Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008517.1 Hibiscus syriacus cultivar Beakdansim tig00111383_pilon, whole genome shotgun sequence
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: 35973
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:4255 original size:21 final size:20
Alignment explanation
Indices: 4171--4325 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
4161 AAATGACCAA
*
4171 CAAAATCGCAACGCGA--AT
1 CAAAATCGCAACGCGATTTT
* ***
4189 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* * *
4209 CAGAATCGCAA-TC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
4228 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
4249 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
4269 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
4289 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
4310 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
4326 ACACATAAAT
Statistics
Matches: 104, Mismatches: 26, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
18 16 0.15
19 13 0.12
20 43 0.41
21 32 0.31
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:4335 original size:20 final size:20
Alignment explanation
Indices: 4312--4485 Score: 118
Period size: 20 Copynumber: 8.7 Consensus size: 20
4302 GCGAATATGA
4312 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
4332 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
4352 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
4372 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
4392 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * **
4412 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
4432 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
4452 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
4473 AAATCGCAACGCG
1 AAATCGCAACGCG
4486 ATATTTAAAG
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.02
20 107 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:4356 original size:40 final size:39
Alignment explanation
Indices: 4292--4486 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 39
4282 CGATTTTCCA
* ** *
4292 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * * *
4332 AAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
4372 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* * ** *
4412 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
4452 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
4487 TATTTAAAGC
Statistics
Matches: 127, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.74
41 32 0.25
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:4377 original size:60 final size:60
Alignment explanation
Indices: 4292--4485 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
4282 CGATTTTCCA
* ** * *
4292 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ***
4352 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ** *
4412 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGT
4473 AAATCGCAACGCG
1 AAATCGCAACGCG
4486 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
Found at i:4902 original size:32 final size:32
Alignment explanation
Indices: 4861--4929 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
4851 ATTTCACTTA
4861 GATTTCATTTCGCGTTACGATTCTCTCGTTGC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTGC
* *
4893 GATTTCATTTCGCGTTGCTATTCTCTCGTTGC
1 GATTTCATTTCGCGTTACGATTCTCTCGTTGC
4925 GATTT
1 GATTT
4930 TCAAGTTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (32 bp):
GATTTCATTTCGCGTTACGATTCTCTCGTTGC
Found at i:4910 original size:18 final size:18
Alignment explanation
Indices: 4861--4910 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
4851 ATTTCACTTA
*
4861 GATTTCATTTCGCGTTAC
1 GATTTCATTTCGCGTTGC
*
4879 GA-TTC---TCTCGTTGC
1 GATTTCATTTCGCGTTGC
4893 GATTTCATTTCGCGTTGC
1 GATTTCATTTCGCGTTGC
4911 TATTCTCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 9 0.36
15 3 0.12
17 3 0.12
18 10 0.40
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (18 bp):
GATTTCATTTCGCGTTGC
Found at i:5068 original size:19 final size:19
Alignment explanation
Indices: 5023--5097 Score: 96
Period size: 19 Copynumber: 3.9 Consensus size: 19
5013 GCAACGAGAT
* *
5023 AAATGAAAATCGCAACGAG
1 AAATGACAATCGCAACGCG
**
5042 AGAATGACTGTCGCAACGCG
1 A-AATGACAATCGCAACGCG
5062 AAATGACAATCGCAACGCG
1 AAATGACAATCGCAACGCG
*
5081 AAATGAAAATCGCAACG
1 AAATGACAATCGCAACG
5098 AGAGAATCGC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 33 0.69
20 15 0.31
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
AAATGACAATCGCAACGCG
Found at i:5162 original size:14 final size:14
Alignment explanation
Indices: 5143--5232 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
5133 ATTTATTTCG
5143 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5157 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
5176 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5190 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
5209 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
5223 CGTTGCGATT
1 CGTTGCGATT
5233 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5178 original size:33 final size:33
Alignment explanation
Indices: 5128--5240 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
5118 CAAAATCGCA
5128 TTGCGA-TTT-ATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
5159 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
5192 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
5225 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
5241 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
31 6 0.08
32 3 0.04
33 69 0.88
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:5181 original size:19 final size:18
Alignment explanation
Indices: 5123--5218 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
5113 GAAACCAAAA
*
5123 TCGCATTGCGATTT-ATT
1 TCGCGTTGCGATTTCATT
5140 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
5154 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
5173 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
5187 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATT-TCATT
5206 TCGCGTTGCGATT
1 TCGCGTTGCGATT
5219 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 20 0.32
15 1 0.02
16 7 0.11
17 13 0.21
19 22 0.35
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.44
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:8468 original size:14 final size:14
Alignment explanation
Indices: 8449--8484 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
8439 CTTATTTAAT
8449 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
8463 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
8477 TGATTTGT
1 TGATTTGT
8485 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:8675 original size:20 final size:19
Alignment explanation
Indices: 8589--8689 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
8579 AAAAATGACT
8589 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
8607 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8626 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
8640 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
8659 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
8679 ATCGCAATGCG
1 ATCGCAATGCG
8690 TTATAATTTC
Statistics
Matches: 74, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 17 0.23
19 23 0.31
20 19 0.26
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:8722 original size:14 final size:14
Alignment explanation
Indices: 8703--8757 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
8693 TAATTTCGCA
*
8703 TTGCGATTCTCTCG
1 TTGCGATTCTTTCG
8717 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TTTCG
8734 CATTGCGATTCTTTCG
1 --TTGCGATTCTTTCG
8750 TTGCGATT
1 TTGCGATT
8758 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 14 0.40
16 8 0.23
17 7 0.20
19 6 0.17
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (14 bp):
TTGCGATTCTTTCG
Found at i:8737 original size:33 final size:33
Alignment explanation
Indices: 8695--8989 Score: 283
Period size: 33 Copynumber: 8.5 Consensus size: 33
8685 ATGCGTTATA
8695 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
8728 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
8761 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
*
8799 ATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TTC-TCTCG--TTGCGATTTTC
*
8836 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
8876 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
8907 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
8940 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
*
8974 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
8990 GTAATTTCCG
Statistics
Matches: 233, Mismatches: 15, Indels: 28
0.84 0.05 0.10
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 83 0.36
34 29 0.12
35 6 0.03
36 5 0.02
37 39 0.17
38 45 0.19
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:8741 original size:19 final size:19
Alignment explanation
Indices: 8717--8989 Score: 354
Period size: 19 Copynumber: 15.4 Consensus size: 19
8707 GATTCTCTCG
8717 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8736 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
8750 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8769 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8788 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8807 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8825 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8844 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
8863 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
8877 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8896 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
8915 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
8929 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
8949 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
8963 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
8982 TTGCGATT
1 TTGCGATT
8990 GTAATTTCCG
Statistics
Matches: 226, Mismatches: 6, Indels: 44
0.82 0.02 0.16
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 21 0.09
18 21 0.09
19 119 0.53
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:8776 original size:52 final size:53
Alignment explanation
Indices: 8695--8989 Score: 316
Period size: 52 Copynumber: 5.6 Consensus size: 53
8685 ATGCGTTATA
*
8695 ATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCGCATTGCGA-TTC
1 ATTTCG-ATTGCGATTTCATTTCGCTTGCGATTTTCATTTCGCATTGCGATTTC
8745 -TTTCG-TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGATTGCGA-TTTCATTTCGC-TTGCGATTTTCATTTCGCATTGCGA-TTTC
8799 ATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCG-ATTGCGATTTCATTTCGC-TTGCGATTTTCATTTCGCATTGCGA-TTTC
*
8855 ATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCG-ATTGCGATTTCATTTCGCTTGCGATTTTCATTTCGCATTGCGA-TTTC
*
8907 ATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCG-ATTGCGATTTCATTTCGCTTGCGATTTTCATTT-CGCATTGCGA-TTTC
*
8960 A--T-G-TTGGGATTTTCATTTCGCGTTGCGATT
1 ATTTCGATTGCGA-TTTCATTTCGC-TTGCGATT
8990 GTAATTTCCG
Statistics
Matches: 225, Mismatches: 4, Indels: 29
0.87 0.02 0.11
Matches are distributed among these distances:
47 6 0.03
48 5 0.02
49 8 0.04
50 8 0.04
51 5 0.02
52 92 0.41
53 24 0.11
54 7 0.03
55 8 0.04
56 56 0.25
57 6 0.03
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (53 bp):
ATTTCGATTGCGATTTCATTTCGCTTGCGATTTTCATTTCGCATTGCGATTTC
Found at i:9934 original size:20 final size:20
Alignment explanation
Indices: 9906--10113 Score: 213
Period size: 20 Copynumber: 10.5 Consensus size: 20
9896 AAATTTCAGT
* * *
9906 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
9926 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
9946 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
9966 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
9986 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
10006 GTTGCGATATACGGAAACGC
1 GTTGCGATTTACGGATTCGC
* *
10026 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
10046 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
10066 ATTGCGATTTA-TG-TTCGC
1 GTTGCGATTTACGGATTCGC
* **
10084 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
10104 GTTGCGATTT
1 GTTGCGATTT
10114 TGGAAAATCG
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
18 13 0.08
19 1 0.01
20 149 0.91
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:10130 original size:21 final size:20
Alignment explanation
Indices: 10080--10176 Score: 70
Period size: 21 Copynumber: 4.8 Consensus size: 20
10070 CGATTTATGT
* * * *
10080 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
10100 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
10121 TCGCAATGCGA-ATTGACTA
1 TCGCATTGCGATTTTGAAAA
*
10140 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
10161 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
10177 GACACTGATT
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
19 13 0.22
20 20 0.34
21 26 0.44
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:12204 original size:60 final size:60
Alignment explanation
Indices: 12039--12204 Score: 162
Period size: 60 Copynumber: 2.8 Consensus size: 60
12029 TATAGATTGA
* * * * *
12039 GATGAAACTGAAATGTTCAAAAAGTTTG-GAGCCTAATTTAAAATGAAGGTCATAGTTTGGG
1 GATGAAATTAAAATGTTC-AAAAGTCTGAG-GACTAATTTAAAATGAAGGTCATAGTTTAGG
* *
12100 GATGAAATTAAAATGTTCAAAAGTCTGAGGACTAATCTAGAATGATA-GTCATAGTTTAGG
1 GATGAAATTAAAATGTTCAAAAGTCTGAGGACTAATTTAAAATGA-AGGTCATAGTTTAGG
* *
12160 GATGAAATTATAACAT-TT-AAAA-TTTTAGAGACTAATTTAAAATGA
1 GATGAAATTA-AA-ATGTTCAAAAGTCTGAG-GACTAATTTAAAATGA
12205 GGCTAAAATC
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
59 4 0.04
60 61 0.69
61 22 0.25
62 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (60 bp):
GATGAAATTAAAATGTTCAAAAGTCTGAGGACTAATTTAAAATGAAGGTCATAGTTTAGG
Found at i:14460 original size:18 final size:18
Alignment explanation
Indices: 14437--14473 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14427 AGCCGAATAT
14437 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
14455 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
14473 A
1 A
14474 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:14703 original size:23 final size:23
Alignment explanation
Indices: 14677--14741 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
14667 ATGCGAGATA
14677 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
14700 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
14723 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
14742 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:15125 original size:23 final size:23
Alignment explanation
Indices: 15099--15155 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
15089 ATATAACCAT
15099 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
15122 TACCTATTACA-TATATAAGGGC
1 TACCTATTACATTATATAAACGA
15144 TACCTATTACAT
1 TACCTATTACAT
15156 CATGTTTACC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:15462 original size:420 final size:427
Alignment explanation
Indices: 14679--16929 Score: 3950
Period size: 420 Copynumber: 5.4 Consensus size: 427
14669 GCGAGATAGA
14679 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCA-ATGT
14744 TTACCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
65 TTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTA
14808 TGTAA-TT-TGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
129 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
14871 TTTCATTTGCAC-AAAAA-TATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAA-TTTTA
194 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTA
14933 ATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
259 ATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA-TAAATTA
14996 ATATCTTAAAACTCACTCAAAAGATAACCTT-AATTAATGTTTTCCACAGTG-AAAAAGTATGGA
323 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
15059 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
388 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
15099 TACCTATTACATTATATAAACGATACCTATTACA-TATATAAGGGCTACCTATTACATC-ATGTT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCAATGTT
15162 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTAT
66 TACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTAT
15226 GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
130 GTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
15291 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTAT-AAATATTATTTAGAATTTTTA
194 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTA
15355 ATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAA-T-TAAATTAA
259 ATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTATAAATTAA
15417 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATG-TTTCCACAGTGAAAAAAGTATGGAC
324 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
15481 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
389 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
15520 TACCTATTACA-T-TATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCA-ATGT
15583 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATAC-TTTTTTAAAACTTAT
65 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTAT
15647 GTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAAT
130 GTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAAT
15712 TTCATTTGCACAAAAAATTATTTGATTGTTTTTATA-TTTATAAAATATTATTTAGAATTTTTAA
195 TTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAA
15776 TTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
260 TTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA-TAAATTAA
15839 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
324 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
15904 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
389 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
15943 TACC--TTACATTAT-TAAACGATACCTATTACA-T-TATAAGGG----CTA-TACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCA-ATGT
*
15998 TTACCTATTATATTGAAAGTGTCCATACTTTTTAT--AGGGATCG--AC-TTTTTTAAAACTTAT
65 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTAT
16058 GTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAAT
130 GTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAAT
16123 TTCATTTGCAC-AAAAATTA-TTGATTGTTTTTATA-TTT-TAAAA-A-T-TTTAGAATTTTTAA
195 TTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAA
*
16181 TTTAAT-ATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
260 TTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA-TAAATTAA
*
16244 TATCTTAAAACTCACTTAAAAGATAACCTTAAATTAATG-TTTCCACAGTG-AAAAAGTATGGAC
324 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
16307 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
389 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
16346 TACCTATTACATTATATAAACG--ACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCA-ATGT
16409 TTACCTATTATA-TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
65 TTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTA
16473 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACC-ACAATATTGATTTAATA
129 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
16537 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
193 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
16602 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
258 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA-TAAATT
16667 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
322 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
16732 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
387 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
16773 TA-CTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATG-
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCA-ATGT
16836 TTACCTATT-TATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTAT
65 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTAT
16900 GTAATTTATGTTTCAATTTTTTAACAGTGT
130 GTAATTTATGTTTCAATTTTTTAACAGTGT
16930 ACTGCGAATT
Statistics
Matches: 1770, Mismatches: 6, Indels: 105
0.94 0.00 0.06
Matches are distributed among these distances:
403 56 0.03
404 23 0.01
405 107 0.06
406 28 0.02
407 1 0.00
408 5 0.00
409 18 0.01
410 33 0.02
411 117 0.07
413 14 0.01
415 49 0.03
416 64 0.04
417 88 0.05
418 52 0.03
419 87 0.05
420 298 0.17
421 143 0.08
422 146 0.08
423 116 0.07
424 32 0.02
425 90 0.05
426 78 0.04
427 85 0.05
428 40 0.02
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (427 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCAATGTT
TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTATG
TAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATT
TCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAAT
TTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTATAAATTAATA
TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC
TTTTATAAAAAGGATAGACACTTTACAATATAACCAT
Found at i:15535 original size:21 final size:20
Alignment explanation
Indices: 15505--15556 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
15495 GATAGACACT
*
15505 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
15526 TTACATTATAAACGATACCTA
1 TTACATTAT-AACCATACCTA
15547 TTACATTATA
1 TTACATTATA
15557 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.82
22 4 0.14
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:15567 original size:23 final size:22
Alignment explanation
Indices: 15510--15580 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
15500 ACACTTTACA
*
15510 ATATAACCATTACCTATTACATT
1 ATATAACGA-TACCTATTACATT
15533 ATA-AACGATACCTATTACATT
1 ATATAACGATACCTATTACATT
* * *
15554 ATATAAGGGCTACCTATTACATC
1 ATATAA-CGATACCTATTACATT
15577 ATAT
1 ATAT
15581 GTTTACCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.38
22 6 0.14
23 20 0.48
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (22 bp):
ATATAACGATACCTATTACATT
Found at i:16394 original size:23 final size:21
Alignment explanation
Indices: 16346--16406 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
16336 ATATAACCAT
16346 TACCTATTACATTATATAAAC
1 TACCTATTACATTATATAAAC
* *
16367 GACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAA--AC
*
16390 TACCTATTACATCATAT
1 TACCTATTACATTATAT
16407 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 18 0.53
23 16 0.47
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (21 bp):
TACCTATTACATTATATAAAC
Found at i:16803 original size:23 final size:23
Alignment explanation
Indices: 16775--16834 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
16765 ATAACCATTA
16775 CTATTACATTATATAAACGATAC
1 CTATTACATTATATAAACGATAC
** *
16798 CTATTACATTATATAAGGGCTAC
1 CTATTACATTATATAAACGATAC
*
16821 CTATTACATCATAT
1 CTATTACATTATAT
16835 GTTACCTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAC
Found at i:19692 original size:183 final size:184
Alignment explanation
Indices: 19384--20232 Score: 1578
Period size: 183 Copynumber: 4.6 Consensus size: 184
19374 AAATGGTATA
* *
19384 GACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
19449 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
19514 TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACA-TTTTCTTCCAATATG
131 TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
*
19567 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAG
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
19632 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
19697 TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
131 TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
*
19751 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAT
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
19816 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
*
19881 TGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCC-ATATG
131 TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
* *
19934 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTGGCTCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
*
19999 ACCGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
20064 TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
131 TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
*
20118 GACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAG
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
**
20182 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
20233 ATGTTGAAAG
Statistics
Matches: 648, Mismatches: 16, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
183 428 0.66
184 220 0.34
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
Found at i:20057 original size:367 final size:367
Alignment explanation
Indices: 19384--20232 Score: 1576
Period size: 367 Copynumber: 2.3 Consensus size: 367
19374 AAATGGTATA
* *
19384 GACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
19449 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
19514 TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTTCCAATATGGACATAAAGTAC
131 TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTTCCAATATGGACATAAAGTAC
*
19579 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTT
196 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTT
19644 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCG
261 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCG
19709 ACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
326 ACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
*
19751 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAT
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
19816 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
*
19881 TGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCC-ATATGGACATAAAGTA
131 TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACA-TTTTCTTCCAATATGGACATAAAGTA
* *
19945 CCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTGGCTCATAAAACCGGTATATT
195 CCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATT
*
20010 TATACCGGTTATATTATAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTC
260 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTC
20075 GACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
325 GACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
*
20118 GACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAG
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
**
20182 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
20233 ATGTTGAAAG
Statistics
Matches: 470, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
366 88 0.19
367 373 0.79
368 9 0.02
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (367 bp):
GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTTCCAATATGGACATAAAGTAC
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCG
ACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
Found at i:21689 original size:3 final size:3
Alignment explanation
Indices: 21681--21767 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
21671 ACTTGTTTGG
* * * **
21681 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
21729 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
21768 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:21704 original size:18 final size:18
Alignment explanation
Indices: 21681--21782 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
21671 ACTTGTTTGG
21681 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
21699 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
21717 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
21735 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
21753 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
21771 AGCTTCATCTTC
1 ATCATCATCTTC
21783 TGCGACTGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:21748 original size:42 final size:42
Alignment explanation
Indices: 21689--21779 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
21679 GGATCATCAT
*
21689 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
21731 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
21773 CTTCATC
1 CTTCATC
21780 TTCTGCGACT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:23599 original size:197 final size:197
Alignment explanation
Indices: 23223--24618 Score: 2409
Period size: 193 Copynumber: 7.1 Consensus size: 197
23213 TTTAAATTAG
* * *
23223 TATCGACACAAAATATATTAGTGTCGACAC-TTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
23287 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
23352 CGACAC-GTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTTAATTCATTCTGGAAA
130 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTG-TTTTTAATTCATTCTGGAAA
23416 AAAA
194 AAAA
*
23420 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
23485 ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
23550 GACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 GACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
23615 AA
196 AA
23617 TATCGACACAAAC--TA-TAGTGTCGACACATTATTT-GACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
23678 ATTGTACCGGTTAGATTGAAAAATTAC--ATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
23741 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
130 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCT-GGAA
23806 AAAAA
193 AAAAA
23811 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
23876 ATTGTACCGGTTAGCTTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
23941 GACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 GACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
24006 AA
196 AA
24008 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
** *
24072 ATTGTACCGGTTAGATT-AAAAAAACATATT--ATTATACTTTGGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
24134 GACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 GACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGG-AAAA
24199 AAA
195 AAA
*
24202 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
24267 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
24332 CGACAC-TTTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTT-ATTCATTCTGGAAAA
130 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
24394 AAA
195 AAA
*
24397 TATCCACACAAAC--TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
24460 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
24524 CGACAC-TTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
130 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
24587 AAA
195 AAA
*
24590 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
24619 TGACCCTTAA
Statistics
Matches: 1153, Mismatches: 24, Indels: 46
0.94 0.02 0.04
Matches are distributed among these distances:
192 96 0.08
193 318 0.28
194 65 0.06
195 116 0.10
196 84 0.07
197 210 0.18
198 186 0.16
199 78 0.07
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
AA
Found at i:23962 original size:391 final size:391
Alignment explanation
Indices: 23223--24618 Score: 2406
Period size: 391 Copynumber: 3.6 Consensus size: 391
23213 TTTAAATTAG
* * *
23223 TATCGACACAAAATATATTAGTGTCGACAC-TTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACAC-AAA-CTATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
23287 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
64 ATTGTACCGGTTAGATTGAAAAATTACA-ATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
23352 CGACACGTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTTAATTCATTCTGGAAAA
128 CGACACTTTTATATATGGATCGACACTTTATGGATGCACCTTG-TTTTTAATTCATTCTGGAAAA
* *
23417 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
192 AAATATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
23482 ATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
257 ATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
23547 ATCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAA
322 ATCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAA
23612 AAAAA
387 AAAAA
23617 TATCGACACAAACTA-TAGTGTCGACACATTATTT-GACTTATTCTCTCATAAAACCGGTATAAT
1 TATCGACACAAACTATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAAT
23680 TGTACCGGTTAGATTGAAAAATTAC-ATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGA
66 TGTACCGGTTAGATTGAAAAATTACAATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGA
*
23744 CACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAA
131 CAC--TTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCT-GGAAAAA
*
23809 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
193 AATATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
*
23874 TAATTGTACCGGTTAGCTTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
258 TAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
23939 TCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAA
323 TCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAA
24004 AAAA
388 AAAA
24008 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
24072 ATTGTACCGGTTAGATT-AAAAA-AACATATT--ATTATACTTTGGGGTTCGATGATTTTGGGAT
64 ATTGTACCGGTTAGATTGAAAAATTACA-ATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
24133 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
128 CGACAC-TTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGG-AAA
24198 AAAATATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
191 AAAATATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
*
24263 TATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTG
256 TATAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
24328 GGATCGACAC-TTTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTT-ATTCATTCTGG
320 GGATCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGG
24390 AAAAAAA
385 AAAAAAA
*
24397 TATCCACACAAACTATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAAT
1 TATCGACACAAACTATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAAT
*
24462 TGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGATCG
66 TGTACCGGTTAGATTGAAAAATTACA-ATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
*
24526 ACACTTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAAAA
130 ACACTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAAAAA
24590 TATCGACACAAACTATATTAGTATCGACA
195 TATCGACACAAACTATATTAGTATCGACA
24619 TGACCCTTAA
Statistics
Matches: 968, Mismatches: 17, Indels: 40
0.94 0.02 0.04
Matches are distributed among these distances:
388 103 0.11
389 106 0.11
390 86 0.09
391 484 0.50
392 106 0.11
393 27 0.03
394 56 0.06
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (391 bp):
TATCGACACAAACTATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAAT
TGTACCGGTTAGATTGAAAAATTACAATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGA
CACTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAAAAAT
ATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
TTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
ACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAA
A
Found at i:24719 original size:19 final size:19
Alignment explanation
Indices: 24692--24736 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
24682 TATTCACATA
*
24692 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
24711 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
24730 AAAATTA
1 AAAATTA
24737 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:26547 original size:32 final size:31
Alignment explanation
Indices: 26505--26564 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
26495 TTAATATCAC
*
26505 CCCTTAACACCGAAACTTCTTTCACCACTTCA
1 CCCTCAACACCGAAAC-TCTTTCACCACTTCA
***
26537 CCCTCAACACCTCTACTCTTTCACCACT
1 CCCTCAACACCGAAACTCTTTCACCACT
26565 CCATCTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 12 0.50
32 12 0.50
ACGTcount: A:0.25, C:0.45, G:0.02, T:0.28
Consensus pattern (31 bp):
CCCTCAACACCGAAACTCTTTCACCACTTCA
Found at i:28861 original size:20 final size:20
Alignment explanation
Indices: 28832--28869 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
28822 GGTATCATTT
*
28832 TACCGTTTTTATCATTTTGA
1 TACCGGTTTTATCATTTTGA
28852 TACCGGTTTTATCATTTT
1 TACCGGTTTTATCATTTT
28870 TACTGTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (20 bp):
TACCGGTTTTATCATTTTGA
Found at i:29037 original size:20 final size:21
Alignment explanation
Indices: 28993--29038 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
28983 CACTTTTAAA
28993 TTACCGGTTTTAATCATTTTG
1 TTACCGGTTTTAATCATTTTG
29014 TTACCGGTTTT-ATCATATTT-
1 TTACCGGTTTTAATCAT-TTTG
29034 TTACC
1 TTACC
29039 TGGTATCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (21 bp):
TTACCGGTTTTAATCATTTTG
Found at i:29505 original size:222 final size:220
Alignment explanation
Indices: 29100--29529 Score: 674
Period size: 222 Copynumber: 1.9 Consensus size: 220
29090 ATTAAACTGC
29100 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
*
29165 TTAATTTAATAATTTAATTTACACAATTTATTTGATTGTTTTGATATTTATAAAATATTATTTAG
66 TTAATTTAATAATTTAATTTACACAAATTATTTGATTGTTTTGATATTTATAAAATATTATTTAG
* * *
29230 CATTTAAATTTAACAATATTAACCAAATAAATAATAATATGTTTTCAACAGTGAAATAAGTATGG
131 CACTTAAATTTAACAATATTAACCAAAGAAATAATAATATATTTTCAACAGTGAAAT-AGTATGG
29295 ACACTTTTATAAAATGATATATACTT
195 ACACTTTTATAAAATGATATATACTT
29321 TTTTGAAAGTTATGTAATTTATGTTTCAAATTT-TTTAATAGTGTTTCATGTTTTCCACCTACAA
1 TTTT-AAAGTTATGTAATTTATGTTTC-AATTTATTTAATAGTGTTTCATGTTTTCCACCTACAA
*
29385 TATTAATTTAATAA-TTCATTTACACAAAAAATTATTTGATTGTTTTGATATTT-TATAAATATT
64 TATTAATTTAATAATTTAATTTACAC---AAATTATTTGATTGTTTTGATATTTATA-AAATATT
* * *
29448 ATTTAG-ACTTATTATTTAACAATATTAACTAAAGATATAATAATA-ATTTTC-ACAGTGAAATA
125 ATTTAGCACTTA-AATTTAACAATATTAACCAAAGAAATAATAATATATTTTCAACAGTGAAATA
29510 GTATGGACACTTTTATAAAA
189 GTATGGACACTTTTATAAAA
29530 AGGATAGATA
Statistics
Matches: 194, Mismatches: 8, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
221 35 0.18
222 77 0.40
223 16 0.08
224 66 0.34
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (220 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAATTATTTGATTGTTTTGATATTTATAAAATATTATTTAG
CACTTAAATTTAACAATATTAACCAAAGAAATAATAATATATTTTCAACAGTGAAATAGTATGGA
CACTTTTATAAAATGATATATACTT
Found at i:30932 original size:45 final size:45
Alignment explanation
Indices: 30868--30972 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
30858 TTTGCAGTCC
**
30868 CTCTCTC-CTCTCTCTAG-CCCTATGTAATGCTTTGCATGCTGCTT
1 CTCTCTCTCTCTCTCTAGCCCCTATGTAATGC-TTAAATGCTGCTT
*
30912 TTCTCTCTCTCTCTCTAGCCCCTATGTAATGCTTAAATGCTGCTT
1 CTCTCTCTCTCTCTCTAGCCCCTATGTAATGCTTAAATGCTGCTT
30957 CTCTCTCTCTCTCTCT
1 CTCTCTCTCTCTCTCT
30973 CCAAATCCTA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
44 6 0.11
45 36 0.65
46 13 0.24
ACGTcount: A:0.11, C:0.35, G:0.10, T:0.43
Consensus pattern (45 bp):
CTCTCTCTCTCTCTCTAGCCCCTATGTAATGCTTAAATGCTGCTT
Found at i:31787 original size:101 final size:101
Alignment explanation
Indices: 31673--31872 Score: 364
Period size: 101 Copynumber: 2.0 Consensus size: 101
31663 AAAATATCTA
* *
31673 TAAGATTTCGTGTTGTCACTGTTATATCTTAAAGGAACTAAAATTGAAGTTTAGATCTTTTCTCA
1 TAAGATTTCGTGTTGTCACTGTTACATCTTAAAGGAACTAAAATTGAAGTTTAGATATTTTCTCA
31738 TTTAATATACATTGATTTGTTGATATTGAAAATGGT
66 TTTAATATACATTGATTTGTTGATATTGAAAATGGT
* *
31774 TAAGATTTCGTGTTGTCACTGTTACATCTTAAATGAATTAAAATTGAAGTTTAGATATTTTCTCA
1 TAAGATTTCGTGTTGTCACTGTTACATCTTAAAGGAACTAAAATTGAAGTTTAGATATTTTCTCA
31839 TTTAATATACATTGATTTGTTGATATTGAAAATG
66 TTTAATATACATTGATTTGTTGATATTGAAAATG
31873 ATACATTTAT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 95 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.44
Consensus pattern (101 bp):
TAAGATTTCGTGTTGTCACTGTTACATCTTAAAGGAACTAAAATTGAAGTTTAGATATTTTCTCA
TTTAATATACATTGATTTGTTGATATTGAAAATGGT
Found at i:31871 original size:54 final size:54
Alignment explanation
Indices: 31712--31871 Score: 133
Period size: 54 Copynumber: 3.1 Consensus size: 54
31702 TAAAGGAACT
*
31712 AAAATTGAAGTTTAGATCTTTTCTCATTTAATATACATTGATTTGTTGATATTG
1 AAAATTGAAGTTTAGATATTTTCTCATTTAATATACATTGATTTGTTGATATTG
* * * * * * ***
31766 AAAA-TG--GTTAAGATTTCGTGTTGTCA-CT-GT-TACA-T-CTTAAATGA-ATT-
1 AAAATTGAAGTTTAGATAT--T-TTCTCATTTAATATACATTGATTTGTTGATATTG
31813 AAAATTGAAGTTTAGATATTTTCTCATTTAATATACATTGATTTGTTGATATTG
1 AAAATTGAAGTTTAGATATTTTCTCATTTAATATACATTGATTTGTTGATATTG
31867 AAAAT
1 AAAAT
31872 GATACATTTA
Statistics
Matches: 75, Mismatches: 18, Indels: 26
0.63 0.15 0.22
Matches are distributed among these distances:
47 9 0.12
48 7 0.09
49 6 0.08
50 13 0.17
51 13 0.17
52 6 0.08
53 7 0.09
54 14 0.19
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (54 bp):
AAAATTGAAGTTTAGATATTTTCTCATTTAATATACATTGATTTGTTGATATTG
Found at i:32538 original size:46 final size:46
Alignment explanation
Indices: 32471--32577 Score: 180
Period size: 46 Copynumber: 2.3 Consensus size: 46
32461 TTTGCAGTCC
**
32471 CTCTCTC-CTCTCTCTAGCCCCTATGTAATGCTTTGCATGCTGCTT
1 CTCTCTCTCTCTCTCTAGCCCCTATGTAATGCTTTAAATGCTGCTT
*
32516 TTCTCTCTCTCTCTCTAGCCCCTATGTAATGCTTTAAATGCTGCTT
1 CTCTCTCTCTCTCTCTAGCCCCTATGTAATGCTTTAAATGCTGCTT
32562 CTCTCTCTCTCTCTCT
1 CTCTCTCTCTCTCTCT
32578 CTCTCCAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 6 0.11
46 51 0.89
ACGTcount: A:0.11, C:0.36, G:0.10, T:0.43
Consensus pattern (46 bp):
CTCTCTCTCTCTCTCTAGCCCCTATGTAATGCTTTAAATGCTGCTT
Done.