Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008704.1 Hibiscus syriacus cultivar Beakdansim tig00111743_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: 516901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:3715 original size:25 final size:24
Alignment explanation
Indices: 3673--3720 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
3663 ATTTATAATT
**
3673 TAATTTTATATCTTTTAACATTTTG
1 TAATTTTATATCCCTTAA-ATTTTG
3698 TAATTTTATATCCCTTAAATTTT
1 TAATTTTATATCCCTTAAATTTT
3721 CATTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.58
Consensus pattern (24 bp):
TAATTTTATATCCCTTAAATTTTG
Found at i:8056 original size:26 final size:23
Alignment explanation
Indices: 8023--8091 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 23
8013 ATTTTTTAAA
8023 TTAA-TTAAATTATAAAATACATT
1 TTAAGTTAAATTATAAAATAC-TT
8046 TAATAAGTT-AA-TATAAAAGTACTT
1 T--TAAGTTAAATTATAAAA-TACTT
8070 TTAAGTTAATATATATAAAATA
1 TTAAGTTAA-AT-TATAAAATA
8092 TTATGAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
22 6 0.16
23 2 0.05
24 11 0.29
25 10 0.26
26 9 0.24
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (23 bp):
TTAAGTTAAATTATAAAATACTT
Found at i:9749 original size:16 final size:16
Alignment explanation
Indices: 9728--9760 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9718 CCAAAAAAAA
9728 GAGAAAGGAGTAAACT
1 GAGAAAGGAGTAAACT
9744 GAGAAAGGAGTAAACT
1 GAGAAAGGAGTAAACT
9760 G
1 G
9761 TTAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.33, T:0.12
Consensus pattern (16 bp):
GAGAAAGGAGTAAACT
Found at i:10423 original size:2 final size:2
Alignment explanation
Indices: 10416--10488 Score: 101
Period size: 2 Copynumber: 36.5 Consensus size: 2
10406 TATTCAAGAA
*
10416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
10458 AT AT AT AT GT AT GT AT TT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10489 GTATTATTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11473 original size:2 final size:2
Alignment explanation
Indices: 11466--11521 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
11456 ATGTAACTGC
11466 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
11508 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
11522 CGATGAAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16268 original size:25 final size:26
Alignment explanation
Indices: 16221--16274 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
16211 ATTTAAATAG
16221 TTATATAAATTCTATAAAAAAAT-TA
1 TTATATAAATTCTATAAAAAAATATA
*
16246 TTATATAAATTACT-TATAAAAATATA
1 TTATATAAATT-CTATAAAAAAATATA
16272 TTA
1 TTA
16275 AAAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
TTATATAAATTCTATAAAAAAATATA
Found at i:17817 original size:6 final size:6
Alignment explanation
Indices: 17806--17841 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
17796 GTGCCACTTA
17806 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG
1 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG
17842 GTGGCAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:22820 original size:32 final size:31
Alignment explanation
Indices: 22773--22894 Score: 136
Period size: 32 Copynumber: 3.9 Consensus size: 31
22763 CTAAGGTGAC
*
22773 CCTTGGGTAGACTCTTAGGCCCCAAGATATT
1 CCTTGGGTAGACTCTTAGGCCCCAAGGTATT
** * * *
22804 CCCTTATGTAGGCTCTTAGGCCTCAAGGTGCTT
1 -CCTTGGGTAGACTCTTAGGCCCCAAGGT-ATT
* *
22837 CTTTGGGTAGACTCTTAGGCCTCAAGGTATT
1 CCTTGGGTAGACTCTTAGGCCCCAAGGTATT
* *
22868 CCTTGGGTAGGCTCTAAGGCCCCAAGG
1 CCTTGGGTAGACTCTTAGGCCCCAAGG
22895 AACTCCCTTA
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
31 25 0.34
32 47 0.64
33 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (31 bp):
CCTTGGGTAGACTCTTAGGCCCCAAGGTATT
Found at i:22894 original size:63 final size:64
Alignment explanation
Indices: 22775--22894 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 64
22765 AAGGTGACCC
* * *
22775 TTGGGTAGACTCTTAGGCCCCAAGATATTCCCTTATGTAGGCTCTTAGGCCTCAAGGTGCTTCT
1 TTGGGTAGACTCTTAGGCCCCAAGATATTCCCTTAGGTAGGCTCTAAGGCCCCAAGGTGCTTCT
* * *
22839 TTGGGTAGACTCTTAGGCCTCAAGGTATT-CCTTGGGTAGGCTCTAAGGCCCCAAGG
1 TTGGGTAGACTCTTAGGCCCCAAGATATTCCCTTAGGTAGGCTCTAAGGCCCCAAGG
22895 AACTCCCTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 23 0.46
64 27 0.54
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (64 bp):
TTGGGTAGACTCTTAGGCCCCAAGATATTCCCTTAGGTAGGCTCTAAGGCCCCAAGGTGCTTCT
Found at i:27059 original size:47 final size:47
Alignment explanation
Indices: 26970--27061 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
26960 GTAACTTACG
* *
26970 TGTTTAATATTTAAATTATCAGTTATTTAGACCATCATTTTTAATTT
1 TGTTTAATATTTAAATTATCAGTTATTTAAACCATCAGTTTTAATTT
* * *
27017 TGTTTAGTATTTAAATTATCAGTTATTTAAACTATTAGTTTTAAT
1 TGTTTAATATTTAAATTATCAGTTATTTAAACCATCAGTTTTAAT
27062 CCGTTGTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.53
Consensus pattern (47 bp):
TGTTTAATATTTAAATTATCAGTTATTTAAACCATCAGTTTTAATTT
Found at i:27279 original size:21 final size:21
Alignment explanation
Indices: 27161--27279 Score: 82
Period size: 21 Copynumber: 5.8 Consensus size: 21
27151 AAATGACCAA
**
27161 CAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGATTTTC
* ** *
27181 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGATTTTC
27201 CAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGATT-TTC
* * ** *
27222 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGATTTTC
* **
27243 CAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGATTTTC
27264 CAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
27280 ACACATAAAT
Statistics
Matches: 73, Mismatches: 22, Indels: 7
0.72 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 25 0.34
21 45 0.62
22 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (21 bp):
CAAAATCGCAACGCGATTTTC
Found at i:27515 original size:20 final size:20
Alignment explanation
Indices: 27266--27502 Score: 278
Period size: 20 Copynumber: 11.8 Consensus size: 20
27256 CGATTTTCCA
* *
27266 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
27286 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
27306 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * * *
27326 AAATCGCAATGCGTATTCGT
1 AAATCGCAACGAGAATCCGT
*
27346 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
* *
27366 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
27386 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
27406 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
* *
27426 AAATCGCAACGATAATCCAT
1 AAATCGCAACGAGAATCCGT
*
27446 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
27466 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
27486 AAATCGCAACGAGAATC
1 AAATCGCAACGAGAATC
27503 TATAAATCAC
Statistics
Matches: 186, Mismatches: 30, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
20 185 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:28237 original size:24 final size:24
Alignment explanation
Indices: 28198--28244 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
28188 AAATTTGGTC
28198 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
28222 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
28245 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:28436 original size:12 final size:12
Alignment explanation
Indices: 28419--28443 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28409 ATATAATCCT
28419 GAAGAAGAAAAA
1 GAAGAAGAAAAA
28431 GAAGAAGAAAAA
1 GAAGAAGAAAAA
28443 G
1 G
28444 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:30915 original size:33 final size:32
Alignment explanation
Indices: 30863--31024 Score: 148
Period size: 33 Copynumber: 4.8 Consensus size: 32
30853 CCATTACATT
30863 TCGCAATGCGGAAATGAAAATCGCAACGAGATAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGA-AA
* *
30897 TCGCAATGCGAAATGAAAATCGCAATGCGAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAAA
* * *
30929 T-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-G-AAA
30968 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGA-AA
*
31001 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
31025 TTGCGATTCT
Statistics
Matches: 105, Mismatches: 11, Indels: 25
0.74 0.08 0.18
Matches are distributed among these distances:
31 7 0.07
32 8 0.08
33 53 0.50
34 10 0.10
35 1 0.01
36 2 0.02
38 9 0.09
39 8 0.08
40 7 0.07
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (32 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:30919 original size:19 final size:19
Alignment explanation
Indices: 30863--31030 Score: 177
Period size: 19 Copynumber: 9.6 Consensus size: 19
30853 CCATTACATT
30863 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
30883 TCGCAA--CG--A-GATAA
1 TCGCAATGCGAAATGAAAA
30897 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
30916 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
30935 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
30949 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
30968 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
30987 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
31001 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
31020 TCGCATTGCGA
1 TCGCAATGCGA
31031 TTCTCCCATT
Statistics
Matches: 125, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
14 30 0.24
15 3 0.02
16 6 0.05
17 5 0.04
18 4 0.03
19 71 0.57
20 6 0.05
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:30942 original size:52 final size:52
Alignment explanation
Indices: 30863--31030 Score: 300
Period size: 52 Copynumber: 3.2 Consensus size: 52
30853 CCATTACATT
*
30863 TCGCAATGCGGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
30916 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
30968 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
31020 TCGCATTGCGA
1 TCGCAATGCGA
31031 TTCTCCCATT
Statistics
Matches: 112, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
52 103 0.92
53 9 0.08
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:31079 original size:19 final size:19
Alignment explanation
Indices: 31037--31136 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
31027 GCGATTCTCC
31037 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
31057 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
31076 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
31092 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
31109 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
31128 CATTGCGAT
1 CATTGCGAT
31137 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:31133 original size:52 final size:53
Alignment explanation
Indices: 31020--31136 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
31010 GAAATTAAAA
31020 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
31073 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
31125 TCGCATTGCGAT
1 TCGCATTGCGAT
31137 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:31262 original size:14 final size:14
Alignment explanation
Indices: 31243--31279 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
31233 CATCAATTAC
31243 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
31257 ACAAATCATCTTTT
1 ACAAATCAACTTTT
31271 ACAAATCAA
1 ACAAATCAA
31280 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:33279 original size:14 final size:14
Alignment explanation
Indices: 33260--33316 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
33250 GCGAAATGAA
*
33260 AATCGCAACGACAG
1 AATCGCAACGAAAG
33274 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
33291 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
33307 AATCGCAACG
1 AATCGCAACG
33317 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:33287 original size:33 final size:33
Alignment explanation
Indices: 33241--33333 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
33231 GCGAAACCAA
*
33241 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
33274 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
33307 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
33334 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:33298 original size:19 final size:19
Alignment explanation
Indices: 33204--33338 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
33194 TAGTTTACTT
* *
33204 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
33224 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
33243 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
33262 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
33276 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
33295 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
33309 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
33328 TCGCAATGCGA
1 TCGCAACGCGA
33339 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:33356 original size:19 final size:19
Alignment explanation
Indices: 33334--33462 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
33324 AAAATCGCAA
33334 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
33353 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
33367 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
33386 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
33400 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
33419 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
33438 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
33458 TGCGA
1 TGCGA
33463 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:33376 original size:33 final size:33
Alignment explanation
Indices: 33334--33425 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
33324 AAAATCGCAA
33334 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
33367 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
33400 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
33426 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:33665 original size:93 final size:93
Alignment explanation
Indices: 33506--33884 Score: 717
Period size: 93 Copynumber: 4.1 Consensus size: 93
33496 TTGAATGGAT
33506 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
33571 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
33599 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
33664 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
33692 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
33757 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
33785 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
33848 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
33876 AAATTTACT
1 AAATTTACT
33885 AAGCAATCTA
Statistics
Matches: 283, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
91 53 0.19
93 230 0.81
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:35610 original size:14 final size:14
Alignment explanation
Indices: 35591--35694 Score: 109
Period size: 14 Copynumber: 6.7 Consensus size: 14
35581 TTGAAATGAA
35591 AATCGCAACGAGAG
1 AATCGCAACGAGAG
35605 AATCGCAACGAGAG
1 AATCGCAACGAGAG
35619 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
35636 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
35652 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
35671 AATCGCAACGAGAG
1 AATCGCAACGAGAG
35685 AATCGCAACG
1 AATCGCAACG
35695 CGAAATGAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
14 42 0.54
15 1 0.01
16 8 0.10
17 8 0.10
18 1 0.01
19 18 0.23
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:35642 original size:33 final size:33
Alignment explanation
Indices: 35605--35711 Score: 196
Period size: 33 Copynumber: 3.2 Consensus size: 33
35595 GCAACGAGAG
* *
35605 AATCGCAACGAGAGAATCGCAACGCGAGATGAC
1 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
35638 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
35671 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
35704 AATCGCAA
1 AATCGCAA
35712 TGCGATTTTG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAACGCGAAATGAA
Found at i:35643 original size:19 final size:18
Alignment explanation
Indices: 35590--35716 Score: 88
Period size: 14 Copynumber: 7.8 Consensus size: 18
35580 GTTGAAATGA
35590 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
35605 -AATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
35619 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
35636 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
35652 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
35669 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
35685 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
35702 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
35717 TTTTGGTTTC
Statistics
Matches: 93, Mismatches: 4, Indels: 26
0.76 0.03 0.21
Matches are distributed among these distances:
14 38 0.41
16 15 0.16
17 12 0.13
19 28 0.30
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.09
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:35689 original size:47 final size:47
Alignment explanation
Indices: 35586--35694 Score: 125
Period size: 47 Copynumber: 2.3 Consensus size: 47
35576 TTTGGTTGAA
* * *
35586 ATGAAAATCGCAACGAGAGAATCGCAACGAGAGAATCGCAACGCGAG
1 ATGACAATCGCAACGAGAGAATCGCAACGAGAGAATCGAAACGCAAG
*
35633 ATGACAATCGCAACGAGAGAATCGCAACGCGA-AAT-GAAAATCGCAACG
1 ATGACAATCGCAACGAGAGAATCGCAACGAGAGAATCG-AAA-CGCAA-G
*
35681 A-GAGAATCGCAACG
1 ATGACAATCGCAACG
35695 CGAAATGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
45 1 0.02
46 5 0.09
47 46 0.85
48 2 0.04
ACGTcount: A:0.43, C:0.22, G:0.26, T:0.09
Consensus pattern (47 bp):
ATGACAATCGCAACGAGAGAATCGCAACGAGAGAATCGAAACGCAAG
Found at i:35747 original size:14 final size:14
Alignment explanation
Indices: 35728--35781 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
35718 TTTGGTTTCG
35728 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
35742 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
35761 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
35775 CGTTGCG
1 CGTTGCG
35782 CTTTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:35760 original size:33 final size:33
Alignment explanation
Indices: 35712--35792 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
35702 AAAATCGCAA
**
35712 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
35745 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
35778 TGCGCTTTTCATTTC
1 TGCGATTTTCATTTC
35793 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.07, C:0.23, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:35828 original size:41 final size:41
Alignment explanation
Indices: 35768--35845 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
35758 TCGCGTTGCG
* *
35768 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
35809 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
35846 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:35844 original size:21 final size:21
Alignment explanation
Indices: 35769--35844 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
35759 CGCGTTGCGA
*
35769 TTCTCTCGTTGCGCTTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
35790 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
35810 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
35831 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
35845 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:35971 original size:33 final size:33
Alignment explanation
Indices: 35924--35994 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
35914 AATACTAACT
* *
35924 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
35957 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
35990 TGAAA
1 TGAAA
35995 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:36228 original size:22 final size:22
Alignment explanation
Indices: 36176--36230 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
36166 TGGTTGTGAG
**
36176 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
36198 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
36220 GGATTTCTTCG
1 GGATTTCTTCG
36231 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:36401 original size:20 final size:20
Alignment explanation
Indices: 36376--36528 Score: 191
Period size: 20 Copynumber: 7.7 Consensus size: 20
36366 CTTTAAATAT
36376 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
36396 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
36416 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
36436 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
36456 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
36476 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
36496 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
36516 CGCGTTGCGATTT
1 CGCGTTGCGATTT
36529 TGGAAAATCG
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
20 114 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:36522 original size:60 final size:60
Alignment explanation
Indices: 36375--36569 Score: 203
Period size: 60 Copynumber: 3.2 Consensus size: 60
36365 GCTTTAAATA
*
36375 TCGCGTTGCGATTTACGGATACGCGTTGCGATATACGGATACGCATTGCGATTTACCCAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCATTGCGATTTACCCAT
* * * ****
36435 ACGCGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCATTGCGATTTACCCAT
* ** * * * * * **
36495 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT-TGGAAAATCGCAATGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTACCCAT
36556 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
36570 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
59 2 0.02
60 82 0.74
61 27 0.24
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCATTGCGATTTACCCAT
Found at i:36529 original size:20 final size:20
Alignment explanation
Indices: 36476--36570 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
36466 TTTACGGATA
* *
36476 CGCGTTGCGATTTAT-GTGTT
1 CGCGTTGCGATTT-TCATATT
36496 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
* * *
36516 CGCGTTGCGATTTTGGAAAAT
1 CGCGTTGCGATTTT-CATATT
**
36537 CGCAATGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
36557 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
36571 GGAAAATCGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.02
20 45 0.74
21 15 0.25
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (20 bp):
CGCGTTGCGATTTTCATATT
Found at i:36545 original size:21 final size:21
Alignment explanation
Indices: 36515--36638 Score: 108
Period size: 21 Copynumber: 6.0 Consensus size: 21
36505 ATTTTCATAT
*
36515 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * *
36536 TCGCAATGCGATTTT-CATAT
1 TCGCATTGCGATTTTGGAAAA
*
36556 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
36577 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
36598 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
36619 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
36639 CTGATTTGCG
Statistics
Matches: 77, Mismatches: 23, Indels: 6
0.73 0.22 0.06
Matches are distributed among these distances:
20 16 0.21
21 59 0.77
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:36554 original size:41 final size:41
Alignment explanation
Indices: 36501--36612 Score: 174
Period size: 41 Copynumber: 2.7 Consensus size: 41
36491 GTGTTCGCGT
36501 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
36542 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
*
36583 TGCGAATTTGT-ACTA-TCGCATTGCGATTTT
1 TGCG-ATTT-TCA-TATTCGCGTTGCGATTTT
36613 CAAGAATCGC
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
41 45 0.67
42 19 0.28
43 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (41 bp):
TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
Found at i:40851 original size:21 final size:20
Alignment explanation
Indices: 40825--40863 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
40815 AAAGGATTTT
40825 TTTAATAAAAAATATTTAAAA
1 TTTAAT-AAAAATATTTAAAA
*
40846 TTTAATTAAAATATTTAA
1 TTTAATAAAAATATTTAA
40864 GAAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAATAAAAATATTTAAAA
Found at i:44829 original size:22 final size:22
Alignment explanation
Indices: 44804--44875 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 22
44794 TCAAATGACC
* * *
44804 GAAAACGTGTTATAAAGACATA
1 GAAAACATGTCATAAAGACAAA
*
44826 GAAAACATATCATAAAGACAAA
1 GAAAACATGTCATAAAGACAAA
* * *
44848 TAAAATATGTCATAAAGACAGA
1 GAAAACATGTCATAAAGACAAA
44870 GAAAAC
1 GAAAAC
44876 GCGTCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.57, C:0.11, G:0.14, T:0.18
Consensus pattern (22 bp):
GAAAACATGTCATAAAGACAAA
Found at i:46114 original size:19 final size:19
Alignment explanation
Indices: 46087--46128 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
46077 TTAAAAATTT
*
46087 GATATATATCGATTTTTGA
1 GATACATATCGATTTTTGA
46106 GATACATATCGATTTTTGA
1 GATACATATCGATTTTTGA
46125 GATA
1 GATA
46129 TATAAGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (19 bp):
GATACATATCGATTTTTGA
Found at i:50010 original size:46 final size:46
Alignment explanation
Indices: 49953--50041 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
49943 TAATTTAATT
49953 CTCTTACTATAAAATGTAAATAAGTAAATTATTAGCTAATTCAGTG
1 CTCTTACTATAAAATGTAAATAAGTAAATTATTAGCTAATTCAGTG
49999 CTCTTACTATAAAATGTAAATAAGTAAATTATTAGCTAATTCA
1 CTCTTACTATAAAATGTAAATAAGTAAATTATTAGCTAATTCA
50042 ATTTTGCAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (46 bp):
CTCTTACTATAAAATGTAAATAAGTAAATTATTAGCTAATTCAGTG
Found at i:54519 original size:6 final size:6
Alignment explanation
Indices: 54508--54536 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
54498 AATGTAATTA
54508 TATATT TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATAT
54537 ATATCGCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:57851 original size:30 final size:30
Alignment explanation
Indices: 57815--57873 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
57805 AAAGAAACAA
57815 ACAAA-TTCTATCAACCGAAATCGTAAATCC
1 ACAAATTTC-ATCAACCGAAATCGTAAATCC
* *
57845 ACAAATTTCATCGATCGAAATCGTAAATC
1 ACAAATTTCATCAACCGAAATCGTAAATC
57874 AATTATTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.25
Consensus pattern (30 bp):
ACAAATTTCATCAACCGAAATCGTAAATCC
Found at i:63713 original size:12 final size:12
Alignment explanation
Indices: 63696--63726 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
63686 TCCAATCAAG
63696 TTTCTTCTGCGA
1 TTTCTTCTGCGA
*
63708 TTTCTTCTGTGA
1 TTTCTTCTGCGA
63720 TTTCTTC
1 TTTCTTC
63727 CGACTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.13, T:0.58
Consensus pattern (12 bp):
TTTCTTCTGCGA
Found at i:64201 original size:3 final size:3
Alignment explanation
Indices: 64193--64232 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
64183 TAAATATAAA
*
64193 TAT TAT TAT TAT TAT TAT TATT TAT TAT TAA TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TA
64233 CAACTATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 28 0.85
4 5 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:64219 original size:13 final size:13
Alignment explanation
Indices: 64193--64232 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
64183 TAAATATAAA
64193 TATTATTA-TTAT
1 TATTATTATTTAT
64205 TATTATTATTTAT
1 TATTATTATTTAT
*
64218 TATTAATATTTAT
1 TATTATTATTTAT
64231 TA
1 TA
64233 CAACTATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 8 0.31
13 18 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TATTATTATTTAT
Found at i:68310 original size:18 final size:18
Alignment explanation
Indices: 68279--68313 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68269 GATTGGAGGA
*
68279 TATTTTATTAATTTTAGT
1 TATTTAATTAATTTTAGT
*
68297 TATTTAATTTATTTTAG
1 TATTTAATTAATTTTAG
68314 GATAAACTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
TATTTAATTAATTTTAGT
Found at i:68896 original size:28 final size:28
Alignment explanation
Indices: 68860--68914 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
68850 CATTAAAAAA
*
68860 ATATTTTATTCTTATCTTAACTATAAAT
1 ATATTTTATTCTGATCTTAACTATAAAT
* *
68888 ATATTTTATTCTGATTTTAACTTTAAA
1 ATATTTTATTCTGATCTTAACTATAAA
68915 AAATCTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.55
Consensus pattern (28 bp):
ATATTTTATTCTGATCTTAACTATAAAT
Found at i:69195 original size:30 final size:31
Alignment explanation
Indices: 69155--69226 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
69145 AAATTATTAA
*
69155 ATATAATTTATCCTTA-TTTTAA-TATAAAAT
1 ATATATTTTATCCTTATTTTTAACT-TAAAAT
** *
69185 ATATATTTTATTTTTATTTTTAACTTAACAT
1 ATATATTTTATCCTTATTTTTAACTTAAAAT
69216 ATATATTTTAT
1 ATATATTTTAT
69227 TTTTATTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 13 0.36
31 22 0.61
32 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (31 bp):
ATATATTTTATCCTTATTTTTAACTTAAAAT
Found at i:69255 original size:31 final size:31
Alignment explanation
Indices: 69220--69303 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 31
69210 TAACATATAT
*
69220 ATTTTATTTTTATTTAAAAATATTTATGTTA
1 ATTTTATTTTAATTTAAAAATATTTATGTTA
* *
69251 ATTTTGTTTTAATTTAAAAATA--TATTTTA
1 ATTTTATTTTAATTTAAAAATATTTATGTTA
* * *
69280 TTTTTATCTTAATTTTAAAATATT
1 ATTTTATTTTAATTTAAAAATATT
69304 ATTATAATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 24 0.55
31 20 0.45
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (31 bp):
ATTTTATTTTAATTTAAAAATATTTATGTTA
Found at i:69299 original size:30 final size:29
Alignment explanation
Indices: 68975--69302 Score: 175
Period size: 30 Copynumber: 11.3 Consensus size: 29
68965 TTATTCCATC
* * **
68975 AAAAATATATTTTATTTTCATTTTAGCTT
1 AAAAATATATTTTATTTTTATCTTAATTT
* * * * *
69004 -AAAATATATTTTAATCTTACCATAACTT
1 AAAAATATATTTTATTTTTATCTTAATTT
*
69032 AAAAATATA-TAT-TTTTTATCTTAACTTTT
1 AAAAATATATTTTATTTTTATCTTAA--TTT
* * *
69061 AAAAATATATCTTATTTTTATTTTAACTT
1 AAAAATATATTTTATTTTTATCTTAATTT
* * * * *
69090 ATTAAATATATTATATTCTTAACTTAAATT
1 A-AAAATATATTTTATTTTTATCTTAATTT
* * * * * *
69120 ATTAAATATATTCTAGTCTTACCTTAAATT
1 A-AAAATATATTTTATTTTTATCTTAATTT
* * ** * *
69150 ATTAAATATAATTTATCCTTATTTTAATAT
1 A-AAAATATATTTTATTTTTATCTTAATTT
* *
69180 AAAATATATATTTTATTTTTATTTTTAACTT
1 AAAA-ATATATTTTATTTTTA-TCTTAATTT
*
69211 AACATATATATTTTATTTTTAT-TTAA---
1 AA-AAATATATTTTATTTTTATCTTAATTT
* * * * * *
69237 AAATATTTATGTTAATTTTGTTTTAATTT
1 AAAAATATATTTTATTTTTATCTTAATTT
69266 AAAAATATATTTTATTTTTATCTTAATTT
1 AAAAATATATTTTATTTTTATCTTAATTT
*
69295 TAAAATAT
1 AAAAATAT
69303 TATTATAATA
Statistics
Matches: 233, Mismatches: 53, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
25 15 0.06
26 6 0.03
27 8 0.03
28 23 0.10
29 58 0.25
30 86 0.37
31 36 0.15
32 1 0.00
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.54
Consensus pattern (29 bp):
AAAAATATATTTTATTTTTATCTTAATTT
Found at i:69382 original size:30 final size:31
Alignment explanation
Indices: 69342--69415 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 31
69332 AGGTAAGGAT
*
69342 AAAT-TATTTTTTAAAGTTAATAA-AA-ATTA
1 AAATATATTTTTTAAAGTTAA-AATAAGAATA
*
69371 AAATATA-TTTTT-ATGTTAAAATAAGAATA
1 AAATATATTTTTTAAAGTTAAAATAAGAATA
69400 AAATATATATTTTTAA
1 AAATATAT-TTTTTAA
69416 TGTTTAGATG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
27 2 0.05
28 8 0.22
29 19 0.51
30 2 0.05
31 5 0.14
32 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (31 bp):
AAATATATTTTTTAAAGTTAAAATAAGAATA
Found at i:69383 original size:29 final size:30
Alignment explanation
Indices: 69341--69415 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 30
69331 AAGGTAAGGA
*
69341 TAAATTAT-TTTTTAAAGTT-AATAAAAAT
1 TAAAATATATTTTTAAAGTTAAATAAAAAT
* *
69369 TAAAATATATTTTT-ATGTTAAAATAAGAAT
1 TAAAATATATTTTTAAAGTT-AAATAAAAAT
*
69399 AAAATATATATTTTTAA
1 TAAA-ATATATTTTTAA
69416 TGTTTAGATG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
28 11 0.29
29 5 0.13
30 11 0.29
31 10 0.26
32 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (30 bp):
TAAAATATATTTTTAAAGTTAAATAAAAAT
Found at i:69411 original size:31 final size:31
Alignment explanation
Indices: 69360--69419 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
69350 TTTTAAAGTT
*
69360 AATAAAAATTAAAATATATTTTT-ATGTTAA
1 AATAAAAATAAAAATATATTTTTAATGTTAA
*
69390 AATAAGAATAAAATATATATTTTTAATGTT
1 AATAAAAATAAAA-ATATATTTTTAATGTT
69420 TAGATGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 11 0.42
31 10 0.38
32 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (31 bp):
AATAAAAATAAAAATATATTTTTAATGTTAA
Found at i:72325 original size:2 final size:2
Alignment explanation
Indices: 72318--72344 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
72308 ATATTTGCCC
72318 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
72345 GAAGCCTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74947 original size:167 final size:167
Alignment explanation
Indices: 74671--75007 Score: 647
Period size: 167 Copynumber: 2.0 Consensus size: 167
74661 TTGACAAGTC
*
74671 TTGCATTAAAAGGTGTGAGAACATATGTTTATAAAAACAAAACTGGTGTCCATTTTGGATGAAAT
1 TTGCATTAAAAGGAGTGAGAACATATGTTTATAAAAACAAAACTGGTGTCCATTTTGGATGAAAT
74736 ACCTTCATAAAATAAATATTAATGGCAAGATTTTCTACAACTGTGTTCCATTCTGGAACTTGTTT
66 ACCTTCATAAAATAAATATTAATGGCAAGATTTTCTACAACTGTGTTCCATTCTGGAACTTGTTT
74801 CTACACTTCTTTTAATGCCAAAATTAAGAAAGATGAG
131 CTACACTTCTTTTAATGCCAAAATTAAGAAAGATGAG
*
74838 TTGCATTAAAAGGAGTGATAACATATGTTTATAAAAACAAAACTGGTGTCCATTTTGGATGAAAT
1 TTGCATTAAAAGGAGTGAGAACATATGTTTATAAAAACAAAACTGGTGTCCATTTTGGATGAAAT
*
74903 ACCTTCATAAAATAAATATTAATGGCAAGATTTTCTACAACTGTGTTCTATTCTGGAACTTGTTT
66 ACCTTCATAAAATAAATATTAATGGCAAGATTTTCTACAACTGTGTTCCATTCTGGAACTTGTTT
74968 CTACACTTCTTTTAATGCCAAAATTAAGAAAGATGAG
131 CTACACTTCTTTTAATGCCAAAATTAAGAAAGATGAG
75005 TTG
1 TTG
75008 TATGATTTGA
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 167 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.35
Consensus pattern (167 bp):
TTGCATTAAAAGGAGTGAGAACATATGTTTATAAAAACAAAACTGGTGTCCATTTTGGATGAAAT
ACCTTCATAAAATAAATATTAATGGCAAGATTTTCTACAACTGTGTTCCATTCTGGAACTTGTTT
CTACACTTCTTTTAATGCCAAAATTAAGAAAGATGAG
Found at i:75470 original size:17 final size:17
Alignment explanation
Indices: 75445--75477 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
75435 CTATTCAAGG
75445 ATAACTTAAACAAATTA
1 ATAACTTAAACAAATTA
*
75462 ATAATTTAAACAAATT
1 ATAACTTAAACAAATT
75478 TTAAAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAACTTAAACAAATTA
Found at i:77216 original size:65 final size:64
Alignment explanation
Indices: 77082--77242 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 64
77072 TCAGTGCATC
*
77082 GGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCT
1 GGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCT
* * * *
77146 GGTGCATCGATGCATCAAATGCATTCGATGCTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-
1 GGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATAGCCACAGTGCATCGATGCATGGC
77209 T
64 T
* *
77210 ATGTGCATCGATGCATGAAATGCATTCGATGTT
1 -GGTGCATCGATGCATAAAATGCATTCGATGTT
77243 CAATTTAATT
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
64 32 0.37
65 52 0.60
66 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (64 bp):
GGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCT
Found at i:79998 original size:24 final size:24
Alignment explanation
Indices: 79929--80008 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
79919 CATGACCTTG
79929 TGCATCGATGCACATTC-AAGGCG-
1 TGCATCGATGCACATTCAAAGG-GA
*
79952 TGCATCGATG--CA-TCAACA-TGA
1 TGCATCGATGCACATTCAA-AGGGA
*
79973 TGAATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTCAAAGGGA
79997 TGCATCGATGCA
1 TGCATCGATGCA
80009 TTGTTAAGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
20 3 0.07
21 12 0.26
22 1 0.02
23 13 0.28
24 17 0.37
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (24 bp):
TGCATCGATGCACATTCAAAGGGA
Found at i:86614 original size:21 final size:21
Alignment explanation
Indices: 86557--86614 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 21
86547 ATCATTCATA
**
86557 TAATAAA-ATATAATTATTTG
1 TAATAAATATATAAACATTTG
* * *
86577 TAA-AACTAAAAAAACATTTG
1 TAATAAATATATAAACATTTG
86597 TAATAAATATATAAACAT
1 TAATAAATATATAAACAT
86615 AGGTTATTTG
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 11 0.39
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (21 bp):
TAATAAATATATAAACATTTG
Found at i:87004 original size:22 final size:23
Alignment explanation
Indices: 86976--87033 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
86966 GTTTATTGTC
*
86976 AAAAATTACAATAACAT-ACTAA
1 AAAAATTACAATAACATAAATAA
**
86998 AAAAATTA-AATATTATAAATAA
1 AAAAATTACAATAACATAAATAA
*
87020 ATAAATTACAATAA
1 AAAAATTACAATAA
87034 AGAAACATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 6 0.21
22 19 0.66
23 4 0.14
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAAATTACAATAACATAAATAA
Found at i:87569 original size:23 final size:23
Alignment explanation
Indices: 87543--87604 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
87533 ATAACTAAAC
* *
87543 AAACTAACAAACAAATTTGAAAT
1 AAACTAACAAATAAATTCGAAAT
* * *
87566 AAACAAATACATAAATTCGAAAT
1 AAACTAACAAATAAATTCGAAAT
87589 AAA-TAAACAAATAAAT
1 AAACT-AACAAATAAAT
87605 AAATTTGAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.65, C:0.11, G:0.03, T:0.21
Consensus pattern (23 bp):
AAACTAACAAATAAATTCGAAAT
Found at i:87594 original size:4 final size:4
Alignment explanation
Indices: 87562--87649 Score: 61
Period size: 4 Copynumber: 20.8 Consensus size: 4
87552 AACAAATTTG
* * *
87562 AAAT AAAC AAAT ACAT AAATT CGAAAT AAAT AAAC AAAT AAAT AAATTT
1 AAAT AAAT AAAT AAAT AAA-T --AAAT AAAT AAAT AAAT AAAT AAA--T
* **
87611 GAAAT AAAT GAAT AAAT CCA- AAAT AAAT AAAT AAAT AAA
1 -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
87650 AATTACCAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
3 1 0.02
4 54 0.83
5 2 0.03
6 2 0.03
7 6 0.09
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:87615 original size:23 final size:23
Alignment explanation
Indices: 87555--87627 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 23
87545 ACTAACAAAC
*
87555 AAATTTGAAATAAACAAATACAT
1 AAATTTGAAATAAACAAATAAAT
*
87578 AAATTCGAAATAAATAAACAAATAAAT
1 AAATTTG----AAATAAACAAATAAAT
**
87605 AAATTTGAAATAAATGAATAAAT
1 AAATTTGAAATAAACAAATAAAT
87628 CCAAAATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
23 20 0.49
27 21 0.51
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (23 bp):
AAATTTGAAATAAACAAATAAAT
Found at i:87617 original size:15 final size:14
Alignment explanation
Indices: 87570--87619 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
87560 TGAAATAAAC
*
87570 AAATACATAAATTCG
1 AAATAAATAAATT-G
*
87585 AAATAAATAAA--C
1 AAATAAATAAATTG
87597 AAATAAATAAATTTG
1 AAATAAATAAA-TTG
87612 AAATAAAT
1 AAATAAAT
87620 GAATAAATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 11 0.38
15 18 0.62
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (14 bp):
AAATAAATAAATTG
Found at i:87619 original size:19 final size:19
Alignment explanation
Indices: 87597--87646 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
87587 ATAAATAAAC
***
87597 AAATAAATAAATTTGAAAT
1 AAATAAATAAATCCAAAAT
*
87616 AAATGAATAAATCCAAAAT
1 AAATAAATAAATCCAAAAT
87635 AAATAAATAAAT
1 AAATAAATAAAT
87647 AAAAATTACC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AAATAAATAAATCCAAAAT
Found at i:87627 original size:27 final size:27
Alignment explanation
Indices: 87508--87619 Score: 106
Period size: 27 Copynumber: 4.1 Consensus size: 27
87498 CAAAACAAAC
* *
87508 AAATAAACAAAAAAATAAATTCAAAAT
1 AAATAAACAAATAAATAAATTCGAAAT
* *
87535 AACTAAACAAACT-AACAAA--C-AAATTT
1 AAATAAACAAA-TAAATAAATTCGAAA--T
*
87561 GAAATAAACAAATACATAAATTCGAAAT
1 -AAATAAACAAATAAATAAATTCGAAAT
*
87589 AAATAAACAAATAAATAAATTTGAAAT
1 AAATAAACAAATAAATAAATTCGAAAT
87616 AAAT
1 AAAT
87620 GAATAAATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
24 3 0.04
25 1 0.01
26 2 0.03
27 58 0.84
28 1 0.01
29 1 0.01
30 3 0.04
ACGTcount: A:0.66, C:0.10, G:0.03, T:0.21
Consensus pattern (27 bp):
AAATAAACAAATAAATAAATTCGAAAT
Found at i:88150 original size:2 final size:2
Alignment explanation
Indices: 88097--88131 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
88087 AGGATTTTTA
88097 AT AT A- 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
88132 TGTTTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93489 original size:24 final size:24
Alignment explanation
Indices: 93430--93480 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
93420 AATTGAGTTA
**
93430 AACATAAATGAACGAACATAAACG
1 AACATAACCGAACGAACATAAACG
*
93454 AACATAACCGAACGAACATAACCG
1 AACATAACCGAACGAACATAAACG
93478 AAC
1 AAC
93481 GTTCACGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.24, G:0.12, T:0.10
Consensus pattern (24 bp):
AACATAACCGAACGAACATAAACG
Found at i:101888 original size:15 final size:15
Alignment explanation
Indices: 101868--101896 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
101858 TGGCCGACCG
101868 AACCGAATTAACCAT
1 AACCGAATTAACCAT
101883 AACCGAATTAACCA
1 AACCGAATTAACCA
101897 AACTTGTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
AACCGAATTAACCAT
Found at i:102071 original size:21 final size:20
Alignment explanation
Indices: 102045--102088 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
102035 TAAATATTTT
*
102045 TTAATTCAAAAAAGTTTATAA
1 TTAATTCAAAAAA-TATATAA
* *
102066 TTAATTTAAATAATATATAA
1 TTAATTCAAAAAATATATAA
102086 TTA
1 TTA
102089 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TTAATTCAAAAAATATATAA
Found at i:102331 original size:182 final size:183
Alignment explanation
Indices: 102023--102410 Score: 620
Period size: 182 Copynumber: 2.1 Consensus size: 183
102013 TTTTCTAATT
* * * * * *
102023 TATATAAAAAATTAAATATTTTTTAATTCAAAAAAGTTTATAATTAATTTAAATAATATATAATT
1 TATATAATATATTTAATATTTTTTAATTAAAAAAAGCTTACAATTAATTTAAATAATATATAATT
* *
102088 ATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
66 ATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTA
**
102153 GATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTT-AGCCCATATGTTA
131 GATCTTAAATTATTAATTGGGTTTTAAATAATTTGGG-TTGAGCCCATATGTTA
102206 TATATAATATATTTAATATTTTTTAATTAAAAAACAGCTTACAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTAAAAAA-AGCTTACAATTAATTTAAATAATATATAAT
*
102271 TATAAAATAAAAAATTTATAT-AA-TTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
65 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
102334 AGATCTTAAATTATTAATTGGGTTTTAAATAATTTGGGTTGAGCCCATATGTTA
130 AGATCTTAAATTATTAATTGGGTTTTAAATAATTTGGGTTGAGCCCATATGTTA
102388 TATATAATATATATTTAATATTT
1 TATAT-A-ATATATTTAATATTT
102411 AAAATTTAAT
Statistics
Matches: 190, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
181 2 0.01
182 93 0.49
183 33 0.17
184 62 0.33
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (183 bp):
TATATAATATATTTAATATTTTTTAATTAAAAAAAGCTTACAATTAATTTAAATAATATATAATT
ATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTA
GATCTTAAATTATTAATTGGGTTTTAAATAATTTGGGTTGAGCCCATATGTTA
Found at i:109839 original size:3 final size:3
Alignment explanation
Indices: 109833--109868 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
109823 TAAACAATTA
109833 ATT ATT ATT AATT ATT ATT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
109869 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:109859 original size:21 final size:20
Alignment explanation
Indices: 109833--109874 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
109823 TAAACAATTA
109833 ATTATTATTAATTATTATTTT
1 ATTATTATT-ATTATTATTTT
*
109854 ATTATTATTATTATTTTTTT
1 ATTATTATTATTATTATTTT
109874 A
1 A
109875 AAATAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTATTATTATTATTATTTT
Found at i:109860 original size:14 final size:15
Alignment explanation
Indices: 109837--109865 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
109827 CAATTAATTA
109837 TTATTAATTATTATT
1 TTATTAATTATTATT
109852 TTATT-ATTATTATT
1 TTATTAATTATTATT
109866 ATTTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTAATTATTATT
Found at i:109871 original size:18 final size:18
Alignment explanation
Indices: 109834--109870 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
109824 AAACAATTAA
109834 TTATTATTAATTATTATT
1 TTATTATTAATTATTATT
109852 TTATTATT-ATTATTATT
1 TTATTATTAATTATTATT
109869 TT
1 TT
109871 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTATTAATTATTATT
Found at i:112350 original size:25 final size:25
Alignment explanation
Indices: 112311--112403 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
112301 AGTTAGGGGA
*
112311 TTAGGG-TTGAGACCCTAAATTATT
1 TTAGGGTTTGAAACCCTAAATTATT
112335 TTAGGGTTTGAAACCCT-AATCTGA-T
1 TTAGGGTTTGAAACCCTAAAT-T-ATT
*
112360 TTAGGGTTTGAAACCCTAAATTGTT
1 TTAGGGTTTGAAACCCTAAATTATT
112385 TTAGGGTTTGAAACCCTAA
1 TTAGGGTTTGAAACCCTAA
112404 TCTGATGGGT
Statistics
Matches: 62, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
24 9 0.15
25 49 0.79
26 4 0.06
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAAATTATT
Found at i:112387 original size:50 final size:49
Alignment explanation
Indices: 112311--112409 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 49
112301 AGTTAGGGGA
*
112311 TTAGGGTTGAGACCCTAAATTATTTTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTGAAACCCTAAATTATTTTAGGGTTTGAAACCCTAATCTGAT
*
112360 TTAGGGTTTGAAACCCTAAATTGTTTTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGG-TTGAAACCCTAAATTATTTTAGGGTTTGAAACCCTAATCTGAT
112410 GGGTTGGTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 6 0.13
50 41 0.87
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (49 bp):
TTAGGGTTGAAACCCTAAATTATTTTAGGGTTTGAAACCCTAATCTGAT
Found at i:112583 original size:3 final size:3
Alignment explanation
Indices: 112538--112567 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
112528 ATATATAATT
112538 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
112568 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:115740 original size:7 final size:7
Alignment explanation
Indices: 115597--115788 Score: 52
Period size: 7 Copynumber: 27.9 Consensus size: 7
115587 TAGTAAATCG
115597 ATATT-T
1 ATATTAT
115603 ATA-TAT
1 ATATTAT
115609 -TATTAT
1 ATATTAT
*
115615 ATAGTGTGT
1 ATA-T-TAT
*
115624 ATATTAC
1 ATATTAT
*
115631 ATTATAAT
1 A-TATTAT
115639 AT-TTAT
1 ATATTAT
115645 A-ATATAT
1 ATAT-TAT
115652 AATATTAT
1 -ATATTAT
*
115660 ATAGTAT
1 ATATTAT
* *
115667 A-GTTAC
1 ATATTAT
*
115673 ATATTTT
1 ATATTAT
*
115680 TTATTAGT
1 ATATTA-T
* *
115688 GTATAAT
1 ATATTAT
115695 ATATT-T
1 ATATTAT
*
115701 -TATTTT
1 ATATTAT
*
115707 ATATAAT
1 ATATTAT
*
115714 ATATCTAC
1 ATAT-TAT
115722 ATAGTATAT
1 ATA-T-TAT
115731 ATATTAT
1 ATATTAT
115738 ATA-TA-
1 ATATTAT
*
115743 GTATTAT
1 ATATTAT
115750 ATATTA-
1 ATATTAT
*
115756 ATATATAC
1 ATAT-TAT
115764 ATCATTA-
1 AT-ATTAT
115771 ATA-TA-
1 ATATTAT
115776 ATATTAT
1 ATATTAT
115783 ATATTA
1 ATATTA
115789 CATTAATATT
Statistics
Matches: 136, Mismatches: 27, Indels: 45
0.65 0.13 0.22
Matches are distributed among these distances:
5 14 0.10
6 28 0.21
7 54 0.40
8 25 0.18
9 15 0.11
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (7 bp):
ATATTAT
Found at i:115781 original size:33 final size:35
Alignment explanation
Indices: 115707--115791 Score: 104
Period size: 33 Copynumber: 2.5 Consensus size: 35
115697 ATTTTATTTT
* *
115707 ATATAATATATCTACATAGTATATATATTATATATA
1 ATATTATATAT-TACATAGTATACATATTATATATA
*
115743 GTATTATATATTA-ATA-TATACATCATTA-ATATA
1 ATATTATATATTACATAGTATACAT-ATTATATATA
115776 ATATTATATATTACAT
1 ATATTATATATTACAT
115792 TAATATTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
33 23 0.53
34 9 0.21
35 2 0.05
36 9 0.21
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (35 bp):
ATATTATATATTACATAGTATACATATTATATATA
Found at i:115867 original size:15 final size:17
Alignment explanation
Indices: 115706--115871 Score: 73
Period size: 17 Copynumber: 9.8 Consensus size: 17
115696 TATTTTATTT
115706 TATATA-ATATATCTACA
1 TATATATATATAT-TACA
* *
115723 TA-GTATATATATTATA
1 TATATATATATATTACA
115739 TATAGTATTATATATTA-A
1 TATA-TA-TATATATTACA
* *
115757 TATATACAT-CATTA-A
1 TATATATATATATTACA
115772 TATAATATTATATATTACA
1 TAT-ATA-TATATATTACA
* *
115791 T-TAATATTTAGTATTA-T
1 TAT-ATATATA-TATTACA
* * * **
115808 TATTTAGATCTACGCTTGTA
1 TATATATATATA---TTACA
115828 TATAT-TATATATTACA
1 TATATATATATATTACA
115844 TATATATATATATTACA
1 TATATATATATATTACA
115861 T-TA-ATATATAT
1 TATATATATATAT
115872 GGTAAAACAT
Statistics
Matches: 114, Mismatches: 20, Indels: 32
0.69 0.12 0.19
Matches are distributed among these distances:
15 16 0.14
16 24 0.21
17 31 0.27
18 22 0.19
19 17 0.15
20 4 0.04
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (17 bp):
TATATATATATATTACA
Found at i:120301 original size:2 final size:2
Alignment explanation
Indices: 120278--120324 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
120268 AATAAATAAT
*
120278 TA TA TT TA TA -A TA T- TA -A 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
120317 TA TA TA TA
1 TA TA TA TA
120325 AATTATCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122010 original size:2 final size:2
Alignment explanation
Indices: 122003--122037 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
121993 TATTGAACCG
122003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122038 ATGAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:124093 original size:34 final size:34
Alignment explanation
Indices: 124019--124085 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
124009 GGTTGTGATG
** *
124019 GCCGTGGCCGAAAAGGACGATGTTGGTGGCAATA
1 GCCGTGGCCGAAAAGGACGACATCGGTGGCAATA
124053 GCCGTGGCC-ATAAAGGACGACATCGGTGGCAAT
1 GCCGTGGCCGA-AAAGGACGACATCGGTGGCAAT
124086 GATCGTGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.27, C:0.21, G:0.36, T:0.16
Consensus pattern (34 bp):
GCCGTGGCCGAAAAGGACGACATCGGTGGCAATA
Found at i:125837 original size:29 final size:29
Alignment explanation
Indices: 125804--125863 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
125794 AGGGATGTGA
*
125804 TTGGAATGT-TCAAAACTTTGGGGATTAAT
1 TTGGAATGTCT-AAAACTTTGGGGACTAAT
*
125833 TTGGAATGTCTAAAAGTTTGGGGACTAAT
1 TTGGAATGTCTAAAACTTTGGGGACTAAT
125862 TT
1 TT
125864 AAAATGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (29 bp):
TTGGAATGTCTAAAACTTTGGGGACTAAT
Found at i:151037 original size:20 final size:20
Alignment explanation
Indices: 151012--151049 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
151002 AAATATTCTT
151012 ATTATGTGTTTAGTTTACAA
1 ATTATGTGTTTAGTTTACAA
151032 ATTATGTGTTTAGTTTAC
1 ATTATGTGTTTAGTTTAC
151050 GGATGTGATT
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:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTATGTGTTTAGTTTACAA
Found at i:156484 original size:21 final size:22
Alignment explanation
Indices: 156448--156497 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
156438 TTATTTTCAG
*
156448 TAAATT-ATTGTTA-TTTAAAA
1 TAAATTAATTGTCATTTTAAAA
156468 TAAATTAATTGTCATTTTTAAAA
1 TAAATTAATTGTCA-TTTTAAAA
156491 TAAATTA
1 TAAATTA
156498 GGAATCTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 6 0.23
23 14 0.54
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (22 bp):
TAAATTAATTGTCATTTTAAAA
Found at i:168168 original size:19 final size:19
Alignment explanation
Indices: 168144--168180 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
168134 ATGACTAACA
*
168144 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
168163 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
168181 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:168310 original size:20 final size:20
Alignment explanation
Indices: 168287--168406 Score: 136
Period size: 20 Copynumber: 5.9 Consensus size: 20
168277 GAATATGTAA
168287 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
** **
168307 ATCGCAACATGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
168327 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
**
168348 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
168368 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
168389 ATCGCAACGCGATTCTGA
1 ATCGCAACGCGATTCTGA
168407 AGCGATCCTG
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
19 4 0.05
20 46 0.56
21 28 0.34
22 4 0.05
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:168331 original size:41 final size:41
Alignment explanation
Indices: 168286--168401 Score: 205
Period size: 41 Copynumber: 2.8 Consensus size: 41
168276 CGAATATGTA
*
168286 AATCGCAACGCGATTCTGACTATCGCAACATGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACACGATAATACAT
*
168327 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACACGATAATACAT
*
168368 AATCGCAACGCGATTCTGACTATCGCAACGCGAT
1 AATCGCAACGCGATTCTGACTATCGCAACACGAT
168402 TCTGAAGCGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
AATCGCAACGCGATTCTGACTATCGCAACACGATAATACAT
Found at i:169123 original size:20 final size:20
Alignment explanation
Indices: 169049--169124 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 20
169039 GCAATTTTAG
169049 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCAT
**
169068 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATTTTCAT
** * *
169088 TTTCATGTTACAATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
169108 TTTCGTGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
169125 AAGTTTTAGA
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 17 0.38
20 28 0.62
ACGTcount: A:0.14, C:0.17, G:0.18, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:171044 original size:20 final size:20
Alignment explanation
Indices: 171021--171086 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
171011 ACTTAAAATT
171021 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
*
171041 GCAACGCGGAAATGACTATC
1 GCAACGCGAAAATGACTATC
* *
171061 GCAATGC-AAATTTGACTATC
1 GCAACGCGAAA-ATGACTATC
171081 GCAACG
1 GCAACG
171087 GGATAATCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 2 0.05
20 38 0.95
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:171128 original size:33 final size:34
Alignment explanation
Indices: 171082--171153 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
171072 TTGACTATCG
*
171082 CAACGGGATAATCGCAATGCG-AAATAAAAATCA
1 CAACGGGAAAATCGCAATGCGAAAATAAAAATCA
* * * *
171115 CAACGTGAAAATCGTAATGCGAAAATGAAAATCG
1 CAACGGGAAAATCGCAATGCGAAAATAAAAATCA
171149 CAACG
1 CAACG
171154 CGAATTTAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.47, C:0.18, G:0.19, T:0.15
Consensus pattern (34 bp):
CAACGGGAAAATCGCAATGCGAAAATAAAAATCA
Found at i:171156 original size:20 final size:20
Alignment explanation
Indices: 171120--171157 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
171110 AATCACAACG
* *
171120 TGAAAATCGTAATGCGAAAA
1 TGAAAATCGCAACGCGAAAA
171140 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
171158 TTTAGTTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (20 bp):
TGAAAATCGCAACGCGAAAA
Found at i:171175 original size:19 final size:19
Alignment explanation
Indices: 171153--171195 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
171143 AAATCGCAAC
*
171153 GCGA-ATTTAGTTTCGCGTT
1 GCGATATTTA-TTTCGCATT
*
171172 GCGATTTTTATTTCGCATT
1 GCGATATTTATTTCGCATT
171191 GCGAT
1 GCGAT
171196 TATCTTGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (19 bp):
GCGATATTTATTTCGCATT
Found at i:171196 original size:19 final size:20
Alignment explanation
Indices: 171158--171196 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
171148 GCAACGCGAA
*
171158 TTTAGTTTCGCGTTGCGATT
1 TTTAGTTTCGCATTGCGATT
171178 TTTA-TTTCGCATTGCGATT
1 TTTAGTTTCGCATTGCGATT
171197 ATCTTGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTAGTTTCGCATTGCGATT
Found at i:171848 original size:21 final size:21
Alignment explanation
Indices: 171755--171862 Score: 83
Period size: 21 Copynumber: 5.1 Consensus size: 21
171745 GCCCGACTCA
* *
171755 CCTGTCATCATTCAAGTGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
171776 TCT-CCTATCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* ** * *
171797 CCTATCATCCCTCAATAGTCC
1 CCTGTCATCGTTCAAGAGGCC
**
171818 CCTCCCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
171839 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
171860 CCT
1 CCT
171863 CCCACCATTC
Statistics
Matches: 65, Mismatches: 20, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.19, C:0.36, G:0.18, T:0.27
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:171863 original size:42 final size:42
Alignment explanation
Indices: 171755--171877 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
171745 GCCCGACTCA
* *
171755 CCTGTCATCATTCAAGTGG-CCTCTCCTATCGTTCAAGAGGCC
1 CCTGTCATCATTCAAGAGGTCC-CTCCCATCGTTCAAGAGGCC
* ** *
171797 CCTATCATCCCTCAATA-GTCCCCTCCCATCGTTCAAGAGGCC
1 CCTGTCATCATTCAAGAGGT-CCCTCCCATCGTTCAAGAGGCC
* * * *
171839 CCTGTCATCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 CCTGTCATCATTCAAGAGGTCCCTCCCATCGTTCAAGAG
171878 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 60 0.92
43 4 0.06
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.25
Consensus pattern (42 bp):
CCTGTCATCATTCAAGAGGTCCCTCCCATCGTTCAAGAGGCC
Found at i:173286 original size:14 final size:14
Alignment explanation
Indices: 173267--173303 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
173257 GCTTGTTTAA
173267 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
173281 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
173295 TTGATTTGT
1 TTGATTTGT
173304 TTCATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:173462 original size:20 final size:20
Alignment explanation
Indices: 173437--173497 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
173427 AACGCTAAAC
*
173437 TCAAAATCACAATGTGAAAG
1 TCAAAATCACAATGCGAAAG
*
173457 TCAAAATCGCAATGCGAAAG
1 TCAAAATCACAATGCGAAAG
* * *
173477 CCAAAATCGCAACGCGAAAG
1 TCAAAATCACAATGCGAAAG
173497 T
1 T
173498 TAATTCGTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (20 bp):
TCAAAATCACAATGCGAAAG
Found at i:173564 original size:20 final size:20
Alignment explanation
Indices: 173539--173647 Score: 173
Period size: 20 Copynumber: 5.5 Consensus size: 20
173529 GCGATTTTCT
* *
173539 CGTTGCGATAGTCAACTTCC
1 CGTTGCGATAGTCAAATTCG
* *
173559 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
173579 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
173599 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
173619 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
173639 CGTTGCGAT
1 CGTTGCGAT
173648 TTTTGCGTTG
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:173677 original size:20 final size:20
Alignment explanation
Indices: 173649--173689 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
173639 CGTTGCGATT
* *
173649 TTTGCGTTGTGATAGTCAAA
1 TTTGAGTTGCGATAGTCAAA
*
173669 TTTGAGTTGCGATATTCAAA
1 TTTGAGTTGCGATAGTCAAA
173689 T
1 T
173690 GAATGTGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (20 bp):
TTTGAGTTGCGATAGTCAAA
Found at i:173912 original size:140 final size:140
Alignment explanation
Indices: 173660--173942 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
173650 TTGCGTTGTG
* *
173660 ATAGTCAAATTTGAGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGAGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAAATCA
173725 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
173790 AATACACATA
131 AATACACATA
*
173800 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAAATCA
1 ATAGTCAAATTCGAGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAAATCA
173865 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
173930 AATACACATA
131 AATACACATA
173940 ATA
1 ATA
173943 CAACGTTTGC
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCGAGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAAATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:176343 original size:24 final size:24
Alignment explanation
Indices: 176292--176343 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
176282 AACTGAGTAT
* *
176292 TGACCAAGATCAAAGTCCGAGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
176316 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
176340 TGAC
1 TGAC
176344 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:177173 original size:20 final size:20
Alignment explanation
Indices: 177148--177277 Score: 129
Period size: 20 Copynumber: 6.5 Consensus size: 20
177138 TTGAAATTCA
*
177148 GCGTTGCGACAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
*
177168 GCGTTGCGATTGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
* **
177188 GAGTTGCGATTATGT-ATTATC
1 GCGTTGCGA-TA-GTCAGAATC
177209 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
* * *
177229 GCGTTGCGAT-TTACATATTC
1 GCGTTGCGATAGT-CAGAATC
* *
177249 GCATTGCGATAGTCAAAATC
1 GCGTTGCGATAGTCAGAATC
177269 GCGTTGCGA
1 GCGTTGCGA
177278 ATCTGGAAAC
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
19 3 0.03
20 69 0.78
21 14 0.16
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGAATC
Found at i:177269 original size:40 final size:41
Alignment explanation
Indices: 177165--177277 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
177155 GACAGTCAGA
* * **
177165 ATCGCGTTGCGATTGTCAGAATCGAGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTACATATT
177206 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTACATA-T
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGA-TTACATATT
* *
177247 -TCGCATTGCGATAGTCAAAATCGCGTTGCGA
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGA
177278 ATCTGGAAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 29 0.45
41 31 0.48
42 5 0.08
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTACATATT
Found at i:195239 original size:447 final size:447
Alignment explanation
Indices: 194403--195271 Score: 1215
Period size: 447 Copynumber: 1.9 Consensus size: 447
194393 ATGATCATAG
* * * *
194403 TTTAAATTTTGTATTCAAGTATGTAAAATTCCACTATTTTAGACAATGTGTAATTGAGAGGCACT
1 TTTAAATTTTGTATTCAAATATGTAAAATTCCACTATTTTAGACAACGTGTAATCGAGAGGCACA
194468 AATTTTAGGCATTGTGAGGGTGCTTACCCTTCCCCACGCGTAATCGACCATCGAATCCTTAAAAT
66 AATTTTAGGCATTGTGAGGGTGCTTACCCTTCCCCACGCGTAATCGACCATCGAATCCTTAAAAT
** * *
194533 GAACTTATGGTAATATGCAAACCAATTATCATATTTTAAATGTTTTTTCTTAAAATTGTTTTAAA
131 GAACTTATGGTAATACACAAACCAATTATCATATTTTAAATGTGTTTTCTTAAAATAGTTTTAAA
* * * * * * *
194598 ATATATTTTTAGGTATTTGACCTACCTAACCTAAAGGTCAATGGTGACTCCATATCATTTTGTTT
196 AGACATTTTTAGGTATTCGACCTACCTAACCCAAAGCTCAATGGCGACTCCACATCATTTTGTTT
* * * * *
194663 TCAAAGCCTGATTTTTTAAAAATTAAGTTGGATCAATCCCCTCTTAGCCTTAAAAAGCTTAAGGA
261 TCAAAACCTAATATTTTAAAAATTAAGTTGGATCAATCCCCTCTTAACCTTAAAAAGCTTAAAGA
* * * * * * *
194728 CCGTTCTGACAATTTGGCATCTTCGTTGGGAACCATATTAGAAATTCTAGCCTTGGTTGATTATA
326 CCGTTCCGACAATTTGGCATCTTCATTGGGAACCATATTAGAAAGTCAAACCTTAGTCGATTATA
*
194793 TGTTATCTGAGTTGTTAGAATTTGATAAAATTGAAAAAAAAAACAAAATGATTGTAA
391 TGTTATCCGAGTTGTTAGAATTTGATAAAATTGAAAAAAAAAACAAAATGATTGTAA
* *
194850 TTTAAATTTTGTATTCAAATTTGTAAAATTCCACTATTTTAGACAACGTGTAATCGATAGGCACA
1 TTTAAATTTTGTATTCAAATATGTAAAATTCCACTATTTTAGACAACGTGTAATCGAGAGGCACA
* * * *
194915 AATTTTGGGCTTTGT-AGGGGTGCTTACCCTTCCTCACGCGTAATCGACTC-TCGAATCTTTAAA
66 AATTTTAGGCATTGTGA-GGGTGCTTACCCTTCCCCACGCGTAATCGAC-CATCGAATCCTT-AA
* * * * *
194978 AATGAATTTATGGTAATACACATACCAATTGTCGTCTTTTAAATG-GTTTTCTTAAAATAGTTTT
128 AATGAACTTATGGTAATACACAAACCAATTATCATATTTTAAATGTGTTTTCTTAAAATAGTTTT
* *
195042 AAAAGACGTTTTTTGGTATTCGACCTACCTAACCCAAAGCTCAATGGCGACTCCACATCATTTTG
193 AAAAGACATTTTTAGGTATTCGACCTACCTAACCCAAAGCTCAATGGCGACTCCACATCATTTTG
* **
195107 TTTTCAAAACCTAATATTTTAAAATTTAAGTTGGATTGATCCCCTCTTAACCTTAAAAAGCTTAA
258 TTTTCAAAACCTAATATTTTAAAAATTAAGTTGGATCAATCCCCTCTTAACCTTAAAAAGCTTAA
** * * * *
195172 AGATTGTTCCGATAATTTGGCGTC-TCTATTGGGACCCATATTAGAGAGTCAAACCTTAGTCGAT
323 AGACCGTTCCGACAATTTGGCATCTTC-ATTGGGAACCATATTAGAAAGTCAAACCTTAGTCGAT
*
195236 TATATGTTATCCGAGTTGTTGGAATTTGATAAAATT
387 TATATGTTATCCGAGTTGTTAGAATTTGATAAAATT
195272 TAACCTCTAT
Statistics
Matches: 367, Mismatches: 51, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
446 3 0.01
447 323 0.88
448 41 0.11
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (447 bp):
TTTAAATTTTGTATTCAAATATGTAAAATTCCACTATTTTAGACAACGTGTAATCGAGAGGCACA
AATTTTAGGCATTGTGAGGGTGCTTACCCTTCCCCACGCGTAATCGACCATCGAATCCTTAAAAT
GAACTTATGGTAATACACAAACCAATTATCATATTTTAAATGTGTTTTCTTAAAATAGTTTTAAA
AGACATTTTTAGGTATTCGACCTACCTAACCCAAAGCTCAATGGCGACTCCACATCATTTTGTTT
TCAAAACCTAATATTTTAAAAATTAAGTTGGATCAATCCCCTCTTAACCTTAAAAAGCTTAAAGA
CCGTTCCGACAATTTGGCATCTTCATTGGGAACCATATTAGAAAGTCAAACCTTAGTCGATTATA
TGTTATCCGAGTTGTTAGAATTTGATAAAATTGAAAAAAAAAACAAAATGATTGTAA
Found at i:196277 original size:19 final size:19
Alignment explanation
Indices: 196253--196298 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
196243 CAAGGTGTAC
196253 CGATGCACATGAAGTGCAT
1 CGATGCACATGAAGTGCAT
196272 CGATGCACATGAAGTGCAT
1 CGATGCACATGAAGTGCAT
196291 CGATGCAC
1 CGATGCAC
196299 TCTTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (19 bp):
CGATGCACATGAAGTGCAT
Found at i:196371 original size:64 final size:63
Alignment explanation
Indices: 196265--196385 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 63
196255 ATGCACATGA
* * **
196265 AGTGCATCGATGCACATGAAGTGCATCGATGCACTCTTTTAAAATACAAACACCGAATGCCATC
1 AGTGCATCGATGCACAAGAAGTGCATCGATGCACCCCCTT-AAATACAAACACCGAATGCCATC
* * * *
196329 AGTGCATCGATGCATAAGGAGTGCATCGATGCACCCCCTTAAATATAAACATCGAAT
1 AGTGCATCGATGCACAAGAAGTGCATCGATGCACCCCCTTAAATACAAACACCGAAT
196386 AGGATTTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
63 15 0.31
64 34 0.69
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (63 bp):
AGTGCATCGATGCACAAGAAGTGCATCGATGCACCCCCTTAAATACAAACACCGAATGCCATC
Found at i:196742 original size:29 final size:29
Alignment explanation
Indices: 196708--196775 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
196698 ATATGATACA
196708 TGACATGAATTCATATTATATGCATTAAG
1 TGACATGAATTCATATTATATGCATTAAG
196737 TGACATGAATTCATATTATATGCATTAAG
1 TGACATGAATTCATATTATATGCATTAAG
196766 TGACATGAAT
1 TGACATGAAT
196776 ATGCAGGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (29 bp):
TGACATGAATTCATATTATATGCATTAAG
Found at i:196837 original size:31 final size:30
Alignment explanation
Indices: 196799--196857 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
196789 TATATAAGCT
196799 ATGTGATAAA-GTGATGGAACATGATATGTTC
1 ATGTGATAAAGGT-ATGGAA-ATGATATGTTC
*
196830 ATGTGATAAAGGTATGGAAATTATATGT
1 ATGTGATAAAGGTATGGAAATGATATGT
196858 CTATACAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.31
31 16 0.62
32 2 0.08
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.34
Consensus pattern (30 bp):
ATGTGATAAAGGTATGGAAATGATATGTTC
Found at i:197125 original size:23 final size:23
Alignment explanation
Indices: 197080--197125 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
197070 CAATCTTATA
*
197080 TGGCATTACGGTGCAATTCTACG
1 TGGCATTACGGTGCAATTATACG
*
197103 TGGCACTT-CGGTGCATTTATACG
1 TGGCA-TTACGGTGCAATTATACG
197126 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (23 bp):
TGGCATTACGGTGCAATTATACG
Found at i:203348 original size:31 final size:30
Alignment explanation
Indices: 203310--203368 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
203300 TATATAAGCT
203310 ATGTGATAAA-GTGATGGAACATGATATGTTC
1 ATGTGATAAAGGT-ATGGAA-ATGATATGTTC
*
203341 ATGTGATAAAGGTATGGAAATTATATGT
1 ATGTGATAAAGGTATGGAAATGATATGT
203369 CTATACAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.31
31 16 0.62
32 2 0.08
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.34
Consensus pattern (30 bp):
ATGTGATAAAGGTATGGAAATGATATGTTC
Found at i:203858 original size:3 final size:3
Alignment explanation
Indices: 203850--203874 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
203840 CATTTCTTTG
203850 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
203875 ATTGCCTCAC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:207031 original size:22 final size:22
Alignment explanation
Indices: 206977--207031 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
206967 ATCGATTCCC
206977 TCAAGGAGGGAAACGGTTCCCAT
1 TCAAGG-GGGAAACGGTTCCCAT
* *
207000 TCAAAGGGGGAATCGGTTTCTC-T
1 TC-AAGGGGGAAACGG-TTCCCAT
207023 TCAAGGGGG
1 TCAAGGGGG
207032 TTTCGATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 7 0.25
23 13 0.46
24 8 0.29
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (22 bp):
TCAAGGGGGAAACGGTTCCCAT
Done.