Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold92
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: 2337674
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 499 characters in sequence are not A, C, G, or T
File 6 of 19
Found at i:833149 original size:2 final size:2
Alignment explanation
Indices: 833138--833174 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
833128 TGTGTGTGTC
*
833138 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
833175 GAAAATTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:834245 original size:17 final size:17
Alignment explanation
Indices: 834209--834250 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
834199 TTATTGATAA
834209 ATTAAATAATATTATTTT
1 ATTAAA-AATATTATTTT
834227 ATTAAAAA-ATTATTTTT
1 ATTAAAAATATTA-TTTT
834244 ATTAAAA
1 ATTAAAA
834251 GTATATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.17
17 13 0.57
18 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAAAAATATTATTTT
Found at i:834428 original size:12 final size:13
Alignment explanation
Indices: 834399--834443 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 13
834389 GAACTCTTGA
834399 ATTT-TATTAGTTT
1 ATTTATATTA-TTT
834412 ATTTATATTATTT
1 ATTTATATTATTT
834425 -TTTATATTA-TT
1 ATTTATATTATTT
834436 A-TTATATT
1 ATTTATATT
834444 CAAATAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 9 0.30
12 9 0.30
13 7 0.23
14 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
ATTTATATTATTT
Found at i:834479 original size:30 final size:30
Alignment explanation
Indices: 834445--834520 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 30
834435 TATTATATTC
* *
834445 AAATAAATTTTTAATTTTTAATTCGTATCT
1 AAATAAATATTTAATTTTTAATTCATATCT
** * *
834475 AAATAAATATTTAACCTTTAATTTATATTT
1 AAATAAATATTTAATTTTTAATTCATATCT
*
834505 AAATAAA-CTTTAATTT
1 AAATAAATATTTAATTT
834521 AAATCAACCT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 6 0.16
30 31 0.84
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (30 bp):
AAATAAATATTTAATTTTTAATTCATATCT
Found at i:834532 original size:17 final size:16
Alignment explanation
Indices: 834496--834543 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
834486 TAACCTTTAA
834496 TTTATATTTAAATAAAC
1 TTTA-ATTTAAATAAAC
*
834513 TTTAATTTAAATCAACC
1 TTTAATTTAAAT-AAAC
*
834530 TTTTATTTGAAATA
1 TTTAATTT-AAATA
834544 TAATTAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 8 0.30
17 15 0.56
18 4 0.15
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (16 bp):
TTTAATTTAAATAAAC
Found at i:835778 original size:22 final size:23
Alignment explanation
Indices: 835740--835783 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
835730 AATTATTATT
*
835740 TAAATTTATATTGTATA-ATTTA
1 TAAATTTATATTATATATATTTA
835762 TAAA-TTATATATATATATATTT
1 TAAATTTATAT-TATATATATTT
835784 TATTGGCGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TAAATTTATATTATATATATTTA
Found at i:836044 original size:30 final size:25
Alignment explanation
Indices: 836005--836069 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 25
835995 TTTATTTTAT
836005 TTAT-ATATTTTATTATATTATAATAATA
1 TTATAATATTTTA-TA-ATTAT-ATAA-A
836033 TATATAATATTTTATAATTATATAAA
1 T-TATAATATTTTATAATTATATAAA
*
836059 TTTTAATATTT
1 TTATAATATTT
836070 AAAAATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
25 9 0.26
26 2 0.06
27 4 0.12
28 6 0.18
29 5 0.15
30 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTATAATATTTTATAATTATATAAA
Found at i:836094 original size:16 final size:15
Alignment explanation
Indices: 836036--836094 Score: 50
Period size: 18 Copynumber: 3.7 Consensus size: 15
836026 AATAATATAT
836036 ATAATATTTTATAATTA
1 ATAA-ATTTTAT-ATTA
836053 TATAAATTTTAATATTTA
1 -ATAAATTTT-ATA-TTA
836071 A-AAA-TTTATATTA
1 ATAAATTTTATATTA
836084 CATAAATTTTA
1 -ATAAATTTTA
836095 AAATATTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.08
14 4 0.11
15 6 0.17
16 7 0.19
17 7 0.19
18 9 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAAATTTTATATTA
Found at i:836649 original size:15 final size:15
Alignment explanation
Indices: 836629--836673 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
836619 TAGATTAATT
836629 AAGTTTTGATCAATG
1 AAGTTTTGATCAATG
*
836644 AAG-TTTAAT-AATCG
1 AAGTTTTGATCAAT-G
836658 -AGTTTTGATCAATG
1 AAGTTTTGATCAATG
836672 AA
1 AA
836674 ATTTAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
13 5 0.21
14 12 0.50
15 7 0.29
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (15 bp):
AAGTTTTGATCAATG
Found at i:836661 original size:28 final size:28
Alignment explanation
Indices: 836624--836690 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
836614 ATATTTAGAT
* *
836624 TAATTAAGTTTTGATCAATGAAGTTTAA
1 TAATCAAGTTTTGATCAATGAAATTTAA
*
836652 TAATCGAGTTTTGATCAATGAAATTTAA
1 TAATCAAGTTTTGATCAATGAAATTTAA
*
836680 TAGTCAAGTTT
1 TAATCAAGTTT
836691 ATTAGATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (28 bp):
TAATCAAGTTTTGATCAATGAAATTTAA
Found at i:837987 original size:16 final size:18
Alignment explanation
Indices: 837966--837999 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
837956 TTCCCTATTA
837966 TTTAAATA-AAAT-TTTT
1 TTTAAATATAAATATTTT
837982 TTTAAATATAAATATTTT
1 TTTAAATATAAATATTTT
838000 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAAATATAAATATTTT
Found at i:837999 original size:17 final size:16
Alignment explanation
Indices: 837961--837999 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
837951 AAAACTTCCC
*
837961 TATTATTTAAATAAAA
1 TATTTTTTAAATAAAA
*
837977 TTTTTTTTAAATATAAA
1 TATTTTTTAAATA-AAA
837994 TATTTT
1 TATTTT
838000 AAAATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTTTAAATAAAA
Found at i:838012 original size:14 final size:15
Alignment explanation
Indices: 837981--838013 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
837971 ATAAAATTTT
837981 TTTTAAATATAAATA
1 TTTTAAATATAAATA
*
837996 TTTTAAA-ATATATA
1 TTTTAAATATAAATA
838010 TTTT
1 TTTT
838014 TATCTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTAAATATAAATA
Found at i:838103 original size:22 final size:23
Alignment explanation
Indices: 838060--838104 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
838050 TTTTAATGTG
*
838060 TTAATAATTTATATTATATAAATT
1 TTAATAAATTATA-TATATAAATT
838084 TTAATAAATTATA-ATATAAAT
1 TTAATAAATTATATATATAAAT
838105 AATAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAATAAATTATATATATAAATT
Found at i:838110 original size:22 final size:23
Alignment explanation
Indices: 838061--838110 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
838051 TTTAATGTGT
* **
838061 TAATAATTTATATTATATAAATTT
1 TAATAAATTATA-TATATAAATAA
838085 TAATAAATTATA-ATATAAATAA
1 TAATAAATTATATATATAAATAA
838107 TAAT
1 TAAT
838111 TTTAAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 12 0.52
24 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TAATAAATTATATATATAAATAA
Found at i:842488 original size:13 final size:14
Alignment explanation
Indices: 842453--842522 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 14
842443 TATTATTTAT
*
842453 TTAAATTTAAT-TA
1 TTAAAATTAATATA
842466 -TAAAATTAATATA
1 TTAAAATTAATATA
842479 TTAAAA-TAATATA
1 TTAAAATTAATATA
842492 -TAAATATT--TATA
1 TTAAA-ATTAATATA
*
842504 TAAAAATTTAATAT-
1 TTAAAA-TTAATATA
842518 TTAAA
1 TTAAA
842523 TAAAAAATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
12 18 0.39
13 15 0.33
14 10 0.22
15 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAAATTAATATA
Found at i:842515 original size:27 final size:28
Alignment explanation
Indices: 842455--842524 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
842445 TTATTTATTT
*
842455 AAATTTAAT-TATAAA-ATTAATATATTA
1 AAATTTAATATATAAATATT-ATATATAA
842482 AAA--TAATATATAAATATT-TATATAA
1 AAATTTAATATATAAATATTATATATAA
*
842507 AAATTTAATATTTAAATA
1 AAATTTAATATATAAATA
842525 AAAAATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 13 0.35
26 6 0.16
27 18 0.49
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AAATTTAATATATAAATATTATATATAA
Found at i:842523 original size:13 final size:13
Alignment explanation
Indices: 842454--842523 Score: 63
Period size: 13 Copynumber: 5.4 Consensus size: 13
842444 ATTATTTATT
842454 TAAATTTAAT-TA
1 TAAATTTAATATA
*
842466 TAAAATTAATATA
1 TAAATTTAATATA
*
842479 TTAAA-ATAATATA
1 -TAAATTTAATATA
*
842492 TAAATATTTATATA
1 TAAAT-TTAATATA
* *
842506 AAAATTTAATATT
1 TAAATTTAATATA
842519 TAAAT
1 TAAAT
842524 AAAAAATATA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
12 13 0.28
13 19 0.41
14 14 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:842540 original size:38 final size:39
Alignment explanation
Indices: 842467--842541 Score: 91
Period size: 38 Copynumber: 1.9 Consensus size: 39
842457 ATTTAATTAT
* *
842467 AAAATTAATATATTAAAATAATATATAAATATTTATATA
1 AAAATTAATATATTAAAATAAAAAATAAATATTTATATA
* *
842506 AAAATTTAATAT-TT-AAATAAAAAATATATTTTTATA
1 AAAA-TTAATATATTAAAATAAAAAATAAATATTTATA
842542 ATTAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
38 18 0.58
39 6 0.19
40 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (39 bp):
AAAATTAATATATTAAAATAAAAAATAAATATTTATATA
Found at i:844173 original size:20 final size:20
Alignment explanation
Indices: 844135--844171 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
844125 TATTATTTTT
844135 TAAAAATTAATTATAAAATA
1 TAAAAATTAATTATAAAATA
*
844155 TAAATATTAA-TATAAAA
1 TAAAAATTAATTATAAAA
844172 ATTATTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAATTAATTATAAAATA
Found at i:846286 original size:2 final size:2
Alignment explanation
Indices: 846273--846304 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
846263 TTTCACCTGT
*
846273 TA TA TG 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
846305 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:847566 original size:21 final size:21
Alignment explanation
Indices: 847541--847599 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
847531 TAAAATATTT
847541 TATATTTATTAATTATAAAAA
1 TATATTTATTAATTATAAAAA
*
847562 TATATAAATATTAA-TATAAAAA
1 TATAT--TTATTAATTATAAAAA
*
847584 TA-ATTT-TTAATAATAA
1 TATATTTATTAATTATAA
847600 TTCGAATCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 4 0.12
19 5 0.16
21 7 0.22
22 10 0.31
23 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATATTTATTAATTATAAAAA
Found at i:849330 original size:2 final size:2
Alignment explanation
Indices: 849323--849353 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
849313 TTGTCCTTAT
849323 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
849354 TGCGTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:850413 original size:2 final size:2
Alignment explanation
Indices: 850406--850437 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
850396 CCAGTCTGCC
850406 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
850438 TTCTGGGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:850739 original size:5 final size:5
Alignment explanation
Indices: 850729--850846 Score: 73
Period size: 5 Copynumber: 23.2 Consensus size: 5
850719 AATTAAAAAT
* * * * *
850729 ATATA ATATA ATATA ATATAA ATATA TTTTTAA ATTTT ATATA ATATT
1 ATATA ATATA ATATA ATAT-A ATATA -ATAT-A ATATA ATATA ATATA
* * *
850777 ATATAA ATATA ATATA TTTTAA ATATA ATTATA ATATA ATAAA ATAT-
1 ATAT-A ATATA ATATA ATAT-A ATATA A-TATA ATATA ATATA ATATA
*
850824 AT-TA ATATA ATTTA A-AT- ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
850847 ATTATCGAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
3 2 0.02
4 7 0.08
5 55 0.63
6 22 0.25
7 1 0.01
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
ATATA
Found at i:850775 original size:38 final size:38
Alignment explanation
Indices: 850728--850842 Score: 144
Period size: 38 Copynumber: 3.0 Consensus size: 38
850718 AAATTAAAAA
*
850728 TATATAATATAATATAATATA-AATATATTTTTAAATTT
1 TATATAATATAATATAATATATAATATA-TTTTAAATAT
*
850766 TATATAATATTATATAA-ATATAATATATTTTAAATAT
1 TATATAATATAATATAATATATAATATATTTTAAATAT
* * *
850803 AATTATAATATAATAAAATATATTAATATAATTTAAATAT
1 TA-TATAATATAATATAATATA-TAATATATTTTAAATAT
850843 ATAAATTATC
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
37 13 0.19
38 35 0.52
39 3 0.04
40 16 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (38 bp):
TATATAATATAATATAATATATAATATATTTTAAATAT
Found at i:851159 original size:24 final size:26
Alignment explanation
Indices: 851113--851170 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
851103 TTCAATTCAC
* *
851113 TTATAATATATAAATTTATATATTT-T
1 TTATAA-ATATAAATATAAATATTTAT
851139 TTATAAAT-TAAATATAAATATTTAT
1 TTATAAATATAAATATAAATATTTAT
*
851164 TTTTAAA
1 TTATAAA
851171 GATTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 13 0.46
25 9 0.32
26 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTATAAATATAAATATAAATATTTAT
Found at i:854020 original size:30 final size:29
Alignment explanation
Indices: 853985--854061 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 29
853975 AATTTAATAT
* *
853985 ATTTTTAATTTTATTAAATTATATCATTAA
1 ATTTTTAATTTTATTAAATTAAATAATT-A
* *
854015 ATTTTT-ATTATTAATAAATTAAATAATTC
1 ATTTTTAATT-TTATTAAATTAAATAATTA
*
854044 A-TATTAATTTTATTAAAT
1 ATTTTTAATTTTATTAAAT
854062 AATTTAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 11 0.28
29 7 0.18
30 21 0.54
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.55
Consensus pattern (29 bp):
ATTTTTAATTTTATTAAATTAAATAATTA
Found at i:854964 original size:15 final size:15
Alignment explanation
Indices: 854927--854969 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
854917 TTTTAAACTG
854927 ATTAAATA-AAATTA
1 ATTAAATATAAATTA
*
854941 AATATAATATAAATTA
1 ATTA-AATATAAATTA
854957 ATTAAATATAAAT
1 ATTAAATATAAAT
854970 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAAATATAAATTA
Found at i:862365 original size:21 final size:23
Alignment explanation
Indices: 862341--862382 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
862331 ATTAAATTAA
*
862341 TTTAAA-AATTTATTT-TATAAT
1 TTTAAATAATATATTTATATAAT
862362 TTTAAATAATATATTTATATA
1 TTTAAATAATATATTTATATA
862383 TTATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAAATAATATATTTATATAAT
Found at i:862391 original size:26 final size:24
Alignment explanation
Indices: 862336--862391 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 24
862326 TTTAAATTAA
*
862336 ATTA-ATTTAAAAATTTATTTTAT
1 ATTATATTTAAAAATATATTTTAT
862359 A--AT-TTTAAATAATATATTTATAT
1 ATTATATTTAAA-AATATATTT-TAT
862382 ATTATATTTA
1 ATTATATTTA
862392 TAATTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
21 7 0.27
22 8 0.31
23 5 0.19
25 2 0.08
26 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTATATTTAAAAATATATTTTAT
Found at i:865712 original size:27 final size:26
Alignment explanation
Indices: 865653--865712 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
865643 TGTTATCATG
*
865653 AAATAAATTAATAATAATATAAAATA
1 AAATAAATTAATAATAAAATAAAATA
** * *
865679 ATTTAAATGTCATATTAAAATAAAATA
1 AAATAAAT-TAATAATAAAATAAAATA
865706 AAATAAA
1 AAATAAA
865713 AAAATATTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
AAATAAATTAATAATAAAATAAAATA
Found at i:865783 original size:18 final size:18
Alignment explanation
Indices: 865760--865797 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
865750 TATATTTTTT
865760 AAAAATATTTATTT-TATA
1 AAAAATATTT-TTTATATA
865778 AAAAATATTTTTTATATA
1 AAAAATATTTTTTATATA
865796 AA
1 AA
865798 TTAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAAATATTTTTTATATA
Found at i:865798 original size:15 final size:15
Alignment explanation
Indices: 865747--865798 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
865737 TATGATGTAT
865747 AAATATATTTTT-TAA
1 AAATAT-TTTTTATAA
865762 AAATATTTATTTTATAAA
1 AAATA-TT-TTTTAT-AA
*
865780 AAATATTTTTTATAT
1 AAATATTTTTTATAA
865795 AAAT
1 AAAT
865799 TAATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 11 0.34
16 11 0.34
17 3 0.09
18 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AAATATTTTTTATAA
Found at i:866052 original size:39 final size:39
Alignment explanation
Indices: 865992--866089 Score: 144
Period size: 39 Copynumber: 2.5 Consensus size: 39
865982 ATTATTTAAA
*
865992 ATTTATTTATTATTTAATTATAATATAATTAATAATA-TT
1 ATTT-TTTATTATTTATTTATAATATAATTAATAATATTT
*
866031 ATTTTTATTTTATTTATTTATAATATAATTAATAATATTT
1 ATTTTT-TATTATTTATTTATAATATAATTAATAATATTT
866071 ATTTTTTATTATTTTATTT
1 ATTTTTTATTA-TTTATTT
866090 TTAAAATTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
38 2 0.04
39 36 0.68
40 15 0.28
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (39 bp):
ATTTTTTATTATTTATTTATAATATAATTAATAATATTT
Found at i:866187 original size:22 final size:22
Alignment explanation
Indices: 866138--866184 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
866128 TTTTTGGTTT
* *
866138 ATTATTCTCAAATATAATTTTA
1 ATTATTCACAAATATAATTTGA
866160 ATTATTCACAAATAT-ATTTG-
1 ATTATTCACAAATATAATTTGA
866180 ATTAT
1 ATTAT
866185 ATTTTTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 4 0.17
22 14 0.61
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTATTCACAAATATAATTTGA
Found at i:866519 original size:22 final size:24
Alignment explanation
Indices: 866476--866543 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 24
866466 AATAGCATGA
*
866476 TATATTTAATAAATATATTATATT
1 TATATTTAATAAATATAATATATT
*
866500 TATATTT-A-AAATTTAATATATT
1 TATATTTAATAAATATAATATATT
*
866522 TAATTATTTATATATATATAAT
1 T-A-TATTTA-ATAAATATAAT
866544 TAATATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
22 13 0.37
23 2 0.06
24 12 0.34
26 1 0.03
27 7 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATTTAATAAATATAATATATT
Found at i:866521 original size:16 final size:16
Alignment explanation
Indices: 866500--866550 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
866490 ATATTATATT
866500 TATATTTAAAATTTAA
1 TATATTTAAAATTTAA
*
866516 TATATTTAATTATTT-A
1 TATATTTAA-AATTTAA
* *
866532 TATATATATAA-TTAA
1 TATATTTAAAATTTAA
866547 TATA
1 TATA
866551 AAAAATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 2 0.07
15 6 0.21
16 17 0.59
17 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATTTAAAATTTAA
Found at i:866531 original size:8 final size:9
Alignment explanation
Indices: 866475--866543 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 9
866465 AAATAGCATG
866475 ATATATTTA
1 ATATATTTA
* *
866484 ATAAATATA
1 ATATATTTA
*
866493 TTATA-TT-
1 ATATATTTA
866500 -TATATTTA
1 ATATATTTA
866508 A-A-ATTTA
1 ATATATTTA
866515 ATATATTTA
1 ATATATTTA
866524 AT-TATTTA
1 ATATATTTA
*
866532 TATATATATA
1 -ATATATTTA
866542 AT
1 AT
866544 TAATATAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
6 4 0.09
7 8 0.17
8 9 0.19
9 21 0.45
10 5 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATATATTTA
Found at i:866538 original size:18 final size:17
Alignment explanation
Indices: 866500--866545 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
866490 ATATTATATT
*
866500 TATATTTAA-AATTTAA
1 TATATTTAATTATTTAA
866516 TATATTTAATTATTTATA
1 TATATTTAATTATTTA-A
*
866534 TATATATAATTA
1 TATATTTAATTA
866546 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 9 0.35
17 5 0.19
18 12 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATTTAATTATTTAA
Found at i:867630 original size:27 final size:30
Alignment explanation
Indices: 867599--867668 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 30
867589 AAAAAAGTCA
867599 AATATAAAATTT-TATATT-T-ATTAAATT
1 AATATAAAATTTATATATTATAATTAAATT
* * *
867626 AATATTAATATTTATATTTTATAATTATATT
1 AATA-TAAAATTTATATATTATAATTAAATT
867657 ATATATAAAATT
1 A-ATATAAAATT
867669 ATAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 4 0.12
28 7 0.21
29 5 0.15
30 1 0.03
31 14 0.41
32 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
AATATAAAATTTATATATTATAATTAAATT
Found at i:868130 original size:6 final size:6
Alignment explanation
Indices: 868119--868147 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
868109 AACAAAGTAA
868119 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
868148 AGGAAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:868134 original size:13 final size:13
Alignment explanation
Indices: 868104--868148 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 13
868094 ATATATATAT
868104 AAAATAACAAAGTAAA
1 AAAATAA-AAA-T-AA
868120 AAAATAAAAAT-A
1 AAAATAAAAATAA
868132 AAAATAAAAATAA
1 AAAATAAAAATAA
868145 AAAA
1 AAAA
868149 GGAAAAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 12 0.43
13 5 0.18
14 1 0.04
15 3 0.11
16 7 0.25
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.13
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:870878 original size:2 final size:2
Alignment explanation
Indices: 870871--870906 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
870861 TGGCTTAGCA
870871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
870907 AGGCTCGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:872165 original size:20 final size:21
Alignment explanation
Indices: 872119--872168 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
872109 ATATAATTCT
**
872119 TTAAATATAAATATATTTTTA
1 TTAAATATAAATATATTTACA
**
872140 AAAAAT-TAAATATATTTACA
1 TTAAATATAAATATATTTACA
872160 TTAAATATA
1 TTAAATATA
872169 CATCAATATC
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAATATAAATATATTTACA
Found at i:872726 original size:16 final size:16
Alignment explanation
Indices: 872681--872734 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
872671 TCATATCTAA
*
872681 AATA-ATAAAATTTTT
1 AATATATAAAATTTAT
872696 AATATATTAATAATTTAT
1 AATATA-TAA-AATTTAT
* *
872714 ATTATATAAAATTTAA
1 AATATATAAAATTTAT
872730 AATAT
1 AATAT
872735 TTTTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 4 0.12
16 11 0.34
17 6 0.19
18 11 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATATATAAAATTTAT
Found at i:872750 original size:33 final size:34
Alignment explanation
Indices: 872685--872750 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
872675 ATCTAAAATA
**
872685 ATAAAATTTTTAATATATTAATAATTTATATTAT
1 ATAAAATTTAAAATATATTAATAATTTATATTAT
* *
872719 ATAAAATTTAAAATATTTTTAT-ATTTATATTA
1 ATAAAATTTAAAATATATTAATAATTTATATTA
872751 CATCGTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 10 0.36
34 18 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (34 bp):
ATAAAATTTAAAATATATTAATAATTTATATTAT
Found at i:873221 original size:24 final size:27
Alignment explanation
Indices: 873172--873223 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
873162 CAGAATTATT
*
873172 ATTTAATAATAAATATATTTTATTTAA
1 ATTTAATAATAAATATATATTATTTAA
873199 ATTTAATAATAAA-A-ATATT-TTTAA
1 ATTTAATAATAAATATATATTATTTAA
873223 A
1 A
873224 ATTTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 4 0.17
26 1 0.04
27 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTAATAATAAATATATATTATTTAA
Found at i:879107 original size:17 final size:17
Alignment explanation
Indices: 879042--879116 Score: 63
Period size: 17 Copynumber: 4.8 Consensus size: 17
879032 TATAATATAA
*
879042 TATTATAATTATTATTT
1 TATTATAATTAATATTT
* * *
879059 AATAAT-TTTAATATTT
1 TATTATAATTAATATTT
*
879075 T-TT-T-ATT-AT-TTA
1 TATTATAATTAATATTT
879087 TATTATAATTAATATTT
1 TATTATAATTAATATTT
879104 TATTATAATTAAT
1 TATTATAATTAAT
879117 TATAATAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
12 3 0.07
13 4 0.09
14 4 0.09
15 4 0.09
16 10 0.23
17 19 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTATAATTAATATTT
Found at i:879135 original size:15 final size:15
Alignment explanation
Indices: 879087--879151 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
879077 TTATTATTTA
879087 TATTATAATTAATATTT
1 TATTATAA-TAATA-TT
879104 TATTATAAT--TA--
1 TATTATAATAATATT
879115 -ATTATAATAATATT
1 TATTATAATAATATT
* * *
879129 TATTATATTTATAAT
1 TATTATAATAATATT
879144 TATTATAA
1 TATTATAA
879152 ATATGATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
10 8 0.21
12 2 0.05
14 2 0.05
15 18 0.46
16 1 0.03
17 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATAATAATATT
Found at i:880040 original size:15 final size:14
Alignment explanation
Indices: 880020--880104 Score: 75
Period size: 13 Copynumber: 5.8 Consensus size: 14
880010 GTTCAAGATC
*
880020 TAAATTTGAATAATT
1 TAAATTTAAATAA-T
880035 TAAATTTAAAATAAT
1 TAAATTT-AAATAAT
880050 TAAATTTAAAT-AT
1 TAAATTTAAATAAT
*
880063 TAAATTTAATTAATT
1 TAAATTTAAATAA-T
*
880078 TAAATATTTTATATAAT
1 T-AA-A-TTTAAATAAT
880095 T-AATTTAAAT
1 TAAATTTAAAT
880105 TTAAAATGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
13 18 0.31
14 6 0.10
15 18 0.31
16 7 0.12
17 3 0.05
18 7 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (14 bp):
TAAATTTAAATAAT
Found at i:880065 original size:22 final size:20
Alignment explanation
Indices: 880030--880111 Score: 92
Period size: 22 Copynumber: 3.9 Consensus size: 20
880020 TAAATTTGAA
880030 TAATTTAAATTTAAAATAAT
1 TAATTTAAATTTAAAATAAT
*
880050 TAAATTTAAATATTAAATTTAAT
1 T-AATTTAAAT-TTAAA-ATAAT
* *
880073 TAATTTAAATATTTTATATAAT
1 TAATTT-AA-ATTTAAAATAAT
880095 TAATTTAAATTTAAAAT
1 TAATTTAAATTTAAAAT
880112 GATAAATCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.16
21 11 0.22
22 20 0.39
23 10 0.20
24 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTTAAATTTAAAATAAT
Found at i:880081 original size:43 final size:43
Alignment explanation
Indices: 880020--880109 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
880010 GTTCAAGATC
880020 TAAATTTGAATAATTT-AA-ATTTAAAATAATTAAATTTAAATAT
1 TAAATTTGAATAATTTAAATATTTAAAATAATT-AATTTAAAT-T
* *
880063 TAAATTT-AATTAATTTAAATATTTTATATAATTAATTTAAATT
1 TAAATTTGAA-TAATTTAAATATTTAAAATAATTAATTTAAATT
880106 TAAA
1 TAAA
880110 ATGATAAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 2 0.05
43 18 0.43
44 11 0.26
45 11 0.26
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (43 bp):
TAAATTTGAATAATTTAAATATTTAAAATAATTAATTTAAATT
Found at i:882337 original size:17 final size:18
Alignment explanation
Indices: 882315--882348 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
882305 ATTAATATCA
882315 ATATATTTAAA-ATTTTT
1 ATATATTTAAATATTTTT
882332 ATATATTTAAATATTTT
1 ATATATTTAAATATTTT
882349 AAAATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATATTTAAATATTTTT
Found at i:882429 original size:15 final size:15
Alignment explanation
Indices: 882409--882438 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
882399 CTATGCATTG
882409 ATGGCTTTAAGATTA
1 ATGGCTTTAAGATTA
882424 ATGGCTTTAAGATTA
1 ATGGCTTTAAGATTA
882439 CTCATGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
ATGGCTTTAAGATTA
Found at i:882707 original size:16 final size:16
Alignment explanation
Indices: 882686--882810 Score: 57
Period size: 16 Copynumber: 7.6 Consensus size: 16
882676 TTTTAAATAT
882686 AATTATATAAATATAA
1 AATTATATAAATATAA
882702 AATTAT-TAAAATTATTAA
1 AATTATAT-AAA-TA-TAA
* *
882720 AA-CATA-ACATAATATA
1 AATTATATAAAT-ATA-A
*
882736 AA-TATAT-AATTTAA
1 AATTATATAAATATAA
882750 AATT-TATATAATATTAA
1 AATTATATA-AATA-TAA
*
882767 AATTAATATAAATACAA
1 AATT-ATATAAATATAA
*
882784 AA-TATTTTAAATATAA
1 AATTA-TATAAATATAA
*
882800 TTATTATATAA
1 -AATTATATAA
882811 TAAAATATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 31
0.66 0.09 0.25
Matches are distributed among these distances:
14 6 0.07
15 8 0.10
16 33 0.40
17 20 0.24
18 11 0.13
19 4 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTATATAAATATAA
Found at i:882768 original size:17 final size:16
Alignment explanation
Indices: 882738--882777 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
882728 ATAATATAAA
882738 TATATAATTTAAAATT
1 TATATAATTTAAAATT
882754 TATATAATATTAAAATT
1 TATATAAT-TTAAAATT
*
882771 AATATAA
1 TATATAA
882778 ATACAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATAATTTAAAATT
Found at i:882814 original size:20 final size:21
Alignment explanation
Indices: 882794--882846 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
882784 AATATTTTAA
882794 ATATAATTATTATATAATAAA-AT
1 ATATAATTA-TA-AT-ATAAATAT
882817 ATATAATTATAATATAAATAT
1 ATATAATTATAATATAAATAT
882838 ATA-AATTAT
1 ATATAATTAT
882847 TAAATCTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.38
21 7 0.24
22 2 0.07
23 9 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATAATTATAATATAAATAT
Found at i:882824 original size:23 final size:20
Alignment explanation
Indices: 882729--882849 Score: 71
Period size: 19 Copynumber: 6.2 Consensus size: 20
882719 AAACATAACA
882729 TAATATAAATATATAATT-T
1 TAATATAAATATATAATTAT
* *
882748 AAAATTTATATAATAT-TAA-AAT
1 -TAA--TATA-AATATATAATTAT
* *
882770 TAATATAAATACA-AAATAT
1 TAATATAAATATATAATTAT
*
882789 T--T-TAAATATAATTATTAT
1 TAATATAAATAT-ATAATTAT
882807 ATAATA-AAATATATAATTA-
1 -TAATATAAATATATAATTAT
882826 TAATATAAATATATAAATTAT
1 TAATATAAATATAT-AATTAT
882847 TAA
1 TAA
882850 ATCTAACTAA
Statistics
Matches: 77, Mismatches: 9, Indels: 29
0.67 0.08 0.25
Matches are distributed among these distances:
16 6 0.08
17 2 0.03
18 15 0.19
19 16 0.21
20 13 0.17
21 12 0.16
22 8 0.10
23 5 0.06
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATATAAATATATAATTAT
Found at i:886482 original size:12 final size:12
Alignment explanation
Indices: 886465--886497 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
886455 ATAAAGTATA
886465 TGTATTTAATAT
1 TGTATTTAATAT
*
886477 TGTATTCAATAT
1 TGTATTTAATAT
886489 TGTATTTAA
1 TGTATTTAA
886498 CACATATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (12 bp):
TGTATTTAATAT
Found at i:886546 original size:17 final size:18
Alignment explanation
Indices: 886519--886554 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
886509 ATATGAAAGG
*
886519 TAAAAATTTTTAAATATA
1 TAAAAATTTTTAAAAATA
886537 TAAAAA-TTTTAAAAATA
1 TAAAAATTTTTAAAAATA
886554 T
1 T
886555 TAAATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAAATTTTTAAAAATA
Found at i:886558 original size:18 final size:18
Alignment explanation
Indices: 886519--886554 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
886509 ATATGAAAGG
*
886519 TAAAAATTTTTAAATATA
1 TAAAAATTTTAAAATATA
886537 TAAAAATTTTAAAA-ATA
1 TAAAAATTTTAAAATATA
886554 T
1 T
886555 TAAATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAAATTTTAAAATATA
Found at i:891930 original size:67 final size:67
Alignment explanation
Indices: 891762--891941 Score: 161
Period size: 67 Copynumber: 2.7 Consensus size: 67
891752 GCCACTCTAG
* * * ** * *
891762 TCACTCTCTCATTTACAAGTACTT-TTAATGGAAAATTCGACTATTGTAGTCTTATGCACCATTT
1 TCACTCTCCCATATACAAGTA-TTCTTAATGGAGAATTCGACCGTTGTAGTCTCATACACCATTT
*
891826 TTG
65 TTA
* * * * **
891829 TCACTCTCCCATATACGAGTTCTTC-TAATAGAGAATTCGACCGTTGTAGTCTCGTACGTCATTT
1 TCACTCTCCCATATACAAG-TATTCTTAATGGAGAATTCGACCGTTGTAGTCTCATACACCATTT
891893 TTA
65 TTA
* *
891896 TCACTCTTCCGA-ATACAAGTATTCTTAATGGAGAAGTCGA-CGTTGT
1 TCACTC-TCCCATATACAAGTATTCTTAATGGAGAATTCGACCGTTGT
891942 GGTTCCATGC
Statistics
Matches: 90, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
66 10 0.11
67 75 0.83
68 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (67 bp):
TCACTCTCCCATATACAAGTATTCTTAATGGAGAATTCGACCGTTGTAGTCTCATACACCATTTT
TA
Found at i:905109 original size:19 final size:19
Alignment explanation
Indices: 905085--905124 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
905075 AAACATGGTT
*
905085 TTATTGGTTAAATCAATAA
1 TTATTGGTTAAATAAATAA
*
905104 TTATTGGTTTAATAAATAA
1 TTATTGGTTAAATAAATAA
905123 TT
1 TT
905125 GATTTTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (19 bp):
TTATTGGTTAAATAAATAA
Found at i:905652 original size:11 final size:11
Alignment explanation
Indices: 905636--905678 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 11
905626 AATTGGTCCA
905636 TTATTTTTGGT
1 TTATTTTTGGT
905647 TTATTTTTGGT
1 TTATTTTTGGT
905658 CCATTATTTTTGGT
1 ---TTATTTTTGGT
905672 TTATTTT
1 TTATTTT
905679 AAGGCTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 18 0.62
14 11 0.38
ACGTcount: A:0.12, C:0.05, G:0.14, T:0.70
Consensus pattern (11 bp):
TTATTTTTGGT
Found at i:905662 original size:25 final size:25
Alignment explanation
Indices: 905628--905678 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
905618 TAATTTTGAA
905628 TTGGTCCATTATTTTTGGTTTATTT
1 TTGGTCCATTATTTTTGGTTTATTT
905653 TTGGTCCATTATTTTTGGTTTATTT
1 TTGGTCCATTATTTTTGGTTTATTT
905678 T
1 T
905679 AAGGCTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.08, G:0.16, T:0.65
Consensus pattern (25 bp):
TTGGTCCATTATTTTTGGTTTATTT
Found at i:905664 original size:14 final size:14
Alignment explanation
Indices: 905628--905671 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
905618 TAATTTTGAA
905628 TTGGTCCATTATTT
1 TTGGTCCATTATTT
905642 TTGGT---TTATTT
1 TTGGTCCATTATTT
905653 TTGGTCCATTATTT
1 TTGGTCCATTATTT
905667 TTGGT
1 TTGGT
905672 TTATTTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.41
14 16 0.59
ACGTcount: A:0.11, C:0.09, G:0.18, T:0.61
Consensus pattern (14 bp):
TTGGTCCATTATTT
Found at i:906150 original size:27 final size:24
Alignment explanation
Indices: 906097--906142 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
906087 AAATTTATAT
906097 TTTATATATCGATAATAATATAAA
1 TTTATATATCGATAATAATATAAA
906121 TTTATATAT-GATTAATAATATA
1 TTTATATATCGA-TAATAATATA
906143 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
TTTATATATCGATAATAATATAAA
Found at i:913119 original size:23 final size:26
Alignment explanation
Indices: 913093--913141 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
913083 AAATTAAATA
913093 TAACAA-TTAAT-ATTTT-TTATTAT
1 TAACAATTTAATAATTTTATTATTAT
913116 TAACAATTTAATAATTTTATTATTAT
1 TAACAATTTAATAATTTTATTATTAT
913142 ATCATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.26
24 5 0.22
25 5 0.22
26 7 0.30
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (26 bp):
TAACAATTTAATAATTTTATTATTAT
Found at i:917225 original size:15 final size:16
Alignment explanation
Indices: 917186--917232 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
917176 ATAATTCTCA
*
917186 AAATATATAAAAATTTT
1 AAATAT-TAAAAATATT
*
917203 AAAAATTAAAAATATT
1 AAATATTAAAAATATT
*
917219 -AATATTAAATATAT
1 AAATATTAAAAATAT
917233 ATTTTTATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 12 0.46
16 9 0.35
17 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATTAAAAATATT
Found at i:920681 original size:18 final size:19
Alignment explanation
Indices: 920658--920775 Score: 72
Period size: 18 Copynumber: 6.1 Consensus size: 19
920648 TGATCATCAA
920658 TATAATAATTTTATTTT-T
1 TATAATAATTTTATTTTAT
920676 TATAATTTAAAGTTTTATTTTAT
1 TATAA--T-AA-TTTTATTTTAT
*
920699 T-TAACCAA-TTTATTTTAT
1 TATAA-TAATTTTATTTTAT
*
920717 TA-GA-AATTTTATTTT-T
1 TATAATAATTTTATTTTAT
920733 TATAATTTTAAGTTTTATTTTAT
1 TATAA---TAA-TTTTATTTTAT
920756 T-TAATCAA-TTTATTTTAT
1 TATAAT-AATTTTATTTTAT
920774 TA
1 TA
920776 AAAGCCGCAT
Statistics
Matches: 80, Mismatches: 4, Indels: 31
0.70 0.03 0.27
Matches are distributed among these distances:
16 5 0.06
17 9 0.11
18 28 0.35
19 1 0.01
20 5 0.06
21 4 0.05
22 24 0.30
23 4 0.05
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TATAATAATTTTATTTTAT
Found at i:920725 original size:57 final size:57
Alignment explanation
Indices: 920664--920775 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 57
920654 TCAATATAAT
920664 AATTTTATTTTTTATAATTTAAAGTTTTATTTTATTTAACCAATTTATTTTATTAGA
1 AATTTTATTTTTTATAATTTAAAGTTTTATTTTATTTAACCAATTTATTTTATTAGA
* *
920721 AATTTTATTTTTTATAATTTTAAGTTTTATTTTATTTAATCAATTTATTTTATTA
1 AATTTTATTTTTTATAATTTAAAGTTTTATTTTATTTAACCAATTTATTTTATTA
920776 AAAGCCGCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (57 bp):
AATTTTATTTTTTATAATTTAAAGTTTTATTTTATTTAACCAATTTATTTTATTAGA
Found at i:920936 original size:16 final size:16
Alignment explanation
Indices: 920864--920951 Score: 57
Period size: 16 Copynumber: 5.6 Consensus size: 16
920854 TGATTTTTTA
920864 TAAATATTT-TGTTAAT
1 TAAATATTTAT-TTAAT
920880 TAAA-ATTTTAATTT-AT
1 TAAATA-TTT-ATTTAAT
920896 TAAAT-TTTA-TTAA-
1 TAAATATTTATTTAAT
920909 -AAATAATATTATTTAAT
1 TAAAT-AT-TTATTTAAT
920926 TAAATATTTA-TTATAT
1 TAAATATTTATTTA-AT
*
920942 TTAATATTTA
1 TAAATATTTA
920952 AAATATGATC
Statistics
Matches: 59, Mismatches: 1, Indels: 24
0.70 0.01 0.29
Matches are distributed among these distances:
12 4 0.07
13 2 0.03
14 3 0.05
15 10 0.17
16 31 0.53
17 4 0.07
18 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (16 bp):
TAAATATTTATTTAAT
Found at i:921238 original size:6 final size:6
Alignment explanation
Indices: 921227--921263 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
921217 GCTGGCTGCT
*
921227 CTGGCA CTGGCA CTGGCA CTGGCA CTGACA CTGGCA C
1 CTGGCA CTGGCA CTGGCA CTGGCA CTGGCA CTGGCA C
921264 GCTCTCCCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.19, C:0.35, G:0.30, T:0.16
Consensus pattern (6 bp):
CTGGCA
Found at i:921451 original size:25 final size:26
Alignment explanation
Indices: 921423--921476 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
921413 TATAATTTTT
*
921423 ATTATT-TATAATTAATTTAATA-TAA
1 ATTATTATATAA-TAATTTAAAATTAA
*
921448 ATTATTATTTAATAATTTAAAATTAA
1 ATTATTATATAATAATTTAAAATTAA
921474 ATT
1 ATT
921477 TAATCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTATTATATAATAATTTAAAATTAA
Found at i:922120 original size:21 final size:22
Alignment explanation
Indices: 922090--922141 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
922080 CCATCCCTAC
922090 TTAG-AAACATTAATTATATAAA
1 TTAGTAAACATTAA-TATATAAA
922112 -TA-TAAACA-TAATATATAAA
1 TTAGTAAACATTAATATATAAA
922131 TTAGTAAACAT
1 TTAGTAAACAT
922142 GTCACAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 13 0.50
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (22 bp):
TTAGTAAACATTAATATATAAA
Found at i:922387 original size:22 final size:21
Alignment explanation
Indices: 922332--922387 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
922322 GTATGAATGG
*
922332 TAAAATATATTTATATTTATA
1 TAAAATATATTTAAATTTATA
* *
922353 AAAAATAAAATTTAAATTTATA
1 TAAAAT-ATATTTAAATTTATA
922375 TAAATATATATTT
1 TAAA-ATATATTT
922388 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.18
22 21 0.75
23 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAATATATTTAAATTTATA
Found at i:922411 original size:18 final size:18
Alignment explanation
Indices: 922374--922423 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
922364 TTAAATTTAT
922374 ATAAATATATATTTTAAAA
1 ATAAA-ATATATTTTAAAA
922393 ATAATAATATATTTT-AAA
1 ATAA-AATATATTTTAAAA
922411 ATAAAAT-TATTTT
1 ATAAAATATATTTT
922424 TAAACATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.20
17 3 0.10
18 7 0.23
19 13 0.43
20 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAAAATATATTTTAAAA
Found at i:922426 original size:17 final size:17
Alignment explanation
Indices: 922377--922427 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
922367 AATTTATATA
*
922377 AATATATATTTTAAAAAT
1 AATA-ATATTTTTAAAAT
922395 AATAATATATTTTAAAAT
1 AATAATAT-TTTTAAAAT
922413 AA-AATTATTTTTAAA
1 AATAA-TATTTTTAAA
922428 CATATGAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATAATATTTTTAAAAT
Found at i:926128 original size:2 final size:2
Alignment explanation
Indices: 926121--926181 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
926111 TCCTTGTCTT
926121 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
926162 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
926182 GGTTAAACAA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:926857 original size:6 final size:6
Alignment explanation
Indices: 926837--926870 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
926827 ATTATTTAAG
*
926837 TTAAA- TTAAAT TTAAAC TTAAAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
926871 ATTTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:926865 original size:18 final size:17
Alignment explanation
Indices: 926837--926870 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
926827 ATTATTTAAG
926837 TTAAATTAAATTTAAAC
1 TTAAATTAAATTTAAAC
926854 TTAAATTTAAATTTAAA
1 TTAAA-TTAAATTTAAA
926871 ATTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATTAAATTTAAAC
Found at i:927829 original size:24 final size:25
Alignment explanation
Indices: 927808--927864 Score: 91
Period size: 24 Copynumber: 2.3 Consensus size: 25
927798 TATAATTATT
927808 TTTAAAATATTTATAAATATTAATA
1 TTTAAAATATTTATAAATATTAATA
927833 TTTAATAA-A-TTATAAATATTAATA
1 TTTAA-AATATTTATAAATATTAATA
927857 TTTAAAAT
1 TTTAAAAT
927865 TAAAATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 2 0.07
24 20 0.67
25 6 0.20
26 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTAAAATATTTATAAATATTAATA
Found at i:927842 original size:17 final size:18
Alignment explanation
Indices: 927812--927856 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
927802 ATTATTTTTA
927812 AAATATTT-ATAAA-TAT
1 AAATATTTAATAAATTAT
*
927828 TAATATTTAATAAATTAT
1 AAATATTTAATAAATTAT
927846 AAATA-TTAATA
1 AAATATTTAATA
927857 TTTAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 11 0.44
18 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATTTAATAAATTAT
Found at i:927891 original size:24 final size:23
Alignment explanation
Indices: 927794--927865 Score: 56
Period size: 24 Copynumber: 3.1 Consensus size: 23
927784 ATTTAATTAT
* *
927794 TTTATATA-ATTATTTTTAAAATA
1 TTTATAAATATTATTTTTTAAA-A
* *
927817 TTTATAAATATTAATATTTAATAA
1 TTTATAAATATTATTTTTTAA-AA
* * *
927841 ATTATAAATATTAATATTTAAAA
1 TTTATAAATATTATTTTTTAAAA
927864 TT
1 TT
927866 AAAATTTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 10 0.24
24 30 0.73
25 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTATAAATATTATTTTTTAAAA
Found at i:931521 original size:64 final size:63
Alignment explanation
Indices: 931424--931549 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 63
931414 GCAAAAAAAC
* * *
931424 AAAAGGGTATAGGAAAGGTGTTGGCAGGTAACCCAGAAATCATAACTTGTCTACAACATTAAA
1 AAAAGGGAATAGAAAAGGTGCTGGCAGGTAACCCAGAAATCATAACTTGTCTACAACATTAAA
931487 AAAAGGGGAATAGAAAAGGTGCTGGCAGGTAACCCAGAAATCATAACTTGTCTACAACATTAA
1 AAAA-GGGAATAGAAAAGGTGCTGGCAGGTAACCCAGAAATCATAACTTGTCTACAACATTAA
931550 TGGAGGCTAC
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 4 0.07
64 55 0.93
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (63 bp):
AAAAGGGAATAGAAAAGGTGCTGGCAGGTAACCCAGAAATCATAACTTGTCTACAACATTAAA
Found at i:933314 original size:9 final size:9
Alignment explanation
Indices: 933296--933363 Score: 64
Period size: 9 Copynumber: 7.1 Consensus size: 9
933286 AGATATGGTT
933296 TAATAAATA
1 TAATAAATA
*
933305 TAAAAAATA
1 TAATAAATA
*
933314 TATATATATA
1 TA-ATAAATA
933324 TAATAAATA
1 TAATAAATA
933333 TAATATAATA
1 TAATA-AATA
*
933343 TTAAGATAATA
1 -TAATA-AATA
*
933354 TAATATATA
1 TAATAAATA
933363 T
1 T
933364 TTTATTTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
9 25 0.51
10 15 0.31
11 9 0.18
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (9 bp):
TAATAAATA
Found at i:933369 original size:5 final size:6
Alignment explanation
Indices: 933359--933399 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
933349 TAATATAATA
933359 TATATT T-TATT TATATT TAATAATT TATA-T TATATT TATAT
1 TATATT TATATT TATATT T-AT-ATT TATATT TATATT TATAT
933400 ACATATGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 10 0.32
6 13 0.42
7 4 0.13
8 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:933505 original size:29 final size:28
Alignment explanation
Indices: 933456--933510 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
933446 GTATACATAA
933456 ATTATTATTTTTAATAAATAACATAAATT
1 ATTATTATTTTTAATAAATAA-ATAAATT
*
933485 ATTATATATTTTT-ATATATAAATAAA
1 ATTAT-TATTTTTAATAAATAAATAAA
933511 ACCTATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 12 0.50
30 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTATTATTTTTAATAAATAAATAAATT
Found at i:935256 original size:65 final size:65
Alignment explanation
Indices: 935152--935275 Score: 194
Period size: 65 Copynumber: 1.9 Consensus size: 65
935142 GAGGTCATGG
* *
935152 TAATGAGTTATTGTACCAAGTTTTCAAGATTTAAATAAGAAAGATGACTCAAAGACTTCGTATAA
1 TAATGAGTTACTGTACCAAGTTTTCAAGATTTAAATAAGAAAGATGACTCAAAAACTTCGTATAA
* ** *
935217 TAATGAGTTACTGTATCAAGTTTTTGAGATTTAAATAAGAAAGATGATTCAAAAACTTC
1 TAATGAGTTACTGTACCAAGTTTTCAAGATTTAAATAAGAAAGATGACTCAAAAACTTC
935276 ATTTTCTCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (65 bp):
TAATGAGTTACTGTACCAAGTTTTCAAGATTTAAATAAGAAAGATGACTCAAAAACTTCGTATAA
Found at i:935945 original size:20 final size:20
Alignment explanation
Indices: 935920--936049 Score: 76
Period size: 20 Copynumber: 6.3 Consensus size: 20
935910 AATAAAGGTG
935920 ATTATATTATATTTATATAT
1 ATTATATTATATTTATATAT
*
935940 ATTATAATTATATTTA-AAAT
1 ATTAT-ATTATATTTATATAT
* *
935960 ATTTTATATAAATTT-TAATAT
1 ATTATAT-TATATTTAT-ATAT
*
935981 ATTA-A-TA-ATTTATGT-T
1 ATTATATTATATTTATATAT
*
935997 A-TATATTATCTATTCATATCAT
1 ATTATATTA--TATTTATAT-AT
936019 AATTATATTATTATTTTATAATAT
1 -ATTATATTA-TA-TTTAT-ATAT
936043 ATTATAT
1 ATTATAT
936050 ATTATTTTAA
Statistics
Matches: 84, Mismatches: 10, Indels: 29
0.68 0.08 0.24
Matches are distributed among these distances:
15 2 0.02
16 3 0.04
17 7 0.08
18 3 0.04
19 2 0.02
20 25 0.30
21 16 0.19
22 1 0.01
23 10 0.12
24 13 0.15
25 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (20 bp):
ATTATATTATATTTATATAT
Found at i:936010 original size:7 final size:7
Alignment explanation
Indices: 935922--936054 Score: 66
Period size: 7 Copynumber: 19.1 Consensus size: 7
935912 TAAAGGTGAT
935922 TATATTA
1 TATATTA
*
935929 TATTTATA
1 TATAT-TA
935937 TATATTA
1 TATATTA
935944 TA-ATTA
1 TATATTA
935950 TAT-TTAA
1 TATATT-A
* *
935957 AATATTT
1 TATATTA
935964 TATA-TA
1 TATATTA
* *
935970 AATTTTAA
1 TATATT-A
935978 TATATTA
1 TATATTA
935985 -ATAATT-
1 TAT-ATTA
*
935991 TATGTTA
1 TATATTA
935998 TATATTA
1 TATATTA
*
936005 TCTATTCA
1 TATATT-A
*
936013 TATCATAA
1 TAT-ATTA
936021 TTATATTA
1 -TATATTA
936029 T-TATT-
1 TATATTA
*
936034 T-TATAA
1 TATATTA
936040 TATATTA
1 TATATTA
936047 TATATTA
1 TATATTA
936054 T
1 T
936055 TTTAATTAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
5 4 0.04
6 20 0.21
7 45 0.48
8 20 0.21
9 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (7 bp):
TATATTA
Found at i:936061 original size:39 final size:40
Alignment explanation
Indices: 935922--936062 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 40
935912 TAAAGGTGAT
* * *
935922 TATATTATATTTATATATATTATAATTATATTTAAAATATTTTA
1 TATATTATATTTA-AT-TA-TATTATTAT-TTTATAATATATTA
* * * *
935966 TATA-AAT-TTTAA-TATATTAATAATTTATGTTATATATTA
1 TATATTATATTTAATTATATT-ATTATTT-TATAATATATTA
* *
936005 TCTATTCATATCATAATTATATTATTATTTTATAATATATTA
1 TATATT-ATAT-TTAATTATATTATTATTTTATAATATATTA
936047 TATATTAT-TTTAATTA
1 TATATTATATTTAATTA
936063 ATTTTTAATT
Statistics
Matches: 75, Mismatches: 15, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
38 5 0.07
39 23 0.31
40 1 0.01
41 5 0.07
42 20 0.27
43 11 0.15
44 10 0.13
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (40 bp):
TATATTATATTTAATTATATTATTATTTTATAATATATTA
Found at i:938230 original size:11 final size:11
Alignment explanation
Indices: 938183--938243 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
938173 ATTATGTTAC
938183 TATTTATATTA
1 TATTTATATTA
* *
938194 TATATA-ATTT
1 TATTTATATTA
* * *
938204 TAATATATTTTT
1 T-ATTTATATTA
938216 TATTTATATTA
1 TATTTATATTA
938227 TATTTATATTAA
1 TATTTATATT-A
938239 TATTT
1 TATTT
938244 TAATTAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
10 4 0.10
11 27 0.66
12 10 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTATATTA
Found at i:938348 original size:36 final size:35
Alignment explanation
Indices: 938273--938350 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
938263 CAATATTATT
* * *
938273 TTTAAATTTTATAAAAATAATTAATTTAAAGTAAAA
1 TTTATATTTTAAAAAAATAAATAATTTAAAG-AAAA
938309 TTTATATTTTAAAAAAATCAAATAATTTAAA-AAATA
1 TTTATATTTTAAAAAAAT-AAATAATTTAAAGAAA-A
938345 TTTATA
1 TTTATA
938351 AATATTCGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 3 0.08
36 23 0.62
37 11 0.30
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (35 bp):
TTTATATTTTAAAAAAATAAATAATTTAAAGAAAA
Found at i:938351 original size:18 final size:17
Alignment explanation
Indices: 938294--938351 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
938284 TAAAAATAAT
938294 TAATTTAAAGTAAAATTTA
1 TAATTTAAA--AAAATTTA
* **
938313 TATTTTAAAAAAATCAAA
1 TAATTTAAAAAAAT-TTA
938331 TAATTTAAAAAATATTTA
1 TAATTTAAAAAA-ATTTA
938349 TAA
1 TAA
938352 ATATTCGTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 5 0.16
18 16 0.52
19 10 0.32
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TAATTTAAAAAAATTTA
Found at i:938597 original size:17 final size:16
Alignment explanation
Indices: 938571--938619 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
938561 ATTAAAATTC
938571 AAAAAATAAT-A-TAT
1 AAAAAATAATAATTAT
*
938585 AAAATATAATAATTAAT
1 AAAAAATAATAATT-AT
*
938602 AAAAAATTATAATTAT
1 AAAAAATAATAATTAT
938618 AA
1 AA
938620 TTTTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 9 0.31
15 1 0.03
16 5 0.17
17 14 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAATAATAATTAT
Found at i:938857 original size:25 final size:26
Alignment explanation
Indices: 938828--938890 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
938818 ACGTGATGAG
938828 AATATTATAAAAAA-AA-TATATATAT
1 AATATTATAAAAAATAATTATA-ATAT
938853 AATATT-TAAAAAATAATTATAATAT
1 AATATTATAAAAAATAATTATAATAT
938878 AA-ATATATAAAAA
1 AATAT-TATAAAAA
938891 TTATAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
24 9 0.26
25 15 0.44
26 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AATATTATAAAAAATAATTATAATAT
Found at i:938866 original size:22 final size:20
Alignment explanation
Indices: 938838--938877 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
938828 AATATTATAA
938838 AAAAAATATATATATAATATTT
1 AAAAAATA-AT-TATAATATTT
938860 AAAAAATAATTATAATAT
1 AAAAAATAATTATAATAT
938878 AAATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAATAATTATAATATTT
Found at i:938952 original size:26 final size:28
Alignment explanation
Indices: 938918--938972 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
938908 TATATTATTT
* *
938918 TTAATTTTTTAATAT-ATTTAAAA-AAA
1 TTAAATTTTAAATATAATTTAAAATAAA
938944 TTAAATTTTAAATATAATTTAAAATAAA
1 TTAAATTTTAAATATAATTTAAAATAAA
938972 T
1 T
938973 ATTCAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.52
27 8 0.32
28 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAAATTTTAAATATAATTTAAAATAAA
Found at i:939287 original size:7 final size:8
Alignment explanation
Indices: 939261--939356 Score: 54
Period size: 9 Copynumber: 11.2 Consensus size: 8
939251 TTTAATAATT
939261 TTTATATA
1 TTTATATA
939269 TTATAATTATA
1 TT-T-A-TATA
939280 TTTAATATA
1 TTT-ATATA
*
939289 TTATATATT
1 TT-TATATA
*
939298 TTTATAAA
1 TTTATATA
*
939306 TTTAAAATA
1 TTT-ATATA
939315 TATTA-ATAA
1 T-TTATAT-A
*
939324 ATTATAT-
1 TTTATATA
939331 TTTATATA
1 TTTATATA
939339 TTTA-ATA
1 TTTATATA
939346 TATTATATA
1 T-TTATATA
939355 TT
1 TT
939357 GTAATATAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
7 10 0.14
8 22 0.31
9 25 0.36
10 7 0.10
11 6 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTATATA
Found at i:940131 original size:16 final size:16
Alignment explanation
Indices: 940110--940141 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
940100 AAGTTTAAAA
*
940110 AAATTTAATATTTAAT
1 AAATTTAAAATTTAAT
940126 AAATTTAAAATTTAAT
1 AAATTTAAAATTTAAT
940142 TTATATGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTTAAAATTTAAT
Found at i:941362 original size:17 final size:17
Alignment explanation
Indices: 941337--941376 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
941327 AGTAATAAGC
* *
941337 ATTAGATATTTAAATTT
1 ATTAAATATATAAATTT
941354 ATTAAATATATAAATTT
1 ATTAAATATATAAATTT
941371 ATTAAA
1 ATTAAA
941377 ATAACTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTAAATATATAAATTT
Found at i:947400 original size:2 final size:2
Alignment explanation
Indices: 947393--947428 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
947383 AATAGTTGCT
947393 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
947429 ATTTCTACCT
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:950856 original size:23 final size:22
Alignment explanation
Indices: 950813--950884 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
950803 AATTAAATTA
* **
950813 AAAAATTTTAATTAATTTATTT
1 AAAAATTATAATTAAAATATTT
950835 AAATAATTATAATTAAAATATTT
1 AAA-AATTATAATTAAAATATTT
* *
950858 ATTAAAAATAAAATTAAATATATTT
1 A--AAAATTATAATTAAA-ATATTT
950883 AA
1 AA
950885 TTATTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
22 3 0.07
23 18 0.44
24 11 0.27
25 9 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAATTATAATTAAAATATTT
Found at i:951270 original size:14 final size:14
Alignment explanation
Indices: 951235--951273 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
951225 AATCTAATAT
951235 TTTAATTAT-TTTA
1 TTTAATTATATTTA
*
951248 CTTATATTATATTTA
1 TTTA-ATTATATTTA
951263 TTTAATTATAT
1 TTTAATTATAT
951274 CTGACAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 3 0.14
14 12 0.55
15 7 0.32
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATTATATTTA
Found at i:956084 original size:16 final size:17
Alignment explanation
Indices: 956063--956101 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
956053 AATTTTGTAA
956063 AATTTAT-AA-ATAAATT
1 AATTTATGAATATAAA-T
956079 AATTTATGAATATAAAT
1 AATTTATGAATATAAAT
956096 AATTTA
1 AATTTA
956102 AATATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 9 0.43
18 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AATTTATGAATATAAAT
Found at i:956623 original size:97 final size:100
Alignment explanation
Indices: 956449--956641 Score: 311
Period size: 97 Copynumber: 2.0 Consensus size: 100
956439 CAAGTAGAGT
* *
956449 GGTTTATGGTATTGCTCAAAATTATATATATATATATATATATTTATTCAAATTCGACTCGAATC
1 GGTTTATAGTATTGCTCAAAATTATATATATATATATATATATTTATTCAAATTCAACTCGAATC
956514 TAAAAACATTTTTAACTTTAAATC-AAGTTAGAAG
66 TAAAAACATTTTTAACTTTAAATCTAAGTTAGAAG
*
956548 GGTTTATAGTATTGCTCAAAA-T-TATATATATATATATATATTTATTTAAATTCAACTCGAATC
1 GGTTTATAGTATTGCTCAAAATTATATATATATATATATATATTTATTCAAATTCAACTCGAATC
* * *
956611 TAAAAGCGTTTTTAATTTTAAATCTAAGTTA
66 TAAAAACATTTTTAACTTTAAATCTAAGTTA
956642 TTTAGAAAAT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
97 60 0.69
98 7 0.08
99 20 0.23
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (100 bp):
GGTTTATAGTATTGCTCAAAATTATATATATATATATATATATTTATTCAAATTCAACTCGAATC
TAAAAACATTTTTAACTTTAAATCTAAGTTAGAAG
Found at i:956977 original size:12 final size:10
Alignment explanation
Indices: 956887--956977 Score: 50
Period size: 9 Copynumber: 9.3 Consensus size: 10
956877 ATAATTCATG
956887 TATTTATAT-
1 TATTTATATA
*
956896 TATTTTTATA
1 TATTTATATA
* *
956906 -ATATATAAA
1 TATTTATATA
*
956915 TTTTTA-ATA
1 TATTTATATA
*
956924 TATTAATA-A
1 TATTTATATA
956933 TTCATATTATATA
1 -T-AT-TTATATA
*
956946 AATTTA-ATA
1 TATTTATATA
956955 TATTTATATA
1 TATTTATATA
956965 TA-TTATATCA
1 TATTTATAT-A
956975 TAT
1 TAT
956978 CATATTTTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
9 35 0.58
10 16 0.27
11 4 0.07
12 4 0.07
13 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (10 bp):
TATTTATATA
Found at i:957190 original size:29 final size:30
Alignment explanation
Indices: 957153--957237 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 30
957143 TTCATATATT
957153 TATAAAATTTATTAAATATATTTATATAAA
1 TATAAAATTTATTAAATATATTTATATAAA
** *
957183 T-TTTAATTTATT-AATA-ATTTATAT-TA
1 TATAAAATTTATTAAATATATTTATATAAA
**
957209 TATAAAATTTAAAAAATATATTTATATAA
1 TATAAAATTTATTAAATATATTTATATAA
957238 TATTATATTG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
26 2 0.05
27 15 0.35
28 8 0.19
29 17 0.40
30 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TATAAAATTTATTAAATATATTTATATAAA
Found at i:957191 original size:16 final size:16
Alignment explanation
Indices: 957172--957220 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
957162 TATTAAATAT
*
957172 ATTTATATAAATTTTA
1 ATTTATATAAAATTTA
957188 ATTTAT-TAATAATTT-
1 ATTTATATAA-AATTTA
957203 ATATTATATAAAATTTA
1 AT-TTATATAAAATTTA
957220 A
1 A
957221 AAAATATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 5 0.18
16 19 0.68
17 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTATATAAAATTTA
Found at i:960858 original size:40 final size:38
Alignment explanation
Indices: 960770--960869 Score: 123
Period size: 40 Copynumber: 2.6 Consensus size: 38
960760 TTTGATTTTG
*
960770 ATTTAAATATTATGAATTTATATAATTTTTATTTACGTAA
1 ATTTAAATATTATAAATTTATATAATTTTTATTTAC--AA
*
960810 ATTAAAATATTATAAATTTATATAATTTTTAAATTTA-AA
1 ATTTAAATATTATAAATTTATATAATTTTT--ATTTACAA
960849 ATATTAAATATT-TAAATTTAT
1 AT-TTAAATATTATAAATTTAT
960870 TTTAATTATA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
39 13 0.24
40 36 0.67
42 5 0.09
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (38 bp):
ATTTAAATATTATAAATTTATATAATTTTTATTTACAA
Found at i:961616 original size:20 final size:19
Alignment explanation
Indices: 961583--961620 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
961573 AATAAAAATA
961583 TTTAATATAATTTAATTAT
1 TTTAATATAATTTAATTAT
*
961602 TTTAGATATAGTTTAATTA
1 TTTA-ATATAATTTAATTA
961621 CATATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTAATATAATTTAATTAT
Found at i:962916 original size:11 final size:9
Alignment explanation
Indices: 962877--962919 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
962867 TAATTATCGG
962877 TAAAATTTT
1 TAAAATTTT
* *
962886 TTAATTTTT
1 TAAAATTTT
962895 TAAAATTTT
1 TAAAATTTT
962904 TAAAATATATT
1 TAAAAT-T-TT
962915 TAAAA
1 TAAAA
962920 ATAATTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 20 0.71
10 1 0.04
11 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TAAAATTTT
Found at i:963455 original size:2 final size:2
Alignment explanation
Indices: 963442--963477 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
963432 TCTGCATAAT
*
963442 TA TA TA TG 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
963478 AAATTAGTCT
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:964057 original size:13 final size:13
Alignment explanation
Indices: 964039--964076 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
964029 AATGATATTT
964039 TTTAAAATCTT-AA
1 TTTAAAAT-TTAAA
964052 TTTAAAATTTAAAA
1 TTTAAAATTT-AAA
964066 TTTAAAATTTA
1 TTTAAAATTTA
964077 CTTATCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 9 0.39
14 12 0.52
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAAAATTTAAA
Found at i:964062 original size:7 final size:7
Alignment explanation
Indices: 964050--964076 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
964040 TTAAAATCTT
964050 AATTTAA
1 AATTTAA
964057 AATTTAA
1 AATTTAA
964064 AATTTAA
1 AATTTAA
964071 AATTTA
1 AATTTA
964077 CTTATCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:965289 original size:19 final size:19
Alignment explanation
Indices: 965262--965306 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
965252 AATTATAATT
965262 TAATA-AAATA-AATAAAAA
1 TAATACAAATATAA-AAAAA
*
965280 TAATACAAATATAAAAAAT
1 TAATACAAATATAAAAAAA
965299 TAATACAA
1 TAATACAA
965307 TCATTATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 17 0.71
20 2 0.08
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (19 bp):
TAATACAAATATAAAAAAA
Found at i:965481 original size:17 final size:17
Alignment explanation
Indices: 965459--965496 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
965449 TGCTCATGAC
965459 ACATCTTTACAATGCTA
1 ACATCTTTACAATGCTA
* *
965476 ACATCTTTGCAATGTTA
1 ACATCTTTACAATGCTA
965493 ACAT
1 ACAT
965497 TAAGCATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (17 bp):
ACATCTTTACAATGCTA
Found at i:966396 original size:14 final size:14
Alignment explanation
Indices: 966373--966449 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
966363 ATAAGAAAAT
* *
966373 TTATATTTATAATA
1 TTATAATTATTATA
*
966387 TTATAATTATTATT
1 TTATAATTATTATA
966401 TTATAATTATTAT-
1 TTATAATTATTATA
966414 TT-T-ATTATTAT-
1 TTATAATTATTATA
*
966425 TTATATTTATTATA
1 TTATAATTATTATA
966439 TT-TAATTATTA
1 TTATAATTATTA
966450 AAATATTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
11 10 0.18
12 2 0.04
13 17 0.31
14 26 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATAATTATTATA
Done.