Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1243
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: 213413
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:2968 original size:12 final size:12
Alignment explanation
Indices: 2951--2989 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2941 GCCGAGAATG
*
2951 TTTGTCAAAAAC
1 TTTGTCAAGAAC
*
2963 TTTGTCAAGAAT
1 TTTGTCAAGAAC
*
2975 TTTGTGAAGAAC
1 TTTGTCAAGAAC
2987 TTT
1 TTT
2990 CCCATTTCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (12 bp):
TTTGTCAAGAAC
Found at i:2987 original size:24 final size:25
Alignment explanation
Indices: 2931--2989 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
2921 AACTATCGTT
*
2931 AAGAACTTTTGCCGAGAATGTTTGTC
1 AAGAAC-TTTGCCAAGAATGTTTGTC
* * *
2957 AAAAACTTTGTCAAGAAT-TTTGTG
1 AAGAACTTTGCCAAGAATGTTTGTC
2981 AAGAACTTT
1 AAGAACTTT
2990 CCCATTTCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 13 0.46
25 10 0.36
26 5 0.18
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (25 bp):
AAGAACTTTGCCAAGAATGTTTGTC
Found at i:3992 original size:13 final size:13
Alignment explanation
Indices: 3974--3999 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3964 CAATTTTTTG
3974 TGTATCGATACAT
1 TGTATCGATACAT
3987 TGTATCGATACAT
1 TGTATCGATACAT
4000 ACTTTCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4015 original size:32 final size:33
Alignment explanation
Indices: 3954--4017 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3944 TACAAGCCAA
** *
3954 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTCTGTATCGATACAT
3987 TGTATCGATAC-ATACTTTCTGTATCGATACA
1 TGTATCGATACAATACTTTCTGTATCGATACA
4018 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTCTGTATCGATACAT
Found at i:4084 original size:20 final size:20
Alignment explanation
Indices: 4059--4131 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4049 CAACTTTTTT
4059 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
4079 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
4100 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
4120 ATGTATCGATAC
1 ATGTATCGATAC
4132 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:4097 original size:41 final size:41
Alignment explanation
Indices: 4038--4131 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
4028 CTGCCAAGAA
*
4038 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
4079 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
4120 ATGTATCGATAC
1 ATGTATCGATAC
4132 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:4113 original size:21 final size:21
Alignment explanation
Indices: 4038--4113 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
4028 CTGCCAAGAA
* *
4038 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
4059 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4079 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
4100 ATGTATCGATACAT
1 ATGTATCGATACAT
4114 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:4726 original size:21 final size:21
Alignment explanation
Indices: 4702--4743 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4692 ATCTCCCCCT
4702 TAATCAAGTAATTCACAACAA
1 TAATCAAGTAATTCACAACAA
4723 TAATCAAGTAATTCACAACAA
1 TAATCAAGTAATTCACAACAA
4744 AAATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (21 bp):
TAATCAAGTAATTCACAACAA
Found at i:6549 original size:13 final size:13
Alignment explanation
Indices: 6531--6568 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
6521 ATAATCACCC
6531 TGTATCGATACAG
1 TGTATCGATACAG
*
6544 TGTATCGATACAT
1 TGTATCGATACAG
6557 TGTATCGATACA
1 TGTATCGATACA
6569 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:6582 original size:20 final size:20
Alignment explanation
Indices: 6557--6633 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
6547 ATCGATACAT
6557 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
6577 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
6602 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
6622 TGTATCGATACA
1 TGTATCGATACA
6634 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:8662 original size:15 final size:15
Alignment explanation
Indices: 8642--8672 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8632 ATTTCGTTTG
*
8642 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
8657 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
8672 G
1 G
8673 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:12749 original size:13 final size:13
Alignment explanation
Indices: 12731--12756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12721 CAATTTTTTG
12731 TGTATCGATACAT
1 TGTATCGATACAT
12744 TGTATCGATACAT
1 TGTATCGATACAT
12757 ACTTTCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:12772 original size:32 final size:33
Alignment explanation
Indices: 12711--12774 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
12701 TACAAGCCAA
** *
12711 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTCTGTATCGATACAT
12744 TGTATCGATAC-ATACTTTCTGTATCGATACA
1 TGTATCGATACAATACTTTCTGTATCGATACA
12775 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTCTGTATCGATACAT
Found at i:12841 original size:20 final size:20
Alignment explanation
Indices: 12816--12888 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
12806 CAACTTTTTT
12816 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
12836 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
12857 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
12877 ATGTATCGATAC
1 ATGTATCGATAC
12889 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:12854 original size:41 final size:41
Alignment explanation
Indices: 12795--12888 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
12785 CTGCCAAGAA
*
12795 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
12836 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
12877 ATGTATCGATAC
1 ATGTATCGATAC
12889 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:12870 original size:21 final size:21
Alignment explanation
Indices: 12795--12870 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
12785 CTGCCAAGAA
* *
12795 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
12816 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
12836 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
12857 ATGTATCGATACAT
1 ATGTATCGATACAT
12871 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:14866 original size:16 final size:18
Alignment explanation
Indices: 14845--14878 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
14835 AGCCATTACA
14845 CCTTTTC-TAAAA-TTTT
1 CCTTTTCTTAAAAGTTTT
14861 CCTTTTCTTAAAAGTTTT
1 CCTTTTCTTAAAAGTTTT
14879 AGTCCAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.24, C:0.18, G:0.03, T:0.56
Consensus pattern (18 bp):
CCTTTTCTTAAAAGTTTT
Found at i:16846 original size:32 final size:32
Alignment explanation
Indices: 16816--16909 Score: 161
Period size: 32 Copynumber: 2.9 Consensus size: 32
16806 GATTTGTATA
*
16816 ATACATAAAGTGTTGTATCGATACAGTGTATCG
1 ATACAT-AAGTGTTGTATCGATACAATGTATCG
16849 ATACATAAGTGTTGTATCGATACAATGTATCG
1 ATACATAAGTGTTGTATCGATACAATGTATCG
*
16881 ATACATAAGTTTTGTATCGATACAATGTA
1 ATACATAAGTGTTGTATCGATACAATGTA
16910 AGCTACTGCC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 53 0.90
33 6 0.10
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
ATACATAAGTGTTGTATCGATACAATGTATCG
Found at i:16847 original size:13 final size:13
Alignment explanation
Indices: 16829--16885 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
16819 CATAAAGTGT
16829 TGTATCGATACAG
1 TGTATCGATACAG
16842 TGTATCGATACATAAGTG
1 TGTATCGATAC---A--G
*
16860 TTGTATCGATACAA
1 -TGTATCGATACAG
16874 TGTATCGATACA
1 TGTATCGATACA
16886 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 23 0.62
16 2 0.05
18 1 0.03
19 11 0.30
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:16866 original size:19 final size:19
Alignment explanation
Indices: 16816--16904 Score: 76
Period size: 19 Copynumber: 5.3 Consensus size: 19
16806 GATTTGTATA
16816 ATACATAAAGTGTTGTATCG
1 ATACAT-AAGTGTTGTATCG
16836 ATAC---A--G-TGTATCG
1 ATACATAAGTGTTGTATCG
16849 ATACATAAGTGTTGTATCG
1 ATACATAAGTGTTGTATCG
16868 ATAC--AA----TGTATCG
1 ATACATAAGTGTTGTATCG
*
16881 ATACATAAGTTTTGTATCG
1 ATACATAAGTGTTGTATCG
16900 ATACA
1 ATACA
16905 ATGTAAGCTA
Statistics
Matches: 57, Mismatches: 0, Indels: 25
0.70 0.00 0.30
Matches are distributed among these distances:
13 22 0.39
14 1 0.02
15 2 0.04
16 2 0.04
17 2 0.04
18 1 0.02
19 23 0.40
20 4 0.07
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
ATACATAAGTGTTGTATCG
Found at i:16965 original size:13 final size:13
Alignment explanation
Indices: 16947--16971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16937 ATTACTCAAA
16947 TGTATCGATACAT
1 TGTATCGATACAT
16960 TGTATCGATACA
1 TGTATCGATACA
16972 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:17024 original size:52 final size:52
Alignment explanation
Indices: 16980--17108 Score: 258
Period size: 52 Copynumber: 2.5 Consensus size: 52
16970 CACTGATCTT
16980 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
17032 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
17084 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
17109 TCATATTTCG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:20487 original size:7 final size:7
Alignment explanation
Indices: 20475--20514 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
20465 GTTGAGACCT
20475 AAAAAGA
1 AAAAAGA
20482 AAAAAGA
1 AAAAAGA
*
20489 GAAAA-A
1 AAAAAGA
*
20495 AAAAAGC
1 AAAAAGA
20502 AAAAAGA
1 AAAAAGA
20509 AAAAAG
1 AAAAAG
20515 GGAATGGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:20498 original size:20 final size:19
Alignment explanation
Indices: 20475--20513 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
20465 GTTGAGACCT
20475 AAAAAGAAAAAAGAGAAAAA
1 AAAAAGAAAAAAGA-AAAAA
*
20495 AAAAAGCAAAAAGAAAAAA
1 AAAAAGAAAAAAGAAAAAA
20514 GGGAATGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAAAAA
Found at i:22353 original size:19 final size:19
Alignment explanation
Indices: 22329--22393 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
22319 TAGCCAAACT
22329 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
22348 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
22361 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
22382 TGTATCGATACA
1 TGTATCGATACA
22394 TTGGCCTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:22365 original size:13 final size:13
Alignment explanation
Indices: 22347--22372 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22337 TACACAAAAT
22347 ATGTATCGATACA
1 ATGTATCGATACA
22360 ATGTATCGATACA
1 ATGTATCGATACA
22373 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:22370 original size:32 final size:33
Alignment explanation
Indices: 22329--22393 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
22319 TAGCCAAACT
22329 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
22361 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
22394 TTGGCCTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:25895 original size:15 final size:15
Alignment explanation
Indices: 25877--25906 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25867 CCAAATTAAG
25877 GAAGCTCAAAATGAA
1 GAAGCTCAAAATGAA
*
25892 GAAGCTCCAAATGAA
1 GAAGCTCAAAATGAA
25907 ATCGATGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (15 bp):
GAAGCTCAAAATGAA
Found at i:28000 original size:13 final size:13
Alignment explanation
Indices: 27982--28019 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
27972 CATTTTTCTT
27982 TGTATCGATACAA
1 TGTATCGATACAA
*
27995 TGTATCGATACAC
1 TGTATCGATACAA
*
28008 TATATCGATACA
1 TGTATCGATACA
28020 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:28174 original size:20 final size:20
Alignment explanation
Indices: 28131--28176 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
28121 AAATCTTTTG
28131 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
28152 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
28172 CAAAA
1 CAAAA
28177 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:30572 original size:13 final size:13
Alignment explanation
Indices: 30554--30579 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30544 TACACAAAAT
30554 ATGTATCGATACA
1 ATGTATCGATACA
30567 ATGTATCGATACA
1 ATGTATCGATACA
30580 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:30577 original size:32 final size:33
Alignment explanation
Indices: 30536--30600 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
30526 TAGCCAAACT
*
30536 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATATATCGATACAA
30568 TGTATCGATACACAAAAAATATATATCGATACA
1 TGTATCGATACAC-AAAAATATATATCGATACA
30601 TTGGCCTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATATATCGATACAA
Found at i:33229 original size:20 final size:21
Alignment explanation
Indices: 33206--33244 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
33196 CAAAGCAATA
33206 TGTATCGATAC-TTCTAGGCT
1 TGTATCGATACTTTCTAGGCT
*
33226 TGTATTGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
33245 GTTTTGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGCT
Found at i:35047 original size:12 final size:11
Alignment explanation
Indices: 35025--35100 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
35015 AGAGAAAGAA
*
35025 GAGAGAGGAGG
1 GAGATAGGAGG
35036 GATGATAGGAGG
1 GA-GATAGGAGG
*
35048 AGAGACAGGA--
1 -GAGATAGGAGG
*
35058 GAGATAGTA--
1 GAGATAGGAGG
35067 GAGATAGGAGG
1 GAGATAGGAGG
35078 GATGATAGGAGG
1 GA-GATAGGAGG
*
35090 AGAGACAGGAG
1 -GAGATAGGAG
35101 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:35057 original size:24 final size:24
Alignment explanation
Indices: 35024--35109 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
35014 AAGAGAAAGA
*
35024 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
35048 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
35066 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
35090 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
35110 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:35076 original size:42 final size:42
Alignment explanation
Indices: 35015--35133 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
35005 TAGCCCTCAA
* *
35015 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
35057 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
35099 AGAGATAATAGAGAGAGGAGGGATGACAGAAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
35134 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:40391 original size:67 final size:67
Alignment explanation
Indices: 40283--40409 Score: 220
Period size: 67 Copynumber: 1.9 Consensus size: 67
40273 TGGGGAAATT
40283 AAAAAAGAAAGAAAAATCAATAAAGTTCTCAAGTTAAAACCCAAAA-ATATCAATTTAAAAGGTA
1 AAAAAAGAAAGAAAAATCAATAAAGTTCTCAAGTTAAAACCCAAAAGA-ATCAATTTAAAAGGTA
40347 ATA
65 ATA
* *
40350 AAAAAAGAAAGAAAAATGAATAAAGTTCTTAAGTTAAAACCCAAAAGAATCAATTTAAAA
1 AAAAAAGAAAGAAAAATCAATAAAGTTCTCAAGTTAAAACCCAAAAGAATCAATTTAAAA
40410 CAAACTCAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
67 56 0.98
68 1 0.02
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.20
Consensus pattern (67 bp):
AAAAAAGAAAGAAAAATCAATAAAGTTCTCAAGTTAAAACCCAAAAGAATCAATTTAAAAGGTAA
TA
Found at i:41727 original size:56 final size:55
Alignment explanation
Indices: 41569--41742 Score: 168
Period size: 56 Copynumber: 3.1 Consensus size: 55
41559 AACTTCATAA
* * * *
41569 GAGAAAGCCTAAAAGTAACTAGTAAGGATAGCTCTAATTGAAATTGGCACCTAAAT
1 GAGAAA-CCAAAAAGTAACTAGTAAGGATAGCTCTAGTTGAAATTAGCATCTAAAT
* * * * * * * *
41625 AAGAAAGCATAATAGTATCTAGTAAAGATATCTCGAGTTTAAATTAGCATCTAAAT
1 GAGAAACCA-AAAAGTAACTAGTAAGGATAGCTCTAGTTGAAATTAGCATCTAAAT
* * * * *
41681 GAGAAATCCAAAAAGTAGCTAGTAGGGATAGCTTTAGTTGATATTAGCATATAAAT
1 GAGAAA-CCAAAAAGTAACTAGTAAGGATAGCTCTAGTTGAAATTAGCATCTAAAT
41737 GAGAAA
1 GAGAAA
41743 GCCCAAGAGT
Statistics
Matches: 92, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
55 1 0.01
56 89 0.97
57 2 0.02
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (55 bp):
GAGAAACCAAAAAGTAACTAGTAAGGATAGCTCTAGTTGAAATTAGCATCTAAAT
Found at i:41983 original size:50 final size:49
Alignment explanation
Indices: 41925--42111 Score: 139
Period size: 51 Copynumber: 3.7 Consensus size: 49
41915 AATTTACAAG
*
41925 TAAAGACAAGTCTAGCAAAGTTAGAAAGCTTTTAGTATAGCTTGGCTAGT
1 TAAAGACAAGCCTAGCAAAGTTAG-AAGCTTTTAGTATAGCTTGGCTAGT
* * * * *
41975 TAAAGACAAACCTAGCAAGGTTAG-A-TTTTTAGAATTTATGCCTATGTAGCTAGC
1 TAAAGACAAGCCTAGCAAAGTTAGAAGCTTTTAG--TATA-G-CT-TG--GCTAGT
* * * * * *
42029 TAAACACAAGCCTAGCAAAGTTAGAGAGCCTTTTAGTCTAGCCTAGTTGGT
1 TAAAGACAAGCCTAGCAAAGTTAGA-AG-CTTTTAGTATAGCTTGGCTAGT
*
42080 TAAAGACAAGCCTAGCAAGGTTAG-A-CTTTTAG
1 TAAAGACAAGCCTAGCAAAGTTAGAAGCTTTTAG
42112 ATTTTAGGCT
Statistics
Matches: 108, Mismatches: 18, Indels: 25
0.72 0.12 0.17
Matches are distributed among these distances:
47 13 0.12
48 1 0.01
49 4 0.04
50 22 0.20
51 27 0.25
52 2 0.02
53 1 0.01
54 27 0.25
55 1 0.01
56 4 0.04
58 6 0.06
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (49 bp):
TAAAGACAAGCCTAGCAAAGTTAGAAGCTTTTAGTATAGCTTGGCTAGT
Found at i:42082 original size:105 final size:104
Alignment explanation
Indices: 41925--42144 Score: 298
Period size: 105 Copynumber: 2.1 Consensus size: 104
41915 AATTTACAAG
* * *
41925 TAAAGACAAGTCTAGCAAAGTTAGAAAGCTTTTAGTATAGCTTGGCTAGTTAAAGACAAACCTAG
1 TAAAGACAAGCCTAGCAAAGTTAGAAAGCTTTTAGTATAGCCTAGCTAGTTAAAGACAAACCTAG
*
41990 CAAGGTTAGATTTTTAGAATTTATGCCTA-TGTAGCTAGC
66 CAAGGTTAGACTTTTAGAATTTA-GCCTAGTGTAGCTAGC
* * * * * *
42029 TAAACACAAGCCTAGCAAAGTTAGAGAGCCTTTTAGTCTAGCCTAGTTGGTTAAAGACAAGCCTA
1 TAAAGACAAGCCTAGCAAAGTTAGAAAG-CTTTTAGTATAGCCTAGCTAGTTAAAGACAAACCTA
* * *
42094 GCAAGGTTAGACTTTTAGATTTTAGGCTAGTGTAGCTAGT
65 GCAAGGTTAGACTTTTAGAATTTAGCCTAGTGTAGCTAGC
42134 TAAAGACAAGC
1 TAAAGACAAGC
42145 TTACAAAAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
104 29 0.29
105 71 0.71
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (104 bp):
TAAAGACAAGCCTAGCAAAGTTAGAAAGCTTTTAGTATAGCCTAGCTAGTTAAAGACAAACCTAG
CAAGGTTAGACTTTTAGAATTTAGCCTAGTGTAGCTAGC
Found at i:42141 original size:54 final size:53
Alignment explanation
Indices: 41969--42144 Score: 171
Period size: 54 Copynumber: 3.3 Consensus size: 53
41959 GTATAGCTTG
* *
41969 GCTAGTTAAAGACAAACCTAGCAAGGTTAGATTTTTAGAATTTATGCCTA-TGTA
1 GCTAGTTAAAGACAAGCCTAGCAAGGTTAGA-TTTTAGATTTTA-GCCTAGTGTA
* * * * * * **
42023 GCTAGCTAAACACAAGCCTAGCAAAGTTAGA---GAGCCTTTTAGTCTAGCCTA
1 GCTAGTTAAAGACAAGCCTAGCAAGGTTAGATTTTAG-ATTTTAGCCTAGTGTA
* * *
42074 GTTGGTTAAAGACAAGCCTAGCAAGGTTAGACTTTTAGATTTTAGGCTAGTGTA
1 GCTAGTTAAAGACAAGCCTAGCAAGGTTAGA-TTTTAGATTTTAGCCTAGTGTA
42128 GCTAGTTAAAGACAAGC
1 GCTAGTTAAAGACAAGC
42145 TTACAAAAAT
Statistics
Matches: 94, Mismatches: 22, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
50 6 0.06
51 32 0.34
54 54 0.57
55 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (53 bp):
GCTAGTTAAAGACAAGCCTAGCAAGGTTAGATTTTAGATTTTAGCCTAGTGTA
Found at i:43455 original size:52 final size:51
Alignment explanation
Indices: 43398--43511 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 51
43388 AACACTGGGC
* **
43398 TTGGAGTATCCTCAATGG-CAAGAAATTGATATTTTAGAAATAAAAATGGGGG
1 TTGGAGTATCCTCAACGGTCAA-AAATCAATATTTTAGAAA-AAAAATGGGGG
* * * * *
43450 TTGGAGTATCCTCGACGGTGAAAAGTCAATATTTTAGAAACAAAATTGGGG
1 TTGGAGTATCCTCAACGGTCAAAAATCAATATTTTAGAAAAAAAATGGGGG
43501 TTGGAGTATCC
1 TTGGAGTATCC
43512 CCTCGGAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 20 0.38
52 31 0.58
53 2 0.04
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (51 bp):
TTGGAGTATCCTCAACGGTCAAAAATCAATATTTTAGAAAAAAAATGGGGG
Found at i:47556 original size:32 final size:32
Alignment explanation
Indices: 47512--47698 Score: 197
Period size: 32 Copynumber: 6.0 Consensus size: 32
47502 TGGTGATTTG
**
47512 AAAAAG-GTTGCCACTGACTTGTGTGGGCTTT
1 AAAAAGAGTTGCCACCAACTTGTGTGGGCTTT
* *
47543 AAAAA-AATGTGCCACTAACTTGTGTGGGCTTT
1 AAAAAGAGT-TGCCACCAACTTGTGTGGGCTTT
47575 AAAAAGAGTTGCCACCAACTTGTGTGGGCTTT
1 AAAAAGAGTTGCCACCAACTTGTGTGGGCTTT
*
47607 AAAAAGAGTTGCCACCAACTTGTGTAGGCTTT
1 AAAAAGAGTTGCCACCAACTTGTGTGGGCTTT
* * * **
47639 -GAAAG-GGTGCCACTAAC-T-TGTAAGCTTT
1 AAAAAGAGTTGCCACCAACTTGTGTGGGCTTT
* * * *
47667 GAAAAGAGTTACCACCGACTCGTGTGGGCTTT
1 AAAAAGAGTTGCCACCAACTTGTGTGGGCTTT
47699 GAATGGGTGT
Statistics
Matches: 132, Mismatches: 17, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
28 9 0.07
29 5 0.04
30 18 0.14
31 10 0.08
32 88 0.67
33 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (32 bp):
AAAAAGAGTTGCCACCAACTTGTGTGGGCTTT
Found at i:47669 original size:28 final size:28
Alignment explanation
Indices: 47597--48716 Score: 1117
Period size: 28 Copynumber: 39.1 Consensus size: 28
47587 CACCAACTTG
* * **
47597 TGTGGGCTTTAAAAAGAGTTGCCACCAACT
1 TGTGGGCTTT-GAAAG-GATGCCACTGACT
* *
47627 TGTGTAGGCTTTGAAAGGGTGCCACTAACT
1 TGTG--GGCTTTGAAAGGATGCCACTGACT
** * * *
47657 TGTAAGCTTTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* * ** *
47687 CGTGTGGGCTTTGAATGGGTGTTACCGACT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
47717 TGTGGGCTTTGAAAGGATATGCCACTGACT
1 TGTGGGCTTTGAAAGG--ATGCCACTGACT
* * *
47747 TGTGGGTTTTGAAATGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
47775 TATGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
47803 TGTGGGCTTTAAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
47831 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
47859 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
47887 TGTGAGCTTTGAATGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
47915 TGTGGGTTTTGAATGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
47943 TGCGGTCTTTGAAAGAATGCCACTTG-CT
1 TGTGGGCTTTGAAAGGATGCCAC-TGACT
* *
47971 TGTGGGCTTTGAAATGG-TGGCACTAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * * *
47999 TATAGGCTTTGAAAATAGTTACCACCGACT
1 TGTGGGCTTTG-AAA-GGATGCCACTGACT
* * **
48029 CGTGTGGGCTTTAAAAGGGTGCCACCAACT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
48059 CGTGTGGGCTTTGGAAGGGTGCCACCGACT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
*
48089 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
48117 TGTGGGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
48145 TGTGGGCTTTAAAAGCATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
48173 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
48201 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
48229 TGTGGGCTTTGAATGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
48257 TGTGGGCTTTGAAAGGATGCCACTGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
48285 TGTGGGCTTTGAAATGG-TGGCATTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * *
48313 TGTAGGCTTTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
*
48343 CGTGTGGGCTTTGAAAGGGTGCCA-TCGACT
1 --TGTGGGCTTTGAAAGGATGCCACT-GACT
*
48373 CGTGTGGGCTTTGAAAAGG-TGCCACCGACT
1 --TGTGGGCTTTG-AAAGGATGCCACTGACT
* ** *
48403 CGTGTGGGCTTTGAAAGGGTGCCACCAATT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
* *
48433 TGTGGGCTTTGAAATGG-TGCCAGTAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
*
48461 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
48489 TGTGAGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
48517 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
48545 TGGGGGCTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
48573 TGTGGGTTTTGAAAGGGTGCCACTGA-T
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
48600 TCATGGGCATTGAAAAGGATGCCACTTACT
1 T-GTGGGCTTTG-AAAGGATGCCACTGACT
*
48630 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
48658 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
48686 TGT-GGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
48713 TGTG
1 TGTG
48717 AACTTAAAAG
Statistics
Matches: 931, Mismatches: 124, Indels: 72
0.83 0.11 0.06
Matches are distributed among these distances:
27 37 0.04
28 623 0.67
29 55 0.06
30 164 0.18
31 19 0.02
32 33 0.04
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:48732 original size:27 final size:27
Alignment explanation
Indices: 48702--49272 Score: 578
Period size: 27 Copynumber: 20.9 Consensus size: 27
48692 TTTGAAATGA
* * * *
48702 TGCCACTAACTTGTGAACTTAAAAGGT
1 TGCCACGAAGTTGTGGACTTAAAAGGG
48729 TGCCAC-AGAGTTGTGGACTTAAAAGGG
1 TGCCACGA-AGTTGTGGACTTAAAAGGG
* * *
48756 TGCCATGGAGTTATGGACTTTAAAAGGG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* *
48784 TGCCATGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* * *
48812 TGCCACGGAGTAGTGGACCTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* *
48839 TGCCACGGAGTTGTAGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
48866 TGCCACGAAGTTATGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* * *
48893 TGCTACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
48920 TGCCACGAAGTTGTGGACTTAAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* *
48947 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
48974 TGCCAC-AGAGTTATGGACTTTAAAAGGG
1 TGCCACGA-AGTTGTGGAC-TTAAAAGGG
* * *
49002 TGCCACGGAGTTATGGACTTTAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
49029 TGCCACGAAGTTATGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* * *
49056 TGCCACAAAGTTGTGGGCTTAAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
49083 TGCCA-TAGAGTTGTGGACTTAAAAGGG
1 TGCCACGA-AGTTGTGGACTTAAAAGGG
* * *
49110 TACCAC-AGAGTTGTAGACTTAAAAGGA
1 TGCCACGA-AGTTGTGGACTTAAAAGGG
* *
49137 TGCCAC-AGAGTTATGGACTTTAAAAGCG
1 TGCCACGA-AGTTGTGGAC-TTAAAAGGG
* *
49165 TGCTACAAAGTTGTGGACTTTAAAA-GG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* * * * *
49192 TGCCATGGAGTTGTGAACTTAAAAAGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* *
49219 TGCCATGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* *
49247 TGCCACAAAGTTATGGACTTTAAAAG
1 TGCCACGAAGTTGTGGAC-TTAAAAG
49273 AAAAGGCTTC
Statistics
Matches: 471, Mismatches: 61, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
26 8 0.02
27 329 0.70
28 133 0.28
29 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.25
Consensus pattern (27 bp):
TGCCACGAAGTTGTGGACTTAAAAGGG
Found at i:48760 original size:54 final size:54
Alignment explanation
Indices: 48718--49272 Score: 643
Period size: 54 Copynumber: 10.2 Consensus size: 54
48708 TAACTTGTGA
* * * *
48718 ACTTAAAAGGTTGCCACAGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTATGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGG
* *
48772 ACTTTAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG-TAGTGG
1 AC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGAAGTTA-TGG
* *
48828 ACCTAAAAGGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGAAGTTATGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGG
* * *
48882 ACTTAAAAGGGTGCTACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGG
* *
48936 ACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCAC-AGAGTTATGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTATGG
* *
48990 ACTTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAGGGTGCCACGAAGTTATGG
1 AC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGG
** * * * *
49045 ACTTAAAAGGGTGCCACAAAGTTGTGGGCTTAAAAGGATGCCA-TAGAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTATGG
* * * *
49099 ACTTAAAAGGGTACCACAGAGTTGTAGACTTAAAAGGATGCCAC-AGAGTTATGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTATGG
* * ** * * * *
49153 ACTTTAAAAGCGTGCTACAAAGTTGTGGACTTTAAAA-GGTGCCATGGAGTTGTGA
1 AC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGAAGTTATGG
* * * *
49208 ACTTAAAAAGATGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACAAAGTTATGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGAAGTTATGG
49263 ACTTTAAAAG
1 AC-TTAAAAG
49273 AAAAGGCTTC
Statistics
Matches: 431, Mismatches: 56, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.00
54 242 0.56
55 151 0.35
56 36 0.08
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.25
Consensus pattern (54 bp):
ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGG
Found at i:49007 original size:163 final size:164
Alignment explanation
Indices: 48718--49272 Score: 699
Period size: 163 Copynumber: 3.4 Consensus size: 164
48708 TAACTTGTGA
* * * *
48718 ACTTAAAAGGTTGCCACAGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTATGGACTTTAAAAGG
1 ACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGAAGTTATGGACTTTAAAAGG
* * * *
48783 GTGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG-TAGTGGAC-CTAAAAGGGTGCCACG
66 GTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTA-TGGACTTTAAAAGGGTGCCACG
*
48846 GAGTTGTAGACTTAAAAGGGTGCCACGAAGTTATGG
129 GAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGG
* * *
48882 ACTTAAAAGGGTGCTACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGAC-TTAAAAGG
1 ACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGAAGTTATGGACTTTAAAAGG
*
48946 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTTAAAAGGGTGCCACGGA
66 GTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTTAAAAGGGTGCCACGGA
* *
49011 GTTATGGACTTTAAAGGGTGCCACGAAGTTATGG
131 GTTGTGGACTTAAAAGGGTGCCACGAAGTTATGG
* * * *
49045 ACTTAAAAGGGTGCCACAAAGTTGTGGGCTTAAAAGGATGCCA-TAGAGTTGTGGAC-TTAAAAG
1 ACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGA-AGTTATGGACTTTAAAAG
* * * * * **
49108 GGTACCACAGAGTTGTAGACTTAAAAGGATGCCACAGAGTTATGGACTTTAAAAGCGTGCTACAA
65 GGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTTAAAAGGGTGCCACGG
* * * *
49173 AGTTGTGGACTTTAAAA-GGTGCCATGGAGTTGTGA
130 AGTTGTGGAC-TTAAAAGGGTGCCACGAAGTTATGG
* * ** * *
49208 ACTTAAAAAGATGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACAAAGTTATGGACTTTAAAAG
1 ACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGATGCCACGAAGTTATGGACTTTAAAAG
49273 AAAAGGCTTC
Statistics
Matches: 341, Mismatches: 43, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
162 23 0.07
163 234 0.69
164 76 0.22
165 8 0.02
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.25
Consensus pattern (164 bp):
ACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGAAGTTATGGACTTTAAAAGG
GTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTTAAAAGGGTGCCACGGA
GTTGTGGACTTAAAAGGGTGCCACGAAGTTATGG
Found at i:49324 original size:34 final size:34
Alignment explanation
Indices: 49240--49343 Score: 131
Period size: 33 Copynumber: 3.1 Consensus size: 34
49230 TGTGGACTTT
* **
49240 AAAAGGGTGCCACAAAGTTATGGACTTTAAAAG-
1 AAAAGGTTGCCACGGAGTTATGGACTTTAAAAGA
* *
49273 AAAAGGCTT-CCATGGAGTTCTGGACTTTAAAAGA
1 AAAAGG-TTGCCACGGAGTTATGGACTTTAAAAGA
49307 AAAAGGTTGCCACGGAGTTATGGACTTTGAAAAGA
1 AAAAGGTTGCCACGGAGTTATGGACTTT-AAAAGA
49342 AA
1 AA
49344 TGCCATTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
33 28 0.47
34 24 0.40
35 8 0.13
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (34 bp):
AAAAGGTTGCCACGGAGTTATGGACTTTAAAAGA
Found at i:53801 original size:51 final size:51
Alignment explanation
Indices: 53728--53896 Score: 216
Period size: 51 Copynumber: 3.3 Consensus size: 51
53718 TTAGAAATAA
* * * *
53728 CAGGGTTGGAGTACCCCCGATTGTGGAAGATCGATATTTTGGAAATAAAAT
1 CAGGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAAT
* * * *
53779 AAGGGCTGGAGTATCCCTGATTGTGAAAAATCGGTGTTTTGGAAATAAAA-
1 CAGGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAAT
* *
53829 CCGAGGTTGGAGTAT-CCTGATTATGGAAAATCGATGTTTTGGAAATAAAAT
1 CAG-GGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAAT
*
53880 CGGGGTTGGAGTATCCC
1 CAGGGTTGGAGTATCCC
53897 CTCAAAAATA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
50 44 0.44
51 56 0.56
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAAT
Found at i:53966 original size:79 final size:79
Alignment explanation
Indices: 53830--54162 Score: 341
Period size: 79 Copynumber: 4.2 Consensus size: 79
53820 GAAATAAAAC
* * * *
53830 CGAGGTTGGAGTAT-CCTGATTATGG-AAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTA
1 CGAGGTTGGAGTATCCCCGATT-GGGAAAAATCGATGTTTTGGAAATAAAACCAGGGTTGGAGTA
53893 TCCCCTCAAAAATAA
65 TCCCCTCAAAAATAA
* * * * *
53908 CGAGGTTGAAGTATCCCTGATTGGGAAAAATCAATGTTTTAGAAATAAAACCAAGGTTGGAGTAT
1 CGAGGTTGGAGTATCCCCGATTGGGAAAAATCGATGTTTTGGAAATAAAACCAGGGTTGGAGTAT
**
53973 CCCCTTGAAAATAA
66 CCCCTCAAAAATAA
* * ** * * * *
53987 -TAGGGTTGGTGTATCCCCGATTATGAAAAATTGGTGCTTTGGAAATAAAACCAGGGTTAGAGTA
1 CGA-GGTTGGAGTATCCCCGATTGGGAAAAATCGATGTTTTGGAAATAAAACCAGGGTTGGAGTA
*
54051 TCCTCTCAAAAATAA
65 TCCCCTCAAAAATAA
* * * * * * * * *
54066 CGGGGTTCGTGTATCCCCGATTGTGAAAAATTTG-TATTTTGAAAATAAAACCGGGGTTGAAGTA
1 CGAGGTTGGAGTATCCCCGATTGGGAAAAA-TCGATGTTTTGGAAATAAAACCAGGGTTGGAGTA
*
54130 TCCCCTCGAAAATAA
65 TCCCCTCAAAAATAA
54145 CGAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
54163 TCGAAAATAA
Statistics
Matches: 210, Mismatches: 40, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
78 16 0.08
79 191 0.91
80 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (79 bp):
CGAGGTTGGAGTATCCCCGATTGGGAAAAATCGATGTTTTGGAAATAAAACCAGGGTTGGAGTAT
CCCCTCAAAAATAA
Found at i:54135 original size:158 final size:157
Alignment explanation
Indices: 53831--54162 Score: 402
Period size: 158 Copynumber: 2.1 Consensus size: 157
53821 AAATAAAACC
* * * * * *
53831 GAGGTTGGAGTAT-CCTGATTATGGAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTATC
1 GAGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTGGAAATAAAACCAGGGTTAGAGTATC
*
53895 CCCTCAAAAATAACGAGGTTGAAGTATCCCTGATTGGGAAAAATCAATGTTTTAGAAATAAAACC
66 CCCTCAAAAATAACGAGGTTGAAGTATCCCCGATTGGGAAAAAT-AATGTTTTAGAAATAAAACC
* *
53960 AAGGTTGGAGTATCCCCTTGAAAATAATA
130 AAGGTTGAAGTATCCCCTCGAAAATAA-A
* * *
53989 G-GGTTGGTGTATCCCCGATTATGAAAAATTGGTGCTTTGGAAATAAAACCAGGGTTAGAGTATC
1 GAGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTGGAAATAAAACCAGGGTTAGAGTATC
* * * * * *
54053 CTCTCAAAAATAACGGGGTTCG-TGTATCCCCGATTGTGAAAAAT-TTGTATTTTGAAAATAAAA
66 CCCTCAAAAATAACGAGGTT-GAAGTATCCCCGATTGGGAAAAATAATGT-TTTAG-AAATAAAA
** *
54116 CCGGGGTTGAAGTATCCCCTCGAAAATAAC
128 CCAAGGTTGAAGTATCCCCTCGAAAATAAA
54146 GAGGTTGGAGTATCCCC
1 GAGGTTGGAGTATCCCC
54163 TCGAAAATAA
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
156 3 0.02
157 15 0.10
158 128 0.87
159 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (157 bp):
GAGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTGGAAATAAAACCAGGGTTAGAGTATC
CCCTCAAAAATAACGAGGTTGAAGTATCCCCGATTGGGAAAAATAATGTTTTAGAAATAAAACCA
AGGTTGAAGTATCCCCTCGAAAATAAA
Found at i:54151 original size:28 final size:27
Alignment explanation
Indices: 54119--54187 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
54109 AATAAAACCG
*
54119 GGGTTGAAGTATCCCCTCGAAAATAAC
1 GGGTTGGAGTATCCCCTCGAAAATAAC
54146 GAGGTTGGAGTATCCCCTCGAAAATAAC
1 G-GGTTGGAGTATCCCCTCGAAAATAAC
54174 GGAGTTGGAGTATC
1 GG-GTTGGAGTATC
54188 TCTGATTATG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCTCGAAAATAAC
Found at i:54170 original size:107 final size:107
Alignment explanation
Indices: 54041--54270 Score: 273
Period size: 107 Copynumber: 2.1 Consensus size: 107
54031 ATAAAACCAG
* * * * * *
54041 GGTTAGAGTATCCTCTCAAAAATAACGGGGTTCGTGTATCCCCGATTGTGAAAAATTTG-TATTT
1 GGTTGGAGTATCCCCTCAAAAATAACGGAGTTCGAGTATCCCCGATTATGAAAAA-TCGATATTT
* *
54105 TGAAAATAAAACCGGGGTTGAAGTATCCCCTCGAAAATAACGA
65 TGAAAATAAAACCAGAGTTGAAGTATCCCCTCGAAAATAACGA
* * * * *
54148 GGTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCTCTGATTATGAAAAATCGATGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACGGAGTTCGAGTATCCCCGATTATGAAAAATCGATATTTT
* * * * * *
54213 GGAAATAAAACTAGAGTTGGAGTATCCCCTTGGAAATAACGG
66 GAAAATAAAACCAGAGTTGAAGTATCCCCTCGAAAATAACGA
54255 GGTTGGAGTATCCCCT
1 GGTTGGAGTATCCCCT
54271 ATTGTGGAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
106 2 0.02
107 101 0.98
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (107 bp):
GGTTGGAGTATCCCCTCAAAAATAACGGAGTTCGAGTATCCCCGATTATGAAAAATCGATATTTT
GAAAATAAAACCAGAGTTGAAGTATCCCCTCGAAAATAACGA
Found at i:54202 original size:186 final size:186
Alignment explanation
Indices: 53961--54330 Score: 474
Period size: 186 Copynumber: 2.0 Consensus size: 186
53951 AATAAAACCA
* * * *
53961 AGGTTGGAGTATCCCCTTGAAAATAATAGGGTTGGTGTATCCCCGATTATGAAAAATTGGTGCTT
1 AGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTT
* * *
54026 TGGAAATAAAACCAGGGTTAGAGTATCCTCTCAAAAATAACGGGGTTCGTGTATCCCCGATTGTG
66 TGGAAATAAAACCAGAGTTAGAGTATCCCCTCAAAAATAACGGGGTTCGAGTATCCCCGATTGTG
** * * *
54091 AAAAATTTGTATTTTGAAAATAAAACCGGGGTT-GAAGTATCCCCTCGAAAATAACG
131 AAAAATCGGTACTCTGAAAATAAAACCAGGGTTAG-AGTATCCCCTCGAAAATAACG
* * * *
54147 AGGTTGGAGTATCCCCTCGAAAATAA-CGGAGTTGGAGTATCTCTGATTATGAAAAATCGATGTT
1 AGGTTGGAGTATCCCCTCGAAAATAATAGG-GTTGGAGTATCCCCGATTATGAAAAATCGATGCT
* * *** * *
54211 TTGGAAATAAAACTAGAGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCTATTGT
65 TTGGAAATAAAACCAGAGTTAGAGTATCCCCTCAAAAATAACGGGGTTCGAGTATCCCCGATTGT
* * *
54276 GGAAAATCGGTGCTCTGAAAATAAAATCAGGGTTAGAGTATCCCCTCGAAAATAA
130 GAAAAATCGGTACTCTGAAAATAAAACCAGGGTTAGAGTATCCCCTCGAAAATAA
54331 AAACATGAAT
Statistics
Matches: 156, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
185 2 0.01
186 153 0.98
187 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (186 bp):
AGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTT
TGGAAATAAAACCAGAGTTAGAGTATCCCCTCAAAAATAACGGGGTTCGAGTATCCCCGATTGTG
AAAAATCGGTACTCTGAAAATAAAACCAGGGTTAGAGTATCCCCTCGAAAATAACG
Found at i:54232 original size:79 final size:79
Alignment explanation
Indices: 54149--54330 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 79
54139 AAATAACGAG
* * *
54149 GTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTAT-CTCTGATTATGAAAAATCGATGTTTT
1 GTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCCCCT-ATTATGAAAAATCGATGCTCT
*
54213 GGAAATAAAA-CTAGA
65 GAAAATAAAATC-AGA
* * * * * *
54228 GTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCTATTGTGGAAAATCGGTGCTCTG
1 GTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCCCCTATTATGAAAAATCGATGCTCTG
*
54293 AAAATAAAATCAGG
66 AAAATAAAATCAGA
*
54307 GTTAGAGTATCCCCTCGAAAATAA
1 GTTGGAGTATCCCCTCGAAAATAA
54331 AAACATGAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 83 0.95
80 4 0.05
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCCCCTATTATGAAAAATCGATGCTCTG
AAAATAAAATCAGA
Found at i:56744 original size:30 final size:30
Alignment explanation
Indices: 56703--56776 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
56693 ACATTGAGAT
* * *
56703 ATGTATTGATACATCTGGGTAAAACCCAGA
1 ATGTATCGATACAACTAGGTAAAACCCAGA
56733 ATGTATCGATACAACTAGGTAAAACCCAGA
1 ATGTATCGATACAACTAGGTAAAACCCAGA
56763 ATGTATCGATACAA
1 ATGTATCGATACAA
56777 TGAACAATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (30 bp):
ATGTATCGATACAACTAGGTAAAACCCAGA
Found at i:60403 original size:10 final size:10
Alignment explanation
Indices: 60373--60406 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
60363 TGAGGATCGA
*
60373 TTTAAAAATA
1 TTTAAAAATC
60383 TTTCAAAAATC
1 TTT-AAAAATC
60394 TTTAAAAATC
1 TTTAAAAATC
60404 TTT
1 TTT
60407 TTCCTAGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTAAAAATC
Found at i:62656 original size:79 final size:79
Alignment explanation
Indices: 62503--62659 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
62493 TTGGTGTCTA
* * * * * * * *
62503 CAAAAATAATGGGGTTGGAGTATCCTTTATGGTGGAAAATTGATGTTTTAGAAATAAAACCGGGG
1 CAAAAATAACGGGGTTGGAGTATCCCTGATGATGAAAAATTAATGTTTCAGAAATAAAACCGGGA
62568 TTAAAGTATCCCCT
66 TTAAAGTATCCCCT
**
62582 CAAAAATAACGGGGTTGGAGTATCCCTGATGATGAAAAATTAATGTTGTCA-AAATAAAATTGGG
1 CAAAAATAACGGGGTTGGAGTATCCCTGATGATGAAAAATTAATGTT-TCAGAAATAAAACCGGG
* *
62646 ATTGAGGTATCCCC
65 ATTAAAGTATCCCC
62660 GATGGTGGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 63 0.97
80 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (79 bp):
CAAAAATAACGGGGTTGGAGTATCCCTGATGATGAAAAATTAATGTTTCAGAAATAAAACCGGGA
TTAAAGTATCCCCT
Found at i:62714 original size:49 final size:49
Alignment explanation
Indices: 62581--62718 Score: 138
Period size: 51 Copynumber: 2.8 Consensus size: 49
62571 AAGTATCCCC
* * *
62581 TCAAAAATAACGGGGTTGGAGTATCCCTGATGATGAAAAATTAATGTTG
1 TCAAAAATAACGGGATTGGAGTATCCCTGATGGTGAAAAATCAATGTTG
* * * *
62630 TCAAAATAAAATTGGGATT-GAGGTATCCCCGATGGTGGAAAATCAATGTT-
1 TCAAAA-ATAA-CGGGATTGGA-GTATCCCTGATGGTGAAAAATCAATGTTG
* *
62680 TTAGAAAATAACGGGATTGGAGTATCCCTAATGGT-AAAA
1 TCA-AAAATAACGGGATTGGAGTATCCCTGATGGTGAAAA
62719 GATCGATATT
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
48 3 0.04
49 24 0.34
50 12 0.17
51 32 0.45
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (49 bp):
TCAAAAATAACGGGATTGGAGTATCCCTGATGGTGAAAAATCAATGTTG
Found at i:62834 original size:80 final size:79
Alignment explanation
Indices: 62678--62836 Score: 189
Period size: 80 Copynumber: 2.0 Consensus size: 79
62668 AAAATCAATG
* *
62678 TTTTAGAAAATAACGGGATTGGAGTATCCCTAATGGTAAAAGATCGATATTTTAGAAATAAAATT
1 TTTTAGAAAATAACAGGATTGGAGTATCCCTAATGGTAAAAGATCGATATTTTAGAAATAAAATC
*
62743 AGGGTTGGAGTATC
66 AGGGTTAGAGTATC
* * * *
62757 TTTTCGAAAATAACAAGG-TTGGAGTATCCCCGATAATGG-AAAA-ATTGATGTTTTAGGAATAA
1 TTTTAGAAAATAAC-AGGATTGGAGTAT-CCC--TAATGGTAAAAGATCGATATTTTAGAAATAA
*
62819 AATCGGGGTTAGAGTATC
62 AATCAGGGTTAGAGTATC
62837 CTCAATAATG
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 22 0.32
80 36 0.53
81 4 0.06
82 6 0.09
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (79 bp):
TTTTAGAAAATAACAGGATTGGAGTATCCCTAATGGTAAAAGATCGATATTTTAGAAATAAAATC
AGGGTTAGAGTATC
Found at i:62845 original size:52 final size:52
Alignment explanation
Indices: 62773--62891 Score: 193
Period size: 52 Copynumber: 2.3 Consensus size: 52
62763 AAAATAACAA
* *
62773 GGTTGGAGTATCCCCGATAATGGAAAAATTGATGTTTTAGGAATAAAATCGG
1 GGTTGGAGTATCCCCAATAATGGAAAAATCGATGTTTTAGGAATAAAATCGG
* * *
62825 GGTTAGAGTATCCTCAATAATGGAAAAATCGATGTTTTAGGAATACAATCGG
1 GGTTGGAGTATCCCCAATAATGGAAAAATCGATGTTTTAGGAATAAAATCGG
62877 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
62892 TCAAAAATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (52 bp):
GGTTGGAGTATCCCCAATAATGGAAAAATCGATGTTTTAGGAATAAAATCGG
Found at i:62886 original size:132 final size:128
Alignment explanation
Indices: 62652--62946 Score: 299
Period size: 132 Copynumber: 2.3 Consensus size: 128
62642 TGGGATTGAG
** *
62652 GTATCCCCGATGGTGGAAAATCAATGTTTTAGAAAATAACGGGATTGGAGTATCCCTAATGGTAA
1 GTATCCCCGATAATGGAAAATCAATGTTTTAGAAAATAACGGGATTAGAGTATCCCTAATGGTAA
* *** *
62717 AAGATCGATATTTTAGAAATAAAATTAGGGTTGGAGTATCTTTTCGAAAATAACAAGGTTGGA
66 AAGATCGATATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGA
** *
62780 GTATCCCCGATAATGGAAAAATTGATGTTTTAGGAATAA-AATCGGGGTTAGAGTATCCTCAATA
1 GTATCCCCGATAATGG-AAAATCAATGTTTTA-GAA-AATAA-CGGGATTAGAGTATCC-C--TA
* * * *
62844 ATGG-AAAA-ATCGATGTTTTAGGAATACAATCGGGGTTGGAGTATCCCCTCAAAAATAACAAGG
59 ATGGTAAAAGATCGATATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAAGG
* *
62907 ATAGA
124 TTGGA
* * ** * *
62912 ATATCCTCGATGGTGAAAAATCAGTGTTTTAGAAA
1 GTATCCCCGATAATGGAAAATCAATGTTTTAGAAA
62947 TAAAAGTGGG
Statistics
Matches: 135, Mismatches: 25, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
128 14 0.10
129 14 0.10
130 8 0.06
131 28 0.21
132 61 0.45
133 4 0.03
134 6 0.04
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (128 bp):
GTATCCCCGATAATGGAAAATCAATGTTTTAGAAAATAACGGGATTAGAGTATCCCTAATGGTAA
AAGATCGATATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGA
Found at i:62979 original size:79 final size:79
Alignment explanation
Indices: 62847--63005 Score: 187
Period size: 79 Copynumber: 2.0 Consensus size: 79
62837 CTCAATAATG
* * *
62847 GAAAAATCGATGTTTTAGGAATACAATCGGGGTTGGAGTATCCCCTCAAAAATAACAAGGATAGA
1 GAAAAATCGATGTTTTAGAAATAAAATCGGGGCTGGAGTATCCCCTCAAAAATAACAAGGATAGA
62912 ATATCCTCGATGGT
66 ATATCCTCGATGGT
* ** * * * *
62926 GAAAAATC-AGTGTTTTAGAAATAAAAGT-GGGGCTGGAGTGTCCTGTCAGAAATAACGAGGTTG
1 GAAAAATCGA-TGTTTTAGAAATAAAA-TCGGGGCTGGAGTATCCCCTCAAAAATAACAAGGATA
*
62989 GAGTATCCTCGATGGT
64 GAATATCCTCGATGGT
63005 G
1 G
63006 GATGTCGCGA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 65 0.97
80 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (79 bp):
GAAAAATCGATGTTTTAGAAATAAAATCGGGGCTGGAGTATCCCCTCAAAAATAACAAGGATAGA
ATATCCTCGATGGT
Found at i:66183 original size:20 final size:20
Alignment explanation
Indices: 66158--66314 Score: 197
Period size: 20 Copynumber: 7.7 Consensus size: 20
66148 TTTTAACTAG
*
66158 ATGTATCGATACATTGAACA
1 ATGTATCGATACATTGAAGA
**
66178 ATGTATCGATACATTTGGGTTGA
1 ATGTATCGATACA-TT--GAAGA
66201 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
66221 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
*
66241 CTGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
* ***
66261 ATGTATCGATACATTCATCC
1 ATGTATCGATACATTGAAGA
*
66281 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAGA
*
66301 AAGTATCGATACAT
1 ATGTATCGATACAT
66315 CTGGGTAAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
20 99 0.84
21 2 0.02
22 2 0.02
23 15 0.13
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:66378 original size:24 final size:20
Alignment explanation
Indices: 66158--66365 Score: 173
Period size: 20 Copynumber: 9.7 Consensus size: 20
66148 TTTTAACTAG
*
66158 ATGTATCGATACATTGAACA
1 ATGTATCGATACATTGAAAA
***
66178 ATGTATCGATACATTTGGGTTGA
1 ATGTATCGATACA-TT--GAAAA
*
66201 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
*
66221 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* *
66241 CTGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* ***
66261 ATGTATCGATACATTCATCC
1 ATGTATCGATACATTGAAAA
66281 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
66301 AAGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
66332 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
66352 ATGTATCGATACAT
1 ATGTATCGATACAT
66366 CTAGGTAAAA
Statistics
Matches: 157, Mismatches: 17, Indels: 28
0.78 0.08 0.14
Matches are distributed among these distances:
20 114 0.73
21 4 0.03
22 3 0.02
23 17 0.11
28 2 0.01
29 1 0.01
30 2 0.01
31 14 0.09
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:71249 original size:28 final size:28
Alignment explanation
Indices: 71206--71646 Score: 455
Period size: 28 Copynumber: 15.8 Consensus size: 28
71196 CACCCACTTG
*
71206 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
71234 TGTGGGCTTTGGAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
71262 CATGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
71290 CGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
71318 CGTGGGCTTTGGAAA-GATGCCACTGACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
** *
71346 CATGGG-TTTG-AAGAGATGTCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
71373 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
71401 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
71429 TGTGGGCTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
71457 TGTGGGTTTTGAAAGGGTGCCACTGA-T
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
71484 TCATGGGCTTTGAAAAGGATACCACTTACT
1 T-GTGGGCTTTG-AAAGGATGCCACTGACT
* *
71514 TGTGGGCATTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
71542 TGTGGGCTTTGAAATGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
71570 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
71597 TATGGAC-TTAAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
71624 TATGGGCTTTAAAATGATGCCAC
1 TGTGGGCTTTGAAAGGATGCCAC
71647 GAAGTTGTGG
Statistics
Matches: 355, Mismatches: 47, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
25 2 0.01
26 1 0.00
27 66 0.19
28 253 0.71
29 31 0.09
30 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:71602 original size:27 final size:27
Alignment explanation
Indices: 71569--72078 Score: 513
Period size: 27 Copynumber: 18.6 Consensus size: 27
71559 TGCCATTGAC
71569 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * * ** *
71596 TTATGGACTTAAAATGATGCCACTAAC
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * * * *
71623 TTATGGGCTTTAAAATGATGCCACGAAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
71651 TTGTGGACTTAAAAAGGGCTGCCACAGAG
1 TTGTGGACTT-AAAAGGG-TGCCACGGAG
* *
71680 TTGTGGACTTAAAAGGGTACCACGAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
71707 TTGTAGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* * *
71735 TTATGGACTTTAAAA-GGTGCCATGGTG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
71762 TTGTGGACTTTAAAGGAG-GCCACAGAG
1 TTGTGGACTTAAAAGG-GTGCCACGGAG
* *
71789 TTTTGGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
71817 TTGTGAACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
71845 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
71872 TTGTGGACTTAAAAGGGTGTCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * **
71899 TTTTGGACTTTAAAAGGTTGCCACAAAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
71927 TTATGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
71954 TTGTGG-CTTTTAAAAGGATGCCACAGAG
1 TTGTGGAC--TTAAAAGGGTGCCACGGAG
* *
71982 TTGTGGACTTTAAAGGGTGCCACGAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * * *
72009 CTGTGGACTTAACAGGTTTCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * * *
72036 CTGTGGACTTAATAGGTTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
72063 TTGTGGACTTTAAAAG
1 TTGTGGAC-TTAAAAG
72079 AAAAAGGTTG
Statistics
Matches: 408, Mismatches: 62, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.01
27 217 0.53
28 166 0.41
29 19 0.05
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (27 bp):
TTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:71632 original size:82 final size:83
Alignment explanation
Indices: 71360--72137 Score: 502
Period size: 82 Copynumber: 9.3 Consensus size: 83
71350 GGTTTGAAGA
* * * * * * * *
71360 GATGTCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAA-GGTGCCAC
1 GATGCCACTAACTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTT-AAAAGGGTGCCAC
* * *
71424 TGACTTGTGGGCTTGGAAAA-
65 GGAGTTGTGGACTT--AAAAG
* ** * * * * * * *
71444 GATGCCACTGACTTGTGGGTTTTGAAAGGGTGCCACTGA-TTCATGGGCTTTGAAAAGGATACCA
1 GATGCCACTAACTTGTGGACTTTAAAAGGATGCCACAGAGTT-GTGGACTTT-AAAAGGGTGCCA
** * * * *
71508 CTTACTTGTGGGCATTGAAAT
64 CGGAGTTGTGGAC-TTAAAAG
* * * * ** *
71529 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCATTGACTTGTGGAC-TTAAAAGGGTGCCACG
1 GATGCCACTAACTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACG
* *
71593 GAGTTATGGACTTAAAAT
66 GAGTTGTGGACTTAAAAG
* * * *
71611 GATGCCACTAACTTATGGGCTTTAAAATGATGCCAC-GAAGTTGTGGACTTAAAAAGGGCTGCCA
1 GATGCCACTAACTTGTGGACTTTAAAAGGATGCCACAG-AGTTGTGGACTTTAAAAGGG-TGCCA
*
71675 CAGAGTTGTGGACTTAAAAG
64 CGGAGTTGTGGACTTAAAAG
* * * * * * * * *
71695 GGTACCACGAAGTTGTAGACTTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAA-GGTGCCATG
1 GATGCCACTAACTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACG
* *
71759 GTGTTGTGGACTTTAAAG
66 GAGTTGTGGACTTAAAAG
* * * * *
71777 GAGGCCAC-AGAGTTTTGGACTTTAAAAGGGTGCCACAGAGTTGTGAACTTTAAAAGGGTGCCAC
1 GATGCCACTA-ACTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCAC
71841 GGAGTTGTGGACTTAAAAG
65 GGAGTTGTGGACTTAAAAG
* ** * * * * * * *
71860 GGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGTCACGGAGTTTTGGACTTTAAAAGGTTGCCACA
1 GATGCCACTAACTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACG
* *
71924 AAGTTATGGACTTAAAAG
66 GAGTTGTGGACTTAAAAG
* *
71942 GGTGCCAC-AGAGTTGTGG-CTTTTAAAAGGATGCCACAGAGTTGTGGACTTT-AAAGGGTGCCA
1 GATGCCACTA-ACTTGTGGAC-TTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCA
* * *
72004 CGAAGCTGTGGACTTAACAG
64 CGGAGTTGTGGACTTAAAAG
* * * * * * **
72024 GTTTCCACGGAGC-TGTGGAC-TTAATAGGTTGCCATGGAGTTGTGGACTTTAAAAGAAAAAGGT
1 GATGCCAC-TAACTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG-----GG-
**
72087 TGCCATAGAGTTGTGGACTTTGAAAAG
59 TGCCACGGAGTTGTGGAC-TT-AAAAG
* *
72114 AAATGCCACTAACTCGTGGACTTT
1 -GATGCCACTAACTTGTGGACTTT
72138 GAAGAGGTTA
Statistics
Matches: 565, Mismatches: 99, Indels: 52
0.79 0.14 0.07
Matches are distributed among these distances:
81 29 0.05
82 224 0.40
83 95 0.17
84 119 0.21
85 57 0.10
86 4 0.01
87 2 0.00
88 14 0.02
89 2 0.00
90 6 0.01
91 11 0.02
92 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (83 bp):
GATGCCACTAACTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACG
GAGTTGTGGACTTAAAAG
Found at i:71636 original size:55 final size:55
Alignment explanation
Indices: 71384--72078 Score: 503
Period size: 55 Copynumber: 12.6 Consensus size: 55
71374 GTGGGCTTTG
* * * * * *
71384 AAAGGATGCCACTGACTCGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTGGA
1 AAAGGATGCCACTGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACTT--A
* ** * * * *
71441 AAA-GATGCCACTGACTTGTGGGTTTTGAAAGGGTGCCACTGA-TTCATGGGCTTTGA
1 AAAGGATGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTT-GTGGAC-TT-A
* * * * * * * * * * * *
71497 AAAGGATACCACTTACTTGTGGGCATTGAAATGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
* * * *
71553 AAATGATGCCATTGACTTGTGGAC-TTAAAAGGGTGCCACGGAGTTATGGACTTA
1 AAAGGATGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * * * * * *
71607 AAATGATGCCACTAACTTATGGGCTTTAAAATGATGCCACGAAGTTGTGGACTTAA
1 AAAGGATGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT-A
* * * * *
71663 AAAGGGCTGCCACAGAGTTGTGGAC-TTAAAAGGGTACCACGAAGTTGTAGACTTTA
1 AAA-GGATGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
* * * * * *
71719 AAAGGGTGCCACGGAGTTATGGACTTTAAAA-GGTGCCATGGTGTTGTGGACTTT
1 AAAGGATGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * * *
71773 AAAGGAGGCCACAGAGTTTTGGACTTTAAAAGGGTGCCACAGAGTTGTGAACTTTA
1 AAAGGATGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
71829 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGATGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * * * ** *
71883 AAAGGGTGTCACGGAGTTTTGGACTTTAAAAGGTTGCCACAAAGTTATGGACTTA
1 AAAGGATGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * * *
71938 AAAGGGTGCCACAGAGTTGTGG-CTTTTAAAAGGATGCCACAGAGTTGTGGACTTT
1 AAAGGATGCCACTGAGTTGTGGAC-TTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * * * *
71993 AAAGGGTGCCAC-GAAGCTGTGGAC-TTAACAGGTTTCCACGGAGCTGTGGACTTA
1 AAAGGATGCCACTG-AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* *
72047 ATAGGTTGCCA-TGGAGTTGTGGACTTTAAAAG
1 AAAGGATGCCACT-GAGTTGTGGACTTTAAAAG
72079 AAAAAGGTTG
Statistics
Matches: 527, Mismatches: 92, Indels: 40
0.80 0.14 0.06
Matches are distributed among these distances:
54 120 0.23
55 222 0.42
56 121 0.23
57 62 0.12
58 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (55 bp):
AAAGGATGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:72092 original size:34 final size:35
Alignment explanation
Indices: 72049--72116 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
72039 TGGACTTAAT
*
72049 AGGTTGCCATGGAGTTGTGGACTTT-AAAAGAAAA
1 AGGTTGCCATAGAGTTGTGGACTTTGAAAAGAAAA
72083 AGGTTGCCATAGAGTTGTGGACTTTGAAAAGAAA
1 AGGTTGCCATAGAGTTGTGGACTTTGAAAAGAAA
72117 TGCCACTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 24 0.75
35 8 0.25
ACGTcount: A:0.35, C:0.09, G:0.29, T:0.26
Consensus pattern (35 bp):
AGGTTGCCATAGAGTTGTGGACTTTGAAAAGAAAA
Found at i:72121 original size:30 final size:32
Alignment explanation
Indices: 72053--72140 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 32
72043 CTTAATAGGT
*
72053 TGCCATGGAGTTGTGGACTTT-AAAAGAAAAAGG
1 TGCCATAGAGTTGTGGACTTTGAAAAG-AAAA-G
72086 TTGCCATAGAGTTGTGGACTTTGAAAAG-AAA-
1 -TGCCATAGAGTTGTGGACTTTGAAAAGAAAAG
* *
72117 TGCCACTA-ACTCGTGGACTTTGAA
1 TGCCA-TAGAGTTGTGGACTTTGAA
72141 GAGGTTACAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
30 19 0.39
31 2 0.04
33 3 0.06
34 20 0.41
35 5 0.10
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (32 bp):
TGCCATAGAGTTGTGGACTTTGAAAAGAAAAG
Found at i:73505 original size:22 final size:20
Alignment explanation
Indices: 73472--73521 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
73462 ACTTTTGCAC
*
73472 CTTTTTTGTTTTTCTTTTCA
1 CTTTTTTGTTTTGCTTTTCA
* *
73492 CTTTTTGTGCTTTTGCATTTGA
1 CTTTTT-TG-TTTTGCTTTTCA
73514 CTTTTTTG
1 CTTTTTTG
73522 CAATTTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 4 0.16
22 15 0.60
ACGTcount: A:0.06, C:0.14, G:0.12, T:0.68
Consensus pattern (20 bp):
CTTTTTTGTTTTGCTTTTCA
Found at i:79986 original size:52 final size:52
Alignment explanation
Indices: 79919--80141 Score: 254
Period size: 52 Copynumber: 4.3 Consensus size: 52
79909 TATTTCCGAA
* *** *
79919 GGGATACTCCAACCCCCGTCTTTATTTCCAAAATATTGATTTTT-CATAATCG
1 GGGATACTCCAACCCCCGT-TTTATTTCCAAAACACCAATTTTTCCACAATCG
* * *
79971 GGGATACTCCAACCCCGGTTTTATTGCCAAAACACTAATTTTTCCACAATCG
1 GGGATACTCCAACCCCCGTTTTATTTCCAAAACACCAATTTTTCCACAATCG
* * **
80023 GGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCG
1 GGGATACTCCAACCCCCGTTTTATTTCCAAAACACCAATTTTTCC-ACAATCG
* *
80076 GGGATACTCCAA-CTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATCG
1 GGGATACTCCAACCCCCG-TTTTATTTCC-AAAACACCAATTTTTCCACAATCG
*
80128 AGGATACTCCAACC
1 GGGATACTCCAACC
80142 TCGTTATCTC
Statistics
Matches: 148, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
51 20 0.14
52 86 0.58
53 28 0.19
54 14 0.09
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGATACTCCAACCCCCGTTTTATTTCCAAAACACCAATTTTTCCACAATCG
Found at i:80100 original size:105 final size:104
Alignment explanation
Indices: 79919--80141 Score: 288
Period size: 105 Copynumber: 2.1 Consensus size: 104
79909 TATTTCCGAA
* ***
79919 GGGATACTCCAACCCCCGTCTTTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCCGTCTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
* *
79984 CCCGGTTTTATTGCC-AAAACACTAATTTTTCCACAATCG
66 CCCGATTTTATTGCCAAAAACACCAATTTTT-CACAATCG
* * *
80023 GGGATACTCCAACCCCGGT-TTTATTTTCAAAACACCAATTTTTCCTTTAATCGGGGATACTCCA
1 GGGATACTCCAACCCCCGTCTTTATTTCCAAAACACCAATTTTT-C-ATAATCGGGGATACTCCA
* * *
80087 ACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCG
64 ACCCCGATTTTATTGCCAAAAACACCAATTTTTCACAATCG
*
80128 AGGATACTCCAACC
1 GGGATACTCCAACC
80142 TCGTTATCTC
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
103 19 0.18
104 19 0.18
105 52 0.50
106 13 0.13
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (104 bp):
GGGATACTCCAACCCCCGTCTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
CCCGATTTTATTGCCAAAAACACCAATTTTTCACAATCG
Found at i:80186 original size:28 final size:28
Alignment explanation
Indices: 80129--80200 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
80119 TCACAATCGA
* **
80129 GGATACTCCAACCTCGTTATCTCATCGG
1 GGATACTCCAACCCCGTTATCTCAGAGG
*
80157 GGATACTCCAACCCCGTTA-CTTCCGAGG
1 GGATACTCCAACCCCGTTATC-TCAGAGG
*
80185 GGATACTCTAACCCCG
1 GGATACTCCAACCCCG
80201 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATCTCAGAGG
Found at i:80219 original size:264 final size:263
Alignment explanation
Indices: 79749--80251 Score: 785
Period size: 264 Copynumber: 1.9 Consensus size: 263
79739 TTCTCAATTC
* * * *
79749 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
79814 TACTCCAACTCCGATTTTATTTCCAAAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCC
* * *
79879 CGTTAATCATCGGGGATACTCCAACCCTGTTATTTCCGAAGGGATACTCCAACCCCCGTCTTTAT
130 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCCGGCTTTAT
* *
79944 TTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCCAAAACACTAA
195 TCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCCAAAACACTAA
80009 TTTT
260 TTTT
* *
80013 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA-TTTT-CTATAATCGGG
* *
80078 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTTTTCACAATCGAGGATACTCCAACC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACC
* * * *
80142 TCGTTATCTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCTAA-CCCCGGCTTT
129 CCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCCGGCTTT
*
80206 ATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 ATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
80252 TTATTTTCGA
Statistics
Matches: 217, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
264 135 0.62
265 46 0.21
266 36 0.17
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCCGGCTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCCAAAACACTAAT
TTT
Found at i:83834 original size:13 final size:13
Alignment explanation
Indices: 83816--83840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83806 TACATTGCTC
83816 ATTGTATCGATAT
1 ATTGTATCGATAT
83829 ATTGTATCGATA
1 ATTGTATCGATA
83841 CATTACTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGTATCGATAT
Found at i:83854 original size:20 final size:20
Alignment explanation
Indices: 83778--83864 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
83768 TTTACCTAGA
*
83778 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTACT-CAT
* *
83798 TATATCGATACATTGCTCAT
1 TGTATCGATACATTACTCAT
83818 TGTATCG----A-TA-T-AT
1 TGTATCGATACATTACTCAT
83831 TGTATCGATACATTACTCAT
1 TGTATCGATACATTACTCAT
*
83851 TGTATCAATACATT
1 TGTATCGATACATT
83865 TTACAATGTG
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
13 9 0.17
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 2 0.04
19 1 0.02
20 37 0.69
21 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTACTCAT
Found at i:86209 original size:13 final size:13
Alignment explanation
Indices: 86191--86216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86181 CAATTTTTTG
86191 TGTATCGATACAT
1 TGTATCGATACAT
86204 TGTATCGATACAT
1 TGTATCGATACAT
86217 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:86228 original size:32 final size:33
Alignment explanation
Indices: 86171--86234 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
86161 TACAAGTCAA
**
86171 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
86204 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
86235 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:88969 original size:64 final size:65
Alignment explanation
Indices: 88790--88969 Score: 179
Period size: 64 Copynumber: 2.8 Consensus size: 65
88780 CATTGGGCTT
* * * * * *
88790 AGAAAGGTTGCCACTAACTTATATGGGCTTTA-AAAGGGTCGCCACCGACTTGTGTGGGCTTTTG
1 AGAAAGGTTGCCACTGACTTATGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTAGGCTCTTG
** * * * *
88854 A-AGGGGATTGCCACCGATTTGTGTGGGCTTT-GAGAAGGGTTGCCGCCAACTTGTGTAGGC-CT
1 AGAAAGG-TTGCCACTGACTTATGTGGGCTTTAGA-AAGGGTTGCCACCAACTTGTGTAGGCTCT
88916 TG
64 TG
* * *
88918 AGAAAAGTTGCCACTGACTTATGTGGGTTTTAGAAAGGGTTGCCACTAACTT
1 AGAAAGGTTGCCACTGACTTATGTGGGCTTTAGAAAGGGTTGCCACCAACTT
88970 ATGGGCTTTA
Statistics
Matches: 90, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
63 3 0.03
64 61 0.68
65 26 0.29
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (65 bp):
AGAAAGGTTGCCACTGACTTATGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTAGGCTCTTG
Found at i:88970 original size:32 final size:32
Alignment explanation
Indices: 88783--88984 Score: 148
Period size: 32 Copynumber: 6.4 Consensus size: 32
88773 CCAACAACAT
* *
88783 TGGGC-TTAGAAA-GGTTGCCACTAACTTATA
1 TGGGCTTTAGAAAGGGTTGCCACCAACTTATG
* * *
88813 TGGGCTTTA-AAAGGGTCGCCACCGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCAACTTATG
* * * * *
88844 TGGGCTTTTGAAGGGGATTGCCACCGATTTGTG
1 TGGGCTTTAGAAAGGG-TTGCCACCAACTTATG
* *
88877 TGGGCTTT-GAGAAGGGTTGCCGCCAACTTGTG
1 TGGGCTTTAGA-AAGGGTTGCCACCAACTTATG
* * * **
88909 TAGGCCTTGAGAAA-AGTTGCCACTGACTTATG
1 T-GGGCTTTAGAAAGGGTTGCCACCAACTTATG
* *
88941 TGGGTTTTAGAAAGGGTTGCCACTAACTTA--
1 TGGGCTTTAGAAAGGGTTGCCACCAACTTATG
*
88971 TGGGCTTTAAAAAG
1 TGGGCTTTAGAAAG
88985 ATGCCATTAA
Statistics
Matches: 137, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
30 20 0.15
31 33 0.24
32 49 0.36
33 33 0.24
34 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAAAGGGTTGCCACCAACTTATG
Found at i:89031 original size:56 final size:56
Alignment explanation
Indices: 88946--89383 Score: 259
Period size: 56 Copynumber: 7.6 Consensus size: 56
88936 TTATGTGGGT
* * * *
88946 TTTAGAAAGGGTTGCCACTAACTTATGGGCTTTAAAAAGATGCCATTAACTTGTGGAC
1 TTTA-AAAGGG-TGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGAC
* * * * *
89004 TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAATTTGT-GAGC
1 TTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGA-C
* * * * * *
89060 TTTAAAAAGGTGCCACTAACTTGTGCGCTTTGAAGGGATG---CT-ACTTGTGGGC
1 TTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGAC
* * * * *
89112 TTTGAAAGGGTGCCACTGACTGGTGGGGTTTGAAAAAAAGGGATGCCACCAACTTGTGTGGGC
1 TTTAAAAGGGTGCCACTGACTTGTGGGCTTT----AAAA-GGATGCCACTAAC-T-TGTGGAC
* * * * *
89175 TTTAAAGAAGGTTGCCACTGACTTGTGTGGACTTTAGAAAGGGTTGTCATTGACTTGTGTAGGA-
1 TTT-AA-AAGGGTGCCACTGACTTGTG-GG-CTTTA-AAA-GGATGCCACTAAC-T-TGT-GGAC
** * * *
89239 TTTAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGAAGCCACTAATTTGTGGGC
1 TTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGAC
* * * *
89295 TTTAAAAGGGTGCCAC-GCAGTTGTGGAC-TTAAGAAGG-TGCCACAAAGTTGTGGAC
1 TTTAAAAGGGTGCCACTG-ACTTGTGGGCTTTAA-AAGGATGCCACTAACTTGTGGAC
* * * * *
89350 -TTAAAAGGATGTCACGGAGTTGTGGAC-TTAAAAG
1 TTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAG
89384 AGGTTATATT
Statistics
Matches: 300, Mismatches: 57, Indels: 51
0.74 0.14 0.12
Matches are distributed among these distances:
52 31 0.10
53 6 0.02
54 27 0.09
55 22 0.07
56 102 0.34
57 11 0.04
58 10 0.03
59 2 0.01
60 5 0.02
61 4 0.01
62 20 0.07
63 13 0.04
64 22 0.07
65 20 0.07
66 2 0.01
67 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (56 bp):
TTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGAC
Found at i:89089 original size:28 final size:28
Alignment explanation
Indices: 88920--89355 Score: 215
Period size: 28 Copynumber: 15.1 Consensus size: 28
88910 AGGCCTTGAG
* * *
88920 AAAAGTTGCCACTGACTTATGTGGGTTTTA
1 AAAAGGTGCCACTAAC-T-TGTGGGCTTTA
* *
88950 GAAAGGGTTGCCACTAACTTATGGGCTTTA
1 -AAAAGG-TGCCACTAACTTGTGGGCTTTA
* * *
88980 AAAAGATGCCATTAACTTGTGGACTTT-
1 AAAAGGTGCCACTAACTTGTGGGCTTTA
* * *
89007 GAAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTA
* * *
89036 AAAGGGTGCCACTAATTTGTGAGCTTTA
1 AAAAGGTGCCACTAACTTGTGGGCTTTA
*
89064 AAAAGGTGCCACTAACTTGTGCGCTTT-
1 AAAAGGTGCCACTAACTTGTGGGCTTTA
* * *
89091 GAAGGGATG---CT-ACTTGTGGGCTTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTA
* * * *
89116 AAAGGGTGCCACTGACTGGTGGGGTTTGAAA
1 AAAAGGTGCCACTAACTTGTGGGCTTT---A
*
89147 AAAAGGGATGCCACCAACTTGTGTGGGCTTTA
1 AAAA-GG-TGCCACTAAC-T-TGTGGGCTTTA
*
89179 AAGAAGGTTGCCACTGACTTGTGTGGACTTTA
1 AA-AAGG-TGCCACTAACTTGTG-GG-CTTTA
* * * * *
89211 GAAAGGGTTGTCATTGACTTGTGTAGGATTTA
1 -AAAAGG-TGCCACTAACTTGTG--GGCTTTA
* *
89243 AAAGGGTGCCACTGACTTGTGGGCTTT-
1 AAAAGGTGCCACTAACTTGTGGGCTTTA
** * *
89270 GGAAGGAAGCCACTAATTTGTGGGCTTTA
1 AAAAGG-TGCCACTAACTTGTGGGCTTTA
* ** * *
89299 AAAGGGTGCCACGCAGTTGTGGAC-TTA
1 AAAAGGTGCCACTAACTTGTGGGCTTTA
* * * *
89326 AGAAGGTGCCACAAAGTTGTGGAC-TTA
1 AAAAGGTGCCACTAACTTGTGGGCTTTA
89353 AAA
1 AAA
89356 GGATGTCACG
Statistics
Matches: 316, Mismatches: 66, Indels: 50
0.73 0.15 0.12
Matches are distributed among these distances:
24 14 0.04
25 7 0.02
27 41 0.13
28 127 0.40
29 11 0.03
30 26 0.08
31 17 0.05
32 50 0.16
33 14 0.04
34 1 0.00
35 8 0.03
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
AAAAGGTGCCACTAACTTGTGGGCTTTA
Found at i:89220 original size:32 final size:32
Alignment explanation
Indices: 88783--89310 Score: 248
Period size: 28 Copynumber: 17.7 Consensus size: 32
88773 CCAACAACAT
* * *
88783 TGGGC-TTAGAAA-GGTTGCCACTAACTTATA
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* *
88813 TGGGCTTTA-AAAGGGTCGCCACCGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* * * *
88844 TGGGCTTTTGAAGGGGATTGCCACCGATTTGTG
1 TGGGCTTTAGAAAGGG-TTGCCACTGACTTGTG
* **
88877 TGGGCTTT-GAGAAGGGTTGCCGCCAACTTGTG
1 TGGGCTTTAGA-AAGGGTTGCCACTGACTTGTG
* * * *
88909 TAGGCCTTGAGAAA-AGTTGCCACTGACTTATG
1 T-GGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* * *
88941 TGGGTTTTAGAAAGGGTTGCCACTAAC-T-TA
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* * * *
88971 TGGGCTTTA-AAA-AGATGCCATTAAC-T-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* *
88999 TGGACTTT-GAAA-GGATGCCACTGAC-T-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
*
89027 TGGGCTTT-GAAAGGG-TGCCACT-AATT-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* * *
89055 TGAGCTTTA-AAAAGG-TGCCACTAAC-T-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* *
89083 TGCGCTTT-G-AAGGGATG---CT-AC-T-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
*
89107 TGGGCTTTG-AAAGGG-TGCCACTGAC-TG-G
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* * * **
89135 TGGGGTTTGAAAAAAAGGGATGCCACCAACTTGTG
1 TGGGCTTT---AGAAAGGGTTGCCACTGACTTGTG
*
89170 TGGGCTTTA-AAGAAGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAA-AGGGTTGCCACTGACTTGTG
* * *
89202 TGGACTTTAGAAAGGGTTGTCATTGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* *
89234 TAGGATTTA-AAAGGG-TGCCACTGAC-T-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* ** *
89262 TGGGCTTT-GGAA-GGAAGCCACT-AATT-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
89290 TGGGCTTTA-AAAGGG-TGCCAC
1 TGGGCTTTAGAAAGGGTTGCCAC
89311 GCAGTTGTGG
Statistics
Matches: 394, Mismatches: 68, Indels: 74
0.74 0.13 0.14
Matches are distributed among these distances:
24 14 0.04
25 7 0.02
27 10 0.03
28 132 0.34
29 9 0.02
30 25 0.06
31 42 0.11
32 100 0.25
33 43 0.11
34 4 0.01
35 8 0.02
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
Found at i:89334 original size:27 final size:26
Alignment explanation
Indices: 89278--89383 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 26
89268 TTGGAAGGAA
* * *
89278 GCCACTAATTTGTGGGCTTTAAAAGGGT
1 GCCACGAAGTTGTGGAC-TTAAAA-GGT
*
89306 GCCACGCAGTTGTGGACTTAAGAAGGT
1 GCCACGAAGTTGTGGACTTAA-AAGGT
*
89333 GCCACAAAGTTGTGGACTTAAAAGGAT
1 GCCACGAAGTTGTGGACTTAAAAGG-T
* *
89360 GTCACGGAGTTGTGGACTTAAAAG
1 GCCACGAAGTTGTGGACTTAAAAG
89384 AGGTTATATT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.06
27 48 0.72
28 15 0.22
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (26 bp):
GCCACGAAGTTGTGGACTTAAAAGGT
Found at i:90414 original size:14 final size:14
Alignment explanation
Indices: 90395--90424 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90385 TAAAGTGGAA
90395 TTTTTCTCTTCTTT
1 TTTTTCTCTTCTTT
*
90409 TTTTTCTTTTCTTT
1 TTTTTCTCTTCTTT
90423 TT
1 TT
90425 ATGATCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTCTTCTTT
Found at i:90746 original size:22 final size:23
Alignment explanation
Indices: 90707--90772 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
90697 CCTTTTTTTA
*
90707 TTTTGCTTTTGTACTTTTTT-TG-
1 TTTTGCTTTT-AACTTTTTTGTGC
* * *
90729 TTTTTCTTTTCATTTTTTTGTGC
1 TTTTGCTTTTAACTTTTTTGTGC
90752 TTTTGCTTTTAACTTTTTTGT
1 TTTTGCTTTTAACTTTTTTGT
90773 AATTTTGAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.19
22 11 0.31
23 18 0.50
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.73
Consensus pattern (23 bp):
TTTTGCTTTTAACTTTTTTGTGC
Found at i:90755 original size:23 final size:22
Alignment explanation
Indices: 90698--90772 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
90688 TTTGTTGTTC
* *
90698 CTTTTTT-TATTTTGCTTTTGTA
1 CTTTTTTGTGTTTTGCTTTT-AA
* *
90720 CTTTTTT-TGTTTTTCTTTTCA
1 CTTTTTTGTGTTTTGCTTTTAA
*
90741 TTTTTTTGTGCTTTTGCTTTTAA
1 CTTTTTTGTG-TTTTGCTTTTAA
90764 CTTTTTTGT
1 CTTTTTTGT
90773 AATTTTGAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 7 0.16
22 19 0.43
23 18 0.41
ACGTcount: A:0.07, C:0.11, G:0.09, T:0.73
Consensus pattern (22 bp):
CTTTTTTGTGTTTTGCTTTTAA
Found at i:90778 original size:23 final size:22
Alignment explanation
Indices: 90698--90779 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 22
90688 TTTGTTGTTC
*
90698 CTTTTTT-TATTTTGCTTTTGTA
1 CTTTTTTGTATTTTGCTTTT-AA
*
90720 CTTTTTTTGT-TTTT-CTTTTCA
1 C-TTTTTTGTATTTTGCTTTTAA
* *
90741 TTTTTTTGTGCTTTTGCTTTTAA
1 CTTTTTTGT-ATTTTGCTTTTAA
90764 CTTTTTTGTAATTTTG
1 CTTTTTTGT-ATTTTG
90780 AAGGAAACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 8 0.16
21 1 0.02
22 10 0.20
23 29 0.59
24 1 0.02
ACGTcount: A:0.09, C:0.10, G:0.10, T:0.72
Consensus pattern (22 bp):
CTTTTTTGTATTTTGCTTTTAA
Found at i:97930 original size:20 final size:20
Alignment explanation
Indices: 97866--97940 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
97856 AAAAAAACAG
*
97866 AATGTATCGATACGTTAAAA
1 AATGTATCGATACATTAAAA
* * * * *
97886 AATATATGGATAAATTCATA
1 AATGTATCGATACATTAAAA
* *
97906 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTAAAA
*
97926 AATGTATCAATACAT
1 AATGTATCGATACAT
97941 CTGGGTAAAA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:98473 original size:8 final size:7
Alignment explanation
Indices: 98438--98471 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
98428 ATTTTTAAAT
98438 TTTTTTA
1 TTTTTTA
98445 TTTTTTA
1 TTTTTTA
98452 TTTTTTA
1 TTTTTTA
98459 TTTTTTA
1 TTTTTTA
98466 TTTTTT
1 TTTTTT
98472 TACCCTCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:98874 original size:20 final size:20
Alignment explanation
Indices: 98849--98888 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
98839 GCATCATTCT
*
98849 CACTTGACTATATTCGGTCA
1 CACTTGACTATATTCAGTCA
98869 CACTTGACTATATTCAGTCA
1 CACTTGACTATATTCAGTCA
98889 ATTCTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (20 bp):
CACTTGACTATATTCAGTCA
Found at i:99008 original size:48 final size:49
Alignment explanation
Indices: 98947--99194 Score: 181
Period size: 48 Copynumber: 5.2 Consensus size: 49
98937 ACTATATCTG
* *
98947 GTCAAACT-CTTTTCATCCCTCGTTTGACTATTTTGATGTTAGGGCCTA
1 GTCAAACTATTTTTCATCCCTCGTTTGACTATATTGATGTTAGGGCCTA
* ** * * * ** *
98995 GTCAAA-TATTTTTCTTTTCTCATTTGACTGTATT-AGTATTAGCACCTG
1 GTCAAACTATTTTTCATCCCTCGTTTGACTATATTGA-TGTTAGGGCCTA
* * *
99043 GTTAAACTATTTTT-ATCCCTCGTTTGACTATATTGGTGTTAGGGCCTG
1 GTCAAACTATTTTTCATCCCTCGTTTGACTATATTGATGTTAGGGCCTA
** * * * * *
99091 GTCAAACTCA--AATCTTCCCTCATTTAACTATATTGGTGTTAAGGCCTTA
1 GTCAAACT-ATTTTTCATCCCTCGTTTGACTATATTGATGTTAGGGCC-TA
* * *
99140 -TCAAACT-TTTTTCATCCCTCGTTTGATTATATT-AGTGTTAAGACCTA
1 GTCAAACTATTTTTCATCCCTCGTTTGACTATATTGA-TGTTAGGGCCTA
99187 GTCAAACT
1 GTCAAACT
99195 CTCCTCTTTC
Statistics
Matches: 152, Mismatches: 37, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
47 5 0.03
48 138 0.91
49 9 0.06
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (49 bp):
GTCAAACTATTTTTCATCCCTCGTTTGACTATATTGATGTTAGGGCCTA
Found at i:99113 original size:96 final size:96
Alignment explanation
Indices: 98944--99195 Score: 251
Period size: 96 Copynumber: 2.6 Consensus size: 96
98934 TTGACTATAT
* * * **
98944 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTATTTTGATGTTAGGGCCTAGTCAAA-T-ATTTT
1 CTGGTCAAACT-TTTTTATCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCA-TAA
** * *
99007 TCTTTTCTCATTTGACTGTATTAGTATT-AGCAC
64 TCTTCCCTCATTTAACTATATTAGTATTAAG-AC
* *
99040 CTGGTTAAACTATTTTTATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCA-AAT
1 CTGGTCAAACT-TTTTTATCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCATAAT
* * *
99104 CTTCCCTCATTTAACTATATTGGTGTTAAGGC
65 CTTCCCTCATTTAACTATATTAGTATTAAGAC
** * * * *
99136 CTTATCAAACTTTTTTCATCCCTCGTTTGATTATATTAGTGTTAAGACCTAGTCAAACTC
1 CTGGTCAAACTTTTTT-ATCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTC
99196 TCCTCTTTCC
Statistics
Matches: 129, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
95 5 0.04
96 120 0.93
97 3 0.02
98 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (96 bp):
CTGGTCAAACTTTTTTATCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCATAATC
TTCCCTCATTTAACTATATTAGTATTAAGAC
Found at i:99298 original size:87 final size:88
Alignment explanation
Indices: 99183--99412 Score: 260
Period size: 87 Copynumber: 2.6 Consensus size: 88
99173 AGTGTTAAGA
* *
99183 CCTAGTCAAACTCT-CCTCTT-TCCTATCTGACATATGGTTCCCA-CTCTGGTCAAATTTTTTTC
1 CCTAGTCAAA-TCTGCCT-TTCTCCTATCTGACATATGGTTACCACCT-TGGTCAAATTCTTTTC
*
99245 ATTCCAATTTGAT-AATGGTTACCAC
63 ATTCCAATTTAATGAATGGTTACCAC
* *
99270 CCT-GATCAAATCTGCCTTTCTCCTATCTGACGTATGGTTACCACCTTGGTCAGATTCTTTTCAT
1 CCTAG-TCAAATCTGCCTTTCTCCTATCTGACATATGGTTACCACCTTGGTCAAATTCTTTTCAT
* *
99334 TCCGATTTAATGTATGGTTACCAC
65 TCCAATTTAATGAATGGTTACCAC
* *
99358 CCTAGTCAAATCTGCCTACTTCT--TGTCT-AGCGTATGGTTACCACCTTGGTCAAAT
1 CCTAGTCAAATCTGCCT--TTCTCCTATCTGA-CATATGGTTACCACCTTGGTCAAAT
99413 CCGCCTCCTT
Statistics
Matches: 125, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
86 6 0.05
87 58 0.46
88 56 0.45
89 1 0.01
90 4 0.03
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (88 bp):
CCTAGTCAAATCTGCCTTTCTCCTATCTGACATATGGTTACCACCTTGGTCAAATTCTTTTCATT
CCAATTTAATGAATGGTTACCAC
Found at i:99524 original size:132 final size:132
Alignment explanation
Indices: 99259--99536 Score: 321
Period size: 132 Copynumber: 2.1 Consensus size: 132
99249 CAATTTGATA
* * * *
99259 ATGGTTACCACCCTGATCAAATCTGCCTTTCTCCTATCTGACGTATGGTTACCACCTTGGTCAGA
1 ATGGTTACCACCCTGATCAAATCCGCCTCTCTCCTATCTGACGTATGGTTACCACCCTAGTCAGA
** * * *
99324 TTCTTTTCATTCCGATTTAATGTATGGTTACCACCCTAGTCAAATCTGCCTACTTCTTGTCTAGC
66 TTCTTTTCATTCCGATTTAACATATGATTACCACCCTAGTCAAATCTGCCTACTTCCTATCTAGC
99389 GT
131 GT
* * * * *
99391 ATGGTTACCACCTTGGTCAAATCCGCCTC-CTTCCTGTTTGACGTATGGTTACCACCCTAGTTAG
1 ATGGTTACCACCCTGATCAAATCCGCCTCTC-TCCTATCTGACGTATGGTTACCACCCTAGTCAG
* * * **
99455 ATTCTTTTCATTCTGATTTAACATATGATTACCA-CCTTGATCAAGTCTTTCT-CATTCCTATCT
65 ATTCTTTTCATTCCGATTTAACATATGATTACCACCCTAG-TCAAATCTGCCTAC-TTCCTATCT
99518 -GACGT
128 AG-CGT
99523 ATGGTTACCACCCT
1 ATGGTTACCACCCT
99537 AGTCAGATTT
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
131 7 0.06
132 115 0.94
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.37
Consensus pattern (132 bp):
ATGGTTACCACCCTGATCAAATCCGCCTCTCTCCTATCTGACGTATGGTTACCACCCTAGTCAGA
TTCTTTTCATTCCGATTTAACATATGATTACCACCCTAGTCAAATCTGCCTACTTCCTATCTAGC
GT
Found at i:99634 original size:175 final size:175
Alignment explanation
Indices: 99394--99716 Score: 457
Period size: 175 Copynumber: 1.8 Consensus size: 175
99384 CTAGCGTATG
** * * *
99394 GTTACCACCTTGGTCAAATCCGCCTCCTTCCTGTTTGACGTATGGTTACCACCCTAGTTAGATTC
1 GTTACCACCTTGGTCAAATCCGCCTCCTTCCTGTCCGACATATGGTTACCACCATAGTCAGATTC
* * ** *
99459 TTTTCATTCTGATTTAACATATGATTACCACCTTGATCAAGTCTTTCTCATTCCTATCTGACGTA
66 TTTTCATTCTGATTTAACATATGATTACCACCCTGATCAAATCTGCCTCATTCCTATCTAACGTA
*
99524 TGGTTACCACCCTAGTCAGATTTTTTTCATTTCGATTTGACATAT
131 TGGTTAACACCCTAGTCAGATTTTTTTCATTTCGATTTGACATAT
* * * *
99569 GTTACCACCTTGGTCAAATCTGTCTCTTTCCTGTCCGACATATGGTTACCACCATGGTCAGATTC
1 GTTACCACCTTGGTCAAATCCGCCTCCTTCCTGTCCGACATATGGTTACCACCATAGTCAGATTC
* * * * * *
99634 TTTTCATTCTGATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTCATTCTTGTTTAACGTA
66 TTTTCATTCTGATTTAACATATGATTACCACCCTGATCAAATCTGCCTCATTCCTATCTAACGTA
99699 TGGTTAACACCCTAGTCA
131 TGGTTAACACCCTAGTCA
99717 CACGATTTGC
Statistics
Matches: 127, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
175 127 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (175 bp):
GTTACCACCTTGGTCAAATCCGCCTCCTTCCTGTCCGACATATGGTTACCACCATAGTCAGATTC
TTTTCATTCTGATTTAACATATGATTACCACCCTGATCAAATCTGCCTCATTCCTATCTAACGTA
TGGTTAACACCCTAGTCAGATTTTTTTCATTTCGATTTGACATAT
Found at i:99685 original size:44 final size:44
Alignment explanation
Indices: 99210--99716 Score: 270
Period size: 44 Copynumber: 11.6 Consensus size: 44
99200 CTTTCCTATC
* * * * * **
99210 TGACATATGGTTCCCACTCTGGTCAAATTTTTTTCATTCCAATT
1 TGACATATGGTTACCACCCTGGTCAAATCTGTCTCATTCTGATT
* * * * *
99254 TGATA-ATGGTTACCACCCTGATCAAATCTG-C-CTTTCTCCTATC
1 TGACATATGGTTACCACCCTGGTCAAATCTGTCTCATTCT--GATT
* * * * *
99297 TGACGTATGGTTACCACCTTGGTCAGATTCT-TTTCATTCCGATT
1 TGACATATGGTTACCACCCTGGTCA-AATCTGTCTCATTCTGATT
* ** * * *
99341 TAATGTATGGTTACCACCCTAGTCAAATCTGCCT-ACTTCTTG-TC
1 TGACATATGGTTACCACCCTGGTCAAATCTGTCTCA-TTC-TGATT
* * * * *
99385 T-AGCGTATGGTTACCACCTTGGTCAAATCCGCCTCCTTCCTG-TT
1 TGA-CATATGGTTACCACCCTGGTCAAATCTGTCTCATT-CTGATT
* * * * *
99429 TGACGTATGGTTACCACCCTAGTTAGATTCT-TTTCATTCTGATT
1 TGACATATGGTTACCACCCTGGTCA-AATCTGTCTCATTCTGATT
* * * * * * *
99473 TAACATATGATTACCACCTTGATCAAGTCTTTCTCATTCCT-ATC
1 TGACATATGGTTACCACCCTGGTCAAATCTGTCTCATT-CTGATT
* * * * * *
99517 TGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATT-TCGATT
1 TGACATATGGTTACCACCCTGGTCAAATCTGTCTCATTCT-GATT
* * *
99561 TGACATAT-GTTACCACCTTGGTCAAATCTGTCTCTTTCCTG-TC
1 TGACATATGGTTACCACCCTGGTCAAATCTGTCTCATT-CTGATT
* * * *
99604 CGACATATGGTTACCACCATGGTCAGATTCT-TTTCATTCTGATT
1 TGACATATGGTTACCACCCTGGTCA-AATCTGTCTCATTCTGATT
*
99648 TGACATATGGTTACCACCCTGGTCAAATCTGCCTCATTCTTG-TT
1 TGACATATGGTTACCACCCTGGTCAAATCTGTCTCATTC-TGATT
* * * *
99692 TAACGTATGGTTAACACCCTAGTCA
1 TGACATATGGTTACCACCCTGGTCA
99717 CACGATTTGC
Statistics
Matches: 348, Mismatches: 89, Indels: 52
0.71 0.18 0.11
Matches are distributed among these distances:
41 4 0.01
42 1 0.00
43 75 0.22
44 245 0.70
45 19 0.05
46 4 0.01
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.38
Consensus pattern (44 bp):
TGACATATGGTTACCACCCTGGTCAAATCTGTCTCATTCTGATT
Found at i:99731 original size:88 final size:88
Alignment explanation
Indices: 99390--99716 Score: 424
Period size: 88 Copynumber: 3.7 Consensus size: 88
99380 TTGTCTAGCG
* * * *
99390 TATGGTTACCACCTTGGTCAAATCCGCCTCCTTCCTGTTTGACGTATGGTTACCACCCTAGTTAG
1 TATGGTTACCACCTTGGTCAAATCTGCCTCATTCCTGTCTGACGTATGGTTACCACCCTAGTCAG
*
99455 ATTCTTTTCATTCTGATTTAACA
66 ATTCTTTTCATTCTGATTTGACA
* * * ** *
99478 TATGATTACCACCTTGATCAAGTCTTTCTCATTCCTATCTGACGTATGGTTACCACCCTAGTCAG
1 TATGGTTACCACCTTGGTCAAATCTGCCTCATTCCTGTCTGACGTATGGTTACCACCCTAGTCAG
*
99543 ATTTTTTTCATT-TCGATTTGACA
66 ATTCTTTTCATTCT-GATTTGACA
* * * * * *
99566 TAT-GTTACCACCTTGGTCAAATCTGTCTCTTTCCTGTCCGACATATGGTTACCACCATGGTCAG
1 TATGGTTACCACCTTGGTCAAATCTGCCTCATTCCTGTCTGACGTATGGTTACCACCCTAGTCAG
99630 ATTCTTTTCATTCTGATTTGACA
66 ATTCTTTTCATTCTGATTTGACA
* * * * *
99653 TATGGTTACCACCCTGGTCAAATCTGCCTCATTCTTGTTTAACGTATGGTTAACACCCTAGTCA
1 TATGGTTACCACCTTGGTCAAATCTGCCTCATTCCTGTCTGACGTATGGTTACCACCCTAGTCA
99717 CACGATTTGC
Statistics
Matches: 202, Mismatches: 34, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
87 75 0.37
88 127 0.63
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (88 bp):
TATGGTTACCACCTTGGTCAAATCTGCCTCATTCCTGTCTGACGTATGGTTACCACCCTAGTCAG
ATTCTTTTCATTCTGATTTGACA
Found at i:100037 original size:43 final size:42
Alignment explanation
Indices: 99839--100394 Score: 384
Period size: 42 Copynumber: 13.1 Consensus size: 42
99829 ACTTCTTCAA
* * * * *
99839 CTTTTGTTTGCCCATCGGCTTAGACCCCAGAGACTTTCTTAT
1 CTTTTGTCTGCCCGTCGGCTAAGACCCAAGAGACTTTTTTAT
* * * * * *
99881 CTTTTGTCTACCCATCGGCTTAGACTCAAAAGACTTCTTTAT
1 CTTTTGTCTGCCCGTCGGCTAAGACCCAAGAGACTTTTTTAT
* * * * **
99923 CTTTTATATGCCCGTCAGCTGAA-ACCCAGGAGACTTCCTTAT
1 CTTTTGTCTGCCCGTCGGCT-AAGACCCAAGAGACTTTTTTAT
* *
99965 CTTTTGTCTGCCCGTCAGCTTAGACCCAAGAGACTTTTTTAT
1 CTTTTGTCTGCCCGTCGGCTAAGACCCAAGAGACTTTTTTAT
* *
100007 CTTTTCGTCTGCCCATCGGCTAAGAACCAAGAGACTTTCTTTAT
1 CTTTT-GTCTGCCCGTCGGCTAAGACCCAAGAGACTTT-TTTAT
* * * * *
100051 CTTTTGTCTACTCATCAGCTCAA-ACCCAAGACACTTTTTTTAT
1 CTTTTGTCTGCCCGTCGGCT-AAGACCCAAGAGAC-TTTTTTAT
* * * *
100094 CTTTTGTTTGCCCGTCAGCTCAGACCCGAGAGACTTTCTTTAT
1 CTTTTGTCTGCCCGTCGGCTAAGACCCAAGAGACTTT-TTTAT
* * * ** *
100137 CTTTTGTTTGCCCGTCGGCTCAGA-ACTGGAGACTTTCTCTAT
1 CTTTTGTCTGCCCGTCGGCTAAGACCCAAGAGACTTT-TTTAT
* * * * * * *
100179 CTTTTGTTTGCCCGTTGGCTCAGACCTAGGAGAATTCTTTAT
1 CTTTTGTCTGCCCGTCGGCTAAGACCCAAGAGACTTTTTTAT
* * * ** * *
100221 CTTTTATCTGCTCGTCGACTCAA-ATGCGAGAGACTTCTTTAT
1 CTTTTGTCTGCCCGTCGGCT-AAGACCCAAGAGACTTTTTTAT
* ** * * * * *
100263 CTTTTGTTTGTTCATCGGCTCAGACCTAAAAGACTTCTTTAT
1 CTTTTGTCTGCCCGTCGGCTAAGACCCAAGAGACTTTTTTAT
* * * * *
100305 CTTTTGTCTGCTCATCGACTCAGACCCAAGAGATTTTTTTAT
1 CTTTTGTCTGCCCGTCGGCTAAGACCCAAGAGACTTTTTTAT
* * * *
100347 CCTTTGTCTGCTCGTCGGCTCAA-ACCCGAGAAACTTTCTTTAT
1 CTTTTGTCTGCCCGTCGGCT-AAGACCCAAGAGACTTT-TTTAT
100390 CTTTT
1 CTTTT
100395 ATTTGCCCAT
Statistics
Matches: 412, Mismatches: 89, Indels: 25
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.00
42 269 0.65
43 126 0.31
44 15 0.04
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (42 bp):
CTTTTGTCTGCCCGTCGGCTAAGACCCAAGAGACTTTTTTAT
Found at i:100472 original size:127 final size:125
Alignment explanation
Indices: 99839--100479 Score: 427
Period size: 126 Copynumber: 5.0 Consensus size: 125
99829 ACTTCTTCAA
* * * * * * * * *
99839 CTTTTGTTTGCCCATCGGCTTAGACCCCAGAGACTTTC-TTATCTTTTGTCTACCCATCGGCTTA
1 CTTTTGTCTGCTCGTCGGCTCAAACCCGAGAGACTTTCTTTATCTTTTGTTTGCCCATCGGCTCA
*** * * * * * * *
99903 GACTCAAAAGACTTCTTTATCTTTTATATGCCCGTC-AGCTGAAACCCAGGAGACTTC-CTTAT
66 GAC-CTGGAGACTTCTTTATCTTTTGT-TTCCTGTCGA-CTCAGACCCAGGA-AATTCTTTTAT
* * * * * * *
99965 CTTTTGTCTGCCCGTCAGCTTAGACCCAAGAGACTTT-TTTATCTTTTCGTCTGCCCATCGGCTA
1 CTTTTGTCTGCTCGTCGGCTCAAACCCGAGAGACTTTCTTTATCTTTT-GTTTGCCCATCGGCTC
** * * * * * * *
100029 AGAACCAAGAGACTTTCTTTATCTTTTGTCTACTCATC-AGCTCAAACCCAAGACACTTTTTTTA
65 AG-ACCTGGAGAC-TTCTTTATCTTTTGTTTCCT-GTCGA-CTCAGACCCAGGA-AATTCTTTTA
100093 T
125 T
* * * * *
100094 CTTTTGTTTGCCCGTCAGCTCAGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCCGTCGGCTCA
1 CTTTTGTCTGCTCGTCGGCTCAAACCCGAGAGACTTTCTTTATCTTTTGTTTGCCCATCGGCTCA
* * * * * *
100159 GAACTGGAGACTTTCTCTATCTTTTGTTTGCCCGTTGGCTCAGACCTAGGAGAATTC-TTTAT
66 GACCTGGAGAC-TTCTTTATCTTTTGTTT-CCTGTCGACTCAGACCCAGGA-AATTCTTTTAT
* * ** **
100221 CTTTTATCTGCTCGTCGACTCAAATGCGAGAGAC-TTCTTTATCTTTTGTTTGTTCATCGGCTCA
1 CTTTTGTCTGCTCGTCGGCTCAAACCCGAGAGACTTTCTTTATCTTTTGTTTGCCCATCGGCTCA
** * * * * * *
100285 GACCTAAAAGACTTCTTTATCTTTTGTCTGCTCATCGACTCAGACCCAAGAGATTTTTTTAT
66 GACCT-GGAGACTTCTTTATCTTTTGTTTCCT-GTCGACTCAGACCCAGGAAATTCTTTTAT
* * * *
100347 CCTTTGTCTGCTCGTCGGCTCAAACCCGAGAAACTTTCTTTATCTTTTATTTGCCCATCGAC-CT
1 CTTTTGTCTGCTCGTCGGCTCAAACCCGAGAGACTTTCTTTATCTTTTGTTTGCCCATCGGCTC-
* * **
100411 AGACCTGGGAGACTTCTTTATCCTTTGTTTACCTGTCGACTTA-ATCCCAGGTCATTCTTTTAT
65 AGACCT-GGAGACTTCTTTATCTTTTGTTT-CCTGTCGACTCAGA-CCCAGGAAATTCTTTTAT
*
100474 CGTTTG
1 CTTTTG
100480 CTAACCCGAC
Statistics
Matches: 411, Mismatches: 88, Indels: 31
0.78 0.17 0.06
Matches are distributed among these distances:
125 4 0.01
126 136 0.33
127 133 0.32
128 74 0.18
129 54 0.13
130 10 0.02
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (125 bp):
CTTTTGTCTGCTCGTCGGCTCAAACCCGAGAGACTTTCTTTATCTTTTGTTTGCCCATCGGCTCA
GACCTGGAGACTTCTTTATCTTTTGTTTCCTGTCGACTCAGACCCAGGAAATTCTTTTAT
Found at i:101749 original size:166 final size:167
Alignment explanation
Indices: 101498--101822 Score: 421
Period size: 166 Copynumber: 2.0 Consensus size: 167
101488 ATTCCTTTTG
* * *
101498 TTTTCAAATTACGGGATTTTCTTCTCCGTAATTTTTTTTCGGGAGGATTTTTCCTAGTTTTTAAT
1 TTTTCAAATTACGGGATTTTCTACTCCGTAACTTTTTTTCAGGAGGATTTTTCCTAGTTTTTAAT
* * * *
101563 TTTTAAAATTCATCAAATATTATTATTTGATTA-ATCGTAAATCAGTTCTCACAAATTCATTCGT
66 TTTTAAAATTCATCAAATATTATCATTT-ATTACATAGTAAATCAGTTCTAACAAATTCATTCAT
* *
101627 TTTCATATATTTTTG-ATTTTTTTCCTTGAAACTCCTTA
130 TTTCAT-GAGTTTTGAATTTTTTTCCTTGAAACTCCTTA
*
101665 TTTTCGAAA-TAC-GGAGTTTTCTACTCTGTAACTTTTTTTCTAGG-GGA-TTTT-CTCAGTTTT
1 TTTTC-AAATTACGGGA-TTTTCTACTCCGTAACTTTTTTTC-AGGAGGATTTTTCCT-AGTTTT
* * *
101725 TAATTTTTAAAATTCATTAAATATTATCATTTATTACATATTAAATCAGTTTTAACAAATTCATT
62 TAATTTTTAAAATTCATCAAATATTATCATTTATTACATAGTAAATCAGTTCTAACAAATTCATT
*
101790 CATTTTCATGAGTTTTGAATTTTTTTCTTTGAA
127 CATTTTCATGAGTTTTGAATTTTTTTCCTTGAA
101823 GTCCTCTTTT
Statistics
Matches: 138, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
165 12 0.09
166 89 0.64
167 32 0.23
168 5 0.04
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (167 bp):
TTTTCAAATTACGGGATTTTCTACTCCGTAACTTTTTTTCAGGAGGATTTTTCCTAGTTTTTAAT
TTTTAAAATTCATCAAATATTATCATTTATTACATAGTAAATCAGTTCTAACAAATTCATTCATT
TTCATGAGTTTTGAATTTTTTTCCTTGAAACTCCTTA
Found at i:101880 original size:166 final size:166
Alignment explanation
Indices: 101553--101916 Score: 396
Period size: 166 Copynumber: 2.2 Consensus size: 166
101543 GATTTTTCCT
* * *
101553 AGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTGATTAATCGTAAATCAGTTCTCACAAA
1 AGTTTTTAATTTTTAAAATTCATCAAATATTATCATTTGATTAATAGTAAATCAGTTCTAACAAA
* * * *
101618 TTCATTCGTTTTCATATATTTTTGATTTTTTTCCTTGAAACTCCTTATTTTCGAAATACGGAGTT
66 TTCATTCATTTTCATAGAGTTTTGATTTTTTTCCTTGAAACTCCTTATTTTCGAAAAACGGAGTT
* * * *
101683 TTCTACTCTGTAACTTTTTTTCTAGGGGATTTTCTC
131 TTCTACTCTGTAAATCTTTTTCAAAGGGATTTTCTC
* * *
101719 AGTTTTTAATTTTTAAAATTCATTAAATATTATCATTT-ATTACATATTAAATCAGTTTTAACAA
1 AGTTTTTAATTTTTAAAATTCATCAAATATTATCATTTGATTA-ATAGTAAATCAGTTCTAACAA
* * * * **
101783 ATTCATTCATTTTCAT-GAGTTTTGAATTTTTTTCTTTG-AAGTCCTCTTTTTTTTGAAAAATTG
65 ATTCATTCATTTTCATAGAGTTTTG-ATTTTTTTCCTTGAAACT-C-CTTATTTTCGAAAAACGG
* *
101846 AGTTTTCTTCTTTGTAAATCTTTTT-AAAGGGATTTT-TC
127 AGTTTTCTACTCTGTAAATCTTTTTCAAAGGGATTTTCTC
* ** * *
101884 TTGATTTAAAATTTTTAAAATTTATCTAATATT
1 -AG-TTTTTAATTTTTAAAATTCATCAAATATT
101917 GTTACAAAAC
Statistics
Matches: 164, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
165 15 0.09
166 91 0.55
167 58 0.35
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (166 bp):
AGTTTTTAATTTTTAAAATTCATCAAATATTATCATTTGATTAATAGTAAATCAGTTCTAACAAA
TTCATTCATTTTCATAGAGTTTTGATTTTTTTCCTTGAAACTCCTTATTTTCGAAAAACGGAGTT
TTCTACTCTGTAAATCTTTTTCAAAGGGATTTTCTC
Found at i:102125 original size:14 final size:15
Alignment explanation
Indices: 102106--102138 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
102096 TATAAATTTT
102106 ATTTTAATTTTTA-A
1 ATTTTAATTTTTACA
102120 ATTTTAATTTTTACA
1 ATTTTAATTTTTACA
102135 ATTT
1 ATTT
102139 AATCCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTAATTTTTACA
Found at i:110968 original size:19 final size:19
Alignment explanation
Indices: 110940--110995 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
110930 TGTATCGATA
*
110940 CATTGAATCGATACATGCT
1 CATTGTATCGATACATGCT
*
110959 CATTGTATCGATACATACT
1 CATTGTATCGATACATGCT
110978 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
110996 AAACGGGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:118581 original size:13 final size:13
Alignment explanation
Indices: 118563--118592 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
118553 GATACATGGG
118563 ACATTGTATCGAT
1 ACATTGTATCGAT
118576 ACATTGTATCGAT
1 ACATTGTATCGAT
118589 ACAT
1 ACAT
118593 GAAGAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:118589 original size:33 final size:33
Alignment explanation
Indices: 118547--118613 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
118537 CTAAGTGAAA
*
118547 TGTATCGATACATG-GGACATTGTATCGATACAT
1 TGTATCGATACATGAAGA-ATTGTATCGATACAT
*
118580 TGTATCGATACATGAAGAATTGTATTGATACAT
1 TGTATCGATACATGAAGAATTGTATCGATACAT
118613 T
1 T
118614 ATGCCCAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATGAAGAATTGTATCGATACAT
Found at i:125431 original size:18 final size:18
Alignment explanation
Indices: 125405--125440 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
125395 GTAAGGAAAG
*
125405 AAAATAAAATGAAAAAAA
1 AAAACAAAATGAAAAAAA
125423 AAAACAAAATGAAAAAAA
1 AAAACAAAATGAAAAAAA
125441 GAAAGCATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.08
Consensus pattern (18 bp):
AAAACAAAATGAAAAAAA
Found at i:129985 original size:23 final size:24
Alignment explanation
Indices: 129945--129991 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
129935 AGAAGGTAGC
*
129945 TCCATAATCAGTCTTGCAACCTTT
1 TCCATAATCAGTCCTGCAACCTTT
*
129969 TCCAT-ATTAGTCCTGCAACCTTT
1 TCCATAATCAGTCCTGCAACCTTT
129992 AAGTGTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.38
Consensus pattern (24 bp):
TCCATAATCAGTCCTGCAACCTTT
Found at i:133238 original size:3 final size:3
Alignment explanation
Indices: 133230--133272 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
133220 TCATTAGAGA
* *
133230 ATT ATT ATT ATT ATT ATT ATT ATT -TT GTT ATT AGT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
133273 TATAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:139072 original size:276 final size:278
Alignment explanation
Indices: 138756--139268 Score: 763
Period size: 277 Copynumber: 1.9 Consensus size: 278
138746 TTATTAGTTT
* * * *
138756 TTTTTTGTTTTCTCTTTTATTGACTTAATGTTTTTAACTACAAAATCATATTTAATTACTATTAA
1 TTTTTTGTTTTCTCTTCTATTGACTAAATGTTTTTAACTACAAAATCATATTTAATTACGATCAA
* *
138821 GTTAAA-TATAATTAAATAATATTCTAATTCAAATATATATGTTAAATATTTTTAACTTATTTCA
66 GTTAAACTATAATTAAATAATATTCTAATTCAAATATATATATTAAATATTTTAAACTTATTTCA
* * *
138885 ATGCA-AATTA-ATTCAATTCAATTATATATTAACTTTGATATTTATATATTATATTGTTTTTAT
131 A--CATAAATAGATTCAATTCAATTATATATTAACTTTGATATTAATATATTATATT-ATTTTAT
* *
138948 TT-AAAATAAATCAAT-TTCCATTATTTAAAAAA-TTAATGATAAATATGTCCTTTTTAATTATT
193 TTAAAAATAAATAAATATT-CATTATTAAAAAAATTTAATGATAAATATGTCCTTTTTAATTATT
139010 AATTATTTATTTTTAATTTTTG
257 AATTATTTATTTTTAATTTTTG
*
139032 TTTTTTGTTTTCT-TTCTATTTGACTCAAAT-TTTTTAACTACAAAATCATCTTTAATTACGATC
1 TTTTTTGTTTTCTCTTCTA-TTGACT-AAATGTTTTTAACTACAAAATCATATTTAATTACGATC
*
139095 AAGTTAAACTATAATTAAATAATATTCTAATTCAAGTATATATATTAAATATTTTAAACTTATTT
64 AAGTTAAACTATAATTAAATAATATTCTAATTCAAATATATATATTAAATATTTTAAACTTATTT
* * *
139160 TAACATAAATAGGTTCAATTCAATTATATATTAATTTTGATATTAATATATTATATTATTTTATT
129 CAACATAAATAGATTCAATTCAATTATATATTAACTTTGATATTAATATATTATATTATTTTATT
*
139225 TAAAAATAAATAAATATTCATTATTAAAAAAATTTATTGATAAA
194 TAAAAATAAATAAATATTCATTATTAAAAAAATTTAATGATAAA
139269 AATATTGATT
Statistics
Matches: 212, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
275 6 0.03
276 69 0.33
277 125 0.59
278 12 0.06
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.49
Consensus pattern (278 bp):
TTTTTTGTTTTCTCTTCTATTGACTAAATGTTTTTAACTACAAAATCATATTTAATTACGATCAA
GTTAAACTATAATTAAATAATATTCTAATTCAAATATATATATTAAATATTTTAAACTTATTTCA
ACATAAATAGATTCAATTCAATTATATATTAACTTTGATATTAATATATTATATTATTTTATTTA
AAAATAAATAAATATTCATTATTAAAAAAATTTAATGATAAATATGTCCTTTTTAATTATTAATT
ATTTATTTTTAATTTTTG
Found at i:139287 original size:18 final size:18
Alignment explanation
Indices: 139264--139309 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
139254 AAATTTATTG
**
139264 ATAAAAATATTGATTAAA
1 ATAAAAATATTGACAAAA
*
139282 ATAAAAA-ATAGACAAAA
1 ATAAAAATATTGACAAAA
139299 ATAAAAATATT
1 ATAAAAATATT
139310 TTATTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
ATAAAAATATTGACAAAA
Found at i:139632 original size:3 final size:3
Alignment explanation
Indices: 139626--139651 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
139616 GGGTTTTTTT
139626 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
139652 TTTTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:139903 original size:22 final size:22
Alignment explanation
Indices: 139878--139920 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
139868 TTTAATAAAA
139878 ATAAAAAATTAAATTAAATTTG
1 ATAAAAAATTAAATTAAATTTG
* **
139900 ATAAAAATTTGTATTAAATTT
1 ATAAAAAATTAAATTAAATTT
139921 TTTTTAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
ATAAAAAATTAAATTAAATTTG
Found at i:140100 original size:74 final size:73
Alignment explanation
Indices: 139921--140248 Score: 318
Period size: 74 Copynumber: 4.6 Consensus size: 73
139911 TATTAAATTT
* * *
139921 TTTTTAAAGTATTATTTATCTTTATTTGTAGAAGTTTAAAT-T-TATTTTTAGGTATAATTATAC
1 TTTTTAAAGTATAATTTATCTTTATTTGTAAAAGTTTAAATGTGT-TTTTTGGGTATAATTATAC
*
139984 GAGTTAAAA
65 GAGTTTAAA
* * * * *
139993 TTTGTAAGGTATAATTTATCTTTATTTATAAAAGTTTAAATGTGTTTTTTGGGTATACTTATATG
1 TTTTTAAAGTATAATTTATCTTTATTTGTAAAAGTTTAAATGTGTTTTTTGGGTATAATTATACG
140058 AGTTTAAA
66 AGTTTAAA
* * *
140066 TTTTTAATAGCATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTTGGGTATAATTATAC
1 TTTTTAA-AGTATAATTTATCTTTATTTGTAAAAGTTTAAATGTGTTTTTTGGGTATAATTATAC
*
140131 GAGTTTATAT
65 GAGTTTA-AA
** * * * * *
140141 TTTTTATCGTA-AATTTAAT-TTAATTTTTAGAAA-TTTAAATTTG-TTTTTGGGT-TGA-CATA
1 TTTTTAAAGTATAATTT-ATCTTTATTTGTA-AAAGTTTAAATGTGTTTTTTGGGTATAATTATA
140200 --AGTTTAAA
64 CGAGTTTAAA
** *
140208 TTTTTAGGGTATTATTTATCTTTATTTGTAGAAA-TTTAAAT
1 TTTTTAAAGTATAATTTATCTTTATTTGTA-AAAGTTTAAAT
140249 TTTTATTTAA
Statistics
Matches: 215, Mismatches: 33, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
67 12 0.06
68 29 0.13
70 3 0.01
71 2 0.01
72 45 0.21
73 52 0.24
74 65 0.30
75 7 0.03
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.52
Consensus pattern (73 bp):
TTTTTAAAGTATAATTTATCTTTATTTGTAAAAGTTTAAATGTGTTTTTTGGGTATAATTATACG
AGTTTAAA
Found at i:140186 original size:147 final size:140
Alignment explanation
Indices: 139921--140248 Score: 369
Period size: 146 Copynumber: 2.3 Consensus size: 140
139911 TATTAAATTT
* *
139921 TTTTTAAAGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTATTTTTAGGTATAATTATACGA
1 TTTTTAAAGTATTATTTATCTTTATTTGTAAAAGTTTAAATGTATTTTTAGGTATAATTATACGA
* *
139986 GTTAAAATTTGTAAGGTATAATTTATCTTTATTTATAAAAGTTTAAATGTGTTTTTTGGGTAT-A
66 GTTAAAATTTGTAACGTATAATTTATCTTAATTTATAAAAGTTTAAATGTG-TTTTTGGGT-TGA
140050 CTTATATGAGTTTAAA
129 C--ATA--AGTTTAAA
* * * *
140066 TTTTTAATAGCATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTTGGGTATAATTATAC
1 TTTTTAA-AGTATTATTTATCTTTATTTGTAAAAGTTTAAATGTA-TTTTTAGGTATAATTATAC
* * * * * *
140131 GAGTTTATATTTTTTATCGTA-AATTTAAT-TTAATTTTTAGAAA-TTTAAATTTGTTTTTGGGT
64 GAG-TTAAAATTTGTAACGTATAATTT-ATCTTAATTTATA-AAAGTTTAAATGTGTTTTTGGGT
140193 TGACATAAGTTTAAA
126 TGACATAAGTTTAAA
**
140208 TTTTTAGGGTATTATTTATCTTTATTTGTAGAAA-TTTAAAT
1 TTTTTAAAGTATTATTTATCTTTATTTGTA-AAAGTTTAAAT
140249 TTTTATTTAA
Statistics
Matches: 157, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
141 26 0.17
142 17 0.11
144 3 0.02
145 8 0.05
146 43 0.27
147 43 0.27
148 17 0.11
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.52
Consensus pattern (140 bp):
TTTTTAAAGTATTATTTATCTTTATTTGTAAAAGTTTAAATGTATTTTTAGGTATAATTATACGA
GTTAAAATTTGTAACGTATAATTTATCTTAATTTATAAAAGTTTAAATGTGTTTTTGGGTTGACA
TAAGTTTAAA
Found at i:140413 original size:22 final size:22
Alignment explanation
Indices: 140385--140430 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
140375 TTATTTGAGG
*
140385 TACTATAATTTTGTTAATTATA
1 TACTATAATTTTATTAATTATA
140407 TACTATAATTTTATTAATTATA
1 TACTATAATTTTATTAATTATA
140429 TA
1 TA
140431 TTTAAGCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
TACTATAATTTTATTAATTATA
Found at i:142456 original size:13 final size:13
Alignment explanation
Indices: 142438--142463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
142428 CAATTTTTTG
142438 TGTATCGATACAT
1 TGTATCGATACAT
142451 TGTATCGATACAT
1 TGTATCGATACAT
142464 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:142475 original size:32 final size:33
Alignment explanation
Indices: 142418--142481 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
142408 TACAAGCCAA
**
142418 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
142451 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
142482 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Done.