Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 6 of 47
Found at i:711839 original size:6 final size:6
Alignment explanation
Indices: 711828--711852 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
711818 AAAAATATTA
711828 AAATTT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT A
711853 TTAAATGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:711842 original size:25 final size:27
Alignment explanation
Indices: 711785--711842 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
711775 AATCATCCTT
*
711785 TTTAAAAAAACATGATTATAATTAAAA
1 TTTAAAAAAACATGATTAAAATTAAAA
** *
711812 GATAAAAAAA-AT-ATTAAAATTTAAA
1 TTTAAAAAAACATGATTAAAATTAAAA
711837 TTTAAA
1 TTTAAA
711843 TTTAAATTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 15 0.60
26 2 0.08
27 8 0.32
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (27 bp):
TTTAAAAAAACATGATTAAAATTAAAA
Found at i:712328 original size:17 final size:18
Alignment explanation
Indices: 712302--712347 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
712292 CTTATCTATT
712302 AAAATATAATAAAAATAA
1 AAAATATAATAAAAATAA
712320 AAAAT-TAATAAAAATAA
1 AAAATATAATAAAAATAA
*
712337 AATATATAATA
1 AAAATATAATA
712348 TCCTCTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATATAATAAAAATAA
Found at i:712576 original size:2 final size:2
Alignment explanation
Indices: 712569--712610 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
712559 ATAAATAAAT
712569 TA TA TA TA TA TA 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 TA TA TA TA TA TA
712611 ATGTGGGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:712737 original size:20 final size:21
Alignment explanation
Indices: 712702--712743 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
712692 ATTTATTTAA
712702 AAAATTAATTATA-TTTATAT
1 AAAATTAATTATATTTTATAT
712722 AAAATTAATT-TAATTTTATAT
1 AAAATTAATTAT-ATTTTATAT
712743 A
1 A
712744 TTTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATTAATTATATTTTATAT
Found at i:713032 original size:29 final size:26
Alignment explanation
Indices: 713000--713057 Score: 62
Period size: 29 Copynumber: 2.1 Consensus size: 26
712990 AAATATATAA
713000 AATTAATTTAATTTTATATAAATATAATT
1 AATTAATTTAA-TTTA-ATAAATA-AATT
** *
713029 AATTTTTTTAATTTAATTAATAAATT
1 AATTAATTTAATTTAATAAATAAATT
713055 AAT
1 AAT
713058 GTCTCTTACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 6 0.23
28 4 0.15
29 9 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATTAATTTAATTTAATAAATAAATT
Found at i:713035 original size:21 final size:21
Alignment explanation
Indices: 712993--713034 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
712983 ATTATAAAAA
712993 TATATAAAATTAATTTAATTT
1 TATATAAAATTAATTTAATTT
713014 TATAT-AAATATAA-TTAATTT
1 TATATAAAAT-TAATTTAATTT
713034 T
1 T
713035 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATAAAATTAATTTAATTT
Found at i:714177 original size:13 final size:13
Alignment explanation
Indices: 714159--714185 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
714149 TGCATCTCAT
714159 ATAAAATTAATTA
1 ATAAAATTAATTA
714172 ATAAAATTAATTA
1 ATAAAATTAATTA
714185 A
1 A
714186 ACATATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAAATTAATTA
Found at i:715326 original size:16 final size:16
Alignment explanation
Indices: 715291--715337 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
715281 AAATAAATTT
715291 TTATAT-TTAAATATC
1 TTATATATTAAATATC
* *
715306 ATATATATTAAATATG
1 TTATATATTAAATATC
715322 TTATATTAATTAAATA
1 TTATA-T-ATTAAATA
715338 AATTATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 5 0.19
16 12 0.46
17 1 0.04
18 8 0.31
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
TTATATATTAAATATC
Found at i:715343 original size:18 final size:18
Alignment explanation
Indices: 715312--715346 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
715302 TATCATATAT
**
715312 ATTAAATATGTTATATTA
1 ATTAAATAAATTATATTA
715330 ATTAAATAAATTATATT
1 ATTAAATAAATTATATT
715347 TATATATATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTAAATAAATTATATTA
Found at i:715376 original size:14 final size:16
Alignment explanation
Indices: 715343--715383 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
715333 AAATAAATTA
*
715343 TATTTATATATATCAT
1 TATTTTTATATATCAT
715359 TATTTTTAT-TAT-AT
1 TATTTTTATATATCAT
715373 TATTTTTATAT
1 TATTTTTATAT
715384 TTATTATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 11 0.48
15 4 0.17
16 8 0.35
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTTTATATATCAT
Found at i:715386 original size:20 final size:20
Alignment explanation
Indices: 715340--715402 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
715330 ATTAAATAAA
715340 TTATATTTA-TATA-TATCA-
1 TTATATTTATTATATTAT-AT
* *
715358 TTATTTTTATTATATTATTT
1 TTATATTTATTATATTATAT
*
715378 TTATATTTATTATGTTATAT
1 TTATATTTATTATATTATAT
715398 TTATA
1 TTATA
715403 CCATATGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 8 0.22
19 4 0.11
20 25 0.68
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
TTATATTTATTATATTATAT
Found at i:715395 original size:14 final size:12
Alignment explanation
Indices: 715340--715401 Score: 54
Period size: 14 Copynumber: 4.8 Consensus size: 12
715330 ATTAAATAAA
*
715340 TTATATTTATAT
1 TTATATTTATTT
*
715352 ATATCA-TTATTT
1 TTAT-ATTTATTT
715364 TTATTATATTATTT
1 TTA-TAT-TTATTT
715378 TTATATTTATTAT
1 TTATATTTATT-T
715391 GTTATATTTAT
1 -TTATATTTAT
715402 ACCATATGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
12 16 0.39
13 6 0.15
14 19 0.46
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (12 bp):
TTATATTTATTT
Found at i:716626 original size:22 final size:22
Alignment explanation
Indices: 716588--716655 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
716578 TTGACGTAAA
716588 TATATTT-AAT-TTTTAAAAAT
1 TATATTTAAATATTTTAAAAAT
*
716608 TTTATTTAAATATTTTAAAAAT
1 TATATTTAAATATTTTAAAAAT
*
716630 TATA-TTATATATATTTAAAAA-
1 TATATTTAAATAT-TTTAAAAAT
716651 TATAT
1 TATAT
716656 CGAATATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.15
21 14 0.34
22 21 0.51
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATATTTAAATATTTTAAAAAT
Found at i:716662 original size:21 final size:20
Alignment explanation
Indices: 716616--716663 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
716606 ATTTTATTTA
*
716616 AATATTTTAAAAATTATATT
1 AATATTTTAAAAATTATATG
716636 ATATATATTTAAAAA-TATATCG
1 A-ATAT-TTTAAAAATTATAT-G
716658 AATATT
1 AATATT
716664 ATTAGATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 2 0.08
21 13 0.54
22 9 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
AATATTTTAAAAATTATATG
Found at i:718000 original size:15 final size:15
Alignment explanation
Indices: 717991--718026 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
717981 GAATTTTTTA
717991 AATTTAAATTGATTT
1 AATTTAAATTGATTT
718006 AATTTAAATT-A-TT
1 AATTTAAATTGATTT
718019 -ATTTAAAT
1 AATTTAAAT
718027 AATAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.38
13 2 0.10
14 1 0.05
15 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
AATTTAAATTGATTT
Found at i:718501 original size:2 final size:2
Alignment explanation
Indices: 718494--718529 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
718484 TTATATGGTG
718494 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
718530 TACTATGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:718822 original size:3 final size:3
Alignment explanation
Indices: 718814--718840 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
718804 AGGTACTTAA
718814 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
718841 TTTTTTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:719300 original size:6 final size:7
Alignment explanation
Indices: 719279--719303 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
719269 TAGCCCCTTG
719279 AAATAAA
1 AAATAAA
719286 AAATAAA
1 AAATAAA
719293 AAATAAA
1 AAATAAA
719300 AAAT
1 AAAT
719304 GGCCCGTCTA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:721163 original size:22 final size:22
Alignment explanation
Indices: 721113--721168 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
721103 AAAGTATCAA
* * *
721113 AATATTAAAAAATATTTATATT
1 AATATTTAAATATTTTTATATT
721135 AATATTTAAATATTTTTATAATT
1 AATATTTAAATATTTTTAT-ATT
721158 AA-ATTTAAATA
1 AATATTTAAATA
721169 AAAATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATTTAAATATTTTTATATT
Found at i:725566 original size:2 final size:2
Alignment explanation
Indices: 725559--725594 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
725549 TATGATAGAA
*
725559 AT AT AT AT AT AT AT AT AG 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
725595 TTATTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:726216 original size:3 final size:3
Alignment explanation
Indices: 726208--726238 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
726198 AAATAAACCT
726208 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
726239 TTTCTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:727560 original size:29 final size:29
Alignment explanation
Indices: 727527--727599 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 29
727517 TCTCTTAAAT
727527 TTTTTTTTAAATTTT-TATA-ATAGATGTATA
1 TTTTTTTTAAATTTTGT-TAGATA-AT-TATA
727557 TTTTATTTTAAATATTTGTTAGATAATTATA
1 TTTT-TTTTAAAT-TTTGTTAGATAATTATA
*
727588 -TTTATTTAAATT
1 TTTTTTTTAAATT
727600 AAAAAATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
28 1 0.03
29 7 0.18
30 7 0.18
31 12 0.32
32 7 0.18
33 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTTTTTTAAATTTTGTTAGATAATTATA
Found at i:728349 original size:11 final size:11
Alignment explanation
Indices: 728333--728366 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
728323 AGGTTAGTTA
728333 TCGATTTGGAT
1 TCGATTTGGAT
728344 TCGATTTGGAT
1 TCGATTTGGAT
728355 TCGATTTGGAT
1 TCGATTTGGAT
728366 T
1 T
728367 GAATCTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.18, C:0.09, G:0.26, T:0.47
Consensus pattern (11 bp):
TCGATTTGGAT
Found at i:728636 original size:2 final size:2
Alignment explanation
Indices: 728629--728653 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
728619 TAATCTAGTT
728629 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
728654 GAATAAAATC
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:734343 original size:20 final size:20
Alignment explanation
Indices: 734313--734369 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 20
734303 TTAAAAAAAA
734313 TAATTTATTATATCTCAAAATCT
1 TAATTTA-TAT-TCT-AAAATCT
734336 TAATTTATATTCTAAAATCT
1 TAATTTATATTCTAAAATCT
734356 TAATTTATATTCTA
1 TAATTTATATTCTA
734370 TTTCTGTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 21 0.62
21 3 0.09
22 3 0.09
23 7 0.21
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATTTATATTCTAAAATCT
Found at i:734989 original size:20 final size:19
Alignment explanation
Indices: 734950--735001 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
734940 AATCGATGAG
*
734950 TAAATAATTTAAATATTAAA
1 TAAATAA-TTAAATAATAAA
734970 TAAATAATTAATATAATAAA
1 TAAATAATTAA-ATAATAAA
* *
734990 TCATTAATTAAA
1 TAAATAATTAAA
735002 GTATATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATAATTAAATAATAAA
Found at i:736152 original size:20 final size:20
Alignment explanation
Indices: 736113--736159 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
736103 AAGTCAAAGC
* **
736113 AATAAATAAATAGTTTAAAT
1 AATAAATAAATAATGAAAAT
*
736133 ATTAAATAAATAATGAAAAT
1 AATAAATAAATAATGAAAAT
736153 AATAAAT
1 AATAAAT
736160 CACTGATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
AATAAATAAATAATGAAAAT
Found at i:739108 original size:3 final size:3
Alignment explanation
Indices: 739100--739143 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
739090 ATTAATACAT
739100 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
739144 TAACCTAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:741734 original size:22 final size:22
Alignment explanation
Indices: 741692--741736 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
741682 ATAATGAATG
*
741692 TGTTTAATTTGATTTGATTATT
1 TGTTTAATTTGATTTAATTATT
*
741714 TGTTTATTTTGA-TTAACTTATT
1 TGTTTAATTTGATTTAA-TTATT
741736 T
1 T
741737 ATATTTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.64
Consensus pattern (22 bp):
TGTTTAATTTGATTTAATTATT
Found at i:742631 original size:20 final size:19
Alignment explanation
Indices: 742603--742645 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
742593 TATTTGATCA
*
742603 TTTTTTATT-TTTAATTTT
1 TTTTTTATTCTTGAATTTT
742621 GTTTTTCTATTCTTGAATTTT
1 -TTTTT-TATTCTTGAATTTT
742642 TTTT
1 TTTT
742646 GTCTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTTTTATTCTTGAATTTT
Found at i:743523 original size:24 final size:22
Alignment explanation
Indices: 743494--743556 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
743484 GTTGATAATT
*
743494 TTAAATATAATATATTTATATAA
1 TTAAATATAATATAATTA-ATAA
* *
743517 TATAAATATGATAAAAATTAATAA
1 T-TAAATATAAT-ATAATTAATAA
743541 TTAAAATATAATATAA
1 TT-AAATATAATATAA
743557 AATATAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
23 5 0.16
24 22 0.69
25 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TTAAATATAATATAATTAATAA
Found at i:743581 original size:41 final size:41
Alignment explanation
Indices: 743497--743595 Score: 98
Period size: 41 Copynumber: 2.4 Consensus size: 41
743487 GATAATTTTA
* *
743497 AATAT-AATATATTTATATAATATAAATATGATAAAAATTAAT
1 AATATAAATATA-ATATAAAATATAAATATGATAAAAA-TAAT
743539 AAT-TAAAATATAATATAAAATATAATATTAT-ATAAAAA-AAT
1 AATAT-AAATATAATATAAAATATAA-A-TATGATAAAAATAAT
*
743580 AATATAAATATGATAT
1 AATATAAATATAATAT
743596 TTAATAGTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
41 17 0.35
42 15 0.31
43 14 0.29
44 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (41 bp):
AATATAAATATAATATAAAATATAAATATGATAAAAATAAT
Found at i:743661 original size:45 final size:44
Alignment explanation
Indices: 743607--743707 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 44
743597 TAATAGTTAG
*
743607 ATATGAATATATTAAAA-TTT-ATA-AATTATGAATATATCAAAATTT
1 ATATAAATATA-TAAAATTTTAATATAATTAT-AATATATCAAAA--T
*
743652 ATATAAATATATAAAATTTTAAATATAATTATAATATGTCAAAAT
1 ATATAAATATATAAAATTTT-AATATAATTATAATATATCAAAAT
743697 ATATAAATATA
1 ATATAAATATA
743708 GGTGGAGTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
44 5 0.10
45 25 0.50
47 14 0.28
48 6 0.12
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (44 bp):
ATATAAATATATAAAATTTTAATATAATTATAATATATCAAAAT
Found at i:743672 original size:20 final size:20
Alignment explanation
Indices: 743584--743685 Score: 64
Period size: 20 Copynumber: 4.8 Consensus size: 20
743574 AAAAATAATA
* * * *
743584 TAAATATGATATTTAATAGT
1 TAAATATAATATATAAAATT
*
743604 TAGATATGAATATATTAAAATTT
1 TAAATAT-AATATA-TAAAA-TT
743627 ATAAATTATGAATATATCAAAATT
1 -TAAA-TAT-AATATAT-AAAATT
*
743651 TATATA-AATATATAAAATTT
1 TAAATATAATATATAAAA-TT
743671 TAAATATAAT-TATAA
1 TAAATATAATATATAA
743686 TATGTCAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
19 4 0.06
20 25 0.38
21 7 0.11
22 6 0.09
23 4 0.06
24 6 0.09
25 14 0.21
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.42
Consensus pattern (20 bp):
TAAATATAATATATAAAATT
Found at i:743826 original size:3 final size:3
Alignment explanation
Indices: 743818--743850 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
743808 AGAAGCTCAC
743818 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
743851 TTGTACAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:748056 original size:2 final size:2
Alignment explanation
Indices: 748049--748081 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
748039 TGAGCATTAA
748049 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 A
748082 AGCACAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:748179 original size:16 final size:15
Alignment explanation
Indices: 748146--748188 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
748136 TGACAGTCAG
748146 CCTTTTTTT-TTTTT
1 CCTTTTTTTGTTTTT
748160 -CTTTTTTTGTTATTT
1 CCTTTTTTTGTT-TTT
*
748175 CCTTTTTCTGTTTT
1 CCTTTTTTTGTTTT
748189 CCAGAGACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 8 0.32
14 2 0.08
15 5 0.20
16 10 0.40
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (15 bp):
CCTTTTTTTGTTTTT
Found at i:748497 original size:16 final size:20
Alignment explanation
Indices: 748452--748489 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
748442 TAAGATAAAT
748452 TATAAATATATTAATATTTA
1 TATAAATATATTAATATTTA
748472 TATAAATATA-TAATATTT
1 TATAAATATATTAATATTT
748490 TAAATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATAAATATATTAATATTTA
Found at i:748503 original size:20 final size:19
Alignment explanation
Indices: 748453--748505 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
748443 AAGATAAATT
*
748453 ATAAATATATTAATATTTAT
1 ATAAATATA-TAATATTTAA
748473 ATAAATATATAATATTTTAA
1 ATAAATATATAATA-TTTAA
748493 ATATAAT-TATAAT
1 ATA-AATATATAAT
748506 TAAAAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 5 0.17
20 22 0.73
21 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAAATATATAATATTTAA
Found at i:748775 original size:22 final size:21
Alignment explanation
Indices: 748739--748780 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
748729 ATAATAAAAA
*
748739 TTTAATTAATTTTAAAATTATT
1 TTTAATTAATATT-AAATTATT
*
748761 TTTAATTACTATTAAATTAT
1 TTTAATTAATATTAAATTAT
748781 AATCTAATGT
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:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAATTAATATTAAATTATT
Found at i:749553 original size:102 final size:97
Alignment explanation
Indices: 749421--749609 Score: 240
Period size: 95 Copynumber: 1.9 Consensus size: 97
749411 GTTAAGAATG
**
749421 GTATCAAATTATTTATAACTTGATTTTGACACATCAAAAAAAAATTTAATTTCTT-AAAGTTAAA
1 GTATCAAATTATTTATAACTAAATTTTG--ACAT--AAAAAAAA---AA-TTCTTAAAAGTTAAA
749485 ATGATAGCTA-ATTTTTTTAAAATTTTTATGGGTGAAATA
58 ATGATAGCTAGATTTTTTTAAAATTTTTATGGGTGAAATA
* *
749524 GTATCAAATTATTT-TAACTAAATTTTGACATATAAAAAAAATTCTTAAAAGTTAAAGTGATAGC
1 GTATCAAATTATTTATAACTAAATTTTGACATAAAAAAAAAATTCTTAAAAGTTAAAATGATAGC
*
749588 TAGTTTTTTTTAAAATTTTTAT
66 TAGATTTTTTTAAAATTTTTAT
749610 AGGTTAATAT
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
94 5 0.06
95 20 0.25
96 18 0.23
98 7 0.09
100 4 0.05
102 11 0.14
103 14 0.18
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (97 bp):
GTATCAAATTATTTATAACTAAATTTTGACATAAAAAAAAAATTCTTAAAAGTTAAAATGATAGC
TAGATTTTTTTAAAATTTTTATGGGTGAAATA
Found at i:750582 original size:20 final size:20
Alignment explanation
Indices: 750546--750583 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
750536 CTTTACCCTT
*
750546 TTTTTATATAAGCTTATAAA
1 TTTTTATATAAGATTATAAA
750566 TTTTTATGATAA-ATTATA
1 TTTTTAT-ATAAGATTATA
750584 TTAATATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTTTATATAAGATTATAAA
Found at i:750796 original size:3 final size:3
Alignment explanation
Indices: 750790--750827 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
750780 CTTTTTTTAG
750790 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
750828 TCATACAGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:751626 original size:27 final size:26
Alignment explanation
Indices: 751590--751663 Score: 112
Period size: 27 Copynumber: 2.8 Consensus size: 26
751580 AACAAGTTAC
751590 CATTTTTTACAAACAAAAATAAATCA
1 CATTTTTTACAAACAAAAATAAATCA
751616 TCATTTTTTACAAACAAAAATAAATCA
1 -CATTTTTTACAAACAAAAATAAATCA
* *
751643 CTATTTTTAACAAACACAAAT
1 C-ATTTTTTACAAACAAAAAT
751664 GGTGGCTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 1 0.02
27 43 0.98
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (26 bp):
CATTTTTTACAAACAAAAATAAATCA
Found at i:754462 original size:33 final size:33
Alignment explanation
Indices: 754370--754469 Score: 116
Period size: 33 Copynumber: 3.0 Consensus size: 33
754360 GGCAAGGATT
754370 TCTCACCAGTGTGTCCCAACCGTATATGTCACA
1 TCTCACCAGTGTGTCCCAACCGTATATGTCACA
** *
754403 TCTTCTGGAAAAGTCT-T--CAACCGTATATGTCACA
1 TC-TC---ACCAGTGTGTCCCAACCGTATATGTCACA
754437 TCTCACCAGTGTGTCCCAACCGTATATGTCACA
1 TCTCACCAGTGTGTCCCAACCGTATATGTCACA
754470 CTTCATTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
30 5 0.09
31 1 0.02
33 21 0.39
34 21 0.39
36 1 0.02
37 5 0.09
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (33 bp):
TCTCACCAGTGTGTCCCAACCGTATATGTCACA
Found at i:756786 original size:26 final size:27
Alignment explanation
Indices: 756749--756807 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
756739 TTTATCTTAT
756749 TTTTATTATATCTAAATAAATTTTTAA
1 TTTTATTATATCTAAATAAATTTTTAA
*
756776 TTTT-TTATATCTAAATAAGTTTTTAA
1 TTTTATTATATCTAAATAAATTTTTAA
756802 TCTTTA
1 T-TTTA
756808 AATTGTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTATTATATCTAAATAAATTTTTAA
Found at i:758158 original size:17 final size:17
Alignment explanation
Indices: 758136--758176 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
758126 ATAATAGAGT
758136 TGAAATTAATTATTTTA
1 TGAAATTAATTATTTTA
758153 TGAAATT-ATTATTTTA
1 TGAAATTAATTATTTTA
758169 T-AAATTAA
1 TGAAATTAA
758177 ATGATTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TGAAATTAATTATTTTA
Found at i:759998 original size:15 final size:15
Alignment explanation
Indices: 759960--759998 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
759950 TTTTAAAAAA
759960 ATTAAATATACTTAT
1 ATTAAATATACTTAT
*
759975 TTTAAATATACTTAT
1 ATTAAATATACTTAT
*
759990 ATTATATAT
1 ATTAAATAT
759999 TCACTTGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTAAATATACTTAT
Found at i:768368 original size:23 final size:23
Alignment explanation
Indices: 768342--768388 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
768332 ATACATATTA
*
768342 ATAT-TAACATGA-CATTTTAAT
1 ATATATAACATCATCATTTTAAT
*
768363 ATATATAACATCATTATTTTAAT
1 ATATATAACATCATCATTTTAAT
768386 ATA
1 ATA
768389 AGCCAGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 7 0.32
23 11 0.50
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (23 bp):
ATATATAACATCATCATTTTAAT
Found at i:770193 original size:16 final size:17
Alignment explanation
Indices: 770144--770199 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
770134 TTCATATTTA
*
770144 AAATCATATTATTAAATT
1 AAAT-ATATTATTATATT
*
770162 AAATATATAATT-TATT
1 AAATATATTATTATATT
*
770178 AATTAT-TTATTATATT
1 AAATATATTATTATATT
*
770194 TAATAT
1 AAATAT
770200 TATTTAACTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 4 0.13
16 16 0.52
17 7 0.23
18 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATATATTATTATATT
Found at i:772609 original size:2 final size:2
Alignment explanation
Indices: 772602--772637 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
772592 TTCCATATTT
772602 TA TA TA 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 TA TA TA
772638 GTCTTATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:775232 original size:16 final size:14
Alignment explanation
Indices: 775198--775225 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
775188 TAAATATAAA
775198 AATATAAAAATATT
1 AATATAAAAATATT
775212 AATATAAAAATATT
1 AATATAAAAATATT
775226 TTAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAAAATATT
Found at i:776441 original size:14 final size:14
Alignment explanation
Indices: 776405--776444 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
776395 TATTAAAGAC
*
776405 AAATATCATTTT-A
1 AAATATAATTTTAA
776418 AAA-A-AATTTTAA
1 AAATATAATTTTAA
776430 AAATATAATTTTAA
1 AAATATAATTTTAA
776444 A
1 A
776445 TGATAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
11 5 0.22
12 5 0.22
13 4 0.17
14 9 0.39
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATATAATTTTAA
Found at i:780842 original size:24 final size:25
Alignment explanation
Indices: 780809--780860 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
780799 TGAAAATAAC
*
780809 ATAATAAATACGATAAATTTAA-AT
1 ATAATAAATACAATAAATTTAATAT
* * *
780833 ATAATTAATATAATACATTTAATAT
1 ATAATAAATACAATAAATTTAATAT
780858 ATA
1 ATA
780861 TCATATTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATAATAAATACAATAAATTTAATAT
Found at i:787134 original size:13 final size:13
Alignment explanation
Indices: 787116--787141 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
787106 GTAAGCATGT
787116 GATTTGTAATAAA
1 GATTTGTAATAAA
787129 GATTTGTAATAAA
1 GATTTGTAATAAA
787142 TGTAAGCAAA
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:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
GATTTGTAATAAA
Found at i:792687 original size:37 final size:36
Alignment explanation
Indices: 792595--792692 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 36
792585 GACAAGTAAT
* *
792595 ATTTAGGTGGCTTGGCCAATCCACTATGATTGTTAGT
1 ATTTAGGTGGC-AGGCCAATCCACTATGATTGTTAGA
* * *
792632 ATTTGGGTAGCAATGCCAATCCACTATGATTGTTAGA
1 ATTTAGGTGGC-AGGCCAATCCACTATGATTGTTAGA
*
792669 ATTTAGGTGGCGGCGCCAATCCAC
1 ATTTAGGTGGCAG-GCCAATCCAC
792693 GAAAAATAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (36 bp):
ATTTAGGTGGCAGGCCAATCCACTATGATTGTTAGA
Found at i:793640 original size:18 final size:19
Alignment explanation
Indices: 793617--793661 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
793607 ATATCATATT
*
793617 TATATTTAA-AATTTTTAA
1 TATATTTAATAAATTTTAA
*
793635 TATATTTAATAAATTTTAT
1 TATATTTAATAAATTTTAA
793654 TATATTTA
1 TATATTTA
793662 CATTTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTTAATAAATTTTAA
Found at i:794624 original size:17 final size:18
Alignment explanation
Indices: 794602--794642 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
794592 AAATATATAA
*
794602 TAAATATATT-TAAATTT
1 TAAATATATTAAAAATTT
794619 TAAATATATTAAAAAATTT
1 TAAATATATT-AAAAATTT
794638 TAAAT
1 TAAAT
794643 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
19 11 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAATATATTAAAAATTT
Found at i:794659 original size:24 final size:25
Alignment explanation
Indices: 794591--794666 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 25
794581 TCAATTATAG
794591 TAAATATA-TAATAAATATATTTAAATTT
1 TAAATATATTAA-AAA-AT-TTTAAA-TT
794619 TAAATATATTAAAAAATTTTAAATT
1 TAAATATATTAAAAAATTTTAAATT
* *
794644 TAAAT-TTTTAAAAAATTATAAAT
1 TAAATATATTAAAAAATTTTAAAT
794667 ATTCCATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
24 16 0.36
25 7 0.16
26 6 0.13
27 2 0.04
28 11 0.24
29 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAAATATATTAAAAAATTTTAAATT
Found at i:795646 original size:2 final size:2
Alignment explanation
Indices: 795639--795663 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
795629 ATCCTCCTTT
795639 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
795664 CATTTTTCAT
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:795871 original size:10 final size:10
Alignment explanation
Indices: 795830--795878 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
795820 CGTAAAATTA
795830 TTAAATAT-T
1 TTAAATATAT
795839 TTAAA-AT-T
1 TTAAATATAT
795847 TTAAATATCAT
1 TTAAATAT-AT
*
795858 TTAATTATAT
1 TTAAATATAT
795868 TTAAATATAT
1 TTAAATATAT
795878 T
1 T
795879 ATATTAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 8 0.23
9 7 0.20
10 12 0.34
11 8 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (10 bp):
TTAAATATAT
Found at i:795881 original size:15 final size:15
Alignment explanation
Indices: 795861--795931 Score: 76
Period size: 15 Copynumber: 4.8 Consensus size: 15
795851 ATATCATTTA
795861 ATTATATTTAAATAT
1 ATTATATTTAAATAT
795876 ATTATA-TTAAATATT
1 ATTATATTTAAATA-T
** *
795891 ATTATA-TTATTTTT
1 ATTATATTTAAATAT
795905 A-TATATATTAAATAT
1 ATTATAT-TTAAATAT
795920 ATTATATTTAAA
1 ATTATATTTAAA
795932 ATTATTGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.09
14 9 0.20
15 28 0.61
16 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTAAATAT
Found at i:795886 original size:35 final size:35
Alignment explanation
Indices: 795847--795927 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
795837 TTTTAAAATT
795847 TTAAATATCATT-TAATTATATTTAAATATATTATA
1 TTAAATATCATTAT-ATTATATTTAAATATATTATA
*
795882 TTAAATATTATTATATTAT-TTT---TATA-TATA
1 TTAAATATCATTATATTATATTTAAATATATTATA
795912 TTAAATAT-ATTATATT
1 TTAAATATCATTATATT
795928 TAAAATTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
29 8 0.18
30 12 0.27
31 4 0.09
34 3 0.07
35 16 0.36
36 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (35 bp):
TTAAATATCATTATATTATATTTAAATATATTATA
Found at i:795937 original size:24 final size:23
Alignment explanation
Indices: 795868--795937 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
795858 TTAATTATAT
795868 TTAAATATATTATA-TTAAA-TA
1 TTAAATATATTATATTTAAATTA
* * *
795889 TT-ATTATATTATTTTTATATATA
1 TTAAATATATTATATTTAAAT-TA
795912 TTAAATATATTATATTTAAAATTA
1 TTAAATATATTATATTT-AAATTA
795936 TT
1 TT
795938 GAATTTATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
20 9 0.24
21 6 0.16
23 4 0.11
24 16 0.42
25 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAAATATATTATATTTAAATTA
Found at i:796030 original size:2 final size:2
Alignment explanation
Indices: 796023--796048 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
796013 TTTACTTTTG
796023 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
796049 TCCATGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:796245 original size:5 final size:5
Alignment explanation
Indices: 796235--796260 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
796225 GATTTTAATG
796235 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
796261 GGATGTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:796682 original size:5 final size:5
Alignment explanation
Indices: 796672--796704 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
796662 TCCTCTTACA
796672 TAAAT TAAAT TAAATT TAAAT TAAAT T-AAT TAA
1 TAAAT TAAAT TAAA-T TAAAT TAAAT TAAAT TAA
796705 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:796709 original size:16 final size:16
Alignment explanation
Indices: 796673--796712 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
796663 CCTCTTACAT
*
796673 AAATTAAATTAAATTT
1 AAATTAAATTAAATTA
796689 AAATTAAATT-AATTA
1 AAATTAAATTAAATTA
796704 ATAATTAAA
1 A-AATTAAA
796713 AATTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAAATTAAATTA
Found at i:796762 original size:38 final size:36
Alignment explanation
Indices: 796678--796804 Score: 134
Period size: 38 Copynumber: 3.5 Consensus size: 36
796668 TACATAAATT
* *
796678 AAATTAAATTT-AAATTAAATT-A-ATTAATAATTAA
1 AAATTTAATTTAAAATT-AATTGACATTAATGATTAA
796712 AAATTTAATTTAAAATTAATTGACTATTAATGATTAA
1 AAATTTAATTTAAAATTAATTGAC-ATTAATGATTAA
* * *
796749 AGAATTTAATTTAAAATTAGTTGACAGTTGATGACTAGA
1 A-AATTTAATTTAAAATTAATTGACA-TTAATGATTA-A
*
796788 AAATTCAATTTAAAATT
1 AAATTTAATTTAAAATT
796805 GATTAGTAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
34 14 0.17
35 6 0.08
37 13 0.16
38 45 0.56
39 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (36 bp):
AAATTTAATTTAAAATTAATTGACATTAATGATTAA
Found at i:802205 original size:12 final size:12
Alignment explanation
Indices: 802183--802236 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 12
802173 TTTAAAAGCA
802183 TAATT-TATTAT
1 TAATTATATTAT
802194 TAATTATATTAT
1 TAATTATATTAT
*
802206 TAA-AATATTAT
1 TAATTATATTAT
* *
802217 T-TTTATATTAA
1 TAATTATATTAT
*
802228 TATTTATAT
1 TAATTATAT
802237 ATTTTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 20 0.56
12 16 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TAATTATATTAT
Found at i:802239 original size:22 final size:22
Alignment explanation
Indices: 802214--802255 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
802204 ATTAAAATAT
802214 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
802236 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
802256 AATAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:805484 original size:24 final size:24
Alignment explanation
Indices: 805457--805507 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
805447 ATATTAATAT
805457 TTATAATTATATTTAAATAA-AAAA
1 TTAT-ATTATATTTAAATAATAAAA
* *
805481 TTATTTTTTATTTAAATAATAAAA
1 TTATATTATATTTAAATAATAAAA
805505 TTA
1 TTA
805508 CTTTAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTATATTATATTTAAATAATAAAA
Found at i:805513 original size:41 final size:41
Alignment explanation
Indices: 805433--805515 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
805423 AAAATAATAT
* *
805433 TAAAAAATTATTTTATATTAATATTTATAATTATATTTAAA
1 TAAAAAATTATTTTATATTAATATATAAAATTATATTTAAA
* *
805474 TAAAAAATTATTTTTTATTTAA-ATAATAAAATTA-CTTTAAA
1 TAAAAAATTATTTTATA-TTAATAT-ATAAAATTATATTTAAA
805515 T
1 T
805516 TATAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 25 0.69
42 11 0.31
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (41 bp):
TAAAAAATTATTTTATATTAATATATAAAATTATATTTAAA
Found at i:806827 original size:15 final size:16
Alignment explanation
Indices: 806807--806841 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
806797 AAATTATGTT
*
806807 ATATATATATATATTAA
1 ATATAAATATAT-TTAA
806824 ATATAAATATATTTAA
1 ATATAAATATATTTAA
806840 AT
1 AT
806842 CGTATGTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAAATATATTTAA
Found at i:807600 original size:38 final size:39
Alignment explanation
Indices: 807528--807611 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 39
807518 TAGATTAAAT
*
807528 TTTTATTTTTTTTAAAAAAATAATAATAATATTATT-TA
1 TTTTATTTTTTATAAAAAAATAATAATAATATTATTATA
* *
807566 TTTTATTTTTTATATAATAAAT-ATATTTAA-ATTATTATA
1 TTTTATTTTTTATA-AAAAAATAATA-ATAATATTATTATA
807605 TATTTAT
1 T-TTTAT
807612 ATAAATTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
38 22 0.56
39 12 0.31
40 5 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (39 bp):
TTTTATTTTTTATAAAAAAATAATAATAATATTATTATA
Found at i:808761 original size:19 final size:20
Alignment explanation
Indices: 808725--808778 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
808715 TTTTTTAAAA
* *
808725 ATTTAAAAATTTTTATTTAT
1 ATTTAAAAATTATAATTTAT
*
808745 ATTT-AAAATTATAATTTAA
1 ATTTAAAAATTATAATTTAT
**
808764 AAATAAAAATTATAA
1 ATTTAAAAATTATAA
808779 ATAATAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTAAAAATTATAATTTAT
Found at i:809801 original size:15 final size:14
Alignment explanation
Indices: 809768--809810 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
809758 TAAAATAAAA
* *
809768 TATTTGTTATTATT
1 TATTTATTATTTTT
809782 TATTTATTATTTTAT
1 TATTTATTATTTT-T
809797 TATTTATTATTTTT
1 TATTTATTATTTTT
809811 ATAATACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (14 bp):
TATTTATTATTTTT
Found at i:810341 original size:12 final size:12
Alignment explanation
Indices: 810324--810406 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
810314 TAAAAAATAT
810324 TTAATAAATTTA
1 TTAATAAATTTA
*
810336 TTAATAAAATATCA
1 TTAAT-AAAT-TTA
*
810350 TTAATAATTTTA
1 TTAATAAATTTA
* *
810362 CTTGATAAATTGA
1 -TTAATAAATTTA
** *
810375 AAAATAATTTTA
1 TTAATAAATTTA
810387 -TAATAAATATT-
1 TTAATAAAT-TTA
810398 TTAATAAAT
1 TTAATAAAT
810407 ACCTACATAA
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
11 6 0.11
12 24 0.45
13 16 0.30
14 7 0.13
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (12 bp):
TTAATAAATTTA
Found at i:810353 original size:26 final size:25
Alignment explanation
Indices: 810312--810370 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
810302 AGATTCGAAT
810312 CTTAA-AAAATATTTAATAAATTTA
1 CTTAATAAAATATTTAATAAATTTA
*
810336 -TTAATAAAATATCATTAATAATTTTA
1 CTTAATAAAATAT--TTAATAAATTTA
*
810362 CTTGATAAA
1 CTTAATAAA
810371 TTGAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 4 0.14
24 7 0.24
26 11 0.38
27 7 0.24
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (25 bp):
CTTAATAAAATATTTAATAAATTTA
Found at i:816031 original size:3 final size:3
Alignment explanation
Indices: 816023--816066 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
816013 CTGCTTTTCG
816023 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
816067 AACAAACTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:816197 original size:20 final size:18
Alignment explanation
Indices: 816154--816198 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
816144 TTTTGATCTG
816154 ATTTAAAATAATATTTTT
1 ATTTAAAATAATATTTTT
*
816172 AATTAAAATAATATATTTTT
1 ATTTAAAAT-A-ATATTTTT
816192 ATTTAAA
1 ATTTAAA
816199 TTTAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 1 0.04
20 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTAAAATAATATTTTT
Found at i:816199 original size:19 final size:18
Alignment explanation
Indices: 816154--816199 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
816144 TTTTGATCTG
816154 ATTTAAAATAATATTTTTA
1 ATTT-AAATAATATTTTTA
* *
816173 ATTAAAATAATATATTTTT
1 ATTTAAATAATAT-TTTTA
816192 ATTTAAAT
1 ATTTAAAT
816200 TTAATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTAAATAATATTTTTA
Found at i:816231 original size:32 final size:30
Alignment explanation
Indices: 816169--816233 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
816159 AAATAATATT
* *
816169 TTTAATTAAAATAATATATTTTTATTTAAA
1 TTTAATTAAAATAATATATTTTAATATAAA
816199 TTTAATTAAAA-AATATATAATATTAATATAAA
1 TTTAATTAAAATAATATAT--T-TTAATATAAA
816231 TTT
1 TTT
816234 TTTTTTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.23
30 11 0.37
31 1 0.03
32 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTAATTAAAATAATATATTTTAATATAAA
Found at i:819755 original size:13 final size:14
Alignment explanation
Indices: 819737--819770 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
819727 GGTTGGATTT
819737 AATTTTAATAA-AA
1 AATTTTAATAATAA
*
819750 AATTTTAATAATTA
1 AATTTTAATAATAA
819764 AATTTTA
1 AATTTTA
819771 CGTTTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTTAATAATAA
Found at i:819838 original size:16 final size:17
Alignment explanation
Indices: 819817--819861 Score: 76
Period size: 16 Copynumber: 2.8 Consensus size: 17
819807 TTATCGGGTA
819817 AATTTTAAATTTAAA-T
1 AATTTTAAATTTAAAGT
819833 AATTTTAAATTTAAAGT
1 AATTTTAAATTTAAAGT
819850 -ATTTTAAATTTA
1 AATTTTAAATTTA
819862 TATATTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
AATTTTAAATTTAAAGT
Found at i:820192 original size:2 final size:2
Alignment explanation
Indices: 820185--820223 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
820175 ACATTTGACG
*
820185 AT AT AT AT AC 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 A
820224 AAAGGAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:820520 original size:19 final size:19
Alignment explanation
Indices: 820498--820548 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
820488 AAAATAATTT
820498 AATATAAAAATATAA-TATA
1 AATAT-AAAATATAATTATA
* *
820517 AATATAATATAAAATTATA
1 AATATAAAATATAATTATA
820536 AATATAAAATATA
1 AATATAAAATATA
820549 TTAAAACTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAAAATATAATTATA
Found at i:820521 original size:11 final size:11
Alignment explanation
Indices: 820505--820542 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
820495 TTTAATATAA
820505 AAATATAATAT
1 AAATATAATAT
820516 AAATATAATAT
1 AAATATAATAT
820527 AAA-AT--TAT
1 AAATATAATAT
820535 AAATATAA
1 AAATATAA
820543 AATATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
8 6 0.25
9 2 0.08
10 2 0.08
11 14 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATATAATAT
Found at i:820529 original size:24 final size:24
Alignment explanation
Indices: 820497--820580 Score: 82
Period size: 24 Copynumber: 3.3 Consensus size: 24
820487 TAAAATAATT
820497 TAATATAAAAATATAATATAAATA
1 TAATATAAAAATATAATATAAATA
*
820521 TAATATAAAATTATAAATATAAA-A
1 TAATATAAAAATAT-AATATAAATA
820545 T-ATATTAAAACTTATATAATATAAATGA
1 TAATA-TAAAA---ATATAATATAAAT-A
820573 TTAATATA
1 -TAATATA
820581 TTACATTTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
23 3 0.06
24 20 0.41
25 8 0.16
26 8 0.16
27 3 0.06
28 1 0.02
29 3 0.06
30 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (24 bp):
TAATATAAAAATATAATATAAATA
Found at i:820565 original size:26 final size:27
Alignment explanation
Indices: 820497--820569 Score: 95
Period size: 26 Copynumber: 2.9 Consensus size: 27
820487 TAAAATAATT
820497 TAATATAAAA--ATATAATAT-AAATA
1 TAATATAAAATTATATAATATAAAATA
820521 TAATATAAAATTATA-AATATAAAATA
1 TAATATAAAATTATATAATATAAAATA
820547 T-AT-TAAAACTTATATAATATAAA
1 TAATATAAAA-TTATATAATATAAA
820570 TGATTAATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
24 15 0.34
25 12 0.27
26 17 0.39
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (27 bp):
TAATATAAAATTATATAATATAAAATA
Found at i:820946 original size:2 final size:2
Alignment explanation
Indices: 820939--820964 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
820929 TCATACATCA
820939 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
820965 TATTCCATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:821988 original size:16 final size:15
Alignment explanation
Indices: 821967--821996 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
821957 TAATTTTTAT
821967 TATTTTTACAAAAATA
1 TATTTTTA-AAAAATA
821983 TATTTTTAAAAAAT
1 TATTTTTAAAAAAT
821997 TAATCATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTTTTAAAAAATA
Found at i:822381 original size:17 final size:17
Alignment explanation
Indices: 822350--822383 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
822340 TTGATTTCAA
822350 AAAATATAATCTTATAT
1 AAAATATAATCTTATAT
822367 AAAATCATAAT-TTATAT
1 AAAAT-ATAATCTTATAT
822384 CTTCTAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATATAATCTTATAT
Found at i:823061 original size:14 final size:14
Alignment explanation
Indices: 823044--823070 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
823034 TAATTATAAA
823044 AATATATAAATATT
1 AATATATAAATATT
823058 AATATATAAATAT
1 AATATATAAATAT
823071 ACTTTGATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATATAAATATT
Found at i:823063 original size:22 final size:22
Alignment explanation
Indices: 823028--823071 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
823018 TATTTTTATT
823028 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
*
823050 TAAATATTAA-TATATAAATATA
1 TAAAT-TTAATTATAAAAATATA
823072 CTTTGATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:824945 original size:18 final size:20
Alignment explanation
Indices: 824922--824960 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
824912 TTATAATAAA
824922 ATTTTAAATA-AAT-TATAT
1 ATTTTAAATATAATGTATAT
*
824940 ATTTTAATTATAATGTATAT
1 ATTTTAAATATAATGTATAT
824960 A
1 A
824961 CTTACTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTTTAAATATAATGTATAT
Found at i:825023 original size:5 final size:5
Alignment explanation
Indices: 825013--825108 Score: 61
Period size: 5 Copynumber: 18.2 Consensus size: 5
825003 ATTTAAAATA
* * * *
825013 TAATT TAATT TAAATT TAATA TAATT TAATT TAATT GAACCT AAATTT
1 TAATT TAATT T-AATT TAATT TAATT TAATT TAATT TAA-TT TAA-TT
* *
825061 TAATTT TAATT TAAAATT T-ATT TGATT AAATT T-ATT TAAATT TAATT
1 TAA-TT TAATT T--AATT TAATT TAATT TAATT TAATT T-AATT TAATT
825108 T
1 T
825109 TCAAATTAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
4 8 0.11
5 39 0.53
6 21 0.29
7 5 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (5 bp):
TAATT
Found at i:825035 original size:21 final size:22
Alignment explanation
Indices: 824982--825046 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
824972 ATAAAAACTT
* * *
824982 ATTTAAATTTAACTTGA-TTAA
1 ATTTAAATATAATTTAATTTAA
825003 ATTTAAAATATAATTTAATTTAA
1 ATTT-AAATATAATTTAATTTAA
825026 ATTT-AATATAATTTAATTTAA
1 ATTTAAATATAATTTAATTTAA
825047 TTGAACCTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 21 0.54
22 10 0.26
23 8 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTAAATATAATTTAATTTAA
Found at i:825060 original size:21 final size:20
Alignment explanation
Indices: 825009--825051 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
824999 TTAAATTTAA
*
825009 AATATAATTTAATTTAAATTT
1 AATATAATTTAATTT-AATTG
825030 AATATAATTTAATTTAATTG
1 AATATAATTTAATTTAATTG
825050 AA
1 AA
825052 CCTAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
AATATAATTTAATTTAATTG
Found at i:827585 original size:13 final size:13
Alignment explanation
Indices: 827569--827604 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
827559 CTTTTGACAC
*
827569 ATATTTTTTATTT
1 ATATTTTATATTT
827582 ATATTTTATATTT
1 ATATTTTATATTT
827595 ATATATTTAT
1 ATAT-TTTAT
827605 TAGATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTTATATTT
Found at i:829416 original size:29 final size:30
Alignment explanation
Indices: 829384--829452 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
829374 TATAATATTA
829384 ATAAATA-TAAAAAATAATAAAATTATAAT
1 ATAAATATTAAAAAATAATAAAATTATAAT
* * * * *
829413 ATAAATATTTAAATATATTAAATTTATATT
1 ATAAATATTAAAAAATAATAAAATTATAAT
*
829443 ATAAAAATTA
1 ATAAATATTA
829453 TTAATATATT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
ATAAATATTAAAAAATAATAAAATTATAAT
Found at i:829484 original size:27 final size:27
Alignment explanation
Indices: 829384--829493 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 27
829374 TATAATATTA
* * * *
829384 ATAAATATAAAAAATAATAAAATTATAAT
1 ATAAATATATAATAT-ATTAAATT-TTAT
*
829413 ATAAATATTTAAATATATTAAATTTATATT
1 ATAAATATAT-AATATATTAAATTT-TA-T
*
829443 ATAAAAATTATTAATATATTAAATTTTAT
1 ATAAATA-TA-TAATATATTAAATTTTAT
*
829472 ATAAATATATAATATTTTAAAT
1 ATAAATATATAATATATTAAAT
829494 ATAATTTTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
27 12 0.18
28 3 0.04
29 23 0.34
30 13 0.19
31 15 0.22
32 1 0.01
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
ATAAATATATAATATATTAAATTTTAT
Found at i:830444 original size:15 final size:15
Alignment explanation
Indices: 830412--830450 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
830402 GAAAGAGTTG
830412 TAATTATTAAAATTT
1 TAATTATTAAAATTT
*
830427 TAATT-TTAAATTTAT
1 TAATTATTAAAATT-T
830442 TAATTATTA
1 TAATTATTA
830451 TTTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 11 0.52
16 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTATTAAAATTT
Found at i:839552 original size:16 final size:16
Alignment explanation
Indices: 839531--839566 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
839521 ATTATTATAA
839531 TTATTTAATTATATTT
1 TTATTTAATTATATTT
* *
839547 TTATTTTATTTTATTT
1 TTATTTAATTATATTT
839563 TTAT
1 TTAT
839567 AAAATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTAATTATATTT
Found at i:840868 original size:11 final size:11
Alignment explanation
Indices: 840846--840894 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
840836 ATAACTCAAT
840846 AATAT-ATATA
1 AATATAATATA
*
840856 AATATAGTATA
1 AATATAATATA
840867 AATTTATAAATATA
1 AA--TAT-AATATA
840881 AATATAATATA
1 AATATAATATA
840892 AAT
1 AAT
840895 TTATAAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 5 0.15
11 15 0.45
12 3 0.09
13 3 0.09
14 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
AATATAATATA
Found at i:841429 original size:2 final size:2
Alignment explanation
Indices: 841422--841479 Score: 62
Period size: 2 Copynumber: 29.0 Consensus size: 2
841412 TATAATGTAT
* * * * * *
841422 TA TA TA TA TA TA CA CA CA CA TA TA TA TA TA TA TA CA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
841464 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
841480 CACAAATTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (2 bp):
TA
Found at i:841450 original size:22 final size:22
Alignment explanation
Indices: 841422--841483 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
841412 TATAATGTAT
841422 TATATATATATACACACACATA
1 TATATATATATACACACACATA
* *
841444 TATATATATATACACATATATA
1 TATATATATATACACACACATA
*
841466 TATATATATATATACACA
1 TATATATATATACACACA
841484 AATTTGTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (22 bp):
TATATATATATACACACACATA
Found at i:841470 original size:18 final size:18
Alignment explanation
Indices: 841423--841473 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
841413 ATAATGTATT
* *
841423 ATATATATATACACACAC
1 ATATATATATATATACAC
841441 ATATATATATATATACAC
1 ATATATATATATATACAC
841459 ATATATATATATATA
1 ATATATATATATATA
841474 TATATACACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATATATATATATACAC
Found at i:841474 original size:20 final size:20
Alignment explanation
Indices: 841422--841475 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
841412 TATAATGTAT
*
841422 TATATATATATACACACACA
1 TATATATATATATACACACA
*
841442 TATATATATATATACACATA
1 TATATATATATATACACACA
841462 TATATATATATATA
1 TATATATATATATA
841476 TATACACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (20 bp):
TATATATATATATACACACA
Found at i:842630 original size:36 final size:35
Alignment explanation
Indices: 842583--842655 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 35
842573 TTTTAGTGAG
842583 TAATTATATTTTAAAATTAAAAAAATTAAATATTTT
1 TAATTATATTTTAAAATTAAAAAAATTAAAT-TTTT
* * * * *
842619 TAATTTTATTTTAATATTATATAAATTTAATTTTT
1 TAATTATATTTTAAAATTAAAAAAATTAAATTTTT
842654 TA
1 TA
842656 TATAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (35 bp):
TAATTATATTTTAAAATTAAAAAAATTAAATTTTT
Found at i:842647 original size:21 final size:19
Alignment explanation
Indices: 842623--842671 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
842613 TATTTTTAAT
842623 TTTATTTTAATATTATATAAA
1 TTTATTTTAAT-TTATAT-AA
*
842644 TTTAATTT--TTTATATAA
1 TTTATTTTAATTTATATAA
842661 TTT-TTTTAATT
1 TTTATTTTAATT
842672 AAATTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
16 3 0.12
17 5 0.21
18 8 0.33
19 1 0.04
21 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATTTTAATTTATATAA
Found at i:845130 original size:2 final size:2
Alignment explanation
Indices: 845123--845164 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
845113 GAAAGCAGAA
845123 AT AT 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 AT AT
845165 GTTTACAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:846959 original size:25 final size:25
Alignment explanation
Indices: 846931--846982 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
846921 TGGCAAGGAA
*
846931 TGAAAAGAAAAAATTTTATATGTTT
1 TGAAAAGAAAAAAATTTATATGTTT
846956 TGAAAAGAAAAAAATTTATATGTTT
1 TGAAAAGAAAAAAATTTATATGTTT
846981 TG
1 TG
846983 TGATATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.38
Consensus pattern (25 bp):
TGAAAAGAAAAAAATTTATATGTTT
Found at i:847314 original size:16 final size:16
Alignment explanation
Indices: 847289--847324 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
847279 TTTATTACGT
847289 TCATGGTATTTTTGTA
1 TCATGGTATTTTTGTA
* *
847305 TCATGTTATTTTTGTG
1 TCATGGTATTTTTGTA
847321 TCAT
1 TCAT
847325 ATTTCAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.08, G:0.17, T:0.58
Consensus pattern (16 bp):
TCATGGTATTTTTGTA
Found at i:853264 original size:18 final size:18
Alignment explanation
Indices: 853241--853275 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
853231 AAAATGTTCC
*
853241 TTTTTATTTTTCTTTTTG
1 TTTTTAGTTTTCTTTTTG
853259 TTTTTAGTTTTCTTTTT
1 TTTTTAGTTTTCTTTTT
853276 AGCTCTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTTTAGTTTTCTTTTTG
Found at i:853576 original size:20 final size:20
Alignment explanation
Indices: 853551--853604 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
853541 TAAAAATTTG
853551 ATAATTCGTATTT-TTATATT
1 ATAATT-GTATTTATTATATT
853571 ATAATTGTAATTTTATTATATT
1 ATAATTGT-A-TTTATTATATT
853593 ATAATTGTATTT
1 ATAATTGTATTT
853605 GAAGTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.06
20 10 0.32
21 4 0.13
22 15 0.48
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (20 bp):
ATAATTGTATTTATTATATT
Found at i:853614 original size:20 final size:21
Alignment explanation
Indices: 853565--853615 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
853555 TTCGTATTTT
*
853565 TATATTATAATTGTAATTTTA
1 TATATTATAATTGTAATTTGA
853586 TTATATTATAATTGT-ATTTGA
1 -TATATTATAATTGTAATTTGA
853607 -AGTATTATA
1 TA-TATTATA
853616 TATATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 7 0.26
21 5 0.19
22 14 0.52
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (21 bp):
TATATTATAATTGTAATTTGA
Found at i:854071 original size:7 final size:7
Alignment explanation
Indices: 854044--854077 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
854034 ATACATAATT
854044 TTTTTTC
1 TTTTTTC
854051 -TTTTTC
1 TTTTTTC
854057 TTTCTTTC
1 TTT-TTTC
854065 TTTTTTC
1 TTTTTTC
854072 TTTTTT
1 TTTTTT
854078 TTCTCCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:854275 original size:16 final size:15
Alignment explanation
Indices: 854250--854286 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
854240 AATATAAATA
854250 TAAAATATAATTTTT
1 TAAAATATAATTTTT
854265 TAAATATATAATTTTTT
1 TAAA-ATATAA-TTTTT
854282 TAAAA
1 TAAAA
854287 AAATTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAAAATATAATTTTT
Done.