Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003388.1 Hibiscus syriacus cultivar Beakdansim tig00007132_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: 126354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:693 original size:18 final size:18
Alignment explanation
Indices: 656--791 Score: 93
Period size: 18 Copynumber: 7.5 Consensus size: 18
646 CTTAATGTCT
*
656 ATCGCAACGCGGAAATAAA
1 ATCGCAACGC-GAAAGAAA
*
675 ATCGCAATGCGAAAGAAA
1 ATCGCAACGCGAAAGAAA
* *
693 ATCGTAACGCGAAACAAA
1 ATCGCAACGCGAAAGAAA
**
711 ATCGCAACGCAGAAATGACT
1 ATCGCAACGC-GAAA-GAAA
* *
731 ATCGCAATGCGAAATGGAAG
1 ATCGCAACGCGAAA--GAAA
*
751 ATCGCAA--CG--AGAGA
1 ATCGCAACGCGAAAGAAA
*
765 ATCGCAATGCGAAATG-AA
1 ATCGCAACGCGAAA-GAAA
783 ATCGCAACG
1 ATCGCAACG
792 AGAATCGCAA
Statistics
Matches: 92, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
14 9 0.10
16 3 0.03
18 43 0.47
19 18 0.20
20 19 0.21
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (18 bp):
ATCGCAACGCGAAAGAAA
Found at i:756 original size:40 final size:34
Alignment explanation
Indices: 656--795 Score: 113
Period size: 36 Copynumber: 3.9 Consensus size: 34
646 CTTAATGTCT
* * * *
656 ATCGCAACGCGGAAATAAAATCGCAATGCGAAAGAAA
1 ATCGCAATGC-GAAATGAAATCGCAACGAGAAAG--A
* * **
693 ATCGTAACGCGAAACAAAATCGCAACGCAGAAATGA
1 ATCGCAATGCGAAATGAAATCGCAACG-AGAAA-GA
729 CTATCGCAATGCGAAATGGAAGATCGCAACGAG--AGA
1 --ATCGCAATGCGAAAT-GAA-ATCGCAACGAGAAAGA
765 ATCGCAATGCGAAATGAAATCGCAACGAGAA
1 ATCGCAATGCGAAATGAAATCGCAACGAGAA
796 TCGCAAAGCG
Statistics
Matches: 87, Mismatches: 8, Indels: 19
0.76 0.07 0.17
Matches are distributed among these distances:
32 11 0.13
33 3 0.03
34 15 0.17
36 18 0.21
37 14 0.16
38 13 0.15
39 4 0.05
40 9 0.10
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (34 bp):
ATCGCAATGCGAAATGAAATCGCAACGAGAAAGA
Found at i:797 original size:30 final size:31
Alignment explanation
Indices: 731--821 Score: 123
Period size: 30 Copynumber: 2.9 Consensus size: 31
721 AGAAATGACT
731 ATCGCAATGCGAAATGGAAGATCGCAACGAGAGA
1 ATCGCAATGCGAAAT-GAA-ATCGCAAC-AGAGA
765 ATCGCAATGCGAAATGAAATCGCAAC-GAGA
1 ATCGCAATGCGAAATGAAATCGCAACAGAGA
*
795 ATCGCAAAGCG-AATGAAAATCGCAACA
1 ATCGCAATGCGAAATG-AAATCGCAACA
822 CGAATTAGTT
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
29 4 0.07
30 24 0.44
32 8 0.15
33 3 0.06
34 15 0.28
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (31 bp):
ATCGCAATGCGAAATGAAATCGCAACAGAGA
Found at i:817 original size:18 final size:18
Alignment explanation
Indices: 672--819 Score: 57
Period size: 18 Copynumber: 8.6 Consensus size: 18
662 ACGCGGAAAT
* *
672 AAAATCGCAATGCGAAAG
1 AAAATCGCAAAGCGAATG
* * **
690 AAAATCGTAACGCGAAAC
1 AAAATCGCAAAGCGAATG
*
708 AAAATCGCAACGCAGAAATG
1 AAAATCGCAAAGC-G-AATG
** *
728 ACTATCGCAATGCGAAATGG
1 AAAATCGCAAAGCG-AAT-G
*
748 AAGATCGC-AA-CG-A-G
1 AAAATCGCAAAGCGAATG
* *
762 AGAATCGCAATGCGAAATG
1 AAAATCGCAAAGCG-AATG
781 -AAATCGC-AA-CG-A-G
1 AAAATCGCAAAGCGAATG
794 --AATCGCAAAGCGAATG
1 AAAATCGCAAAGCGAATG
810 AAAATCGCAA
1 AAAATCGCAA
820 CACGAATTAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
12 6 0.06
13 3 0.03
14 10 0.10
15 2 0.02
16 6 0.06
17 1 0.01
18 44 0.44
19 8 0.08
20 19 0.19
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (18 bp):
AAAATCGCAAAGCGAATG
Found at i:847 original size:18 final size:18
Alignment explanation
Indices: 826--862 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
816 GCAACACGAA
*
826 TTAGTTTCGCGTTGCGAT
1 TTAGTTTCGCATTGCGAT
844 TTAGTTTCGCATTGCGAT
1 TTAGTTTCGCATTGCGAT
862 T
1 T
863 CTCTCGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.16, G:0.24, T:0.46
Consensus pattern (18 bp):
TTAGTTTCGCATTGCGAT
Found at i:890 original size:33 final size:33
Alignment explanation
Indices: 835--925 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 33
825 ATTAGTTTCG
835 CGTTGCGA-TTT-AGTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
867 CGTTGCGATTTTCATTTCGCATTGCG--TCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
898 CGTTGCGATTTTCATTTCACATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
926 AGTCATTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
31 30 0.56
32 8 0.15
33 15 0.28
34 1 0.02
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:1044 original size:14 final size:14
Alignment explanation
Indices: 1027--1063 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1017 CATCAATTAA
1027 ACAAATCAACTTTT
1 ACAAATCAACTTTT
* *
1041 ACAAACCATCTTTT
1 ACAAATCAACTTTT
1055 ACAAATCAA
1 ACAAATCAA
1064 TTAAACAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2430 original size:21 final size:21
Alignment explanation
Indices: 2401--2481 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
2391 GAATGGTGGG
*
2401 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTTCAACGATGAC
* * * *
2422 AGTGGCCTCTTGAACGGTGAG
1 AGGGGCCTCTTCAACGATGAC
* * * *
2443 AGGGGACTC-TCGAGGAATGAT
1 AGGGGCCTCTTCAACG-ATGAC
2464 AGGGGCCTCTTCAACGAT
1 AGGGGCCTCTTCAACGAT
2482 AGGAGTGGAC
Statistics
Matches: 43, Mismatches: 15, Indels: 4
0.69 0.24 0.06
Matches are distributed among these distances:
20 3 0.07
21 36 0.84
22 4 0.09
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (21 bp):
AGGGGCCTCTTCAACGATGAC
Found at i:3044 original size:42 final size:42
Alignment explanation
Indices: 2997--3093 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
2987 GTGACGGGAT
2997 AGGTGATGGCTCTCGTTGTAGAAGTGTATAGTCGAGTCGATC
1 AGGTGATGGCTCTCGTTGTAGAAGTGTATAGTCGAGTCGATC
* *
3039 AGGTGATGGCTCTCGTTGTAGAGGTGTATAGTCGGGTCGATC
1 AGGTGATGGCTCTCGTTGTAGAAGTGTATAGTCGAGTCGATC
3081 AGGTGATGGCTCT
1 AGGTGATGGCTCT
3094 GGGTGAGGTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.19, C:0.14, G:0.36, T:0.31
Consensus pattern (42 bp):
AGGTGATGGCTCTCGTTGTAGAAGTGTATAGTCGAGTCGATC
Found at i:4395 original size:20 final size:20
Alignment explanation
Indices: 4378--4429 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
4368 TGAAATGAAA
4378 ATCGCAACGAGAAAATGACT
1 ATCGCAACGAGAAAATGACT
* *
4398 ATCGCAACGCGGAAATGACT
1 ATCGCAACGAGAAAATGACT
4418 ATCGCAACGAGA
1 ATCGCAACGAGA
4430 GAATCGCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.13
Consensus pattern (20 bp):
ATCGCAACGAGAAAATGACT
Found at i:4413 original size:40 final size:35
Alignment explanation
Indices: 4369--4491 Score: 137
Period size: 33 Copynumber: 3.5 Consensus size: 35
4359 TCTTTTGGTT
4369 GAAATGAAAATCGCAACGAGAAAATGACTATCGCAACGCG
1 GAAATGAAAATCGCAACGAG---ATGA--ATCGCAACGCG
** * *
4409 GAAATGACTATCGCAACGAGA-GAATCGCAATGAG
1 GAAATGAAAATCGCAACGAGATGAATCGCAACGCG
4443 G-AATGAAAATCGCAACGAGAT-AATCGCAACGC-
1 GAAATGAAAATCGCAACGAGATGAATCGCAACGCG
4475 GAAATGAAAATCGCAAC
1 GAAATGAAAATCGCAAC
4492 TTTTCATTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
32 1 0.01
33 41 0.56
34 10 0.14
36 2 0.03
37 1 0.01
40 18 0.25
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.13
Consensus pattern (35 bp):
GAAATGAAAATCGCAACGAGATGAATCGCAACGCG
Found at i:4554 original size:21 final size:21
Alignment explanation
Indices: 4511--4566 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
4501 CGCGTTGCGA
* **
4511 TTCTCTCGTTGCAATTTTAAT
1 TTCTCTCGTTGCGATAGTAAT
*
4532 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATAGTAAT
4553 TT-TCGT-GTTGCGAT
1 TTCTC-TCGTTGCGAT
4567 TTTCATTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATAGTAAT
Found at i:4587 original size:20 final size:20
Alignment explanation
Indices: 4539--4589 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
4529 AATTTCTCTC
** *
4539 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCAT
4559 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
4579 GTTGCGATTTT
1 GTTGCGATTTT
4590 AAGTTTAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:5172 original size:20 final size:20
Alignment explanation
Indices: 5147--5339 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
5137 CTTTAAAAAT
5147 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5167 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
5187 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * *
5208 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
5228 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* *
5248 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
5268 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5288 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
5308 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
5329 CTCGTTGCGAT
1 CGCGTTGCGAT
5340 AGTCAGAATC
Statistics
Matches: 142, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
20 109 0.77
21 33 0.23
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:5233 original size:40 final size:40
Alignment explanation
Indices: 5149--5339 Score: 319
Period size: 40 Copynumber: 4.7 Consensus size: 40
5139 TTAAAAATCG
*
5149 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
*
5190 CGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
*
5230 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
*
5270 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
*
5311 CGTTGCGATTTACGGATACTCGTTGCGAT
1 CGTTGCGATTTACGGATACGCGTTGCGAT
5340 AGTCAGAATC
Statistics
Matches: 142, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 77 0.54
41 65 0.46
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
Found at i:5371 original size:20 final size:20
Alignment explanation
Indices: 5348--5400 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
5338 ATAGTCAGAA
* *
5348 TCGCGTTACGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
5368 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
5388 TCGCGTTGCGATT
1 TCGCGTTGCGATT
5401 ATGGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:5373 original size:121 final size:121
Alignment explanation
Indices: 5146--5400 Score: 363
Period size: 121 Copynumber: 2.1 Consensus size: 121
5136 GCTTTAAAAA
5146 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
* * * * *
5211 ATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGTAT
66 ATTGCGATTCACGTAATCGCGTTACGATTTACAGATACGCGTTGCGATTTACATAT
* *
5267 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACTC
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
* * * *
5332 GTTGCGATAGTCA-G-AATCGCGTTACGATTTATATG-TTCGCGTTGCGATTTTCATAT
66 ATTGCGAT--TCACGTAATCGCGTTACGATTTACA-GATACGCGTTGCGATTTACATAT
5388 TCGCGTTGCGATT
1 TCGCGTTGCGATT
5401 ATGGAAAATC
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
121 115 0.97
122 2 0.02
123 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (121 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
ATTGCGATTCACGTAATCGCGTTACGATTTACAGATACGCGTTGCGATTTACATAT
Found at i:5499 original size:20 final size:20
Alignment explanation
Indices: 5429--5503 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 20
5419 AATTTGTACT
* **
5429 ATCGCATTGCGATTCTTCATA
1 ATCGCGTTGCGATTC-TGGTA
5450 ATCGCGTTGCGATTCTGGTA
1 ATCGCGTTGCGATTCTGGTA
**
5470 A-CTGAATTGCGATTCTGG-A
1 ATC-GCGTTGCGATTCTGGTA
5489 GATCGCGTTGCGATT
1 -ATCGCGTTGCGATT
5504 ATTATTTCGC
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.05
20 27 0.61
21 15 0.34
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATTCTGGTA
Found at i:6070 original size:16 final size:16
Alignment explanation
Indices: 6049--6079 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6039 ATAAATAAAT
*
6049 GAACATAAACGAACAC
1 GAACATAAACAAACAC
6065 GAACATAAACAAACA
1 GAACATAAACAAACA
6080 AAATTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.23, G:0.10, T:0.06
Consensus pattern (16 bp):
GAACATAAACAAACAC
Found at i:6166 original size:14 final size:14
Alignment explanation
Indices: 6147--6177 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6137 TTAAATGATA
6147 AACGAACACAAACG
1 AACGAACACAAACG
*
6161 AACGAACATAAACG
1 AACGAACACAAACG
6175 AAC
1 AAC
6178 ACAATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.26, G:0.13, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:6481 original size:10 final size:10
Alignment explanation
Indices: 6466--6526 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
6456 CCCTCTATTC
6466 GAACATAAAT
1 GAACATAAAT
6476 GAACATAAAT
1 GAACATAAAT
*
6486 GAACGA-ACAT
1 GAAC-ATAAAT
* *
6496 -AA-ATGAAC
1 GAACATAAAT
*
6504 GGACATAAAT
1 GAACATAAAT
6514 GAACATAAAT
1 GAACATAAAT
6524 GAA
1 GAA
6527 TGAACATAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 33 0.85
11 1 0.03
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.16
Consensus pattern (10 bp):
GAACATAAAT
Found at i:6494 original size:24 final size:24
Alignment explanation
Indices: 6465--6544 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
6455 GCCCTCTATT
* *
6465 CGAACATAAATGAACATAAATGAA
1 CGAACATAAATGAACAGAAATAAA
* *
6489 CGAACATAAATGAACGGACATAAA
1 CGAACATAAATGAACAGAAATAAA
* *
6513 TGAACATAAATGAA-TGAACATAAA
1 CGAACATAAATGAACAGAA-ATAAA
6537 CGAACATA
1 CGAACATA
6545 TAATCGAATG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 2 0.04
24 45 0.96
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.16
Consensus pattern (24 bp):
CGAACATAAATGAACAGAAATAAA
Found at i:6495 original size:14 final size:14
Alignment explanation
Indices: 6476--6541 Score: 77
Period size: 14 Copynumber: 5.0 Consensus size: 14
6466 GAACATAAAT
6476 GAACATAAATGAAC
1 GAACATAAATGAAC
6490 GAACATAAATGAAC
1 GAACATAAATGAAC
*
6504 GGACATAAAT----
1 GAACATAAATGAAC
*
6514 GAACATAAATGAAT
1 GAACATAAATGAAC
*
6528 GAACATAAACGAAC
1 GAACATAAATGAAC
6542 ATATAATCGA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.20
14 35 0.80
ACGTcount: A:0.56, C:0.14, G:0.15, T:0.15
Consensus pattern (14 bp):
GAACATAAATGAAC
Found at i:6511 original size:38 final size:38
Alignment explanation
Indices: 6468--6541 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
6458 CTCTATTCGA
*
6468 ACATAAATGAACATAAATGAACGAACATAAATGAACGG
1 ACATAAATGAACATAAATGAACGAACATAAACGAACGG
*
6506 ACATAAATGAACATAAATGAATGAACATAAACGAAC
1 ACATAAATGAACATAAATGAACGAACATAAACGAAC
6542 ATATAATCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (38 bp):
ACATAAATGAACATAAATGAACGAACATAAACGAACGG
Found at i:10996 original size:85 final size:85
Alignment explanation
Indices: 10898--11057 Score: 266
Period size: 85 Copynumber: 1.9 Consensus size: 85
10888 TGTGACACAT
* * * *
10898 AGCCAAGCTTACAATTGTTAGAAGAGACATATCCGTATAAGCATGAATCAATAAAACACTTGATA
1 AGCCAAGCTTACAATTGTTAGAACAGACATATCCGTATAAGCATGAACCAATAAAACACTTAACA
*
10963 AAACAATGAATGACACTCAC
66 AAAAAATGAATGACACTCAC
*
10983 AGCCAAGCTTACAATTGTTAGAACAGACGTATCCGTATAAGCATGAACCAATAAAACACTTAACA
1 AGCCAAGCTTACAATTGTTAGAACAGACATATCCGTATAAGCATGAACCAATAAAACACTTAACA
11048 AAAAAATGAA
66 AAAAAATGAA
11058 GTACCTTCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.21
Consensus pattern (85 bp):
AGCCAAGCTTACAATTGTTAGAACAGACATATCCGTATAAGCATGAACCAATAAAACACTTAACA
AAAAAATGAATGACACTCAC
Found at i:12347 original size:27 final size:29
Alignment explanation
Indices: 12303--12361 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 29
12293 CATTTATGTG
* * * *
12303 TGAAACATATACTTTTCT-TTGTTTGA-A
1 TGAAACAAATAATATTCTCTTGGTTGATA
12330 TGAAACAAATAATATTCTCTTGGTTGATA
1 TGAAACAAATAATATTCTCTTGGTTGATA
12359 TGA
1 TGA
12362 CATAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 15 0.58
28 7 0.27
29 4 0.15
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (29 bp):
TGAAACAAATAATATTCTCTTGGTTGATA
Found at i:13060 original size:3 final size:3
Alignment explanation
Indices: 13052--13106 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
13042 TCTTTCGCCC
13052 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
13100 GAG GAG G
1 GAG GAG G
13107 TTACTTTGGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:13436 original size:12 final size:13
Alignment explanation
Indices: 13386--13440 Score: 62
Period size: 12 Copynumber: 4.4 Consensus size: 13
13376 CATGTTTGAT
13386 AATAATA-TTAAA
1 AATAATATTTAAA
*
13398 AA-AATATTTAAT
1 AATAATATTTAAA
13410 AAT-ATATTTATAA
1 AATAATATTTA-AA
*
13423 AATAATATTAAAA
1 AATAATATTTAAA
13436 AATAA
1 AATAA
13441 AAGTTGATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
11 4 0.11
12 15 0.42
13 11 0.31
14 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATAATATTTAAA
Found at i:13759 original size:12 final size:13
Alignment explanation
Indices: 13723--13766 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
13713 GCCCCGATTA
13723 CCCGATTACCCGC
1 CCCGATTACCCGC
13736 CCCGATTACCCGC
1 CCCGATTACCCGC
*
13749 CCCGA-TACCCGA
1 CCCGATTACCCGC
13761 CCCGAT
1 CCCGAT
13767 AAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.18, C:0.52, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:13891 original size:24 final size:24
Alignment explanation
Indices: 13864--13918 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
13854 ATATATATAT
* *
13864 ATACCCGACCCGATTCTCGGCCCA
1 ATACCCGACCCAATACTCGGCCCA
13888 ATACCCGACCCAATACTCGGCCCA
1 ATACCCGACCCAATACTCGGCCCA
13912 ATACCCG
1 ATACCCG
13919 TTTAAATAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.45, G:0.15, T:0.15
Consensus pattern (24 bp):
ATACCCGACCCAATACTCGGCCCA
Found at i:13901 original size:12 final size:12
Alignment explanation
Indices: 13864--13918 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
13854 ATATATATAT
*
13864 ATACCCGACCCG
1 ATACCCGACCCA
* * *
13876 ATTCTCGGCCCA
1 ATACCCGACCCA
13888 ATACCCGACCCA
1 ATACCCGACCCA
* *
13900 ATACTCGGCCCA
1 ATACCCGACCCA
13912 ATACCCG
1 ATACCCG
13919 TTTAAATAAC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.25, C:0.45, G:0.15, T:0.15
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:27424 original size:24 final size:24
Alignment explanation
Indices: 27397--27495 Score: 78
Period size: 24 Copynumber: 4.2 Consensus size: 24
27387 AGATATCAAA
*
27397 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
27421 ATCATAACAGAATCCA-AGTTAGGA-
1 ATCAAAACAGAATTCAGA-TCA-GAT
* *
27445 ATCAGAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
27469 GTC-AAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
27492 ATCA
1 ATCA
27496 GATAAAATAT
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
23 21 0.38
24 32 0.57
25 3 0.05
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:29996 original size:7 final size:7
Alignment explanation
Indices: 29984--30022 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
29974 GGTCAACGTG
29984 GGTCAAC
1 GGTCAAC
29991 GGTCAAC
1 GGTCAAC
*
29998 GGGTCAAT
1 -GGTCAAC
30006 GGTCAAC
1 GGTCAAC
30013 GGGTCAAC
1 -GGTCAAC
30021 GG
1 GG
30023 GTCGGGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.26, C:0.23, G:0.36, T:0.15
Consensus pattern (7 bp):
GGTCAAC
Found at i:30003 original size:15 final size:15
Alignment explanation
Indices: 29983--30022 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
29973 TGGTCAACGT
29983 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
*
29998 GGGTCAATGGTCAAC
1 GGGTCAACGGTCAAC
30013 GGGTCAACGG
1 GGGTCAACGG
30023 GTCGGGTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.38, T:0.15
Consensus pattern (15 bp):
GGGTCAACGGTCAAC
Found at i:30004 original size:8 final size:8
Alignment explanation
Indices: 29964--30038 Score: 70
Period size: 8 Copynumber: 9.5 Consensus size: 8
29954 TCAAAGTTTT
29964 GGTCAACAG
1 GGTCAAC-G
29973 TGGTCAACGTG
1 -GGTCAAC--G
29984 GGTCAAC-
1 GGTCAACG
29991 GGTCAACG
1 GGTCAACG
*
29999 GGTCAA-T
1 GGTCAACG
30006 GGTCAACG
1 GGTCAACG
30014 GGTCAACG
1 GGTCAACG
30022 GGT---CG
1 GGTCAACG
30027 GGTCAACG
1 GGTCAACG
30035 GGTC
1 GGTC
30039 GGGTCGGGTC
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
5 5 0.09
7 13 0.23
8 23 0.41
10 14 0.25
11 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:30043 original size:18 final size:18
Alignment explanation
Indices: 30006--30079 Score: 77
Period size: 18 Copynumber: 4.2 Consensus size: 18
29996 ACGGGTCAAT
30006 GGTCAACGGGTCAACGGGTCG
1 GGTCAACGGGT---CGGGTCG
30027 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
30045 GGTCAAC---T--GGTCG
1 GGTCAACGGGTCGGGTCG
*
30058 GGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
30076 GGTC
1 GGTC
30080 GCGTTATGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
13 11 0.24
15 1 0.02
16 1 0.02
18 22 0.48
21 11 0.24
ACGTcount: A:0.15, C:0.22, G:0.46, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:30050 original size:31 final size:31
Alignment explanation
Indices: 30012--30079 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
30002 CAATGGTCAA
*
30012 CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
*
30043 CGGGTCAACTGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
30074 CGGGTC
1 CGGGTC
30080 GCGTTATGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.13, C:0.22, G:0.47, T:0.18
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
Found at i:30060 original size:13 final size:13
Alignment explanation
Indices: 30012--30043 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
30002 CAATGGTCAA
30012 CGGGTCAACGGGT
1 CGGGTCAACGGGT
30025 CGGGTCAACGGGT
1 CGGGTCAACGGGT
30038 CGGGTC
1 CGGGTC
30044 GGGTCAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.25, G:0.47, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:30069 original size:13 final size:13
Alignment explanation
Indices: 30038--30073 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
30028 GTCAACGGGT
*
30038 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
30051 CTGGTCGGGTAAA
1 CGGGTCGGGTAAA
30064 CGGGTCGGGT
1 CGGGTCGGGT
30074 CGGGTCGCGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.47, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:32195 original size:24 final size:24
Alignment explanation
Indices: 32168--32267 Score: 78
Period size: 24 Copynumber: 4.2 Consensus size: 24
32158 GATATCAAAA
*
32168 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
32192 ATCATAACAGAATCCA-AGTTAGGA-
1 ATCAAAACAGAATTCAGA-TCA-GAT
* * *
32216 ATCAGAACATATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
32240 GTCAAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
32264 ATCA
1 ATCA
32268 GATAAAATAT
Statistics
Matches: 56, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
23 3 0.05
24 50 0.89
25 3 0.05
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:32267 original size:48 final size:48
Alignment explanation
Indices: 32161--32269 Score: 137
Period size: 48 Copynumber: 2.3 Consensus size: 48
32151 AAACGGAGAT
* * *
32161 ATCAAAAATCAAAACATAATTCAGATCAGATATCATAACAGAATCCAA
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
32209 GTTAGGAATCAGAACATATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
32257 ATCAGAAATCAGA
1 ATCAGAAATCAGA
32270 TAAAATATTC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.22
Consensus pattern (48 bp):
ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:34792 original size:13 final size:13
Alignment explanation
Indices: 34787--34823 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
34777 GTCAACGGGT
34787 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
* *
34800 CTGGTCGGGTAAA
1 CGGGTCGGGTCAA
34813 CGGGTCGGGTC
1 CGGGTCGGGTC
34824 GGGTCGCGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.22, G:0.46, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:34797 original size:18 final size:18
Alignment explanation
Indices: 34774--34828 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
34764 AACGGGTCAA
34774 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
34792 CGGGTCAAC---T--GGT
1 CGGGTCAACGGGTCGGGT
*
34805 CGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
34823 CGGGTC
1 CGGGTC
34829 GCGTTATGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 11 0.37
15 1 0.03
16 1 0.03
18 17 0.57
ACGTcount: A:0.13, C:0.22, G:0.47, T:0.18
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:34805 original size:8 final size:8
Alignment explanation
Indices: 34733--34787 Score: 67
Period size: 8 Copynumber: 6.5 Consensus size: 8
34723 TCAAAGTTTT
34733 GGTCAACAG
1 GGTCAAC-G
34742 TGGTCAACGTG
1 -GGTCAAC--G
34753 GGTCAAC-
1 GGTCAACG
34760 GGTCAACG
1 GGTCAACG
34768 GGTCAACG
1 GGTCAACG
34776 GGTCAACG
1 GGTCAACG
34784 GGTC
1 GGTC
34788 GGGTCGGGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
7 7 0.17
8 20 0.48
10 14 0.33
11 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (8 bp):
GGTCAACG
Found at i:34805 original size:26 final size:27
Alignment explanation
Indices: 34766--34828 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 27
34756 CAACGGTCAA
34766 CGGGTCAACGGGTC-AACGGGTCGGGT
1 CGGGTCAACGGGTCGAACGGGTCGGGT
*
34792 CGGGTCAACTGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTC--G--AACGGGTCGGGT
34823 CGGGTC
1 CGGGTC
34829 GCGTTATGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 13 0.42
31 18 0.58
ACGTcount: A:0.14, C:0.22, G:0.46, T:0.17
Consensus pattern (27 bp):
CGGGTCAACGGGTCGAACGGGTCGGGT
Found at i:41696 original size:21 final size:21
Alignment explanation
Indices: 41667--41725 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
41657 CATGGAAGTC
* *
41667 GGACTGTCACGTTAGCATAGT
1 GGACCGTCACGTCAGCATAGT
*
41688 GGACCGTCACGTCAGTATAGT
1 GGACCGTCACGTCAGCATAGT
*
41709 GGACCATCACGTCAGCA
1 GGACCGTCACGTCAGCA
41726 CCTTGAACTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.22
Consensus pattern (21 bp):
GGACCGTCACGTCAGCATAGT
Found at i:42185 original size:13 final size:13
Alignment explanation
Indices: 42169--42194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42159 TTATTCCTAG
42169 TTGTTAAATGTGA
1 TTGTTAAATGTGA
42182 TTGTTAAATGTGA
1 TTGTTAAATGTGA
42195 GTTTTTAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TTGTTAAATGTGA
Found at i:46274 original size:52 final size:54
Alignment explanation
Indices: 46210--46310 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 54
46200 GATGACGAGT
*
46210 ACTGAACTCTGTTAACCTCTAACATTATTGATACTTCATTCGCT-CATCCTCGG
1 ACTGAACTCTGTTAACCTCTAACATTACTGATACTTCATTCGCTGCATCCTCGG
** * *
46263 ACTGAA-TCTGTTGGCCTCTAGCATTACTGATGCTTCATTCGCTGCATC
1 ACTGAACTCTGTTAACCTCTAACATTACTGATACTTCATTCGCTGCATC
46311 GCAAACTAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 32 0.76
53 10 0.24
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.36
Consensus pattern (54 bp):
ACTGAACTCTGTTAACCTCTAACATTACTGATACTTCATTCGCTGCATCCTCGG
Found at i:46697 original size:24 final size:24
Alignment explanation
Indices: 46670--46725 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
46660 AATCGGGCTT
*
46670 CCTTCTTCCTTCCGGACATGCCTA
1 CCTTCTTCCTTCCGGACACGCCTA
46694 CCTTCTTCCTTCCGGACACGCCTA
1 CCTTCTTCCTTCCGGACACGCCTA
46718 CCTTCTTC
1 CCTTCTTC
46726 GATATCACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.11, C:0.45, G:0.11, T:0.34
Consensus pattern (24 bp):
CCTTCTTCCTTCCGGACACGCCTA
Found at i:46809 original size:3 final size:3
Alignment explanation
Indices: 46803--46906 Score: 172
Period size: 3 Copynumber: 34.7 Consensus size: 3
46793 TTTTTATCCA
* *
46803 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
46851 TAT TAT TAT TAT TAT TAC TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46899 TAT TAT TA
1 TAT TAT TA
46907 ATTTATATTA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:46917 original size:10 final size:10
Alignment explanation
Indices: 46817--46928 Score: 60
Period size: 9 Copynumber: 11.7 Consensus size: 10
46807 ATTATTATTA
*
46817 ATATTATTAT
1 ATATTAATAT
46827 -TATTAATAT
1 ATATTAATAT
*
46836 -TATTATTAT
1 ATATTAATAT
*
46845 -TATTATTAT
1 ATATTAATAT
*
46854 -TATTATTAT
1 ATATTAATAT
*
46863 -TATTACTATT
1 ATATTAATA-T
*
46873 ATCATTATTAT
1 AT-ATTAATAT
*
46884 -TATTATTAT
1 ATATTAATAT
*
46893 -TATTATTAT
1 ATATTAATAT
*
46902 -TATTAATTT
1 ATATTAATAT
46911 ATATTAAATAT
1 ATATT-AATAT
46922 ATATTAA
1 ATATTAA
46929 ATACATAATA
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
9 65 0.72
10 8 0.09
11 11 0.12
12 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATATTAATAT
Found at i:47446 original size:17 final size:16
Alignment explanation
Indices: 47413--47450 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
47403 AAGAAGAGAC
47413 AAAAACAGAAAACGAA
1 AAAAACAGAAAACGAA
47429 AAAATACAGAGAAA-GAA
1 AAAA-ACAGA-AAACGAA
47446 AAAAA
1 AAAAA
47451 AAACAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 12 0.60
18 3 0.15
ACGTcount: A:0.76, C:0.08, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAACAGAAAACGAA
Found at i:48396 original size:20 final size:21
Alignment explanation
Indices: 48356--48399 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
48346 GTGATATTTT
**
48356 TATTTTTATTATATTGTTAAA
1 TATTTTTATTATATTCATAAA
48377 TATTTTTA-TATATTCATAAA
1 TATTTTTATTATATTCATAAA
48397 TAT
1 TAT
48400 ACATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTTTTATTATATTCATAAA
Found at i:59778 original size:13 final size:13
Alignment explanation
Indices: 59760--59812 Score: 72
Period size: 13 Copynumber: 3.9 Consensus size: 13
59750 GCTTGAAGAG
59760 AGAGAAAAAAAAAA
1 AGAG-AAAAAAAAA
59774 GAGAAGAAAAAAAAA
1 -AG-AGAAAAAAAAA
59789 AGAGAAAAAAAAA
1 AGAGAAAAAAAAA
59802 AGA-AAAAAAAA
1 AGAGAAAAAAAA
59813 GGGGGTCAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.22
13 14 0.38
14 2 0.05
15 11 0.30
16 2 0.05
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAGAAAAAAAAA
Found at i:59783 original size:16 final size:16
Alignment explanation
Indices: 59755--59802 Score: 80
Period size: 16 Copynumber: 3.0 Consensus size: 16
59745 ATTATGCTTG
59755 AAGAGAGAGAAAAAAAA
1 AAGAGA-AGAAAAAAAA
59772 AAGAGAAGAAAAAAAA
1 AAGAGAAGAAAAAAAA
59788 AAGAGAA-AAAAAAAA
1 AAGAGAAGAAAAAAAA
59803 GAAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.26
16 17 0.55
17 6 0.19
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAGAGAAGAAAAAAAA
Found at i:59791 original size:11 final size:11
Alignment explanation
Indices: 59767--59812 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 11
59757 GAGAGAGAAA
59767 AAAAAAAGAGAAG
1 AAAAAAA-A-AAG
59780 AAAAAAAAAAGAG
1 -AAAAAAAAA-AG
59793 AAAAAAAAAAG
1 AAAAAAAAAAG
59804 AAAAAAAAA
1 AAAAAAAAA
59813 GGGGGTCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.35
12 10 0.32
13 3 0.10
14 7 0.23
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:61043 original size:52 final size:52
Alignment explanation
Indices: 60965--61261 Score: 594
Period size: 52 Copynumber: 5.7 Consensus size: 52
60955 GAATATGCCA
60965 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
61017 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
61069 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
61121 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
61173 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
61225 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
61262 TGGACAGAAT
Statistics
Matches: 245, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 245 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:62201 original size:113 final size:113
Alignment explanation
Indices: 61897--62442 Score: 839
Period size: 113 Copynumber: 4.8 Consensus size: 113
61887 TAGCAAAGAT
* * *
61897 TTGAATCCATCATTTGATGGAACAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
61962 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * *
62010 TTGAATCCGTCATTTGATGGATCAGCTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATCCATCATTTGATGGATCAAC-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* * * **
62075 AAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * * * *
62124 TTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
62189 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * *
62237 CTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
62302 AGAA-G--GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * *
62347 TTGAATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTG
*
62411 AAGAAGGAAGAAAAAGTTCATAATGAGAAGAA
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
62443 CTCATCAAGA
Statistics
Matches: 391, Mismatches: 37, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
109 1 0.00
110 101 0.26
111 1 0.00
112 1 0.00
113 185 0.47
114 102 0.26
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
Found at i:62430 original size:223 final size:226
Alignment explanation
Indices: 61897--62442 Score: 893
Period size: 227 Copynumber: 2.4 Consensus size: 226
61887 TAGCAAAGAT
* * * * *
61897 TTGAATCCATCATTTGATGGAACAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
* *
61962 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCGTCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGA
*
62027 TGGATCAGCTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGT
131 TGGATCAGCTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAAGT
* **
62092 TCATAATGAGAAGAACTTGTTCAACTTTTTGT
195 TCATAATGAGAAGAACTTGTTCAACCTTTTAC
*
62124 TTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
*
62189 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGG
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGA
*
62254 TGGATCATC-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AAG-GAAGAAGTT
131 TGGATCAGCTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAAGTT
*
62316 CATAATGAGAAGAATTTGTTCAACCTTTTAC
196 CATAATGAGAAGAACTTGTTCAACCTTTTAC
*
62347 TTGAATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATCATTTGATGGATCAACATTGCCAGAG-AAGGTTCATAATGAGAAGAACTCATCTG
*
62411 AAGAAGGAAGAAAAAGTTCATAATGAGAAGAA
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
62443 CTCATCAAGA
Statistics
Matches: 300, Mismatches: 18, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
222 1 0.00
223 127 0.42
225 3 0.01
226 40 0.13
227 129 0.43
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (226 bp):
TTGAATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGA
TGGATCAGCTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACCTTTTAC
Found at i:62699 original size:3 final size:3
Alignment explanation
Indices: 62691--62788 Score: 160
Period size: 3 Copynumber: 32.7 Consensus size: 3
62681 TTTTTATCCA
* *
62691 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
62739 TAT TAT TAT TAC TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62787 TA
1 TA
62789 ATTTATATTA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:63322 original size:17 final size:16
Alignment explanation
Indices: 63289--63326 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
63279 AAGAAGAGAC
63289 AAAAACAGAAAACGAA
1 AAAAACAGAAAACGAA
63305 AAAATACAGAGAAA-GAA
1 AAAA-ACAGA-AAACGAA
63322 AAAAA
1 AAAAA
63327 AAACAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 12 0.60
18 3 0.15
ACGTcount: A:0.76, C:0.08, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAACAGAAAACGAA
Found at i:64267 original size:20 final size:21
Alignment explanation
Indices: 64230--64270 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
64220 GATATTTTTA
**
64230 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
64251 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
64271 ACATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:70390 original size:5 final size:5
Alignment explanation
Indices: 70379--70419 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
70369 TCCTCTATTT
* * *
70379 CTTTC TTTTC TTTTC CTTTC TTTTC CTTTC CTTTC CTTTC C
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC C
70420 ATTATTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (5 bp):
CTTTC
Found at i:70397 original size:15 final size:15
Alignment explanation
Indices: 70379--70419 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
70369 TCCTCTATTT
*
70379 CTTTCTTTTCTTTTC
1 CTTTCTTTTCCTTTC
70394 CTTTCTTTTCCTTTC
1 CTTTCTTTTCCTTTC
*
70409 CTTTCCTTTCC
1 CTTTCTTTTCC
70420 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (15 bp):
CTTTCTTTTCCTTTC
Found at i:70398 original size:10 final size:10
Alignment explanation
Indices: 70376--70418 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
70366 GGTTCCTCTA
*
70376 TTTC-TTTCT
1 TTTCTTTTCC
70385 TTTCTTTTCC
1 TTTCTTTTCC
70395 TTTCTTTTCC
1 TTTCTTTTCC
*
70405 TTTCCTTTCC
1 TTTCTTTTCC
70415 TTTC
1 TTTC
70419 CATTATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 4 0.13
10 27 0.87
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTTTCC
Found at i:72165 original size:2 final size:2
Alignment explanation
Indices: 72156--72213 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
72146 CTTTTGTGTG
72156 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72197 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
72214 GAGTTAAAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72291 original size:48 final size:48
Alignment explanation
Indices: 72225--72320 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
72215 AGTTAAAGAT
*
72225 CCATTTACACAATGTTTTACATTTTTTTTAGTTTCTCTTCTAATTAAA
1 CCATGTACACAATGTTTTACATTTTTTTTAGTTTCTCTTCTAATTAAA
72273 CCATGTACACAATGTTTTACATTTTTTTTAGTTTCTCTTCTAATTAAA
1 CCATGTACACAATGTTTTACATTTTTTTTAGTTTCTCTTCTAATTAAA
72321 TATATTTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (48 bp):
CCATGTACACAATGTTTTACATTTTTTTTAGTTTCTCTTCTAATTAAA
Found at i:73417 original size:18 final size:18
Alignment explanation
Indices: 73391--73435 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
73381 TCAAAGAATG
73391 TAAGATTACCGACAAGAA
1 TAAGATTACCGACAAGAA
* **
73409 TATGATTACCGACGGGAA
1 TAAGATTACCGACAAGAA
73427 TAAGATTAC
1 TAAGATTAC
73436 TGAGAATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (18 bp):
TAAGATTACCGACAAGAA
Found at i:77022 original size:18 final size:18
Alignment explanation
Indices: 76981--77022 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
76971 AAAAAACAAT
*
76981 ATTCGAACAATTGTTTAA
1 ATTCTAACAATTGTTTAA
**
76999 GGTCTAACAATTGTTTAA
1 ATTCTAACAATTGTTTAA
77017 ATTCTA
1 ATTCTA
77023 TCCAAATTAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
ATTCTAACAATTGTTTAA
Found at i:78747 original size:3 final size:3
Alignment explanation
Indices: 78739--78763 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
78729 GAATTGGGTT
78739 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
78764 CTCTTTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:95307 original size:2 final size:2
Alignment explanation
Indices: 95296--95385 Score: 144
Period size: 2 Copynumber: 45.0 Consensus size: 2
95286 TATATAAGAC
* * * *
95296 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AG AC AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95380 AT AT AT
1 AT AT AT
95386 CAAGGCAAGA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:105231 original size:40 final size:40
Alignment explanation
Indices: 105147--105239 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 40
105137 GCGATCGATA
*
105147 ATTCGCAACGCGATCTCCATTATCGCAAATCAGTTTCCAG
1 ATTCGCAACGCGATCTCCATTATCGCAAATCAGTTTACAG
* * * *
105187 ATTCGCAACGCGAT-TCTGATTATCGC-ATTGAGATTTACAT
1 ATTCGCAACGCGATCTC-CATTATCGCAAATCAG-TTTACAG
*
105227 ATTCGCAATGCGA
1 ATTCGCAACGCGA
105240 ATATGTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 6 0.13
40 39 0.87
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (40 bp):
ATTCGCAACGCGATCTCCATTATCGCAAATCAGTTTACAG
Found at i:105252 original size:20 final size:20
Alignment explanation
Indices: 105229--105329 Score: 135
Period size: 20 Copynumber: 5.4 Consensus size: 20
105219 ATTTACATAT
105229 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
105249 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
*
105269 TCACAATGCGAATATG----
1 TCGCAATGCGAATATGTAAA
105285 T---AATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
*
105302 TCGCAACGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
105322 TCGCAATG
1 TCGCAATG
105330 AGATTCTGAC
Statistics
Matches: 71, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.17
16 1 0.01
17 1 0.01
20 57 0.80
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:105291 original size:13 final size:13
Alignment explanation
Indices: 105273--105300 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
105263 TGTAAATCAC
105273 AATGCGAATATGT
1 AATGCGAATATGT
105286 AATGCGAATATGT
1 AATGCGAATATGT
105299 AA
1 AA
105301 ATCGCAACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (13 bp):
AATGCGAATATGT
Found at i:105295 original size:33 final size:33
Alignment explanation
Indices: 105253--105320 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
105243 TGTAAATCGC
*
105253 AATGCGAATATGTAAATCACAATGCGAATATGT
1 AATGCGAATATGTAAATCACAACGCGAATATGT
*
105286 AATGCGAATATGTAAATCGCAACGCGAATATGT
1 AATGCGAATATGTAAATCACAACGCGAATATGT
105319 AA
1 AA
105321 ATCGCAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (33 bp):
AATGCGAATATGTAAATCACAACGCGAATATGT
Found at i:105354 original size:20 final size:20
Alignment explanation
Indices: 105321--105473 Score: 191
Period size: 20 Copynumber: 7.7 Consensus size: 20
105311 GAATATGTAA
* *
105321 ATCGCAATGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
105341 ATCACAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
105361 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
105381 ATCGCAACGAGATTATGACT
1 ATCGCAACGCGATTCTGACT
* * *
105401 ATAGCAACGAGATTATGACT
1 ATCGCAACGCGATTCTGACT
105421 ATCGC-ACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
105440 ATCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
*
105460 ATCGCAATGCGATT
1 ATCGCAACGCGATT
105474 TTCAAAACGC
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
19 17 0.14
20 102 0.86
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:105459 original size:59 final size:60
Alignment explanation
Indices: 105351--105466 Score: 171
Period size: 59 Copynumber: 1.9 Consensus size: 60
105341 ATCACAATGC
* * *
105351 GATTCTGACTATCGCAATGCGATTCTGACTATCGCAACGAGATTATGACTATAGCAACGA
1 GATTATGACTATCGCAACGCGATTCTGACTATCGCAACGAGATGATGACTATAGCAACGA
* * *
105411 GATTATGACTATCGC-ACGCGATTCTGACTATCGCAACGCGATGCTGACTATCGCAA
1 GATTATGACTATCGCAACGCGATTCTGACTATCGCAACGAGATGATGACTATAGCAA
105467 TGCGATTTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
59 36 0.72
60 14 0.28
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (60 bp):
GATTATGACTATCGCAACGCGATTCTGACTATCGCAACGAGATGATGACTATAGCAACGA
Found at i:106081 original size:20 final size:20
Alignment explanation
Indices: 106056--106164 Score: 139
Period size: 20 Copynumber: 5.4 Consensus size: 20
106046 GAAATTCAGT
* *
106056 GTTGCGACAGTCAGAATCAC
1 GTTGCGATAGTCAGAATCGC
*
106076 GTTGCGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
*
106096 GTTGCGATAATCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
**
106116 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
106137 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
106157 GTTGCGAT
1 GTTGCGAT
106165 TTACATATTC
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
19 2 0.03
20 59 0.77
21 15 0.19
22 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:106152 original size:41 final size:41
Alignment explanation
Indices: 106056--106165 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 41
106046 GAAATTCAGT
* * *
106056 GTTGCGACAGTCAGAATCACGTTGCGA-TAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTAGTCAGAATCGC
* **
106096 GTTGCGATAATCAGAATCGCGTTGCGATTATGT-ATTATCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTA-GTCAGAATCGC
106137 GTTGCGATAGTCAGAATCGCGTTGCGATT
1 GTTGCGATAGTCAGAATCGCGTTGCGATT
106166 TACATATTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 24 0.39
41 35 0.57
42 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
GTTGCGATAGTCAGAATCGCGTTGCGATTAGTCAGAATCGC
Found at i:116153 original size:180 final size:181
Alignment explanation
Indices: 115081--117389 Score: 4202
Period size: 179 Copynumber: 12.9 Consensus size: 181
115071 AGACACACTG
*
115081 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTGGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
115146 TTACTCTATATATTACTAAGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
115211 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
* * *
115261 A-ACAGTCATATAACGTGTGGTCTGCATGGTTATGCTTGTCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
115325 TTACTCTATATATTACTAGGCTTATTCACTGATCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
*
115390 CCCTTGATTAAGCTTATTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
115440 A-ACAGTCA--TAACGTGTGGTCTGCATGG-TTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
115501 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
115566 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
115617 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTA-GGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
115681 TTACTCTATATA-TACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATC-AAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
115744 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
* *
115794 A-ACAGTCATTTAACGTGTGGTCCGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
115858 TTACTC--TATATTACTAGGCTTATTCACTG-CCATTTCTCACTTCTTCAAAT-AAAACACAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
115919 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
115970 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTA-GGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
116034 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
116099 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
116150 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
116215 TTATTCTATATATTACTAGGCTTATTCACTGA-CATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
116279 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
116330 ACACAGTCA-TTAACGTGTGGTCTGCATGG-TTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
116393 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
116458 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
116509 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
116574 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACACAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
116639 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
116690 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
116755 TTA-TCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
116819 -CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AA
131 CCCT-TGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
116869 A-ACAGTCA--TAACGTGTGGTCTGCATGG-TTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
116930 TTACTC--TATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACA-AATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
116992 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
117043 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
117108 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
117173 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
117224 ACACAGTCATTTAACGTGTGGTCTGCATGG--TTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
117287 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
* * *
117352 TCCGTGATTAAGCTTACTTTGAACTTCAACTTCTATTA
131 CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTA
117390 ATTGATTTGA
Statistics
Matches: 2071, Mismatches: 24, Indels: 69
0.96 0.01 0.03
Matches are distributed among these distances:
173 48 0.02
174 58 0.03
175 122 0.06
176 254 0.12
177 113 0.05
178 196 0.09
179 487 0.24
180 427 0.21
181 366 0.18
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (181 bp):
ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
CCCTTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAA
Found at i:116172 original size:533 final size:538
Alignment explanation
Indices: 115081--117389 Score: 4307
Period size: 533 Copynumber: 4.3 Consensus size: 538
115071 AGACACACTG
*
115081 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTGGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
115146 TTACTCTATATATTACTAAGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
115211 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATATAACG
131 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCAT-TAACG
*
115276 TGTGGTCTGCATGGTTATGCTTGTCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTAC
195 TGTGGTCTGCATGGTT-TGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTC-ATATATTAC
*
115341 TAGGCTTATTCACTGATCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTA
258 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTA
*
115406 TTTTGAACTTCAATTTCTATTATTAAAAATTT-AAA-ACAGTCA--TAACGTGTGGTCTGCATGG
323 CTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAACGTGTGGTCTGCATGG
115467 -TTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCACT
388 TTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCACT
115531 GACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTTTGAACTTCAAT
453 GACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTTTGAACTTCAAT
115596 TTCTATTATTAAAAATTTAAA
518 TTCTATTATTAAAAATTTAAA
115617 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTA-GGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
115681 TTACTCTATATA-TACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATC-AAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
115744 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATTTAACG
131 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCA-TTAACG
*
115809 TGTGGTCCGCATGGTTATGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTC-TATATTACT
195 TGTGGTCTGCATGGTT-TGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCATATATTACT
*
115873 AGGCTTATTCACTG-CCATTTCTCACTTCTTCAAAT-AAAACACAATTCCCTTGATTAAGCTTAC
259 AGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTAC
115936 TTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAACGTGTGGTCTGCATGGT
324 TTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAACGTGTGGTCTGCATGGT
116001 TTTGCTTGCCGACTTGAAACTTTGAATTTA-GGTTTACTCTATATATTACTAGGCTTATTCACTG
389 TTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCACTG
116065 ACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTTTGAACTTCAATT
454 ACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTTTGAACTTCAATT
116130 TCTATTATTAAAAATTTAAA
519 TCTATTATTAAAAATTTAAA
116150 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
*
116215 TTATTCTATATATTACTAGGCTTATTCACTGA-CATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
116279 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTAAC
131 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTT-AAA-ACAGTCATTAAC
116344 GTGTGGTCTGCATGGTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTAC
194 GTGTGGTCTGCATGGTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTC-ATATATTAC
116409 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTA
258 TAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTA
116474 CTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAACGTGTGGTCTGCATGG
323 CTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAACGTGTGGTCTGCATGG
116539 TTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCACT
388 TTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCACT
*
116604 GACCATTTCTCACTTCTTCAAATCAAAACACAATTCCCTTGATTAAGCTTACTTTGAACTTCAAT
453 GACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTTTGAACTTCAAT
116669 TTCTATTATTAAAAATTTAAA
518 TTCTATTATTAAAAATTTAAA
116690 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
116755 TTA-TCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
116819 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCA-TAACGT
131 CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATTAACGT
116883 GTGGTCTGCATGGTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTC-TATATTACTAG
196 GTGGTCTGCATGGTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCATATATTACTAG
116947 GCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACA-AATTCCCTTGATTAAGCTTACTT
261 GCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTT
117011 TGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAACGTGTGGTCTGCATGGTTT
326 TGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAACGTGTGGTCTGCATGGTTT
117076 TGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCACTGAC
391 TGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCACTGAC
117141 CATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTTTGAACTTCAATTTC
456 CATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTTTGAACTTCAATTTC
117206 TATTATTAAAAATTTAAA
521 TATTATTAAAAATTTAAA
117224 ACACAGTCATTTAACGTGTGGTCTGCATGG--TTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
1 ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
117287 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
66 TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAA-T
*
117352 TCC-GTGATTAAGCTTACTTTGAACTTCAACTTCTATTA
130 TCCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTA
117390 ATTGATTTGA
Statistics
Matches: 1741, Mismatches: 13, Indels: 41
0.97 0.01 0.02
Matches are distributed among these distances:
529 57 0.03
530 23 0.01
531 30 0.02
532 36 0.02
533 418 0.24
534 375 0.22
535 182 0.10
536 84 0.05
537 89 0.05
538 28 0.02
539 153 0.09
540 266 0.15
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (538 bp):
ACACAGTCATTTAACGTGTGGTCTGCATGGTTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGT
TTACTCTATATATTACTAGGCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATT
CCTGTGATTAAGCTTACTTTGAACTTCAATTTCTATTATTAAAAATTTAAAACAGTCATTAACGT
GTGGTCTGCATGGTTTGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCATATATTACTAG
GCTTATTCACTGACCATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTT
TGAACTTCAATTTCTATTATTAAAAATTTAAAACACAGTCATTTAACGTGTGGTCTGCATGGTTT
TGCTTGCCGACTTGAAACTTTGAATTTAGGGTTTACTCTATATATTACTAGGCTTATTCACTGAC
CATTTCTCACTTCTTCAAATCAAAACATAATTCCCTTGATTAAGCTTACTTTGAACTTCAATTTC
TATTATTAAAAATTTAAA
Found at i:118781 original size:44 final size:44
Alignment explanation
Indices: 118733--118817 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
118723 TTAAATTCAT
* * *
118733 AAACATCACTATATGACATAACATTTTGCGGCATTTTTGGGAAC
1 AAACACCACTATATGACAGAACATTTAGCGGCATTTTTGGGAAC
*
118777 AAACACCACTATATGTCAGAACATTTAGCGGCATTTTTGGG
1 AAACACCACTATATGACAGAACATTTAGCGGCATTTTTGGG
118818 GAAAATGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (44 bp):
AAACACCACTATATGACAGAACATTTAGCGGCATTTTTGGGAAC
Found at i:118953 original size:41 final size:42
Alignment explanation
Indices: 118844--118967 Score: 107
Period size: 41 Copynumber: 3.1 Consensus size: 42
118834 AAAAGATAAA
* *
118844 TAGCGGCGTTTGG--AAAAACGCCGCCAAATATCATATCCTT
1 TAGCGGCGATTGGTAAAAAACGCCGCTAAATATCATATCCTT
** * * *
118884 TAGTTGCGATT-GTAGAAAACGCCACTAAATATTATTAT-CTT
1 TAGCGGCGATTGGTAAAAAACGCCGCTAAATATCA-TATCCTT
* * *
118925 TAGCGGCG-TTGGTAAAAAACGCGGCTAAA-AACATAACCTT
1 TAGCGGCGATTGGTAAAAAACGCCGCTAAATATCATATCCTT
118965 TAG
1 TAG
118968 TGGCATTTGT
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
39 3 0.05
40 18 0.28
41 40 0.62
42 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (42 bp):
TAGCGGCGATTGGTAAAAAACGCCGCTAAATATCATATCCTT
Found at i:120252 original size:22 final size:22
Alignment explanation
Indices: 120222--120264 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
120212 CCACTAAATT
*
120222 TTTATATCTAAAATTCTCAATA
1 TTTAAATCTAAAATTCTCAATA
**
120244 TTTAAATCTCCAATTCTCAAT
1 TTTAAATCTAAAATTCTCAAT
120265 TTCAATTTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTAAATCTAAAATTCTCAATA
Found at i:124771 original size:52 final size:54
Alignment explanation
Indices: 124709--124829 Score: 174
Period size: 54 Copynumber: 2.3 Consensus size: 54
124699 CCCATAGGGT
* * *
124709 GTACCGATACCCCTACGCTAA-TTTGGCTCCGAG-AAAACAGAATGTCAAATGG
1 GTACCGATACCCCTACGCCAATTTTGGCTCCGAGAAAAACAGAATGCCAAATAG
* * *
124761 GTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAATAGAATGCCTAATAG
1 GTACCGATACCCCTACGCCAATTTTGGCTCCGAGAAAAACAGAATGCCAAATAG
124815 GTACCGATACCCCTA
1 GTACCGATACCCCTA
124830 GTCATTTAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 19 0.31
53 12 0.20
54 30 0.49
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (54 bp):
GTACCGATACCCCTACGCCAATTTTGGCTCCGAGAAAAACAGAATGCCAAATAG
Done.