Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold206
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: 2736418
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 22040 characters in sequence are not A, C, G, or T
File 4 of 20
Found at i:564958 original size:23 final size:23
Alignment explanation
Indices: 564906--564958 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
564896 ATAATATAAT
564906 AAATATATTAATATGATATATTTA
1 AAATA-ATTAATATGATATATTTA
* * *
564930 ATATAATTATTAT-ATTTATTATA
1 AAATAATTAATATGATATATT-TA
564953 AAATAA
1 AAATAA
564959 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATAATTAATATGATATATTTA
Found at i:565155 original size:20 final size:20
Alignment explanation
Indices: 565130--565203 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 20
565120 TAAATTGAAA
*
565130 TAAATTCTAATTTTTTTATT
1 TAAATTATAATTTTTTTATT
*
565150 TAAATTATATTATTATTTATTAAT
1 TAAATTATA--ATT-TTT-TTATT
565174 TAAA--ATAATATTTTTTATT
1 TAAATTATAAT-TTTTTTATT
565193 TAAATT-TAATT
1 TAAATTATAATT
565204 ATAAAATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
19 9 0.20
20 17 0.39
21 1 0.02
22 6 0.14
23 3 0.07
24 8 0.18
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
TAAATTATAATTTTTTTATT
Found at i:565213 original size:22 final size:22
Alignment explanation
Indices: 565188--565237 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
565178 ATAATATTTT
565188 TTATTTAAAT-TTAATTATAAAA
1 TTATTTAAATATTAA-TATAAAA
*
565210 TTATATAAATATTAATATAAAA
1 TTATTTAAATATTAATATAAAA
*
565232 TAATTT
1 TTATTT
565238 TTAATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATTTAAATATTAATATAAAA
Found at i:567534 original size:32 final size:34
Alignment explanation
Indices: 567492--567600 Score: 99
Period size: 32 Copynumber: 3.2 Consensus size: 34
567482 TTTAAATTCG
567492 ATTTAAAATATATAAATTATTAATTATTTAAA-AA
1 ATTT-AAATATATAAATTATTAATTATTTAAATAA
567526 A-TTAAATAT-T-AA-TATTAA-TATTTATAATTAA
1 ATTTAAATATATAAATTATTAATTATTTA-AA-TAA
567557 ATTTAAATA-A-AAATTATTTTTAATTATTTAAATAA
1 ATTTAAATATATAAATTA---TTAATTATTTAAATAA
567592 TATTTAAAT
1 -ATTTAAAT
567601 TAAATTAAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 22
0.74 0.00 0.26
Matches are distributed among these distances:
28 6 0.10
29 8 0.13
30 2 0.03
31 4 0.06
32 15 0.24
33 4 0.06
34 1 0.02
35 3 0.05
36 14 0.22
37 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (34 bp):
ATTTAAATATATAAATTATTAATTATTTAAATAA
Found at i:567542 original size:25 final size:25
Alignment explanation
Indices: 567492--567538 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
567482 TTTAAATTCG
*
567492 ATTTAAAATATATAAATTATTAATT
1 ATTTAAAAAATATAAATTATTAATT
567517 ATTTAAAAAAT-TAAA-TATTAAT
1 ATTTAAAAAATATAAATTATTAAT
567539 ATTAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 4 0.19
25 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTTAAAAAATATAAATTATTAATT
Found at i:567560 original size:12 final size:11
Alignment explanation
Indices: 567524--567613 Score: 58
Period size: 11 Copynumber: 7.6 Consensus size: 11
567514 ATTATTTAAA
567524 AAATTAAATATT
1 AAATTAAAT-TT
567536 AATATTAATATTT
1 AA-ATTAA-ATTT
567549 ATAATTAAATTT
1 A-AATTAAATTT
* *
567561 AAATAAAAATT
1 AAATTAAATTT
**
567572 ATTTTTAATTATTT
1 A-AATTAA--ATTT
567586 AAA-TAATATTT
1 AAATTAA-ATTT
567597 AAATTAAA-TT
1 AAATTAAATTT
567607 AAATTAA
1 AAATTAA
567614 TCATAATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
10 9 0.14
11 18 0.29
12 16 0.25
13 13 0.21
14 7 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATTAAATTT
Found at i:568819 original size:5 final size:5
Alignment explanation
Indices: 568811--568849 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
568801 ATACGGTACG
568811 ATATA ATATA ATATA A-ATA ATATA A-AT- ATATA ATA-A ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
568850 ATATTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
3 1 0.03
4 12 0.39
5 18 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:568832 original size:14 final size:14
Alignment explanation
Indices: 568813--568860 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 14
568803 ACGGTACGAT
568813 ATAATATAATATAA
1 ATAATATAATATAA
568827 ATAATATAAATATATA
1 ATAATAT-AATATA-A
568843 ATAA-ATAATATTAA
1 ATAATATAATA-TAA
568857 ATAA
1 ATAA
568861 AATTTTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 16 0.52
15 10 0.32
16 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATATAATATAA
Found at i:568840 original size:20 final size:20
Alignment explanation
Indices: 568811--568859 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
568801 ATACGGTACG
568811 ATAT-AATATA-ATATAAATA
1 ATATAAATATATA-ATAAATA
568830 ATATAAATATATAATAAATA
1 ATATAAATATATAATAAATA
568850 ATATTAAATA
1 ATA-TAAATA
568860 AAATTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 16 0.59
21 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATAAATATATAATAAATA
Found at i:568859 original size:10 final size:10
Alignment explanation
Indices: 568818--568903 Score: 63
Period size: 10 Copynumber: 8.6 Consensus size: 10
568808 ACGATATAAT
568818 ATAATA-TAA
1 ATAATATTAA
568827 ATAATA-TAA
1 ATAATATTAA
*
568836 ATATATAATAA
1 ATA-ATATTAA
568847 ATAATATTAA
1 ATAATATTAA
* **
568857 ATAAAATTTT
1 ATAATATTAA
568867 ATAA-ATTTAA
1 ATAATA-TTAA
568877 ATTAAT-TTAA
1 A-TAATATTAA
*
568887 ATAAATATTTA
1 AT-AATATTAA
568898 ATAATA
1 ATAATA
568904 AAATTTTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
9 14 0.22
10 35 0.56
11 14 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAATATTAA
Found at i:568878 original size:30 final size:31
Alignment explanation
Indices: 568844--568901 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
568834 AAATATATAA
*
568844 TAAA-TAATATTAAATAAA-ATTTTATAAATT
1 TAAATTAAT-TTAAATAAATATTTAATAAATT
568874 TAAATTAATTTAAATAAATATTTAATAA
1 TAAATTAATTTAAATAAATATTTAATAA
568902 TAAAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
TAAATTAATTTAAATAAATATTTAATAAATT
Found at i:568926 original size:44 final size:47
Alignment explanation
Indices: 568856--568950 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 47
568846 AATAATATTA
*
568856 AATAAAATTTTATAAATTTAAATTAATTTA-AAT-A-AATA-TTTAAT
1 AATAAAATTTTATAAATTAAAATTAA-TTACAATAATAATATTTTAAT
**
568900 AATAAAATTTT-TTCATTAAAATTTAATTACAATAATAATATTTTAAT
1 AATAAAATTTTATAAATTAAAA-TTAATTACAATAATAATATTTTAAT
568947 AATA
1 AATA
568951 TTATAAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
43 10 0.23
44 18 0.42
45 1 0.02
46 4 0.09
47 10 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (47 bp):
AATAAAATTTTATAAATTAAAATTAATTACAATAATAATATTTTAAT
Found at i:569463 original size:23 final size:24
Alignment explanation
Indices: 569419--569463 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
569409 AAAAAATAAT
569419 TAAAATAATATTAATCAGAATTTG
1 TAAAATAATATTAATCAGAATTTG
569443 TAAAA-AATATTTAATCA-AATT
1 TAAAATAATA-TTAATCAGAATT
569464 CATAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
TAAAATAATATTAATCAGAATTTG
Found at i:569521 original size:22 final size:22
Alignment explanation
Indices: 569467--569521 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
569457 TCAAATTCAT
*
569467 AATATATTAA-TTAATTTTAAAA
1 AATATA-TAATTTAATTATAAAA
*
569489 AATA-A-ATTTTAATTATAAAA
1 AATATATAATTTAATTATAAAA
569509 AATATATAATTTA
1 AATATATAATTTA
569522 TTTGATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.04
20 15 0.56
21 2 0.07
22 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATATAATTTAATTATAAAA
Found at i:569665 original size:32 final size:34
Alignment explanation
Indices: 569612--569674 Score: 78
Period size: 32 Copynumber: 1.9 Consensus size: 34
569602 TATTTTTATT
569612 TAAATTTTTTATAAATATTAA-TATAAAATAATA
1 TAAATTTTTTATAAATATTAATTATAAAATAATA
* *
569645 TAAA-TTTTTA-AATATCTTAATTTTAAAATA
1 TAAATTTTTTATAA-ATATTAATTATAAAATA
569675 GATTTGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 2 0.08
32 12 0.46
33 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (34 bp):
TAAATTTTTTATAAATATTAATTATAAAATAATA
Found at i:570112 original size:24 final size:24
Alignment explanation
Indices: 570092--570147 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 24
570082 TATTTTATTT
*
570092 TTAAAATTTAAATATAATTTAAAA
1 TTAAAATTAAAATATAATTTAAAA
570116 TTAAAATT-AAA-AT-ATTTAAAA
1 TTAAAATTAAAATATAATTTAAAA
570137 TT-AAATTAAAA
1 TTAAAATTAAAA
570148 AATTTTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.16
21 13 0.42
22 2 0.06
23 3 0.10
24 8 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAAATTAAAATATAATTTAAAA
Found at i:570144 original size:20 final size:21
Alignment explanation
Indices: 570092--570168 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 21
570082 TATTTTATTT
570092 TTAAAATTTAAATATAATTTAAAA
1 TTAAAA-TTAAA-A-AATTTAAAA
*
570116 TTAAAATTAAAATATTTAAAA
1 TTAAAATTAAAAAATTTAAAA
*
570137 TT-AAATTAAAAAATTT-TAA
1 TTAAAATTAAAAAATTTAAAA
570156 -TAATAATTAAAAA
1 TTAA-AATTAAAAA
570169 TAAAAAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.02
19 3 0.06
20 22 0.46
21 10 0.21
22 1 0.02
23 5 0.10
24 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAATTAAAAAATTTAAAA
Found at i:570197 original size:20 final size:19
Alignment explanation
Indices: 570120--570197 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 19
570110 TTAAAATTAA
*
570120 AATTAAAATATTTAA-AATT
1 AATTAAAA-ATTTAATAAAT
570139 AAATTAAAAAATTTTAAT-AAT
1 -AATT-AAAAA-TTTAATAAAT
* *
570160 AATTAAAAA-TAAAAAAAT
1 AATTAAAAATTTAATAAAT
570178 ATATTAAAAATTTAATAAAT
1 A-ATTAAAAATTTAATAAAT
570198 TTATAAATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.06
18 4 0.09
19 13 0.28
20 16 0.34
21 11 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTAAAAATTTAATAAAT
Found at i:572099 original size:2 final size:2
Alignment explanation
Indices: 572092--572125 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
572082 ACAATTTTAC
572092 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
572126 TTCCCTAGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:574559 original size:2 final size:2
Alignment explanation
Indices: 574552--574581 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
574542 ATCATAGCAA
574552 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
574582 CAATTAGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:575350 original size:2 final size:2
Alignment explanation
Indices: 575343--575375 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
575333 AGCAGACACA
575343 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
575376 CACACCACTT
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:577782 original size:24 final size:27
Alignment explanation
Indices: 577745--577820 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 27
577735 ATATTTGACC
577745 TTATATATATTTTTTAAAAAATAAAA-A
1 TTATAT-TATTTTTTAAAAAATAAAATA
* *
577772 -TATATTATTTTTTTAAAATTAAAATTA
1 TTATATTATTTTTTAAAAAATAAAA-TA
577799 TTTATATT-TATTTTTAAAAAAT
1 -TTATATTAT-TTTTTAAAAAAT
577821 TTTAATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
25 17 0.43
26 5 0.12
27 1 0.03
28 1 0.03
29 16 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTATATTATTTTTTAAAAAATAAAATA
Found at i:577838 original size:29 final size:29
Alignment explanation
Indices: 577745--577838 Score: 72
Period size: 30 Copynumber: 3.3 Consensus size: 29
577735 ATATTTGACC
577745 TTATATATATTTTTTAAAAAA-T-AAA--AA
1 TTATAT-TA-TTTTTAAAAAATTAAAATGAA
** * *
577772 -TATATTATTTTTTTAAAATTAAAATTAT
1 TTATATTATTTTTAAAAAATTAAAATGAA
**
577800 TTATATTTATTTTTAAAAAATTTTAATGAA
1 TTATA-TTATTTTTAAAAAATTAAAATGAA
577830 TTATATTAT
1 TTATATTAT
577839 CAGAATGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
24 9 0.17
25 3 0.06
26 8 0.15
28 1 0.02
29 8 0.15
30 23 0.44
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (29 bp):
TTATATTATTTTTAAAAAATTAAAATGAA
Found at i:579513 original size:16 final size:15
Alignment explanation
Indices: 579488--579517 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
579478 CAAATCTTGC
579488 TAGTTTAGTTGAGTT
1 TAGTTTAGTTGAGTT
579503 TAGTATTAGTTGAGT
1 TAGT-TTAGTTGAGT
579518 ATGAAGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (15 bp):
TAGTTTAGTTGAGTT
Found at i:582615 original size:22 final size:22
Alignment explanation
Indices: 582590--582634 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
582580 ACTAAAAAAA
**
582590 TTATATATTATTTTTAAAAATT
1 TTATATATTATTAATAAAAATT
* *
582612 TTATTTTTTATTAATAAAAATT
1 TTATATATTATTAATAAAAATT
582634 T
1 T
582635 AAAAAGTTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATATTATTAATAAAAATT
Found at i:582711 original size:5 final size:5
Alignment explanation
Indices: 582701--582744 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
582691 TTTAATTATT
*
582701 AATTA AATTA AATTA AATTAA AATT- AATAAA AATTA AATTA AAT
1 AATTA AATTA AATTA AATT-A AATTA AAT-TA AATTA AATTA AAT
582745 ATTACTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 3 0.09
5 23 0.68
6 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AATTA
Found at i:582716 original size:21 final size:22
Alignment explanation
Indices: 582692--582748 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
582682 TTGAATATAT
582692 TTAATTATTAATTAAATTAAATTAAA
1 TTAATTATTAA-T-AA--AAATTAAA
*
582718 TTAA-AATTAATAAAAATTAAA
1 TTAATTATTAATAAAAATTAAA
*
582739 TTAAATATTA
1 TTAATTATTA
582749 CTATCTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 12 0.43
22 4 0.14
23 2 0.07
24 1 0.04
25 5 0.18
26 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATTATTAATAAAAATTAAA
Found at i:583554 original size:30 final size:29
Alignment explanation
Indices: 583486--583555 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
583476 ATTCAAATTC
*
583486 AATTTAATTAATTAATATAATAAATTTTAA
1 AATTTAA-TATTTAATATAATAAATTTTAA
* *
583516 AATATAATATTTAATATATTTAAA-TTTAA
1 AATTTAATATTTAATATA-ATAAATTTTAA
583545 AATTTTAATAT
1 AA-TTTAATAT
583556 GTAAAGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
AATTTAATATTTAATATAATAAATTTTAA
Found at i:583560 original size:15 final size:15
Alignment explanation
Indices: 583511--583565 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
583501 TATAATAAAT
*
583511 TTTAAAA-TATAATA
1 TTTAAAATTTTAATA
*
583525 TTTAATATATTTAA-A
1 TTTAAAAT-TTTAATA
583540 TTTAAAATTTTAATA
1 TTTAAAATTTTAATA
* *
583555 TGTAAAGTTTT
1 TTTAAAATTTT
583566 TATTTTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 11 0.33
15 18 0.55
16 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
TTTAAAATTTTAATA
Found at i:583809 original size:18 final size:18
Alignment explanation
Indices: 583771--583848 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
583761 TTTATATAAT
583771 TATATTTA-AAATAATTT-A
1 TATATTTATAAAT--TTTAA
*
583789 TATTTTTATAAATTTTAA
1 TATATTTATAAATTTTAA
*
583807 TATATTAAT-AA-TTT-A
1 TATATTTATAAATTTTAA
*
583822 TAT-TATATAAATTTTAA
1 TATATTTATAAATTTTAA
583839 TATATTTATA
1 TATATTTATA
583849 TTATATTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
14 3 0.06
15 6 0.12
16 6 0.12
17 9 0.19
18 20 0.42
19 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATTTATAAATTTTAA
Found at i:583819 original size:17 final size:15
Alignment explanation
Indices: 583797--583844 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
583787 TATATTTTTA
583797 TAAATTTTAATATAT
1 TAAATTTTAATATAT
*
583812 TAATAATTT-ATATTAT
1 TAA-ATTTTAATA-TAT
583828 ATAAATTTTAATATAT
1 -TAAATTTTAATATAT
583844 T
1 T
583845 TATATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 7 0.26
16 14 0.52
17 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAAATTTTAATATAT
Found at i:583836 original size:32 final size:33
Alignment explanation
Indices: 583780--583856 Score: 115
Period size: 32 Copynumber: 2.4 Consensus size: 33
583770 TTATATTTAA
*
583780 AATAATTTATATTTTTATAAATTTTAATATATT
1 AATAATTTATATTTATATAAATTTTAATATATT
583813 AATAATTTATA-TTATATAAATTTTAATATATT
1 AATAATTTATATTTATATAAATTTTAATATATT
*
583845 TAT-A-TTATATTT
1 AATAATTTATATTT
583857 TATTTATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 5 0.12
31 3 0.07
32 22 0.54
33 11 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
AATAATTTATATTTATATAAATTTTAATATATT
Found at i:583842 original size:14 final size:14
Alignment explanation
Indices: 583795--583843 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
583785 TTTATATTTT
583795 TATAAATTTTAATA
1 TATAAATTTTAATA
*
583809 TATTAATAATTTATATTA
1 TA-T-A-AATTT-TAATA
583827 TATAAATTTTAATA
1 TATAAATTTTAATA
583841 TAT
1 TAT
583844 TTATATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.31
15 6 0.21
16 2 0.07
17 6 0.21
18 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATAAATTTTAATA
Found at i:584891 original size:2 final size:2
Alignment explanation
Indices: 584879--584926 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
584869 AATAATTATC
* * *
584879 AT AT AT TT AT AT AT AT AT AT AT AT AC AT AT A- AT CAT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
584921 AT AT AT
1 AT AT AT
584927 GATAATTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
1 1 0.03
2 35 0.92
3 2 0.05
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:586659 original size:102 final size:102
Alignment explanation
Indices: 586483--586991 Score: 847
Period size: 102 Copynumber: 5.0 Consensus size: 102
586473 TCAGTACTGG
*
586483 TCTCGTAGCCATTCTTGTTGTTGCTGGTTGCAAGAATGCTATTGTAGGGTTCGTCAGAGTGGTAT
1 TCTCGTAGCCATTCTTGTTGTTGCTGGTTGCAAGAATGCTATTGTAGGGTTCATCAGAGTGGTAT
*
586548 TTGACAGGGGTAACATAGGGTTCATAGGTATCTTTGA
66 TTGACAGGGGTAACATAGGGTTCATAGGTTTCTTTGA
* *
586585 TCTCGTAGCCATTCTTGTTGTTGCTGGTTGCGAGAATGCTATTGTAGGGTTCGTCAGAGTGGTAT
1 TCTCGTAGCCATTCTTGTTGTTGCTGGTTGCAAGAATGCTATTGTAGGGTTCATCAGAGTGGTAT
*
586650 TTGACAGGGGTAACATAGGGTTCATAGGTATCTTTGA
66 TTGACAGGGGTAACATAGGGTTCATAGGTTTCTTTGA
* * * * *
586687 TTTCGTAGCCATTCTTCTTGTTGCTGGTTGCAGGAATGCTATTGTAGGGTTCCTCAGGGTGGTAT
1 TCTCGTAGCCATTCTTGTTGTTGCTGGTTGCAAGAATGCTATTGTAGGGTTCATCAGAGTGGTAT
* *
586752 TTGACAGGGGTAACATAGGGTTCATTGGTTTCCTTGA
66 TTGACAGGGGTAACATAGGGTTCATAGGTTTCTTTGA
* *
586789 TCTCGTAGCCATTCTTGTTGTTGCTGGTTGCAAGAACGCTGTTGTAGGGTTCATCAGAGTGGTAT
1 TCTCGTAGCCATTCTTGTTGTTGCTGGTTGCAAGAATGCTATTGTAGGGTTCATCAGAGTGGTAT
*
586854 TTGACAGGGGTGACATAGGGTTCATAGGTTTCTTTGA
66 TTGACAGGGGTAACATAGGGTTCATAGGTTTCTTTGA
* * * *
586891 TCGCGTAGCCATTCTTGTTGTTGCTGGTTTCAAGAATGCTATTGTAGGGTTCATCAGGGTGGTAC
1 TCTCGTAGCCATTCTTGTTGTTGCTGGTTGCAAGAATGCTATTGTAGGGTTCATCAGAGTGGTAT
586956 TTGACAGGGGTAACATAGGGTTCATAGGTTTCTTTG
66 TTGACAGGGGTAACATAGGGTTCATAGGTTTCTTTG
586992 GTGGTGGTGG
Statistics
Matches: 380, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 380 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.37
Consensus pattern (102 bp):
TCTCGTAGCCATTCTTGTTGTTGCTGGTTGCAAGAATGCTATTGTAGGGTTCATCAGAGTGGTAT
TTGACAGGGGTAACATAGGGTTCATAGGTTTCTTTGA
Found at i:588189 original size:26 final size:26
Alignment explanation
Indices: 588160--588213 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
588150 AGTCCAATAT
* **
588160 ATGATTATTATACAGTATTTTTCTTA
1 ATGATTATTACACAACATTTTTCTTA
*
588186 ATGATTATTACACAACCTTTTTCTTA
1 ATGATTATTACACAACATTTTTCTTA
588212 AT
1 AT
588214 ATTTATCAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (26 bp):
ATGATTATTACACAACATTTTTCTTA
Found at i:588919 original size:21 final size:22
Alignment explanation
Indices: 588879--588919 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
588869 AATTTTTGAA
* *
588879 TGAGTAGTTTTTATAAGAAAAG
1 TGAGAAGTTTCTATAAGAAAAG
588901 TGAGAAGTTTCTA-AAGAAA
1 TGAGAAGTTTCTATAAGAAA
588920 GATATTAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.32
Consensus pattern (22 bp):
TGAGAAGTTTCTATAAGAAAAG
Found at i:588991 original size:20 final size:19
Alignment explanation
Indices: 588956--589000 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
588946 GAGAAGTTCT
588956 TTTTTAGAAAGGTGGAAAA
1 TTTTTAGAAAGGTGGAAAA
*
588975 TTTTT-GAAGAGGATGGATAA
1 TTTTTAGAA-AGG-TGGAAAA
588995 TTTTTA
1 TTTTTA
589001 AAATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 8 0.36
20 11 0.50
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (19 bp):
TTTTTAGAAAGGTGGAAAA
Found at i:594861 original size:42 final size:42
Alignment explanation
Indices: 594780--594861 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
594770 CGAATACAAA
**
594780 TATATATTTAAAATAATATATTTAATTTTTATTTAATTTTTT
1 TATATATTTAAAATAATATATTTAATTCATATTTAATTTTTT
*
594822 TATATATTTAAAA-AACTATATATTACTTCATATTT-ATTTT
1 TATATATTTAAAATAA-TATAT-TTAATTCATATTTAATTTT
594862 CTGAATATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.06
42 23 0.66
43 10 0.29
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (42 bp):
TATATATTTAAAATAATATATTTAATTCATATTTAATTTTTT
Found at i:595148 original size:23 final size:24
Alignment explanation
Indices: 595121--595171 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
595111 TTATATCTCC
*
595121 ATACTC-ATATGATTATGTGTTTA
1 ATACTCAATATAATTATGTGTTTA
595144 ATACTCATATATAATTATGTGTTTA
1 ATACTCA-ATATAATTATGTGTTTA
595169 ATA
1 ATA
595172 TGGATTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 6 0.24
25 19 0.76
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (24 bp):
ATACTCAATATAATTATGTGTTTA
Found at i:595820 original size:4 final size:4
Alignment explanation
Indices: 595813--595847 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
595803 TATATATATA
595813 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
595848 AAAGATGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:596712 original size:2 final size:2
Alignment explanation
Indices: 596705--596737 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
596695 ATTAGAAAAT
596705 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
596738 TAATTAATTG
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:601530 original size:21 final size:23
Alignment explanation
Indices: 601508--601551 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
601498 TTTTAAAAAT
* *
601508 AAATTATT-TATATTATTATATA
1 AAATAATTATATATTAGTATATA
601530 AAATAATTATATATTAGTATAT
1 AAATAATTATATATTAGTATAT
601552 TATATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AAATAATTATATATTAGTATATA
Found at i:601559 original size:28 final size:28
Alignment explanation
Indices: 601495--601578 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
601485 ATCAATTTTA
* *
601495 ATATTTTA-AAAATAAATTATTTA-TAT
1 ATATTATATAAAATAAATTATATATTAT
601521 -TATTATATAAAAT-AATTATATATTAGT
1 ATATTATATAAAATAAATTATATATTA-T
601548 ATATTATATAAAATAAATTATATATTAT
1 ATATTATATAAAATAAATTATATATTAT
601576 ATA
1 ATA
601579 ATTTTAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
25 14 0.27
26 7 0.14
27 1 0.02
28 17 0.33
29 12 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATTATATAAAATAAATTATATATTAT
Found at i:602424 original size:17 final size:17
Alignment explanation
Indices: 602402--602435 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
602392 CGAATCTTAT
* *
602402 TTTTATTTAATTTTAAA
1 TTTTATATAATATTAAA
602419 TTTTATATAATATTAAA
1 TTTTATATAATATTAAA
602436 ATAAATAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTATATAATATTAAA
Found at i:606457 original size:21 final size:21
Alignment explanation
Indices: 606431--606472 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
606421 AAACATTATC
*
606431 GTCAATGTTAATTGAAATTGA
1 GTCAATGTTAATTAAAATTGA
606452 GTCAATGTTAATTAAAATTGA
1 GTCAATGTTAATTAAAATTGA
606473 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (21 bp):
GTCAATGTTAATTAAAATTGA
Found at i:609723 original size:8 final size:8
Alignment explanation
Indices: 609712--609773 Score: 51
Period size: 8 Copynumber: 8.1 Consensus size: 8
609702 AAATTTAATA
609712 ATTTATAT
1 ATTTATAT
*
609720 ATTTATTT
1 ATTTATAT
*
609728 ATTTTTAT
1 ATTTATAT
609736 ATATTATA-
1 AT-TTATAT
609744 A-TTATAT
1 ATTTATAT
* *
609751 -TTAAAAT
1 ATTTATAT
609758 A-TTATAT
1 ATTTATAT
609765 ATTTATAT
1 ATTTATAT
609773 A
1 A
609774 AATTTTAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
6 5 0.12
7 9 0.22
8 23 0.56
9 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTATAT
Found at i:609747 original size:6 final size:7
Alignment explanation
Indices: 609714--609793 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 7
609704 ATTTAATAAT
609714 TTATATA
1 TTATATA
609721 TT-TAT-
1 TTATATA
*
609726 TTAT-TT
1 TTATATA
609732 TTATATA
1 TTATATA
609739 TTATA-A
1 TTATATA
609745 TTATAT-
1 TTATATA
*
609751 TTAAAATA
1 TT-ATATA
609759 TTATATA
1 TTATATA
609766 TT-TATA
1 TTATATA
* *
609772 -TAAATT
1 TTATATA
609778 TTAATATA
1 TT-ATATA
609786 TTA-ATA
1 TTATATA
609792 TT
1 TT
609794 TAAATTATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
5 4 0.07
6 27 0.47
7 19 0.33
8 7 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTATATA
Found at i:609761 original size:20 final size:21
Alignment explanation
Indices: 609736--609803 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 21
609726 TTATTTTTAT
609736 ATATTATA-ATTATATTTAAA
1 ATATTATATATTATATTTAAA
*
609756 ATATTATATATT-TATAT-AA
1 ATATTATATATTATATTTAAA
*
609775 ATTTTAATATATTAATATTTAAA
1 ATATT-ATATATT-ATATTTAAA
*
609798 TTATTA
1 ATATTA
609804 ATTTAACGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 6 0.16
20 19 0.50
21 3 0.08
22 5 0.13
23 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTATATATTATATTTAAA
Found at i:610194 original size:34 final size:34
Alignment explanation
Indices: 610152--610261 Score: 100
Period size: 34 Copynumber: 3.2 Consensus size: 34
610142 ATATATTTTA
610152 TTATATTATTATCATATTTAAAATATTTTATA-AT
1 TTATATTATTAT-ATATTTAAAATATTTTATATAT
* * *
610186 TTATATTA-TATAAATTTTAAAATATTAATATATTT
1 TTATATTATTATATA-TTTAAAATATT-TTATATAT
* * *
610221 TTATAATATTATAT-TTTAAATTTTTTATATCATAT
1 TTATATTATTATATATTTAAAATATTT-TAT-ATAT
610256 TTATAT
1 TTATAT
610262 ATAATTGATT
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
32 2 0.03
33 14 0.23
34 24 0.40
35 16 0.27
36 4 0.07
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (34 bp):
TTATATTATTATATATTTAAAATATTTTATATAT
Found at i:610210 original size:19 final size:20
Alignment explanation
Indices: 610136--610234 Score: 67
Period size: 19 Copynumber: 5.5 Consensus size: 20
610126 TTGGTCATTT
**
610136 ATATT-TATAT-ATTTTATT
1 ATATTATATATAATTTTAAA
*
610154 ATATTAT-TATCATATTTAAA
1 ATATTATATATAAT-TTTAAA
610174 ATATT-T-TATAA-TTT---
1 ATATTATATATAATTTTAAA
610188 ATATTATATA-AATTTTAAA
1 ATATTATATATAATTTTAAA
* *
610207 ATATTA-ATATATTTTTATA
1 ATATTATATATAATTTTAAA
610226 ATATTATAT
1 ATATTATAT
610235 TTTAAATTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 5 0.08
15 3 0.05
16 5 0.08
17 3 0.05
18 11 0.17
19 27 0.42
20 11 0.17
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTATATATAATTTTAAA
Found at i:610633 original size:18 final size:18
Alignment explanation
Indices: 610607--610672 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 18
610597 GATAAAATAT
*
610607 AAATATATAAAAATATTA
1 AAATTTATAAAAATATTA
*
610625 AAATTTAT-ATAATA-T-
1 AAATTTATAAAAATATTA
* *
610640 AAA-TTATTAATATATTA
1 AAATTTATAAAAATATTA
* *
610657 TAATTTATATAAATAT
1 AAATTTATAAAAATAT
610673 ATTATATAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
14 4 0.11
15 7 0.19
16 2 0.06
17 7 0.19
18 16 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTATAAAAATATTA
Found at i:610653 original size:20 final size:21
Alignment explanation
Indices: 610630--610726 Score: 69
Period size: 20 Copynumber: 4.7 Consensus size: 21
610620 TATTAAAATT
610630 TATATAATATAAATTAT-T-AA
1 TATAT-ATATAAATTATATAAA
*
610650 TATAT-TATAATTTATATAAA
1 TATATATATAAATTATATAAA
* **
610670 TATATTATATAAAATATGAT-CG
1 TATA-TATATAAATTAT-ATAAA
* *
610692 TA-ATATAAAAATAATATAAA
1 TATATATATAAATTATATAAA
*
610712 TATATATACAAATTA
1 TATATATATAAATTA
610727 ATTTAATTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
18 9 0.16
19 3 0.05
20 22 0.38
21 12 0.21
22 10 0.17
23 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TATATATATAAATTATATAAA
Found at i:610662 original size:32 final size:32
Alignment explanation
Indices: 610602--610686 Score: 109
Period size: 32 Copynumber: 2.6 Consensus size: 32
610592 GATGTGATAA
*
610602 AATATAAATATATAAAAATATTAAAATTTATAT
1 AATATAAAT-TATTAAAATATTAAAATTTATAT
* *
610635 AATATAAATTATTAATATATTATAATTTATAT
1 AATATAAATTATTAAAATATTAAAATTTATAT
*
610667 AA-ATATATTATATAAAATAT
1 AATATAAATTAT-TAAAATAT
610687 GATCGTAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 8 0.17
32 29 0.63
33 9 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
AATATAAATTATTAAAATATTAAAATTTATAT
Found at i:613276 original size:10 final size:10
Alignment explanation
Indices: 613254--613306 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
613244 AAATATAAAT
613254 TTTAAATTTTA
1 TTTAAA-TTTA
613265 TTTAAATTTA
1 TTTAAATTTA
*
613275 TTTATATTTA
1 TTTAAATTTA
*
613285 TAATTAAA-TAA
1 T--TTAAATTTA
613296 TTTAAATTTA
1 TTTAAATTTA
613306 T
1 T
613307 CCAAATCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 5 0.14
10 17 0.49
11 9 0.26
12 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:613278 original size:21 final size:21
Alignment explanation
Indices: 613237--613306 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
613227 AAATTAAATC
*
613237 AAATTTAAAATATAAAT--TTT
1 AAATTTATAAT-TAAATAATTT
* *
613257 AAATTT-TATTTAAATTTATTT
1 AAATTTATAATTAAA-TAATTT
*
613278 ATATTTATAATTAAATAATTT
1 AAATTTATAATTAAATAATTT
613299 AAATTTAT
1 AAATTTAT
613307 CCAAATCTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
18 4 0.10
19 3 0.08
20 6 0.15
21 20 0.50
22 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATTTATAATTAAATAATTT
Found at i:613284 original size:41 final size:41
Alignment explanation
Indices: 613196--613304 Score: 103
Period size: 41 Copynumber: 2.6 Consensus size: 41
613186 GACCTGATTT
* * **
613196 AATTTAAAAATAATATAATTATTTTTTATTTAAATTAAATCA
1 AATTTAAAATTAA-ATATTTAAATTTTATTTAAATTAAATCA
* * *
613238 AATTTAAAATATAAAT-TTTAAATTTTATTTAAATTTATTTA
1 AATTTAAAAT-TAAATATTTAAATTTTATTTAAATTAAATCA
* *
613279 TATTTATAATTAAATAATTTAAATTT
1 AATTTAAAATTAAAT-ATTTAAATTT
613305 ATCCAAATCT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
40 5 0.09
41 27 0.49
42 20 0.36
43 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (41 bp):
AATTTAAAATTAAATATTTAAATTTTATTTAAATTAAATCA
Found at i:613463 original size:19 final size:21
Alignment explanation
Indices: 613441--613490 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
613431 AAATTTATTC
613441 TTTAATTATATAAAA-T-ATA
1 TTTAATTATATAAAATTAATA
613460 TTTAA-TATA-AAAATTAATA
1 TTTAATTATATAAAATTAATA
613479 TTT-ATTATATAA
1 TTTAATTATATAA
613491 TTAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 15 0.56
20 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAATTATATAAAATTAATA
Found at i:615248 original size:22 final size:20
Alignment explanation
Indices: 615222--615264 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
615212 TTTTAAATTT
*
615222 TTTATATATTTAATATATAATA
1 TTTATATATATAAT-TA-AATA
615244 TTTATATATATAATTAAATA
1 TTTATATATATAATTAAATA
615264 T
1 T
615265 ATATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTATATATATAATTAAATA
Found at i:615254 original size:15 final size:14
Alignment explanation
Indices: 615227--615257 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
615217 AATTTTTTAT
615227 ATATTTAATATATA
1 ATATTTAATATATA
615241 ATATTTATATATATA
1 ATATTTA-ATATATA
615256 AT
1 AT
615258 TAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTTAATATATA
Found at i:615270 original size:11 final size:12
Alignment explanation
Indices: 615224--615275 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
615214 TTAAATTTTT
615224 TATATATTTAATA
1 TATATATTTAA-A
*
615237 TATAATATTTATA
1 TAT-ATATTTAAA
*
615250 TATATAATTAAA
1 TATATATTTAAA
615262 TATATA-TTAAA
1 TATATATTTAAA
615273 TAT
1 TAT
615276 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 8 0.23
12 13 0.37
13 7 0.20
14 7 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATATATTTAAA
Found at i:616026 original size:18 final size:18
Alignment explanation
Indices: 615982--616027 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
615972 TATATTTTTA
*
615982 TATTATTTTAAAAAAATT
1 TATTATTTTAAAAAAAAT
616000 TATTAATTTTAAAATAAAAT
1 TATT-ATTTTAAAA-AAAAT
616020 T-TTATTTT
1 TATTATTTT
616028 TATATTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 9 0.36
19 11 0.44
20 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATTTTAAAAAAAAT
Found at i:616073 original size:19 final size:19
Alignment explanation
Indices: 616035--616070 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
616025 TTTTATATTA
*
616035 TAAAATATAAAAAATTAAT
1 TAAAATATAAAAAATAAAT
616054 TAAAAT-TAAAAAATAAA
1 TAAAATATAAAAAATAAA
616071 ATTTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAATATAAAAAATAAAT
Found at i:616459 original size:3 final size:3
Alignment explanation
Indices: 616451--616475 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
616441 TAGATAATCC
616451 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
616476 ATCTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:617119 original size:18 final size:20
Alignment explanation
Indices: 617084--617124 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
617074 ATTTTAATTT
*
617084 TTTTAAAATATATAAATA-A
1 TTTTAAAAAATATAAATATA
617103 TTTTAAAAAAT-TAAATATA
1 TTTTAAAAAATATAAATATA
617122 TTT
1 TTT
617125 ATTAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAAAAAATATAAATATA
Found at i:620085 original size:31 final size:31
Alignment explanation
Indices: 620050--620118 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
620040 TCCCTTTTTT
620050 TTAAATATAATAT-T-AAAAAATAATTAAAATA
1 TTAAATATAATATATCAAAAAATAA--AAAATA
* *
620081 TTAAATAAAATATATCATAAAATAAAAAATA
1 TTAAATATAATATATCAAAAAATAAAAAATA
620112 -TAAATAT
1 TTAAATAT
620119 TAAAATTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 6 0.18
31 18 0.55
32 1 0.03
33 8 0.24
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (31 bp):
TTAAATATAATATATCAAAAAATAAAAAATA
Found at i:621381 original size:20 final size:20
Alignment explanation
Indices: 621358--621422 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
621348 TTATAATTTT
*
621358 AAATTTATAAATTAAAATTA
1 AAATTAATAAATTAAAATTA
* *
621378 AAATAAATAAATTATTAATT-
1 AAATTAATAAATTA-AAATTA
621398 AAATTAAATTAAATT-AAATTA
1 AAATT-AA-TAAATTAAAATTA
621419 AAAT
1 AAAT
621423 CAAATCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
20 20 0.56
21 10 0.28
22 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTAATAAATTAAAATTA
Found at i:621392 original size:27 final size:27
Alignment explanation
Indices: 621356--621427 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
621346 AATTATAATT
621356 TTAAATTTATAAATTAAAATTAAAATAAA
1 TTAAA-TTATAAATT-AAATTAAAATAAA
* *
621385 -TAAATTATTAATTAAATTAAATTAAA
1 TTAAATTATAAATTAAATTAAAATAAA
*
621411 TTAAATTA-AAATCAAAT
1 TTAAATTATAAATTAAAT
621428 CAAATACTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 19 0.50
27 15 0.39
28 4 0.11
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (27 bp):
TTAAATTATAAATTAAATTAAAATAAA
Found at i:621402 original size:5 final size:5
Alignment explanation
Indices: 621365--621420 Score: 69
Period size: 5 Copynumber: 10.8 Consensus size: 5
621355 TTTAAATTTA
*
621365 TAAAT TAAAAT TAAAA TAAA- TAAAT TATTAAT TAAAT TAAAT TAAAT
1 TAAAT T-AAAT TAAAT TAAAT TAAAT TA--AAT TAAAT TAAAT TAAAT
621412 TAAAT TAAA
1 TAAAT TAAA
621421 ATCAAATCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
4 4 0.09
5 32 0.70
6 5 0.11
7 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TAAAT
Found at i:622203 original size:18 final size:16
Alignment explanation
Indices: 622180--622222 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
622170 TTAATTAGAT
*
622180 AAAAATTAAAAATTTTA
1 AAAAATTAAAAA-TATA
622197 AATAAATTAAAAATATA
1 AA-AAATTAAAAATATA
622214 AAAAATTAA
1 AAAAATTAA
622223 TTTGATGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATTAAAAATATA
Found at i:623394 original size:23 final size:23
Alignment explanation
Indices: 623353--623402 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
623343 CTCATAAAAT
*
623353 TATATATTTATATTAATATTTAA
1 TATATATTTAAATTAATATTTAA
623376 -ATATATATTAAATTAATATTTAA
1 TATATAT-TTAAATTAATATTTAA
623399 TATA
1 TATA
623403 AATATATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 15 0.62
24 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATATTTAAATTAATATTTAA
Found at i:623839 original size:35 final size:35
Alignment explanation
Indices: 623794--623866 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
623784 ATATTTCTAA
*
623794 TTTAATATATTTTATTAAAAATATAGATAATAAATTT
1 TTTAATAT-TTATATTAAAAAT-TAGATAATAAATTT
* * *
623831 TTTAATATTTATATTAAATATTATATATTAAATTT
1 TTTAATATTTATATTAAAAATTAGATAATAAATTT
623866 T
1 T
623867 ATATGATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 13 0.41
36 11 0.34
37 8 0.25
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (35 bp):
TTTAATATTTATATTAAAAATTAGATAATAAATTT
Found at i:623890 original size:15 final size:16
Alignment explanation
Indices: 623872--623907 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
623862 ATTTTATATG
*
623872 ATATAAATATATAAT-
1 ATATAAATATAAAATA
623887 ATATAAATATAAAATA
1 ATATAAATATAAAATA
623903 ATATA
1 ATATA
623908 TATTATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAAATATAAAATA
Found at i:624019 original size:13 final size:14
Alignment explanation
Indices: 624003--624032 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
623993 TAATTTTTTA
624003 TTTAAATTTAAT-T
1 TTTAAATTTAATAT
624016 TTTAAATTTAATAT
1 TTTAAATTTAATAT
624030 TTT
1 TTT
624033 TATGTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTAAATTTAATAT
Found at i:624214 original size:2 final size:2
Alignment explanation
Indices: 624207--624280 Score: 57
Period size: 2 Copynumber: 38.5 Consensus size: 2
624197 TTGAGCTCCG
* * *
624207 TA TA TA TA TA TA TA TA TA TA TGA TA AA AA TA T- TA -A TA TG TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
* * *
624248 TA AA T- TA TA TA TA TA TA TA -A TA AA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
624281 TAAAAATAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
1 4 0.07
2 51 0.89
3 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (2 bp):
TA
Found at i:624261 original size:17 final size:16
Alignment explanation
Indices: 624207--624267 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
624197 TTGAGCTCCG
* *
624207 TATATATATATATATA
1 TATATGTATAAATATA
*
624223 TATATG-ATAAAAATA
1 TATATGTATAAATATA
624238 TTAATATGTATAAATTATA
1 -T-ATATGTATAAA-TATA
*
624257 TATATATATAA
1 TATATGTATAA
624268 TAAATAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 7 0.19
16 6 0.17
17 14 0.39
18 6 0.17
19 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TATATGTATAAATATA
Found at i:625214 original size:23 final size:23
Alignment explanation
Indices: 625157--625215 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
625147 AATTATTATA
* *
625157 TAATAATAAAAATTTTATTTAAAT
1 TAAT-ATAAAAATTATATTAAAAT
625181 TAAT-TATAAAATTATA-TAAATAT
1 TAATATA-AAAATTATATTAAA-AT
625204 TAATATAAAAAT
1 TAATATAAAAAT
625216 ATTTCAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 5 0.17
23 19 0.63
24 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATATAAAAATTATATTAAAAT
Found at i:625224 original size:22 final size:21
Alignment explanation
Indices: 625172--625234 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
625162 ATAAAAATTT
*
625172 TATTTAA-ATTAATTATAAAAT
1 TATTTAATATTAA-TATAAAAA
*
625193 TATATAAATATTAATATAAAAA
1 TAT-TTAATATTAATATAAAAA
* *
625215 TATTTCAATAATAATTTAAA
1 TATTT-AATATTAATATAAA
625235 TTTTTAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 4 0.12
22 25 0.74
23 5 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTTAATATTAATATAAAAA
Found at i:628359 original size:3 final size:3
Alignment explanation
Indices: 628351--628390 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
628341 AGTTTAAGCA
628351 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
628391 GTATGATTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:630230 original size:13 final size:13
Alignment explanation
Indices: 630212--630241 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
630202 TATTTAGATG
630212 TATTAAATATAAA
1 TATTAAATATAAA
*
630225 TATTAAATATGAA
1 TATTAAATATAAA
630238 TATT
1 TATT
630242 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
TATTAAATATAAA
Found at i:633507 original size:12 final size:12
Alignment explanation
Indices: 633492--633533 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
633482 AATTTAAAAG
*
633492 TTATTTTATTAT
1 TTATTATATTAT
633504 TTATTATATTAT
1 TTATTATATTAT
*
633516 TTA-AATATTAT
1 TTATTATATTAT
633527 TT-TTATA
1 TTATTATA
633534 ATTAAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 12 0.46
12 14 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTATATTAT
Found at i:634427 original size:20 final size:20
Alignment explanation
Indices: 634388--634440 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
634378 TTTGTGATTG
*
634388 TATCGATACATATTTAAATTA
1 TATCGATACAT-TATAAATTA
* *
634409 TATCAATACATTATAAATTG
1 TATCGATACATTATAAATTA
634429 TATCGATACATT
1 TATCGATACATT
634441 TGGCTTAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (20 bp):
TATCGATACATTATAAATTA
Found at i:634846 original size:11 final size:11
Alignment explanation
Indices: 634830--634854 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
634820 CTTTGTGTAC
634830 AATCATTTAAG
1 AATCATTTAAG
634841 AATCATTTAAG
1 AATCATTTAAG
634852 AAT
1 AAT
634855 TTGGAGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (11 bp):
AATCATTTAAG
Found at i:635346 original size:22 final size:21
Alignment explanation
Indices: 635321--635366 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
635311 ATATTTTATT
635321 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATA-A
635343 TAAATATTAATATAAAAATAA
1 TAAATATTAATATAAAAATAA
635364 TAA
1 TAA
635367 TAATATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.17
22 15 0.65
23 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATATTAATATAAAAATAA
Found at i:635354 original size:14 final size:14
Alignment explanation
Indices: 635332--635374 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
635322 AAATTTAATT
*
635332 ATAAAAATATATAA
1 ATAATAATATATAA
* *
635346 ATATTAATATAAAA
1 ATAATAATATATAA
635360 ATAATAATAATATAA
1 ATAATAAT-ATATAA
635375 TAAATATTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATATATAA
Found at i:635370 original size:17 final size:18
Alignment explanation
Indices: 635345--635380 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
635335 AAAATATATA
*
635345 AATATTAATATAA-AAAT
1 AATAATAATATAATAAAT
635362 AATAATAATATAATAAAT
1 AATAATAATATAATAAAT
635380 A
1 A
635381 TTTGATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATAATATAATAAAT
Found at i:635847 original size:25 final size:26
Alignment explanation
Indices: 635819--635872 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
635809 AACTTTTTTT
635819 AAAAAT-TATATAATTATTATAATTC
1 AAAAATATATATAATTATTATAATTC
* **
635844 -AAAATATATGTTGTTATTATAATTC
1 AAAAATATATATAATTATTATAATTC
635869 AAAA
1 AAAA
635873 TCGATAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
24 5 0.21
25 16 0.67
26 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (26 bp):
AAAAATATATATAATTATTATAATTC
Found at i:635885 original size:25 final size:25
Alignment explanation
Indices: 635831--635892 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
635821 AAATTATATA
* **
635831 ATTATTATAATTCAAAATATATGTT
1 ATTATTATAATTCAAAATAGATAAT
* *
635856 GTTATTATAATTCAAAATCGATAAT
1 ATTATTATAATTCAAAATAGATAAT
635881 ATTATATATAAT
1 ATTAT-TATAAT
635893 ATTATTATAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 24 0.80
26 6 0.20
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (25 bp):
ATTATTATAATTCAAAATAGATAAT
Found at i:635934 original size:21 final size:22
Alignment explanation
Indices: 635908--635953 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
635898 TATACGACAT
*
635908 AAATATA-ATTAAAAAATATTA
1 AAATATATATTAAAAAATAATA
* *
635929 AAATATATTTTAAAAAGTAATA
1 AAATATATATTAAAAAATAATA
635951 AAA
1 AAA
635954 ATACACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATATATATTAAAAAATAATA
Found at i:636027 original size:22 final size:21
Alignment explanation
Indices: 635999--636041 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
635989 AATATAAATA
635999 TAAAATTAATATATAA-ATATTT
1 TAAAATT--TATATAATATATTT
636021 TAAAATTTATATAATATATTT
1 TAAAATTTATATAATATATTT
636042 ATATATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAAATTTATATAATATATTT
Found at i:636039 original size:29 final size:28
Alignment explanation
Indices: 636006--636068 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
635996 ATATAAAATT
*
636006 AATATATAAATATTTTAAAATTTATATA
1 AATATATAAATATATTAAAATTTATATA
* *
636034 ATATATTTATATATATTAAAATTTATATA
1 A-ATATATAAATATATTAAAATTTATATA
636063 AATATA
1 AATATA
636069 AATTTATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
AATATATAAATATATTAAAATTTATATA
Found at i:636059 original size:16 final size:15
Alignment explanation
Indices: 636020--636094 Score: 70
Period size: 13 Copynumber: 5.2 Consensus size: 15
636010 TATAAATATT
636020 TTAAAATTTATATAA
1 TTAAAATTTATATAA
*
636035 -T-ATATTTATATATA
1 TTAAAATTTATATA-A
636049 TTAAAATTTATATAA
1 TTAAAATTTATATAA
*
636064 ATATAAATTTAT-TAA
1 TTA-AAATTTATATAA
*
636079 TTATAA-TTATA-AA
1 TTAAAATTTATATAA
636092 TTA
1 TTA
636095 CGAAATTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
13 19 0.38
14 4 0.08
15 9 0.18
16 18 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAAAATTTATATAA
Found at i:637993 original size:14 final size:14
Alignment explanation
Indices: 637974--638003 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
637964 ACATGCATAC
637974 ATACATACATACAT
1 ATACATACATACAT
*
637988 ATACATATATACAT
1 ATACATACATACAT
638002 AT
1 AT
638004 GTATGTATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
ATACATACATACAT
Found at i:638022 original size:2 final size:2
Alignment explanation
Indices: 638015--638047 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
638005 TATGTATGTA
638015 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
638048 CTACTCTTTA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:639304 original size:14 final size:14
Alignment explanation
Indices: 639285--639314 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
639275 TAATTGCAAC
639285 ATGATTGCATGAAA
1 ATGATTGCATGAAA
*
639299 ATGATTGTATGAAA
1 ATGATTGCATGAAA
639313 AT
1 AT
639315 AAGGGTGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.33
Consensus pattern (14 bp):
ATGATTGCATGAAA
Found at i:643745 original size:17 final size:18
Alignment explanation
Indices: 643719--643752 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
643709 CGGAAGTTAT
*
643719 TTTTTAAATATTAATATG
1 TTTTTAAATATGAATATG
643737 TTTTT-AATATGAATAT
1 TTTTTAAATATGAATAT
643753 ACATTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTTAAATATGAATATG
Found at i:648192 original size:19 final size:17
Alignment explanation
Indices: 648138--648193 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
648128 AAATATATAC
648138 TTAATA-TATATTTTAT
1 TTAATATTATATTTTAT
* *
648154 TTATTATTTTATTATGTAT
1 TTAATATTATATT-T-TAT
648173 TTAAAATATTATATTTTAT
1 TT--AATATTATATTTTAT
648192 TT
1 TT
648194 TTATATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
16 5 0.16
17 5 0.16
18 1 0.03
19 10 0.32
20 1 0.03
21 9 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTAATATTATATTTTAT
Found at i:648200 original size:27 final size:29
Alignment explanation
Indices: 648170--648225 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
648160 TTTTATTATG
*
648170 TATTTAAA-ATAT-TATATTTTATTTTTA
1 TATTTAAATATATATATATATTATTTTTA
*
648197 TATTTAAATATATATTTATATTATTTTTA
1 TATTTAAATATATATATATATTATTTTTA
648226 AACATGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.32
28 4 0.16
29 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TATTTAAATATATATATATATTATTTTTA
Found at i:648213 original size:39 final size:37
Alignment explanation
Indices: 648127--648214 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 37
648117 GTCTTAGAAA
*
648127 TAAATATATACTT-AATATATATTTTATTTATTATTT
1 TAAATATATATTTAAATATATATTTTATTTATTATTT
* *
648163 T-ATTATGTATTTAAAATATTATATTTTATTT-TTATATT
1 TAAATATATATTT-AAATA-TATATTTTATTTATTAT-TT
648201 TAAATATATATTTA
1 TAAATATATATTTA
648215 TATTATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
35 8 0.19
36 1 0.02
37 8 0.19
38 16 0.38
39 9 0.21
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (37 bp):
TAAATATATATTTAAATATATATTTTATTTATTATTT
Found at i:648540 original size:16 final size:16
Alignment explanation
Indices: 648519--648549 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
648509 GTATTTAAAG
*
648519 ATTAGATTCAATTTAT
1 ATTAGATTAAATTTAT
648535 ATTAGATTAAATTTA
1 ATTAGATTAAATTTA
648550 AATATGATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTAGATTAAATTTAT
Found at i:648958 original size:24 final size:24
Alignment explanation
Indices: 648924--648989 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
648914 AAATAATCAA
648924 ATAAAAA-AATAT-TTAAATATAAC
1 ATAAAAATAATATATTAAATA-AAC
* * *
648947 ATAAATATAATATATTTAATAAAT
1 ATAAAAATAATATATTAAATAAAC
*
648971 ATAAAAATAATATAATAAA
1 ATAAAAATAATATATTAAA
648990 AACAATAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 6 0.17
24 23 0.66
25 6 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAAAATAATATATTAAATAAAC
Found at i:663253 original size:43 final size:43
Alignment explanation
Indices: 663189--663277 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
663179 CGAACAGTTT
*
663189 AAATAATTCAAGTTATTAAATGAGTTTAAATAATTAAATAAAA
1 AAATAATTCAAGTTATCAAATGAGTTTAAATAATTAAATAAAA
* *
663232 AAATAATTTAAGTTATCAAATGAGTTTAAATAGTTAAATAAAA
1 AAATAATTCAAGTTATCAAATGAGTTTAAATAATTAAATAAAA
663275 AAA
1 AAA
663278 ATTATGTATG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (43 bp):
AAATAATTCAAGTTATCAAATGAGTTTAAATAATTAAATAAAA
Found at i:663803 original size:11 final size:11
Alignment explanation
Indices: 663763--663903 Score: 52
Period size: 11 Copynumber: 13.5 Consensus size: 11
663753 TATTAACACG
*
663763 ATATAAAAATA
1 ATATAAATATA
*
663774 ATATGAAA-AAA
1 ATAT-AAATATA
*
663785 ATAAAAATATA
1 ATATAAATATA
663796 ATAT-AA-AT-
1 ATATAAATATA
663804 ATATAAATAT-
1 ATATAAATATA
* * *
663814 -TTTAAATTTT
1 ATATAAATATA
663824 ATAT-AATATAA
1 ATATAAATAT-A
*
663835 ATTATTAATAT-
1 A-TATAAATATA
* *
663846 AT-TAAATTTT
1 ATATAAATATA
663856 ATATAAATATA
1 ATATAAATATA
*
663867 AAAT-AATATAA
1 ATATAAATAT-A
* *
663878 AAATAATTATA
1 ATATAAATATA
*
663889 ATAT-AATAAA
1 ATATAAATATA
663899 ATATA
1 ATATA
663904 TAAATATTAC
Statistics
Matches: 98, Mismatches: 18, Indels: 28
0.68 0.12 0.19
Matches are distributed among these distances:
8 4 0.04
9 16 0.16
10 27 0.28
11 36 0.37
12 10 0.10
13 5 0.05
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (11 bp):
ATATAAATATA
Found at i:663807 original size:8 final size:8
Alignment explanation
Indices: 663796--663910 Score: 57
Period size: 8 Copynumber: 14.2 Consensus size: 8
663786 TAAAAATATA
663796 ATATAAAT
1 ATATAAAT
663804 ATATAAAT
1 ATATAAAT
*
663812 ATTTTAAAT
1 A-TATAAAT
* *
663821 -TTTATAT
1 ATATAAAT
663828 AATATAAAT
1 -ATATAAAT
*
663837 -TATTAAT
1 ATATAAAT
663844 ATATTAAATTTT
1 ATA-TAAA---T
663856 ATATAAAT
1 ATATAAAT
663864 ATA-AAAT
1 ATATAAAT
663871 AATATAAA-
1 -ATATAAAT
663879 A-AT-AAT
1 ATATAAAT
663885 -TAT-AAT
1 ATATAAAT
663891 ATAATAAAAT
1 AT-AT-AAAT
663901 ATATAAAT
1 ATATAAAT
663909 AT
1 AT
663911 TACACGAATA
Statistics
Matches: 85, Mismatches: 6, Indels: 32
0.69 0.05 0.26
Matches are distributed among these distances:
5 2 0.02
6 7 0.08
7 18 0.21
8 26 0.31
9 19 0.22
10 5 0.06
11 4 0.05
12 4 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:663851 original size:32 final size:33
Alignment explanation
Indices: 663791--663910 Score: 135
Period size: 32 Copynumber: 3.7 Consensus size: 33
663781 AAAAATAAAA
*
663791 ATATAATATAAATATATAAATATTTTAAATTTT
1 ATATAATATAAATATATAAATATATTAAATTTT
*
663824 ATATAATATAAAT-TATTAATATATTAAATTTT
1 ATATAATATAAATATATAAATATATTAAATTTT
*
663856 ATATAAATATAAAATAATATAAA-A-A-T-AATTATA
1 ATAT-AATAT-AAAT-ATATAAATATATTAAATT-TT
663889 ATATAATA-AAATATATAAATAT
1 ATATAATATAAATATATAAATAT
663911 TACACGAATA
Statistics
Matches: 76, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
29 7 0.09
30 5 0.07
32 29 0.38
33 24 0.32
34 5 0.07
35 1 0.01
36 5 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
ATATAATATAAATATATAAATATATTAAATTTT
Found at i:663866 original size:20 final size:19
Alignment explanation
Indices: 663803--663870 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 19
663793 ATAATATAAA
*
663803 TATATAAATATTTTAAATTT
1 TATAT-AATATATTAAATTT
663823 TATAT-A-ATA-TAAA--T
1 TATATAATATATTAAATTT
663837 TAT-TAATATATTAAATTT
1 TATATAATATATTAAATTT
*
663855 TATATAA-ATATAAAAT
1 TATATAATATATTAAAT
663871 AATATAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.12
15 3 0.08
16 8 0.20
17 2 0.05
18 13 0.32
19 3 0.08
20 5 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATAATATATTAAATTT
Found at i:663946 original size:23 final size:23
Alignment explanation
Indices: 663919--663966 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
663909 ATTACACGAA
663919 TATACGAATTTTAATATCTCATT
1 TATACGAATTTTAATATCTCATT
663942 TATACGAATTTTAATATCTCATT
1 TATACGAATTTTAATATCTCATT
663965 TA
1 TA
663967 ATCTGTTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.48
Consensus pattern (23 bp):
TATACGAATTTTAATATCTCATT
Found at i:666417 original size:26 final size:25
Alignment explanation
Indices: 666388--666455 Score: 64
Period size: 32 Copynumber: 2.4 Consensus size: 25
666378 TATAATTATA
666388 TTTAAAATATTTATATTTATATAAAT
1 TTTAAAATATTTATA-TTATATAAAT
666414 TTTAATATGTTAATAATTTATATTATATAAAT
1 TTT-A-A----AAT-ATTTATATTATATAAAT
666446 TTTAAAATAT
1 TTTAAAATAT
666456 ATCATATTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 15
0.70 0.00 0.30
Matches are distributed among these distances:
25 2 0.06
26 6 0.17
27 1 0.03
28 1 0.03
30 1 0.03
31 1 0.03
32 16 0.46
33 7 0.20
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (25 bp):
TTTAAAATATTTATATTATATAAAT
Found at i:666421 original size:18 final size:18
Alignment explanation
Indices: 666400--666450 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 18
666390 TAAAATATTT
666400 ATATTTATATAAATTTTA
1 ATATTTATATAAATTTTA
666418 ATATGTTA-AT-AA-TTT-
1 ATAT-TTATATAAATTTTA
666433 ATA-TTATATAAATTTTA
1 ATATTTATATAAATTTTA
666450 A
1 A
666451 AATATATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
13 3 0.11
14 2 0.07
15 5 0.18
16 6 0.21
17 3 0.11
18 6 0.21
19 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATATTTATATAAATTTTA
Found at i:667786 original size:13 final size:13
Alignment explanation
Indices: 667768--667792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
667758 ATGCTAGTCA
667768 AAGATATGGCATC
1 AAGATATGGCATC
667781 AAGATATGGCAT
1 AAGATATGGCAT
667793 AATTAACTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
AAGATATGGCATC
Found at i:668889 original size:21 final size:21
Alignment explanation
Indices: 668840--668889 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
668830 AAATATTTTT
* *
668840 ATTT-AAA-TTTAATTATAAA
1 ATTTAAAATTTTAATAAAAAA
*
668859 ATATATAAATTTTAATAAAAAA
1 ATTTA-AAATTTTAATAAAAAA
668881 ATTTAAAAT
1 ATTTAAAAT
668890 AATTATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 3 0.12
21 7 0.29
22 14 0.58
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTAAAATTTTAATAAAAAA
Found at i:669220 original size:22 final size:22
Alignment explanation
Indices: 669195--669236 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
669185 TAATTGCTCC
*
669195 AAAATTTGAAATATAATAATTT
1 AAAATTTAAAATATAATAATTT
*
669217 AAAATTTAAAATATGATAAT
1 AAAATTTAAAATATAATAAT
669237 AAAATTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (22 bp):
AAAATTTAAAATATAATAATTT
Found at i:669750 original size:17 final size:17
Alignment explanation
Indices: 669728--669772 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
669718 TATTAAATTT
669728 TATTTAAAAATTTTATA
1 TATTTAAAAATTTTATA
669745 TATTTAAAAGA--TTATA
1 TATTTAAAA-ATTTTATA
*
669761 TATTTAATAATT
1 TATTTAAAAATT
669773 ACATTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 1 0.04
16 13 0.54
17 9 0.38
18 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TATTTAAAAATTTTATA
Found at i:670440 original size:26 final size:25
Alignment explanation
Indices: 670407--670470 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 25
670397 TGTTATTTAA
670407 ATTT-AATTTATAAAT-TTATTTTATT
1 ATTTAAATTTATAAATATTA--TTATT
670432 ATTTAAATTTA-AAATATTATTATT
1 ATTTAAATTTATAAATATTATTATT
670456 ATATTAATATTTATA
1 AT-TTAA-ATTTATA
670471 TTTTATAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
24 7 0.21
25 12 0.35
26 14 0.41
27 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTAAATTTATAAATATTATTATT
Found at i:671728 original size:13 final size:13
Alignment explanation
Indices: 671710--671737 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
671700 TAATTTTTTA
671710 AATATTTATATTT
1 AATATTTATATTT
671723 AATATTTATATTT
1 AATATTTATATTT
671736 AA
1 AA
671738 GTATATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:672390 original size:22 final size:23
Alignment explanation
Indices: 672365--672407 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
672355 TGTGACAATT
672365 TAAAAATTACAAA-AAAAAATCA
1 TAAAAATTACAAATAAAAAATCA
* *
672387 TAAATATTATAAATAAAAAAT
1 TAAAAATTACAAATAAAAAAT
672408 TAATTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (23 bp):
TAAAAATTACAAATAAAAAATCA
Found at i:672864 original size:15 final size:15
Alignment explanation
Indices: 672836--672870 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
672826 TGTTATACAT
* *
672836 AAAATTAAATATAAA
1 AAAATAAAAAATAAA
672851 AAAATAAAAAATAAA
1 AAAATAAAAAATAAA
672866 AAAAT
1 AAAAT
672871 TAAACTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAATAAAAAATAAA
Found at i:673003 original size:16 final size:16
Alignment explanation
Indices: 672979--673009 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
672969 TATAAAATTT
672979 TATTAATTATTTATTA
1 TATTAATTATTTATTA
*
672995 TATTTATTATTTATT
1 TATTAATTATTTATT
673010 TAATATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTAATTATTTATTA
Found at i:680803 original size:21 final size:21
Alignment explanation
Indices: 680766--680825 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
680756 TTATACGATA
*
680766 AAAATAAAACA-AGAAAAAAAT
1 AAAATAAAATATA-AAAAAAAT
*
680787 AAAATAAAATAT-AAAAAATT
1 AAAATAAAATATAAAAAAAAT
* *
680807 AAGATATAATATAAAAAAA
1 AAAATAAAATATAAAAAAA
680826 TAACTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (21 bp):
AAAATAAAATATAAAAAAAAT
Found at i:680804 original size:20 final size:20
Alignment explanation
Indices: 680779--680828 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
680769 ATAAAACAAG
680779 AAAAAAATAAAATAAAATAT
1 AAAAAAATAAAATAAAATAT
* * *
680799 AAAAAATTAAGATATAATAT
1 AAAAAAATAAAATAAAATAT
680819 AAAAAAATAA
1 AAAAAAATAA
680829 CTATTATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAAAAATAAAATAAAATAT
Done.