Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold21
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: 2821038
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.33
Warning! 98422 characters in sequence are not A, C, G, or T
File 4 of 15
Found at i:428294 original size:21 final size:20
Alignment explanation
Indices: 428231--428303 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
428221 TAAAATTTAA
428231 TAAATTAAATTTAAATTTAATT
1 TAAATTAAATTTAAA--TAATT
*
428253 TATA-TAAATTTAAATAA--
1 TAAATTAAATTTAAATAATT
428270 -AAATTAAATTTAAGATAATT
1 TAAATTAAATTTAA-ATAATT
*
428290 TAAATTAAAATTAA
1 TAAATTAAATTTAA
428304 TTTAAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
16 2 0.05
17 9 0.21
18 4 0.09
19 3 0.07
21 22 0.51
22 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (20 bp):
TAAATTAAATTTAAATAATT
Found at i:428309 original size:32 final size:31
Alignment explanation
Indices: 428232--428312 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
428222 AAAATTTAAT
* * *
428232 AAATTAAATTTAAATTTAATTTATATAAATTT
1 AAATT-AATTTAAATTTAAATAATATAAATTA
* * *
428264 AAATAAAAATTAAATTTAAGATAATTTAAATTA
1 AAAT-TAATTTAAATTTAA-ATAATATAAATTA
428297 AAATTAATTTAAATTT
1 AAATTAATTTAAATTT
428313 TTTTTAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 26 0.67
33 13 0.33
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (31 bp):
AAATTAATTTAAATTTAAATAATATAAATTA
Found at i:428334 original size:15 final size:15
Alignment explanation
Indices: 428314--428378 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
428304 TTTAAATTTT
428314 TTTTAAAAAATTAAA
1 TTTTAAAAAATTAAA
428329 TTTT--AAAATTAAA
1 TTTTAAAAAATTAAA
* * *
428342 -ATTAATTTAAATT--T
1 TTTTAA--AAAATTAAA
428356 TTTTAAAAAATTAAA
1 TTTTAAAAAATTAAA
428371 TTTTAAAA
1 TTTTAAAA
428379 TTTAAATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
12 2 0.05
13 14 0.38
15 16 0.43
16 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTTAAAAAATTAAA
Found at i:428357 original size:42 final size:42
Alignment explanation
Indices: 428291--428397 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
428281 AAGATAATTT
428291 AAATTAAAATTAATTTAAATTTTTTTTAAAAAATTAAATTTTA
1 AAATTAAAATTAATTTAAA-TTTTTTTAAAAAATTAAATTTTA
428334 AAATTAAAATTAATTTAAATTTTTTTAAAAAATTAAATTTTA
1 AAATTAAAATTAATTTAAATTTTTTTAAAAAATTAAATTTTA
* *
428376 AAATTTAAATTAATTTTAATTT
1 AAATTAAAATTAATTTAAATTT
428398 AAATTTAATT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
42 43 0.69
43 19 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (42 bp):
AAATTAAAATTAATTTAAATTTTTTTAAAAAATTAAATTTTA
Found at i:429929 original size:23 final size:23
Alignment explanation
Indices: 429906--429950 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
429896 TAGTGATATT
*
429906 AAATATGGCATGAAAATATAATTA
1 AAATATGACAT-AAAATATAATTA
*
429930 AAATATGATATAAAATATAAT
1 AAATATGACATAAAATATAAT
429951 ATGAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (23 bp):
AAATATGACATAAAATATAATTA
Found at i:429957 original size:23 final size:23
Alignment explanation
Indices: 429918--429966 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
429908 ATATGGCATG
*
429918 AAAATATAATTAAAATATGATAT
1 AAAATATAATTAAAATATAATAT
*
429941 AAAATATAA-TATGAATATAATAT
1 AAAATATAATTA-AAATATAATAT
429964 AAA
1 AAA
429967 TACATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATATAATTAAAATATAATAT
Found at i:429959 original size:11 final size:11
Alignment explanation
Indices: 429919--429968 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
429909 TATGGCATGA
429919 AAATATAAT-T
1 AAATATAATAT
*
429929 AAAATATGATAT
1 -AAATATAATAT
429941 AAAATATAATAT
1 -AAATATAATAT
*
429953 GAATATAATAT
1 AAATATAATAT
429964 AAATA
1 AAATA
429969 CATAAATATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 22 0.65
12 12 0.35
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (11 bp):
AAATATAATAT
Found at i:430017 original size:32 final size:32
Alignment explanation
Indices: 429955--430031 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
429945 TATAATATGA
* * *
429955 ATATAATATAAATACATAAATATCTTAAAATTT
1 ATATAATATAAATACATAAACATATCAAAA-TT
*
429988 ATATAATATAAAT-TATAAACATATCAAAATT
1 ATATAATATAAATACATAAACATATCAAAATT
430019 ATATAAATATAAA
1 ATAT-AATATAAA
430032 ATAATTCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
31 6 0.15
32 20 0.51
33 13 0.33
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (32 bp):
ATATAATATAAATACATAAACATATCAAAATT
Found at i:430019 original size:17 final size:16
Alignment explanation
Indices: 429980--430033 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
429970 ATAAATATCT
429980 TAAAATT-TATATAATA
1 TAAAATTATATA-AATA
429996 T-AAATTATA-AACATA
1 TAAAATTATATAA-ATA
430011 TCAAAATTATATAAATA
1 T-AAAATTATATAAATA
430028 TAAAAT
1 TAAAAT
430034 AATTCTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 1 0.03
15 10 0.30
16 8 0.24
17 12 0.36
18 2 0.06
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAAATTATATAAATA
Found at i:432119 original size:2 final size:2
Alignment explanation
Indices: 432112--432150 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
432102 CAAATACATA
*
432112 AT AT AT AT AT AT A- AT AT AT AT AT AT A- AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
432151 GTTTCAAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:432127 original size:13 final size:13
Alignment explanation
Indices: 432109--432150 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
432099 CTTCAAATAC
432109 ATAATATATATAT
1 ATAATATATATAT
432122 ATAATATATATAT
1 ATAATATATATAT
*
432135 ATAAAATATATAT
1 ATAATATATATAT
432148 ATA
1 ATA
432151 GTTTCAAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATATATATAT
Found at i:432132 original size:15 final size:15
Alignment explanation
Indices: 432112--432150 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
432102 CAAATACATA
*
432112 ATATATATATATAAT
1 ATATATATATAAAAT
432127 ATATATATATAAAAT
1 ATATATATATAAAAT
432142 ATATATATA
1 ATATATATA
432151 GTTTCAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATATATAAAAT
Found at i:432438 original size:33 final size:31
Alignment explanation
Indices: 432387--432466 Score: 79
Period size: 33 Copynumber: 2.5 Consensus size: 31
432377 TTTTTATATT
**
432387 AATATTTATATTTTATAATTAAATTTTAATAAA
1 AATATTTATATTAAATAA-T-AATTTTAATAAA
* *
432420 AATATTTTTATTAAATAATAATTTTAATTAA
1 AATATTTATATTAAATAATAATTTTAATAAA
* *
432451 ATTAATTTAAATTAAA
1 AAT-ATTTATATTAAA
432467 AAAATTATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
31 13 0.33
32 11 0.28
33 15 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
AATATTTATATTAAATAATAATTTTAATAAA
Found at i:432472 original size:15 final size:15
Alignment explanation
Indices: 432407--432472 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
432397 TTTTATAATT
432407 AAATTTTAA-TAAAA
1 AAATTTTAATTAAAA
* *
432421 ATATTTTTATTAAATA
1 AAATTTTAATTAAA-A
*
432437 ATAATTTTAATTAAAT
1 A-AATTTTAATTAAAA
* *
432453 TAATTTAAATTAAAA
1 AAATTTTAATTAAAA
432468 AAATT
1 AAATT
432473 ATATGAAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
14 7 0.17
15 20 0.50
16 2 0.05
17 11 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATTTTAATTAAAA
Found at i:433271 original size:18 final size:18
Alignment explanation
Indices: 433248--433282 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
433238 ATGGGTCTGG
433248 TTTTTT-CTTCACTGTTTT
1 TTTTTTCCTTCA-TGTTTT
433266 TTTTTTCCTTCATGTTT
1 TTTTTTCCTTCATGTTT
433283 ACAGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTTTCCTTCATGTTTT
Found at i:435683 original size:13 final size:12
Alignment explanation
Indices: 435652--435698 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
435642 TGAATTGGGT
435652 TAAATTAAATAA
1 TAAATTAAATAA
435664 TAAATTAAATCACA
1 TAAATTAAAT-A-A
435678 -AAATTAAATTAA
1 TAAATTAAA-TAA
*
435690 TGAATTAAA
1 TAAATTAAA
435699 CCAAACAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 11 0.37
13 17 0.57
14 2 0.07
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (12 bp):
TAAATTAAATAA
Found at i:435696 original size:26 final size:24
Alignment explanation
Indices: 435653--435711 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 24
435643 GAATTGGGTT
*
435653 AAATTAAATAATAAATTAAATCACA
1 AAATTAAATAATAAATTAAACCA-A
*
435678 AAATTAAATTAATGAATTAAACCAA
1 AAATTAAA-TAATAAATTAAACCAA
435703 ACAATTAAA
1 A-AATTAAA
435712 CCTGTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (24 bp):
AAATTAAATAATAAATTAAACCAA
Found at i:436483 original size:19 final size:18
Alignment explanation
Indices: 436451--436489 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
436441 AAAATTTATT
436451 TAAATTTAATTATAATAAA
1 TAAATTTAATTATAA-AAA
436470 TAAATATTAA-TATAAAAA
1 TAAAT-TTAATTATAAAAA
436488 TA
1 TA
436490 TTTTTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 10 0.53
20 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATTTAATTATAAAAA
Found at i:436699 original size:30 final size:28
Alignment explanation
Indices: 436652--436717 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
436642 TGTGTTTGTC
* * *
436652 AAAAATAATGA-TTTTTTTGTATTTATA
1 AAAAATAGTGAGTTTTTTTTTGTTTATA
*
436679 AAAAATAGTGAGTTTTTTTTTGTTTGTA
1 AAAAATAGTGAGTTTTTTTTTGTTTATA
436707 AAAAATAGTGA
1 AAAAATAGTGA
436718 CTTATTGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 10 0.29
28 24 0.71
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (28 bp):
AAAAATAGTGAGTTTTTTTTTGTTTATA
Found at i:436734 original size:24 final size:24
Alignment explanation
Indices: 436698--436758 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
436688 GAGTTTTTTT
*
436698 TTGTTTGTAAAAAATAGTGACTTA
1 TTGTTTATAAAAAATAGTGACTTA
* * * *
436722 TTGTTTATCAAAATTGGTGGCTTA
1 TTGTTTATAAAAAATAGTGACTTA
* *
436746 TTATTTATTAAAA
1 TTGTTTATAAAAA
436759 TTGGTAATGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (24 bp):
TTGTTTATAAAAAATAGTGACTTA
Found at i:436759 original size:24 final size:24
Alignment explanation
Indices: 436718--436763 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
436708 AAAATAGTGA
*
436718 CTTATTGTTTATCAAAATTGGTGG
1 CTTATTATTTATCAAAATTGGTGG
*
436742 CTTATTATTTATTAAAATTGGT
1 CTTATTATTTATCAAAATTGGT
436764 AATGAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (24 bp):
CTTATTATTTATCAAAATTGGTGG
Found at i:438623 original size:20 final size:20
Alignment explanation
Indices: 438598--438640 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
438588 CAATTAACGA
438598 ATAAATC-AATATATAATTAG
1 ATAAATCAAATATA-AATTAG
438618 ATAAATCAAATATGAAATTAG
1 ATAAATCAAATAT-AAATTAG
438639 AT
1 AT
438641 TGAATTCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 13 0.62
22 1 0.05
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAATCAAATATAAATTAG
Found at i:438636 original size:21 final size:20
Alignment explanation
Indices: 438598--438640 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
438588 CAATTAACGA
438598 ATAAATCAATATATAATTAG
1 ATAAATCAATATATAATTAG
438618 ATAAATCAA-ATATGAAATTAG
1 ATAAATCAATATAT--AATTAG
438639 AT
1 AT
438641 TGAATTCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 9 0.43
21 8 0.38
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAATCAATATATAATTAG
Found at i:439571 original size:2 final size:2
Alignment explanation
Indices: 439564--439588 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
439554 AAGTATAATA
439564 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
439589 GATCCTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:439705 original size:30 final size:30
Alignment explanation
Indices: 439671--439730 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
439661 TTTCATCCTT
439671 TAGAATTTTTAAACTTGATAGACGAATTAG
1 TAGAATTTTTAAACTTGATAGACGAATTAG
* *
439701 TAGAATTTTTTAACTTGATAGATGAATTAG
1 TAGAATTTTTAAACTTGATAGACGAATTAG
439731 CAAAAGGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (30 bp):
TAGAATTTTTAAACTTGATAGACGAATTAG
Found at i:441441 original size:2 final size:2
Alignment explanation
Indices: 441434--441476 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
441424 TCAGAACTTC
*
441434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
441475 AT
1 AT
441477 CTCTAATTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:444595 original size:17 final size:17
Alignment explanation
Indices: 444560--444602 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
444550 TATGAATGAT
* *
444560 AATAATAAATATATTAAA
1 AATAAT-AATAAATAAAA
444578 AATAATAATAAATAAAA
1 AATAATAATAAATAAAA
444595 AATAATAA
1 AATAATAA
444603 ACTGATCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATAATAAATAAAA
Found at i:445147 original size:21 final size:22
Alignment explanation
Indices: 445121--445163 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
445111 TTAATAATTT
*
445121 AAATTA-TTATTTAATTATAAA
1 AAATTATTTATTTAAATATAAA
445142 AAATTATTTATTTAAATATAAA
1 AAATTATTTATTTAAATATAAA
445164 TATAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATTATTTATTTAAATATAAA
Found at i:445562 original size:16 final size:16
Alignment explanation
Indices: 445533--445569 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
445523 AATTTTTATG
445533 ATTTATTTATTTAATT
1 ATTTATTTATTTAATT
445549 ATTTGATTTA-TTAATT
1 ATTT-ATTTATTTAATT
445565 ATTTA
1 ATTTA
445570 ATTGGGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 14 0.70
17 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
ATTTATTTATTTAATT
Found at i:447005 original size:20 final size:20
Alignment explanation
Indices: 446980--447020 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
446970 CATATTTAAT
446980 TATTATTTAGTTAAAAATTA
1 TATTATTTAGTTAAAAATTA
447000 TATTATTTAGTTAAAAATTA
1 TATTATTTAGTTAAAAATTA
447020 T
1 T
447021 GTTGTCACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
TATTATTTAGTTAAAAATTA
Found at i:447459 original size:2 final size:2
Alignment explanation
Indices: 447452--447492 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
447442 CGGTACAGCC
447452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
447493 GACCTACCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:450560 original size:15 final size:15
Alignment explanation
Indices: 450542--450593 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
450532 TAATATTTTT
450542 ATATTAATTATATAA
1 ATATTAATTATATAA
450557 ATATTAATATAATATAA
1 ATATTAAT-T-ATATAA
* *
450574 TTATTAAGTATATAA
1 ATATTAATTATATAA
450589 ATATT
1 ATATT
450594 TTAAATGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 18 0.56
16 2 0.06
17 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATATTAATTATATAA
Found at i:450586 original size:41 final size:40
Alignment explanation
Indices: 450541--450625 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 40
450531 ATAATATTTT
* * *
450541 TATATTAATTA-TATAAATATTAATATAATATAATTATTAAG
1 TATATTAAATATTATAAATATAAATATAATAT-A-TATTAAA
* *
450582 TATA-TAAATATTTTAAATGTAAATATAATATATATTAAA
1 TATATTAAATATTATAAATATAAATATAATATATATTAAA
450621 TATAT
1 TATAT
450626 CATATTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
39 10 0.27
40 6 0.16
41 21 0.57
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (40 bp):
TATATTAAATATTATAAATATAAATATAATATATATTAAA
Found at i:450634 original size:24 final size:24
Alignment explanation
Indices: 450607--450701 Score: 74
Period size: 24 Copynumber: 4.1 Consensus size: 24
450597 AATGTAAATA
450607 TAATATATATTAAATATATCATAT
1 TAATATATATTAAATATATCATAT
*
450631 TAAT-TATATTTAAATATATTATAT
1 TAATATATA-TTAAATATATCATAT
* * * *
450655 T-TTATTTATTATAT-TAT--TTT
1 TAATATATATTAAATATATCATAT
* **
450675 TAATATTTATTAAGCATATCATAT
1 TAATATATATTAAATATATCATAT
450699 TAA
1 TAA
450702 AGATTAGCGA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
20 3 0.05
21 9 0.16
22 6 0.11
23 10 0.18
24 27 0.49
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (24 bp):
TAATATATATTAAATATATCATAT
Found at i:450667 original size:19 final size:20
Alignment explanation
Indices: 450627--450676 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
450617 TAAATATATC
*
450627 ATATTA-ATTATATTTAAAT
1 ATATTATATTTTATTTAAAT
*
450646 ATATTATATTTTATTT-ATT
1 ATATTATATTTTATTTAAAT
450665 ATATTAT-TTTTA
1 ATATTATATTTTA
450677 ATATTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 15 0.54
20 8 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTATATTTTATTTAAAT
Found at i:450676 original size:14 final size:15
Alignment explanation
Indices: 450647--450686 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
450637 TATTTAAATA
450647 TATTATATT-TTATT
1 TATTATATTATTATT
450661 TATTATATTATT-TT
1 TATTATATTATTATT
*
450675 TAATAT-TTATTA
1 TATTATATTATTA
450687 AGCATATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 5 0.22
14 16 0.70
15 2 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTATATTATTATT
Found at i:450681 original size:21 final size:20
Alignment explanation
Indices: 450634--450686 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
450624 ATCATATTAA
*
450634 TTATATTTAAATATATTATAT
1 TTATATTT-ATTATATTATAT
*
450655 TT-TATTTATTATATTATTT
1 TTATATTTATTATATTATAT
450674 TTAATATTTATTA
1 TT-ATATTTATTA
450687 AGCATATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.43
20 5 0.18
21 11 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATATTTATTATATTATAT
Found at i:456086 original size:2 final size:2
Alignment explanation
Indices: 456081--456105 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
456071 TTTAAATTTT
456081 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
456106 GACATATTAC
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:460748 original size:31 final size:33
Alignment explanation
Indices: 460686--460754 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 33
460676 ATATAAAAAG
*
460686 TAATATAAATATATGAATATATTTAAATTTATA
1 TAATATAAATATATGAATATATTAAAATTTATA
* *
460719 TAATATAAAT-TATTAATTTA-TAAAATTTATA
1 TAATATAAATATATGAATATATTAAAATTTATA
*
460750 AAATA
1 TAATA
460755 ATATGTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 14 0.44
32 8 0.25
33 10 0.31
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (33 bp):
TAATATAAATATATGAATATATTAAAATTTATA
Found at i:461158 original size:4 final size:4
Alignment explanation
Indices: 461142--461172 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
461132 ATCAGCGAAT
*
461142 CTCC CTCC TTCC CTCC CTCC CTCC CTCC CTC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTC
461173 TCTCACCCAC
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:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (4 bp):
CTCC
Found at i:462796 original size:21 final size:21
Alignment explanation
Indices: 462764--462827 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
462754 TAATTTTAAT
*
462764 TAAA-ATATTATTATAAAATA
1 TAAATATAATATTATAAAATA
462784 TAAATATAATATTAATAAAATGA
1 TAAATATAATATT-ATAAAAT-A
*
462807 T--ATTTAATATTAT-AAATA
1 TAAATATAATATTATAAAATA
462825 TAA
1 TAA
462828 TTAAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.05
19 4 0.11
20 6 0.16
21 16 0.43
22 7 0.19
23 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATATAATATTATAAAATA
Found at i:462803 original size:35 final size:36
Alignment explanation
Indices: 462754--462828 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 36
462744 AGGTATAGAT
*
462754 TAATTTTAATTAAAAT-ATTATTATAA-AATATAAATA
1 TAATATTAATTAAAATGA-TATT-TAATAATATAAATA
*
462790 TAATATTAA-TAAAATGATATTTAATATTATAAATA
1 TAATATTAATTAAAATGATATTTAATAATATAAATA
462825 TAAT
1 TAAT
462829 TAAAATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 3 0.09
35 23 0.66
36 9 0.26
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (36 bp):
TAATATTAATTAAAATGATATTTAATAATATAAATA
Found at i:463367 original size:21 final size:20
Alignment explanation
Indices: 463328--463388 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
463318 AATAAAAATA
* *
463328 TTTATTTATTTAGATTTTAT
1 TTTATTTATTTAAAATTTAT
463348 TTTATTTAATTTAAAATTTAT
1 TTTATTT-ATTTAAAATTTAT
* *
463369 TTT-TTTATTAAAAATATAT
1 TTTATTTATTTAAAATTTAT
463388 T
1 T
463389 AAAATATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 12 0.33
20 10 0.28
21 14 0.39
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTATTTATTTAAAATTTAT
Found at i:463388 original size:19 final size:21
Alignment explanation
Indices: 463345--463388 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
463335 ATTTAGATTT
* *
463345 TATTTTATTTAATTTAAAATT
1 TATTTTATTTAATTAAAAATA
463366 TATTTT-TTT-ATTAAAAATA
1 TATTTTATTTAATTAAAAATA
463385 TATT
1 TATT
463389 AAAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 3 0.14
21 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTATTTAATTAAAAATA
Found at i:464117 original size:17 final size:18
Alignment explanation
Indices: 464092--464130 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
464082 TTCATTCATT
* *
464092 AATAGTTTTTAATTTTTA
1 AATAGTTTTAAATATTTA
464110 AATA-TTTTAAATATTTA
1 AATAGTTTTAAATATTTA
464127 AATA
1 AATA
464131 CATATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
AATAGTTTTAAATATTTA
Found at i:464945 original size:15 final size:15
Alignment explanation
Indices: 464925--464963 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
464915 CTACCGAAAA
*
464925 AAATAATAATAATGT
1 AAATAATAATAATAT
464940 AAATAAT-ATAATAT
1 AAATAATAATAATAT
464954 AATATAATAA
1 AA-ATAATAA
464964 AAAAAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 8 0.38
15 12 0.57
16 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATAATAATAATAT
Found at i:469695 original size:18 final size:18
Alignment explanation
Indices: 469674--469745 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
469664 AATTTATTAA
469674 ATTAAATAATATTATTTT
1 ATTAAATAATATTATTTT
* ****
469692 ATTAAA-AAAATTTAAAAA
1 ATTAAATAATA-TTATTTT
*
469710 ATATAAATAATTTTATTTT
1 AT-TAAATAATATTATTTT
*
469729 AATAAATAATATTATTT
1 ATTAAATAATATTATTT
469746 AATTTATTAA
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
17 3 0.08
18 25 0.66
19 8 0.21
20 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAATAATATTATTTT
Found at i:470430 original size:17 final size:17
Alignment explanation
Indices: 470395--470455 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 17
470385 TTTATTAATT
*
470395 TTTAAAATTTTTATATA
1 TTTAAAATTTATATATA
470412 TTTAATAATTTATATTATTA
1 TTTAA-AATTTATA-TA-TA
* *
470432 TATTCATATTTATATAT-
1 T-TTAAAATTTATATATA
470449 TTTAAAA
1 TTTAAAA
470456 AATAATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
16 4 0.11
17 6 0.17
18 8 0.23
19 4 0.11
20 10 0.29
21 3 0.09
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAAATTTATATATA
Found at i:470604 original size:2 final size:2
Alignment explanation
Indices: 470597--470694 Score: 71
Period size: 2 Copynumber: 51.0 Consensus size: 2
470587 GTAAACTTTG
* * * *
470597 AT AT AT AT AT AT AT AT AT AT AT AT AA AC AT A- AA AT TT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * **
470637 AT AA AT AT GGT AT A- AC AT -T GC 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 AT AT
470678 AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT
470695 TTTCAATAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
1 5 0.07
2 70 0.92
3 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (2 bp):
AT
Found at i:470929 original size:21 final size:21
Alignment explanation
Indices: 470887--470965 Score: 94
Period size: 21 Copynumber: 4.0 Consensus size: 21
470877 AGATTAAAAA
*
470887 AAATATAATAATAA-AAAATT
1 AAATATTATAATAATAAAATT
* * *
470907 AATTATTATAATTATATAATT
1 AAATATTATAATAATAAAATT
470928 AAATATTATAATAATAAAATT
1 AAATATTATAATAATAAAATT
470949 AAA-A-T-TAATAATAAAAT
1 AAATATTATAATAATAAAAT
470966 ATATATTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
18 12 0.24
19 1 0.02
20 12 0.24
21 26 0.51
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATATTATAATAATAAAATT
Found at i:470955 original size:44 final size:46
Alignment explanation
Indices: 470901--471000 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 46
470891 ATAATAATAA
* * *
470901 AAAATTAATTATTATAATTATATAATTAAATATTATAATAATAAAATT
1 AAAATTAA-TAATA-AAATATATAATTAAATATAATAATAATAAAATT
* * * *
470949 AAAATTAATAATAAAATATATATTTATATAGTAATAATAATGAAATG
1 AAAATTAATAATAAAATATATAATTAAATA-TAATAATAATAAAATT
470996 AAAAT
1 AAAAT
471001 AAAAATCATC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
46 14 0.32
47 22 0.50
48 8 0.18
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (46 bp):
AAAATTAATAATAAAATATATAATTAAATATAATAATAATAAAATT
Found at i:472884 original size:11 final size:13
Alignment explanation
Indices: 472854--472889 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
472844 AAGAACGTTT
472854 CAAAATATTATTA
1 CAAAATATTATTA
472867 CAAAATATT-TTA
1 CAAAATATTATTA
472879 -AAAATATTATT
1 CAAAATATTATT
472890 TAAAATGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.36
12 5 0.23
13 9 0.41
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (13 bp):
CAAAATATTATTA
Found at i:472891 original size:13 final size:13
Alignment explanation
Indices: 472855--472894 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
472845 AGAACGTTTC
472855 AAAATATTA-TTA
1 AAAATATTATTTA
472867 CAAAATA-T-TTTA
1 -AAAATATTATTTA
472879 AAAATATTATTTA
1 AAAATATTATTTA
472892 AAA
1 AAA
472895 TGATTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.25
12 5 0.21
13 13 0.54
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATATTATTTA
Found at i:473699 original size:16 final size:17
Alignment explanation
Indices: 473675--473712 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
473665 TTAATAATTT
*
473675 TTAAAATATTTTTAT-A
1 TTAAAATATATTTATAA
*
473691 TTAATATATATTTATAA
1 TTAAAATATATTTATAA
473708 TTAAA
1 TTAAA
473713 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAATATATTTATAA
Found at i:476100 original size:12 final size:12
Alignment explanation
Indices: 476085--476126 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
476075 AAATAATAAA
476085 AAAATATATTTT
1 AAAATATATTTT
476097 AAAATATA-TTT
1 AAAATATATTTT
* *
476108 ATAAATTTATTTA
1 A-AAATATATTTT
476121 AAAATA
1 AAAATA
476127 AATAAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 4 0.16
12 18 0.72
13 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAAATATATTTT
Found at i:476100 original size:24 final size:23
Alignment explanation
Indices: 476073--476135 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
476063 AATTTTTATG
476073 AAAAATAATAAAAAAATATATTT
1 AAAAATAATAAAAAAATATATTT
* ** * *
476096 TAAAATATATTTATAAATTTATTT
1 AAAAATA-ATAAAAAAATATATTT
476120 AAAAATAAATAAAAAA
1 AAAAAT-AATAAAAAA
476136 CTTTAGTATA
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
23 6 0.21
24 22 0.76
25 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATAATAAAAAAATATATTT
Found at i:476615 original size:22 final size:23
Alignment explanation
Indices: 476590--476659 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 23
476580 ATTAAAAATT
476590 TAAT-TTTTAAAAAATAATTATA
1 TAATATTTTAAAAAATAATTATA
476612 TAATAATTTTAAATATTAAATAATTATA
1 TAAT-ATTTT-AA-A--AAATAATTATA
*
476640 TAATATATT-AAAAATAATTA
1 TAATATTTTAAAAAATAATTA
476660 AAATATAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
22 13 0.32
24 5 0.12
25 3 0.07
26 1 0.02
27 4 0.10
28 15 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAATATTTTAAAAAATAATTATA
Found at i:476634 original size:20 final size:20
Alignment explanation
Indices: 476601--476665 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
476591 AATTTTTAAA
* *
476601 AAATAATTATATAATAATTTT
1 AAAT-ATTAAATAATAATTAT
*
476622 AAATATTAAATAATTA-TAT
1 AAATATTAAATAATAATTAT
476641 AATATATTAAA-AATAATTA-
1 AA-ATATTAAATAATAATTAT
476660 AAATAT
1 AAATAT
476666 AATAAATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.11
19 10 0.26
20 20 0.53
21 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATATTAAATAATAATTAT
Found at i:476635 original size:17 final size:20
Alignment explanation
Indices: 476613--476706 Score: 66
Period size: 17 Copynumber: 5.0 Consensus size: 20
476603 ATAATTATAT
476613 AATAATT-T-TAA-ATATTA
1 AATAATTATATAATATATTA
476630 AATAATTATATAATATATTAAA
1 AATAATTATATAATATATT--A
*
476652 AATAATTA-A-AATATAATA
1 AATAATTATATAATATATTA
476670 AAT-ATGTA-A-AA-ATATT-
1 AATAAT-TATATAATATATTA
476686 AAT-ATTATATAAATATATTA
1 AATAATTATAT-AATATATTA
476706 A
1 A
476707 TATATTAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 19
0.75 0.02 0.22
Matches are distributed among these distances:
15 2 0.03
16 6 0.09
17 13 0.20
18 12 0.19
19 8 0.12
20 13 0.20
21 1 0.02
22 9 0.14
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
AATAATTATATAATATATTA
Found at i:476665 original size:25 final size:25
Alignment explanation
Indices: 476637--476789 Score: 71
Period size: 25 Copynumber: 5.8 Consensus size: 25
476627 TTAAATAATT
476637 ATATAATATATTAAAAATAATTAAA
1 ATATAATATATTAAAAATAATTAAA
476662 ATATAATAAATATGTAAAAAT-ATTAATA
1 ATATAAT--ATAT-TAAAAATAATTAA-A
*
476690 TTATATAAATATATT-AATAT-ATTAAA
1 --ATAT-AATATATTAAAAATAATTAAA
** * **
476716 ATTTTTATAATAT-TTATTATTTTTATAAA
1 A----TATAATATATTAAAAATAAT-TAAA
* * *
476745 ATATAATATTTTAAATATAATTATA
1 ATATAATATATTAAAAATAATTAAA
* *
476770 ATATAATATAATAAATATAA
1 ATATAATATATTAAAAATAA
476790 ATTATTAAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
24 1 0.01
25 36 0.37
26 8 0.08
27 24 0.24
28 13 0.13
29 9 0.09
30 4 0.04
31 3 0.03
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (25 bp):
ATATAATATATTAAAAATAATTAAA
Found at i:476666 original size:20 final size:22
Alignment explanation
Indices: 476629--476671 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
476619 TTTAAATATT
*
476629 AAATAATTATATAATATATTAA
1 AAATAATTATATAATATAATAA
476651 AAATAATTA-A-AATATAATAA
1 AAATAATTATATAATATAATAA
476671 A
1 A
476672 TATGTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 1 0.05
22 9 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAATTATATAATATAATAA
Found at i:476698 original size:19 final size:19
Alignment explanation
Indices: 476622--476709 Score: 65
Period size: 19 Copynumber: 4.6 Consensus size: 19
476612 TAATAATTTT
476622 AAATATTAAATAATTATAT-A
1 AAATATT-AAT-ATTATATAA
* * * *
476642 ATATATTAAAAATA-ATTA
1 AAATATTAATATTATATAA
* *
476660 AAATA-TAATAAATATGTAA
1 AAATATTAAT-ATTATATAA
476679 AAATATTAATATTATATAA
1 AAATATTAATATTATATAA
*
476698 ATATATTAATAT
1 AAATATTAATAT
476710 ATTAAAATTT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
17 5 0.09
18 12 0.22
19 27 0.50
20 10 0.19
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (19 bp):
AAATATTAATATTATATAA
Found at i:476727 original size:27 final size:27
Alignment explanation
Indices: 476605--476728 Score: 112
Period size: 28 Copynumber: 4.5 Consensus size: 27
476595 TTTAAAAAAT
**
476605 AATTATATAATA-ATTTTAAATATTAAA
1 AATTATATAATATATTAAAAATATT-AA
476632 TAATTATATAATATATTAAAAATAATTAA
1 -AATTATATAATATATTAAAAAT-ATTAA
476661 AA-TATAATAA-ATATGTAAAAATATTAA
1 AATTAT-ATAATATAT-TAAAAATATTAA
* *
476688 TATTATATAAATATATT-AATATATTAA
1 AATTATAT-AATATATTAAAAATATTAA
*
476715 AATTTTTATAATAT
1 AA-TTATATAATAT
476729 TTATTATTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
27 30 0.37
28 36 0.44
29 13 0.16
30 3 0.04
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
AATTATATAATATATTAAAAATATTAA
Found at i:476728 original size:17 final size:18
Alignment explanation
Indices: 476704--476743 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
476694 ATAAATATAT
476704 TAATATATTAAAATTTTTA
1 TAATAT-TTAAAATTTTTA
**
476723 TAATATTTATTATTTTTA
1 TAATATTTAAAATTTTTA
476741 TAA
1 TAA
476744 AATATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATATTTAAAATTTTTA
Found at i:476754 original size:18 final size:18
Alignment explanation
Indices: 476716--476756 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
476706 ATATATTAAA
* * *
476716 ATTTTTATAATATTTATT
1 ATTTTTATAAAATATAAT
476734 ATTTTTATAAAATATAAT
1 ATTTTTATAAAATATAAT
476752 ATTTT
1 ATTTT
476757 AAATATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTATAAAATATAAT
Found at i:476762 original size:14 final size:13
Alignment explanation
Indices: 476738--476799 Score: 56
Period size: 14 Copynumber: 4.6 Consensus size: 13
476728 TTTATTATTT
476738 TTATAAAATATAATA
1 TTAT-AAATATAA-A
*
476753 TTTTAAATAT-AA
1 TTATAAATATAAA
476765 TTAT-AATATAATA
1 TTATAAATATAA-A
*
476778 TAATAAATATAAA
1 TTATAAATATAAA
476791 TTATTAAAT
1 TTA-TAAAT
476800 TTATAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 5 0.13
12 5 0.13
13 8 0.21
14 18 0.46
15 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTATAAATATAAA
Found at i:476776 original size:5 final size:5
Alignment explanation
Indices: 476744--476789 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
476734 ATTTTTATAA
**
476744 AATAT AATAT TTTA- AATAT AATTAT AATAT AATAT AATA- AATAT AA
1 AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AA
476790 ATTATTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 6 0.18
5 23 0.68
6 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:477458 original size:2 final size:2
Alignment explanation
Indices: 477447--477477 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
477437 CTCTGACAGC
477447 AT AT -T 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
477478 GTCTGCCAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:478663 original size:20 final size:20
Alignment explanation
Indices: 478638--478677 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
478628 GCCTGAAAGA
478638 AAATACACATTACAGTCACT
1 AAATACACATTACAGTCACT
478658 AAATACACATTACAGTCACT
1 AAATACACATTACAGTCACT
478678 CATCAGCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (20 bp):
AAATACACATTACAGTCACT
Found at i:482025 original size:20 final size:19
Alignment explanation
Indices: 481984--482027 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
481974 ATTAATAATT
*
481984 TATCTTATAAAATTTTTAA
1 TATCTTATAAAATTATTAA
* *
482003 TATCTTCATAATATTATTCA
1 TATCTT-ATAAAATTATTAA
482023 TATCT
1 TATCT
482028 AATTATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.52
Consensus pattern (19 bp):
TATCTTATAAAATTATTAA
Found at i:482079 original size:24 final size:24
Alignment explanation
Indices: 482052--482097 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
482042 TATTTTTTAT
482052 ATTA-TATATTCT-TTTCATTTTAAA
1 ATTATTAT-TTCTATTTC-TTTTAAA
482076 ATTATTATTTCTATTTCTTTTA
1 ATTATTATTTCTATTTCTTTTA
482098 TCATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTATTATTTCTATTTCTTTTAAA
Found at i:484702 original size:17 final size:17
Alignment explanation
Indices: 484669--484715 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
484659 ACCAGCCATT
*
484669 AAAATATATATATATATA
1 AAAATA-ATATAAATATA
*
484687 TAAATAATATAAATATA
1 AAAATAATATAAATATA
484704 AAAATAATATAA
1 AAAATAATATAA
484716 TAAATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAATATAAATATA
Found at i:485693 original size:20 final size:21
Alignment explanation
Indices: 485670--485719 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
485660 TTTAAATTAA
485670 TTTAATTTAAAATAATA-ATT
1 TTTAATTTAAAATAATATATT
485690 TTTAA-TTAAAATAATATATT
1 TTTAATTTAAAATAATATATT
485710 TTT-ATTTAAA
1 TTTAATTTAAA
485720 TTTAATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTTAAAATAATATATT
Found at i:485720 original size:19 final size:19
Alignment explanation
Indices: 485670--485720 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
485660 TTTAAATTAA
485670 TTTAATTTAAAATAATAATT
1 TTTAATTT-AAATAATAATT
*
485690 TTTAATTAAAATAATATATT
1 TTTAATTTAAATAATA-ATT
485710 TTT-ATTTAAAT
1 TTTAATTTAAAT
485721 TTAATTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAATTTAAATAATAATT
Found at i:485726 original size:30 final size:30
Alignment explanation
Indices: 485690--485756 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
485680 AATAATAATT
* *
485690 TTTAATTAAAATAATATATTTTTATT-TAAA
1 TTTAATTAAAAT-ATATAATATTATTATAAA
*
485720 TTTAATTATAATATATAATATTATTATAAA
1 TTTAATTAAAATATATAATATTATTATAAA
*
485750 ATTAATT
1 TTTAATT
485757 TTTTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTAATTAAAATATATAATATTATTATAAA
Found at i:486039 original size:22 final size:21
Alignment explanation
Indices: 486001--486041 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
485991 ATGTTTAATA
486001 ATTTTAAATTTTATATTTTAT
1 ATTTTAAATTTTATATTTTAT
* *
486022 ATTTATAATTTTTTTATTTT
1 ATTT-TAAATTTTATATTTT
486042 TAAATTGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTAAATTTTATATTTTAT
Found at i:487353 original size:10 final size:9
Alignment explanation
Indices: 487334--487401 Score: 58
Period size: 9 Copynumber: 8.2 Consensus size: 9
487324 TAATATAACT
487334 TATTAAATA
1 TATTAAATA
487343 TATTAAA-A
1 TATTAAATA
487351 TATT-AA-A
1 TATTAAATA
487358 T-TTAAATA
1 TATTAAATA
* *
487366 TAATATAT-
1 TATTAAATA
*
487374 TATTAAATG
1 TATTAAATA
*
487383 TATCAAA-A
1 TATTAAATA
487391 TATTAAATA
1 TATTAAATA
487400 TA
1 TA
487402 AATATAATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
6 2 0.04
7 6 0.13
8 19 0.40
9 20 0.43
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (9 bp):
TATTAAATA
Found at i:487356 original size:17 final size:17
Alignment explanation
Indices: 487334--487401 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 17
487324 TAATATAACT
487334 TATTAAATATATTAAA-A
1 TATTAAA-ATATTAAATA
487351 TATT-AAAT-TTAAATA
1 TATTAAAATATTAAATA
* * * *
487366 TAATATATTATTAAATG
1 TATTAAAATATTAAATA
*
487383 TATCAAAATATTAAATA
1 TATTAAAATATTAAATA
487400 TA
1 TA
487402 AATATAATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
14 5 0.13
15 6 0.15
16 4 0.10
17 24 0.62
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
TATTAAAATATTAAATA
Found at i:487363 original size:23 final size:22
Alignment explanation
Indices: 487336--487424 Score: 74
Period size: 23 Copynumber: 3.8 Consensus size: 22
487326 ATATAACTTA
487336 TTAAATATATTAAAATATTAAAT
1 TTAAATATATT-AAATATTAAAT
* *
487359 TTAAATATAATATATTATTAAAT
1 TTAAATATATTA-AATATTAAAT
487382 GTATCAAA-ATATTAAATA-TAAAT
1 -T-T-AAATATATTAAATATTAAAT
*
487405 ATAATATAGTATTAAATATT
1 TTAA-ATA-TATTAAATATT
487425 TTGTAGTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
20 2 0.04
21 2 0.04
22 2 0.04
23 33 0.62
24 5 0.09
25 6 0.11
26 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAAATATATTAAATATTAAAT
Found at i:487391 original size:40 final size:40
Alignment explanation
Indices: 487319--487423 Score: 156
Period size: 40 Copynumber: 2.6 Consensus size: 40
487309 CAGCTCACAA
* *
487319 AAATATAATATAACTTATTAAATATATTAAAATATTAAATTT
1 AAATATAATAT-A-TTATTAAATATATCAAAATATTAAATAT
*
487361 AAATATAATATATTATTAAATGTATCAAAATATTAAATAT
1 AAATATAATATATTATTAAATATATCAAAATATTAAATAT
*
487401 AAATATAATATAGTATTAAATAT
1 AAATATAATATATTATTAAATAT
487424 TTTGTAGTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 46 0.79
41 1 0.02
42 11 0.19
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (40 bp):
AAATATAATATATTATTAAATATATCAAAATATTAAATAT
Found at i:487422 original size:17 final size:17
Alignment explanation
Indices: 487359--487423 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 17
487349 AATATTAAAT
487359 TTAAATATAATATATTA
1 TTAAATATAATATATTA
*
487376 TTAAATGTATCAAAATATTAAA
1 TTAAA--TAT-AATATATT--A
*
487398 TATAAATATAATATAGTA
1 T-TAAATATAATATATTA
487416 TTAAATAT
1 TTAAATAT
487424 TTTGTAGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
17 12 0.31
18 2 0.05
19 3 0.08
20 13 0.33
21 3 0.08
22 2 0.05
23 4 0.10
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAATATAATATATTA
Found at i:487699 original size:32 final size:34
Alignment explanation
Indices: 487656--487718 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
487646 TTATAAAAAT
*
487656 AATAATAATTAATA-A-ATTATTCTTTTAAAATTC
1 AATAATAATTAATACATATAATT-TTTTAAAATTC
487689 AATAAT-ATTAATACATATAATTTTTTAAAA
1 AATAATAATTAATACATATAATTTTTTAAAA
487719 AATATTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 7 0.26
33 15 0.56
34 5 0.19
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (34 bp):
AATAATAATTAATACATATAATTTTTTAAAATTC
Found at i:488641 original size:15 final size:15
Alignment explanation
Indices: 488621--488651 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
488611 AGTAAAATTT
488621 ATTATTATTTTTAAA
1 ATTATTATTTTTAAA
*
488636 ATTATTTTTTTTAAA
1 ATTATTATTTTTAAA
488651 A
1 A
488652 ATAATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATTATTTTTAAA
Found at i:492487 original size:17 final size:19
Alignment explanation
Indices: 492452--492495 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
492442 TTTCTTATAC
492452 TATTAAAATATAATATTTA
1 TATTAAAATATAATATTTA
*
492471 TATTAATATAT-AT-TTTA
1 TATTAAAATATAATATTTA
492488 TAATTAAA
1 T-ATTAAA
492496 TTTAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 7 0.32
19 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTAAAATATAATATTTA
Found at i:492506 original size:47 final size:45
Alignment explanation
Indices: 492455--492572 Score: 112
Period size: 47 Copynumber: 2.5 Consensus size: 45
492445 CTTATACTAT
*
492455 TAAAATATAATATTTATATT-AATATATATTTTATAATTAAATTTAAA
1 TAAAATATAATATTTATATTAAATA-ATAATTTA-AATTAAA-TTAAA
* * * *
492502 TAAAAAATTATTTTTATTATTAAATAATAATTTAAATTAAATTAAT
1 TAAAATATAATATTTA-TATTAAATAATAATTTAAATTAAATTAAA
* *
492548 TAAAATTTATAAAATTCATATTAAA
1 TAAAA--TATAATATTTATATTAAA
492573 AGGCTCAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
46 9 0.16
47 27 0.47
48 17 0.30
49 4 0.07
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.47
Consensus pattern (45 bp):
TAAAATATAATATTTATATTAAATAATAATTTAAATTAAATTAAA
Found at i:494611 original size:28 final size:28
Alignment explanation
Indices: 494580--494647 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 28
494570 CAATACGATT
494580 TGATATAAATTTATATTTAATAATAAAA
1 TGATATAAATTTATATTTAATAATAAAA
* *
494608 TGATAT--TTTTA-ATTTAATTATAAAA
1 TGATATAAATTTATATTTAATAATAAAA
494633 T-ATA-AATATTTATAT
1 TGATATAA-ATTTATAT
494648 AAAAATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
24 3 0.09
25 14 0.42
26 8 0.24
27 2 0.06
28 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (28 bp):
TGATATAAATTTATATTTAATAATAAAA
Found at i:494663 original size:19 final size:19
Alignment explanation
Indices: 494626--494660 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
494616 TTAATTTAAT
494626 TATAAAATATAAATATTTA
1 TATAAAATATAAATATTTA
494645 TATAAAA-AT-AATATTT
1 TATAAAATATAAATATTT
494661 TTAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TATAAAATATAAATATTTA
Found at i:494667 original size:20 final size:20
Alignment explanation
Indices: 494619--494667 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
494609 GATATTTTTA
494619 ATTTAATTATAAAATATAAAT
1 ATTTAA-TATAAAATATAAAT
494640 ATTT-ATATAAAA-ATAATAT
1 ATTTAATATAAAATATAA-AT
*
494659 TTTTAATAT
1 ATTTAATAT
494668 TTTAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.16
19 12 0.48
20 5 0.20
21 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAATATAAAATATAAAT
Found at i:496134 original size:33 final size:30
Alignment explanation
Indices: 496092--496156 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
496082 TTAAAAAAAA
*
496092 TTAGATTCTTTTATTATTGTTTTTTAATATATT
1 TTAGATTC-TTT-TTATT-TATTTTAATATATT
*
496125 TTAGATTCTTTTTCTTTATTTTAATATATT
1 TTAGATTCTTTTTATTTATTTTAATATATT
496155 TT
1 TT
496157 TATTATGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 15 0.50
31 4 0.13
32 3 0.10
33 8 0.27
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (30 bp):
TTAGATTCTTTTTATTTATTTTAATATATT
Found at i:499967 original size:25 final size:29
Alignment explanation
Indices: 499894--499967 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 29
499884 TTATGTTTAA
*
499894 AATATTATATATTTATATAAATTTAATATATC
1 AATATT-T-TATTTATATAAATTT-ATATAAC
499926 AATATTTTATATTATATAAATTT-T-TAAC
1 AATATTTTAT-TTATATAAATTTATATAAC
499954 -ATA-TTTATTTATAT
1 AATATTTTATTTATAT
499968 TATATTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
25 6 0.15
26 5 0.12
27 3 0.08
28 3 0.08
29 1 0.03
30 3 0.08
31 13 0.32
32 6 0.15
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
AATATTTTATTTATATAAATTTATATAAC
Found at i:500028 original size:2 final size:2
Alignment explanation
Indices: 500021--500050 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
500011 GTTTAAAGTT
500021 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
500051 ACTATAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:504800 original size:13 final size:14
Alignment explanation
Indices: 504770--504804 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
504760 TAAAAATAAA
504770 AAATTATAAATATTT
1 AAATT-TAAATATTT
504785 AAATTTAAAT-TTT
1 AAATTTAAATATTT
504798 AAATTTA
1 AAATTTA
504805 TTAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 5 0.25
15 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAATTTAAATATTT
Found at i:506122 original size:57 final size:57
Alignment explanation
Indices: 506017--506124 Score: 135
Period size: 57 Copynumber: 1.9 Consensus size: 57
506007 TGTAAGTCTG
** *
506017 AGCAGCATTATTCTCATTCTGACTTGGGTTTCCATTACTGTTGGTATTGCTCTGAAC
1 AGCAGCATTATTCTCATTCTGACTTGCATTTCCATTACTGCTGGTATTGCTCTGAAC
* * * ** *
506074 AGCATCATTGTTCTCATTCTGACTTGCATTTTCATTGTTGCTGTTATTGCT
1 AGCAGCATTATTCTCATTCTGACTTGCATTTCCATTACTGCTGGTATTGCT
506125 GTTGTCGCTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
57 42 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (57 bp):
AGCAGCATTATTCTCATTCTGACTTGCATTTCCATTACTGCTGGTATTGCTCTGAAC
Found at i:506174 original size:42 final size:42
Alignment explanation
Indices: 506128--506210 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
506118 TATTGCTGTT
*
506128 GTCGCTCTGAGCAGCACGATTCTTGTTCTGACCTGCATTTTC
1 GTCGCTCTGAGCAGCACGATTCTCGTTCTGACCTGCATTTTC
*
506170 GTCGCTCTGAGCAGCATGATTCTCGTTCTGACCTGCATTTT
1 GTCGCTCTGAGCAGCACGATTCTCGTTCTGACCTGCATTTT
506211 TGTTGTTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.14, C:0.28, G:0.22, T:0.36
Consensus pattern (42 bp):
GTCGCTCTGAGCAGCACGATTCTCGTTCTGACCTGCATTTTC
Found at i:506178 original size:21 final size:20
Alignment explanation
Indices: 506154--506210 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
506144 CGATTCTTGT
506154 TCTGACCTGCATTTTCGTCGC
1 TCTGACCTGCATTTTC-TCGC
* * * *
506175 TCTGAGCAGCATGATTCTCGT
1 TCTGACCTGCAT-TTTCTCGC
506196 TCTGACCTGCATTTT
1 TCTGACCTGCATTTT
506211 TGTTGTTGGT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 2 0.07
21 23 0.82
22 3 0.11
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (20 bp):
TCTGACCTGCATTTTCTCGC
Found at i:506250 original size:51 final size:54
Alignment explanation
Indices: 506173--506292 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 54
506163 CATTTTCGTC
*
506173 GCTCTGAGCAGCA-TGATTCTCGTTCTGACCTGCA-TTT-TTGTTGTTGGTATA
1 GCTCTGAGCAGCATTGATTCTCGTTCTGACCTGCATTTTATTGTTGTTGATATA
* * *
506224 GCTCTGAGCAGCATTG-TTCTCTTTCTGACCTGCATTTTCATTGTTGTTGATGTT
1 GCTCTGAGCAGCATTGATTCTCGTTCTGACCTGCATTTT-ATTGTTGTTGATATA
506278 GCTCTGAGCAGCATT
1 GCTCTGAGCAGCATT
506293 TTCATTTACA
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
51 30 0.49
52 5 0.08
54 26 0.43
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (54 bp):
GCTCTGAGCAGCATTGATTCTCGTTCTGACCTGCATTTTATTGTTGTTGATATA
Found at i:507440 original size:24 final size:24
Alignment explanation
Indices: 507391--507441 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
507381 TTTCAACGTC
* * *
507391 TTCTTTGCTCCCTTCGTTTTCTTT
1 TTCTTTGCTCCCTTCATTCTCCTT
*
507415 TTCTTTGCTCTCTTCATTCTCCTT
1 TTCTTTGCTCCCTTCATTCTCCTT
507439 TTC
1 TTC
507442 CCCTCTTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.02, C:0.31, G:0.06, T:0.61
Consensus pattern (24 bp):
TTCTTTGCTCCCTTCATTCTCCTT
Found at i:508668 original size:40 final size:40
Alignment explanation
Indices: 508622--508705 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
508612 GAAACAATCA
* * *
508622 AACAGATCAACAACTTGCATTTCAATGAAAACCCATTTTT
1 AACAGATCAACAACTTGCAATTCAAAGAAAACCCACTTTT
508662 AACAGATCAACAACTTGCAATTCAAAGAAAACCCACTTTT
1 AACAGATCAACAACTTGCAATTCAAAGAAAACCCACTTTT
508702 AACA
1 AACA
508706 CTTCAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (40 bp):
AACAGATCAACAACTTGCAATTCAAAGAAAACCCACTTTT
Found at i:510435 original size:1 final size:1
Alignment explanation
Indices: 510431--510460 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
510421 CCAAAAAACA
*
510431 GGGGGCGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
510461 AGAGTGGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:512977 original size:21 final size:23
Alignment explanation
Indices: 512952--513010 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
512942 TTTATATTAA
512952 ATATATAATTATTGA-ATAAATT
1 ATATATAATTATTGAGATAAATT
* *
512974 -TATATAATTAGTGAGTTAAATT
1 ATATATAATTATTGAGATAAATT
512996 ATATTATTAATTATT
1 ATA-TA-TAATTATT
513011 TATTATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 13 0.43
22 6 0.20
23 2 0.07
24 2 0.07
25 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
ATATATAATTATTGAGATAAATT
Found at i:513249 original size:26 final size:26
Alignment explanation
Indices: 513182--513251 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
513172 CTGAATAAAT
*
513182 AATTAATTTATAAATATGATTTAATTTA
1 AATTAATTTATAAA-AT-TTTTAATTTA
* *
513210 AATTAATTTTTAAAATTTTTATTTTA
1 AATTAATTTATAAAATTTTTAATTTA
513236 AATTTAA-TTATAAAAT
1 AA-TTAATTTATAAAAT
513252 ATATAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 18 0.49
27 6 0.16
28 13 0.35
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (26 bp):
AATTAATTTATAAAATTTTTAATTTA
Found at i:515958 original size:2 final size:2
Alignment explanation
Indices: 515953--515977 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
515943 ATACATAAAA
515953 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
515978 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:515982 original size:2 final size:2
Alignment explanation
Indices: 515977--516001 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
515967 ACACACACAC
515977 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
516002 AAGCTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:517167 original size:7 final size:7
Alignment explanation
Indices: 517155--517179 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
517145 ATAATAGATG
517155 AAAAAAT
1 AAAAAAT
517162 AAAAAAT
1 AAAAAAT
517169 AAAAAAT
1 AAAAAAT
517176 AAAA
1 AAAA
517180 TATTAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:518413 original size:20 final size:22
Alignment explanation
Indices: 518372--518413 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
518362 CAAAAAATTA
518372 AATATAAATAATTATGAGATTTC
1 AATATAAATAA-TATGAGATTTC
518395 AATATAAATAA-AT-AGATTT
1 AATATAAATAATATGAGATTT
518414 AGATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 2 0.11
23 11 0.58
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (22 bp):
AATATAAATAATATGAGATTTC
Found at i:519504 original size:4 final size:4
Alignment explanation
Indices: 519495--519520 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
519485 AGCAAAACTA
519495 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
519521 TATATCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:520524 original size:12 final size:12
Alignment explanation
Indices: 520508--520547 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
520498 AAATATTTTT
520508 ATATAAAT-TTA
1 ATATAAATATTA
520519 ATTATAAATATTA
1 A-TATAAATATTA
*
520532 ATATAAAAATTA
1 ATATAAATATTA
520544 ATAT
1 ATAT
520548 TTTAATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 1 0.04
12 21 0.81
13 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATAAATATTA
Found at i:520554 original size:26 final size:25
Alignment explanation
Indices: 520525--520583 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
520515 TTTAATTATA
520525 AATATTAATATAAA-AATTAATATTTT
1 AATATTAATATAAATAA-TAA-ATTTT
* *
520551 AATATTATTTTAAATAATAAATTTT
1 AATATTAATATAAATAATAAATTTT
520576 AAT-TTAAT
1 AATATTAAT
520584 TTAATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 4 0.14
25 8 0.28
26 15 0.52
27 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATATTAATATAAATAATAAATTTT
Found at i:520563 original size:44 final size:43
Alignment explanation
Indices: 520492--520578 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 43
520482 TATTTAAATA
* *
520492 ATAAAAAAATATTTTTATATAAATTT-AATTATAAATATTAAT
1 ATAAAAAAATATTTTAATATAAATTTAAATAATAAATATTAAT
* * *
520534 ATAAAAATTAATATTTTAATATTATTTTAAATAATAAATTTTAAT
1 ATAAAAA--AATATTTTAATATAAATTTAAATAATAAATATTAAT
520579 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 7 0.19
44 16 0.43
45 14 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (43 bp):
ATAAAAAAATATTTTAATATAAATTTAAATAATAAATATTAAT
Found at i:521931 original size:23 final size:23
Alignment explanation
Indices: 521904--521954 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
521894 AAAAAATTAT
*
521904 AAATAGTAAAAT-TTATATTTTAA
1 AAATA-TAAAATATTATATTATAA
*
521927 AAATATTAAATATTATATTATAA
1 AAATATAAAATATTATATTATAA
521950 AAATA
1 AAATA
521955 ATTACATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATATAAAATATTATATTATAA
Found at i:522573 original size:19 final size:19
Alignment explanation
Indices: 522549--522607 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 19
522539 TTATTTTATG
522549 TTTTAATTATTTTTATATT
1 TTTTAATTATTTTTATATT
* *
522568 TTTTAATATTATATTTATATC
1 TTTT-A-ATTATTTTTATATT
* *
522589 TTATAATTA-TATTATATT
1 TTTTAATTATTTTTATATT
522607 T
1 T
522608 AAAATTATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 7 0.22
19 8 0.25
20 2 0.06
21 15 0.47
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTAATTATTTTTATATT
Found at i:523693 original size:22 final size:24
Alignment explanation
Indices: 523662--523718 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
523652 ATTTAAATTA
523662 TTATTTAAATAAT-AAAA-TATTT
1 TTATTTAAATAATAAAAATTATTT
*
523684 TTATTAAAATAATAAAAAATTATTT
1 TTATTTAAATAAT-AAAAATTATTT
523709 TTATTTAAAT
1 TTATTTAAAT
523719 TTAATTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 12 0.40
24 4 0.13
25 14 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTATTTAAATAATAAAAATTATTT
Found at i:524441 original size:2 final size:2
Alignment explanation
Indices: 524434--524471 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
524424 TCAAGTGATA
524434 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
524472 GTTAGATCCA
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:535646 original size:24 final size:24
Alignment explanation
Indices: 535592--535647 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
535582 TTAAAACATA
* *
535592 AAATTTAATTTAATTAATTAATAT
1 AAATTTTATTTAATGAATTAATAT
* * * *
535616 AATTTTTATTTAATGAGTTTATTT
1 AAATTTTATTTAATGAATTAATAT
535640 AAATTTTA
1 AAATTTTA
535648 AAATTTATAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
AAATTTTATTTAATGAATTAATAT
Found at i:535884 original size:2 final size:2
Alignment explanation
Indices: 535877--535904 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
535867 TTCCGCTTTG
535877 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
535905 GGAGCATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:536524 original size:30 final size:30
Alignment explanation
Indices: 536490--536558 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
536480 ACGTATAATA
* *
536490 TATAAATTTACAAACTTACAATACTTCGAC
1 TATAAATTCACAAACTAACAATACTTCGAC
*
536520 TATAAATTCACATACTAACAATACTTCGAC
1 TATAAATTCACAAACTAACAATACTTCGAC
536550 TATAAATTC
1 TATAAATTC
536559 TTCCTTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.33
Consensus pattern (30 bp):
TATAAATTCACAAACTAACAATACTTCGAC
Found at i:570326 original size:25 final size:25
Alignment explanation
Indices: 570297--570346 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
570287 ATATAAATAA
570297 CATATATGGGAGGAACCTAGCTAAG
1 CATATATGGGAGGAACCTAGCTAAG
570322 CATATATGGGAGGAACCTAGCTAAG
1 CATATATGGGAGGAACCTAGCTAAG
570347 TGCTTCATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (25 bp):
CATATATGGGAGGAACCTAGCTAAG
Found at i:574205 original size:4 final size:4
Alignment explanation
Indices: 574181--574228 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
574171 GCAAATGGGG
* * * *
574181 ATAT ACAT ACAT ATAT GTAT ATAT ATAT ATAT GTAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
574229 GGTAGACAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (4 bp):
ATAT
Found at i:574207 original size:6 final size:6
Alignment explanation
Indices: 574181--574228 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
574171 GCAAATGGGG
* * * *
574181 ATATAC ATACAT ATATGT ATATAT ATATAT ATGTAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
574229 GGTAGACAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (6 bp):
ATATAT
Found at i:574210 original size:16 final size:16
Alignment explanation
Indices: 574191--574229 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
574181 ATATACATAC
574191 ATATATGTATATATAT
1 ATATATGTATATATAT
574207 ATATATGTATATATAT
1 ATATATGTATATATAT
574223 ATATATG
1 ATATATG
574230 GTAGACAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (16 bp):
ATATATGTATATATAT
Done.