Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 109 of 335
Found at i:33844714 original size:16 final size:17
Alignment explanation
Indices: 33844677--33844786 Score: 73
Period size: 17 Copynumber: 6.0 Consensus size: 17
33844667 ATAAATTTAA
*
33844677 ATGAGAAAAA-AATGAAT
1 ATGA-AAAAAGAATAAAT
33844694 ATGAAAAAAGAATAAATT
1 ATGAAAAAAGAATAAA-T
*
33844712 GAAATGAGAAAAA-AATGAAT
1 ---ATGA-AAAAAGAATAAAT
33844732 ATGAAAAAAGAATAAATT
1 ATGAAAAAAGAATAAA-T
*
33844750 GAAATGAGAAAAA-AATGAAT
1 ---ATGA-AAAAAGAATAAAT
33844770 ATGAAAAAAGAATAAAT
1 ATGAAAAAAGAATAAAT
33844787 TGGAATGAGA
Statistics
Matches: 75, Mismatches: 5, Indels: 26
0.71 0.05 0.25
Matches are distributed among these distances:
16 15 0.20
17 28 0.37
18 2 0.03
20 2 0.03
21 18 0.24
22 10 0.13
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.18
Consensus pattern (17 bp):
ATGAAAAAAGAATAAAT
Found at i:33844717 original size:38 final size:38
Alignment explanation
Indices: 33844667--33844812 Score: 249
Period size: 38 Copynumber: 3.9 Consensus size: 38
33844657 AAATTAAAAT
*
33844667 ATAAATTTAAATGAGAAAAAAATGAATATGAAAAAAGA
1 ATAAATTGAAATGAGAAAAAAATGAATATGAAAAAAGA
33844705 ATAAATTGAAATGAGAAAAAAATGAATATGAAAAAAGA
1 ATAAATTGAAATGAGAAAAAAATGAATATGAAAAAAGA
33844743 ATAAATTGAAATGAGAAAAAAATGAATATGAAAAAAGA
1 ATAAATTGAAATGAGAAAAAAATGAATATGAAAAAAGA
* * *
33844781 ATAAATTGGAATGAGAGAAAAATAAAT-TGAAA
1 ATAAATTGAAATGAGAAAAAAATGAATATGAAA
33844813 TGAGATTAAA
Statistics
Matches: 104, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
37 5 0.05
38 99 0.95
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (38 bp):
ATAAATTGAAATGAGAAAAAAATGAATATGAAAAAAGA
Found at i:33844718 original size:21 final size:20
Alignment explanation
Indices: 33844689--33845018 Score: 157
Period size: 21 Copynumber: 15.8 Consensus size: 20
33844679 GAGAAAAAAA
33844689 TGAATATGAAAAAAGAATAAAT
1 TGAA-ATGAAAAAA-AATAAAT
*
33844711 TGAAATG--AGAAAA-AAA-
1 TGAAATGAAAAAAAATAAAT
33844727 TGAATATGAAAAAAGAATAAAT
1 TGAA-ATGAAAAAA-AATAAAT
*
33844749 TGAAATG--AGAAAA-AAA-
1 TGAAATGAAAAAAAATAAAT
33844765 TGAATATGAAAAAAGAATAAAT
1 TGAA-ATGAAAAAA-AATAAAT
* *
33844787 TGGAATGAGAGAAAAATAAAT
1 TGAAATGA-AAAAAAATAAAT
*
33844808 TGAAATGAGATTAAAATGTGAAATGAAT
1 TGAAAT--GA--AAAA----AAATAAAT
*
33844836 ATGAAATTAAATTAAAATATAAAT
1 -TGAAATGAAA--AAAA-ATAAAT
33844860 TGAAATGAAAAAATAATAAAT
1 TGAAATGAAAAAA-AATAAAT
*
33844881 TGAAATGAGAAAATAATAAAT
1 TGAAATGA-AAAAAAATAAAT
33844902 TGAAATG--AAAAAATAAAT
1 TGAAATGAAAAAAAATAAAT
* ** *
33844920 TTAAATGAAATGAAATGAATTT
1 TGAAATGAAAAAAAAT-AA-AT
*
33844942 TGAAATGAAAATGAAATGAAA-
1 TGAAATGAAAA-AAAAT-AAAT
* *
33844963 TGAAATTTGAAATGAAAATGACA-
1 TGAAA--TGAAA-AAAAAT-AAAT
* *
33844986 TGAAAT--TAAAATATAAAT
1 TGAAATGAAAAAAAATAAAT
33845004 TGAAATGAAAAAAAA
1 TGAAATGAAAAAAAA
33845019 AATAACAAGA
Statistics
Matches: 240, Mismatches: 31, Indels: 76
0.69 0.09 0.22
Matches are distributed among these distances:
16 8 0.03
17 14 0.06
18 30 0.12
19 13 0.05
20 14 0.06
21 67 0.28
22 30 0.12
23 38 0.16
24 8 0.03
25 2 0.01
27 3 0.01
28 7 0.03
29 6 0.03
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (20 bp):
TGAAATGAAAAAAAATAAAT
Found at i:33844854 original size:18 final size:18
Alignment explanation
Indices: 33844655--33845014 Score: 127
Period size: 18 Copynumber: 19.6 Consensus size: 18
33844645 GAATATGAGA
*
33844655 TGAAATTAAAATATAAAT
1 TGAAATGAAAATATAAAT
*
33844673 TTAAATGAGAAA-A-AAA-
1 TGAAATGA-AAATATAAAT
*
33844689 TGAATATGAAAAAAGAATAAAT
1 TGAA-ATG--AAAA-TATAAAT
33844711 TGAAATGAGAAA-A-AAA-
1 TGAAATGA-AAATATAAAT
*
33844727 TGAATATGAAAAAAGAATAAAT
1 TGAA-ATG--AAAA-TATAAAT
33844749 TGAAATGAGAAA-A-AAA-
1 TGAAATGA-AAATATAAAT
*
33844765 TGAATATGAAAAAAGAATAAAT
1 TGAA-ATG--AAAA-TATAAAT
* *
33844787 TGGAATGAGAGAAAAATAAAT
1 TGAAAT--GA-AAATATAAAT
* *
33844808 TGAAATGAGATTA-AAAT
1 TGAAATGAAAATATAAAT
33844825 GTGAAATG--AATATGAAAT
1 -TGAAATGAAAATAT-AAAT
*
33844843 T-AAATTAAAATATAAAT
1 TGAAATGAAAATATAAAT
33844860 TGAAATGAAAAAATAATAAAT
1 TGAAATG--AAAAT-ATAAAT
33844881 TGAAATGAGAAAATAATAAAT
1 TGAAAT--GAAAAT-ATAAAT
*
33844902 TGAAATGAAAAAATAAAT
1 TGAAATGAAAATATAAAT
* *
33844920 TTAAATG-AAAT-GAAA-
1 TGAAATGAAAATATAAAT
*
33844935 TGAATTTTG-AAATGA-AAA-
1 TGAA--ATGAAAAT-ATAAAT
*
33844953 TGAAATG-AAATGA-AATT
1 TGAAATGAAAAT-ATAAAT
* *
33844970 TGAAATGAAAAT-GACA-
1 TGAAATGAAAATATAAAT
*
33844986 TGAAATTAAAATATAAAT
1 TGAAATGAAAATATAAAT
33845004 TGAAATGAAAA
1 TGAAATGAAAA
33845015 AAAAAATAAC
Statistics
Matches: 270, Mismatches: 25, Indels: 94
0.69 0.06 0.24
Matches are distributed among these distances:
15 3 0.01
16 42 0.16
17 47 0.17
18 73 0.27
19 15 0.06
20 14 0.05
21 60 0.22
22 14 0.05
23 2 0.01
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.24
Consensus pattern (18 bp):
TGAAATGAAAATATAAAT
Found at i:33844868 original size:28 final size:29
Alignment explanation
Indices: 33844808--33845013 Score: 119
Period size: 28 Copynumber: 7.2 Consensus size: 29
33844798 AAAAATAAAT
* *
33844808 TGAAATGAGATTAAAATGTGAAA-TGAATA
1 TGAAATGAAATTAAAATATGAAATTGAA-A
*
33844837 TGAAATTAAATTAAAATAT-AAATTGAAA
1 TGAAATGAAATTAAAATATGAAATTGAAA
* *
33844865 TGAAA--AAATAATAAAT-TGAAATGAGAAAA
1 TGAAATGAAATTA-AAATATGAAAT-TG-AAA
* * * *
33844894 TAATAAATTGAAATGAAAAAAT-AAATTTAAA
1 T--GAAA-TGAAATTAAAATATGAAATTGAAA
* * *
33844925 TGAAATGAAA-TGAATTTTGAAA-TGAAAA
1 TGAAATGAAATTAAAATATGAAATTG-AAA
* *
33844953 TGAAATGAAA-TGAAATTTGAAA-TGAAAA
1 TGAAATGAAATTAAAATATGAAATTG-AAA
*
33844981 TGACATGAAATTAAAATAT-AAATTGAAA
1 TGAAATGAAATTAAAATATGAAATTGAAA
33845009 TGAAA
1 TGAAA
33845014 AAAAAAATAA
Statistics
Matches: 140, Mismatches: 22, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
26 6 0.04
27 12 0.09
28 67 0.48
29 35 0.25
31 7 0.05
33 7 0.05
34 6 0.04
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (29 bp):
TGAAATGAAATTAAAATATGAAATTGAAA
Found at i:33844930 original size:5 final size:5
Alignment explanation
Indices: 33844902--33844991 Score: 69
Period size: 5 Copynumber: 17.2 Consensus size: 5
33844892 AATAATAAAT
* *
33844902 TGAAA TGAAA --AAA T-AAA TTTAAA TGAAA TGAAA TGAATTT TGAAA
1 TGAAA TGAAA TGAAA TGAAA -TGAAA TGAAA TGAAA TGAA--A TGAAA
*
33844947 TGAAAA TGAAA TGAAA TGAAA TTTGAAA TGAAAA TGACA TGAAA T
1 TG-AAA TGAAA TGAAA TGAAA --TGAAA TG-AAA TGAAA TGAAA T
33844992 TAAAATATAA
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 43 0.61
6 13 0.18
7 9 0.13
ACGTcount: A:0.57, C:0.01, G:0.16, T:0.27
Consensus pattern (5 bp):
TGAAA
Found at i:33844947 original size:17 final size:16
Alignment explanation
Indices: 33844925--33844979 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
33844915 TAAATTTAAA
33844925 TGAAATGAAATGAATTT
1 TGAAATGAAATGAA-TT
33844942 TGAAATG-AA--AA--
1 TGAAATGAAATGAATT
33844953 TGAAATGAAATGAAATT
1 TGAAATGAAATG-AATT
33844970 TGAAATGAAA
1 TGAAATGAAA
33844980 ATGACATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
11 7 0.22
12 2 0.06
14 2 0.06
15 2 0.06
16 2 0.06
17 17 0.53
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (16 bp):
TGAAATGAAATGAATT
Found at i:33844990 original size:23 final size:22
Alignment explanation
Indices: 33844925--33844992 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
33844915 TAAATTTAAA
*
33844925 TGAAATGAAATGAATTTTGAAA--
1 TGAAATGAAATGAA--ATGAAATT
33844947 TGAAAATGAAATGAAATGAAATT
1 TG-AAATGAAATGAAATGAAATT
*
33844970 TGAAATGAAAATGACATGAAATT
1 TGAAATG-AAATGAAATGAAATT
33844993 AAAATATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 5 0.12
22 7 0.17
23 28 0.70
ACGTcount: A:0.53, C:0.01, G:0.18, T:0.28
Consensus pattern (22 bp):
TGAAATGAAATGAAATGAAATT
Found at i:33845272 original size:23 final size:22
Alignment explanation
Indices: 33845237--33845306 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
33845227 ACTTGAAATG
*
33845237 AATATGAAA-TGAAATGAAATTAA
1 AATAT-AAATTGAAATGAAA-AAA
33845260 AATATAAATTGAAAT-AAAAAA
1 AATATAAATTGAAATGAAAAAA
* *
33845281 AAAATTAATTGAAATGAGAAAAA
1 AATATAAATTGAAATGA-AAAAA
33845304 AAT
1 AAT
33845307 TGAAATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 15 0.38
22 7 0.17
23 18 0.45
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (22 bp):
AATATAAATTGAAATGAAAAAA
Found at i:33845290 original size:21 final size:22
Alignment explanation
Indices: 33845258--33845325 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
33845248 AAATGAAATT
33845258 AAAATATAAATTGAAATAAAAAA
1 AAAAT-TAAATTGAAATAAAAAA
* *
33845281 AAAATT-AATTGAAATGAGAAA
1 AAAATTAAATTGAAATAAAAAA
*
33845302 AAAATTGAAATATTAAATAAAAAA
1 AAAATT-AAAT-TGAAATAAAAAA
33845326 TTGTTAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 19 0.51
22 1 0.03
23 8 0.22
24 9 0.24
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (22 bp):
AAAATTAAATTGAAATAAAAAA
Found at i:33845358 original size:17 final size:17
Alignment explanation
Indices: 33845338--33845568 Score: 75
Period size: 17 Copynumber: 14.0 Consensus size: 17
33845328 GTTAAAAAGT
*
33845338 TGAAATGCAATGAAATA
1 TGAAATGAAATGAAATA
* *
33845355 TGAAATGAAATGTAATT
1 TGAAATGAAATGAAATA
33845372 TGAAATGAATAT-AAA-A
1 TGAAATGAA-ATGAAATA
*
33845388 TTAAATGAAAGTTGAAATA
1 TGAAATGAAA--TGAAATA
33845407 --AATATGAAATGAAA-A
1 TGAA-ATGAAATGAAATA
* * *
33845422 TAAAATAAAATATAAAT-
1 TGAAATGAAAT-GAAATA
* *
33845439 TGCAATTAAA--AAAT-
1 TGAAATGAAATGAAATA
* * *
33845453 TGAAATCAGA-CAAA-A
1 TGAAATGAAATGAAATA
*
33845468 --AAAT-AATATGAAAAA
1 TGAAATGAA-ATGAAATA
*
33845483 AG-AAT-AAATTGAAATGA
1 TGAAATGAAA-TGAAAT-A
*
33845500 -GAAA-AAAATTGAAATA
1 TGAAATGAAAT-GAAATA
* *
33845516 TGAAATGAATTGAAAAA
1 TGAAATGAAATGAAATA
*
33845533 CTGAAATGCAATGAAATA
1 -TGAAATGAAATGAAATA
33845551 TGAAATGAATATGAAATA
1 TGAAATGAA-ATGAAATA
33845569 AAATGTAATT
Statistics
Matches: 164, Mismatches: 24, Indels: 51
0.69 0.10 0.21
Matches are distributed among these distances:
12 1 0.01
13 5 0.03
14 14 0.09
15 7 0.04
16 32 0.20
17 68 0.41
18 36 0.22
19 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.13, T:0.25
Consensus pattern (17 bp):
TGAAATGAAATGAAATA
Found at i:33845388 original size:28 final size:28
Alignment explanation
Indices: 33845346--33845420 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
33845336 GTTGAAATGC
* *
33845346 AATGAAATATGAAATGAAATGTAATTTGA
1 AATG-AATATGAAATGAAATGAAAGTTGA
* *
33845375 AATGAATATAAAATTAAATGAAAGTTGA
1 AATGAATATGAAATGAAATGAAAGTTGA
*
33845403 AATAAATATGAAATGAAA
1 AATGAATATGAAATGAAA
33845421 ATAAAATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 35 0.90
29 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (28 bp):
AATGAATATGAAATGAAATGAAAGTTGA
Found at i:33845403 original size:23 final size:23
Alignment explanation
Indices: 33845377--33845420 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
33845367 TAATTTGAAA
*
33845377 TGAATATAAA-ATTAAATGAAAGT
1 TGAA-ATAAATATGAAATGAAAGT
33845400 TGAAATAAATATGAAATGAAA
1 TGAAATAAATATGAAATGAAA
33845421 ATAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (23 bp):
TGAAATAAATATGAAATGAAAGT
Found at i:33845539 original size:18 final size:17
Alignment explanation
Indices: 33845506--33845568 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 17
33845496 ATGAGAAAAA
33845506 AATTGAAATATGAAATG
1 AATTGAAATATGAAATG
*
33845523 AATTGAAAAACTGAAATG
1 AATTGAAATA-TGAAATG
33845541 CAA-TGAAATATGAAATG
1 -AATTGAAATATGAAATG
33845558 AATATGAAATA
1 AAT-TGAAATA
33845569 AAATGTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.05
17 16 0.40
18 20 0.50
19 2 0.05
ACGTcount: A:0.56, C:0.03, G:0.16, T:0.25
Consensus pattern (17 bp):
AATTGAAATATGAAATG
Found at i:33845565 original size:28 final size:28
Alignment explanation
Indices: 33845542--33845607 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
33845532 ACTGAAATGC
33845542 AATGAAATATGAAATGAATATGAAATAA
1 AATGAAATATGAAATGAATATGAAATAA
* * * *
33845570 AATGTAATTTGAAATGAAAATAAAATATA
1 AATGAAATATGAAATGAATATGAAATA-A
33845599 AATTGAAAT
1 AA-TGAAAT
33845608 GAAAAACACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 23 0.74
29 3 0.10
30 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (28 bp):
AATGAAATATGAAATGAATATGAAATAA
Found at i:33845582 original size:23 final size:22
Alignment explanation
Indices: 33845534--33845910 Score: 138
Period size: 23 Copynumber: 17.5 Consensus size: 22
33845524 ATTGAAAAAC
* *
33845534 TGAAATGCAATGAAATATGAAA-
1 TGAAATGAAATAAAATAT-AAAT
* *
33845556 TGAATATGAAATAAAATGTAATT
1 TGAA-ATGAAATAAAATATAAAT
33845579 TGAAATGAAAATAAAATATAAAT
1 TGAAATG-AAATAAAATATAAAT
* * *
33845602 TGAAATGAAA-AACA-CTAACT
1 TGAAATGAAATAAAATATAAAT
** * * *
33845622 TGAAATGGGACAAAAAATTAAT
1 TGAAATGAAATAAAATATAAAT
*
33845644 AT-AAA--AAA-AAGA-ATAAAT
1 -TGAAATGAAATAAAATATAAAT
*
33845662 TGAAATGAGAAAAAAAT-TGAAAT
1 TGAAATGA-AATAAAATAT-AAAT
*
33845685 ATGAAATGAAATGAAA-A-AAAT
1 -TGAAATGAAATAAAATATAAAT
* * *
33845706 TGAAATGCAATGAAATATGAAT
1 TGAAATGAAATAAAATATAAAT
* ** *
33845728 TGAATATGGAATGGAATATAATT
1 TGAA-ATGAAATAAAATATAAAT
*
33845751 TGAAATGAAATGAAAGT-TGAAA-
1 TGAAATGAAAT-AAAATAT-AAAT
*
33845773 TGAATATGAAATGAAAATA-AAACA
1 TGAA-ATGAAAT-AAAATATAAA-T
*
33845797 T-AAATTGAAATAAAA-A-AACT
1 TGAAA-TGAAATAAAATATAAAT
* *
33845817 TGAAATG--AGACAA-A-AAAT
1 TGAAATGAAATAAAATATAAAT
* **
33845835 T-AATATGAAAAAAAACCTAAAT
1 TGAA-ATGAAATAAAATATAAAT
33845857 TGAAATGAGAA-AAAA-ATAAAT
1 TGAAATGA-AATAAAATATAAAT
* *
33845878 TGAAATGAAAAAAAATTTAAA-
1 TGAAATGAAATAAAATATAAAT
*
33845899 TGCAATGAAATA
1 TGAAATGAAATA
33845911 TGAAATGAAA
Statistics
Matches: 274, Mismatches: 46, Indels: 71
0.70 0.12 0.18
Matches are distributed among these distances:
17 3 0.01
18 20 0.07
19 3 0.01
20 37 0.14
21 46 0.17
22 65 0.24
23 91 0.33
24 9 0.03
ACGTcount: A:0.59, C:0.03, G:0.14, T:0.24
Consensus pattern (22 bp):
TGAAATGAAATAAAATATAAAT
Found at i:33845583 original size:35 final size:35
Alignment explanation
Indices: 33845506--33845584 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
33845496 ATGAGAAAAA
*
33845506 AATTGAAATATGAAATGAATTGAAAAACTGAAATGC
1 AATTGAAATATGAAATGAATTG-AAAACTAAAATGC
*
33845542 AA-TGAAATATGAAATGAATATG-AAA-TAAAATGT
1 AATTGAAATATGAAATGAAT-TGAAAACTAAAATGC
33845575 AATTTGAAAT
1 AA-TTGAAAT
33845585 GAAAATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
33 8 0.21
34 3 0.08
35 23 0.61
36 4 0.11
ACGTcount: A:0.54, C:0.03, G:0.15, T:0.28
Consensus pattern (35 bp):
AATTGAAATATGAAATGAATTGAAAACTAAAATGC
Found at i:33845584 original size:17 final size:17
Alignment explanation
Indices: 33845553--33845590 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
33845543 ATGAAATATG
33845553 AAATGAATATGAAAT-A
1 AAATGAATATGAAATGA
*
33845569 AAATGTAATTTGAAATGA
1 AAATG-AATATGAAATGA
33845587 AAAT
1 AAAT
33845591 AAAATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 9 0.47
18 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (17 bp):
AAATGAATATGAAATGA
Found at i:33845685 original size:27 final size:26
Alignment explanation
Indices: 33845670--33845721 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
33845660 ATTGAAATGA
33845670 GAAAAAAATTGAAATATGAAATGAAAT
1 GAAAAAAATTGAAATA-GAAATGAAAT
*
33845697 GAAAAAAATTGAAAT-GCAATGAAAT
1 GAAAAAAATTGAAATAGAAATGAAAT
33845722 ATGAATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
27 15 0.62
ACGTcount: A:0.62, C:0.02, G:0.15, T:0.21
Consensus pattern (26 bp):
GAAAAAAATTGAAATAGAAATGAAAT
Found at i:33845695 original size:5 final size:5
Alignment explanation
Indices: 33845685--33845788 Score: 59
Period size: 5 Copynumber: 19.2 Consensus size: 5
33845675 AAATTGAAAT
* * *
33845685 ATGAA ATGAA ATGAA A-AAA ATTGAA ATGCA ATGAAA TATGAA TTGAA
1 ATGAA ATGAA ATGAA ATGAA A-TGAA ATGAA ATG-AA -ATGAA ATGAA
* *
33845732 TATGGA ATGGAA TAT-AA TTTGAA ATGAA ATGAA AGTTGAA ATGAA TATGAA
1 -ATGAA AT-GAA -ATGAA -ATGAA ATGAA ATGAA A--TGAA ATGAA -ATGAA
33845783 ATGAA A
1 ATGAA A
33845789 ATAAAACATA
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
4 3 0.04
5 47 0.60
6 18 0.23
7 10 0.13
ACGTcount: A:0.54, C:0.01, G:0.19, T:0.26
Consensus pattern (5 bp):
ATGAA
Found at i:33845696 original size:12 final size:12
Alignment explanation
Indices: 33845679--33845788 Score: 56
Period size: 11 Copynumber: 9.4 Consensus size: 12
33845669 AGAAAAAAAT
33845679 TGAAATATGAAA
1 TGAAATATGAAA
**
33845691 TGAAATGAAAAAAA
1 TGAAAT--ATGAAA
*
33845705 TTG-AA-ATGCAA
1 -TGAAATATGAAA
*
33845716 TGAAATATGAAT
1 TGAAATATGAAA
*
33845728 TG-AATATGGAA
1 TGAAATATGAAA
* *
33845739 TGGAATAT-AATT
1 TGAAATATGAA-A
33845751 TG-AA-ATGAAA
1 TGAAATATGAAA
33845761 TGAAAGT-TGAAA
1 TGAAA-TATGAAA
33845773 TG-AATATGAAA
1 TGAAATATGAAA
33845784 TGAAA
1 TGAAA
33845789 ATAAAACATA
Statistics
Matches: 73, Mismatches: 12, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
10 7 0.10
11 30 0.41
12 28 0.38
14 6 0.08
15 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.19, T:0.26
Consensus pattern (12 bp):
TGAAATATGAAA
Found at i:33845725 original size:27 final size:29
Alignment explanation
Indices: 33845662--33845726 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 29
33845652 AAGAATAAAT
33845662 TGAAATGA-GAAAAAAATTGAAATATGAAA
1 TGAAAT-ATGAAAAAAATTGAAATATGAAA
*
33845691 TG-AA-ATGAAAAAAATTG-AA-ATGCAA
1 TGAAATATGAAAAAAATTGAAATATGAAA
33845716 TGAAATATGAA
1 TGAAATATGAA
33845727 TTGAATATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
25 7 0.22
26 5 0.16
27 16 0.50
28 2 0.06
29 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.17, T:0.22
Consensus pattern (29 bp):
TGAAATATGAAAAAAATTGAAATATGAAA
Found at i:33845823 original size:38 final size:36
Alignment explanation
Indices: 33845779--33845900 Score: 120
Period size: 38 Copynumber: 3.2 Consensus size: 36
33845769 GAAATGAATA
*
33845779 TGAAATGAAAATAAAACATAAATTGAAATAAAAAAACT
1 TGAAATGAAAA-AAAA-ATAAATTGAAATAAAAAAAAT
* *
33845817 TGAAATGAGACAAAAAATTAATATGAAA-AAAAACCTAAAT
1 TGAAATGA-AAAAAAAATAAAT-TGAAATAAAAA---AAAT
*
33845857 TGAAATGAGAAAAAAATAAATTGAAATGAAAAAAAAT
1 TGAAATGAAAAAAAAATAAATTGAAAT-AAAAAAAAT
*
33845894 TTAAATG
1 TGAAATG
33845901 CAATGAAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
37 20 0.29
38 22 0.31
39 12 0.17
40 16 0.23
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.21
Consensus pattern (36 bp):
TGAAATGAAAAAAAAATAAATTGAAATAAAAAAAAT
Found at i:33845870 original size:21 final size:21
Alignment explanation
Indices: 33845831--33845892 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
33845821 ATGAGACAAA
*
33845831 AAATT-AATATGAAAAAAAACCT
1 AAATTGAA-ATGAAAAAAAA-AT
*
33845853 AAATTGAAATGAGAAAAAAAT
1 AAATTGAAATGAAAAAAAAAT
33845874 AAATTGAAATGAAAAAAAA
1 AAATTGAAATGAAAAAAAA
33845893 TTTAAATGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.53
22 15 0.42
23 2 0.06
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.19
Consensus pattern (21 bp):
AAATTGAAATGAAAAAAAAAT
Found at i:33845899 original size:16 final size:17
Alignment explanation
Indices: 33845655--33845936 Score: 60
Period size: 17 Copynumber: 15.9 Consensus size: 17
33845645 TAAAAAAAAG
33845655 AATAAATTGAAATGAGAA
1 AATAAATTGAAATGA-AA
*
33845673 AA-AAATTGAAAT-ATGA
1 AATAAATTGAAATGA-AA
33845689 AATGAAA-TGAAA--AAA
1 AAT-AAATTGAAATGAAA
* *
33845704 ATTGAAA-TGCAATGAAA
1 AAT-AAATTGAAATGAAA
* *
33845721 TATGAATTGAATATGGAATGGA
1 AATAAATTGAA-AT-GAA---A
*
33845743 ATATAATTTGAAATG--A
1 A-ATAAATTGAAATGAAA
33845759 AATGAAAGTTGAAATG-AA
1 AAT-AAA-TTGAAATGAAA
*
33845777 TATGAAA-TGAAAAT-AAA
1 AAT-AAATTG-AAATGAAA
33845794 ACATAAATTGAAAT-AAA
1 A-ATAAATTGAAATGAAA
*
33845811 AA-AACTTGAAATGAGACA
1 AATAAATTGAAATGA-A-A
33845829 AA-AAATT-AATATGAAAAAA
1 AATAAATTGAA-ATG---AAA
33845848 AACCTAAATTGAAATGAGAAAAA
1 AA--TAAATTGAAAT--G--AAA
33845871 AATAAATTGAAATGAAA
1 AATAAATTGAAATGAAA
* *
33845888 AA-AAATTTAAATG--C
1 AATAAATTGAAATGAAA
33845902 AATGAAATATGAAATGAAA
1 AAT-AAAT-TGAAATGAAA
** *
33845921 TGTAATTTGAAATGAA
1 AATAAATTGAAATGAA
33845937 TATGAAATGA
Statistics
Matches: 204, Mismatches: 24, Indels: 73
0.68 0.08 0.24
Matches are distributed among these distances:
14 2 0.01
15 22 0.11
16 29 0.14
17 70 0.34
18 31 0.15
19 8 0.04
20 1 0.00
21 13 0.06
22 10 0.05
23 17 0.08
24 1 0.00
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (17 bp):
AATAAATTGAAATGAAA
Found at i:33845908 original size:21 final size:20
Alignment explanation
Indices: 33845402--33845893 Score: 129
Period size: 23 Copynumber: 23.2 Consensus size: 20
33845392 ATGAAAGTTG
33845402 AAATAAATATGAAATGAAAATA
1 AAATAAAT-TGAAATGAAAA-A
* **
33845424 AAATAAAATAT-AAATTGCAATT
1 AAAT-AAAT-TGAAA-TGAAAAA
* * *
33845446 AAA-AAATTGAAATCAGACA
1 AAATAAATTGAAATGAAAAA
33845465 AAA-AAA-T-AATATGAAAAA
1 AAATAAATTGAA-ATGAAAAA
33845483 AGAATAAATTGAAATGAGAAAA
1 A-AATAAATTGAAATGA-AAAA
**
33845505 AAATTGAAATATGAAATG-AATT
1 AAA-T-AAAT-TGAAATGAAAAA
* * *
33845527 GAA-AAACTGAAATGCAATGAA
1 AAATAAATTGAAATG-AA-AAA
*
33845548 ATATGAAA-TGAATATGAAATAA
1 AAAT-AAATTGAA-ATGAAA-AA
* *
33845570 AATGTAATTTGAAATGAAAATAA
1 AA-ATAAATTGAAATG-AAA-AA
33845593 AATATAAATTGAAATGAAAAA
1 AA-ATAAATTGAAATGAAAAA
* * * *
33845614 CACTAACTTGAAATGGGACAAA
1 AAATAAATTGAAAT--GAAAAA
*
33845636 AAATTAATAT-AAA--AAAAA
1 AAATAAAT-TGAAATGAAAAA
*
33845654 GAATAAATTGAAATGAGAAAA
1 AAATAAATTGAAATGA-AAAA
*
33845675 AAATTGAAATATGAAATGAAATGA
1 AAA-T-AAAT-TGAAATGAAA-AA
*
33845699 AAA-AAATTGAAATGCAATGAA
1 AAATAAATTGAAATG-AA-AAA
* * **
33845720 ATATGAATTGAATATGGAATGGA
1 AAATAAATTGAA-AT-GAA-AAA
* *
33845743 ATATAATTTGAAATGAAATGAA
1 AAATAAATTGAAATGAAA--AA
** *
33845765 AGTTGAAA-TGAATATGAAATGA
1 AAAT-AAATTGAA-ATGAAA-AA
*
33845787 AAATAAAACAT-AAATTGAAATAA
1 AAAT-AAA-TTGAAA-TGAAA-AA
* * *
33845810 AAA-AACTTGAAATG-AGAC
1 AAATAAATTGAAATGAAAAA
33845828 AAA-AAATT-AATATGAAAAA
1 AAATAAATTGAA-ATGAAAAA
33845847 AAACCTAAATTGAAATGAGAAAA
1 AAA--TAAATTGAAATGA-AAAA
33845870 AAATAAATTGAAATGAAAAA
1 AAATAAATTGAAATGAAAAA
33845890 AAAT
1 AAAT
33845894 TTAAATGCAA
Statistics
Matches: 353, Mismatches: 64, Indels: 108
0.67 0.12 0.21
Matches are distributed among these distances:
17 5 0.01
18 38 0.11
19 20 0.06
20 40 0.11
21 47 0.13
22 84 0.24
23 98 0.28
24 21 0.06
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.23
Consensus pattern (20 bp):
AAATAAATTGAAATGAAAAA
Found at i:33845918 original size:5 final size:5
Alignment explanation
Indices: 33845896--33846062 Score: 64
Period size: 5 Copynumber: 29.6 Consensus size: 5
33845886 AAAAAAATTT
* *
33845896 AAATG CAATG AAATATG AAATG AAATG TAATTTG AAATG AATATG AAATG
1 AAATG AAATG -AA-ATG AAATG AAATG -AA-ATG AAATG AA-ATG AAATG
* * * * * *
33845946 AAAGCTA AAATG AATACG AAATG AAAATA AAATAT AAATTA AAATGTG GAATG
1 AAA--TG AAATG AA-ATG AAATG -AAATG AAAT-G AAA-TG AAA--TG AAATG
* * *
33845999 AAAATG AAATT AAGTG AAATTTG AAATG AAAATG AAATT AAATG AAATG
1 -AAATG AAATG AAATG AAA--TG AAATG -AAATG AAATG AAATG AAATG
33846048 AAATATG AAATG AAA
1 -AA-ATG AAATG AAA
33846063 AAAAAATGAC
Statistics
Matches: 123, Mismatches: 21, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
5 63 0.51
6 39 0.32
7 21 0.17
ACGTcount: A:0.57, C:0.02, G:0.16, T:0.25
Consensus pattern (5 bp):
AAATG
Found at i:33845921 original size:28 final size:28
Alignment explanation
Indices: 33845902--33846062 Score: 79
Period size: 28 Copynumber: 5.6 Consensus size: 28
33845892 ATTTAAATGC
*
33845902 AATGAAATATGAAATGAAATGTAATTTGA
1 AATG-AATATGAAATGAAATGTAATATGA
*
33845931 AATGAATATGAAATGAAA-GCTAAAATGA
1 AATGAATATGAAATGAAATG-TAATATGA
* * * *
33845959 ATACGAA-ATGAAAATAAAATATAA-ATTAA
1 A-ATGAATATG-AAATGAAATGTAATA-TGA
* *
33845988 AATGTGGA-ATGAAAATGAAAT-TAA-GTGA
1 AA--TGAATATG-AAATGAAATGTAATATGA
33846016 AATTTGAA-ATGAAAATGAAAT-TAA-ATGA
1 AA--TGAATATG-AAATGAAATGTAATATGA
33846044 AATGAAATATGAAATGAAA
1 AATG-AATATGAAATGAAA
33846063 AAAAAATGAC
Statistics
Matches: 109, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
26 2 0.02
27 11 0.10
28 58 0.53
29 24 0.22
30 14 0.13
ACGTcount: A:0.57, C:0.01, G:0.16, T:0.25
Consensus pattern (28 bp):
AATGAATATGAAATGAAATGTAATATGA
Found at i:33845922 original size:17 final size:17
Alignment explanation
Indices: 33845870--33846062 Score: 91
Period size: 17 Copynumber: 12.2 Consensus size: 17
33845860 AATGAGAAAA
33845870 AAAT-AAAT-TGAAATG
1 AAATGAAATATGAAATG
** *
33845885 AAAAAAAAT-TTAAATG
1 AAATGAAATATGAAATG
*
33845901 CAATGAAATATGAAATG
1 AAATGAAATATGAAATG
*
33845918 AAATGTAAT-T----TG
1 AAATGAAATATGAAATG
33845930 AAATG-AATATGAAATG
1 AAATGAAATATGAAATG
*
33845946 AAA-GCTAAA-ATGAATACG
1 AAATG--AAATATGAA-ATG
* *
33845964 AAATGAAA-ATAAAATAT
1 AAATGAAATATGAAAT-G
*
33845981 AAATTAAA-ATG---TG
1 AAATGAAATATGAAATG
* *
33845994 GAATGAAA-ATGAAATT
1 AAATGAAATATGAAATG
* *
33846010 AAGTGAAATTTGAAATG
1 AAATGAAATATGAAATG
33846027 AAAATGAAAT-T-AAATG
1 -AAATGAAATATGAAATG
33846043 AAATGAAATATGAAATG
1 AAATGAAATATGAAATG
33846060 AAA
1 AAA
33846063 AAAAAATGAC
Statistics
Matches: 135, Mismatches: 23, Indels: 38
0.69 0.12 0.19
Matches are distributed among these distances:
11 3 0.02
12 8 0.06
13 9 0.07
14 1 0.01
15 13 0.10
16 36 0.27
17 49 0.36
18 15 0.11
19 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.15, T:0.25
Consensus pattern (17 bp):
AAATGAAATATGAAATG
Found at i:33850309 original size:18 final size:17
Alignment explanation
Indices: 33850270--33850308 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
33850260 AGTCTAAATA
33850270 TTTTATTTATTCATTTGT
1 TTTTATTTATT-ATTTGT
33850288 TTTTATTTATT-TTTAGT
1 TTTTATTTATTATTT-GT
33850305 TTTT
1 TTTT
33850309 TTTTGAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 6 0.30
18 11 0.55
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTATTTATTATTTGT
Found at i:33852676 original size:136 final size:137
Alignment explanation
Indices: 33852432--33852717 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
33852422 CATTGGGCCT
** * * *
33852432 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAATGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
33852497 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
33852561 CATATGC
131 CATATGC
33852568 AAGCCCATTTGGGTAACAATGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAATGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
33852633 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
33852698 CATATGC
131 CATATGC
33852705 AAGCCCATTTGGG
1 AAGCCCATTTGGG
33852718 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAATGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:33854539 original size:26 final size:26
Alignment explanation
Indices: 33854501--33854610 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
33854491 CATGATATTC
33854501 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
33854527 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
33854553 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* **
33854579 TTATCATGGAACATTTACCTAACTTA
1 TTATCATGAAACATTTACCTAACCCA
33854605 TTATCA
1 TTATCA
33854611 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:33854579 original size:52 final size:52
Alignment explanation
Indices: 33854501--33854610 Score: 211
Period size: 52 Copynumber: 2.1 Consensus size: 52
33854491 CATGATATTC
33854501 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
*
33854553 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACTTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
33854605 TTATCA
1 TTATCA
33854611 ATTTGTATCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:33855142 original size:27 final size:27
Alignment explanation
Indices: 33855112--33855180 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
33855102 AGTATAAAGA
*
33855112 GTATAACAGTCATTTCACCCTACAGGG
1 GTATTACAGTCATTTCACCCTACAGGG
33855139 GTATTACAGTCATTTCACCCTACAGGG
1 GTATTACAGTCATTTCACCCTACAGGG
33855166 GTATTACAGTCATTT
1 GTATTACAGTCATTT
33855181 TTGTCAGAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (27 bp):
GTATTACAGTCATTTCACCCTACAGGG
Found at i:33862163 original size:29 final size:30
Alignment explanation
Indices: 33862130--33862196 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
33862120 AATATATAAC
**
33862130 AAAATTTCTGGAATTAAAAATAGA-ATGACT
1 AAAATTTCTAAAATTAAAAATAGAGAT-ACT
* *
33862160 -AAATTTTTAAAATTAAAAGTAGAGATACT
1 AAAATTTCTAAAATTAAAAATAGAGATACT
33862189 AAAATTTC
1 AAAATTTC
33862197 AATTGTGTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (30 bp):
AAAATTTCTAAAATTAAAAATAGAGATACT
Found at i:33867099 original size:48 final size:49
Alignment explanation
Indices: 33867042--33867147 Score: 196
Period size: 48 Copynumber: 2.2 Consensus size: 49
33867032 ACATTTGGTA
33867042 CAAGTTTCATACTTCTAACCATTAACCTATATTTCATTTATGCATTTG-
1 CAAGTTTCATACTTCTAACCATTAACCTATATTTCATTTATGCATTTGC
33867090 CAAGTTTCATACTTCTAACCATTAACCTATATTTCATTTATGCATTTGC
1 CAAGTTTCATACTTCTAACCATTAACCTATATTTCATTTATGCATTTGC
33867139 CAAGATTTC
1 CAAG-TTTC
33867148 CAATTCCAGA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
48 48 0.86
49 4 0.07
50 4 0.07
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (49 bp):
CAAGTTTCATACTTCTAACCATTAACCTATATTTCATTTATGCATTTGC
Found at i:33868692 original size:146 final size:148
Alignment explanation
Indices: 33868497--33868765 Score: 411
Period size: 147 Copynumber: 1.8 Consensus size: 148
33868487 AAAAGCTTTG
* ** *
33868497 ATTTTTTTTTAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATACGTTTTTTTAGTCATTTTAAA
1 ATTTTTTTTAAAAAGAGAAAAATTAGATTTTAAAAATAAAAATACG-TTTTTTAGTCATTTGAAA
*
33868562 GG-AAAGTTTAAA-TTTTTAAAACAAAGTTTTGAT-TCTTTTCCACTATTTCAAAATAAAAACTT
65 GGAAAAGTTTAAATTTTTTAAAACAAAGTTTTGATCT-TTTTCAACTATTTCAAAATAAAAACTT
33868624 TGATATTTAAGAAGAATAGT
129 TGATATTTAAGAAGAATAGT
* *
33868644 ATTTTTTTTAAAAAGA-AAAAATTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATTTGAAAG
1 ATTTTTTTTAAAAAGAGAAAAATTAGATTTTAAAAATAAAAATACGTTTTTTAGTCATTTGAAAG
* *
33868708 GAAAAGTTTAAATTTTTTAAAACAAATTTTTGATCTTTTTCAACTATTTCGAAATAAA
66 GAAAAGTTTAAATTTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAA
33868766 GTTTTGATTT
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
145 19 0.17
146 35 0.32
147 55 0.50
148 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (148 bp):
ATTTTTTTTAAAAAGAGAAAAATTAGATTTTAAAAATAAAAATACGTTTTTTAGTCATTTGAAAG
GAAAAGTTTAAATTTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAAACTTTG
ATATTTAAGAAGAATAGT
Found at i:33885765 original size:3 final size:3
Alignment explanation
Indices: 33885757--33885803 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
33885747 TATGTAAATA
* *
33885757 AAT AAT AAT AGAT AA- AAT AAT AAT AAT GAT AGT AAT AAT AAAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
33885803 A
1 A
33885804 TATATAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:33885778 original size:18 final size:19
Alignment explanation
Indices: 33885752--33885803 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
33885742 AAACATATGT
33885752 AAATAAATAATAATAGATA-
1 AAAT-AATAATAATAGATAG
33885771 AAATAATAATAAT-GATAG
1 AAATAATAATAATAGATAG
*
33885789 TAATAATAAATAATA
1 AAATAAT-AATAATA
33885804 TATATAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.14
18 15 0.52
19 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (19 bp):
AAATAATAATAATAGATAG
Found at i:33885889 original size:12 final size:11
Alignment explanation
Indices: 33885861--33885906 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
33885851 GATTGAAGAA
*
33885861 ATAAATAAATAA
1 ATAAATAAA-AT
33885873 ATAAATAAAAT
1 ATAAATAAAAT
*
33885884 ATTAAATGAAAT
1 A-TAAATAAAAT
33885896 ATAAATAAAAT
1 ATAAATAAAAT
33885907 TGTTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 11 0.37
12 19 0.63
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
ATAAATAAAAT
Found at i:33887339 original size:44 final size:44
Alignment explanation
Indices: 33887249--33887349 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
33887239 TCGTTCCAAC
* * * *
33887249 CCACTGCAACTTCAGGGGTATAGGAATTGTCGATTCAATGTGCT
1 CCACTGCAACTTCAGGGGGATAGGAATTGTAGATTCAATCTACT
* * *
33887293 CCACTGCATCTTCAGGGGGATTA-GACTTGTAGATTTAATCTACT
1 CCACTGCAACTTCAGGGGGA-TAGGAATTGTAGATTCAATCTACT
33887337 CCACTGCAACTTC
1 CCACTGCAACTTC
33887350 GGGTAGTTGA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 46 0.96
45 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGGGATAGGAATTGTAGATTCAATCTACT
Found at i:33887589 original size:44 final size:43
Alignment explanation
Indices: 33887526--33887728 Score: 158
Period size: 44 Copynumber: 4.6 Consensus size: 43
33887516 CTTCAACCTA
* *
33887526 CTCCATTGCAACTTTAGGGAGATAAGGTTAATGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGTT-ATGGCTTTAATCTG
* * * *
33887570 CTCCACCGTAACTTCAGGGAGATAAGATT-TGCCATTTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGTTATGGC--TTT-AATCTG
* * * * ** *
33887615 CTCCACTGTAACTTCAGGGAGTTGAGGTTCGTAACTTCAA-CGTG
1 CTCCACTGCAACTTCAGGGAGATAAGGTT-ATGGCTTTAATC-TG
* * *
33887659 CTCCACTGCAACTTTAGGGAGACAAGGTTTATGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGG-TTATGGCTTTAATCTG
* * *
33887703 ATCCACTGCAACTTCAAGAAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
33887729 ATTCATCATG
Statistics
Matches: 123, Mismatches: 28, Indels: 16
0.74 0.17 0.10
Matches are distributed among these distances:
42 3 0.02
43 1 0.01
44 81 0.66
45 36 0.29
47 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGGTTATGGCTTTAATCTG
Found at i:33887626 original size:45 final size:45
Alignment explanation
Indices: 33887475--33887635 Score: 148
Period size: 45 Copynumber: 3.6 Consensus size: 45
33887465 TTGTAGCTTA
* * ** * *
33887475 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATCCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTTTC
* * * * * *
33887520 AACCTACTCCATTGCAACTTTAGGGAGATAAGGTTAATGGC--TTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT--TGCCATTTTC
* *
33887564 AATCTGCTCCACCGTAACTTCAGGGAGATAAGATTTGCCATTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTTTC
*
33887609 AATCTGCTCCACTGTAACTTCAGGGAG
1 AATCTGCTCCACTGCAACTTCAGGGAG
33887636 TTGAGGTTCG
Statistics
Matches: 90, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
42 3 0.03
44 31 0.34
45 55 0.61
47 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTTTC
Found at i:33887643 original size:89 final size:89
Alignment explanation
Indices: 33887470--33887635 Score: 206
Period size: 89 Copynumber: 1.9 Consensus size: 89
33887460 ATAATTTGTA
* * * *
33887470 GCTTAAATCTGTTCCACTGCAACTTCAGGGAAATAAGATCCGCTATCTTCAACCTACTCCATTGC
1 GCTTAAATCTGCTCCACCGCAACTTCAGGGAAATAAGATCCGCCATCTTCAACCTACTCCACTGC
*
33887535 AACTTTAGGGAGATAAGGTTAATG
66 AACTTCAGGGAGATAAGGTTAATG
* * * ** * * * *
33887559 GCTTTAATCTGCTCCACCGTAACTTCAGGGAGATAAGATTTGCCATTTTCAATCTGCTCCACTGT
1 GCTTAAATCTGCTCCACCGCAACTTCAGGGAAATAAGATCCGCCATCTTCAACCTACTCCACTGC
33887624 AACTTCAGGGAG
66 AACTTCAGGGAG
33887636 TTGAGGTTCG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
89 63 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (89 bp):
GCTTAAATCTGCTCCACCGCAACTTCAGGGAAATAAGATCCGCCATCTTCAACCTACTCCACTGC
AACTTCAGGGAGATAAGGTTAATG
Found at i:33887677 original size:133 final size:134
Alignment explanation
Indices: 33887475--33887731 Score: 336
Period size: 133 Copynumber: 1.9 Consensus size: 134
33887465 TTGTAGCTTA
* * *
33887475 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATCCGCTATCTTCAACCTACTCCATTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATCCGCTAACTTCAACCTACTCCACTGCAACTT
* ** * * *
33887540 TAGGGAGATAAGGTTAATGGCTTTAATCTGCTCCACCGTAACTTCAGGGAGATAAGATTTGCCAT
66 TAGGGAGACAAGGTTAATGGCTTTAATCTAATCCACCGCAACTTCAAGAAGATAAGATTTGCCAT
33887605 TTTC
131 TTTC
* ** * * * * *
33887609 AATCTGCTCCACTGTAACTTCAGGGAGTTGAGGTTCG-TAACTTCAACGTGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATCCGCTAACTTCAACCTACTCCACTGCAACTT
* *
33887673 TAGGGAGACAAGGTTTATGGCTTTAATCTAATCCACTGCAACTTCAAGAAGATAAGATT
66 TAGGGAGACAAGGTTAATGGCTTTAATCTAATCCACCGCAACTTCAAGAAGATAAGATT
33887732 CATCATGGTA
Statistics
Matches: 104, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
133 74 0.71
134 30 0.29
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (134 bp):
AATCTGCTCCACTGCAACTTCAGGGAAATAAGATCCGCTAACTTCAACCTACTCCACTGCAACTT
TAGGGAGACAAGGTTAATGGCTTTAATCTAATCCACCGCAACTTCAAGAAGATAAGATTTGCCAT
TTTC
Found at i:33898421 original size:24 final size:24
Alignment explanation
Indices: 33898371--33898421 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
33898361 GTGTTATGTA
* * *
33898371 GAGGAAATCAATGAGAGGATTGGG
1 GAGGAAATCAAGGAGAAGATTAGG
* *
33898395 GAGGAAATTAAGGAGAAGATTATG
1 GAGGAAATCAAGGAGAAGATTAGG
33898419 GAG
1 GAG
33898422 AGATTTTAGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.39, T:0.18
Consensus pattern (24 bp):
GAGGAAATCAAGGAGAAGATTAGG
Found at i:33901350 original size:18 final size:18
Alignment explanation
Indices: 33901327--33901376 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
33901317 TCAATAATAT
*
33901327 TCATTTATTCAGTATCAG
1 TCATTTATTCAGTAACAG
* *
33901345 TCATTTACTCTGTAACAG
1 TCATTTATTCAGTAACAG
*
33901363 TCAATTATTCAGTA
1 TCATTTATTCAGTA
33901377 GCAGACAGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (18 bp):
TCATTTATTCAGTAACAG
Found at i:33902335 original size:46 final size:46
Alignment explanation
Indices: 33902275--33902624 Score: 446
Period size: 46 Copynumber: 8.0 Consensus size: 46
33902265 TTTGACGTGA
* * * * * *
33902275 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
33902321 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
33902367 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
33902413 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
33902459 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
33902497 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
33902543 TGCCATGGTATCTTTCAATCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
33902581 TGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
33902625 AGAGCACACT
Statistics
Matches: 271, Mismatches: 16, Indels: 34
0.84 0.05 0.11
Matches are distributed among these distances:
38 64 0.24
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 6 0.02
46 183 0.68
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:33902391 original size:92 final size:88
Alignment explanation
Indices: 33902275--33902624 Score: 455
Period size: 84 Copynumber: 4.0 Consensus size: 88
33902265 TTTGACGTGA
* * * *
33902275 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CA--TTCT-TCAGGTTGCCATGGTATCTTTCAAC
** * * *
33902340 CATGGTCTTATTCTTTTCATGTCACGT
62 CATGGTCTTACACATTTCATATCAGGT
33902367 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CAT-TC-T-TCAGGTTGCCATGGTATCTTTCAAC
33902432 CATGGTCTTACACATTTCATATCAGGT
62 CATGGTCTTACACATTTCATATCAGGT
*
33902459 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--C-ACAGGTTGCCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
33902520 GTCTTACACATTTCATATCAGGT
66 GTCTTACACATTTCATATCAGGT
* * *
33902543 TGCCATGGTATCTTTCAATCATGGTCTTA-CA--C-ACAGGTTGCCTTGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
33902604 GTCTTACACATTTCATATCAG
66 GTCTTACACATTTCATATCAG
33902625 AGAGCACACT
Statistics
Matches: 242, Mismatches: 14, Indels: 12
0.90 0.05 0.04
Matches are distributed among these distances:
84 131 0.54
87 1 0.00
90 3 0.01
91 2 0.01
92 105 0.43
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (88 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
GTCTTACACATTTCATATCAGGT
Found at i:33902505 original size:38 final size:38
Alignment explanation
Indices: 33902454--33902613 Score: 230
Period size: 38 Copynumber: 4.0 Consensus size: 38
33902444 CATTTCATAT
33902454 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
33902492 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
*
33902537 TCAGGTTGCCATGGTATCTTTCAATCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
33902576 CAGGTTGCCTTGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
33902614 TTTCATATCA
Statistics
Matches: 111, Mismatches: 3, Indels: 16
0.85 0.02 0.12
Matches are distributed among these distances:
38 69 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 32 0.29
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:33907708 original size:46 final size:46
Alignment explanation
Indices: 33907648--33907997 Score: 428
Period size: 46 Copynumber: 8.0 Consensus size: 46
33907638 TTTGACGTGA
* * * * * *
33907648 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
33907694 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
33907740 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
33907786 TGCCATGGTATCTTCCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
33907832 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
33907870 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
33907916 TGCCATGGTATCTTTCAATCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
33907954 TGCCTTAGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
33907998 AGAGCACACT
Statistics
Matches: 268, Mismatches: 19, Indels: 34
0.83 0.06 0.11
Matches are distributed among these distances:
38 63 0.24
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 6 0.02
46 181 0.68
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:33907764 original size:92 final size:88
Alignment explanation
Indices: 33907648--33907997 Score: 437
Period size: 84 Copynumber: 4.0 Consensus size: 88
33907638 TTTGACGTGA
* * * *
33907648 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CA--TTCT-TCAGGTTGCCATGGTATCTTTCAAC
** * * *
33907713 CATGGTCTTATTCTTTTCATGTCACGT
62 CATGGTCTTACACATTTCATATCAGGT
*
33907740 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTCCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CAT-TC-T-TCAGGTTGCCATGGTATCTTTCAAC
33907805 CATGGTCTTACACATTTCATATCAGGT
62 CATGGTCTTACACATTTCATATCAGGT
*
33907832 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--C-ACAGGTTGCCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
33907893 GTCTTACACATTTCATATCAGGT
66 GTCTTACACATTTCATATCAGGT
* * * *
33907916 TGCCATGGTATCTTTCAATCATGGTCTTA-CA--C-ACAGGTTGCCTTAGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
33907977 GTCTTACACATTTCATATCAG
66 GTCTTACACATTTCATATCAG
33907998 AGAGCACACT
Statistics
Matches: 239, Mismatches: 17, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
84 129 0.54
87 1 0.00
90 3 0.01
91 2 0.01
92 104 0.44
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (88 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
GTCTTACACATTTCATATCAGGT
Found at i:33907878 original size:38 final size:38
Alignment explanation
Indices: 33907827--33907986 Score: 221
Period size: 38 Copynumber: 4.0 Consensus size: 38
33907817 CATTTCATAT
33907827 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
33907865 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
*
33907910 TCAGGTTGCCATGGTATCTTTCAATCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
* *
33907949 CAGGTTGCCTTAGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
33907987 TTTCATATCA
Statistics
Matches: 110, Mismatches: 4, Indels: 16
0.85 0.03 0.12
Matches are distributed among these distances:
38 68 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 32 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:33910919 original size:3 final size:3
Alignment explanation
Indices: 33910911--33910956 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
33910901 AATTCAATAC
33910911 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33910957 CTTACAATTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33911640 original size:22 final size:21
Alignment explanation
Indices: 33911615--33911655 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33911605 TCCCCTGTTC
*
33911615 TTCTCTGTTTCGTTTTCTTTGT
1 TTCTCTGTTTC-ATTTCTTTGT
*
33911637 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
33911656 TATTTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:33916700 original size:18 final size:18
Alignment explanation
Indices: 33916677--33916727 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
33916667 TCAATAATAT
33916677 TCATTTATTCAGTATCAG
1 TCATTTATTCAGTATCAG
** *
33916695 TCATTTATTTTGTAACAG
1 TCATTTATTCAGTATCAG
*
33916713 TCAATTATTCAGTAT
1 TCATTTATTCAGTAT
33916728 TAGACAGTCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (18 bp):
TCATTTATTCAGTATCAG
Found at i:33917295 original size:3 final size:3
Alignment explanation
Indices: 33917287--33917321 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
33917277 TTCAATACCG
*
33917287 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
33917322 CTTACCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:33918005 original size:22 final size:21
Alignment explanation
Indices: 33917980--33918020 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33917970 TCCCCTGTTC
*
33917980 TTCTCTGTTTCGTTTTCTTTGT
1 TTCTCTGTTTC-ATTTCTTTGT
*
33918002 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
33918021 TATTTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:33918105 original size:22 final size:22
Alignment explanation
Indices: 33918063--33918114 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
33918053 ACTATTATAA
* *
33918063 TATTTATTATTTATACATGTAT
1 TATTTATTATATACACATGTAT
33918085 GTATTTATTA-ATACACATGTAT
1 -TATTTATTATATACACATGTAT
33918107 TCATTTAT
1 T-ATTTAT
33918115 CACCTCACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 16 0.62
23 9 0.35
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (22 bp):
TATTTATTATATACACATGTAT
Found at i:33922888 original size:41 final size:41
Alignment explanation
Indices: 33922831--33922980 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
33922821 TTGGGGTTTA
*
33922831 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCTAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
33922872 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
33922913 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
33922953 AATCCGAGCTTCGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
33922981 TGAGTCAGCG
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 32 0.34
41 61 0.66
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:33926182 original size:19 final size:21
Alignment explanation
Indices: 33926158--33926197 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
33926148 CGCTACTACT
33926158 TTTCTG-TGT-TTTTTTCCTC
1 TTTCTGTTGTCTTTTTTCCTC
33926177 TTTCTGTTGTGCTTTTTTCCT
1 TTTCTGTTGT-CTTTTTTCCT
33926198 TGCAGGTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
22 9 0.50
ACGTcount: A:0.00, C:0.20, G:0.12, T:0.68
Consensus pattern (21 bp):
TTTCTGTTGTCTTTTTTCCTC
Found at i:33929212 original size:10 final size:10
Alignment explanation
Indices: 33929197--33929246 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
33929187 TTTTTCAAAT
33929197 AATTATTAAA
1 AATTATTAAA
33929207 AATTA-TAGAA
1 AATTATTA-AA
*
33929217 AATTTTTAAA
1 AATTATTAAA
33929227 AATTATT-AA
1 AATTATTAAA
33929236 AATTAATTAAA
1 AATT-ATTAAA
33929247 GTTAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.24
10 22 0.65
11 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
AATTATTAAA
Found at i:33929245 original size:20 final size:20
Alignment explanation
Indices: 33929197--33929246 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
33929187 TTTTTCAAAT
33929197 AATTATTAAAAATTATAGAA
1 AATTATTAAAAATTATAGAA
* *
33929217 AATTTTTAAAAATTAT-TAA
1 AATTATTAAAAATTATAGAA
33929236 AATTAATTAAA
1 AATT-ATTAAA
33929247 GTTAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AATTATTAAAAATTATAGAA
Found at i:33933981 original size:50 final size:50
Alignment explanation
Indices: 33933922--33934020 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
33933912 TAAGCAAGTC
*
33933922 TGGATATAGTTATTAAAATTATAATAAATAACTGAAAAAGACACTTAACT
1 TGGATATAGTTATTAAAATAATAATAAATAACTGAAAAAGACACTTAACT
*
33933972 TGGATATAGTTATTAAAATAATAATAAATAATTGAAAAAGACACTTAAC
1 TGGATATAGTTATTAAAATAATAATAAATAACTGAAAAAGACACTTAAC
33934021 ATTTTCTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (50 bp):
TGGATATAGTTATTAAAATAATAATAAATAACTGAAAAAGACACTTAACT
Found at i:33935925 original size:3 final size:3
Alignment explanation
Indices: 33935917--33935989 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
33935907 ATATATACAT
33935917 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33935965 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
33935990 CAAACAAAAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:33938136 original size:17 final size:17
Alignment explanation
Indices: 33938114--33938154 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
33938104 GGATCCAGCC
33938114 TGTGGATTGGGCTTGCG
1 TGTGGATTGGGCTTGCG
33938131 TGTGGATTGGGCTTGCG
1 TGTGGATTGGGCTTGCG
33938148 TGTGGAT
1 TGTGGAT
33938155 CTCCCCCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.07, C:0.10, G:0.46, T:0.37
Consensus pattern (17 bp):
TGTGGATTGGGCTTGCG
Found at i:33939451 original size:43 final size:45
Alignment explanation
Indices: 33939388--33939482 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 45
33939378 CTGCTTAGGG
* *
33939388 AGATAAGATCTTCAATCTTCAATCTGCTTTCTTACTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTACTACCTCAGAA
** * *
33939433 AGATAAGA-C-TCAATCTTCAACCTGCTCTCTTGTTACCTTAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTACTACCTCAGAA
33939476 AGATAAG
1 AGATAAG
33939483 GCCTGAGGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 35 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.33
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTACTACCTCAGAA
Found at i:33939456 original size:177 final size:177
Alignment explanation
Indices: 33939134--33940237 Score: 1098
Period size: 177 Copynumber: 6.2 Consensus size: 177
33939124 AATAGGACTG
* * * * *
33939134 GTGGCTCAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCCTCAATCTGTTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* * * * * * *
33939199 AATTGCTTAGGGAAACAA-ATCTTCAATCTTCAATCTACTTCCTTGCTACCTCAGGAAGATAAAA
66 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
* * *
33939263 CTACAAT-TGCCAACCTGCTCTTTTGCTACCTCAGAGAGATAAGACTTA
131 CT-CAATCT-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * *
33939311 GTGGCTAAAATCTGCTCCATTGTCGGTACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* * * *
33939376 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAATCTGCTTTCTTACTACCTCAGAAAGATAAGA
66 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
* * *
33939441 CTCAATCTTCAACCTGCTCTCTTGTTACCTTAGAGAGATAAGGCCT-
131 CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * * * * *
33939487 GAGGCTTAAATCTGCTCCATTGCCGGTACATGGAGATAAGATTCGCTATCTCCGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* * * *
33939552 TACTGCTTGGGGAGATAAGATCTTTAATCGTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGA
66 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
** *
33939617 CAAAAAT-TACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
131 C-TCAATCT-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * * *
33939665 GTGGCTAAAATCTGCTCCATTACATG-TACACGGAGATAAGATTCACCATCTTCGATTTGCTCCA
1 GTGGCTAAAATCTGCTCCATTGC-CGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCA
* * *
33939729 CTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTACTTCCTTGCTACCTCAGGAATATAAG
65 CTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* * * ** *
33939794 ACTCATTCTTCAACTTGCTCTCTTGCTACCTTAGAGAGGCAAGGC-TG
130 ACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
*** ** * * * * * * **
33939841 GTTATTTGAATCTACTCTATTGTCAATACATGGAGATAAGATTCACCATCTTCAATCCGCTCCGT
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* ** * * * * **
33939906 TGCAACTCCAGGGAGATAAGATCTTCAAT-TTCTAGTTTGCTTTCTTGCTACCCCAAAAAGATAA
66 TACTGCT-TAGGGAGATAAGATCTTCAATCTTC-AGTCTGCTTCCTTGCTACCTCAGGAAGATAA
* *
33939970 GACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG-TTG
129 GACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * * * **
33940018 GTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATATTCAATTTACTCTGC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* ** * * * * * * *
33940082 TGCAACTTCAAGGAGATAAGATCTTCAAACTTCAGTTTAC-TCCACTGCAACCTCAGGGAGATAA
66 TACTGCTT-AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAA
** * * * * * * *
33940146 GACTTGTATATTGAGCCTGCTC-CACTGCAACTTCAGAGAGATAAGGC-TG
129 GAC-TCAATCTTCAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCTTA
* * *
33940195 GTGACTTAAATCTGCTCCATTGCCGGTACATGGAGATAAGATT
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
33940238 TGTTGTCTTT
Statistics
Matches: 774, Mismatches: 135, Indels: 35
0.82 0.14 0.04
Matches are distributed among these distances:
175 2 0.00
176 270 0.35
177 307 0.40
178 194 0.25
179 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (177 bp):
GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
Found at i:33940577 original size:129 final size:129
Alignment explanation
Indices: 33940347--33940668 Score: 547
Period size: 129 Copynumber: 2.5 Consensus size: 129
33940337 TTCATGTATC
* *
33940347 ATGCTTATGCCAAATAATTAGGATGCTATGATAAAAAATAAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
* *
33940412 ACGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
66 ACGCTGATGTCAAACAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
33940476 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
*
33940541 ATGCTGATGTCAAACAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
66 ACGCTGATGTCAAACAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
* * * * *
33940605 TTGCTTATGTCAAATAATTAGGATGCTATGATC-GAAATGAATCAAATGCTCCTAAATAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
33940669 TTATGAATAA
Statistics
Matches: 183, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
128 27 0.15
129 156 0.85
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (129 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
ACGCTGATGTCAAACAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:33940670 original size:64 final size:64
Alignment explanation
Indices: 33940347--33940668 Score: 473
Period size: 64 Copynumber: 5.0 Consensus size: 64
33940337 TTCATGTATC
* ** * *
33940347 ATGCTTATGCCAAATAATTAGGATGCTATGATAAAAAATAAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGAT-CGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
33940412 ACGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
33940476 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATC-GAAATGAATCAAATGCTCCTAACTAGATGTG
* * * *
33940541 ATGCTGATGTCAAACAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* *
33940605 TTGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAAATAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
33940669 TTATGAATAA
Statistics
Matches: 229, Mismatches: 27, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
64 143 0.62
65 86 0.38
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:33942419 original size:29 final size:28
Alignment explanation
Indices: 33942374--33942430 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
33942364 ATAACATTTG
*
33942374 TTCTATTGTTTGCTTTTCCTTTTCTTTTT
1 TTCTATTGTTTGATTTT-CTTTTCTTTTT
*
33942403 TTCTATT-TTTGTATTTTTTTTTCTTTTT
1 TTCTATTGTTTG-ATTTTCTTTTCTTTTT
33942431 GGATACCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.77
Consensus pattern (28 bp):
TTCTATTGTTTGATTTTCTTTTCTTTTT
Found at i:33947011 original size:25 final size:25
Alignment explanation
Indices: 33946969--33947017 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
33946959 CATAATAACA
*
33946969 AAGAATAAACAATATAC-ATGAAAG
1 AAGAACAAACAATATACAATGAAAG
33946993 AAGAACAAACCAATATACAATGAAA
1 AAGAACAAA-CAATATACAATGAAA
33947018 CTATATATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 8 0.36
26 6 0.27
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.14
Consensus pattern (25 bp):
AAGAACAAACAATATACAATGAAAG
Found at i:33950450 original size:90 final size:90
Alignment explanation
Indices: 33950337--33950821 Score: 511
Period size: 90 Copynumber: 5.4 Consensus size: 90
33950327 AAATTGGTAA
* * * * *
33950337 TTTCAACCTGCTTCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGC
1 TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTGTATTTTTATCCTACTCTACTGC
33950402 AACTTCAGAGAGATAAGGATTATGG
66 AACTTCAGAGAGATAAGGATTATGG
* * * * * * * *
33950427 TTTCGATCTGCTCCACTGAAACTTCAAGGAGATAAGACTTG-CTA-CTTCAACCTACTCCACTGC
1 TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTGTATTTTTATCCTACTCTACTGC
* * *
33950490 AACTTCAGGGAGATAA-GACT-TGC
66 AACTTCAGAGAGATAAGGATTATGG
*
33950513 TACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTGTATTTTTATCCTACTCTACT
1 T--TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTGTATTTTTATCCTACTCTACT
* *
33950578 ACAACTTCAGAGAGATAAGGATCATGG
64 GCAACTTCAGAGAGATAAGGATTATGG
* * * * * * * * *
33950605 TTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTG-CTATCTTCAGT-CTGCTCCATTG
1 TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTGTATTTTTA-TCCTACTCTACTG
* * *
33950668 TAACTTCAGAGAGATAA-GACT-TGT
65 CAACTTCAGAGAGATAAGGATTATGG
* *
33950692 TAATTCAACCTGCTCCACTGCAAC-TCTAAGGAGATAAGGTTTGTGTATTTTTATCCTACTCTAC
1 T--TTCAATCTGCTCCACTGCAACTTC-AAGGAGATAAGATTTGTGTATTTTTATCCTACTCTAC
* *
33950756 TTCAACTTCAGAGAGATAAGGATCATGG
63 TGCAACTTCAGAGAGATAAGGATTATGG
* * *
33950784 TTTTAATCTTCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
33950822 ATGCTATCTT
Statistics
Matches: 314, Mismatches: 66, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
86 3 0.01
87 6 0.02
88 69 0.22
89 66 0.21
90 158 0.50
91 6 0.02
92 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (90 bp):
TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTGTATTTTTATCCTACTCTACTGC
AACTTCAGAGAGATAAGGATTATGG
Found at i:33950459 original size:44 final size:43
Alignment explanation
Indices: 33950337--33951090 Score: 281
Period size: 44 Copynumber: 17.0 Consensus size: 43
33950327 AAATTGGTAA
* * *
33950337 TTTCAACCTGCTTCACTGCAACTTCAGGGAGATAAGG-TTTGTG
1 TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTTG-G
** *
33950380 TATTTTTATCCTGCTCTACTGCAACTTC-AGAGAGATAAGGATTATGG
1 --TTTCAAT-CTGCTCCACTGCAACTTCAAG-GAGATAAGGATT-TGG
* * * *
33950427 TTTCGATCTGCTCCACTGAAACTTCAAGGAGATAA-GACTTGC
1 TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTTGG
* * * * *
33950469 TACTTCAACCTACTCCACTGCAACTTCAGGGAGATAA-GACTTGC
1 T--TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTTGG
*
33950513 TACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAA-GATTTGTG
1 T--TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTTG-G
** * * * *
33950558 TATTTTTATCCTACTCTACTACAACTTC-AGAGAGATAAGGATCATGG
1 --TTTCAAT-CTGCTCCACTGCAACTTCAAG-GAGATAAGGAT-TTGG
* * * *
33950605 TTTCAATCTGTTCCACTGCAACTTCAGGGAGATAA-GATCTGCTA
1 TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTTG--G
* * * * *
33950649 TCTTCAGTCTGCTCCATTGTAACTTC-AGAGAGATAA-GACTTGT
1 T-TTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGGATTTGG
*
33950692 TAATTCAACCTGCTCCACTGCAAC-TCTAAGGAGATAAGG-TTTGTG
1 T--TTCAATCTGCTCCACTGCAACTTC-AAGGAGATAAGGATTTG-G
** * * * *
33950737 TATTTTTATCCTACTCTACTTCAACTTC-AGAGAGATAAGGATCATGG
1 --TTTCAAT-CTGCTCCACTGCAACTTCAAG-GAGATAAGGAT-TTGG
* * * * *
33950784 TTTTAATCTTCTCCACTGCAACTTCAGGGAGATAA-GATATGCTA
1 TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTTG--G
* * * *
33950828 TCTTCAGTCTGTTCCACTGCAACTTCAAGGAGATAA-GACTTGCTA
1 T-TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTTG--G
* * * ** * *
33950873 TCTTTAGTCTGCTCCACTACAACTTCTGGGAGATAA-GACTTGC
1 T-TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTTGG
* ** * ** *
33950916 TACTTCAACCTATTCCACTGCAACTT-TAGGAAGATAA-GATCCGCCA
1 T--TTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGGATTTG--G
* * * *
33950962 TTTGCAATCTACTCCACTGCAACTTCAGGGAAAT-AGGATTTACTG
1 TTT-CAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTT--GG
* * * * *
33951007 TCTTTAGTCTACTCCACT-CAACTTTAGGGAGATAA-GACTTGTGG
1 T-TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGA-TT-TGG
* * * *
33951051 CTTCAATCTACTCCACTGTAACTTCAGGGAGATAA-GATTT
1 TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTT
33951091 TCCATGATAA
Statistics
Matches: 552, Mismatches: 108, Indels: 101
0.73 0.14 0.13
Matches are distributed among these distances:
42 9 0.02
43 32 0.06
44 235 0.43
45 183 0.33
46 74 0.13
47 13 0.02
48 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (43 bp):
TTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGATTTGG
Found at i:33950584 original size:134 final size:132
Alignment explanation
Indices: 33950338--33951090 Score: 476
Period size: 134 Copynumber: 5.6 Consensus size: 132
33950328 AATTGGTAAT
* * ** * * * * *
33950338 TTCAACCTGCTTCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCA
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGACTTG-CTA-CTTCAACCTGCTCCACTGCA
* *
33950403 ACTTC-AGAGAGATAAGGATTATG---GTTTCGATCTGCTCCACTGAAACTTCAAGGAGATAAGA
64 ACTTCAAG-GAGATAA-GATT-TGCTATTTTC-ATCTGCTCCACTGCAACTTCAAGGAGATAAGA
33950464 CTTGCTAC
125 CTTGCTAC
33950472 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAAC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAAC
* * * * *
33950537 TTCAAGGAGATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTC-AGAGAGATAAGGATC
66 TTCAAGGAGATAAGATTTG-CTATTTTCAT-CTGCTCCACTGCAACTTCAAG-GAGATAA-GA-C
* *
33950601 ATGGT--
126 TTGCTAC
* ** ** * *
33950606 TTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGA-TCTGCTATCTTCAGTCTGCTCCATTGTA
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGACT-TGCTA-CTTCAACCTGCTCCACTGCA
* * * * **
33950670 ACTTC-AGAGAGATAAGACTTGTTA-ATTCAACCTGCTCCACTGCAAC-TCTAAGGAGATAAGGT
64 ACTTCAAG-GAGATAAGATTTGCTATTTTC-ATCTGCTCCACTGCAACTTC-AAGGAGATAAGAC
* *
33950732 TTGTGTATT
126 TTG-CTA-C
* * * * * * * * * *
33950741 TTTATCCTACTCTACTTCAACTTCAGAGAGATAAGGATCATGGT--TTTAATCTTCTCCACTGCA
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAA-GA-CTTGCTACTTCAACCTGCTCCACTGCA
* * * *
33950804 ACTTCAGGGAGATAAGATATGCTATCTTCAGTCTGTTCCACTGCAACTTCAAGGAGATAAGACTT
64 ACTTCAAGGAGATAAGATTTGCTATTTTCA-TCTGCTCCACTGCAACTTCAAGGAGATAAGACTT
33950869 GCTATC
128 GCTA-C
* ** * * * **
33950875 TTTAGTCTGCTCCACTACAACTTCTGGGAGATAAGACTTGCTACTTCAACCTATTCCACTGCAAC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAAC
* ** * * * * * * * *
33950940 TT-TAGGAAGATAAGATCCGCCATTTGCAATCTACTCCACTGCAACTTCAGGGAAATAGGATTTA
66 TTCAAGG-AGATAAGATTTGCTATTTTC-ATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTG
*
33951004 CTGTC
129 CT-AC
* ** * * * * *
33951009 TTTAGTCTACTCCACT-CAACTTTAGGGAGATAAGACTTG-TGGCTTCAATCTACTCCACTGTAA
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCT-ACTTCAACCTGCTCCACTGCAA
*
33951072 CTTCAGGGAGATAAGATTT
65 CTTCAAGGAGATAAGATTT
33951091 TCCATGATAA
Statistics
Matches: 486, Mismatches: 100, Indels: 67
0.74 0.15 0.10
Matches are distributed among these distances:
130 2 0.00
131 6 0.01
132 38 0.08
133 85 0.17
134 250 0.51
135 94 0.19
136 8 0.02
137 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (132 bp):
TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAAC
TTCAAGGAGATAAGATTTGCTATTTTCATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCT
AC
Found at i:33950979 original size:179 final size:178
Alignment explanation
Indices: 33950298--33951090 Score: 843
Period size: 179 Copynumber: 4.4 Consensus size: 178
33950288 GTAGCTTCGA
* * * * * * *
33950298 TCTACTCCGCTGGAACTT-AAGGGAGATAAAAATTGGTAATTTCAACCTGCTTCACTGCAACTTC
1 TCTACTCCACTGCAACTTCAA-GGAGATAAGACTTGCT-ACTTCAACCTGCTCCACTGCAACTTC
* * * * *
33950362 AGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGG
64 AAGGAGATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAGAGATAAGGATCATGG
* * * *
33950427 TTTCGATCTGCTCCACTGAAACTTCAAGGAGATAAGACTTGCTA-CTTCAA
129 TTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAG
* *
33950477 CCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAA
1 TCTACTCCACTGCAACTTCAAGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAA
33950542 GGAGATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAGAGATAAGGATCATGGTT
66 GGAGATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAGAGATAAGGATCATGGTT
*
33950607 TCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAG
131 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCTATCTTCAG
* * * * *
33950656 TCTGCTCCATTGTAACTTC-AGAGAGATAAGACTTGTTAATTCAACCTGCTCCACTGCAAC-TCT
1 TCTACTCCACTGCAACTTCAAG-GAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTC-
* *
33950719 AAGGAGATAAGGTTTGTGTATTTTTATCCTACTCTACTTCAACTTCAGAGAGATAAGGATCATGG
64 AAGGAGATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAGAGATAAGGATCATGG
* *
33950784 TTTTAATCTTCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCTTCAG
129 TTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCTATCTTCAG
** * ** * *
33950835 TCTGTTCCACTGCAACTTCAAGGAGATAAGACTTGCTATCTTTAGTCTGCTCCACTACAACTTCT
1 TCTACTCCACTGCAACTTCAAGGAGATAAGACTTGCTA-CTTCAACCTGCTCCACTGCAACTTCA
* * * * * * * * * * *
33950900 GGGAGATAAGACTTG-CTA-CTTCAACCTATTCCACTGCAACTTTAG-GAAGATAA-GATC-CGC
65 AGGAGATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAG-AGATAAGGATCATG-
* * * * * * *
33950960 CATTTGCAATCTACTCCACTGCAACTTCAGGGAAATAGGATTTACTGTCTTTAG
128 -GTTT-CAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAG
* * * * * *
33951014 TCTACTCCACT-CAACTTTAGGGAGATAAGACTTG-TGGCTTCAATCTACTCCACTGTAACTTCA
1 TCTACTCCACTGCAACTTCAAGGAGATAAGACTTGCT-ACTTCAACCTGCTCCACTGCAACTTCA
*
33951077 GGGAGATAAGATTT
65 AGGAGATAAGATTT
33951091 TCCATGATAA
Statistics
Matches: 526, Mismatches: 74, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
176 1 0.00
177 40 0.08
178 175 0.33
179 275 0.52
180 33 0.06
181 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (178 bp):
TCTACTCCACTGCAACTTCAAGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAA
GGAGATAAGATTTGTGTATTTTTATCCTACTCTACTACAACTTCAGAGAGATAAGGATCATGGTT
TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAG
Found at i:33954766 original size:13 final size:13
Alignment explanation
Indices: 33954748--33954773 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33954738 GTTGCTTCCC
33954748 AACATATGAGTGA
1 AACATATGAGTGA
33954761 AACATATGAGTGA
1 AACATATGAGTGA
33954774 TGAATGGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
AACATATGAGTGA
Found at i:33955867 original size:19 final size:20
Alignment explanation
Indices: 33955843--33955887 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
33955833 TTGTGACATT
*
33955843 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
33955862 CAATGCAGATGCATGAAATG
1 CAATGCAGATGCATGAAATG
33955882 -AATGCA
1 CAATGCA
33955888 AAAAGAGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:33957797 original size:3 final size:3
Alignment explanation
Indices: 33957785--33957849 Score: 121
Period size: 3 Copynumber: 21.3 Consensus size: 3
33957775 AAGTAAAATG
33957785 ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33957831 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
33957850 GCAAAATTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33959553 original size:9 final size:9
Alignment explanation
Indices: 33959459--33959559 Score: 98
Period size: 9 Copynumber: 11.4 Consensus size: 9
33959449 TTTGGTTAAA
*
33959459 AATTAACCG
1 AATTACCCG
**
33959468 AATTAAACG
1 AATTACCCG
*
33959477 AATTACCTG
1 AATTACCCG
*
33959486 AATTAACCG
1 AATTACCCG
*
33959495 AATTAACCG
1 AATTACCCG
*
33959504 -ATTACCCA
1 AATTACCCG
*
33959512 AATTACCCA
1 AATTACCCG
33959521 AATTACCCG
1 AATTACCCG
*
33959530 GATTACCCG
1 AATTACCCG
*
33959539 AATTACTCG
1 AATTACCCG
33959548 AATTACCC-
1 AATTACCCG
33959556 AATT
1 AATT
33959560 TGAATCACTA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
8 10 0.13
9 68 0.87
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:33959647 original size:20 final size:18
Alignment explanation
Indices: 33959556--33959688 Score: 67
Period size: 17 Copynumber: 7.3 Consensus size: 18
33959546 CGAATTACCC
33959556 AATT-TGAATCACTACAT
1 AATTATGAATCACTACAT
* * * *
33959573 AATTA-AAAACATTAAAT
1 AATTATGAATCACTACAT
*
33959590 AAGTCTTTGAATCACTACAT
1 AA-T-TATGAATCACTACAT
** *
33959610 AATTAAAAAT-ATTACAT
1 AATTATGAATCACTACAT
33959627 AAGTATATGAATCACTACAT
1 AA-T-TATGAATCACTACAT
* * * *
33959647 AATTA-AAAACATTAGAT
1 AATTATGAATCACTACAT
*
33959664 AAGTCTTTGAATCACTACAT
1 AA-T-TATGAATCACTACAT
33959684 AATTA
1 AATTA
33959689 AAAACATTAC
Statistics
Matches: 80, Mismatches: 26, Indels: 19
0.64 0.21 0.15
Matches are distributed among these distances:
17 32 0.40
18 10 0.12
19 10 0.12
20 28 0.35
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (18 bp):
AATTATGAATCACTACAT
Found at i:33959701 original size:17 final size:17
Alignment explanation
Indices: 33959568--33959702 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
33959558 TTTGAATCAC
33959568 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
* ** * *
33959585 TAAATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
33959605 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
* * *
33959622 TACATAAGTATATGAATCAC
1 TACATAA-T-TA-AAAACAT
33959642 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
* ** * *
33959659 TAGATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
33959679 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
33959696 TACATAA
1 TACATAA
33959703 ATCTTGAAAT
Statistics
Matches: 81, Mismatches: 28, Indels: 18
0.64 0.22 0.14
Matches are distributed among these distances:
17 41 0.51
18 3 0.04
19 3 0.04
20 34 0.42
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:33959724 original size:37 final size:37
Alignment explanation
Indices: 33959558--33959707 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
33959548 AATTACCCAA
*
33959558 TTTGAATCACTACATAATTAAAAACATTAAATAAGTC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
* *
33959595 TTTGAATCACTACATAATTAAAAATATTACATAAGTA
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
* *
33959632 TATGAATCACTACATAATTAAAAACATTAGATAAGTC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
*
33959669 TTTGAATCACTACATAATTAAAAACATTACATAAATC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
33959706 TT
1 TT
33959708 GAAATTAACA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (37 bp):
TTTGAATCACTACATAATTAAAAACATTACATAAGTC
Found at i:33977709 original size:69 final size:69
Alignment explanation
Indices: 33977627--33977769 Score: 286
Period size: 69 Copynumber: 2.1 Consensus size: 69
33977617 TTGAACGTAC
33977627 AAGAAAGAATCTTTATCATAGGTGGAATGGACTAATTGAGCTCCTCTCAAAGGATCAACAAATTC
1 AAGAAAGAATCTTTATCATAGGTGGAATGGACTAATTGAGCTCCTCTCAAAGGATCAACAAATTC
33977692 CTGA
66 CTGA
33977696 AAGAAAGAATCTTTATCATAGGTGGAATGGACTAATTGAGCTCCTCTCAAAGGATCAACAAATTC
1 AAGAAAGAATCTTTATCATAGGTGGAATGGACTAATTGAGCTCCTCTCAAAGGATCAACAAATTC
33977761 CTGA
66 CTGA
33977765 AAGAA
1 AAGAA
33977770 TAAAACAAGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 74 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (69 bp):
AAGAAAGAATCTTTATCATAGGTGGAATGGACTAATTGAGCTCCTCTCAAAGGATCAACAAATTC
CTGA
Found at i:33979545 original size:14 final size:15
Alignment explanation
Indices: 33979526--33979565 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
33979516 AACATTATAT
33979526 ATTAATTTT-AATTA
1 ATTAATTTTCAATTA
33979540 ATTAATTTTTCAATTA
1 ATTAA-TTTTCAATTA
*
33979556 AATAATTTTC
1 ATTAATTTTC
33979566 TCAACTCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 9 0.39
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTAATTTTCAATTA
Found at i:33979556 original size:16 final size:16
Alignment explanation
Indices: 33979526--33979569 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
33979516 AACATTATAT
33979526 ATTAA-TTTT-AATTA
1 ATTAATTTTTCAATTA
33979540 ATTAATTTTTCAATTA
1 ATTAATTTTTCAATTA
*
33979556 AATAATTTTCTCAA
1 ATTAATTTT-TCAA
33979570 CTCGATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 4 0.15
16 13 0.50
17 4 0.15
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTAATTTTTCAATTA
Found at i:33983081 original size:11 final size:11
Alignment explanation
Indices: 33983050--33983081 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
33983040 TGAAATTTTC
33983050 TCAAAATTCTA
1 TCAAAATTCTA
*
33983061 TCAAATTTCTA
1 TCAAAATTCTA
33983072 TCAAAATTCT
1 TCAAAATTCT
33983082 TTGTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:33983110 original size:15 final size:15
Alignment explanation
Indices: 33983090--33983121 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33983080 CTTTGTTTAA
*
33983090 AATTTTTTTAAATTT
1 AATTTTTTTAAAATT
33983105 AATTTTTTTAAAATT
1 AATTTTTTTAAAATT
33983120 AA
1 AA
33983122 AAAAATCCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTTTTTAAAATT
Found at i:33983280 original size:48 final size:47
Alignment explanation
Indices: 33983216--33983327 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 47
33983206 AGTGATAATT
33983216 TTAAATTTTCAATACTATTCGATATTATT-TTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATT-TTATTAATTTATGC-AATTATAA
* *
33983264 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATGCAATTATAA
*
33983312 TCACAATTTCAATACT
1 TTA-AATTTCAATACT
33983328 GCTTGATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
47 9 0.16
48 43 0.75
49 5 0.09
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:33983334 original size:48 final size:45
Alignment explanation
Indices: 33983222--33983349 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 45
33983212 AATTTTAAAT
* *
33983222 TTTCAATACTATTCGATATTATTTTAATTTATGCAAATTTAATTAAA
1 TTTCAATACTATT-GATATT-TTTTCATTTATGCAAATTTAATCAAA
33983269 TTTGCAATACTATTTGATATTTTATTCATTTATGC-AATTATAATCACAA
1 TTT-CAATACTA-TTGATATTTT-TTCATTTATGCAAATT-TAATCA-AA
* *
33983318 TTTCAATACTGCTTGATTTTTTTTCCATTTAT
1 TTTCAATACT-ATTGATATTTTTT-CATTTAT
33983350 AATGTTTGCA
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
47 11 0.16
48 52 0.74
49 7 0.10
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (45 bp):
TTTCAATACTATTGATATTTTTTCATTTATGCAAATTTAATCAAA
Found at i:33985341 original size:16 final size:16
Alignment explanation
Indices: 33985313--33985355 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
33985303 ATAAGCAAAT
*
33985313 TATAAA-CATATAAAA
1 TATAAATCAAATAAAA
33985328 TATAAATCAAATAAAA
1 TATAAATCAAATAAAA
*
33985344 TAAAAAT-AAATA
1 TATAAATCAAATA
33985356 TATTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
TATAAATCAAATAAAA
Found at i:33985661 original size:20 final size:18
Alignment explanation
Indices: 33985617--33985746 Score: 60
Period size: 20 Copynumber: 7.0 Consensus size: 18
33985607 ACTTATAAAC
33985617 AAAATATATAATGATATA-
1 AAAATATATAAT-ATATAT
33985635 AACAATATGATAGATATATAT
1 AA-AATAT-ATA-ATATATAT
33985656 AAAATA-ATATATATATAGT
1 AAAATATATA-ATATATA-T
* *
33985675 AAAATGTAT-GTA-ATAT
1 AAAATATATAATATATAT
*
33985691 --AATATATAATAATGTAT
1 AAAATATATAAT-ATATAT
33985708 AATAATATAATAA-ATAATAT
1 AA-AATAT-ATAATAT-ATAT
*
33985728 ACAAAGATA-AATACTATAT
1 A-AAATATATAATA-TATAT
33985747 GTACTTTTTA
Statistics
Matches: 87, Mismatches: 8, Indels: 33
0.68 0.06 0.26
Matches are distributed among these distances:
14 6 0.07
15 1 0.01
16 2 0.02
17 6 0.07
18 16 0.18
19 19 0.22
20 28 0.32
21 9 0.10
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (18 bp):
AAAATATATAATATATAT
Found at i:33985708 original size:10 final size:10
Alignment explanation
Indices: 33985689--33985728 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
33985679 TGTATGTAAT
33985689 ATAATATATA
1 ATAATATATA
*
33985699 ATAATGTATA
1 ATAATATATA
33985709 ATAATATAATAA
1 ATAATAT-AT-A
33985721 ATAATATA
1 ATAATATA
33985729 CAAAGATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
ATAATATATA
Found at i:33985719 original size:25 final size:25
Alignment explanation
Indices: 33985658--33985726 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
33985648 ATATATATAA
33985658 AATAATATATATATAGTAA-AATGTAT
1 AATAATATA-ATATA-TAATAATGTAT
*
33985684 -GTAATATAATATATAATAATGTAT
1 AATAATATAATATATAATAATGTAT
*
33985708 AATAATATAATAAATAATA
1 AATAATATAATATATAATA
33985727 TACAAAGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 3 0.08
24 12 0.32
25 23 0.61
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
AATAATATAATATATAATAATGTAT
Found at i:33991415 original size:126 final size:126
Alignment explanation
Indices: 33991241--33991622 Score: 602
Period size: 126 Copynumber: 3.0 Consensus size: 126
33991231 CTATAGTCTC
33991241 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * *
33991306 ACAGTTCATCCTGTTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * * *
33991367 ATTTTTCTACGAACTACTGTAGCGAAAGAACGTCCACGTGGGAGCTTTTTCCAGAAATTTTGTTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * *
33991432 ACAGTGCATCCTGCTTGAAGCTTTTTCAACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * *
33991493 ATTTTTCTACAAAATACTGTAGCAAAATAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * * *
33991558 ACAGTGCATCCTGCTTAAAGCATTTTCTGACACTATTTGTCCAGAAACGTCTACTTATAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTC-GACACTATTTGTTCAGAAACGTCTACTCAAAATT
33991620 ATT
1 ATT
33991623 CTTGCAGAAA
Statistics
Matches: 233, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
126 200 0.86
127 33 0.14
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
Found at i:33991893 original size:20 final size:20
Alignment explanation
Indices: 33991868--33991936 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
33991858 TCGTGTATGT
*
33991868 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCATAAATTTA
* *
33991888 ATCAATTAACCATAAACCCTAA
1 ATCAATTAACCATAAA--TTTA
33991910 ATCAA-T--CCAT-AATTTA
1 ATCAATTAACCATAAATTTA
33991926 ATCAATTAACC
1 ATCAATTAACC
33991937 CTAATACCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 7 0.18
17 1 0.03
18 2 0.05
19 6 0.15
20 15 0.38
21 1 0.03
22 7 0.18
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.30
Consensus pattern (20 bp):
ATCAATTAACCATAAATTTA
Found at i:33992083 original size:23 final size:22
Alignment explanation
Indices: 33992048--33992098 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
33992038 CTTAAAAAAA
33992048 CCTAAACCCTTAAAATCCATAAC
1 CCTAAACCCTTAAAA-CCATAAC
* * *
33992071 TCTAAACCTTTAAAACCCTAAC
1 CCTAAACCCTTAAAACCATAAC
33992093 CCTAAA
1 CCTAAA
33992099 TTAATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (22 bp):
CCTAAACCCTTAAAACCATAAC
Found at i:33996676 original size:35 final size:35
Alignment explanation
Indices: 33996630--33996699 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
33996620 ACCATGCCAA
33996630 TGCCTGAATCCCCCATTAAACACAACAGTGACCAT
1 TGCCTGAATCCCCCATTAAACACAACAGTGACCAT
33996665 TGCCTGAATCCCCCATTAAACACAACAGTGACCAT
1 TGCCTGAATCCCCCATTAAACACAACAGTGACCAT
33996700 AAATAATTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.20
Consensus pattern (35 bp):
TGCCTGAATCCCCCATTAAACACAACAGTGACCAT
Found at i:33997638 original size:2 final size:2
Alignment explanation
Indices: 33997631--33997678 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
33997621 ATGAGTCGTC
*
33997631 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33997673 AT AT AT
1 AT AT AT
33997679 TCCAAACAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:34005248 original size:17 final size:19
Alignment explanation
Indices: 34005221--34005260 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
34005211 AGGCCAATTT
*
34005221 GGGCTGTGTGGG-TTACAC
1 GGGCTGTGTGGGCCTACAC
34005239 GGGC-GTGTGGGCCTACAC
1 GGGCTGTGTGGGCCTACAC
34005257 GGGC
1 GGGC
34005261 AGGCCACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.10, C:0.23, G:0.47, T:0.20
Consensus pattern (19 bp):
GGGCTGTGTGGGCCTACAC
Found at i:34005758 original size:34 final size:35
Alignment explanation
Indices: 34005720--34005789 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
34005710 ACATGACTGA
* *
34005720 TACTGATACTGAGATGAGCTAAGGCCCAA-ACTAT
1 TACTGATACTGAAAGGAGCTAAGGCCCAAGACTAT
* *
34005754 TACTGATACTGAAAGGGGCTTAGGCCCAAGACTAT
1 TACTGATACTGAAAGGAGCTAAGGCCCAAGACTAT
34005789 T
1 T
34005790 TGACTGTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 25 0.81
35 6 0.19
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (35 bp):
TACTGATACTGAAAGGAGCTAAGGCCCAAGACTAT
Found at i:34009900 original size:24 final size:24
Alignment explanation
Indices: 34009872--34009923 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
34009862 TTAGCAAGTC
* *
34009872 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
34009896 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
34009920 AAAT
1 AAAT
34009924 CTTCTAGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:34016920 original size:71 final size:71
Alignment explanation
Indices: 34016834--34016997 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
34016824 CGATTTGTCT
34016834 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34016899 CTTTCA
66 CTTTCA
34016905 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34016970 CTTTCA
66 CTTTCA
34016976 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
34016998 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:34017035 original size:71 final size:70
Alignment explanation
Indices: 34016834--34017031 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
34016824 CGATTTGTCT
* * * *
34016834 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34016899 CTTTCA
65 CTTTCA
* * * *
34016905 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34016970 CTTTCA
65 CTTTCA
* *
34016976 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
34017032 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:34024468 original size:71 final size:71
Alignment explanation
Indices: 34024382--34024545 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
34024372 CGATTTGTCT
34024382 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34024447 CTTTCA
66 CTTTCA
34024453 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34024518 CTTTCA
66 CTTTCA
34024524 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
34024546 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:34024583 original size:71 final size:70
Alignment explanation
Indices: 34024382--34024579 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
34024372 CGATTTGTCT
* * * *
34024382 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34024447 CTTTCA
65 CTTTCA
* * * *
34024453 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34024518 CTTTCA
65 CTTTCA
* *
34024524 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
34024580 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:34027526 original size:47 final size:48
Alignment explanation
Indices: 34027331--34027528 Score: 139
Period size: 46 Copynumber: 4.3 Consensus size: 48
34027321 GTGCCAATGT
* * * *
34027331 ATGTCCCAAACAT-GTCTTACACTAGGA--CATCTC-ATAGCCGACGC
1 ATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAATGGCCGATGC
* * * * * *
34027375 ATGTTCCAGACAT-GTCTGACATTGGCTA-ACATCTCGA-GGCCGATGC
1 ATGTCCCAGACATGGTCTTACACTAGC-ACTCATCTCAATGGCCGATGC
* * *
34027421 ATGTCCTAAACAT-GTCTTACACTAGCACTCGTCTCAAT-GCCGATGCC
1 ATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAATGGCCGATG-C
* * * *
34027468 ATGCCCCAGACATGGTCTTACACTGGCTCTCAT-T-ATGTGGCCGATGC
1 ATGTCCCAGACATGGTCTTACACTAGCACTCATCTCA-ATGGCCGATGC
34027515 ATGTCCCAGACATG
1 ATGTCCCAGACATG
34027529 TCTAACAATG
Statistics
Matches: 120, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
44 20 0.17
45 2 0.02
46 47 0.39
47 28 0.23
48 23 0.19
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
ATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAATGGCCGATGC
Found at i:34031662 original size:24 final size:24
Alignment explanation
Indices: 34031634--34031685 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
34031624 TTAGCAAGTC
* *
34031634 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
34031658 AAATATATTTTACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
34031682 AAAT
1 AAAT
34031686 CTTCTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:34032213 original size:19 final size:19
Alignment explanation
Indices: 34032136--34032249 Score: 68
Period size: 20 Copynumber: 5.8 Consensus size: 19
34032126 CCTATTTTTT
* *
34032136 TTTTTGGTATTCCCTTATAA
1 TTTTTGGTACTCCCTCAT-A
***
34032156 TTTTTGGTACTATTTCATA
1 TTTTTGGTACTCCCTCATA
** *
34032175 TCTATTTTTTATTCCCTCATA
1 T-T-TTTGGTACTCCCTCATA
34032196 TTTTTGGTA-TCTCCTCATAA
1 TTTTTGGTACTC-CCTCAT-A
* *
34032216 TTTTTTGTACTCCCTCGTA
1 TTTTTGGTACTCCCTCATA
* *
34032235 TTTTAGGTACACCCT
1 TTTTTGGTACTCCCT
34032250 TGATATCCCC
Statistics
Matches: 71, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
18 2 0.03
19 26 0.37
20 29 0.41
21 14 0.20
ACGTcount: A:0.18, C:0.20, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTTGGTACTCCCTCATA
Found at i:34032231 original size:20 final size:18
Alignment explanation
Indices: 34032187--34032243 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
34032177 TATTTTTTAT
34032187 TCCCTCATATTTTTGGTA
1 TCCCTCATATTTTTGGTA
*
34032205 TCTCCTCATAATTTTTTGTA
1 TC-CCTCAT-ATTTTTGGTA
* *
34032225 CTCCCTCGTATTTTAGGTA
1 -TCCCTCATATTTTTGGTA
34032244 CACCCTTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.06
19 14 0.44
20 14 0.44
21 2 0.06
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.49
Consensus pattern (18 bp):
TCCCTCATATTTTTGGTA
Found at i:34032288 original size:20 final size:19
Alignment explanation
Indices: 34032252--34032334 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 19
34032242 TACACCCTTG
* *
34032252 ATATCCCCTTATATTTTTT
1 ATATTCCCTCATATTTTTT
*
34032271 AGTATT-TCTCATTATTTTTT
1 A-TATTCCCTCA-TATTTTTT
34032291 ATATTCCCTCATATTTTTT
1 ATATTCCCTCATATTTTTT
* *
34032310 ATTTTATCCTCATAATTTTTT
1 ATATT-CCCTCAT-ATTTTTT
34032331 ATAT
1 ATAT
34032335 AATTTCAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 20 0.38
20 22 0.42
21 10 0.19
ACGTcount: A:0.23, C:0.16, G:0.01, T:0.60
Consensus pattern (19 bp):
ATATTCCCTCATATTTTTT
Found at i:34032309 original size:21 final size:20
Alignment explanation
Indices: 34032285--34032335 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
34032275 TTTCTCATTA
34032285 TTTTTTATATTCCCTCAT-ATT
1 TTTTTTATA-T-CCTCATAATT
*
34032306 TTTTATTTTATCCTCATAATT
1 TTTT-TTATATCCTCATAATT
*
34032327 TTTTATATA
1 TTTTTTATA
34032336 ATTTCAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 9 0.36
21 12 0.48
22 4 0.16
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTATATCCTCATAATT
Found at i:34032309 original size:40 final size:40
Alignment explanation
Indices: 34032252--34032334 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 40
34032242 TACACCCTTG
* *
34032252 ATATCCCCTTATATTTTTTAGTATT-T-CTCATTATTTTTT
1 ATATCCCCTCATATTTTTTA-TATTATCCTCATAATTTTTT
* *
34032291 ATATTCCCTCATATTTTTTATTTTATCCTCATAATTTTTT
1 ATATCCCCTCATATTTTTTATATTATCCTCATAATTTTTT
34032331 ATAT
1 ATAT
34032335 AATTTCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.08
39 19 0.50
40 16 0.42
ACGTcount: A:0.23, C:0.16, G:0.01, T:0.60
Consensus pattern (40 bp):
ATATCCCCTCATATTTTTTATATTATCCTCATAATTTTTT
Found at i:34032997 original size:10 final size:10
Alignment explanation
Indices: 34032984--34033040 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
34032974 CAAAAATTTT
34032984 AAAAAAATAC
1 AAAAAAATAC
*
34032994 AAAAAATTAC
1 AAAAAAATAC
* *
34033004 GAGAAAATAC
1 AAAAAAATAC
* *
34033014 CAAAAAATAT
1 AAAAAAATAC
34033024 AAAAAAAGTAAC
1 AAAAAAA-T-AC
34033036 AAAAA
1 AAAAA
34033041 TTATGAGGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
10 29 0.81
11 1 0.03
12 6 0.17
ACGTcount: A:0.74, C:0.09, G:0.05, T:0.12
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:34033030 original size:20 final size:19
Alignment explanation
Indices: 34032982--34033040 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
34032972 TCCAAAAATT
34032982 TTAAAAAAATA-CAAAAAA
1 TTAAAAAAATACCAAAAAA
*
34033000 TTACGAGAAAATACCAAAAAA
1 TTA--AAAAAATACCAAAAAA
*
34033021 TATAAAAAAAGTAACAAAAA
1 T-TAAAAAAA-TACCAAAAA
34033041 TTATGAGGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 3 0.09
20 12 0.36
21 16 0.48
22 2 0.06
ACGTcount: A:0.71, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
TTAAAAAAATACCAAAAAA
Found at i:34044012 original size:40 final size:40
Alignment explanation
Indices: 34043956--34044159 Score: 313
Period size: 40 Copynumber: 5.1 Consensus size: 40
34043946 CGGGATTGAA
* * * *
34043956 CCGGATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
34043996 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
34044036 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
34044076 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34044116 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
34044156 CCGG
1 CCGG
34044160 TTATCATCCA
Statistics
Matches: 155, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 2 0.01
40 153 0.99
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34048442 original size:2 final size:2
Alignment explanation
Indices: 34048435--34048484 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
34048425 TTAAAAGAAA
34048435 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
34048477 AT AT AT AT
1 AT AT AT AT
34048485 GTAAATAGAT
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:34050571 original size:44 final size:45
Alignment explanation
Indices: 34050520--34050725 Score: 141
Period size: 44 Copynumber: 4.5 Consensus size: 45
34050510 TCAGTTTGCT
* *
34050520 CCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACT-TGTC
1 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTCTGCC
* **
34050564 CCACTGCAACTTCGGGGAGATAAGGTTTGTGATTTATAGCTTCAA-TCTGCC
1 CCACTGCAACTTCAGGGAGATAA-GACT-TG---TA-A-CTTCAACTCTGCC
* *
34050615 CCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAAC-CTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTCTGCC
* ** * * * ** ** * *
34050659 CCACCGTGATTTCCGGGAGATAAGGCTAATGGCTTCGA-TCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTCTGCC
*
34050703 CCACTGTAACTTCAGGGAGATAA
1 CCACTGCAACTTCAGGGAGATAA
34050726 AATTGGTATC
Statistics
Matches: 128, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
44 83 0.65
45 3 0.02
46 4 0.03
49 4 0.03
50 4 0.03
51 30 0.23
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTCTGCC
Found at i:34050745 original size:44 final size:43
Alignment explanation
Indices: 34050603--34050749 Score: 123
Period size: 44 Copynumber: 3.3 Consensus size: 43
34050593 TGATTTATAG
* *
34050603 CTTCAATCTGCCCCACTGTAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAA-AATTGTAA
* * * * * ** ** **
34050647 CTTCAACCTGCTCCACCGTGATTTCCGGGAGATAAGGCTAATGG
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAA-AATTGTAA
* *
34050691 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAAATTGGTAT
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAAATT-GTAA
*
34050735 CTTCAGTCTGCTCCA
1 CTTCAATCTGCTCCA
34050750 ATGCCATTTT
Statistics
Matches: 77, Mismatches: 25, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
43 1 0.01
44 76 0.99
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAAATTGTAA
Found at i:34050785 original size:88 final size:87
Alignment explanation
Indices: 34050744--34051256 Score: 658
Period size: 88 Copynumber: 5.9 Consensus size: 87
34050734 TCTTCAGTCT
* * * *
34050744 GCTCCAATGCCATTTTAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAA
1 GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
34050809 GATACGAACTGTGTCTTCGAGCC
66 GATACGAACTGTG-CTTCGAGCC
** * *
34050832 GCTCTTACGCCATTTCAAGGAGAAGAGATTTGCAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
1 GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
*
34050897 GAT-C-TACTGTGGCTTCGAGCC
66 GATACGAACTGT-GCTTCGAGCC
* * * * * *
34050918 ACTCCCATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCAATCTACTCCGCTGAAACTTTAAAGA
1 GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
* * *
34050983 GGTATGAACTGTGGCTTCGAGCA
66 GATACGAACTGT-GCTTCGAGCC
* * * *
34051006 GCTCCCACGCCATTTGAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGGA
1 GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
34051071 GATACGAACTGTGGCTTCGAGCC
66 GATACGAACTGT-GCTTCGAGCC
* * *
34051094 GCTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGGA
1 GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
*
34051159 GAT-CTG--CTGTGGCTTCGAGCA
66 GATAC-GAACTGT-GCTTCGAGCC
* * * * *
34051180 GCTCCAACGCCATTTTAGGGAGAAGTGATTTGTAGCCTCGATCTACTCCACTGAAATTTCAAAGA
1 GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
34051245 GATACGAACTGT
66 GATACGAACTGT
34051257 TGATTTCAAC
Statistics
Matches: 375, Mismatches: 43, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
86 147 0.39
87 4 0.01
88 224 0.60
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (87 bp):
GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
GATACGAACTGTGCTTCGAGCC
Done.