Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 22 of 56
Found at i:3890401 original size:30 final size:31
Alignment explanation
Indices: 3890316--3890402 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 31
3890306 TTTAATAAAA
* * *
3890316 CCCTTAAAGTATTATTTTTGTCT-ATTTAAT
1 CCCTTAAAGTACTATTTTTGTTTAATTTAAG
* *
3890346 CCATTAAAGTACTATTTTTATTTAATTTAAG
1 CCCTTAAAGTACTATTTTTGTTTAATTTAAG
* *
3890377 CCCTTAGAGTA-TACTTTTGTTTAATT
1 CCCTTAAAGTACTATTTTTGTTTAATT
3890403 AAACCCCTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 32 0.68
31 15 0.32
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.51
Consensus pattern (31 bp):
CCCTTAAAGTACTATTTTTGTTTAATTTAAG
Found at i:3894971 original size:6 final size:6
Alignment explanation
Indices: 3894957--3894987 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
3894947 TGTCATCTGG
*
3894957 CCCTCC CCCTTC CCCTTC CCCTTC CCCTTC C
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC C
3894988 TCTCTCTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (6 bp):
CCCTTC
Found at i:3895039 original size:10 final size:10
Alignment explanation
Indices: 3895024--3895053 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3895014 TTGGCTTTCT
3895024 TAATTTTTTA
1 TAATTTTTTA
3895034 TAATTTTTT-
1 TAATTTTTTA
3895043 TAATTTTTTA
1 TAATTTTTTA
3895053 T
1 T
3895054 TTCAAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:3899962 original size:70 final size:70
Alignment explanation
Indices: 3899842--3899982 Score: 166
Period size: 70 Copynumber: 2.0 Consensus size: 70
3899832 GCAAATCAAT
* *
3899842 CAATTAATGATTGAAGCAATGATTATTTACATAAGAGACTAGGCTGTTTTTCTCA-AGAATTAAG
1 CAATTAATGATTGAAGCAATGATTATTTACATAAGAGACTAGGCTATTTTTC-AAGAGAATTAAG
3899906 AACTAC
65 AACTAC
*
3899912 CAATTGAATTGATT-AAGCAATGATTA-TTATC-TAATG-GACTAGGTTATTTTTCAAGAGAATT
1 CAATT-AA-TGATTGAAGCAATGATTATTTA-CATAA-GAGACTAGGCTATTTTTCAAGAGAATT
*
3899973 ATGAACTAC
62 AAGAACTAC
3899982 C
1 C
3899983 CCTGAAATGT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
69 1 0.02
70 40 0.65
71 16 0.26
72 5 0.08
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (70 bp):
CAATTAATGATTGAAGCAATGATTATTTACATAAGAGACTAGGCTATTTTTCAAGAGAATTAAGA
ACTAC
Found at i:3901526 original size:7 final size:7
Alignment explanation
Indices: 3901514--3901585 Score: 92
Period size: 7 Copynumber: 10.1 Consensus size: 7
3901504 TTATATTAAA
3901514 TTATATT
1 TTATATT
3901521 TTATATT
1 TTATATT
3901528 ATT-TATT
1 -TTATATT
* **
3901535 ATATTAAA
1 TTA-TATT
3901543 TTATATT
1 TTATATT
3901550 TTATATT
1 TTATATT
3901557 TTATATT
1 TTATATT
3901564 TTATATT
1 TTATATT
3901571 TTATATT
1 TTATATT
3901578 TTATATT
1 TTATATT
3901585 T
1 T
3901586 ATACAAATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
6 1 0.02
7 49 0.88
8 6 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTATATT
Found at i:3901529 original size:5 final size:5
Alignment explanation
Indices: 3901503--3901577 Score: 50
Period size: 5 Copynumber: 15.6 Consensus size: 5
3901493 TTACCTGACA
* * * *
3901503 ATTAT ATTAA ATTAT ATTTT A-TATT ATT-T ATTAT ATTAA ATTAT ATTTT
1 ATTAT ATTAT ATTAT ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT
* * *
3901552 A-TAT TTTAT ATTTT A-TAT TTTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATT
3901578 TTATATTTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
4 9 0.18
5 41 0.80
6 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
ATTAT
Found at i:3901536 original size:12 final size:13
Alignment explanation
Indices: 3901507--3901577 Score: 62
Period size: 12 Copynumber: 5.7 Consensus size: 13
3901497 CTGACAATTA
*
3901507 TATTAAATTATAT
1 TATTATATTATAT
3901520 T-TTATATTAT-T
1 TATTATATTATAT
*
3901531 TATTATATTAAAT
1 TATTATATTATAT
*
3901544 TA-TATTTTATAT
1 TATTATATTATAT
3901556 T-TTATATTTTATAT
1 TATTATA--TTATAT
3901570 T-TTATATT
1 TATTATATT
3901578 TTATATTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
11 2 0.04
12 30 0.62
13 4 0.08
14 12 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:3901537 original size:19 final size:19
Alignment explanation
Indices: 3901513--3901584 Score: 71
Period size: 17 Copynumber: 3.8 Consensus size: 19
3901503 ATTATATTAA
3901513 ATTATATTTTATATTATTT
1 ATTATATTTTATATTATTT
*
3901532 ATTATA--TTAAATTATATT
1 ATTATATTTTATATTAT-TT
3901550 -TTATATTTTATATT-TTAT
1 ATTATATTTTATATTATT-T
3901568 ATTTTATATTTTATATT
1 A--TTATATTTTATATT
3901585 TATACAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
17 14 0.32
18 4 0.09
19 12 0.27
21 14 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTATATTTTATATTATTT
Found at i:3901543 original size:29 final size:29
Alignment explanation
Indices: 3901503--3901585 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
3901493 TTACCTGACA
3901503 ATTATATTAAATTATATTTTATATTATT-T
1 ATTATATTAAATTATATTTTATATT-TTAT
3901532 ATTATATTAAATTATATTTTATATTTTAT
1 ATTATATTAAATTATATTTTATATTTTAT
* **
3901561 ATTTTA-TATTTTATATTTTATATTT
1 ATTATATTAAATTATATTTTATATTT
3901586 ATACAAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
28 19 0.38
29 31 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
ATTATATTAAATTATATTTTATATTTTAT
Found at i:3901769 original size:20 final size:22
Alignment explanation
Indices: 3901746--3901804 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 22
3901736 TATATAAATT
3901746 ATAAATAAAATATAA-TATA-A
1 ATAAATAAAATATAATTATAGA
3901766 AT-AATATAAATATAATTATATGA
1 ATAAATA-AAATATAATTATA-GA
*
3901789 ATATATCAAAATATAA
1 ATAAAT-AAAATATAA
3901805 ATAGTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 4 0.12
20 10 0.31
21 4 0.12
23 3 0.09
24 10 0.31
25 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
ATAAATAAAATATAATTATAGA
Found at i:3901773 original size:14 final size:15
Alignment explanation
Indices: 3901750--3901804 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
3901740 TAAATTATAA
3901750 ATAA-AATATAATAT
1 ATAATAATATAATAT
3901764 A-AATAATATAA-AT
1 ATAATAATATAATAT
*
3901777 ATAATTATATGAATAT
1 ATAATAATAT-AATAT
3901793 ATCAA-AATATAA
1 AT-AATAATATAA
3901805 ATAGTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 5 0.15
14 15 0.44
15 4 0.12
16 8 0.24
17 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
ATAATAATATAATAT
Found at i:3901780 original size:11 final size:11
Alignment explanation
Indices: 3901737--3901781 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
3901727 TTTTATATTT
3901737 ATATAAATTATA
1 ATATAAA-TATA
3901749 A-ATAAAATATA
1 ATAT-AAATATA
3901760 ATAT-AA-ATA
1 ATATAAATATA
3901769 ATATAAATATA
1 ATATAAATATA
3901780 AT
1 AT
3901782 TATATGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
9 7 0.24
10 4 0.14
11 12 0.41
12 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAAATATA
Found at i:3902341 original size:12 final size:12
Alignment explanation
Indices: 3902312--3902386 Score: 59
Period size: 12 Copynumber: 6.2 Consensus size: 12
3902302 TACAAAAATA
*
3902312 ATTTTTTTTCTC
1 ATTTTCTTTCTC
3902324 --TTTCTTTCTC
1 ATTTTCTTTCTC
3902334 ATTTTCTTTCTC
1 ATTTTCTTTCTC
3902346 -TTTCTCTCTCTCTC
1 ATTT-TCT-T-TCTC
*
3902360 TTTTTCTTTC-C
1 ATTTTCTTTCTC
*
3902371 ATTTTCCTTTTTC
1 ATTTT-CTTTCTC
3902384 ATT
1 ATT
3902387 CTTTTCCTTC
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
10 9 0.17
11 8 0.15
12 19 0.37
13 6 0.12
14 7 0.13
15 3 0.06
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTCTTTCTC
Found at i:3902343 original size:22 final size:22
Alignment explanation
Indices: 3902312--3902355 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3902302 TACAAAAATA
* *
3902312 ATTTTTTTTCTCTTTCTTTCTC
1 ATTTTCTTTCTCTTTCTCTCTC
3902334 ATTTTCTTTCTCTTTCTCTCTC
1 ATTTTCTTTCTCTTTCTCTCTC
3902356 TCTCTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTTCTTTCTCTTTCTCTCTC
Found at i:3902365 original size:22 final size:21
Alignment explanation
Indices: 3902316--3902366 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
3902306 AAAATAATTT
*
3902316 TTTTTCTCTTTCTTTCTCATT
1 TTTTTCTCTTTCTTTCTCATC
3902337 TTCTTTCTCTTTCTCTCTCTC-TC
1 TT-TTTCTCTTTCT-T-TCTCATC
3902360 TTTTTCT
1 TTTTTCT
3902367 TTCCATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 16 0.62
23 4 0.15
24 4 0.15
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTCTCTTTCTTTCTCATC
Found at i:3903071 original size:25 final size:26
Alignment explanation
Indices: 3903010--3903072 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
3903000 GTGTTTGAAC
*
3903010 TTAAATATAAAATAATTATAAAGTATA
1 TTAAAT-TAAAATAATTATAAAGCATA
* * *
3903037 ATAAA-AAAAATAATTTTAAA-CATA
1 TTAAATTAAAATAATTATAAAGCATA
3903061 TTAAATTAAAAT
1 TTAAATTAAAAT
3903073 GTATATATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
24 7 0.24
25 18 0.62
27 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
TTAAATTAAAATAATTATAAAGCATA
Found at i:3903135 original size:20 final size:19
Alignment explanation
Indices: 3903106--3903206 Score: 55
Period size: 20 Copynumber: 5.0 Consensus size: 19
3903096 AATTTATATT
3903106 TATA-TTAAATAATAACAAA
1 TATATTTAAATAATAA-AAA
*
3903125 TATATTTAAATTAAATAAAAT
1 TATATTTAAA-T-AATAAAAA
*
3903146 TCATATTTGAA-AATAAAAAA
1 T-ATATTTAAATAAT-AAAAA
* **
3903166 TATAATTTATA-AATATAATT
1 TAT-ATTTAAATAATA-AAAA
3903186 TATATTTAAATTAAATAAAAA
1 TATATTTAAA-T-AATAAAAA
3903207 AAATAAGTGA
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
19 16 0.26
20 23 0.37
21 6 0.10
22 17 0.27
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (19 bp):
TATATTTAAATAATAAAAA
Found at i:3903151 original size:22 final size:21
Alignment explanation
Indices: 3903093--3903205 Score: 67
Period size: 22 Copynumber: 5.2 Consensus size: 21
3903083 AATAAATATC
*
3903093 TAAAATTTATATTTATATTAAATAA
1 TAAAA-TTATATTTAAATT--A-AA
*
3903118 TAACAAATATATTTAAATTAAA
1 TAA-AATTATATTTAAATTAAA
*
3903140 TAAAATTCATATTTGAAAAT-AA
1 TAAAATT-ATATTT-AAATTAAA
3903162 -AAAA-TATAATTT--A-TAAA
1 TAAAATTAT-ATTTAAATTAAA
*
3903179 TATAATTTATATTTAAATTAAA
1 TA-AAATTATATTTAAATTAAA
3903201 TAAAA
1 TAAAA
3903206 AAAATAAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 26
0.69 0.06 0.25
Matches are distributed among these distances:
16 1 0.01
17 3 0.04
18 1 0.01
19 8 0.11
20 8 0.11
21 10 0.14
22 19 0.27
23 5 0.07
25 14 0.20
26 2 0.03
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.41
Consensus pattern (21 bp):
TAAAATTATATTTAAATTAAA
Found at i:3903181 original size:13 final size:13
Alignment explanation
Indices: 3903163--3903189 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3903153 TGAAAATAAA
3903163 AAATATAATTTAT
1 AAATATAATTTAT
3903176 AAATATAATTTAT
1 AAATATAATTTAT
3903189 A
1 A
3903190 TTTAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATATAATTTAT
Found at i:3903206 original size:41 final size:44
Alignment explanation
Indices: 3903093--3903208 Score: 118
Period size: 39 Copynumber: 2.7 Consensus size: 44
3903083 AATAAATATC
*
3903093 TAAAATTTATATTTATATTAAATAATAACAAATATATTTAAATTAAA
1 TAAAATTTATATTTAAATTAAATAA-AA-AAATATATTT-AATTAAA
* *
3903140 TAAAATTCATATTT-GA--AAAT-AAAAAATATAATTT-A-TAAA
1 TAAAATTTATATTTAAATTAAATAAAAAAATAT-ATTTAATTAAA
*
3903179 TATAATTTATATTTAAATTAAATAAAAAAA
1 TAAAATTTATATTTAAATTAAATAAAAAAA
3903209 ATAAGTGAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
39 16 0.27
40 2 0.03
41 6 0.10
42 10 0.17
43 7 0.12
44 4 0.07
46 1 0.02
47 13 0.22
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.40
Consensus pattern (44 bp):
TAAAATTTATATTTAAATTAAATAAAAAAATATATTTAATTAAA
Found at i:3903408 original size:32 final size:32
Alignment explanation
Indices: 3903372--3903444 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
3903362 TTATGTGATT
3903372 AAATTTAATATTAATTTTTATAAAAATTATAA
1 AAATTTAATATTAATTTTTATAAAAATTATAA
3903404 AAATTTAATATTAATTTTTATAAAAATTATAA
1 AAATTTAATATTAATTTTTATAAAAATTATAA
3903436 AAATTTAAT
1 AAATTTAAT
3903445 TTTATTAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
AAATTTAATATTAATTTTTATAAAAATTATAA
Found at i:3903411 original size:26 final size:26
Alignment explanation
Indices: 3903382--3903473 Score: 82
Period size: 32 Copynumber: 3.4 Consensus size: 26
3903372 AAATTTAATA
3903382 TTAATTTTTATAAAAATTATAAAAATTTAAT
1 TTAATTTTTATAAAAATTAT--AAA---AAT
3903413 ATTAATTTTTATAAAAATTATAAAAAT
1 -TTAATTTTTATAAAAATTATAAAAAT
* *
3903440 TTAA-TTTTAT-TAAATTAT-ATAAT
1 TTAATTTTTATAAAAATTATAAAAAT
*
3903463 TAAATTTTTAT
1 TTAATTTTTAT
3903474 TATTAATAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
23 7 0.12
24 13 0.23
25 6 0.11
26 4 0.07
27 3 0.05
30 3 0.05
32 20 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAATTTTTATAAAAATTATAAAAAT
Found at i:3903471 original size:24 final size:24
Alignment explanation
Indices: 3903416--3903496 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
3903406 ATTTAATATT
* * *
3903416 AATTTTTATAAAAATTATAAAAATTT
1 AATTTTTAT-TAAATTAT-ATAATTA
3903442 AA-TTTTATTAAATTATATAATTA
1 AATTTTTATTAAATTATATAATTA
3903465 AATTTTTATT--ATTA-ATAAATTA
1 AATTTTTATTAAATTATAT-AATTA
3903487 AATTATTTAT
1 AATT-TTTAT
3903497 GTTATTTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 2 0.04
22 13 0.27
23 12 0.24
24 14 0.29
25 6 0.12
26 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
AATTTTTATTAAATTATATAATTA
Found at i:3903478 original size:22 final size:23
Alignment explanation
Indices: 3903436--3903496 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
3903426 AAAATTATAA
*
3903436 AAATTTAA-TTTTATTAAATT-AT
1 AAATTAAATTTTTATT-AATTAAT
3903458 ATAATTAAATTTTTATT-ATTAAT
1 A-AATTAAATTTTTATTAATTAAT
3903481 AAATTAAATTATTTAT
1 AAATTAAATT-TTTAT
3903497 GTTATTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 13 0.38
23 14 0.41
24 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AAATTAAATTTTTATTAATTAAT
Found at i:3903579 original size:37 final size:37
Alignment explanation
Indices: 3903538--3903608 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
3903528 AATTCAATAT
*
3903538 ATATACATAGTTTAATTTTTACTATAATATCTTACAG
1 ATATACATAGATTAATTTTTACTATAATATCTTACAG
3903575 ATATACATAGATTAATTTTTACTATAATATCTTA
1 ATATACATAGATTAATTTTTACTATAATATCTTA
3903609 TGGACATACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.46
Consensus pattern (37 bp):
ATATACATAGATTAATTTTTACTATAATATCTTACAG
Found at i:3903618 original size:37 final size:37
Alignment explanation
Indices: 3903540--3903619 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
3903530 TTCAATATAT
* *
3903540 ATACATAGTTTAATTTTTACTATAATATCTTACAGAT
1 ATACATAGATTAATTTTTACTATAATATCTTACAGAC
**
3903577 ATACATAGATTAATTTTTACTATAATATCTTATGGAC
1 ATACATAGATTAATTTTTACTATAATATCTTACAGAC
3903614 ATACAT
1 ATACAT
3903620 CACGTTTGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (37 bp):
ATACATAGATTAATTTTTACTATAATATCTTACAGAC
Found at i:3903748 original size:19 final size:18
Alignment explanation
Indices: 3903713--3903773 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
3903703 TAAGTAATAT
3903713 AATTTA-ATTTAATTAAA
1 AATTTATATTTAATTAAA
* *
3903730 TATTTATATTTTATATAAA
1 AATTTATATTTAAT-TAAA
* * *
3903749 AATTAATATTAAATTTAAT
1 AATTTATATTTAA-TTAAA
3903768 AATTTA
1 AATTTA
3903774 AAATATAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 5 0.15
18 6 0.18
19 21 0.64
20 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTATATTTAATTAAA
Found at i:3903981 original size:2 final size:2
Alignment explanation
Indices: 3903976--3904007 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3903966 TTTTTTCTTT
3903976 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
3904008 AGACTAAATT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3904093 original size:25 final size:23
Alignment explanation
Indices: 3904048--3904093 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
3904038 TGCAAGTGAC
**
3904048 AAAAAAATTCAATATTTTTTTTA
1 AAAAAAATTCAATATCATTTTTA
3904071 AAAAAATATTTCAATATCATTTT
1 AAAAAA-A-TTCAATATCATTTT
3904094 CAAGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 1 0.05
25 12 0.63
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (23 bp):
AAAAAAATTCAATATCATTTTTA
Found at i:3904217 original size:26 final size:26
Alignment explanation
Indices: 3904188--3904243 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
3904178 TATTATGAAA
*
3904188 AAAAAAAGTTAAA-ATTAAAATTTATT
1 AAAAAAA-TTAAATATTAAAATATATT
* *
3904214 AAAACAATTAAATTTTAAAATATATT
1 AAAAAAATTAAATATTAAAATATATT
3904240 AAAA
1 AAAA
3904244 TTATATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
AAAAAAATTAAATATTAAAATATATT
Found at i:3904321 original size:24 final size:23
Alignment explanation
Indices: 3904266--3904323 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
3904256 CAAATAGTAA
* * *
3904266 GTAAAAATTATTAAATTATATTT
1 GTAAAAATAATTAAAATATATAT
*
3904289 GTATCAAATAATTAAAATATATAT
1 GTA-AAAATAATTAAAATATATAT
3904313 GTCAAAAATAA
1 GT-AAAAATAA
3904324 ATTTAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.11
24 24 0.86
25 1 0.04
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (23 bp):
GTAAAAATAATTAAAATATATAT
Found at i:3904356 original size:21 final size:21
Alignment explanation
Indices: 3904316--3904372 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
3904306 TATATATGTC
*
3904316 AAAAATAAAT--T-TAAATTT
1 AAAAATAAATAATATAAAATT
3904334 AAAAATAAATAATATAAAATT
1 AAAAATAAATAATATAAAATT
3904355 -AAAATAAATAA-ATAAAAT
1 AAAAATAAATAATATAAAAT
3904373 AAACATATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 10 0.29
19 7 0.20
20 12 0.34
21 6 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATAAATAATATAAAATT
Found at i:3905620 original size:26 final size:26
Alignment explanation
Indices: 3905557--3905622 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
3905547 TTTATTAGTA
*
3905557 AATA-TTTTAATATATTTTTTAAAATT
1 AATATTTTTAATA-ATATTTTAAAATT
* * * *
3905583 ATTATATATAATAATATTTTAAATTT
1 AATATTTTTAATAATATTTTAAAATT
3905609 AATATTTTTAATAA
1 AATATTTTTAATAA
3905623 ATTAGTAACG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATATTTTTAATAATATTTTAAAATT
Found at i:3905670 original size:18 final size:18
Alignment explanation
Indices: 3905647--3905686 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3905637 TTAAAGTTTT
3905647 TAATATT-TGTATTTAATA
1 TAATATTAT-TATTTAATA
3905665 TAATATTATTATTTAATA
1 TAATATTATTATTTAATA
3905683 -AATA
1 TAATA
3905687 ATATATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 16 0.76
19 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TAATATTATTATTTAATA
Found at i:3907151 original size:20 final size:21
Alignment explanation
Indices: 3907111--3907152 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3907101 TACAGGAAAT
* *
3907111 AAAATTAAGGAAAACATGTGA
1 AAAATTAAAGAAAACAAGTGA
3907132 AAAATTAAAGAAAA-AAGTGA
1 AAAATTAAAGAAAACAAGTGA
3907152 A
1 A
3907153 TATTTTTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.64, C:0.02, G:0.17, T:0.17
Consensus pattern (21 bp):
AAAATTAAAGAAAACAAGTGA
Found at i:3907264 original size:18 final size:17
Alignment explanation
Indices: 3907201--3907259 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
3907191 TTTTTTTAAA
*
3907201 AATAATTTTA-TTAATT
1 AATAATATTATTTAATT
3907217 AAATTAATATTATTTAATTT
1 -AA-TAATATTATTTAA-TT
3907237 AA-AATATTAATTTAATT
1 AATAATATT-ATTTAATT
3907254 AATAAT
1 AATAAT
3907260 TTTAAATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 12 0.33
18 16 0.44
19 6 0.17
20 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATAATATTATTTAATT
Found at i:3909361 original size:17 final size:18
Alignment explanation
Indices: 3909318--3909362 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
3909308 TATTATTTTT
*
3909318 TATTTTTAATATAAAATA
1 TATTTTAAATATAAAATA
* *
3909336 AATTATAAATAT-AAATA
1 TATTTTAAATATAAAATA
3909353 TATTTTAAAT
1 TATTTTAAAT
3909363 GAATTAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTTAAATATAAAATA
Found at i:3909818 original size:2 final size:2
Alignment explanation
Indices: 3909811--3909847 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3909801 TCAACCATAC
3909811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3909848 AAGGGTGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3910497 original size:2 final size:2
Alignment explanation
Indices: 3910490--3910514 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3910480 CAGCTAATAC
3910490 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3910515 CCCTTAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3915424 original size:13 final size:14
Alignment explanation
Indices: 3915406--3915436 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3915396 ATAAAATTTG
3915406 AAATTAA-TTTTTA
1 AAATTAATTTTTTA
3915419 AAATTAATTTTTTA
1 AAATTAATTTTTTA
3915433 AAAT
1 AAAT
3915437 AAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATTAATTTTTTA
Found at i:3915558 original size:11 final size:11
Alignment explanation
Indices: 3915542--3915587 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
3915532 TTTTAAATTG
3915542 ATTTAATTATA
1 ATTTAATTATA
*
3915553 ATTTAATAATA
1 ATTTAATTATA
**
3915564 ATTTTTTTATAA
1 ATTTAATTAT-A
3915576 ATTTAATTATA
1 ATTTAATTATA
3915587 A
1 A
3915588 AAATTAACAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTTAATTATA
Found at i:3915562 original size:34 final size:34
Alignment explanation
Indices: 3915523--3915587 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
3915513 AATTAATTCA
**
3915523 AATAATAACTTTTAAATTGATTTAATTATAATTT
1 AATAATAACTTTTAAATAAATTTAATTATAATTT
* **
3915557 AATAATAATTTTTTTATAAATTTAATTATAA
1 AATAATAACTTTTAAATAAATTTAATTATAA
3915588 AAATTAACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (34 bp):
AATAATAACTTTTAAATAAATTTAATTATAATTT
Found at i:3925266 original size:17 final size:18
Alignment explanation
Indices: 3925244--3925282 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
3925234 AATTAATTTG
3925244 ATTAAAAAAT-ATTTAAA
1 ATTAAAAAATGATTTAAA
3925261 ATT--AAAATGATTTAAA
1 ATTAAAAAATGATTTAAA
3925277 ATTAAA
1 ATTAAA
3925283 TTGTCTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
15 5 0.26
16 10 0.53
17 3 0.16
18 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATTAAAAAATGATTTAAA
Found at i:3925267 original size:15 final size:16
Alignment explanation
Indices: 3925249--3925282 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3925239 ATTTGATTAA
3925249 AAAAT-ATTTAAAATT
1 AAAATGATTTAAAATT
3925264 AAAATGATTTAAAATT
1 AAAATGATTTAAAATT
3925280 AAA
1 AAA
3925283 TTGTCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AAAATGATTTAAAATT
Found at i:3925822 original size:14 final size:14
Alignment explanation
Indices: 3925803--3925860 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
3925793 AAAATTAAAA
3925803 AATATTTTTATATT
1 AATATTTTTATATT
3925817 AATATTTTTATAATT
1 AATATTTTTAT-ATT
**
3925832 AA-ATTTAAATA-T
1 AATATTTTTATATT
*
3925844 AATATTTTTTTATT
1 AATATTTTTATATT
3925858 AAT
1 AAT
3925861 TAAATTATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 21 0.58
15 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATATTTTTATATT
Found at i:3925850 original size:27 final size:29
Alignment explanation
Indices: 3925816--3925875 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
3925806 ATTTTTATAT
3925816 TAATA-TTTTTA-TAATTAAATT-TAAATA
1 TAATATTTTTTATTAATTAAATTAT-AATA
3925843 TAATATTTTTTTATTAATTAAATTATAATA
1 TAATA-TTTTTTATTAATTAAATTATAATA
3925873 TAA
1 TAA
3925876 ATTATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 5 0.17
29 6 0.21
30 17 0.59
31 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TAATATTTTTTATTAATTAAATTATAATA
Found at i:3926111 original size:15 final size:16
Alignment explanation
Indices: 3926063--3926111 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
3926053 TCTTTTACAT
*
3926063 TTAATATATTAATTTA
1 TTAATATATAAATTTA
**
3926079 TT-ATATATAAATACA
1 TTAATATATAAATTTA
3926094 TTAAT-TATAAATTTA
1 TTAATATATAAATTTA
3926109 TTA
1 TTA
3926112 TTTTTAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATATATAAATTTA
Found at i:3937052 original size:2 final size:2
Alignment explanation
Indices: 3937047--3937072 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3937037 ATATATACAC
3937047 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
3937073 TCAGTCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3938494 original size:2 final size:2
Alignment explanation
Indices: 3938487--3938511 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3938477 CTTATTCGAT
3938487 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3938512 GAAATTGGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3942911 original size:2 final size:2
Alignment explanation
Indices: 3942904--3942929 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3942894 AATTTCAGTG
3942904 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
3942930 TAAACGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3943103 original size:6 final size:6
Alignment explanation
Indices: 3943094--3943118 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3943084 TATATTTTAT
3943094 AATTAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA AATTAA A
3943119 TATTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:3943618 original size:15 final size:16
Alignment explanation
Indices: 3943593--3943626 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3943583 TGATATTTTA
3943593 AATTAAAATTTAATCT
1 AATTAAAATTTAATCT
*
3943609 AATT-AAATTTAATTT
1 AATTAAAATTTAATCT
3943624 AAT
1 AAT
3943627 CAATAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAAAATTTAATCT
Found at i:3944577 original size:19 final size:21
Alignment explanation
Indices: 3944538--3944577 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3944528 TATTAAAAAA
*
3944538 ATATATTTTATAATATTATTT
1 ATATATTTTATAATATAATTT
3944559 ATAT-TTTTATAAT-TAATTT
1 ATATATTTTATAATATAATTT
3944578 TAAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATATTTTATAATATAATTT
Found at i:3944915 original size:18 final size:16
Alignment explanation
Indices: 3944874--3944920 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
3944864 TTTAAAAATG
3944874 TTTAATTATATTTATT
1 TTTAATTATATTTATT
* *
3944890 TTT-TTTATGTTGTATAT
1 TTTAATTATATT-TAT-T
3944907 TTTAATTATATTTA
1 TTTAATTATATTTA
3944921 AAATTATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
15 6 0.25
16 6 0.25
17 6 0.25
18 6 0.25
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
TTTAATTATATTTATT
Found at i:3946368 original size:15 final size:15
Alignment explanation
Indices: 3946345--3946379 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3946335 AAAAAATAAT
*
3946345 ATTTA-ATAAATTTA
1 ATTTATATAAATTAA
3946359 ATTTATATAAATTAA
1 ATTTATATAAATTAA
3946374 ATTTAT
1 ATTTAT
3946380 TAATCATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTATATAAATTAA
Found at i:3946910 original size:2 final size:2
Alignment explanation
Indices: 3946903--3946928 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3946893 TTCCAATTAA
3946903 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
3946929 ATATAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:3949561 original size:78 final size:80
Alignment explanation
Indices: 3949475--3949639 Score: 235
Period size: 78 Copynumber: 2.0 Consensus size: 80
3949465 TAGAATAATG
* *
3949475 TTGAAATATTATCAATCATAAAATAAAAGATTTTAGAGAC-ATAAGTGAATGATT-AAAAAAAAA
1 TTGAAATATTATCAATCATAAAATAAAAGATTTTAAAGACAATAAGAGAATGATTAAAAAAAAAA
* *
3949538 GTTTATTCATCTGTC
66 GCTTATTCATCTATC
* *
3949553 TTGAAATATTATCAATTATAAAATAAAAGATTTTAAAGACAATATAAGAGCATGATTAAAAAAAA
1 TTGAAATATTATCAATCATAAAATAAAAGATTTTAAAGAC-A-ATAAGAGAATGATT-AAAAAAA
3949618 AAAGCTTATTCATCTATC
63 AAAGCTTATTCATCTATC
3949636 TTGA
1 TTGA
3949640 TGTAAAAAGT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
78 38 0.50
81 12 0.16
83 26 0.34
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (80 bp):
TTGAAATATTATCAATCATAAAATAAAAGATTTTAAAGACAATAAGAGAATGATTAAAAAAAAAA
GCTTATTCATCTATC
Found at i:3950924 original size:38 final size:38
Alignment explanation
Indices: 3950869--3950944 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
3950859 AATGTATTTA
*
3950869 TCTTTTCTTTTTCAGAGGAAGATATTTTTTGAAAAATG
1 TCTTTTCTTTTTAAGAGGAAGATATTTTTTGAAAAATG
3950907 TCTTTTCTTTTTAAGAGGAAGATATTTTTTGAAAAATG
1 TCTTTTCTTTTTAAGAGGAAGATATTTTTTGAAAAATG
3950945 CTCCTTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (38 bp):
TCTTTTCTTTTTAAGAGGAAGATATTTTTTGAAAAATG
Found at i:3950992 original size:27 final size:27
Alignment explanation
Indices: 3950962--3951047 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
3950952 TTAATTTGAA
3950962 TTAAATATTATTATTAATAATATAATT
1 TTAAATATTATTATTAATAATATAATT
* ** *
3950989 TTAATTAAGAATATTAAT-ATATTAA-T
1 TTAAATATTATTATTAATAATA-TAATT
*
3951015 ATAAA-ATTATT-TTAATAATATAATT
1 TTAAATATTATTATTAATAATATAATT
*
3951040 TTTAATAT
1 TTAAATAT
3951048 GTATATTTTG
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
24 8 0.18
25 10 0.23
26 9 0.20
27 17 0.39
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (27 bp):
TTAAATATTATTATTAATAATATAATT
Found at i:3950995 original size:31 final size:35
Alignment explanation
Indices: 3950953--3951015 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 35
3950943 TGCTCCTTAT
3950953 TAATTTGAATT-A-AATATT-AT-TATTAATAATA
1 TAATTTGAATTAAGAATATTAATATATTAATAATA
*
3950984 TAATTTTAATTAAGAATATTAATATATTAATA
1 TAATTTGAATTAAGAATATTAATATATTAATA
3951016 TAAAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 10 0.37
32 1 0.04
33 6 0.22
34 2 0.07
35 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (35 bp):
TAATTTGAATTAAGAATATTAATATATTAATAATA
Found at i:3951361 original size:25 final size:23
Alignment explanation
Indices: 3951309--3951364 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
3951299 GTAAACATTT
* *
3951309 AATAATAA-ATTTTTATATATAA
1 AATATTAATATTTTGATATATAA
3951331 AA-ATTAATATTTTGATATTATAGA
1 AATATTAATATTTTGATA-TATA-A
3951355 AATATTAATA
1 AATATTAATA
3951365 AAAATAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.14
22 10 0.36
23 4 0.14
24 3 0.11
25 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
AATATTAATATTTTGATATATAA
Found at i:3951653 original size:17 final size:17
Alignment explanation
Indices: 3951601--3951654 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
3951591 AAAATTAGAA
* *
3951601 AATAATATTGTAATAGT
1 AATAATATTTTAATAAT
*
3951618 AAT--TATATTAAT-AT
1 AATAATATTTTAATAAT
3951632 AAATAATATTTTAATAAT
1 -AATAATATTTTAATAAT
3951650 AATAA
1 AATAA
3951655 AATATTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 1 0.03
15 10 0.34
17 16 0.55
18 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
AATAATATTTTAATAAT
Found at i:3951926 original size:36 final size:33
Alignment explanation
Indices: 3951856--3951926 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
3951846 AATAAAAAAT
* ** *
3951856 ATTAAAATAATTTTTTAAAATTTAAATATTTAA
1 ATTAAAAAAATTTTTTAAAATCGAAATATATAA
3951889 ATTAAAAAAATTTATTTATAAATCGAATATATATAA
1 ATTAAAAAAATTT-TTTA-AAATCGAA-ATATATAA
3951925 AT
1 AT
3951927 AAAGCCATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
33 12 0.39
34 4 0.13
35 6 0.19
36 9 0.29
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (33 bp):
ATTAAAAAAATTTTTTAAAATCGAAATATATAA
Found at i:3952364 original size:2 final size:2
Alignment explanation
Indices: 3952357--3952406 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
3952347 TATTTAGAAA
3952357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3952399 AT AT AT AT
1 AT AT AT AT
3952407 CAATGTAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3954918 original size:15 final size:16
Alignment explanation
Indices: 3954868--3954919 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
3954858 TTTTCGTAAT
*
3954868 TTTAAGTTATTTTATA-
1 TTTAAATTATTTTA-AG
* *
3954884 TTTAGATTATTTTGAG
1 TTTAAATTATTTTAAG
3954900 TTTAAATTA-TTTAAG
1 TTTAAATTATTTTAAG
3954915 TTTAA
1 TTTAA
3954920 CACTCGGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
TTTAAATTATTTTAAG
Found at i:3955846 original size:11 final size:12
Alignment explanation
Indices: 3955819--3955854 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
3955809 TAAATCAGTA
3955819 AAAATTATTTAT
1 AAAATTATTTAT
*
3955831 AAAATT-TTTTT
1 AAAATTATTTAT
3955842 AAAATTATTTAT
1 AAAATTATTTAT
3955854 A
1 A
3955855 TTTGATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AAAATTATTTAT
Found at i:3955962 original size:12 final size:12
Alignment explanation
Indices: 3955945--3955969 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3955935 TTAATTATAT
3955945 TTAATATTTAAA
1 TTAATATTTAAA
3955957 TTAATATTTAAA
1 TTAATATTTAAA
3955969 T
1 T
3955970 ATTTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAATATTTAAA
Found at i:3955965 original size:19 final size:19
Alignment explanation
Indices: 3955937--3955973 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3955927 ATTAATTATT
3955937 AATTATATTT-AATATTTA
1 AATTATATTTAAATATTTA
3955955 AATTAATATTTAAATATTT
1 AATT-ATATTTAAATATTT
3955974 TAAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTATATTTAAATATTTA
Found at i:3955986 original size:22 final size:19
Alignment explanation
Indices: 3955941--3955986 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
3955931 ATTATTAATT
*
3955941 ATATTTAATATTTAAATTA
1 ATATTTAATATTTAAAATA
3955960 ATATTTAAATATTTTAAAAATA
1 ATATTT-AATA-TTT-AAAATA
3955982 ATATT
1 ATATT
3955987 ATCAAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 4 0.17
21 3 0.13
22 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTTAATATTTAAAATA
Found at i:3959059 original size:16 final size:16
Alignment explanation
Indices: 3959040--3959130 Score: 55
Period size: 16 Copynumber: 5.7 Consensus size: 16
3959030 AGTTAATTAT
3959040 AATTATTAAAAATTTA
1 AATTATTAAAAATTTA
* *
3959056 AATTTTTATAAATTTTA
1 AATTATTA-AAAATTTA
*
3959073 CATTA--AATTAAATTTA
1 AATTATTAA--AAATTTA
3959089 AATTA-T-AAAATTTA
1 AATTATTAAAAATTTA
* *
3959103 TATTATTTAAATATTTA
1 AATTA-TTAAAAATTTA
* *
3959120 ATTTTTTAAAA
1 AATTATTAAAA
3959131 TTAATTCATT
Statistics
Matches: 56, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
14 12 0.21
15 1 0.02
16 24 0.43
17 19 0.34
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTATTAAAAATTTA
Found at i:3961872 original size:19 final size:18
Alignment explanation
Indices: 3961836--3961877 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
3961826 TTTTTTTTAA
*
3961836 ATATTCATGTTTAAATTT
1 ATATTCATATTTAAATTT
*
3961854 ATATTCGATATTTATATTT
1 ATATTC-ATATTTAAATTT
3961873 ATATT
1 ATATT
3961878 TAAAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
ATATTCATATTTAAATTT
Found at i:3961979 original size:31 final size:30
Alignment explanation
Indices: 3961923--3961982 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
3961913 ATAAAATATA
*
3961923 ATTTTTTAAAAAAATTTCACATATATAAAT
1 ATTTTTTAAAAAAATTTAACATATATAAAT
*
3961953 ATTTTTTAAAAAAATTTAAGCGTATATAAA
1 ATTTTTTAAAAAAATTTAA-CATATATAAA
3961983 AAAGTCTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (30 bp):
ATTTTTTAAAAAAATTTAACATATATAAAT
Found at i:3962007 original size:19 final size:19
Alignment explanation
Indices: 3961983--3962020 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3961973 CGTATATAAA
3961983 AAAGTCTGAGTAAAATAGG
1 AAAGTCTGAGTAAAATAGG
3962002 AAAGTCTGAGTAAAATAGG
1 AAAGTCTGAGTAAAATAGG
3962021 TTGGAGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.26, T:0.21
Consensus pattern (19 bp):
AAAGTCTGAGTAAAATAGG
Found at i:3964883 original size:28 final size:27
Alignment explanation
Indices: 3964844--3964896 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
3964834 TATTTTATTT
* *
3964844 TTTTTAAATATTTTTAACTATAAAATTA
1 TTTTTAAATATTATTAAAT-TAAAATTA
*
3964872 TTTTTAATTATTATTAAATTAAAAT
1 TTTTTAAATATTATTAAATTAAAAT
3964897 ATAATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTTTAAATATTATTAAATTAAAATTA
Found at i:3965494 original size:16 final size:16
Alignment explanation
Indices: 3965473--3965504 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3965463 AATGAGAATA
*
3965473 TAATTTAATAATAATT
1 TAATTTAACAATAATT
3965489 TAATTTAACAATAATT
1 TAATTTAACAATAATT
3965505 AAAGATAGTT
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTAACAATAATT
Found at i:3968954 original size:20 final size:20
Alignment explanation
Indices: 3968929--3968967 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3968919 TTTTTAAAAA
3968929 TTTAAATAA-AAATATTAAAT
1 TTTAAA-AATAAATATTAAAT
*
3968949 TTTAAAAATAAATTTTAAA
1 TTTAAAAATAAATATTAAA
3968968 AAAATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAAAAATAAATATTAAAT
Found at i:3968960 original size:13 final size:13
Alignment explanation
Indices: 3968944--3968969 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3968934 ATAAAAATAT
3968944 TAAATTTTAAAAA
1 TAAATTTTAAAAA
3968957 TAAATTTTAAAAA
1 TAAATTTTAAAAA
3968970 AATTAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATTTTAAAAA
Found at i:3976580 original size:29 final size:28
Alignment explanation
Indices: 3976521--3976586 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
3976511 TTTATATAAA
* *
3976521 AATATAA-AAAATATTAAATATGATTAT
1 AATATAATAAAATATTAAATATGAATAG
3976548 AATATAATAAAATATATAAATAT-AATACG
1 AATATAATAAAATAT-TAAATATGAATA-G
3976577 AATAT-ATAAA
1 AATATAATAAA
3976587 TTGAGAGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 7 0.21
28 15 0.44
29 12 0.35
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (28 bp):
AATATAATAAAATATTAAATATGAATAG
Found at i:3976582 original size:19 final size:18
Alignment explanation
Indices: 3976548--3976587 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
3976538 ATATGATTAT
3976548 AATATAATAAAATATATA
1 AATATAATAAAATATATA
*
3976566 AATATAATACGAATATATA
1 AATATAATA-AAATATATA
3976585 AAT
1 AAT
3976588 TGAGAGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
AATATAATAAAATATATA
Found at i:3978117 original size:2 final size:2
Alignment explanation
Indices: 3978110--3978165 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
3978100 CAACTTAAAA
3978110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3978152 AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT
3978166 TGAAAACGAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3978280 original size:14 final size:14
Alignment explanation
Indices: 3978247--3978273 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3978237 AGTTCATGTC
3978247 AAAATTAAATTAAT
1 AAAATTAAATTAAT
3978261 AAAATTAAATTAA
1 AAAATTAAATTAA
3978274 AAGAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATTAAATTAAT
Found at i:3978654 original size:16 final size:16
Alignment explanation
Indices: 3978620--3978654 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3978610 TCGTTTTAAG
*
3978620 TTCAGATCATTTAGGA
1 TTCAGATCATTTAGAA
*
3978636 TTCAGATCATTTCGAA
1 TTCAGATCATTTAGAA
3978652 TTC
1 TTC
3978655 GGGTCAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (16 bp):
TTCAGATCATTTAGAA
Found at i:3980125 original size:12 final size:12
Alignment explanation
Indices: 3980100--3980137 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3980090 TGATACGAAT
*
3980100 ATAATATATTAA
1 ATAATATAATAA
3980112 ATAAATATAA-AA
1 AT-AATATAATAA
3980124 ATAATATAATAA
1 ATAATATAATAA
3980136 AT
1 AT
3980138 GTGACATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 7 0.30
12 10 0.43
13 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAATATAATAA
Found at i:3981129 original size:23 final size:23
Alignment explanation
Indices: 3981088--3981131 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3981078 TCATATTCAT
* *
3981088 ATTATTTTTTGTGTCATGTTTTA
1 ATTATTTTTTATATCATGTTTTA
*
3981111 ATTATTTTTTATATTATGTTT
1 ATTATTTTTTATATCATGTTT
3981132 GTATCGTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (23 bp):
ATTATTTTTTATATCATGTTTTA
Found at i:3981332 original size:29 final size:30
Alignment explanation
Indices: 3981269--3981332 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
3981259 ATTCAATACA
3981269 TTATATAAATTTTCACATGTTAATAATTTTT
1 TTATATAAATTTTCACATGTT-ATAATTTTT
*
3981300 TTATATAAATTTTGACATGTT-T-ATTTTAT
1 TTATATAAATTTTCACATGTTATAATTTT-T
3981329 TTAT
1 TTAT
3981333 GTTATATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 5 0.16
29 6 0.19
31 20 0.65
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (30 bp):
TTATATAAATTTTCACATGTTATAATTTTT
Found at i:3981745 original size:2 final size:2
Alignment explanation
Indices: 3981738--3981780 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
3981728 TACATCTATC
*
3981738 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3981778 AT A
1 AT A
3981781 ATTTTCGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3985831 original size:3 final size:3
Alignment explanation
Indices: 3985823--3985863 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
3985813 TTCTTTGTAA
3985823 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3985864 AACAAGACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3992843 original size:13 final size:14
Alignment explanation
Indices: 3992811--3992845 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
3992801 ATCAATTTTT
3992811 TTTTTGTTTTGATAG
1 TTTTT-TTTTGATAG
*
3992826 TTTTTTTTTGTTAG
1 TTTTTTTTTGATAG
3992840 TTTTTT
1 TTTTTT
3992846 GTTATGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTGATAG
Found at i:3992844 original size:15 final size:16
Alignment explanation
Indices: 3992810--3992848 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
3992800 TATCAATTTT
3992810 TTTTTTGTTTTGATAG
1 TTTTTTGTTTTGATAG
*
3992826 -TTTTT-TTTTGTTAG
1 TTTTTTGTTTTGATAG
3992840 TTTTTTGTT
1 TTTTTTGTT
3992849 ATGCAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 8 0.40
15 10 0.50
16 2 0.10
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (16 bp):
TTTTTTGTTTTGATAG
Found at i:4004154 original size:2 final size:2
Alignment explanation
Indices: 4004141--4004209 Score: 102
Period size: 2 Copynumber: 34.5 Consensus size: 2
4004131 GCAGCAAGTT
* *
4004141 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4004183 TA TA TA TA TG TA TA TA CA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4004210 TAGATTGACT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4006269 original size:6 final size:6
Alignment explanation
Indices: 4006258--4006292 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
4006248 CAATCAAAGC
* *
4006258 AATCTG AATCTG AATCTG AATCTA AATCTA AATCT
1 AATCTG AATCTG AATCTG AATCTG AATCTG AATCT
4006293 CCTTCTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (6 bp):
AATCTG
Found at i:4012984 original size:2 final size:2
Alignment explanation
Indices: 4012979--4013015 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4012969 AAAAACAAAA
4012979 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4013016 ACAAAGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4013316 original size:15 final size:14
Alignment explanation
Indices: 4013291--4013323 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4013281 TTTTTAATTA
4013291 TAATATTATATATT
1 TAATATTATATATT
*
4013305 TAATATT-TATATA
1 TAATATTATATATT
4013318 TAATAT
1 TAATAT
4013324 AAATTACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATATTATATATT
Found at i:4018662 original size:33 final size:33
Alignment explanation
Indices: 4018616--4018682 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
4018606 AAAAAGAGAA
4018616 AATGTATGCCCAGATAGTGAATTTAATATCAAT
1 AATGTATGCCCAGATAGTGAATTTAATATCAAT
* *
4018649 AATGTATGTCCAGATAGTGAATTTAGTATCAAT
1 AATGTATGCCCAGATAGTGAATTTAATATCAAT
4018682 A
1 A
4018683 TCAATAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.34
Consensus pattern (33 bp):
AATGTATGCCCAGATAGTGAATTTAATATCAAT
Found at i:4027671 original size:79 final size:79
Alignment explanation
Indices: 4027540--4027697 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
4027530 CAACACATAT
4027540 TAAACAAGGAATCTCTGGCATCAGTAATTTGAATAAGCTAAAGGAAGAAAGCCAAATAAAATACA
1 TAAACAAGGAATCTCTGGCATCAGTAATTTGAATAAGCTAAAGGAAGAAAGCCAAATAAAATACA
4027605 TGGAAAGAGTAGAA
66 TGGAAAGAGTAGAA
*
4027619 TAAACAAGGAATCTCTGGCATCAGTAATTTGAATAAGCTAAAGGGAGAAAGCCAAATAAAATACA
1 TAAACAAGGAATCTCTGGCATCAGTAATTTGAATAAGCTAAAGGAAGAAAGCCAAATAAAATACA
4027684 TGGAAAGAGTAGAA
66 TGGAAAGAGTAGAA
4027698 GCACCATCCT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (79 bp):
TAAACAAGGAATCTCTGGCATCAGTAATTTGAATAAGCTAAAGGAAGAAAGCCAAATAAAATACA
TGGAAAGAGTAGAA
Found at i:4029565 original size:2 final size:2
Alignment explanation
Indices: 4029558--4029582 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4029548 AATAGCAGCA
4029558 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4029583 TGGAGGGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4034758 original size:27 final size:28
Alignment explanation
Indices: 4034728--4034803 Score: 65
Period size: 27 Copynumber: 2.9 Consensus size: 28
4034718 AAATTATGTT
4034728 ATTTATAATTAAATTTAAATAAAAT-TA
1 ATTTATAATTAAATTTAAATAAAATATA
*
4034755 ATTT-TTATT--ATTTAAATAATAATATA
1 ATTTATAATTAAATTTAAATAA-AATATA
* *
4034781 AATTA-AA-TAAATTTTAATCAAAA
1 ATTTATAATTAAATTTAAAT-AAAA
4034804 ATATTTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
24 10 0.26
25 4 0.10
26 10 0.26
27 13 0.33
28 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTATAATTAAATTTAAATAAAATATA
Found at i:4034766 original size:36 final size:36
Alignment explanation
Indices: 4034687--4034795 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 36
4034677 TAATATTTTA
* *
4034687 TTTTATTATATAAAATAATAGTATAAAT-AAA-AAA-
1 TTTTATTAT-TTAAATAATAATATAAATAAAATAAAT
* * * * *
4034721 TTATGTTATTTATAATTA-AATTTAAATAAAATTAAT
1 TTTTATTATTTA-AATAATAATATAAATAAAATAAAT
*
4034757 TTTTATTATTTAAATAATAATATAAATTAAATAAAT
1 TTTTATTATTTAAATAATAATATAAATAAAATAAAT
4034793 TTT
1 TTT
4034796 AATCAAAAAT
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
33 9 0.16
34 14 0.25
35 6 0.11
36 28 0.49
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (36 bp):
TTTTATTATTTAAATAATAATATAAATAAAATAAAT
Found at i:4037301 original size:20 final size:18
Alignment explanation
Indices: 4037255--4037303 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
4037245 AATATAATAA
*
4037255 TTATAATTTAATATATTT
1 TTATAATATAATATATTT
4037273 TTATTTAATATAATATTTATTT
1 TTA--TAATATAATA--TATTT
4037295 TTATAATAT
1 TTATAATAT
4037304 TTTATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.12
20 15 0.58
22 8 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATAATATAATATATTT
Found at i:4037307 original size:16 final size:17
Alignment explanation
Indices: 4037245--4037308 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 17
4037235 TATATAAATA
*
4037245 AATATAATAATTATAATTT
1 AATATAAT-ATT-TTATTT
4037264 AATAT-AT-TTTTATTT
1 AATATAATATTTTATTT
4037279 AATATAATA-TTTATTT
1 AATATAATATTTTATTT
*
4037295 -TTATAATATTTTAT
1 AATATAATATTTTAT
4037309 AATTTAGCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 17 0.43
16 16 0.40
18 2 0.05
19 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AATATAATATTTTATTT
Found at i:4037353 original size:16 final size:19
Alignment explanation
Indices: 4037332--4037371 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4037322 TTTTTAAAAA
4037332 ATATAAAA-TA-AT-TAAT
1 ATATAAAATTATATGTAAT
4037348 ATATAAAATTATATGTAAT
1 ATATAAAATTATATGTAAT
4037367 ATATA
1 ATATA
4037372 TGATACCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 2 0.10
18 2 0.10
19 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
ATATAAAATTATATGTAAT
Found at i:4037570 original size:16 final size:17
Alignment explanation
Indices: 4037544--4037583 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 17
4037534 ATATATAATT
4037544 ATTTTTAAATTGATATC
1 ATTTTTAAATTGATATC
4037561 ATTTTT-AATT--TAT-
1 ATTTTTAAATTGATATC
4037574 ATTTTTAAAT
1 ATTTTTAAAT
4037584 ATTTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
16 4 0.18
17 6 0.27
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
ATTTTTAAATTGATATC
Found at i:4038365 original size:27 final size:26
Alignment explanation
Indices: 4038335--4038387 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
4038325 TTTATTTATG
** *
4038335 TAATAAATTTAATTATCAAATAATTTT
1 TAATAAATAAAATTAT-AAAAAATTTT
*
4038362 TAATTAATAAAATTATAAAAAATTTT
1 TAATAAATAAAATTATAAAAAATTTT
4038388 AAATTGATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TAATAAATAAAATTATAAAAAATTTT
Found at i:4038576 original size:2 final size:2
Alignment explanation
Indices: 4038569--4038624 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
4038559 CAGATAAGGT
4038569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4038611 TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA
4038625 ATTTCTATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4038636 original size:8 final size:8
Alignment explanation
Indices: 4038573--4038636 Score: 67
Period size: 8 Copynumber: 8.1 Consensus size: 8
4038563 TAAGGTTATA
*
4038573 TATATATA
1 TATATATT
*
4038581 TATATATA
1 TATATATT
*
4038589 TATATATA
1 TATATATT
*
4038597 TATATATA
1 TATATATT
*
4038605 TATATATA
1 TATATATT
4038613 TATATATT
1 TATATATT
4038621 TATA-ATT
1 TATATATT
*
4038628 TCTATATT
1 TATATATT
4038636 T
1 T
4038637 GAGGTTCTGC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
7 6 0.11
8 47 0.89
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (8 bp):
TATATATT
Found at i:4039402 original size:16 final size:16
Alignment explanation
Indices: 4039358--4039404 Score: 78
Period size: 15 Copynumber: 2.9 Consensus size: 16
4039348 TTTAAATTAA
4039358 TAAAAAATAATAAATTT
1 TAAAAAAT-ATAAATTT
4039375 TAAAAAAT-TAAATTT
1 TAAAAAATATAAATTT
4039390 TAAAAAATATAAATT
1 TAAAAAATATAAATT
4039405 AAAATCTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.52
16 6 0.21
17 8 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAAAATATAAATTT
Found at i:4042279 original size:20 final size:19
Alignment explanation
Indices: 4042254--4042292 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
4042244 TGTCAGTTTC
*
4042254 ATGTATTGATACAATTGTAT
1 ATGTATCGATACAA-TGTAT
4042274 ATGTATCGATACAATGTAT
1 ATGTATCGATACAATGTAT
4042293 CAATACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACAATGTAT
Found at i:4044897 original size:33 final size:34
Alignment explanation
Indices: 4044855--4044919 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
4044845 TTTAAAAATT
4044855 AAAATTAAAATATAATTT-T-TTAAAAATATATAA
1 AAAATTAAAATAT-ATTTATATTAAAAATATATAA
*
4044888 AAAATTAAAATATATTTATATTAAATATATAT
1 AAAATTAAAATATATTTATATTAAAAATATAT
4044920 TTAATATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 14 0.48
34 11 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (34 bp):
AAAATTAAAATATATTTATATTAAAAATATATAA
Found at i:4044917 original size:17 final size:16
Alignment explanation
Indices: 4044891--4044922 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
4044881 TATATAAAAA
4044891 ATTAAAATATATTTAT
1 ATTAAAATATATTTAT
4044907 ATTAAATATATATTTA
1 ATTAAA-ATATATTTA
4044923 ATATGATCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAAAATATATTTAT
Found at i:4047761 original size:2 final size:2
Alignment explanation
Indices: 4047754--4047785 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4047744 TTTTCTTTTC
4047754 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
4047786 ACTTGTTGGA
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:4051018 original size:11 final size:11
Alignment explanation
Indices: 4051002--4051026 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4050992 AATGACTCTC
4051002 AATATAATTTA
1 AATATAATTTA
4051013 AATATAATTTA
1 AATATAATTTA
4051024 AAT
1 AAT
4051027 TTATGTATAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATATAATTTA
Found at i:4054488 original size:2 final size:2
Alignment explanation
Indices: 4054481--4054505 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4054471 CTTGTTTATC
4054481 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4054506 TTTTATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4062462 original size:16 final size:16
Alignment explanation
Indices: 4062443--4062489 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
4062433 AAATTAATTA
4062443 AAATATAATAAAAAAT
1 AAATATAATAAAAAAT
*
4062459 AAATATGATATAAATATAT
1 AAATAT-A-ATAAA-AAAT
4062478 AAATATAA-AAAA
1 AAATATAATAAAA
4062490 TATTTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 1 0.04
16 9 0.33
17 2 0.07
18 6 0.22
19 9 0.33
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
AAATATAATAAAAAAT
Found at i:4062471 original size:11 final size:10
Alignment explanation
Indices: 4062457--4062550 Score: 62
Period size: 9 Copynumber: 10.1 Consensus size: 10
4062447 ATAATAAAAA
4062457 ATAAATATGAT
1 ATAAATAT-AT
4062468 AT-AA-ATAT
1 ATAAATATAT
4062476 ATAAATATA-
1 ATAAATATAT
* *
4062485 AAAAATATTT
1 ATAAATATAT
4062495 ATAAATATTAT
1 ATAAATA-TAT
4062506 ATAAAT-T-T
1 ATAAATATAT
4062514 AT-AATAT-T
1 ATAAATATAT
*
4062522 TTAAATA-AT
1 ATAAATATAT
*
4062531 A-AAAAATAT
1 ATAAATATAT
*
4062540 AAAAATATAT
1 ATAAATATAT
4062550 A
1 A
4062551 AACACTTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
7 3 0.05
8 14 0.21
9 20 0.30
10 19 0.29
11 10 0.15
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (10 bp):
ATAAATATAT
Found at i:4062481 original size:19 final size:18
Alignment explanation
Indices: 4062443--4062552 Score: 79
Period size: 19 Copynumber: 6.2 Consensus size: 18
4062433 AAATTAATTA
*
4062443 AAATATA-ATAAA-AAAT
1 AAATATATATAAATATAT
4062459 AAATATGATATAAATATAT
1 AAATAT-ATATAAATATAT
*
4062478 AAATATA-AAAAATATTTAT
1 AAATATATATAAATA--TAT
*
4062497 AAATATTATATAAATTTAT
1 AAATA-TATATAAATATAT
*
4062516 -AATAT-TTTAAATA-AT
1 AAATATATATAAATATAT
* *
4062531 AAAAAATATAAAAATATAT
1 -AAATATATATAAATATAT
4062550 AAA
1 AAA
4062553 CACTTAAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
15 2 0.03
16 12 0.16
17 12 0.16
18 19 0.26
19 22 0.30
20 2 0.03
21 5 0.07
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (18 bp):
AAATATATATAAATATAT
Found at i:4062497 original size:27 final size:28
Alignment explanation
Indices: 4062425--4062549 Score: 86
Period size: 27 Copynumber: 4.6 Consensus size: 28
4062415 ACACGAATAC
* *
4062425 TAAAT-TAAAAATTAATTA-AAATATAA
1 TAAATATAAAAAATATTTATAAATATAA
* *
4062451 TAAA-A-AATAAATATGATATAAATAT-A
1 TAAATATAAAAAATAT-TTATAAATATAA
4062477 TAAATATAAAAAATATTTATAAATATTATA
1 TAAATATAAAAAATATTTATAAATA-TA-A
* *
4062507 TAAAT-T-TATAATATTT-TAAATAATAA
1 TAAATATAAAAAATATTTATAAAT-ATAA
*
4062533 AAAATATAAAAATATAT
1 TAAATATAAAAA-ATAT
4062550 AAACACTTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
25 6 0.08
26 16 0.21
27 23 0.30
28 20 0.26
29 5 0.07
30 6 0.08
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (28 bp):
TAAATATAAAAAATATTTATAAATATAA
Found at i:4062603 original size:12 final size:12
Alignment explanation
Indices: 4062574--4062605 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4062564 TTTTCCCATT
*
4062574 TTTCTCTTCTTC
1 TTTCTTTTCTTC
4062586 TTTCTTTTCTTC
1 TTTCTTTTCTTC
4062598 TTTCTTTT
1 TTTCTTTT
4062606 TTTTTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTCTTTTCTTC
Found at i:4062610 original size:17 final size:16
Alignment explanation
Indices: 4062572--4062609 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4062562 TTTTTTCCCA
*
4062572 TTTTTCTCTTC-TTCT
1 TTTTTTTCTTCTTTCT
*
4062587 TTCTTTTCTTCTTTCT
1 TTTTTTTCTTCTTTCT
4062603 TTTTTTT
1 TTTTTTT
4062610 TTTTCTTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTCTTCTTTCT
Found at i:4062615 original size:17 final size:19
Alignment explanation
Indices: 4062572--4062617 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
4062562 TTTTTTCCCA
4062572 TTTTTCTCTTCTTCTTTCTT
1 TTTTTCT-TTCTTCTTTCTT
*
4062592 TTCTTCTTTCTT-TTT-TT
1 TTTTTCTTTCTTCTTTCTT
4062609 TTTTTCTTT
1 TTTTTCTTT
4062618 GCCTGTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
18 3 0.12
19 5 0.21
20 6 0.25
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTCTTTCTTCTTTCTT
Found at i:4062707 original size:22 final size:20
Alignment explanation
Indices: 4062681--4062724 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
4062671 TTTTAGATAT
4062681 ATTTAAAATAGAGATATAAAAA
1 ATTT-AAATAGA-ATATAAAAA
*
4062703 ATTTAAATATAATATAAAAA
1 ATTTAAATAGAATATAAAAA
4062723 AT
1 AT
4062725 AATATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 6 0.29
22 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
ATTTAAATAGAATATAAAAA
Done.