Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold4
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: 5986281
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.33
Warning! 213817 characters in sequence are not A, C, G, or T
File 22 of 31
Found at i:4713379 original size:4 final size:4
Alignment explanation
Indices: 4713348--4713390 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
4713338 TATATATATA
*
4713348 TATG TATG TATG TATG TATG TATA TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
4713391 TAGGCCATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:4714723 original size:22 final size:24
Alignment explanation
Indices: 4714692--4714740 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
4714682 AATTATGAGA
*
4714692 TATTTATATATTTACGTCTTAT-T
1 TATTTATATATTTACGTATTATAT
*
4714715 TATTT-TATATTTTCGTATTATAT
1 TATTTATATATTTACGTATTATAT
4714738 TAT
1 TAT
4714741 ATTTTAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (24 bp):
TATTTATATATTTACGTATTATAT
Found at i:4726295 original size:50 final size:50
Alignment explanation
Indices: 4726217--4726316 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
4726207 AGGTTGCACT
4726217 GTAATACTTAAGTAGCAGAGATAAGATCTATATGATACATCCCATGGAAG
1 GTAATACTTAAGTAGCAGAGATAAGATCTATATGATACATCCCATGGAAG
*
4726267 GTAATACTTAAGTAGCAGAGATAGGATCTATATGATACATCCCATGGAAG
1 GTAATACTTAAGTAGCAGAGATAAGATCTATATGATACATCCCATGGAAG
4726317 CCCCCCCCCC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (50 bp):
GTAATACTTAAGTAGCAGAGATAAGATCTATATGATACATCCCATGGAAG
Found at i:4728207 original size:49 final size:48
Alignment explanation
Indices: 4728139--4728233 Score: 163
Period size: 49 Copynumber: 2.0 Consensus size: 48
4728129 GGTAGCATTA
4728139 CAAATTAAAGAAATTATATTGTTAATTTAATGAAAATTTATTGCACGG
1 CAAATTAAAGAAATTATATTGTTAATTTAATGAAAATTTATTGCACGG
* *
4728187 CAAATTAAAAGAAATTATATTTTTACTTTAATGAAAATTTATTGCAC
1 CAAATT-AAAGAAATTATATTGTTAATTTAATGAAAATTTATTGCAC
4728234 TCTTAAAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 6 0.14
49 38 0.86
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (48 bp):
CAAATTAAAGAAATTATATTGTTAATTTAATGAAAATTTATTGCACGG
Found at i:4729730 original size:22 final size:22
Alignment explanation
Indices: 4729698--4729744 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
4729688 TGATATTTAA
*
4729698 TAATTAAAAAAATATTTAAAT-T
1 TAATT-AAAAAATATATAAATAT
*
4729720 TAATTATAAAATATATAAATAT
1 TAATTAAAAAATATATAAATAT
4729742 TAA
1 TAA
4729745 CATAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTAAAAAATATATAAATAT
Found at i:4729732 original size:21 final size:21
Alignment explanation
Indices: 4729706--4729765 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
4729696 AATAATTAAA
4729706 AAAATATTTAAATTTAATTAT
1 AAAATATTTAAATTTAATTAT
* *
4729727 AAAATATATAAATATTAA-CAT
1 AAAATATTTAAAT-TTAATTAT
4729748 AAAATAATTT--ATTTAATT
1 AAAAT-ATTTAAATTTAATT
4729766 TTTATTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 19 0.59
22 7 0.22
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAATATTTAAATTTAATTAT
Found at i:4731431 original size:22 final size:22
Alignment explanation
Indices: 4731379--4731436 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
4731369 TAAATTTATT
*
4731379 TATAATAAATAAAAATATAATA
1 TATAATTAATAAAAATATAATA
4731401 TATAATTAATAAAAATAT-ATA
1 TATAATTAATAAAAATATAATA
* *
4731422 TTTTATTTAATAAAA
1 -TATAATTAATAAAA
4731437 TATTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 3 0.09
22 29 0.91
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TATAATTAATAAAAATATAATA
Found at i:4731574 original size:16 final size:17
Alignment explanation
Indices: 4731545--4731577 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4731535 AATATCAATA
*
4731545 TTAAATAAACTCAAATT
1 TTAAATAAAATCAAATT
4731562 TTAAA-AAAATCAAATT
1 TTAAATAAAATCAAATT
4731578 AATCTGGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATAAAATCAAATT
Found at i:4732968 original size:24 final size:25
Alignment explanation
Indices: 4732941--4732987 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
4732931 AATAATGTAA
*
4732941 TTGTAGTAATTT-ATTATTTTAATT
1 TTGTAATAATTTAATTATTTTAATT
*
4732965 TTGTAATAATTTAATTTTTTTAA
1 TTGTAATAATTTAATTATTTTAA
4732988 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (25 bp):
TTGTAATAATTTAATTATTTTAATT
Found at i:4732983 original size:17 final size:18
Alignment explanation
Indices: 4732956--4732999 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
4732946 GTAATTTATT
*
4732956 ATTTTAA-TTTTGTAATA
1 ATTTTAATTTTTGTAAAA
*
4732973 A-TTTAATTTTTTTAAAA
1 ATTTTAATTTTTGTAAAA
4732990 ATTTTAATTT
1 ATTTTAATTT
4733000 ATTTAAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
18 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTTTAATTTTTGTAAAA
Found at i:4733012 original size:18 final size:18
Alignment explanation
Indices: 4732956--4733020 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
4732946 GTAATTTATT
* *
4732956 ATTTTAATTT-TGTAATA
1 ATTTTAATTTATTTAAAA
*
4732973 A-TTTAATTTTTTTAAAA
1 ATTTTAATTTATTTAAAA
*
4732990 ATTTTAATTTATTTAAAT
1 ATTTTAATTTATTTAAAA
* *
4733008 CTTTTAATCTATT
1 ATTTTAATTTATT
4733021 CTACCTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
16 8 0.20
17 7 0.17
18 25 0.62
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTAATTTATTTAAAA
Found at i:4744171 original size:2 final size:2
Alignment explanation
Indices: 4744164--4744196 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4744154 GGATTCTGCT
4744164 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4744197 GTATGTATGT
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4748054 original size:2 final size:2
Alignment explanation
Indices: 4748047--4748075 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4748037 TGACGAAGAA
4748047 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4748076 CCCTTATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4750476 original size:18 final size:18
Alignment explanation
Indices: 4750453--4750493 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4750443 TTAATTTTAG
4750453 ATATAATATAAAAATAAA-
1 ATATAAT-TAAAAATAAAT
*
4750471 ATATAATTAATAATAAAT
1 ATATAATTAAAAATAAAT
4750489 ATATA
1 ATATA
4750494 TTATTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATAATTAAAAATAAAT
Found at i:4750576 original size:12 final size:13
Alignment explanation
Indices: 4750558--4750590 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4750548 AATATGATAA
4750558 AAATATAAAATAT
1 AAATATAAAATAT
*
4750571 -AATATATAATAT
1 AAATATAAAATAT
4750583 AAATATAA
1 AAATATAA
4750591 TTATTATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATATAAAATAT
Found at i:4750586 original size:18 final size:17
Alignment explanation
Indices: 4750543--4750591 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
4750533 TTTATAATTT
*
4750543 ATATAAATATGATAAAA
1 ATATAAATATAATAAAA
*
4750560 ATATAAAATATAATATATA
1 ATAT-AAATATAATA-AAA
4750579 ATATAAATATAAT
1 ATATAAATATAAT
4750592 TATTATATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 18 0.64
19 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
ATATAAATATAATAAAA
Found at i:4750586 original size:25 final size:24
Alignment explanation
Indices: 4750543--4750590 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
4750533 TTTATAATTT
*
4750543 ATATAAATATGATAAAAATATAAA
1 ATATAAATATAATAAAAATATAAA
*
4750567 ATATAATATATAATATAAATATAA
1 ATATAA-ATATAATAAAAATATAA
4750591 TTATTATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
ATATAAATATAATAAAAATATAAA
Found at i:4750997 original size:29 final size:29
Alignment explanation
Indices: 4750959--4751016 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
4750949 TTAACGAGAA
4750959 GAAAAAAAAGGAGGGAGTTAAGAATGTTC
1 GAAAAAAAAGGAGGGAGTTAAGAATGTTC
4750988 GAAAAAAAAGGAGGGAGTTAAGAATGTTC
1 GAAAAAAAAGGAGGGAGTTAAGAATGTTC
4751017 AATGGGTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.31, T:0.17
Consensus pattern (29 bp):
GAAAAAAAAGGAGGGAGTTAAGAATGTTC
Found at i:4752476 original size:21 final size:19
Alignment explanation
Indices: 4752436--4752488 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
4752426 ATTAATTATT
4752436 TATTATATTTAATATTAAAA
1 TATTAT-TTTAATATTAAAA
4752456 TAATT-TTTTAAGTATTTAAAA
1 T-ATTATTTTAA-TA-TTAAAA
4752477 TATTATTTTAAT
1 TATTATTTTAAT
4752489 GAATTGACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 5 0.17
20 8 0.28
21 16 0.55
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TATTATTTTAATATTAAAA
Found at i:4752931 original size:21 final size:21
Alignment explanation
Indices: 4752879--4752956 Score: 58
Period size: 22 Copynumber: 3.8 Consensus size: 21
4752869 ATATTAATTA
4752879 TTAAATATAA-ATAT---AAT
1 TTAAATATAATATATAAAAAT
* *
4752896 TTAAATTATTAAATATATCAAATT
1 TTAAA-TA-T-AATATATAAAAAT
*
4752920 TTTAATATAATATAATAAAAAT
1 TTAAATATAATAT-ATAAAAAT
4752942 TTAAATAT-ATATATA
1 TTAAATATAATATATA
4752957 CTTATATTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
17 5 0.10
18 2 0.04
19 1 0.02
20 5 0.10
21 13 0.27
22 14 0.29
23 2 0.04
24 6 0.12
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAATATAATATATAAAAAT
Found at i:4752979 original size:11 final size:11
Alignment explanation
Indices: 4752958--4753004 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
4752948 ATATATATAC
4752958 TTATA-TTATT
1 TTATATTTATT
4752968 TTATATTTATT
1 TTATATTTATT
*
4752979 TAATATATTATAT
1 TTATAT-TTAT-T
4752992 TTATATTATATT
1 TTATATT-TATT
4753004 T
1 T
4753005 CGAATTTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 5 0.16
11 10 0.32
12 7 0.23
13 9 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTATATTTATT
Found at i:4752990 original size:5 final size:5
Alignment explanation
Indices: 4752947--4753003 Score: 55
Period size: 5 Copynumber: 11.2 Consensus size: 5
4752937 AAAATTTAAA
* *
4752947 TATAT ATATACT TATAT TATTT TATAT T-TAT T-TAA TATAT TATATT
1 TATAT -TATA-T TATAT TATAT TATAT TATAT TATAT TATAT TATA-T
4752993 TATAT TATAT T
1 TATAT TATAT T
4753004 TCGAATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
4 7 0.16
5 23 0.52
6 13 0.30
7 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:4753002 original size:18 final size:18
Alignment explanation
Indices: 4752946--4753002 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
4752936 AAAAATTTAA
*
4752946 ATATATATATACTTATATT
1 ATATAT-TATATTTATATT
4752965 AT-T-TTATATTTAT-TT
1 ATATATTATATTTATATT
4752980 AATATATTATATTTATATT
1 -ATATATTATATTTATATT
4752999 ATAT
1 ATAT
4753003 TTCGAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
15 2 0.06
16 10 0.30
17 2 0.06
18 15 0.45
19 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATATTATATTTATATT
Found at i:4753642 original size:64 final size:66
Alignment explanation
Indices: 4753552--4753676 Score: 173
Period size: 64 Copynumber: 1.9 Consensus size: 66
4753542 TTAAAAAATA
* * * * *
4753552 TTTATATTAAATTTTAAATTATTATTTTACAAATAATAAA-AATT-AAAAACATTTTATATTAGA
1 TTTATATTAAATCTCAAATTAATATTTAAAAAATAATAAAGAATTAAAAAACATTTTATATTAGA
4753615 T
66 T
* *
4753616 TTTATATTCAATCTCAAATTAATATTTAAAAAATAATAAAGAATTAAAAAATATTTTATAT
1 TTTATATTAAATCTCAAATTAATATTTAAAAAATAATAAAGAATTAAAAAACATTTTATAT
4753677 CAAATCTCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
64 34 0.65
65 4 0.08
66 14 0.27
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (66 bp):
TTTATATTAAATCTCAAATTAATATTTAAAAAATAATAAAGAATTAAAAAACATTTTATATTAGA
T
Found at i:4754251 original size:106 final size:100
Alignment explanation
Indices: 4754127--4754311 Score: 255
Period size: 106 Copynumber: 1.8 Consensus size: 100
4754117 TATATTAAAA
* *
4754127 AACTATTTAAAAAAT-AAAATATTAAAAAATATTTTATATTAAATATCAATTTAATATTTAAAAA
1 AACTATTTAAAAAATAAAAAT-TTAAAAAATATGTTATATTAAATATCAAATTAATATTTAAAAA
4754191 TAATAAAAATTAAAATGTATTTTATATTAAATCTAAAGT
65 T--T-AAAATTAAAATGTATTTTATATTAAATCTAAAGT
* * *
4754230 AACTATTTAAAAAATAATAAAAATTTTAAAAATATGTTATATTAAATATTAAATTATTATTTAAA
1 AACTATTT--AAAA-AATAAAAATTTAAAAAATATGTTATATTAAATATCAAATTAATATTTAAA
4754295 AATTAAAATTAAAATGT
63 AATTAAAATTAAAATGT
4754312 TTATACTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
103 21 0.29
104 1 0.01
105 4 0.05
106 42 0.58
107 5 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (100 bp):
AACTATTTAAAAAATAAAAATTTAAAAAATATGTTATATTAAATATCAAATTAATATTTAAAAAT
TAAAATTAAAATGTATTTTATATTAAATCTAAAGT
Found at i:4754291 original size:54 final size:53
Alignment explanation
Indices: 4754130--4754296 Score: 191
Period size: 52 Copynumber: 3.2 Consensus size: 53
4754120 ATTAAAAAAC
* * * *
4754130 TATTTAAAAAAT-A-AAATATTAAAAAATATTTTATATTAAATATCAATTTAA
1 TATTTAAAAAATAATAAAAATTTAAAAATATTTTATATTAAATATTAAATTAA
* * *
4754181 TATTT-AAAAATAATAAAAA-TTAAAATGTATTTTATATTAAAT-CTAAAGTAA
1 TATTTAAAAAATAATAAAAATTTAAAA-ATATTTTATATTAAATATTAAATTAA
* *
4754232 CTATTTAAAAAATAATAAAAATTTTAAAAATATGTTATATTAAATATTAAATTAT
1 -TATTTAAAAAATAATAAAAA-TTTAAAAATATTTTATATTAAATATTAAATTAA
4754287 TATTTAAAAA
1 TATTTAAAAA
4754297 TTAAAATTAA
Statistics
Matches: 96, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
50 6 0.06
51 16 0.17
52 24 0.25
53 14 0.15
54 24 0.25
55 12 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (53 bp):
TATTTAAAAAATAATAAAAATTTAAAAATATTTTATATTAAATATTAAATTAA
Found at i:4754487 original size:22 final size:22
Alignment explanation
Indices: 4754447--4754488 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4754437 GAGTGATTGG
* *
4754447 TTCAATTAAAGTCATATGTATA
1 TTCAATTAAAATCACATGTATA
*
4754469 TTCAATTAAAATTACATGTA
1 TTCAATTAAAATCACATGTA
4754489 CATATTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (22 bp):
TTCAATTAAAATCACATGTATA
Found at i:4754512 original size:22 final size:22
Alignment explanation
Indices: 4754487--4754532 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4754477 AAATTACATG
*
4754487 TACATATTA-TTATTATCATATA
1 TACAT-TTACTTATAATCATATA
4754509 TACATTTACTTATAATCATATA
1 TACATTTACTTATAATCATATA
4754531 TA
1 TA
4754533 TTCAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (22 bp):
TACATTTACTTATAATCATATA
Found at i:4754768 original size:54 final size:55
Alignment explanation
Indices: 4754700--4754817 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 55
4754690 TGCACATATA
*
4754700 ATTTTTT-AATTTTTTATTATTTTTAAAGCATAATT-TGAC-ATTTAATATAAAAT
1 ATTTTTTAAAATTTTTATTATTTTTAAAGCATAATTCT-ACAATTTAATATAAAAT
* *** *
4754753 ATTTTTTAAAATTTTTATTATTTTTTAATTGTAGTTCTACAATTTAATATAAAAT
1 ATTTTTTAAAATTTTTATTATTTTTAAAGCATAATTCTACAATTTAATATAAAAT
4754808 ATGTTTTTAA
1 AT-TTTTTAA
4754818 GACAATATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
53 7 0.13
54 24 0.44
55 17 0.31
56 7 0.13
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.56
Consensus pattern (55 bp):
ATTTTTTAAAATTTTTATTATTTTTAAAGCATAATTCTACAATTTAATATAAAAT
Found at i:4755181 original size:22 final size:21
Alignment explanation
Indices: 4755156--4755208 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
4755146 CATATAACAA
*
4755156 TAATAATATATAAATATGATTT
1 TAATAA-ATATAAATATGACTT
* *
4755178 TAATTGAATATACATATGACTT
1 TAA-TAAATATAAATATGACTT
4755200 TAATTAAAT
1 TAA-TAAAT
4755209 CAACCTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATAAATATAAATATGACTT
Found at i:4755408 original size:52 final size:53
Alignment explanation
Indices: 4755304--4755477 Score: 201
Period size: 53 Copynumber: 3.3 Consensus size: 53
4755294 AAAAAAAATA
** * * *
4755304 TTATTATTTAAATTGTAATTTTAAGATTTAATATAAAATATTATT-AAGTTTTT
1 TTATT-TTTAAATAATAATTTCAAGATTTAATATAAAATATTTTTAAAATTTTT
* *
4755357 TTATTTTTAAGTAATAATTTGAA-ATTTAATATAAAATATTTTTAAAATTTTT
1 TTATTTTTAAATAATAATTTCAAGATTTAATATAAAATATTTTTAAAATTTTT
* * * *
4755409 ATTATTTTTAAATAGTTA-TTCAAGATTTAATATAAAATATTTTAAAAATTTTA
1 -TTATTTTTAAATAATAATTTCAAGATTTAATATAAAATATTTTTAAAATTTTT
*
4755462 TTATTTTAAAATAATA
1 TTATTTTTAAATAATA
4755478 TTTTAATATA
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
51 19 0.18
52 38 0.37
53 46 0.45
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (53 bp):
TTATTTTTAAATAATAATTTCAAGATTTAATATAAAATATTTTTAAAATTTTT
Found at i:4755438 original size:53 final size:54
Alignment explanation
Indices: 4755302--4755474 Score: 212
Period size: 52 Copynumber: 3.3 Consensus size: 54
4755292 GTAAAAAAAA
* * * *
4755302 TATTATTATTTAAATTGTAATTTTAAGATTTAATATAAAATATTATT-AAGTTTT
1 TATTATT-TTTAAATAGTAATTTCAAGATTTAATATAAAATATTTTTAAAATTTT
* * *
4755356 T-TTATTTTTAAGTAATAATTTGAA-ATTTAATATAAAATATTTTTAAAATTTT
1 TATTATTTTTAAATAGTAATTTCAAGATTTAATATAAAATATTTTTAAAATTTT
* *
4755408 TATTATTTTTAAATAGTTA-TTCAAGATTTAATATAAAATA-TTTTAAAAATTT
1 TATTATTTTTAAATAGTAATTTCAAGATTTAATATAAAATATTTTTAAAATTTT
*
4755460 TATTATTTTAAAATA
1 TATTATTTTTAAATA
4755475 ATATTTTAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
51 19 0.18
52 50 0.48
53 34 0.33
54 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (54 bp):
TATTATTTTTAAATAGTAATTTCAAGATTTAATATAAAATATTTTTAAAATTTT
Found at i:4755498 original size:9 final size:9
Alignment explanation
Indices: 4755472--4755509 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
4755462 TTATTTTAAA
4755472 ATAATAT-T
1 ATAATATAT
*
4755480 TTAATATAT
1 ATAATATAT
*
4755489 ATAATTTAT
1 ATAATATAT
4755498 ATAATATAT
1 ATAATATAT
4755507 ATA
1 ATA
4755510 TTTGGCTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
8 6 0.24
9 19 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
ATAATATAT
Found at i:4755761 original size:2 final size:2
Alignment explanation
Indices: 4755756--4755800 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
4755746 ATATATTTCA
* *
4755756 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4755798 AT A
1 AT A
4755801 AGTATATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4756105 original size:51 final size:52
Alignment explanation
Indices: 4756049--4756168 Score: 163
Period size: 51 Copynumber: 2.3 Consensus size: 52
4756039 AAAATTTATG
* * *
4756049 ATAAAATGATTTCTAATTTTT-ATCATTTTTAAATAGTAATTTA-AAGTTACT
1 ATAAAAT-ATTTTTAATTTTTAATCATTTTTAAATAATAATTTATAAGTTAAT
* * *
4756100 ATAAAATATTTTTAATTTTTAATTATTTTTAAATAATAATTTATGATTTAAT
1 ATAAAATATTTTTAATTTTTAATCATTTTTAAATAATAATTTATAAGTTAAT
4756152 ATAAAATATTTTTAATT
1 ATAAAATATTTTTAATT
4756169 ATCTGCATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 12 0.20
51 27 0.44
52 22 0.36
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (52 bp):
ATAAAATATTTTTAATTTTTAATCATTTTTAAATAATAATTTATAAGTTAAT
Found at i:4756139 original size:17 final size:18
Alignment explanation
Indices: 4756106--4756167 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 18
4756096 TACTATAAAA
**
4756106 TATTTTTAAT-TTTTAAT
1 TATTTTTAATATAATAAT
4756123 TATTTTTAA-ATAATAATT
1 TATTTTTAATATAATAA-T
*
4756141 TATGATTTAATATAA-AA-
1 TAT-TTTTAATATAATAAT
4756158 TATTTTTAAT
1 TATTTTTAAT
4756168 TATCTGCATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
16 6 0.16
17 16 0.43
18 4 0.11
19 7 0.19
20 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTTTTAATATAATAAT
Found at i:4757308 original size:21 final size:21
Alignment explanation
Indices: 4757284--4757342 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 21
4757274 AATTAAATAA
4757284 ATATAAATTATATAAAAATTT
1 ATATAAATTATATAAAAATTT
4757305 ATATAAA-TATAT-AAAATTT
1 ATATAAATTATATAAAAATTT
* *
4757324 AT-TTAATTTTATAATAAAT
1 ATATAAATTATATAA-AAAT
4757343 ATTCTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 3 0.09
19 13 0.39
20 6 0.18
21 11 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATAAATTATATAAAAATTT
Found at i:4757645 original size:11 final size:11
Alignment explanation
Indices: 4757627--4757686 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
4757617 ATATTATTAT
4757627 ATTT-ATTTAA
1 ATTTAATTTAA
4757637 ATTTAATTTAA
1 ATTTAATTTAA
4757648 ATATTAATTTTAA
1 AT-TTAA-TTTAA
* *
4757661 ATTTTATTTTA
1 ATTTAATTTAA
*
4757672 ATTT-ATTTAT
1 ATTTAATTTAA
4757682 ATTTA
1 ATTTA
4757687 TAAGAGTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
10 12 0.29
11 16 0.38
12 7 0.17
13 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTAATTTAA
Found at i:4757656 original size:12 final size:12
Alignment explanation
Indices: 4757625--4757672 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
4757615 TAATATTATT
*
4757625 ATATTTATTTAA
1 ATATTAATTTAA
4757637 AT-TTAATTTAA
1 ATATTAATTTAA
4757648 ATATTAATTTTAA
1 ATATTAA-TTTAA
* *
4757661 ATTTTATTTTAA
1 ATATTAATTTAA
4757673 TTTATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 10 0.32
12 11 0.35
13 10 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATATTAATTTAA
Found at i:4758295 original size:18 final size:17
Alignment explanation
Indices: 4758260--4758307 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
4758250 TATAGAATAA
4758260 AATTAAATAATATATAT
1 AATTAAATAATATATAT
4758277 AATT-AATATATATTATAT
1 AATTAAATA-ATA-TATAT
4758295 AATTGAAA-AATAT
1 AATT-AAATAATAT
4758308 GTTAGGCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 12 0.44
19 1 0.04
20 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTAAATAATATATAT
Found at i:4758567 original size:17 final size:17
Alignment explanation
Indices: 4758545--4758578 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4758535 TGTTGATTTT
*
4758545 AAGTTTTTTCTTTTATA
1 AAGTTTTATCTTTTATA
4758562 AAGTTTTATCTTTTATA
1 AAGTTTTATCTTTTATA
4758579 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (17 bp):
AAGTTTTATCTTTTATA
Found at i:4758850 original size:30 final size:30
Alignment explanation
Indices: 4758816--4758872 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4758806 ATAAGTTACG
*
4758816 AATTTTTAATTTT-ATCAAATTATATTATTA
1 AATTTTTAATTTTAAT-AAATTAAATTATTA
*
4758846 AATTTTTATTTTTAATAAATTAAATTA
1 AATTTTTAATTTTAATAAATTAAATTA
4758873 CTTATGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
AATTTTTAATTTTAATAAATTAAATTATTA
Found at i:4761185 original size:26 final size:26
Alignment explanation
Indices: 4761146--4761200 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4761136 AGTTCATATA
* *
4761146 TAATAAAGTCTTTGAAAATTGAATTC
1 TAATAAAGTCTTTGAAAATTAAATCC
* *
4761172 TAATAAGGTTTTTGAAAATTAAATCC
1 TAATAAAGTCTTTGAAAATTAAATCC
4761198 TAA
1 TAA
4761201 ATTTGCATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (26 bp):
TAATAAAGTCTTTGAAAATTAAATCC
Found at i:4765398 original size:16 final size:17
Alignment explanation
Indices: 4765372--4765418 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
4765362 TCATATTTAC
4765372 ATATGATTATTTAAAAAA
1 ATAT-ATTATTTAAAAAA
**
4765390 AT-TATTATTTTTAAAA
1 ATATATTATTTAAAAAA
*
4765406 ATATATTTTTTAA
1 ATATATTATTTAA
4765419 GAATTTATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
16 13 0.57
17 8 0.35
18 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATATATTATTTAAAAAA
Found at i:4765415 original size:15 final size:15
Alignment explanation
Indices: 4765397--4765435 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4765387 AAAATTATTA
4765397 TTTTTAAAAATATAT
1 TTTTTAAAAATATAT
* *
4765412 TTTTTAAGAATTTAT
1 TTTTTAAAAATATAT
*
4765427 TTTATAAAA
1 TTTTTAAAA
4765436 TTTTAAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TTTTTAAAAATATAT
Found at i:4765751 original size:22 final size:22
Alignment explanation
Indices: 4765704--4765751 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4765694 ATTTATAAAT
*
4765704 ATAATAAAAATAAAAATATTTT
1 ATAATAAAAATAAAAATATTTA
* *
4765726 ATAATTAAATTAAAAAT-TATTA
1 ATAATAAAAATAAAAATAT-TTA
4765748 ATAA
1 ATAA
4765752 ATAATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAATAAAAATAAAAATATTTA
Found at i:4766180 original size:17 final size:17
Alignment explanation
Indices: 4766154--4766195 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4766144 TAATATTAAC
4766154 ATATTA-ATTAAAAATA
1 ATATTATATTAAAAATA
* *
4766170 TTATTATATTAAATATA
1 ATATTATATTAAAAATA
4766187 ATATT-TATT
1 ATATTATATT
4766196 TATTATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTATATTAAAAATA
Found at i:4766194 original size:21 final size:21
Alignment explanation
Indices: 4766110--4766205 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 21
4766100 TTTTAATAAA
4766110 ATTATATTAAATATAATATTT
1 ATTATATTAAATATAATATTT
* ***
4766131 GTT-TATTTTTTAATAATA-TT
1 ATTATATTAAAT-ATAATATTT
** * *
4766151 AACATATTAATTA-AAAATATT
1 ATTATATTAAATATAATAT-TT
4766172 ATTATATTAAATATAATATTT
1 ATTATATTAAATATAATATTT
4766193 ATT-TATTATAATA
1 ATTATATTA-AATA
4766206 ATTTTAAAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
19 3 0.05
20 13 0.24
21 35 0.64
22 4 0.07
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (21 bp):
ATTATATTAAATATAATATTT
Found at i:4767600 original size:9 final size:9
Alignment explanation
Indices: 4767586--4767629 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
4767576 TTTTTATATA
4767586 ATATAAATT
1 ATATAAATT
*
4767595 ATATAACTT
1 ATATAAATT
4767604 ATATAAATAT
1 ATATAAAT-T
*
4767614 ATAAAATATT
1 ATATAA-ATT
4767624 ATATAA
1 ATATAA
4767630 TTTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 15 0.52
10 12 0.41
11 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
ATATAAATT
Found at i:4767959 original size:19 final size:19
Alignment explanation
Indices: 4767935--4767973 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4767925 ATTTCAAAAT
* *
4767935 ATTAATTATTTTTAATATA
1 ATTAATTATATATAATATA
4767954 ATTAATTATATATAATATA
1 ATTAATTATATATAATATA
4767973 A
1 A
4767974 AAATTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTAATTATATATAATATA
Found at i:4768617 original size:3 final size:3
Alignment explanation
Indices: 4768609--4768635 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4768599 ACACGTTTTA
4768609 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
4768636 TCTTTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4769979 original size:24 final size:26
Alignment explanation
Indices: 4769946--4769993 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
4769936 TTAAGATTTG
*
4769946 TATTATTATTT-TAA-TAAAATTTTA
1 TATTAATATTTATAATTAAAATTTTA
4769970 TATTAATATTTATAATTAAAATTT
1 TATTAATATTTATAATTAAAATTT
4769994 AATAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 3 0.14
26 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TATTAATATTTATAATTAAAATTTTA
Found at i:4770003 original size:26 final size:24
Alignment explanation
Indices: 4769952--4770009 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
4769942 TTTGTATTAT
* **
4769952 TATTTTAATAAAATTTTATATTAA
1 TATTTTAATAAAATTTAATAAAAA
4769976 TATTTATAATTAAAATTTAATAAAAA
1 TATTT-TAA-TAAAATTTAATAAAAA
4770002 TAATTTTA
1 T-ATTTTA
4770010 TTATTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 5 0.18
25 3 0.11
26 16 0.57
27 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTTTAATAAAATTTAATAAAAA
Found at i:4770019 original size:28 final size:28
Alignment explanation
Indices: 4769995--4770051 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4769985 TTAAAATTTA
4769995 ATAAAAATAATTTTATTATTTAAATAAT
1 ATAAAAATAATTTTATTATTTAAATAAT
* * * *
4770023 ATAAAAATTATTTAATTACTTAAACAAT
1 ATAAAAATAATTTTATTATTTAAATAAT
4770051 A
1 A
4770052 ATTCGAATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAAAAATAATTTTATTATTTAAATAAT
Found at i:4771927 original size:13 final size:14
Alignment explanation
Indices: 4771904--4771932 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4771894 CTTTTTGTGA
4771904 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
4771918 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
4771932 T
1 T
4771933 AATGAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:4772137 original size:19 final size:19
Alignment explanation
Indices: 4772092--4772139 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
4772082 ATTATTAATT
* *
4772092 TATAAAAATAAATTAATTA
1 TATATAAATAAATTAAATA
*
4772111 TATTTAAATAAATATAAATA
1 TATATAAATAAAT-TAAATA
4772131 -ATATAAATA
1 TATATAAATA
4772140 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TATATAAATAAATTAAATA
Found at i:4772397 original size:18 final size:19
Alignment explanation
Indices: 4772376--4772413 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4772366 GGGGTGATAA
*
4772376 TTAA-TATTTTATTAAATT
1 TTAATTATTTTATGAAATT
*
4772394 TTAATTTTTTTATGAAATT
1 TTAATTATTTTATGAAATT
4772413 T
1 T
4772414 ATTTTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTAATTATTTTATGAAATT
Found at i:4772435 original size:2 final size:2
Alignment explanation
Indices: 4772428--4772453 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4772418 TATTATATTA
4772428 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
4772454 GAAAGTAATA
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:4772611 original size:13 final size:13
Alignment explanation
Indices: 4772593--4772623 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4772583 AATAATATTT
*
4772593 AAAATTTTTTTTA
1 AAAATTTCTTTTA
4772606 AAAATTTCTTTTA
1 AAAATTTCTTTTA
4772619 AAAAT
1 AAAAT
4772624 ATAAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAATTTCTTTTA
Found at i:4773617 original size:22 final size:21
Alignment explanation
Indices: 4773561--4773633 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 21
4773551 TAATATTAAA
4773561 ATATTAAA-A-AAATATTTTT
1 ATATTAAATATAAATATTTTT
**
4773580 ATATT-AATATTTATATTTTT
1 ATATTAAATATAAATATTTTT
4773600 ATAATTAAATATAAATATTTTT
1 AT-ATTAAATATAAATATTTTT
4773622 ATTATTAAATAT
1 A-TATTAAATAT
4773634 TGATTTGGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
18 2 0.04
19 6 0.13
20 10 0.22
21 3 0.07
22 23 0.51
23 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTAAATATAAATATTTTT
Found at i:4774485 original size:21 final size:21
Alignment explanation
Indices: 4774428--4774485 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
4774418 TAGCTACAAA
4774428 TATATATTTAGTAAAAATATATT
1 TATATATTTA--AAAAATATATT
* *
4774451 TAT-T-TTTTAAAAATATTTT
1 TATATATTTAAAAAATATATT
4774470 TATATATTTAAAAAAT
1 TATATATTTAAAAAAT
4774486 TTATATCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 13 0.43
20 1 0.03
21 12 0.40
22 1 0.03
23 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TATATATTTAAAAAATATATT
Found at i:4775061 original size:2 final size:2
Alignment explanation
Indices: 4775049--4775094 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
4775039 AAACAGGTCA
4775049 AT AT A- 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
4775090 AT AT A
1 AT AT A
4775095 AAGGAGAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4777452 original size:32 final size:34
Alignment explanation
Indices: 4777405--4777468 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 34
4777395 TGCCAGCTTG
*
4777405 AATTATTACATAATAAA-AAATTTTATTTATAATT
1 AATTATTACATAATAAATAAATATTA-TTATAATT
4777439 AATTA-TA-ATAATAAATAAATATTATTATAA
1 AATTATTACATAATAAATAAATATTATTATAA
4777469 AAATAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 14 0.50
33 9 0.32
34 5 0.18
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (34 bp):
AATTATTACATAATAAATAAATATTATTATAATT
Found at i:4777765 original size:2 final size:2
Alignment explanation
Indices: 4777758--4777809 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
4777748 TTATGTGATT
4777758 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4777800 GA GA GA GA GA
1 GA GA GA GA GA
4777810 ATGTAAATCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4780656 original size:16 final size:18
Alignment explanation
Indices: 4780635--4780672 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
4780625 ATTATTTAGA
4780635 AAAAATA-TAAATAAA-T
1 AAAAATATTAAATAAAGT
*
4780651 AAAAATATTGAATAAAGT
1 AAAAATATTAAATAAAGT
4780669 AAAA
1 AAAA
4780673 TGAAACAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAAATATTAAATAAAGT
Found at i:4781179 original size:3 final size:3
Alignment explanation
Indices: 4781171--4781210 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
4781161 TAAAAAGTAA
*
4781171 TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4781211 TGCAAAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4785441 original size:64 final size:64
Alignment explanation
Indices: 4785368--4785490 Score: 196
Period size: 64 Copynumber: 1.9 Consensus size: 64
4785358 ATTATCATTG
*
4785368 TTCAATACATTTT-AAATTGTTATTATAAAATACTTTTATTATT-AAATTTTTTTAATTTAGATT
1 TTCAATACATTTTAAAATT-TTATTATAAAATA-TTTTATTATTAAAATTTATTTAATTTAGATT
4785431 T
64 T
*
4785432 TTCATTACATTTTAAAATTTTATTATAAAATATTTTATTATTAAAATTTATTTAATTTA
1 TTCAATACATTTTAAAATTTTATTATAAAATATTTTATTATTAAAATTTATTTAATTTA
4785491 TACTTATCCA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
63 10 0.18
64 40 0.73
65 5 0.09
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (64 bp):
TTCAATACATTTTAAAATTTTATTATAAAATATTTTATTATTAAAATTTATTTAATTTAGATTT
Found at i:4785483 original size:13 final size:14
Alignment explanation
Indices: 4785443--4785480 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
4785433 TCATTACATT
4785443 TTAAAATTTTATTA
1 TTAAAATTTTATTA
*
4785457 TAAAATATTTTATTA
1 TTAAA-ATTTTATTA
4785472 TTAAAATTT
1 TTAAAATTT
4785481 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAAATTTTATTA
Found at i:4786008 original size:20 final size:20
Alignment explanation
Indices: 4785962--4785999 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4785952 GACACGAAAA
4785962 ATAATATATAAAACCATTTG
1 ATAATATATAAAACCATTTG
*
4785982 ATAATATATATAACCATT
1 ATAATATATAAAACCATT
4786000 GGTCAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.37
Consensus pattern (20 bp):
ATAATATATAAAACCATTTG
Found at i:4790145 original size:2 final size:2
Alignment explanation
Indices: 4790140--4790186 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
4790130 TTTCTCTCCA
4790140 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4790182 TC TC T
1 TC TC T
4790187 TAATTCTCCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4792853 original size:20 final size:20
Alignment explanation
Indices: 4792825--4792866 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4792815 TTACACTATA
* *
4792825 ATATTATATATTTATTCTTT
1 ATATAATATATTCATTCTTT
*
4792845 ATATAATATATTCATTTTTT
1 ATATAATATATTCATTCTTT
4792865 AT
1 AT
4792867 TTGATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATAATATATTCATTCTTT
Found at i:4793214 original size:3 final size:3
Alignment explanation
Indices: 4793206--4793247 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
4793196 CATAAAAACA
4793206 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4793248 GTTAGTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4793409 original size:6 final size:6
Alignment explanation
Indices: 4793398--4793441 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
4793388 ACTCTGCTAA
*
4793398 AATACT AATACT AATACT AATATT AATACT AATACT AATACT AA
1 AATACT AATACT AATACT AATACT AATACT AATACT AATACT AA
4793442 ACTTATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
AATACT
Found at i:4794099 original size:3 final size:3
Alignment explanation
Indices: 4794091--4794116 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4794081 CTGTTTAACC
4794091 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
4794117 TTAGACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:4794202 original size:64 final size:63
Alignment explanation
Indices: 4794085--4794211 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 63
4794075 CCTTACCTGT
* * * *
4794085 TTAACCATAATAATAATAATAATAATAATAATTTAGACAAAACCCTTTGATATTTATGTGTGA
1 TTAACCAAAATAATAATAAAAATAATAATAATTTAGACAAAACCCTTTAATATTTATATGTGA
* * *
4794148 TTAACCAAAATAATAATAAAAATTAATAATAATTTAGATAAAATCTTTTAATATTTATATGTGA
1 TTAACCAAAATAATAATAAAAA-TAATAATAATTTAGACAAAACCCTTTAATATTTATATGTGA
4794212 GTCGTTATCA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 20 0.36
64 36 0.64
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (63 bp):
TTAACCAAAATAATAATAAAAATAATAATAATTTAGACAAAACCCTTTAATATTTATATGTGA
Found at i:4795124 original size:2 final size:2
Alignment explanation
Indices: 4795117--4795161 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
4795107 ACTATAATAC
* *
4795117 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4795159 AT A
1 AT A
4795162 GTTGAAAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4795655 original size:15 final size:15
Alignment explanation
Indices: 4795635--4795663 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4795625 TAACTGCCAC
4795635 AATATATATATATAT
1 AATATATATATATAT
4795650 AATATATATATATA
1 AATATATATATATA
4795664 AGCGCATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATATATATAT
Found at i:4795656 original size:13 final size:13
Alignment explanation
Indices: 4795638--4795664 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4795628 CTGCCACAAT
4795638 ATATATATATATA
1 ATATATATATATA
4795651 ATATATATATATA
1 ATATATATATATA
4795664 A
1 A
4795665 GCGCATCAAA
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):
ATATATATATATA
Found at i:4795778 original size:4 final size:4
Alignment explanation
Indices: 4795771--4795809 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
4795761 TATATATATA
*
4795771 TATG TATG TATG TATG TATG TATG TATG TACG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
4795810 TATAAGACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:4796369 original size:2 final size:2
Alignment explanation
Indices: 4796362--4796392 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4796352 TTAGGAAGCT
4796362 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 G
4796393 GTGACTTACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4796799 original size:2 final size:2
Alignment explanation
Indices: 4796787--4796822 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
4796777 GCTGCAAATT
4796787 TC TC ATC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC -TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4796823 AATCTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4797227 original size:11 final size:11
Alignment explanation
Indices: 4797199--4797273 Score: 61
Period size: 11 Copynumber: 6.9 Consensus size: 11
4797189 AAAATTTAAA
4797199 ATATTTATA-T
1 ATATTTATATT
4797209 AT-TTTATATT
1 ATATTTATATT
4797219 ATATTTATATT
1 ATATTTATATT
4797230 A-ATTTTACATATT
1 ATA-TTT--ATATT
4797243 ATATTT-TAATT
1 ATATTTAT-ATT
* *
4797254 AT-TTTTTATA
1 ATATTTATATT
4797264 ATATTTATAT
1 ATATTTATAT
4797274 AGCATCAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
9 6 0.11
10 14 0.26
11 24 0.44
13 9 0.17
14 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATTTATATT
Found at i:4797243 original size:24 final size:20
Alignment explanation
Indices: 4797199--4797274 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 20
4797189 AAAATTTAAA
4797199 ATATTTATATATTTTATATT
1 ATATTTATATATTTTATATT
4797219 ATATTTATATTAATTTTACATATT
1 ATATTTATA-T-ATTTT--ATATT
* *
4797243 ATATTT-TAATTATTTTTTATA
1 ATATTTAT-A-TATTTTATATT
4797264 ATATTTATATA
1 ATATTTATATA
4797275 GCATCAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
20 11 0.23
21 11 0.23
22 6 0.12
23 6 0.12
24 14 0.29
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTTATATATTTTATATT
Found at i:4797630 original size:17 final size:16
Alignment explanation
Indices: 4797589--4797665 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 16
4797579 GTTAAAATTG
* *
4797589 AATTAACATAAAAAAT
1 AATTAAAATATAAAAT
*
4797605 AATGCAAAATATAAAAT
1 AAT-TAAAATATAAAAT
* * *
4797622 GAATTAAAACATGATAT
1 -AATTAAAATATAAAAT
* *
4797639 AA-AAAAATAGAAAAT
1 AATTAAAATATAAAAT
4797654 AATTAAAATATA
1 AATTAAAATATA
4797666 GTACCAAAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
15 10 0.23
16 12 0.27
17 19 0.43
18 3 0.07
ACGTcount: A:0.66, C:0.04, G:0.05, T:0.25
Consensus pattern (16 bp):
AATTAAAATATAAAAT
Found at i:4797753 original size:33 final size:34
Alignment explanation
Indices: 4797710--4797793 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 34
4797700 TATACGTGTC
* *
4797710 AAAATCTATATAAAA-TAA-ATTTATTAATGCATAA
1 AAAAT-TATATAAAATTAATATTT-TAAATACATAA
4797744 AAAATTATATAAAATTTTAATATTTTAAATACATAA
1 AAAATTATATAAAA--TTAATATTTTAAATACATAA
*
4797780 AAAATTATACAAAA
1 AAAATTATATAAAA
4797794 ACAGTATGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
33 9 0.21
34 5 0.12
36 25 0.58
37 4 0.09
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (34 bp):
AAAATTATATAAAATTAATATTTTAAATACATAA
Found at i:4798844 original size:32 final size:34
Alignment explanation
Indices: 4798796--4798859 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
4798786 GGAGATATAA
* *
4798796 AAAAAAATTTATAATGTAGAGATTTGAATTTTTT
1 AAAAAAATTTATAATGTAAAAATTTGAATTTTTT
4798830 AAAAAAA-TTA-AATGTAAAAATTTGAATTTT
1 AAAAAAATTTATAATGTAAAAATTTGAATTTT
4798860 AAATGTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 18 0.64
33 3 0.11
34 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (34 bp):
AAAAAAATTTATAATGTAAAAATTTGAATTTTTT
Found at i:4799088 original size:2 final size:2
Alignment explanation
Indices: 4799081--4799124 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4799071 GGGAATCTGC
4799081 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
4799123 AT
1 AT
4799125 TGATTTTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4799815 original size:16 final size:17
Alignment explanation
Indices: 4799794--4799828 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4799784 ATAACATTAA
*
4799794 AAAATAA-TTAAAATAT
1 AAAATAATTTAAAAAAT
4799810 AAAATAATTTAAAAAAT
1 AAAATAATTTAAAAAAT
4799827 AA
1 AA
4799829 TATTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATAATTTAAAAAAT
Found at i:4803301 original size:110 final size:110
Alignment explanation
Indices: 4803059--4803331 Score: 307
Period size: 110 Copynumber: 2.5 Consensus size: 110
4803049 TTTATGCGAA
* * * * * *
4803059 AAATGAATTATCTTATATAAAGAACGTTCGTACGTCATTTTATGACTTTAAACAGTGAACTATTT
1 AAATGAATTATCTTATATAAAGGACGTTCGTACGTCACTTTATGACTATAGATAGTAAACTATTT
* ** *
4803124 CGGGACCAATCCTTTAGTGTCCGAATTTACATAATTAAAGCATTT
66 CGGGACCAATCATTTAGTGTCCGAACCTACATAATTAAAGCAATT
*
4803169 AAATGAACTAT-TCTATATAAAGGACGTTCGTACGTCACTTTATGACTATAGATAGTAAACTATT
1 AAATGAATTATCT-TATATAAAGGACGTTCGTACGTCACTTTATGACTATAGATAGTAAACTATT
* ** * * *
4803233 TTGGGGTCAATCATTTGGTG-CTCGAACCTATATAATTAATGCAATT
65 TCGGGACCAATCATTTAGTGTC-CGAACCTACATAATTAAAGCAATT
* * ** * *
4803279 AAATGAATTATCTTATATAAAGGGCGCTCGTACACCACTTTATTACTCTAGAT
1 AAATGAATTATCTTATATAAAGGACGTTCGTACGTCACTTTATGACTATAGAT
4803332 GATGACCTGT
Statistics
Matches: 136, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
109 2 0.01
110 133 0.98
111 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (110 bp):
AAATGAATTATCTTATATAAAGGACGTTCGTACGTCACTTTATGACTATAGATAGTAAACTATTT
CGGGACCAATCATTTAGTGTCCGAACCTACATAATTAAAGCAATT
Found at i:4803354 original size:110 final size:110
Alignment explanation
Indices: 4803059--4803363 Score: 251
Period size: 110 Copynumber: 2.8 Consensus size: 110
4803049 TTTATGCGAA
* * * ** * * * * *
4803059 AAATGAATTA-TCTTATATAAAGAACGTTCGTACGTCATTTTATGACTTTAAACAGTGAACTATT
1 AAATGAACTATTC-TATATAAAGGACGCTCGTACACCACTTTATGACTATAGATAGTAAACTATT
* * ** * *
4803123 TCGG-GACCAATCCTTTAGTG-TCCGAATTTACATAATTAAAGCATTT
65 TCGGAG-CCAATCATTTGGTGCT-CGAACCTATATAATTAAAGCAATT
* **
4803169 AAATGAACTATTCTATATAAAGGACGTTCGTACGTCACTTTATGACTATAGATAGTAAACTATTT
1 AAATGAACTATTCTATATAAAGGACGCTCGTACACCACTTTATGACTATAGATAGTAAACTATTT
* * * *
4803234 TGGGGTCAATCATTTGGTGCTCGAACCTATATAATTAATGCAATT
66 CGGAGCCAATCATTTGGTGCTCGAACCTATATAATTAAAGCAATT
* * * * * * *
4803279 AAATGAATTA-TCTTATATAAAGGGCGCTCGTACACCACTTTATTACTCTAGAT-GATGACCTGT
1 AAATGAACTATTC-TATATAAAGGACGCTCGTACACCACTTTATGACTATAGATAG-TAAACTAT
*
4803342 TTCGGAGCCAATCTTTTGGTGC
64 TTCGGAGCCAATCATTTGGTGC
4803364 CTGAATCTAT
Statistics
Matches: 160, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
109 3 0.02
110 153 0.96
111 4 0.03
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (110 bp):
AAATGAACTATTCTATATAAAGGACGCTCGTACACCACTTTATGACTATAGATAGTAAACTATTT
CGGAGCCAATCATTTGGTGCTCGAACCTATATAATTAAAGCAATT
Found at i:4803454 original size:100 final size:100
Alignment explanation
Indices: 4803279--4803659 Score: 437
Period size: 100 Copynumber: 3.8 Consensus size: 100
4803269 TAATGCAATT
* * * * *
4803279 AAATGAATTATCTTATATAAAGGGCGCTCGTACACCACTTTATTACTCTAGATGATGACCTGTTT
1 AAATGAATTATCCTATATAAAGGGCGTTCGTACACCACTTTATGACTCTAGATGAAGACCTATTT
*
4803344 CG-GAGCCAATCTTTTGGTGCCTGAATCTATGCAAA
66 CGAGA-TCAATCTTTTGGTGCCTGAATCTATGCAAA
* * * *
4803379 AAATGAATTATCCTATATAACGGGCGTTTGTACGCCACTTTATGACTCTAGAAGAAGACCTATTT
1 AAATGAATTATCCTATATAAAGGGCGTTCGTACACCACTTTATGACTCTAGATGAAGACCTATTT
*
4803444 CGAGATCAATCTTTTGGTGCCTGAATGTATGCAAA
66 CGAGATCAATCTTTTGGTGCCTGAATCTATGCAAA
* * * *** * *
4803479 CAAATAAATTATCCTATATAAAGGGTGTTTGTATGGCACTTTATAACTCTAGATGAAGAACTATT
1 -AAATGAATTATCCTATATAAAGGGCGTTCGTACACCACTTTATGACTCTAGATGAAGACCTATT
* * * *
4803544 TC-AGGGTAAATCTTTTAGTG-CTCGAATCTATGAAAA
65 TCGA-GATCAATCTTTTGGTGCCT-GAATCTATGCAAA
* ** *
4803580 AAATGAATTATCTTATATAAAAAGCGTTCGTACACTACTTTATGACTCTAGATGAAGACCTATTT
1 AAATGAATTATCCTATATAAAGGGCGTTCGTACACCACTTTATGACTCTAGATGAAGACCTATTT
*
4803645 CAAG-TCTAATCTTTT
66 CGAGATC-AATCTTTT
4803660 AACACTCGAA
Statistics
Matches: 238, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
99 1 0.00
100 152 0.64
101 85 0.36
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (100 bp):
AAATGAATTATCCTATATAAAGGGCGTTCGTACACCACTTTATGACTCTAGATGAAGACCTATTT
CGAGATCAATCTTTTGGTGCCTGAATCTATGCAAA
Found at i:4805133 original size:8 final size:8
Alignment explanation
Indices: 4805120--4805177 Score: 56
Period size: 8 Copynumber: 7.9 Consensus size: 8
4805110 ATAATTTTAA
4805120 ATATAATT
1 ATATAATT
4805128 ATATAA--
1 ATATAATT
4805134 ATATAATT
1 ATATAATT
4805142 ATATAA--
1 ATATAATT
4805148 ATATAA-T
1 ATATAATT
4805155 ATATAAATT
1 ATAT-AATT
*
4805164 ATA-AAAT
1 ATATAATT
4805171 ATATAAT
1 ATATAAT
4805178 ATTATATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
6 12 0.29
7 10 0.24
8 16 0.38
9 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAATT
Found at i:4805134 original size:14 final size:14
Alignment explanation
Indices: 4805117--4805167 Score: 86
Period size: 14 Copynumber: 3.6 Consensus size: 14
4805107 ATAATAATTT
4805117 TAAATATAATTATA
1 TAAATATAATTATA
4805131 TAAATATAATTATA
1 TAAATATAATTATA
4805145 TAAATATAA-TATA
1 TAAATATAATTATA
4805158 TAAATTATAA
1 TAAA-TATAA
4805168 AATATATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.22
14 28 0.78
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAATATAATTATA
Found at i:4805166 original size:28 final size:27
Alignment explanation
Indices: 4805110--4805191 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 27
4805100 TTTAGATATA
4805110 ATAATT-T-TAAATATAATTATATAAAT
1 ATAATTATATAAATATAA-TATATAAAT
4805136 ATAATTATATAAATATAATATATAAATT
1 ATAATTATATAAATATAATATATAAA-T
* *
4805164 ATAA-AATATATAATAT--TATATGAAT
1 ATAATTATATA-AATATAATATATAAAT
4805189 ATA
1 ATA
4805192 TCTCAAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
25 4 0.08
26 13 0.26
27 14 0.28
28 19 0.38
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (27 bp):
ATAATTATATAAATATAATATATAAAT
Found at i:4805172 original size:14 final size:13
Alignment explanation
Indices: 4805117--4805184 Score: 82
Period size: 14 Copynumber: 4.9 Consensus size: 13
4805107 ATAATAATTT
4805117 TAAATATAATTATA
1 TAAATATAA-TATA
4805131 TAAATATAATTATA
1 TAAATATAA-TATA
4805145 TAAATATAATATA
1 TAAATATAATATA
*
4805158 TAAATTATAAAATA
1 TAAA-TATAATATA
*
4805172 TATAATATTATAT
1 TA-AATATAATAT
4805185 GAATATATCT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
13 8 0.16
14 39 0.80
15 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAATATAATATA
Found at i:4805267 original size:16 final size:16
Alignment explanation
Indices: 4805246--4805285 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4805236 AAAAATATTT
*
4805246 TAAATATAATTTAACA
1 TAAATAAAATTTAACA
* *
4805262 TAAATAAAATTTTATA
1 TAAATAAAATTTAACA
4805278 TAAATAAA
1 TAAATAAA
4805286 CTTGATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATAAAATTTAACA
Found at i:4807326 original size:22 final size:23
Alignment explanation
Indices: 4807290--4807351 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
4807280 ATCATTTTAT
* * *
4807290 TAATTTTATTTATAAAATTTAAA
1 TAATTTTAATAATAAAAATTAAA
4807313 -AATTTTAATAATAATAAATTAAA
1 TAATTTTAATAATAA-AAATTAAA
4807336 TAA--TTAATAATAAAAA
1 TAATTTTAATAATAAAAA
4807352 ATCAAATACG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 3 0.09
22 22 0.65
23 7 0.21
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATTTTAATAATAAAAATTAAA
Found at i:4807353 original size:22 final size:22
Alignment explanation
Indices: 4807317--4807359 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4807307 TTTAAAAATT
* *
4807317 TTAATAATAATAAATTAAATAA
1 TTAATAATAAAAAATCAAATAA
4807339 TTAATAATAAAAAATCAAATA
1 TTAATAATAAAAAATCAAATA
4807360 CGAGTATCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAATAATAAAAAATCAAATAA
Found at i:4807576 original size:14 final size:14
Alignment explanation
Indices: 4807559--4807619 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
4807549 ATAATAATTT
4807559 TAAATATAATTATA
1 TAAATATAATTATA
*
4807573 TAAATAT-AGTATA
1 TAAATATAATTATA
*
4807586 TAAATTATAA-AATA
1 TAAA-TATAATTATA
*
4807600 TATA-AT-ATTATA
1 TAAATATAATTATA
4807612 TAAATATA
1 TAAATATA
4807620 TCTCAAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
11 1 0.03
12 8 0.22
13 11 0.30
14 16 0.43
15 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
TAAATATAATTATA
Found at i:4807676 original size:26 final size:26
Alignment explanation
Indices: 4807624--4807687 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
4807614 AATATATCTC
* *
4807624 AAAATTTATAT-AATATAAATTAATT
1 AAAATTTATATAAATAAAAAATAATT
*
4807649 AAAATTTATATAAATAAAAAATATTT
1 AAAATTTATATAAATAAAAAATAATT
*
4807675 AAAATATA-ATAAA
1 AAAATTTATATAAA
4807688 ATATATGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 16 0.47
26 18 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAATTTATATAAATAAAAAATAATT
Found at i:4807936 original size:21 final size:21
Alignment explanation
Indices: 4807882--4807944 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
4807872 ATCACATGTG
** * *
4807882 ATTTTATATATTTAATTTTTT
1 ATTTTATATAAATAATATATT
*
4807903 AATTTAT-TAAATAATATATT
1 ATTTTATATAAATAATATATT
*
4807923 ATTTTATATAAATAATAAATT
1 ATTTTATATAAATAATATATT
4807944 A
1 A
4807945 ATTGATAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 15 0.44
21 19 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTATATAAATAATATATT
Found at i:4808961 original size:19 final size:22
Alignment explanation
Indices: 4808939--4808992 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
4808929 TATTATTAAA
4808939 ATATTAAAATTT-TA-T-TTTT
1 ATATTAAAATTTATATTATTTT
*
4808958 ATATTAATATTTATATTATTTT
1 ATATTAAAATTTATATTATTTT
4808980 ATAATT-AAATTTA
1 AT-ATTAAAATTTA
4808993 AATAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 11 0.38
20 2 0.07
21 1 0.03
22 12 0.41
23 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATTAAAATTTATATTATTTT
Found at i:4811220 original size:13 final size:12
Alignment explanation
Indices: 4811188--4811252 Score: 71
Period size: 12 Copynumber: 5.5 Consensus size: 12
4811178 TCCTTCTATC
4811188 AAATAAT-TAAA
1 AAATAATATAAA
* *
4811199 ATATGATATAAAA
1 AAATAATAT-AAA
4811212 AAATAATATAAA
1 AAATAATATAAA
4811224 AAATAAT-TAAA
1 AAATAATATAAA
* *
4811235 ATATAATATCAA
1 AAATAATATAAA
4811247 AAATAA
1 AAATAA
4811253 CTTGAACATA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
11 15 0.34
12 19 0.43
13 10 0.23
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (12 bp):
AAATAATATAAA
Found at i:4811240 original size:23 final size:23
Alignment explanation
Indices: 4811209--4811252 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4811199 ATATGATATA
4811209 AAAAAATAATATAAAAAATAATT
1 AAAAAATAATATAAAAAATAATT
* *
4811232 AAAATATAATATCAAAAATAA
1 AAAAAATAATATAAAAAATAA
4811253 CTTGAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAAAATAATATAAAAAATAATT
Found at i:4811327 original size:33 final size:35
Alignment explanation
Indices: 4811284--4811368 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 35
4811274 CATACGTGTC
* *
4811284 AAAATTTATATAAAA-TAA-ATTTATTAATACAT-A
1 AAAAATTATATAAAATTAATATTT-TAAATACATCA
4811317 AAAAATTATATAAAATTTTAATATTTTAAATACATCA
1 AAAAATTATATAAAA--TTAATATTTTAAATACATCA
*
4811354 AAAAATTATACAAAA
1 AAAAATTATATAAAA
4811369 ACAGTATGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 14 0.32
36 11 0.25
37 19 0.43
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (35 bp):
AAAAATTATATAAAATTAATATTTTAAATACATCA
Found at i:4813370 original size:17 final size:16
Alignment explanation
Indices: 4813341--4813392 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
4813331 ATGACATGAA
*
4813341 AAAATAATTAAAATAT
1 AAAATGATTAAAATAT
*
4813357 AAAATGATTCAAAAAAT
1 AAAATGATT-AAAATAT
* *
4813374 AATATGATTATAATAT
1 AAAATGATTAAAATAT
4813390 AAA
1 AAA
4813393 TACACGAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (16 bp):
AAAATGATTAAAATAT
Found at i:4813394 original size:17 final size:17
Alignment explanation
Indices: 4813347--4813394 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
4813337 TGAAAAAATA
4813347 ATTAAAATATAAA-ATG
1 ATTAAAATATAAATATG
*
4813363 ATTCAAAAAAT-AATATG
1 ATT-AAAATATAAATATG
*
4813380 ATTATAATATAAATA
1 ATTAAAATATAAATA
4813395 CACGAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
ATTAAAATATAAATATG
Found at i:4815580 original size:110 final size:110
Alignment explanation
Indices: 4815428--4815697 Score: 330
Period size: 110 Copynumber: 2.5 Consensus size: 110
4815418 TTTATGCAAA
* * * *
4815428 AAATGAATTATCTTATCTAAAAAACGTTCGTACG-CTATTTTATGACTCTAAACAGTAAACTATT
1 AAATGAATTATCTTATATAAAAAGCGTTCGTACGTC-ACTTTATAACTCTAAACAGTAAACTATT
* *
4815492 TCGGGGCCAATCCTTTAGTGT-CT-AAACTTACATAATTAAAACATTT
65 TCGGGGCCAATCCTTT-G-GTACTCAAACCTACATAATTAAAACAATT
* ** * *
4815538 AAATGAATTATCCTATATAAAGGGCGTTCGTACGTCACTTTATAACTATAAATAGTAAACTATTT
1 AAATGAATTATCTTATATAAAAAGCGTTCGTACGTCACTTTATAACTCTAAACAGTAAACTATTT
* * **
4815603 CGGGGCCAATCCTTTGGTACTCGAACCTATATAATTAATGCAATT
66 CGGGGCCAATCCTTTGGTACTCAAACCTACATAATTAAAACAATT
* * *
4815648 AAATGAATTATTTTATATAAAAAGCGTTTGTACGTCACTTTATTACTCTA
1 AAATGAATTATCTTATATAAAAAGCGTTCGTACGTCACTTTATAACTCTA
4815698 GATGATGACC
Statistics
Matches: 135, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
108 2 0.01
109 3 0.02
110 129 0.96
111 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (110 bp):
AAATGAATTATCTTATATAAAAAGCGTTCGTACGTCACTTTATAACTCTAAACAGTAAACTATTT
CGGGGCCAATCCTTTGGTACTCAAACCTACATAATTAAAACAATT
Found at i:4815824 original size:100 final size:100
Alignment explanation
Indices: 4815648--4816012 Score: 353
Period size: 100 Copynumber: 3.6 Consensus size: 100
4815638 TAATGCAATT
** * * * * ** *
4815648 AAATGAATTATTTTATATAAAAAGCGTTTGTACGTCACTTTATTACTCTAGATGATGACCTATTT
1 AAATGAATTATCCTATATAAAGAGCATTTGTACGTCACTTTATGACTCTAGACGAAAAACTATTT
*
4815713 CGA-AGCTAATCTTTTAATGCCTGAATCTATGCAAA
66 CGAGA-CAAATCTTTTAATGCCTGAATCTATGCAAA
* * *
4815748 AAATGAATTATCCTATGTAACAGA-TATTTATACGTCACTTTATGACTCTAGACGAAAAACTATT
1 AAATGAATTATCCTATATAA-AGAGCATTTGTACGTCACTTTATGACTCTAGACGAAAAACTATT
* * *
4815812 TCGAGACCAATCTTTTGATGCCCGAATCTATGCAAA
65 TCGAGACAAATCTTTTAATGCCTGAATCTATGCAAA
* * * * * * *
4815848 CAAATGAATTATTCTATATAAAGAGCATTTGTATGGCACTTTATAACTCTAAATGAAGAAC-ATT
1 -AAATGAATTATCCTATATAAAGAGCATTTGTACGTCACTTTATGACTCTAGACGAAAAACTATT
* ** * *
4815912 T-TAGGTAAATCTTTTAGTG-CTCGAATCTATACAAAA
65 TCGAGACAAATCTTTTAATGCCT-GAATCTATGC-AAA
* * * * *
4815948 AAATGAATTATCTTATATAAAAAGCATTCGTATGTCACTTTATGACTCTAGACGAAAACCTATTT
1 AAATGAATTATCCTATATAAAGAGCATTTGTACGTCACTTTATGACTCTAGACGAAAAACTATTT
4816013 TAGGTCTAAT
Statistics
Matches: 215, Mismatches: 43, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
98 1 0.00
99 71 0.33
100 94 0.44
101 49 0.23
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (100 bp):
AAATGAATTATCCTATATAAAGAGCATTTGTACGTCACTTTATGACTCTAGACGAAAAACTATTT
CGAGACAAATCTTTTAATGCCTGAATCTATGCAAA
Found at i:4815955 original size:99 final size:99
Alignment explanation
Indices: 4815648--4816012 Score: 339
Period size: 99 Copynumber: 3.7 Consensus size: 99
4815638 TAATGCAATT
* * * * *
4815648 AAATGAATTATTTTATATAAAAAGCGTTTGTACGTCACTTTATTACTCTAGATGATGACCTATTT
1 AAATGAATTATTCTATATAAAAAGCATTTGTACGTCACTTTATGACTCTAGATGAAGAACTATTT
* *
4815713 CGAAGCTAATCTTTTAATGCCTGAATCTATGC-AAA
66 C-AAGATAATCTTTTAGTGCC-GAATCTATGCAAAA
* * * * * * *
4815748 AAATGAATTATCCTATGT-AACAGATATTTATACGTCACTTTATGACTCTAGACGAAAAACTATT
1 AAATGAATTATTCTATATAAAAAG-CATTTGTACGTCACTTTATGACTCTAGATGAAGAACTATT
* * *
4815812 TCGAGACCAATCTTTT-GATGCCCGAATCTATGCAAAC
65 TCAAGA-TAATCTTTTAG-TG-CCGAATCTATGCAAAA
* * * * *
4815849 AAATGAATTATTCTATATAAAGAGCATTTGTATGGCACTTTATAACTCTAAATGAAGAAC-ATTT
1 AAATGAATTATTCTATATAAAAAGCATTTGTACGTCACTTTATGACTCTAGATGAAGAACTATTT
* * *
4815913 -TAGGTAAATCTTTTAGTGCTCGAATCTATACAAAA
66 CAAGAT-AATCTTTTAGTGC-CGAATCTATGCAAAA
* * *
4815948 AAATGAATTA-TCTTATATAAAAAGCATTCGTATGTCACTTTATGACTCTAGACGAA-AACCTAT
1 AAATGAATTATTC-TATATAAAAAGCATTTGTACGTCACTTTATGACTCTAGATGAAGAA-CTAT
4816011 TT
64 TT
4816013 TAGGTCTAAT
Statistics
Matches: 214, Mismatches: 39, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
98 5 0.02
99 79 0.37
100 78 0.36
101 48 0.22
102 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (99 bp):
AAATGAATTATTCTATATAAAAAGCATTTGTACGTCACTTTATGACTCTAGATGAAGAACTATTT
CAAGATAATCTTTTAGTGCCGAATCTATGCAAAA
Found at i:4815993 original size:200 final size:200
Alignment explanation
Indices: 4815648--4816012 Score: 468
Period size: 200 Copynumber: 1.8 Consensus size: 200
4815638 TAATGCAATT
* * * * * * *
4815648 AAATGAATTATTTTATATAAAAAGCGTTTGTACGTCACTTTATTACTCTAGATGATGACCTATTT
1 AAATGAATTATTCTATATAAAAAGCATTTGTACGGCACTTTATAACTCTAAATGAAGAACTATTT
* * * * *
4815713 CGAAGCTAATCTTTTAATGCCTGAATCTATGCAAAAAATGAATTATCCTATGTAACAGATATTTA
66 C-AAGCTAATCTTTTAATGCCTGAATCTATACAAAAAATGAATTATCCTATATAAAAGACATTCA
4815778 TACGTCACTTTATGACTCTAGACGAAAAACTATTTCGAGACCAATCTTTTGATGCCCGAATCTAT
130 TACGTCACTTTATGACTCTAGACGAAAAACTATTTCGAGACCAATCTTTTGATGCCCGAATCTAT
4815843 GCAAAC
195 GCAAAC
* *
4815849 AAATGAATTATTCTATATAAAGAGCATTTGTATGGCACTTTATAACTCTAAATGAAGAAC-ATTT
1 AAATGAATTATTCTATATAAAAAGCATTTGTACGGCACTTTATAACTCTAAATGAAGAACTATTT
* * * *
4815913 -TAGGTAAATCTTTTAGTG-CTCGAATCTATACAAAAAAATGAATTATCTTATATAAAA-AGCAT
66 CAAGCT-AATCTTTTAATGCCT-GAATCTATAC-AAAAAATGAATTATCCTATATAAAAGA-CAT
* * *
4815975 TCGTATGTCACTTTATGACTCTAGACGAAAACCTATTT
127 TCATACGTCACTTTATGACTCTAGACGAAAAACTATTT
4816013 TAGGTCTAAT
Statistics
Matches: 139, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
198 5 0.04
199 21 0.15
200 62 0.45
201 51 0.37
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (200 bp):
AAATGAATTATTCTATATAAAAAGCATTTGTACGGCACTTTATAACTCTAAATGAAGAACTATTT
CAAGCTAATCTTTTAATGCCTGAATCTATACAAAAAATGAATTATCCTATATAAAAGACATTCAT
ACGTCACTTTATGACTCTAGACGAAAAACTATTTCGAGACCAATCTTTTGATGCCCGAATCTATG
CAAAC
Found at i:4817547 original size:15 final size:14
Alignment explanation
Indices: 4817523--4817565 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
4817513 AAGCTTCATG
*
4817523 ATTTAGATATAATA
1 ATTTAAATATAATA
*
4817537 ATTTTAAATATAATT
1 A-TTTAAATATAATA
*
4817552 ATATAAATATAATA
1 ATTTAAATATAATA
4817566 TATAAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
ATTTAAATATAATA
Found at i:4817558 original size:14 final size:13
Alignment explanation
Indices: 4817541--4817602 Score: 70
Period size: 14 Copynumber: 4.5 Consensus size: 13
4817531 ATAATAATTT
4817541 TAAATATAATTATA
1 TAAATATAA-TATA
4817555 TAAATATAATATA
1 TAAATATAATATA
*
4817568 TAAATTATAAAATA
1 TAAA-TATAATATA
*
4817582 TATAATATTATATA
1 TA-AATATAATATA
*
4817596 AAAATAT
1 TAAATAT
4817603 CTTAAATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
13 13 0.31
14 27 0.64
15 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAATATAATATA
Found at i:4817660 original size:25 final size:25
Alignment explanation
Indices: 4817593--4817660 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
4817583 ATAATATTAT
*
4817593 ATAAAAATATCTTAAATTTTATATA
1 ATAAAAATATTTTAAATTTTATATA
* * * *
4817618 ATATAAAT-TAATTAAAATTTATGTAA
1 ATAAAAATAT-TTTAAATTTTATAT-A
4817644 ATAAAAATATTTTAAAT
1 ATAAAAATATTTTAAAT
4817661 ATAATTATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
24 1 0.03
25 18 0.55
26 13 0.39
27 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (25 bp):
ATAAAAATATTTTAAATTTTATATA
Found at i:4817672 original size:26 final size:25
Alignment explanation
Indices: 4817587--4817672 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 25
4817577 AAATATATAA
*
4817587 TATTAT-ATAAAAATATCTTAAATT
1 TATTATAATAAAAATATTTTAAATT
* * *
4817611 T-TATATAATATAAATTAATTAAAATT
1 TAT-TATAATA-AAAATATTTTAAATT
4817637 TATGTA-AATAAAAATATTTTAAATAT
1 TAT-TATAATAAAAATATTTTAAAT-T
*
4817663 AATTATAATA
1 TATTATAATA
4817673 TAAGTAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
23 1 0.02
24 4 0.09
25 16 0.34
26 23 0.49
27 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
TATTATAATAAAAATATTTTAAATT
Found at i:4819331 original size:37 final size:37
Alignment explanation
Indices: 4819285--4819366 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
4819275 GTGACTTTGT
* * * * *
4819285 CAATCCACTATGATTGTGAGTATTTGGGTGGTAGTGC
1 CAATTCACTATGATTGTGAGAATTTGAGTGGCAGCGC
* *
4819322 CAATTCACTATGATTGTTAGAATTTGAGTGGCAGCGT
1 CAATTCACTATGATTGTGAGAATTTGAGTGGCAGCGC
4819359 CAATTCAC
1 CAATTCAC
4819367 GAAAAATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (37 bp):
CAATTCACTATGATTGTGAGAATTTGAGTGGCAGCGC
Found at i:4824070 original size:37 final size:37
Alignment explanation
Indices: 4824029--4824110 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
4824019 GTGACTTTGT
* *
4824029 CAATCCACTATGATTGTTAGTATTTGGGTGACAGTGC
1 CAATCCACTATGATTGTTAGAATTTGGGTGACAGCGC
*
4824066 CAATCCACTATGATTGTTAGAATTTGGGTGGCAGCGC
1 CAATCCACTATGATTGTTAGAATTTGGGTGACAGCGC
4824103 CAATCCAC
1 CAATCCAC
4824111 AAAAAATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (37 bp):
CAATCCACTATGATTGTTAGAATTTGGGTGACAGCGC
Found at i:4825103 original size:22 final size:24
Alignment explanation
Indices: 4825078--4825126 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
4825068 AAAATATATT
* *
4825078 ATTTTATTTATAA-AATTTAAA-A
1 ATTTTATTAATAATAAATTAAATA
4825100 ATTTTATTAATAATAAATTAAATA
1 ATTTTATTAATAATAAATTAAATA
4825124 ATT
1 ATT
4825127 AATGATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 7 0.30
24 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTTATTAATAATAAATTAAATA
Found at i:4825375 original size:14 final size:14
Alignment explanation
Indices: 4825358--4825418 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
4825348 ATAATAATTT
4825358 TAAATATAATTATA
1 TAAATATAATTATA
*
4825372 TAAATAT-AGTATA
1 TAAATATAATTATA
*
4825385 TAAATTATAA-AATA
1 TAAA-TATAATTATA
4825399 TATAATAT--TT-TA
1 TA-AATATAATTATA
4825411 TAAATATA
1 TAAATATA
4825419 TCTCAAGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
11 5 0.13
12 4 0.10
13 9 0.23
14 18 0.46
15 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
TAAATATAATTATA
Found at i:4825475 original size:26 final size:25
Alignment explanation
Indices: 4825426--4825478 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
4825416 ATATCTCAAG
* *
4825426 ATTTATATAATATAAATTAATTAAA
1 ATTTATATAATAAAAAATAATTAAA
*
4825451 ATTTATATAAATAAAAAATATTTAAA
1 ATTTATAT-AATAAAAAATAATTAAA
4825477 AT
1 AT
4825479 ATGATTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTATATAATAAAAAATAATTAAA
Done.