Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004066.1 Hibiscus syriacus cultivar Beakdansim tig00008895_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: 96956
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:1232 original size:20 final size:20
Alignment explanation
Indices: 1204--1252 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1194 AAGGAGGTAG
* *
1204 TATCAATACTGACACATCAA
1 TATCGATACTGACACAGCAA
* *
1224 TATCGATACTGACTCAGGAA
1 TATCGATACTGACACAGCAA
1244 TATCGATAC
1 TATCGATAC
1253 CCCTACTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (20 bp):
TATCGATACTGACACAGCAA
Found at i:2846 original size:23 final size:24
Alignment explanation
Indices: 2808--2868 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
2798 TTTAGATAAG
*
2808 AATAATATATATTTTT-TTAAATT
1 AATAATAAATATTTTTATTAAATT
2831 AA-AATAAAATATTTTTAATTAAATT
1 AATAAT-AAATATTTTT-ATTAAATT
2856 AATAATAAATATT
1 AATAATAAATATT
2869 AATAAGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 3 0.09
23 11 0.33
25 16 0.48
26 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATAATAAATATTTTTATTAAATT
Found at i:2847 original size:21 final size:21
Alignment explanation
Indices: 2821--2862 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2811 AATATATATT
2821 TTTTTAAATTAAAATAA-AATA
1 TTTTT-AATTAAAATAATAATA
*
2842 TTTTTAATTAAATTAATAATA
1 TTTTTAATTAAAATAATAATA
2863 AATATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTAATTAAAATAATAATA
Found at i:2887 original size:22 final size:22
Alignment explanation
Indices: 2845--2890 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2835 TAAAATATTT
*
2845 TTAATTAAATTAATAATAAATA
1 TTAATTAAATTAATAAGAAATA
*
2867 TTAA-TAAGTTAATATAGAAATA
1 TTAATTAAATTAATA-AGAAATA
2889 TT
1 TT
2891 TTTTAGAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
TTAATTAAATTAATAAGAAATA
Found at i:3393 original size:20 final size:21
Alignment explanation
Indices: 3331--3403 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
3321 TTCATAATTT
3331 GCAATGCGAATTAGGAAAATC
1 GCAATGCGAATTAGGAAAATC
*
3352 GTAATGCGAATTAGGAAAATC
1 GCAATGCGAATTAGGAAAATC
* *
3373 GCAATGCGAA-TACGTAAATC
1 GCAATGCGAATTAGGAAAATC
3393 GCAATGCGAAT
1 GCAATGCGAAT
3404 CTGACTATCG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
20 18 0.38
21 29 0.62
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (21 bp):
GCAATGCGAATTAGGAAAATC
Found at i:3892 original size:20 final size:20
Alignment explanation
Indices: 3842--3894 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
3832 TCGCGTTGCG
*
3842 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCAATAGTC
* **
3862 ATT-TCCGCGTTGCAATTTTC
1 ATTCT-CTCGTTGCAATAGTC
3882 ATTCTCTCGTTGC
1 ATTCTCTCGTTGC
3895 GGTTTCATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.43
Consensus pattern (20 bp):
ATTCTCTCGTTGCAATAGTC
Found at i:5751 original size:94 final size:94
Alignment explanation
Indices: 5593--5967 Score: 620
Period size: 94 Copynumber: 4.1 Consensus size: 94
5583 TAGATTGCTT
* *
5593 AGTAAATTTATTC-GTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
5653 ATTTGTCTTTTGTTTTATCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
5682 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
5747 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
5776 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
5841 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
5870 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
5935 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
5963 AGTAA
1 AGTAA
5968 TGCAATCCAT
Statistics
Matches: 273, Mismatches: 7, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
89 13 0.05
90 21 0.08
92 3 0.01
93 27 0.10
94 209 0.77
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:6087 original size:20 final size:20
Alignment explanation
Indices: 6062--6099 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6052 GGTTGAAATG
6062 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
6082 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
6100 TATAATCGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.29, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAATCGCAACGCGAAACCA
Found at i:6125 original size:14 final size:14
Alignment explanation
Indices: 6108--6148 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
6098 ACTATAATCG
*
6108 CGTTGCGATTTTGT
1 CGTTGCGATTTTCT
*
6122 CGTTGCGATTCTCT
1 CGTTGCGATTTTCT
6136 CGTTGCGATTTTC
1 CGTTGCGATTTTC
6149 ATTTCGCGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.07, C:0.22, G:0.24, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTTTCT
Found at i:6160 original size:19 final size:20
Alignment explanation
Indices: 6136--6187 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
6126 GCGATTCTCT
*
6136 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCA
**
6155 CGTTGCGATAGTCATTTTTCA
1 CGTTGCGATTTTCA-TTTTCA
6176 CGTTGCGATTTT
1 CGTTGCGATTTT
6188 AAGTTCCAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.46
21 14 0.54
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCA
Found at i:6644 original size:42 final size:42
Alignment explanation
Indices: 6584--6706 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
6574 GCCCGACTCG
* * *
6584 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
6626 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
6668 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
6707 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:6664 original size:21 final size:21
Alignment explanation
Indices: 6640--6706 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
6630 TCATTCCTCG
6640 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
6661 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
6682 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
6703 AGAG
1 AGAG
6707 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:8089 original size:14 final size:14
Alignment explanation
Indices: 8070--8105 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
8060 ATTGTTTAAT
8070 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
8084 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
8098 TGATTTGT
1 TGATTTGT
8106 TTAATTGATG
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:8258 original size:31 final size:32
Alignment explanation
Indices: 8215--8303 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 32
8205 AATGACTATT
* * *
8215 GCAATGCGAAATGAAAATCGCAACG-AGAGTC
1 GCAACGCGAAATGAAAATCGCAACGAAAAATC
8246 GCAACGCGAAATGAAAATCGCAACGACAAAATC
1 GCAACGCGAAATGAAAATCGCAACGA-AAAATC
*
8279 GTAACGCGAAACT-AAAATCGCAACG
1 GCAACGCGAAA-TGAAAATCGCAACG
8304 CGAATCAACG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.47
33 26 0.51
34 1 0.02
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.11
Consensus pattern (32 bp):
GCAACGCGAAATGAAAATCGCAACGAAAAATC
Found at i:8268 original size:19 final size:18
Alignment explanation
Indices: 8244--8307 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
8234 GCAACGAGAG
8244 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAAT-AAAA
*
8263 TCGCAA--CG--ACAAAA
1 TCGCAACGCGAAATAAAA
*
8277 TCGTAACGCGAAACTAAAA
1 TCGCAACGCGAAA-TAAAA
8296 TCGCAACGCGAA
1 TCGCAACGCGAA
8308 TCAACGCGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.11
Consensus pattern (18 bp):
TCGCAACGCGAAATAAAA
Found at i:8296 original size:33 final size:29
Alignment explanation
Indices: 8247--8328 Score: 94
Period size: 33 Copynumber: 2.7 Consensus size: 29
8237 ACGAGAGTCG
8247 CAACGCGAAA-TGAAAATCGCAACGACAAAAT
1 CAACGCGAAACT-AAAATCGCAACG-C-AAAT
*
8278 CGTAACGCGAAACTAAAATCGCAACGCGAAT
1 C--AACGCGAAACTAAAATCGCAACGCAAAT
*
8309 CAACGCGAAACTAAATTCGC
1 CAACGCGAAACTAAAATCGC
8329 GTTGCGATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
29 18 0.39
31 5 0.11
32 1 0.02
33 21 0.46
34 1 0.02
ACGTcount: A:0.45, C:0.26, G:0.17, T:0.12
Consensus pattern (29 bp):
CAACGCGAAACTAAAATCGCAACGCAAAT
Found at i:8388 original size:20 final size:19
Alignment explanation
Indices: 8342--8396 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
8332 GCGATTCCCT
**
8342 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
8361 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
8381 CGTTGCGATAGACATT
1 CGTTGCGATAGTCATT
8397 AAGATGATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:8435 original size:20 final size:20
Alignment explanation
Indices: 8363--8435 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
8353 TCATTTCGCA
** *
8363 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTAAGTG
*
8383 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTAAG-TG
**
8403 ATTGCGA-ACGTCATTTTTGTG
1 -TTGCGATA-GTCATTTAAGTG
8424 TTGCGATAGTCA
1 TTGCGATAGTCA
8436 AATGATTTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 12 0.29
22 3 0.07
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTAAGTG
Found at i:10941 original size:24 final size:24
Alignment explanation
Indices: 10907--10960 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
10897 CTGAAAAATC
10907 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
10931 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
10955 ATCAAA
1 ATCAAA
10961 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:10974 original size:24 final size:24
Alignment explanation
Indices: 10907--10974 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
10897 CTGAAAAATC
* * *
10907 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
10931 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
10955 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
10975 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:11882 original size:41 final size:41
Alignment explanation
Indices: 11831--12029 Score: 292
Period size: 41 Copynumber: 4.8 Consensus size: 41
11821 GCGATTTACT
11831 AAATCGCAATGCGATTACGTAAATCG-AAGTGCGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAA-TGCGAATTAGGA
* **
11872 AAATCGCAATGTGATTACGTAAATCATAATGCGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
*
11913 AAATCGCAATGCGGTTACGTAAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
*
11954 AAATCGCAATGCGGTTACGTAAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* ** *
11995 AAATCGCAACGCGAATTTGGGAAATCGCAATGCGA
1 AAATCGCAATGCG-ATTACGTAAATCGCAATGCGA
12030 TAGTCAGAAT
Statistics
Matches: 145, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
41 126 0.87
42 19 0.13
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (41 bp):
AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
Found at i:12001 original size:21 final size:21
Alignment explanation
Indices: 11831--12029 Score: 210
Period size: 21 Copynumber: 9.7 Consensus size: 21
11821 GCGATTTACT
* *
11831 AAATCGCAATGCG-ATTACGT
1 AAATCGCAATGCGAATTAGGA
11851 AAATCG-AAGTGCGAATTAGGA
1 AAATCGCAA-TGCGAATTAGGA
* * *
11872 AAATCGCAATGTG-ATTACGT
1 AAATCGCAATGCGAATTAGGA
**
11892 AAATCATAATGCGAATTAGGA
1 AAATCGCAATGCGAATTAGGA
* * *
11913 AAATCGCAATGCG-GTTACGT
1 AAATCGCAATGCGAATTAGGA
11933 AAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGAATTAGGA
* * *
11954 AAATCGCAATGCG-GTTACGT
1 AAATCGCAATGCGAATTAGGA
11974 AAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGAATTAGGA
* * *
11995 AAATCGCAACGCGAATTTGGG
1 AAATCGCAATGCGAATTAGGA
12016 AAATCGCAATGCGA
1 AAATCGCAATGCGA
12030 TAGTCAGAAT
Statistics
Matches: 145, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 59 0.41
21 82 0.57
22 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (21 bp):
AAATCGCAATGCGAATTAGGA
Found at i:12058 original size:62 final size:62
Alignment explanation
Indices: 11831--12028 Score: 197
Period size: 62 Copynumber: 3.2 Consensus size: 62
11821 GCGATTTACT
* * * *
11831 AAATCGCAATGC-GATTACGTAAATCG-AAGTGCGAATTAGGAAAATCGCAATGTG-ATTACGT
1 AAATCGCAATGCGGA-TACGTAAATCGCAA-TGCGAATTAGGAAAATCGCAACGCGAATTAGGA
** * * * * * * *
11892 AAATCATAATGCGAATTAGGAAAATCGCAATGCG-GTTACGTAAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGGA-TACGTAAATCGCAATGCGAATTAGGAAAATCGCAACGCGAATTAGGA
* * *
11954 AAATCGCAATGCGGTTACGTAAATCGCAATGCGAATTAGGAAAATCGCAACGCGAATTTGGG
1 AAATCGCAATGCGGATACGTAAATCGCAATGCGAATTAGGAAAATCGCAACGCGAATTAGGA
12016 AAATCGCAATGCG
1 AAATCGCAATGCG
12029 ATAGTCAGAA
Statistics
Matches: 110, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
61 42 0.38
62 66 0.60
63 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (62 bp):
AAATCGCAATGCGGATACGTAAATCGCAATGCGAATTAGGAAAATCGCAACGCGAATTAGGA
Found at i:23009 original size:2 final size:2
Alignment explanation
Indices: 23002--23030 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22992 TGTTAAAATT
23002 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23031 CGCTTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31215 original size:2 final size:2
Alignment explanation
Indices: 31208--31253 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
31198 GTTCATTTGC
* * *
31208 AG AG AG AG AG AG AG AG -G GG AG AG GG AG GG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
31249 A- AG AG
1 AG AG AG
31254 GTTCTTGACC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35642 original size:19 final size:19
Alignment explanation
Indices: 35619--35661 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
35609 TCCTATTTGT
35619 ATATTCACGTAATATTTTC
1 ATATTCACGTAATATTTTC
*
35638 GTATTCACGTAATATTTTC
1 ATATTCACGTAATATTTTC
35657 ATATT
1 ATATT
35662 GACTACCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.49
Consensus pattern (19 bp):
ATATTCACGTAATATTTTC
Found at i:35798 original size:14 final size:14
Alignment explanation
Indices: 35779--35808 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
35769 CCTACCGATA
35779 CTAGCTCATACCCT
1 CTAGCTCATACCCT
35793 CTAGCTCATACCCT
1 CTAGCTCATACCCT
35807 CT
1 CT
35809 TGAAAGCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.43, G:0.07, T:0.30
Consensus pattern (14 bp):
CTAGCTCATACCCT
Found at i:41913 original size:2 final size:2
Alignment explanation
Indices: 41906--41936 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
41896 TCCTACATTC
*
41906 AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41937 CACACACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:43918 original size:12 final size:11
Alignment explanation
Indices: 43893--43949 Score: 64
Period size: 12 Copynumber: 5.1 Consensus size: 11
43883 CCGAGTTTTA
*
43893 TATTTATATTTT
1 TATTTAT-TATT
43905 TATTGTATTATT
1 TATT-TATTATT
43917 TATTTATTTATT
1 TATTTA-TTATT
43929 TATTTATTA-T
1 TATTTATTATT
43939 TA-TTATTATT
1 TATTTATTATT
43949 T
1 T
43950 CTTTTATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
9 6 0.15
10 5 0.12
11 5 0.12
12 22 0.54
13 3 0.07
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (11 bp):
TATTTATTATT
Found at i:43921 original size:4 final size:4
Alignment explanation
Indices: 43893--43936 Score: 56
Period size: 4 Copynumber: 11.0 Consensus size: 4
43883 CCGAGTTTTA
43893 TATT TATAT T-TT TATT GTA-T TATT TATT TATT TATT TATT TATT
1 TATT TAT-T TATT TATT -TATT TATT TATT TATT TATT TATT TATT
43937 ATTATTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 4 0.11
4 28 0.78
5 4 0.11
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:43922 original size:16 final size:15
Alignment explanation
Indices: 43903--43949 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
43893 TATTTATATT
43903 TTTATTGTATTATTTA
1 TTTATT-TATTATTTA
43919 TTTATTTATTTATTTA
1 TTTATTTA-TTATTTA
43935 -TTA-TTATTA-TTA
1 TTTATTTATTATTTA
43947 TTT
1 TTT
43950 CTTTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.10
13 5 0.17
14 3 0.10
15 5 0.17
16 13 0.45
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTATTTATTATTTA
Found at i:49288 original size:106 final size:106
Alignment explanation
Indices: 49124--50287 Score: 1981
Period size: 106 Copynumber: 11.0 Consensus size: 106
49114 TTTGCCCGTT
* *
49124 AGCCAATTTCAA-TTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
49188 AAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
* *
49229 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
49294 AAGGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
*
49335 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
49400 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
49441 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
**
49506 AAGGGACCGCTGGTTGTCAACAAACAACTTCTTAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
*
49547 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
49612 AAGGGACCGCTGGTTGTCAAAAAACAACTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
*
49653 AGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * * *
49718 AAGGGGCCGCTGGTTGTCAATAAACAATTTCCCGATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
* *
49759 AGCCAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * *
49824 AATGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
49865 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-AGC
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA-C
* *
49929 GAAGGGACCGCTGGTTGTCAACAAACAATTTCCCGATTTCAG
65 GAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
49971 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
50036 AAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
* *
50077 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCATGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * *
50142 AAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
*
50183 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
50248 AAGGGACCGCTGGTTGTCAATAAACAACTTCCCAACTTCA
66 AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA
50288 CAGCGAAGGA
Statistics
Matches: 1001, Mismatches: 55, Indels: 5
0.94 0.05 0.00
Matches are distributed among these distances:
105 13 0.01
106 987 0.99
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
AAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
Found at i:49515 original size:212 final size:212
Alignment explanation
Indices: 49124--50714 Score: 2299
Period size: 212 Copynumber: 7.7 Consensus size: 212
49114 TTTGCCCGTT
* * *
49124 AGCCAATTTCAA-TTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
* *
49188 AAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAA
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
* *
49253 GGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAA
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
*
49318 TAACTTCCCAATTTCAG
196 CAACTTCCCAATTTCAG
*
49335 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
49400 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
49465 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
**
49530 CAACTTCTTAATTTCAG
196 CAACTTCCCAATTTCAG
49547 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
* * *
49612 AAGGGACCGCTGGTTGTCAAAAAACAACTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAA
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
* *
49677 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAATAAA
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
* *
49742 CAATTTCCCGATTTCAG
196 CAACTTCCCAATTTCAG
*
49759 AGCCAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
* * * *
49824 AATGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
49889 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-AGCGAAGGGACCGCTGGTTGTCAACAA
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAA
* *
49953 ACAATTTCCCGATTTCAG
195 ACAACTTCCCAATTTCAG
*
49971 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
* * *
50036 AAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
* * *
50101 GGATATTGGACTCCAGACAATGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAA
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
* *
50166 TAATTTCCCAATTTCAG
196 CAACTTCCCAATTTCAG
50183 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
*
50248 AAGGGACCGCTGGTTGTCAATAAACAA-----C---TT-----CC-----CAACTTCACAGCGAA
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
* * * *
50295 GGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGATCTCTGGTTGTCAATAAA
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
50360 CAACTTCCCAATTTCA-
196 CAACTTCCCAATTTCAG
* * * *
50376 A--C---TT---C-T--CAGCGAAGGATCTTGGAC-CTAAGATAACACAAGCTCAACTTCACGAC
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC-AAGACAACGCAAGTTCAACTTCACGAC
* * * * *
50429 GAAGGGGCGGCTGATTGTCAA-TAA-AATTT--C-A-TTCAGAGTCAATTTCAACTTCACAGCGA
65 GAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGA
* * * * * * *
50488 ATGATATTAGACTCGAGACAGCACAAGTTCAACTTCACAAACGAAGGGACGGCTGGTTGTCAACA
130 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-GACGAAGGGACCGCTGGTTGTCAACA
50553 AACAACTTCCCAATTTCAG
194 AACAACTTCCCAATTTCAG
* * *
50572 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
* ** * *
50637 AAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCAC-GACGG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGA
50701 AGGATATTGGACTC
130 AGGATATTGGACTC
50715 AGAACAATGC
Statistics
Matches: 1262, Mismatches: 79, Indels: 76
0.89 0.06 0.05
Matches are distributed among these distances:
180 2 0.00
181 3 0.00
182 59 0.05
183 1 0.00
184 3 0.00
185 1 0.00
188 2 0.00
189 1 0.00
191 1 0.00
193 1 0.00
194 136 0.11
195 39 0.03
196 1 0.00
198 1 0.00
199 2 0.00
201 2 0.00
204 3 0.00
205 1 0.00
207 60 0.05
208 3 0.00
209 5 0.00
211 14 0.01
212 885 0.70
213 36 0.03
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (212 bp):
AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
CAACTTCCCAATTTCAG
Found at i:49730 original size:318 final size:318
Alignment explanation
Indices: 49124--50714 Score: 2317
Period size: 318 Copynumber: 5.1 Consensus size: 318
49114 TTTGCCCGTT
* *
49124 AGCCAATTTCAA-TTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
49188 AAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAA
66 AAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
49253 GGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAA
131 GGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAA
* *
49318 TAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAACGCA
196 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
49383 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
261 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
49441 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* **
49506 AAGGGACCGCTGGTTGTCAACAAACAACTTCTTAATTTCAGAGCCAATTTCAACTTCACAGCGAA
66 AAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
49571 GGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAA
131 GGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAA
*
49636 CAACTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
196 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
49701 AGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAATAAACAATTTCCCGATTTCAG
261 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
* *
49759 AGCCAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * *
49824 AATGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
66 AAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
* *
49889 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-AGCGAAGGGACCGCTGGTTGTCAACAA
131 GGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAAAAA
* *
49953 ACAATTTCCCGATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
195 ACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
* * *
50018 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTCAG
260 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
* *
50077 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCATGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
50142 AAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
66 AAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
*
50207 GGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
131 GGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAA
*
50272 CAA-----C---TT-----CC-----CAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
196 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
50319 AGTTCAACTTCACGACGAAGGGATCTCTGGTTGTCAATAAACAA-----C---TTC--
261 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
* * * * * *
50367 --CCAATTTCAACTTCTCAGCGAAGGATCTTGGAC-CTAAGATAACACAAGCTCAACTTCACGAC
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC-CAGACAACGCAAGTTCAACTTCACGAC
* * * * *
50429 GAAGGGGCGGCTGATTGTCAAT-AA-AA-TT-TC-A-TTCAGAGTCAATTTCAACTTCACAGCGA
65 GAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGA
* * * * * * * *
50488 ATGATATTAGACTCGAGACAGCACAAGTTCAACTTCACAAACGAAGGGACGGCTGGTTGTCAACA
130 AGGATATTGGACTCAAGACAACGCAAGTTCAACTTCAC-GACGAAGGGACCGCTGGTTGTCAAAA
* *
50553 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACA
194 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * ** *
50618 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAG
259 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
*
50678 AGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
1 AGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
50715 AGAACAATGC
Statistics
Matches: 1160, Mismatches: 77, Indels: 77
0.88 0.06 0.06
Matches are distributed among these distances:
282 60 0.05
283 29 0.03
284 1 0.00
285 2 0.00
286 2 0.00
287 3 0.00
288 72 0.06
291 2 0.00
292 3 0.00
295 1 0.00
296 2 0.00
300 78 0.07
301 76 0.07
305 2 0.00
306 1 0.00
309 2 0.00
310 2 0.00
312 1 0.00
313 29 0.03
314 1 0.00
317 13 0.01
318 777 0.67
319 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (318 bp):
AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
AAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAA
GGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAA
CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
Found at i:50251 original size:43 final size:43
Alignment explanation
Indices: 50190--50339 Score: 139
Period size: 43 Copynumber: 3.4 Consensus size: 43
50180 CAGAGCCAAT
50190 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
*** ** * *
50233 TTCAACTTCAC-GACGAAGGGACCGCTGGTTGTCAATA-AA--CAAC
1 TTCAACTTCACAG-CGAA-GGA-TATTGG-ACTCAAGACAACGCAAG
50276 TTCCCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
1 TT--CAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
50321 TTCAACTTCAC-GACGAAGG
1 TTCAACTTCACAG-CGAAGG
50340 GATCTCTGGT
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
42 7 0.09
43 40 0.49
44 6 0.07
45 23 0.28
46 6 0.07
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (43 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
Found at i:50286 original size:45 final size:44
Alignment explanation
Indices: 50235--50375 Score: 112
Period size: 45 Copynumber: 3.2 Consensus size: 44
50225 AACGCAAGTT
*
50235 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
1 CAACTTCACGACGAAGGGA-CACTGGTTGTCAATAAACAACTTCC
* * ** * *
50280 CAACTTCAC-AGCGAA-GGATATTGG-ACTCAAGACAACGCAAGTT--
1 CAACTTCACGA-CGAAGGGACACTGGTTGTCAATA-AA--CAACTTCC
*
50323 CAACTTCACGACGAAGGGATCTCTGGTTGTCAATAAACAACTTCC
1 CAACTTCACGACGAAGGGA-CACTGGTTGTCAATAAACAACTTCC
*
50368 CAATTTCA
1 CAACTTCA
50376 ACTTCTCAGC
Statistics
Matches: 71, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
42 5 0.07
43 23 0.32
44 8 0.11
45 30 0.42
46 5 0.07
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (44 bp):
CAACTTCACGACGAAGGGACACTGGTTGTCAATAAACAACTTCC
Found at i:50429 original size:94 final size:94
Alignment explanation
Indices: 50185--50669 Score: 511
Period size: 88 Copynumber: 5.0 Consensus size: 94
50175 AATTTCAGAG
*
50185 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
*
50250 GGGACCGCTGGTTGTCAATAAACAACTT-
66 GGGACGGCTGGTTGTCAATAAACAACTTC
*
50278 CC-----CAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
*
50338 GGGATC-TCTGGTTGTCAATAAACAACTTC
66 GGGA-CGGCTGGTTGTCAATAAACAACTTC
* * * *
50367 CCAATTTCAACTTCTCAGCGAAGGATCTTGGAC-CTAAGATAACACAAGCTCAACTTCACGACGA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTC-AAGACAACACAAGTTCAACTTCACGACGA
* * *
50431 AGGGGCGGCTGATTGTCAATAAA-ATTTCATTC
65 AGGGACGGCTGGTTGTCAATAAACA--AC-TTC
* * * * * *
50463 AGAGTCAATTTCAACTTCACAGCGAATGATATTAGACTCGAGACAGCACAAGTTCAACTTCACAA
1 ----CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCAC-G
*
50528 ACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTC
61 ACGAAGGGACGGCTGGTTGTCAATAAACAA-----C---TTC
* *
50570 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
1 ----CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGA
* *
50635 CGAAGGGACGGCTGGTTGTCAACAAACAATTTC
62 CGAAGGGACGGCTGGTTGTCAATAAACAACTTC
50668 CC
1 CC
50670 GGTTCCAGAG
Statistics
Matches: 336, Mismatches: 30, Indels: 51
0.81 0.07 0.12
Matches are distributed among these distances:
88 83 0.25
89 3 0.01
93 5 0.01
94 70 0.21
95 1 0.00
96 3 0.01
98 3 0.01
100 48 0.14
101 25 0.07
102 1 0.00
105 1 0.00
106 31 0.09
107 62 0.18
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (94 bp):
CCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
GGGACGGCTGGTTGTCAATAAACAACTTC
Found at i:50695 original size:106 final size:104
Alignment explanation
Indices: 50367--50714 Score: 447
Period size: 106 Copynumber: 3.3 Consensus size: 104
50357 AAACAACTTC
* * * * * *
50367 CCAATTTCAACTTCTCAGCGAAGGATCTTGGAC-CTAAGATAACACAAGCTCAACTTCACGACGA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTC-GAGACAACACAAGTTCAACTTCACAACGA
* * *
50431 AGGGGCGGCTGATTGTCAA-TAA-AATTT--CATTCAGAG
65 AGGGACGGCTGGTTGTCAACAAACAATTTCCCATTCAGAG
* * * *
50467 TCAATTTCAACTTCACAGCGAATGATATTAGACTCGAGACAGCACAAGTTCAACTTCACAAACGA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCAC-AACGA
*
50532 AGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAG
65 AGGGACGGCTGGTTGTCAACAAACAATTTCCC-A-TTCAGAG
50574 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
*
50639 GGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAG
66 GGGACGGCTGGTTGTCAACAAACAATTTCCC-ATT-CAGAG
*
50680 CCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
1 CCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
50715 AGAACAATGC
Statistics
Matches: 216, Mismatches: 22, Indels: 14
0.86 0.09 0.06
Matches are distributed among these distances:
100 48 0.22
101 22 0.10
102 2 0.01
103 4 0.02
105 4 0.02
106 74 0.34
107 62 0.29
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (104 bp):
CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
GGGACGGCTGGTTGTCAACAAACAATTTCCCATTCAGAG
Found at i:51401 original size:12 final size:13
Alignment explanation
Indices: 51381--51439 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 13
51371 TTTGATCGGG
51381 TTTTATATTT-TTA
1 TTTT-TATTTATTA
51394 TTTTTATTGTATTA
1 TTTTTATT-TATTA
51408 --TTTATTTATT-
1 TTTTTATTTATTA
*
51418 TATTTATTTATTA
1 TTTTTATTTATTA
*
51431 TTATTATTT
1 TTTTTATTT
51440 CTTTTATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 4 0.10
12 20 0.51
13 12 0.31
14 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTTATTTATTA
Found at i:51414 original size:4 final size:4
Alignment explanation
Indices: 51396--51429 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
51386 TATTTTTATT
51396 TTTA TTGTA -TTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TT
51430 ATTATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 24 0.86
5 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:51446 original size:9 final size:8
Alignment explanation
Indices: 51381--51452 Score: 54
Period size: 8 Copynumber: 8.5 Consensus size: 8
51371 TTTGATCGGG
*
51381 TTTTATAT
1 TTTTATTT
51389 TTTTATTT
1 TTTTATTT
*
51397 TTATTGTATT
1 TT-TTAT-TT
*
51407 ATTTATTT
1 TTTTATTT
*
51415 ATTTATTT
1 TTTTATTT
*
51423 ATTTATTAT
1 TTTTATT-T
*
51432 TATTATTT
1 TTTTATTT
51440 CTTTTATTT
1 -TTTTATTT
51449 TTTT
1 TTTT
51453 TGCAGGGCCC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
8 31 0.58
9 19 0.36
10 3 0.06
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTTATTT
Found at i:59876 original size:15 final size:15
Alignment explanation
Indices: 59856--59930 Score: 114
Period size: 15 Copynumber: 5.0 Consensus size: 15
59846 TAATAAGGTT
59856 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
59871 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
59886 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
59901 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
59916 AATTATTATAAAATA
1 ATTTATTTTAAAATA
59931 TGGATTGATT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 54 1.00
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:59970 original size:32 final size:31
Alignment explanation
Indices: 59934--60089 Score: 141
Period size: 32 Copynumber: 5.5 Consensus size: 31
59924 TAAAATATGG
*
59934 ATTGATTTATTTTAAATAATTTATTAGTATTA
1 ATTGATTTATTTTAAATAATTTATTAGTA-GA
59966 ATTGATTTATTTT-AA-AA--TA-T-GT---
1 ATTGATTTATTTTAAATAATTTATTAGTAGA
59988 ATTGATTTATTTTAAATAATTTATTAGTACGA
1 ATTGATTTATTTTAAATAATTTATTAGTA-GA
60020 ATTGATTTATTTT--A-AA---A-TA-T-GA
1 ATTGATTTATTTTAAATAATTTATTAGTAGA
*
60042 ATTGATTTATTTTAAATAATTTATTAGTATGG
1 ATTGATTTATTTTAAATAATTTATTAGTA-GA
60074 ATTGATTTATTTTAAA
1 ATTGATTTATTTTAAA
60090 ATACGGATTG
Statistics
Matches: 103, Mismatches: 1, Indels: 40
0.72 0.01 0.28
Matches are distributed among these distances:
22 28 0.27
23 2 0.02
24 4 0.04
25 4 0.04
26 5 0.05
27 2 0.02
28 5 0.05
29 4 0.04
30 4 0.04
31 2 0.02
32 43 0.42
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.53
Consensus pattern (31 bp):
ATTGATTTATTTTAAATAATTTATTAGTAGA
Found at i:59982 original size:54 final size:54
Alignment explanation
Indices: 59918--60765 Score: 512
Period size: 54 Copynumber: 15.8 Consensus size: 54
59908 TTAAAATAAA
*
59918 TTATTATAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGAT
* **
59972 TTATTTTAAAATATGTATTGATTTATTTTAAATAATTTATTAGTACGAATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGAT
* **
60026 TTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGAT
* * * * * *
60080 TTATTTTAAAATACGGATTGATTTATTATT--GTAGTTGTA-T-GGATTGATTTATT
1 TTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TATTAGTATTAATTGA-T
* * * * * *
60133 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTTTAAATAAT
1 TT--AT--TTTA-AAATATGGATTGATTTATTTT-AAATA---ATTTA-TTAGTATTAATTGAT
* * *
60196 TTA--TT--AGTATTGATTGATTTATTTT-AA-AA--TA-T-G----GATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGAT
60236 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA-TAGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTA-ATTGAT
** *
60290 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATT-AT
1 TTATTTT--A-AA---A----TATGGATTGATTTATTTTAAATA-ATTTATTAGTATTAATTGAT
* *
60351 TGTA-GTT---GTATGGATTGATTTATTTTAAATAATTTATTAGTA-TAGATTGAT
1 T-TATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTA-ATTGAT
* **
60402 TTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGAT
* * * * *
60456 TTATTTTAAAATATGAATTGATTTATTTTAAAATATGAATTGATTTA-TTTTAAATAAT
1 TTATTTTAAAATATGGATTGATTTATTTT--AA-AT-AATTTA-TTAGTATTAATTGAT
** *
60514 TTA--TTAGTATAT--ATTGATTTATTTTAAATAATTTATTTGTA-TAGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTA-ATTGAT
* * * *
60564 TTATTTTAAAATATGGATTGATTTATTATT--GT-AGTTA-TATGTATTGATTTATT
1 TTATTTTAAAATATGGATTGATTTATT-TTAAATAATTTATTA-GTATTAATTGA-T
* * * ** *
60617 TTAAATAATTTATTAGTATGAATTGATTTATTTTAAA-ATATGGATT-G-ATTTATT-AT
1 TT--AT--TTTA-AAATATGGATTGATTTATTTTAAATA-ATTTATTAGTATTAATTGAT
* * * *
60673 TGTA-GTT---GTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTTAT
1 T-TATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGAT
60724 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
60766 TTGTAGTTGT
Statistics
Matches: 621, Mismatches: 84, Indels: 178
0.70 0.10 0.20
Matches are distributed among these distances:
40 7 0.01
42 2 0.00
44 19 0.03
45 2 0.00
46 3 0.00
48 55 0.09
49 10 0.02
50 27 0.04
51 14 0.02
52 32 0.05
53 13 0.02
54 281 0.45
55 9 0.01
56 12 0.02
57 20 0.03
58 52 0.08
59 4 0.01
60 5 0.01
61 7 0.01
62 7 0.01
63 8 0.01
64 32 0.05
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGAT
Found at i:60031 original size:22 final size:22
Alignment explanation
Indices: 60015--60057 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
60005 AATTTATTAG
60015 TACGAATTGATTTATTTTAAAA
1 TACGAATTGATTTATTTTAAAA
*
60037 TATGAATTGATTTATTTTAAA
1 TACGAATTGATTTATTTTAAA
60058 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
TACGAATTGATTTATTTTAAAA
Found at i:60135 original size:188 final size:188
Alignment explanation
Indices: 59929--60765 Score: 914
Period size: 188 Copynumber: 4.5 Consensus size: 188
59919 TATTATAAAA
*
59929 TATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGATTTATTTTAAAATATGTATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGATTTATTTTAAAATATGGATTGAT
*
59994 TTATTTTAAATAATTTATTAGTACGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAT
66 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAT
* *
60059 AATTTATTAGTATGGATTGATTTATTTTAAAATACGGATTGATTTATTATTGTAGTTG
131 AATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
**
60117 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGATTTATTTTAAAATATGGATTGAT
*
60182 TTATTTTAAATAATTTATTAGTATTG-ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
66 TTATTTTAAATAATTTATTAGTA-TGAATTGATTTATTTTAAAATATGAATTGATTTATTTT-AA
* * * * * * * * *
60246 ATATGGATTGATTTA-TTTTAAATAATTTATTAGTATAGAT-T-GATTTATTTTAAATAATT-TA
129 ATA---ATTTA-TTAGTATGAATTGATTTATT-TTA-AAATATGGATTGA-TTT--ATTATTGTA
*
60307 TTTG
185 GTTG
** * * *
60311 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATT-ATTGTA-GTT---GTATGGATTG
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATTAATTGATT-TATTTTAAAATATGGATTG
60368 ATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATTTTAAAATAT-AGATTGATTTATTTT
64 ATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAAATATGA-ATTGATTTATTTT
* * ***
60431 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTA-T-TT-TA-AAA
127 AAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
* *
60489 TATGAATTGATTTATTTTAAATAATTTATTAGTA-TATATTGATTTATTTT-AAATA---ATTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATTA-ATTGATTTATTTTAAAATATGGATTGA
* * * * * * ** *
60549 TTT-GTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTATATGTATTGATT
65 TTTATTTTA-AATAATTTA--TT--AGTATGAATTGATTTA-T-TT-TA-AAATATGAATTGATT
60613 TATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAG
121 TATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAG
60678 TTG
186 TTG
* *
60681 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTTATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGATTTATTTTAAAATATGGATTGAT
60746 TTATTTTAAATAATTTATTA
66 TTATTTTAAATAATTTATTA
60766 TTGTAGTTGT
Statistics
Matches: 534, Mismatches: 67, Indels: 92
0.77 0.10 0.13
Matches are distributed among these distances:
178 25 0.05
179 10 0.02
180 20 0.04
181 6 0.01
182 5 0.01
183 11 0.02
184 32 0.06
185 1 0.00
186 2 0.00
187 8 0.01
188 251 0.47
189 7 0.01
190 2 0.00
191 7 0.01
192 73 0.14
193 16 0.03
194 36 0.07
195 5 0.01
196 14 0.03
197 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (188 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAT
AATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
Found at i:60137 original size:80 final size:80
Alignment explanation
Indices: 60037--60750 Score: 831
Period size: 80 Copynumber: 8.9 Consensus size: 80
60027 TATTTTAAAA
* *
60037 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
60102 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
60117 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
60182 TTATT-TTAAATAATT-
66 TTATTATT--GTAGTTG
* * * *
60197 TATTAGTATTGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTTAAAATATGGATTG
1 TA-T-GGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
60256 ATTTATTTTAAATAATTTA-TTAG
64 ATTTA--TT--AT--TGTAGTT-G
* *
60279 TATAGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
60344 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* *
60359 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
60424 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
*
60445 TATGGATTGATTTATTTT-AA-AA--TA-T-G-A---ATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
60500 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
** * *
60521 TATATATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
60586 TTATTATTGTAGTTA
66 TTATTATTGTAGTTG
* *
60601 TATGTATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
60666 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* *
60681 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTTATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
60746 TTATT
66 TTATT
60751 TTAAATAATT
Statistics
Matches: 561, Mismatches: 35, Indels: 76
0.83 0.05 0.11
Matches are distributed among these distances:
76 100 0.18
77 6 0.01
78 4 0.01
79 5 0.01
80 297 0.53
81 21 0.04
82 20 0.04
83 4 0.01
84 8 0.01
85 8 0.01
86 88 0.16
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:60147 original size:134 final size:129
Alignment explanation
Indices: 59966--60299 Score: 524
Period size: 134 Copynumber: 2.5 Consensus size: 129
59956 ATTAGTATTA
*
59966 ATTGATTTATTTTAAAATATGTATTGATTTATTTTAAATAATTTATTAGTACGAATTGATTTATT
1 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA-GAATTGATTTATT
60031 TTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGG
65 TTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGG
*** *
60096 ATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
1 ATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTA-GAATTGATT
* *
60161 TATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAAT
61 TATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
*
60226 ATGG
126 ACGG
*
60230 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATT
1 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAGA-ATTGATTTATT
60295 TTAAA
65 TTAAA
60300 TAATTTATTT
Statistics
Matches: 185, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
130 59 0.32
131 3 0.02
132 4 0.02
133 3 0.02
134 116 0.63
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (129 bp):
ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAGAATTGATTTATTT
TAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGG
Found at i:60157 original size:32 final size:32
Alignment explanation
Indices: 60116--60331 Score: 186
Period size: 32 Copynumber: 7.7 Consensus size: 32
60106 TATTGTAGTT
60116 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
60148 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
60171 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
60202 GTATTGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
60225 -TATGGATTGATTTATTTTAAAA---------
1 GTATGGATTGATTTATTTTAAATAATTTATTA
60247 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
60278 GTATAGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
60310 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
60332 ATATGGATTG
Statistics
Matches: 153, Mismatches: 7, Indels: 48
0.74 0.03 0.23
Matches are distributed among these distances:
22 48 0.31
23 8 0.05
25 2 0.01
26 3 0.02
28 6 0.04
29 1 0.01
31 7 0.05
32 78 0.51
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:60174 original size:22 final size:22
Alignment explanation
Indices: 60149--60267 Score: 130
Period size: 22 Copynumber: 5.0 Consensus size: 22
60139 AATTTATTAG
60149 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
60171 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* *
60195 TTTATTAGTATTGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
60225 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
60247 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
60268 TAATTTATTA
Statistics
Matches: 83, Mismatches: 4, Indels: 20
0.78 0.04 0.19
Matches are distributed among these distances:
22 45 0.54
23 2 0.02
24 2 0.02
25 2 0.02
26 11 0.13
27 2 0.02
28 11 0.13
29 2 0.02
30 2 0.02
31 2 0.02
32 2 0.02
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:60275 original size:14 final size:14
Alignment explanation
Indices: 60256--60309 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
60246 ATATGGATTG
60256 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
60270 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
60288 ATTTATTTTAAATA
1 ATTTATTTTAAATA
60302 ATTTATTT
1 ATTTATTT
60310 GTATGGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:60349 original size:242 final size:242
Alignment explanation
Indices: 59918--60765 Score: 1246
Period size: 242 Copynumber: 3.5 Consensus size: 242
59908 TTAAAATAAA
* *
59918 TTATTATAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGATTTATTTTAAAA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAA
* * *** * * **
59983 TATGTATTGATTTATTTT-AAATA---ATTTA-TTAGTACGAATTGATTTATTTTAAAATATGAA
66 TATGAATTGATTTATTTTAAAATATGGATTGATTTA-TTTTAAATAATTTA--TTAGTATA-G-A
* *
60043 TTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGGATTGATTTATTA
126 TTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTA
60108 TTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
191 TTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
60160 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAA
*
60225 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGAT
66 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGAT
60290 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
131 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
*
60355 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGAT
196 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *
60402 TTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAA
* *
60467 TATGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATATATTGAT
66 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGAT
*
60532 TTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
131 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
* * *
60597 GTTATATGTATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
196 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* * * *
60644 TTATTTTAAAATATGGATTGATTTATTATT--GTAGTTGTA-T-GGATTGATTTATTTTAAATAA
1 TTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TATTAGTATTGATTGA-TTT--AT--
* * *
60705 TTTATTAGTATGAATTTATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
59 TTTA-AAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
60766 TTGTAGTTGT
Statistics
Matches: 559, Mismatches: 34, Indels: 22
0.91 0.06 0.04
Matches are distributed among these distances:
240 8 0.01
241 8 0.01
242 455 0.81
243 10 0.02
244 6 0.01
245 4 0.01
246 65 0.12
247 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (242 bp):
TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAA
TATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGAT
TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
Found at i:60404 original size:32 final size:32
Alignment explanation
Indices: 60358--60573 Score: 177
Period size: 32 Copynumber: 7.7 Consensus size: 32
60348 TATTGTAGTT
*
60358 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATAGATTGATTTATTTTAAATAATTTATTA
60390 GTATAGATTGATTTA-TTT---TAA---A--A
1 GTATAGATTGATTTATTTTAAATAATTTATTA
60413 -TATAGATTGATTTATTTTAAATAATTTATTA
1 GTATAGATTGATTTATTTTAAATAATTTATTA
*
60444 GTATGGATTGATTTATTTT-AA-AA--TA-T-
1 GTATAGATTGATTTATTTTAAATAATTTATTA
*
60470 G---A-ATTGATTTATTTTAAAA----TA-T-
1 GTATAGATTGATTTATTTTAAATAATTTATTA
60492 G---A-ATTGATTTATTTTAAATAATTTATTA
1 GTATAGATTGATTTATTTTAAATAATTTATTA
* *
60520 GTATATATTGATTTATTTTAAATAATTTATTT
1 GTATAGATTGATTTATTTTAAATAATTTATTA
60552 GTATAGATTGATTTATTTTAAA
1 GTATAGATTGATTTATTTTAAA
60574 ATATGGATTG
Statistics
Matches: 156, Mismatches: 6, Indels: 44
0.76 0.03 0.21
Matches are distributed among these distances:
22 48 0.31
23 6 0.04
25 1 0.01
26 6 0.04
27 2 0.01
28 6 0.04
29 1 0.01
30 2 0.01
31 7 0.04
32 77 0.49
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (32 bp):
GTATAGATTGATTTATTTTAAATAATTTATTA
Found at i:60416 original size:22 final size:23
Alignment explanation
Indices: 60391--60509 Score: 111
Period size: 22 Copynumber: 5.0 Consensus size: 23
60381 AATTTATTAG
60391 TATAG-ATTGATTTATTTTAAAA
1 TATAGAATTGATTTATTTTAAAA
60413 TATAG-ATTGATTTATTTTAAATAA
1 TATAGAATTGATTTATTTT-AA-AA
* *
60437 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-TAGAATTGA----TTTATTTTAAAA
60467 TAT-GAATTGATTTATTTTAAAA
1 TATAGAATTGATTTATTTTAAAA
60489 TAT-GAATTGATTTATTTTAAA
1 TATAGAATTGATTTATTTTAAA
60510 TAATTTATTA
Statistics
Matches: 84, Mismatches: 3, Indels: 20
0.79 0.03 0.19
Matches are distributed among these distances:
22 51 0.61
23 2 0.02
24 2 0.02
26 7 0.08
27 4 0.05
28 6 0.07
30 2 0.02
31 2 0.02
32 8 0.10
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (23 bp):
TATAGAATTGATTTATTTTAAAA
Found at i:60517 original size:14 final size:14
Alignment explanation
Indices: 60498--60551 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
60488 ATATGAATTG
60498 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
60512 ATTTATTAGTATATATTG
1 ATTTATT--T-TA-AATA
60530 ATTTATTTTAAATA
1 ATTTATTTTAAATA
60544 ATTTATTT
1 ATTTATTT
60552 GTATAGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:60603 original size:26 final size:25
Alignment explanation
Indices: 60574--60696 Score: 90
Period size: 26 Copynumber: 4.7 Consensus size: 25
60564 TTATTTTAAA
60574 ATATGGATTGATTTATTATTGTAGTT
1 ATATGGATTGATTTATTATTGTA-TT
* *
60600 ATATGTATTGATTTATTTTAAATAATTTATT
1 ATATGGATTGATTTA--TT--AT--TGTATT
* **
60631 AGTATGAATTGATTTA-T-TT-TAAA
1 A-TATGGATTGATTTATTATTGTATT
60654 ATATGGATTGATTTATTATTGTAGTT
1 ATATGGATTGATTTATTATTGTA-TT
*
60680 GTATGGATTGATTTATT
1 ATATGGATTGATTTATT
60697 TTAAATAATT
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
22 13 0.17
23 4 0.05
24 3 0.04
25 2 0.03
26 31 0.40
28 2 0.03
29 1 0.01
30 2 0.03
31 3 0.04
32 16 0.21
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (25 bp):
ATATGGATTGATTTATTATTGTATT
Found at i:60738 original size:22 final size:22
Alignment explanation
Indices: 60713--60755 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
60703 AATTTATTAG
*
60713 TATGAATTTATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
60735 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
60756 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:60815 original size:31 final size:31
Alignment explanation
Indices: 60780--60838 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
60770 AGTTGTATGG
* *
60780 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
60811 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
60839 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:64935 original size:30 final size:30
Alignment explanation
Indices: 64899--64992 Score: 188
Period size: 30 Copynumber: 3.1 Consensus size: 30
64889 CTGATTAGAC
64899 TAAGAGTTAAAGTAAATCATAATTGAAAAT
1 TAAGAGTTAAAGTAAATCATAATTGAAAAT
64929 TAAGAGTTAAAGTAAATCATAATTGAAAAT
1 TAAGAGTTAAAGTAAATCATAATTGAAAAT
64959 TAAGAGTTAAAGTAAATCATAATTGAAAAT
1 TAAGAGTTAAAGTAAATCATAATTGAAAAT
64989 TAAG
1 TAAG
64993 GCATAAACCT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.53, C:0.03, G:0.14, T:0.30
Consensus pattern (30 bp):
TAAGAGTTAAAGTAAATCATAATTGAAAAT
Found at i:69496 original size:16 final size:17
Alignment explanation
Indices: 69469--69501 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
69459 ATCGCCGACA
69469 AAATTGCACTATTCACG
1 AAATTGCACTATTCACG
69486 AAATT-CACTATTCACG
1 AAATTGCACTATTCACG
69502 TGAATAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.30
Consensus pattern (17 bp):
AAATTGCACTATTCACG
Found at i:71033 original size:2 final size:2
Alignment explanation
Indices: 71026--71051 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
71016 CTTAAATATC
71026 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
71052 ATCTAGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:74368 original size:16 final size:16
Alignment explanation
Indices: 74342--74375 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
74332 TTAACATTAA
74342 TAATCTTAATTTGATTT
1 TAATCTTAATTT-ATTT
74359 TAAT-TTAATTTATTT
1 TAATCTTAATTTATTT
74374 TA
1 TA
74376 GAGTTCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
TAATCTTAATTTATTT
Found at i:81481 original size:20 final size:20
Alignment explanation
Indices: 81423--81482 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 20
81413 AATTTAGAAG
81423 TTTTTATGTATTTAATTATATAT
1 TTTTTAT-T-TTTAATTA-ATAT
*
81446 TTTTTAGTTTTT--TTAATCT
1 TTTTTA-TTTTTAATTAATAT
81465 TTTTTATTTTTAATTAAT
1 TTTTTATTTTTAATTAAT
81483 TTATATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 5 0.15
19 9 0.27
20 8 0.24
22 3 0.09
23 7 0.21
24 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTTATTTTTAATTAATAT
Found at i:81919 original size:23 final size:24
Alignment explanation
Indices: 81877--81933 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
81867 TTTTTATAAA
* *
81877 AAATAAAAATTATTTTAAATTA-T
1 AAATAAAAATTATTTCAAATAATT
81900 AAATATAAAATTA-TTCAAATAATT
1 AAATA-AAAATTATTTCAAATAATT
81924 AAATAAAAAT
1 AAATAAAAAT
81934 ACTAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 17 0.57
24 13 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATAAAAATTATTTCAAATAATT
Found at i:92432 original size:20 final size:21
Alignment explanation
Indices: 92383--92432 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
92373 AAGACCAAAT
92383 AAGA-AGACAAAATGTGCTACA
1 AAGACAGA-AAAATGTGCTACA
*
92404 AAGATAGAAAAATGTG-TCACA
1 AAGACAGAAAAATGTGCT-ACA
92425 AA-ACAGAA
1 AAGACAGAA
92433 TTATTCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 17 0.65
22 3 0.12
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.14
Consensus pattern (21 bp):
AAGACAGAAAAATGTGCTACA
Found at i:92686 original size:31 final size:31
Alignment explanation
Indices: 92651--92715 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
92641 TCAAAAAACA
* *
92651 TAATATATGAG-CATTTTCGCTTTTATTTAAT
1 TAATATATG-GTCACTTTCGCTTTTATATAAT
*
92682 TAATATATGGTCACTTTCGTTTTTATATAAT
1 TAATATATGGTCACTTTCGCTTTTATATAAT
92713 TAA
1 TAA
92716 GATGTGATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (31 bp):
TAATATATGGTCACTTTCGCTTTTATATAAT
Found at i:92727 original size:31 final size:31
Alignment explanation
Indices: 92655--92727 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
92645 AAAACATAAT
* * * *
92655 ATATGAGCATTTTCGCTTTTATTTAATTAAT
1 ATATGATCACTTTCGCTTTTATATAATTAAG
* *
92686 ATATGGTCACTTTCGTTTTTATATAATTAAG
1 ATATGATCACTTTCGCTTTTATATAATTAAG
*
92717 ATGTGATCACT
1 ATATGATCACT
92728 ACGGGTTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (31 bp):
ATATGATCACTTTCGCTTTTATATAATTAAG
Found at i:95371 original size:13 final size:13
Alignment explanation
Indices: 95355--95384 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
95345 TCAAAATCCT
*
95355 CATCACTAATCAC
1 CATCACCAATCAC
95368 CATCACCAATCAC
1 CATCACCAATCAC
95381 CATC
1 CATC
95385 TATTTTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (13 bp):
CATCACCAATCAC
Found at i:95711 original size:27 final size:27
Alignment explanation
Indices: 95680--95767 Score: 160
Period size: 27 Copynumber: 3.3 Consensus size: 27
95670 AGATGCCATG
95680 TACATATACACATGTACACACGTGTTT
1 TACATATACACATGTACACACGTGTTT
95707 TACATATACACATGTACACACGTG-TT
1 TACATATACACATGTACACACGTGTTT
95733 TACATATACACATGTACACACGTGTTT
1 TACATATACACATGTACACACGTGTTT
*
95760 TATATATA
1 TACATATA
95768 TAAGAAAGAC
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 26 0.44
27 33 0.56
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.34
Consensus pattern (27 bp):
TACATATACACATGTACACACGTGTTT
Found at i:95741 original size:26 final size:26
Alignment explanation
Indices: 95680--95759 Score: 151
Period size: 26 Copynumber: 3.0 Consensus size: 26
95670 AGATGCCATG
95680 TACATATACACATGTACACACGTGTTT
1 TACATATACACATGTACACACGTG-TT
95707 TACATATACACATGTACACACGTGTT
1 TACATATACACATGTACACACGTGTT
95733 TACATATACACATGTACACACGTGTT
1 TACATATACACATGTACACACGTGTT
95759 T
1 T
95760 TATATATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 29 0.55
27 24 0.45
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (26 bp):
TACATATACACATGTACACACGTGTT
Found at i:96056 original size:14 final size:16
Alignment explanation
Indices: 96036--96077 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
96026 TTAAATTTTC
96036 AAGATAAATAATTT-T
1 AAGATAAATAATTTAT
96051 -AGATAAAT-ATTTAT
1 AAGATAAATAATTTAT
*
96065 AAAATAAATAATT
1 AAGATAAATAATT
96078 AATCAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 4 0.17
14 9 0.39
15 7 0.30
16 3 0.13
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
AAGATAAATAATTTAT
Done.