418137 original size:46 final size:46
Alignment explanation
Indices: 84418081--84418169 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
84418071 AAGTGTATAT
* *
84418081 ATGTGATAAAGCCGAACGGCTAATGCGAAACGTGTATGAGATGGAC
1 ATGTGATAAAGCCAAACGGCTAATGCGAAACATGTATGAGATGGAC
* * * * *
84418127 ATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATGTGATAAAGCCAAACGGCTAATGCGAAACATGTATGAGATG
84418170 TGTATATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (46 bp):
ATGTGATAAAGCCAAACGGCTAATGCGAAACATGTATGAGATGGAC
Found at i:84427016 original size:22 final size:22
Alignment explanation
Indices: 84426962--84427006 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
84426952 ATCAACAGAA
* *
84426962 AGCAC-AAGGTGCTATACAAAG
1 AGCACGAATGTGCTAAACAAAG
84426983 AGCACGAATGTGCTAAACAAAG
1 AGCACGAATGTGCTAAACAAAG
84427005 AG
1 AG
84427007 TATTAATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.13
Consensus pattern (22 bp):
AGCACGAATGTGCTAAACAAAG
Found at i:84434737 original size:25 final size:25
Alignment explanation
Indices: 84434651--84434732 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
84434641 CAGCTTGCAT
*
84434651 GAGCTTCTCATTATATAGCTCGGAG
1 GAGCTTCCCATTATATAGCTCGGAG
* * * *
84434676 TAGCTTCCCATTATATAGCTTGCAT
1 GAGCTTCCCATTATATAGCTCGGAG
*
84434701 GAGCTTCCCGTTAT-TCAGCTCGGAG
1 GAGCTTCCCATTATAT-AGCTCGGAG
84434726 GAGCTTC
1 GAGCTTC
84434733 TCGTTTACTG
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
24 1 0.02
25 45 0.98
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCGGAG
Found at i:84434753 original size:24 final size:25
Alignment explanation
Indices: 84434640--84434753 Score: 79
Period size: 25 Copynumber: 4.6 Consensus size: 25
84434630 CAGACACACC
* * * *
84434640 ACAGCTTGCATGAGCTTCTCATTAT
1 ACAGCTCGGATGAGCTTCCCGTTAT
* *
84434665 ATAGCTCGGA-GTAGCTTCCCATTAT
1 ACAGCTCGGATG-AGCTTCCCGTTAT
* * *
84434690 ATAGCTTGCATGAGCTTCCCGTTAT
1 ACAGCTCGGATGAGCTTCCCGTTAT
* * *
84434715 TCAGCTCGGAGGAGCTTCTCGTT-T
1 ACAGCTCGGATGAGCTTCCCGTTAT
* *
84434739 ACTGCTCGTATGAGC
1 ACAGCTCGGATGAGC
84434754 ATATTTGAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
24 13 0.19
25 56 0.80
26 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (25 bp):
ACAGCTCGGATGAGCTTCCCGTTAT
Found at i:84435089 original size:48 final size:48
Alignment explanation
Indices: 84435018--84435114 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
84435008 AAATTAATTG
84435018 AGTTATACTATGTTTACTTACATATGTTATGGAAATATGGTAAGTTAA
1 AGTTATACTATGTTTACTTACATATGTTATGGAAATATGGTAAGTTAA
*
84435066 AGTTATACTATGTTTACTTACATATTTTATGGAAATATGGTAAGTTAA
1 AGTTATACTATGTTTACTTACATATGTTATGGAAATATGGTAAGTTAA
84435114 A
1 A
84435115 CTTTGTATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (48 bp):
AGTTATACTATGTTTACTTACATATGTTATGGAAATATGGTAAGTTAA
Found at i:84436202 original size:26 final size:26
Alignment explanation
Indices: 84436173--84436280 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
84436163 TGGTACAAAT
84436173 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
84436199 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84436225 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84436251 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84436277 TGAT
1 TGAT
84436281 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:84443127 original size:26 final size:26
Alignment explanation
Indices: 84443091--84443162 Score: 135
Period size: 26 Copynumber: 2.8 Consensus size: 26
84443081 CATGAAATTC
84443091 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84443117 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
84443143 TTATCATGGAACATTTACCT
1 TTATCATGAAACATTTACCT
84443163 TTGTTATAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84447410 original size:29 final size:30
Alignment explanation
Indices: 84447378--84447440 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
84447368 TTTAATGTGA
* *
84447378 AATTATATACAT-AAACTTTGATTTTATGC
1 AATTATATACATAAAACTTTGATTTGATCC
* *
84447407 AATTTTATACATAAAATTTTGATTTGATCC
1 AATTATATACATAAAACTTTGATTTGATCC
84447437 AATT
1 AATT
84447441 CTTGTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (30 bp):
AATTATATACATAAAACTTTGATTTGATCC
Found at i:84452526 original size:24 final size:23
Alignment explanation
Indices: 84452478--84452526 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
84452468 TTAATGAGAG
84452478 AAATTAGATTCATGAATTCGAAAA
1 AAATTAGATTCATGAATTC-AAAA
*
84452502 AAATTAGTTTCTATGAATTACAAAA
1 AAATTAGATTC-ATGAATT-CAAAA
84452527 TTAACGTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 11 0.50
26 1 0.05
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (23 bp):
AAATTAGATTCATGAATTCAAAA
Found at i:84455359 original size:164 final size:163
Alignment explanation
Indices: 84455039--84456058 Score: 754
Period size: 165 Copynumber: 6.3 Consensus size: 163
84455029 CAAAGTAAGC
** * * ** * * *
84455039 ATTTTGTTTTTGTTTTAATACCTAAATTGGTTTTCAAATTATCCATCTTTCAACTATGCTTAAAG
1 ATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCGAATTATATATCTTTTAACAATACTTAAAG
* * * * * * * *
84455104 TTTATATTTTATTAGTGTTATATAATTGTTTATTTTGCTTCGATTATCCGAATCATATGCCTTTT
66 TTTATATTTCATT-GTG-TATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATATACCTTTC
* *
84455169 ACTATATCTAAACCTCTATTTTATTATAAATGCTT
129 ACCATACCTAAACCTCTATTTTATTATAAATGCTT
* *
84455204 ATTTTGTTTTTGTTTTAGTAAGTAAAATGGTTTTCGAATTATAAATCTTTTAACAATACTTAAAG
1 ATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCGAATTATATATCTTTTAACAATACTTAAAG
* * * *
84455269 TTTATATTTCATTGTGTACTATAAATGTTTATTTTGCTTTGGTTATCAGAACCATATGCCTTTCA
66 TTTATATTTCATTGTGTA-TATAAATGCTTATTTTGCTTTGGTTATCGGAATCATATACCTTTCA
* *
84455334 CCATACCTATACCTCTATTTTATTATAAATGCGT
130 CCATACCTAAACCTCTATTTTATTATAAATGCTT
* * *** * *
84455368 AATTTATTTTTGTTTTAATAAGTACAAACAATTTTTGAATTATATATCTTTTAACGATA--T---
1 ATTTTGTTTTTGTTTTAATAAGTA-AAATGGTTTTCGAATTATATATCTTTTAACAATACTTAAA
* ** * * *
84455428 GTTT-CA-TGGA-TGT-TATATAAATGCTTATTTTTCTTTGGTTATCGGAAT-ATTCGTACACCT
65 GTTTATATTTCATTGTGTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCA-T-ATAC-CTT
*
84455488 TCACTATACCTAAACCTC--------TAT--A----T
127 TCACCATACCTAAACCTCTATTTTATTATAAATGCTT
* * * *
84455511 ATTTTGTTTTTGTTTTAATAAGT-AAATAGGTTTTCAAATTAGATATCTCTTAACGATACTTAAA
1 ATTTTGTTTTTGTTTTAATAAGTAAAAT-GGTTTTCGAATTATATATCTTTTAACAATACTTAAA
* * * *
84455575 GTTTATA-TTCTATGAGTGTTATATAAATACTTATTTTTCTTTGGTTATCGGAATCATACACCTT
65 GTTTATATTTC-AT-TGTG-TATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATATACCTT
* *
84455639 CCGCCATACCTAAACCTCTATTTTATTATAAATGCTT
127 TCACCATACCTAAACCTCTATTTTATTATAAATGCTT
* * *
84455676 ATTTTGTTTCTATTTTAATAAGTAAAACGGTTTTCGAATTATATATATCTTTTAACGATCGATAC
1 ATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCGAA-T-TATATATCTTTTAAC-A---ATAC
* * * * * * * *
84455741 TTAAAGTTTATATTCCATCGTGTTTTATAAATACTTATTTTACTTTCGTTATCGGAATCATACAT
60 TTAAAGTTTATATTTCATTGTG-TATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATATAC
* ** * * *
84455806 CTTTTATTATACTTAAACCTATATTTTATTATAAATGATT
124 CTTTCACCATACCTAAACCTCTATTTTATTATAAATGCTT
* * * * * * * * *
84455846 ATTTTG-TCTT-TATTATTAAGTAAAATGGTTTCCGAATTATATACCTTTTAGCGATGCCTAAA-
1 ATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCGAATTATATATCTTTTAACAATACTTAAAG
* * * * * * * *
84455908 TTTACACTCCATCATGT-TTTATAAATGCTTATGTTT-CTTTGGTTATTGAAATCATACACTTTT
66 TTTATATTTCAT--TGTGTATATAAATGCTTAT-TTTGCTTTGGTTATCGGAATCATATACCTTT
** * ** *
84455971 TGCCATACCTAAATCAGTATTTTATTATAGAA-ACTT
128 CACCATACCTAAACCTCTATTTTATTATA-AATGCTT
* * * * *
84456007 ATTTTGTATTTATTTTAATATGTAAATTGGTTTTCAAATTATATATCTTTTA
1 ATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCGAATTATATATCTTTTA
84456059 CTATACATGT
Statistics
Matches: 688, Mismatches: 121, Indels: 94
0.76 0.13 0.10
Matches are distributed among these distances:
141 3 0.00
142 24 0.03
143 22 0.03
144 1 0.00
147 5 0.01
148 2 0.00
149 4 0.01
151 19 0.03
152 2 0.00
153 35 0.05
154 2 0.00
155 30 0.04
156 4 0.01
157 21 0.03
158 2 0.00
159 4 0.01
160 4 0.01
161 77 0.11
162 14 0.02
163 38 0.06
164 94 0.14
165 126 0.18
166 17 0.02
167 14 0.02
168 22 0.03
169 2 0.00
170 80 0.12
171 18 0.03
172 2 0.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (163 bp):
ATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCGAATTATATATCTTTTAACAATACTTAAAG
TTTATATTTCATTGTGTATATAAATGCTTATTTTGCTTTGGTTATCGGAATCATATACCTTTCAC
CATACCTAAACCTCTATTTTATTATAAATGCTT
Found at i:84455802 original size:170 final size:165
Alignment explanation
Indices: 84455510--84456058 Score: 566
Period size: 161 Copynumber: 3.3 Consensus size: 165
84455500 AACCTCTATA
* * * * *
84455510 TATTTTGTTTTTGTTTTAATAAGT-AAATAGGTTTTC-AAATTAGATATCTCTTA-ACGATACTT
1 TATTTTGTTTCTATTTTAATAAGTAAAAT-GGTTTTCGAATTTATATATCTTTTAGACGATACTT
* * *
84455572 AAAGTTTATATTCTATGAGTGTTATATAAATACTTATTTTTCTTTGGTTATCGGAATCATACACC
65 AAAGTTTATATTCCAT-CGTGTTTTATAAATACTTA-TTTTCTTTGGTTATCGGAATCATACACC
** *
84455637 TTCCGCCATACCTAAACCTCTATTTTATTATAAATGCT
128 TTTTGCCATACCTAAACCTATATTTTATTATAAATGCT
*
84455675 TATTTTGTTTCTATTTTAATAAGTAAAACGGTTTTCGAATTATATATATCTTTTAACGATCGATA
1 TATTTTGTTTCTATTTTAATAAGTAAAATGGTTTTCGAATT-TATATATCTTTT-A-GA-CGATA
*
84455740 CTTAAAGTTTATATTCCATCGTGTTTTATAAATACTTATTTTACTTTCGTTATCGGAATCATACA
62 CTTAAAGTTTATATTCCATCGTGTTTTATAAATACTTATTTT-CTTTGGTTATCGGAATCATACA
* *** * *
84455805 TCTTTTATTATACTTAAACCTATATTTTATTATAAATGAT
126 CCTTTTGCCATACCTAAACCTATATTTTATTATAAATGCT
* * * * *
84455845 TATTTTG--TCT-TTATTATTAAGTAAAATGGTTTCCGAA-TTATATACCTTTTAG-CGATGCCT
1 TATTTTGTTTCTATT-TTAATAAGTAAAATGGTTTTCGAATTTATATATCTTTTAGACGATACTT
* * * * * * *
84455905 AAA-TTTACACTCCATCATGTTTTATAAATGCTTATGTTTCTTTGGTTATTGAAATCATACACTT
65 AAAGTTTATATTCCATCGTGTTTTATAAATACTTAT-TTTCTTTGGTTATCGGAATCATACACCT
* *
84455969 TTTGCCATACCTAAATC-AGTATTTTATTATAGAA-ACT
129 TTTGCCATACCTAAACCTA-TATTTTATTATA-AATGCT
* * *
84456006 TATTTTGTATT-TATTTTAATATGTAAATTGGTTTTC-AAATTATATATCTTTTA
1 TATTTTGT-TTCTATTTTAATAAGTAAAATGGTTTTCGAATTTATATATCTTTTA
84456059 CTATACATGT
Statistics
Matches: 321, Mismatches: 46, Indels: 36
0.80 0.11 0.09
Matches are distributed among these distances:
160 1 0.00
161 80 0.25
162 16 0.05
163 31 0.10
164 4 0.01
165 30 0.09
166 17 0.05
167 13 0.04
168 25 0.08
169 4 0.01
170 77 0.24
171 23 0.07
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (165 bp):
TATTTTGTTTCTATTTTAATAAGTAAAATGGTTTTCGAATTTATATATCTTTTAGACGATACTTA
AAGTTTATATTCCATCGTGTTTTATAAATACTTATTTTCTTTGGTTATCGGAATCATACACCTTT
TGCCATACCTAAACCTATATTTTATTATAAATGCT
Found at i:84457415 original size:2 final size:2
Alignment explanation
Indices: 84457402--84457439 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
84457392 GAGGTAATAA
*
84457402 AT 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 AT
84457440 TTAGATTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:84461357 original size:26 final size:26
Alignment explanation
Indices: 84461321--84461404 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
84461311 CATGAAATTC
84461321 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84461347 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84461373 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84461399 TTATCA
1 TTATCA
84461405 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84464101 original size:163 final size:163
Alignment explanation
Indices: 84463693--84464084 Score: 688
Period size: 163 Copynumber: 2.4 Consensus size: 163
84463683 TTTAAACCTA
** * **
84463693 TATTTTATTATAAATGGTTATTTT-T-TT-ATTATT-A-AT-TAAAATGGTTTTTGAATTATATA
1 TATTTTATTATAAATACTTATTTTGTATTCATT-TTAATATGTAAATTGGTTTTCAAATTATATA
84463752 TCTTTTAGCGATGCCTAAATTTATACTCCATCGTGTTTTATAAATGCTTATTTTTCTTTGGTTAT
65 TCTTTTAGCGATGCCTAAATTTATACTCCATCGTGTTTTATAAATGCTTATTTTTCTTTGGTTAT
84463817 TGAAATCATACACCTTTTGCTATACCTAAATTTG
130 TGAAATCATACACCTTTTGCTATACCTAAATTTG
84463851 TATTTTATTATAAATACTTATTTTGTATTCATTTTAATATGTAAATTGGTTTTCAAATTATATAT
1 TATTTTATTATAAATACTTATTTTGTATTCATTTTAATATGTAAATTGGTTTTCAAATTATATAT
84463916 CTTTTAGCGATGCCTAAATTTATACTCCATCGTGTTTTATAAATGCTTATTTTTCTTTGGTTATT
66 CTTTTAGCGATGCCTAAATTTATACTCCATCGTGTTTTATAAATGCTTATTTTTCTTTGGTTATT
84463981 GAAATCATACACCTTTTGCTATACCTAAATTTG
131 GAAATCATACACCTTTTGCTATACCTAAATTTG
84464014 TATTTTATTATAAATACTTATTTTGTATTCATTTTAATATGTAAATTGGTTTTCAAATTATATAT
1 TATTTTATTATAAATACTTATTTTGTATTCATTTTAATATGTAAATTGGTTTTCAAATTATATAT
84464079 CTTTTA
66 CTTTTA
84464085 CCATGCATGT
Statistics
Matches: 223, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
158 22 0.10
159 1 0.00
160 4 0.02
161 4 0.02
162 2 0.01
163 190 0.85
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.51
Consensus pattern (163 bp):
TATTTTATTATAAATACTTATTTTGTATTCATTTTAATATGTAAATTGGTTTTCAAATTATATAT
CTTTTAGCGATGCCTAAATTTATACTCCATCGTGTTTTATAAATGCTTATTTTTCTTTGGTTATT
GAAATCATACACCTTTTGCTATACCTAAATTTG
Found at i:84464598 original size:20 final size:20
Alignment explanation
Indices: 84464551--84464598 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
84464541 GCCACATCAA
* *
84464551 TATTCTTATCCTGAATTTTAG
1 TATT-TTATCCTAAATTTCAG
* *
84464572 GAGTTTATCCTAAATTTCAG
1 TATTTTATCCTAAATTTCAG
84464592 TATTTTA
1 TATTTTA
84464599 ATTTGGATTT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.50
Consensus pattern (20 bp):
TATTTTATCCTAAATTTCAG
Found at i:84467820 original size:38 final size:38
Alignment explanation
Indices: 84467778--84467938 Score: 184
Period size: 38 Copynumber: 4.3 Consensus size: 38
84467768 TAGAAATGTA
*
84467778 ATGATATTCGAGCTATGTACCTAGCAGGCTTTGTGTCG
1 ATGATATTCGAGCTATGTGCCTAGCAGGCTTTGTGTCG
* * * *
84467816 ATGATATTCGGGCTATGTGCCTAGTAGGCTGTGTG-CC
1 ATGATATTCGAGCTATGTGCCTAGCAGGCTTTGTGTCG
*
84467853 AGTGATATTCGAGCTATGTGCCTAGCAGCCTTT-T-TCTG
1 A-TGATATTCGAGCTATGTGCCTAGCAGGCTTTGTGTC-G
* * * *
84467891 GTGATATTCGAGCTATATGCCTAACAGGCTATGTGTCG
1 ATGATATTCGAGCTATGTGCCTAGCAGGCTTTGTGTCG
*
84467929 GTGATATTCG
1 ATGATATTCG
84467939 GGCCTTGTGC
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
37 31 0.30
38 70 0.68
39 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (38 bp):
ATGATATTCGAGCTATGTGCCTAGCAGGCTTTGTGTCG
Found at i:84467920 original size:75 final size:76
Alignment explanation
Indices: 84467779--84467938 Score: 207
Period size: 75 Copynumber: 2.1 Consensus size: 76
84467769 AGAAATGTAA
* * * **
84467779 TGATATTCGAGCTATGTACCTAGCAGGCTTTGTGTCGATGATATTCGGGCTATGTGCCTAGTAGG
1 TGATATTCGAGCTATGTACCTAGCAGCCTTTGTGTCGATGATATTCGAGCTATATGCCTAACAGG
*
84467844 CTGTGTGCCAG
66 CTATGTGCCAG
* *
84467855 TGATATTCGAGCTATGTGCCTAGCAGCCTTT-T-TCTGGTGATATTCGAGCTATATGCCTAACAG
1 TGATATTCGAGCTATGTACCTAGCAGCCTTTGTGTC-GATGATATTCGAGCTATATGCCTAACAG
* *
84467918 GCTATGTGTCGG
65 GCTATGTGCCAG
84467930 TGATATTCG
1 TGATATTCG
84467939 GGCCTTGTGC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
74 2 0.03
75 42 0.58
76 29 0.40
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (76 bp):
TGATATTCGAGCTATGTACCTAGCAGCCTTTGTGTCGATGATATTCGAGCTATATGCCTAACAGG
CTATGTGCCAG
Found at i:84467996 original size:38 final size:38
Alignment explanation
Indices: 84467943--84468024 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
84467933 TATTCGGGCC
* * **
84467943 TTGTGCCGGTATTATTCAGGCTTCGGGCCTAGCAGGCT
1 TTGTGCCAGTATTATTCAGGCTCCAAGCCTAGCAGGCT
* *
84467981 TTGTGCCAGTGTTATTCAGGCTCCAAGCCTAGTAGGCT
1 TTGTGCCAGTATTATTCAGGCTCCAAGCCTAGCAGGCT
84468019 TTGTGC
1 TTGTGC
84468025 TGATGTATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.15, C:0.23, G:0.29, T:0.33
Consensus pattern (38 bp):
TTGTGCCAGTATTATTCAGGCTCCAAGCCTAGCAGGCT
Found at i:84471834 original size:27 final size:27
Alignment explanation
Indices: 84471804--84471864 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
84471794 TTTAATATTA
84471804 TATTTTTAAAATAGTTTTAATAATTTT
1 TATTTTTAAAATAGTTTTAATAATTTT
* * *
84471831 TATTTTTAAAATATTTTTTATCATTTT
1 TATTTTTAAAATAGTTTTAATAATTTT
*
84471858 AATTTTT
1 TATTTTT
84471865 TTTAAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TATTTTTAAAATAGTTTTAATAATTTT
Found at i:84471836 original size:26 final size:27
Alignment explanation
Indices: 84471793--84471864 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
84471783 TTAAAAATCC
*
84471793 TTTTAAT-ATTAT-ATTTTTAAAATAG
1 TTTTAATAATTTTAATTTTTAAAATAG
* *
84471818 TTTTAATAATTTTTATTTTTAAAATAT
1 TTTTAATAATTTTAATTTTTAAAATAG
* *
84471845 TTTTTATCATTTTAATTTTT
1 TTTTAATAATTTTAATTTTT
84471865 TTTAAATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.17
26 4 0.10
27 29 0.73
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTAATAATTTTAATTTTTAAAATAG
Found at i:84473358 original size:30 final size:29
Alignment explanation
Indices: 84473319--84473380 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
84473309 TGATTAATAG
84473319 TAAAAAATAATTTAA-AATTCAATTTTTTAT
1 TAAAAAATAA-TTAATAA-TCAATTTTTTAT
*
84473349 TAAATAATAATTAATTAATCAATTTTTTAT
1 TAAAAAATAATTAA-TAATCAATTTTTTAT
84473379 TA
1 TA
84473381 GTAATGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 4 0.14
30 23 0.79
31 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
TAAAAAATAATTAATAATCAATTTTTTAT
Found at i:84478952 original size:25 final size:25
Alignment explanation
Indices: 84478922--84478972 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
84478912 ACACAATTCA
84478922 AACAGAACAAAACCGAATAGAGCAG
1 AACAGAACAAAACCGAATAGAGCAG
**
84478947 AACAGAACAAAATGGAATAGAGCAG
1 AACAGAACAAAACCGAATAGAGCAG
84478972 A
1 A
84478973 GCAATGCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.57, C:0.16, G:0.22, T:0.06
Consensus pattern (25 bp):
AACAGAACAAAACCGAATAGAGCAG
Found at i:84479713 original size:14 final size:15
Alignment explanation
Indices: 84479694--84479749 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
84479684 AATCTTCAAT
84479694 GATATG-CAATCTTA
1 GATATGACAATCTTA
84479708 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
84479725 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
84479743 GATATGA
1 GATATGA
84479750 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:84479720 original size:17 final size:17
Alignment explanation
Indices: 84479700--84479763 Score: 92
Period size: 17 Copynumber: 3.6 Consensus size: 17
84479690 CAATGATATG
84479700 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
84479717 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
84479735 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
84479754 CAATCTTAGA
1 CAATCTTAGA
84479764 AGATATGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.36
18 15 0.36
19 11 0.26
20 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:84479738 original size:35 final size:37
Alignment explanation
Indices: 84479692--84479770 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
84479682 ATAATCTTCA
84479692 ATGATATGCAATCTTAGATATG-ATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
84479728 ATGAT-TGCAATCTTAGATATGATATACAATCTTAGA-
1 ATGATATGCAATCTTAGATATGA-ATACAATCTTAGAT
84479764 A-GATATG
1 ATGATATG
84479771 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 19 0.47
36 8 0.20
37 13 0.32
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
Found at i:84480084 original size:12 final size:11
Alignment explanation
Indices: 84480069--84480102 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
84480059 TATTTTTAAT
84480069 TTATTATATATA
1 TTATT-TATATA
84480081 TTATTTATTATA
1 TTATTTA-TATA
84480093 TTATTTATAT
1 TTATTTATAT
84480103 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:84480094 original size:21 final size:21
Alignment explanation
Indices: 84480070--84480178 Score: 61
Period size: 21 Copynumber: 5.3 Consensus size: 21
84480060 ATTTTTAATT
84480070 TATTATATATATTATTTATTA
1 TATTATATATATTATTTATTA
* *
84480091 TATTATTTATATT-TTCA--A
1 TATTATATATATTATTTATTA
* * *
84480109 AATT-TGTAAATTA-TTATTA
1 TATTATATATATTATTTATTA
* *
84480128 TA-TATTATATTTTAACTTATATA
1 TATTA-TATATATT-ATTTAT-TA
*
84480151 TCTTATATAT-TTATTTATTTA
1 TATTATATATATTATTTA-TTA
84480172 TATTATA
1 TATTATA
84480179 CATTATTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 20
0.66 0.13 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.08
19 2 0.03
20 8 0.12
21 25 0.38
22 7 0.11
23 8 0.12
24 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTATATATATTATTTATTA
Found at i:84480100 original size:16 final size:16
Alignment explanation
Indices: 84480067--84480097 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
84480057 CTTATTTTTA
84480067 ATTTATTATATATATT
1 ATTTATTATATATATT
84480083 ATTTATTATAT-TATT
1 ATTTATTATATATATT
84480098 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Done.