Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009144.1 Hibiscus syriacus cultivar Beakdansim tig00112656_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: 51579
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:13771 original size:21 final size:21
Alignment explanation
Indices: 13720--13772 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
13710 ATTATGACTA
13720 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
13741 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
13762 TCGCAATGCGA
1 TCGCAATGCGA
13773 ATAAGAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:13787 original size:20 final size:21
Alignment explanation
Indices: 13762--13812 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
13752 TTTTCCCAAT
13762 TCGCAATGCGAA-TAAGAAAA
1 TCGCAATGCGAATTAAGAAAA
* **
13782 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
13803 TCGCAATGCG
1 TCGCAATGCG
13813 GTACTGACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:13826 original size:41 final size:41
Alignment explanation
Indices: 13799--13936 Score: 143
Period size: 41 Copynumber: 3.4 Consensus size: 41
13789 GCGAATTTGG
* *
13799 AAAATCGCAATGCGGTACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
13840 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
** * * * *
13880 AATTTCGCAACTCAATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
13921 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
13937 TTTCAAAGCG
Statistics
Matches: 76, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 32 0.42
41 44 0.58
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:13869 original size:20 final size:20
Alignment explanation
Indices: 13803--13916 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
13793 ATTTGGAAAA
* * *
13803 TCGCAATGCGGTACTGACTA
1 TCGCAACGCGATACTGACTT
* **
13823 TCGCAACGCGATAAT-ACAAAA
1 TCGCAACGCGATACTGAC--TT
13844 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* * *
13864 TCGCAACTCGATACTTAATT
1 TCGCAACGCGATACTGACTT
* *
13884 TCGCAACTCAATACTGACTT
1 TCGCAACGCGATACTGACTT
*
13904 TCGCAACGAGATA
1 TCGCAACGCGATA
13917 ATACATAATC
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
19 2 0.03
20 56 0.75
21 15 0.20
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:14153 original size:20 final size:21
Alignment explanation
Indices: 14114--14154 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
14104 CCATCTCTGA
14114 CGAAATCCGTCCCCATCTCCAG
1 CGAAATCCGT-CCCATCTCCAG
*
14136 CGAAATCCGT-CTATCTCCA
1 CGAAATCCGTCCCATCTCCA
14155 TCTCTCAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.24, C:0.41, G:0.12, T:0.22
Consensus pattern (21 bp):
CGAAATCCGTCCCATCTCCAG
Found at i:14459 original size:20 final size:20
Alignment explanation
Indices: 14410--14468 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
14400 TTTATTCTCT
* **
14410 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
14430 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
14450 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
14469 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:14659 original size:25 final size:24
Alignment explanation
Indices: 14605--14659 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
14595 TGTTTATTAT
* *
14605 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
14629 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
14655 TGTTT
1 TGTTT
14660 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:15808 original size:18 final size:18
Alignment explanation
Indices: 15787--15834 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
15777 TCCACTTCGG
15787 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
15805 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
15823 GAGCCATCACCT
1 GAGCCATCACCT
15835 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:16405 original size:19 final size:20
Alignment explanation
Indices: 16351--16417 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
16341 TAGTTTACTT
* *
16351 TCGCAACGTGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
* *
16371 TTGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
16391 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
16410 TCGCAACG
1 TCGCAACG
16418 ACAAAATCGC
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 14 0.38
20 23 0.62
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:16714 original size:20 final size:20
Alignment explanation
Indices: 16689--16741 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
16679 GAAGAATAGT
*
16689 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
16709 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
16729 TGACTATCGCAAC
1 TTACTTTCGCAAC
16742 GCGGAAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:16742 original size:20 final size:20
Alignment explanation
Indices: 16695--16781 Score: 79
Period size: 20 Copynumber: 4.4 Consensus size: 20
16685 TAGTTTACTT
* * * *
16695 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
16715 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
16735 TCGCAACGCGGAAAT-AGCTA
1 TCGCAACGCGAAAATGA-CTA
* **
16755 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
16774 TCGCAACG
1 TCGCAACG
16782 ACAAAATCGC
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
19 13 0.23
20 43 0.77
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:16776 original size:19 final size:19
Alignment explanation
Indices: 16715--16849 Score: 104
Period size: 19 Copynumber: 7.3 Consensus size: 19
16705 AAACTTACTT
**
16715 TCGCAACGCGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
**
16735 TCGCAACGCGGAAAT-AGCTA
1 TCGCAACGC-GAAATGA-AAA
*
16755 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
16774 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
*
16788 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
16807 TCGCAACGCGAAA-CACAAA
1 TCGCAACGCGAAATGA-AAA
16826 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
16845 CCGCA
1 TCGCA
16850 GTTGATTTTT
Statistics
Matches: 96, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
14 10 0.10
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 52 0.54
20 26 0.27
21 1 0.01
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:16796 original size:33 final size:36
Alignment explanation
Indices: 16754--16849 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 36
16744 GGAAATAGCT
16754 ATCGCAATGCGAAATGAAAATCGCAA-CG-ACA-AA
1 ATCGCAATGCGAAATGAAAATCGCAACCGAACACAA
16787 ATCGCAATGCGAAATGAAAATCGCAACGCGAAACACAA
1 ATCGCAATGCGAAATGAAAATCGCAAC-CG-AACACAA
* *
16825 ATCGCAACGCGAAATGAAAACCGCA
1 ATCGCAATGCGAAATGAAAATCGCA
16850 GTTGATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
33 26 0.46
35 2 0.04
37 3 0.05
38 25 0.45
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (36 bp):
ATCGCAATGCGAAATGAAAATCGCAACCGAACACAA
Found at i:18073 original size:14 final size:14
Alignment explanation
Indices: 18054--18089 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
18044 ATTGTTTAAT
18054 TGATTTGTAAAAAA
1 TGATTTGTAAAAAA
* *
18068 TGATTTGTAAATAT
1 TGATTTGTAAAAAA
18082 TGATTTGT
1 TGATTTGT
18090 TTATTTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAAA
Found at i:18251 original size:19 final size:19
Alignment explanation
Indices: 18227--18292 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
18217 TCGCAACGAG
18227 AAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGA
*
18246 AAATCGCAATGCGAAATAA
1 AAATCGCAATGCGAAATGA
18265 AAATCGCAA--CG--A-GA
1 AAATCGCAATGCGAAATGA
18279 AAATCGCAATGCGA
1 AAATCGCAATGCGA
18293 TTTTCATTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
16 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AAATCGCAATGCGAAATGA
Found at i:18342 original size:20 final size:20
Alignment explanation
Indices: 18319--18406 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
18309 CGATTTCTAA
18319 GTTGCGATAGCCATTTTCAC
1 GTTGCGATAGCCATTTTCAC
***
18339 GTTGCGATTTTTCA-TTTCGA-
1 GTTGCGA-TAGCCATTTTC-AC
* *
18359 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCAC
**
18379 GTTGCGATAGCCATTTTCGT
1 GTTGCGATAGCCATTTTCAC
18399 GTTGCGAT
1 GTTGCGAT
18407 TTCCCCGTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.06
20 47 0.87
21 4 0.07
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCAC
Found at i:18404 original size:40 final size:40
Alignment explanation
Indices: 18318--18406 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
18308 GCGATTTCTA
***
18318 AGTTGCGATAGCCATTTTCACGTTGCGATTTTTCATTTCG
1 AGTTGCGATAGCCATTTTCACGTTGCGATTAGCCATTTCG
* *
18358 AATTGCGATAGCCATTTTCGCGTTGCGA-TAGCCATTTTCG
1 AGTTGCGATAGCCATTTTCACGTTGCGATTAGCCA-TTTCG
*
18398 TGTTGCGAT
1 AGTTGCGAT
18407 TTCCCCGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.07
40 38 0.93
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (40 bp):
AGTTGCGATAGCCATTTTCACGTTGCGATTAGCCATTTCG
Found at i:18645 original size:20 final size:20
Alignment explanation
Indices: 18620--18669 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
18610 TTGAAGATGA
18620 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
18640 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
18660 TTGCGATTTT
1 TTGCGATTTT
18670 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:18963 original size:12 final size:12
Alignment explanation
Indices: 18944--18977 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18934 CTCTCTGGCG
18944 ACATCCGTTCCT
1 ACATCCGTTCCT
*
18956 ATATCCGTTCCT
1 ACATCCGTTCCT
18968 ACATCC-TTCC
1 ACATCCGTTCC
18978 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:20106 original size:14 final size:14
Alignment explanation
Indices: 20072--20110 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
20062 TTGATTGTTT
20072 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
20086 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
20100 TGTTGATTTGT
1 AATTGATTTGT
20111 TTATTTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:20248 original size:14 final size:16
Alignment explanation
Indices: 20229--20306 Score: 56
Period size: 19 Copynumber: 4.7 Consensus size: 16
20219 GAAACTGACT
20229 ATCGCAA-CG-AGAAA
1 ATCGCAAGCGAAGAAA
20243 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG-AA-GAAA
*
20262 ATCGCAATGCGAAATAAAA
1 ATCGCAA-GCG-AA-GAAA
20281 ATCGCAA-CG-AGAAA
1 ATCGCAAGCGAAGAAA
20295 ATCGCAATGCGA
1 ATCGCAA-GCGA
20307 TTTTCATTTC
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
14 17 0.31
15 1 0.02
16 4 0.07
17 2 0.04
18 1 0.02
19 29 0.54
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (16 bp):
ATCGCAAGCGAAGAAA
Found at i:20263 original size:19 final size:19
Alignment explanation
Indices: 20239--20306 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
20229 ATCGCAACGA
20239 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
20258 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
20277 AAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
20291 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
20307 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
19 29 0.66
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:20640 original size:20 final size:20
Alignment explanation
Indices: 20615--20664 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
20605 TTAAAGATGA
20615 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
20635 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
20655 TTGCGATTTT
1 TTGCGATTTT
20665 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:20958 original size:12 final size:12
Alignment explanation
Indices: 20939--20972 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
20929 CTCTCCGGTG
20939 ACATCCGTTCCT
1 ACATCCGTTCCT
*
20951 ATATCCGTTCCT
1 ACATCCGTTCCT
20963 ACATCC-TTCC
1 ACATCCGTTCC
20973 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:22101 original size:14 final size:14
Alignment explanation
Indices: 22067--22105 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
22057 TTGATTGTTT
22067 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
22081 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
22095 TGTTGATTTGT
1 AATTGATTTGT
22106 TTATTTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:22225 original size:19 final size:19
Alignment explanation
Indices: 22201--22249 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
22191 ATCGCAATGA
22201 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
22220 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
22239 AAAAATCGCAA
1 GAAAATCGCAA
22250 CGAGAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:22601 original size:20 final size:20
Alignment explanation
Indices: 22576--22667 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
22566 TTAAAGATGA
22576 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
22596 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
22616 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
22637 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
22657 TTGCGATTTTC
1 TTGCGATTTTC
22668 CAAATTTGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:22700 original size:20 final size:21
Alignment explanation
Indices: 22652--22703 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
22642 ATAGTCAGTA
*
22652 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
22673 TTGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
22693 TCGCATTGCGA
1 TCGCATTGCGA
22704 ATTAGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:22919 original size:12 final size:12
Alignment explanation
Indices: 22900--22933 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22890 CTCTCCGGTG
22900 ACATCCGTTCCT
1 ACATCCGTTCCT
*
22912 ATATCCGTTCCT
1 ACATCCGTTCCT
22924 ACATCC-TTCC
1 ACATCCGTTCC
22934 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:24062 original size:14 final size:14
Alignment explanation
Indices: 24028--24066 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
24018 TTGATTGTTT
24028 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
24042 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
24056 TGTTGATTTGT
1 AATTGATTTGT
24067 TTATTTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:24219 original size:19 final size:19
Alignment explanation
Indices: 24195--24262 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
24185 ATCGCAACGA
*
24195 GAAAATTGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
24214 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
24233 AAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
24247 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
24263 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.49, C:0.16, G:0.21, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:24306 original size:20 final size:20
Alignment explanation
Indices: 24289--24376 Score: 117
Period size: 20 Copynumber: 4.4 Consensus size: 20
24279 CGATTTTCTA
24289 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
* *
24309 GTTGCGAT-TCTTCA-TTTCGA
1 GTTGCGATAGC--CATTTTCGC
*
24329 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
24349 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
24369 GTTGCGAT
1 GTTGCGAT
24377 TTCCCCGTTG
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
19 3 0.05
20 52 0.90
21 3 0.05
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:24314 original size:34 final size:37
Alignment explanation
Indices: 24269--24356 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 37
24259 GCGATTTTCA
* *
24269 TTTCGCATTGCGATT-TTC-T-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTCTTCTTCAATTGCGATAGCCAT
24303 TTTCGCGTTGCGATTCTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGATTCTTC--TTC-AATTGCGATAGCCAT
24343 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
24357 AGCCATTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
34 14 0.30
35 3 0.07
38 1 0.02
40 28 0.61
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (37 bp):
TTTCGCGTTGCGATTCTTCTTCAATTGCGATAGCCAT
Found at i:24615 original size:20 final size:20
Alignment explanation
Indices: 24590--24681 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
24580 TTGAAGATGA
24590 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
24610 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
24630 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
24651 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
24671 TTGCGATTTTC
1 TTGCGATTTTC
24682 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:26076 original size:14 final size:14
Alignment explanation
Indices: 26042--26080 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
26032 TTGATTTTTT
26042 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
26056 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
26070 TGTTGATTTGT
1 AATTGATTTGT
26081 TTATTTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:26200 original size:19 final size:19
Alignment explanation
Indices: 26176--26224 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
26166 ATCGCAATGA
26176 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
26195 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
26214 AAAAATCGCAA
1 GAAAATCGCAA
26225 CGAGAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:26287 original size:20 final size:20
Alignment explanation
Indices: 26262--26337 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
26252 TCGCATTGCG
*
26262 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* ***
26282 ATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGA-TAGCC
*
26303 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
26322 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
26338 TTCCCCGTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:26295 original size:34 final size:34
Alignment explanation
Indices: 26250--26353 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 34
26240 GCGATTTTCA
*
26250 TTTCGCATTGCGATTTTCTAGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTAGTTGCGATAGCCAT
*
26284 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC---T--AGTTGCGATAGCCAT
* **
26324 TTTCGCGTTGCGATTTCCCCGTTGCGATAG
1 TTTCGCGTTGCGATTTTCTAGTTGCGATAG
26354 TCAAATGAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
34 21 0.36
35 5 0.09
38 1 0.02
39 4 0.07
40 27 0.47
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.40
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTCTAGTTGCGATAGCCAT
Found at i:26576 original size:20 final size:20
Alignment explanation
Indices: 26551--26642 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
26541 TTAAAGATGA
26551 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
26571 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
26591 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
26612 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
26632 TTGCGATTTTC
1 TTGCGATTTTC
26643 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:26671 original size:20 final size:21
Alignment explanation
Indices: 26627--26678 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
26617 ATAGTCAGTA
*
26627 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
26648 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
26668 TCGCATTGCGA
1 TCGCATTGCGA
26679 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:26894 original size:12 final size:12
Alignment explanation
Indices: 26875--26908 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
26865 CTCTCCGGCG
26875 ACATCCGTTCCT
1 ACATCCGTTCCT
*
26887 ATATCCGTTCCT
1 ACATCCGTTCCT
26899 ACATCC-TTCC
1 ACATCCGTTCC
26909 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:28036 original size:14 final size:14
Alignment explanation
Indices: 28002--28040 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
27992 TTGATTGTTT
28002 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
28016 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
28030 TGTTGATTTGT
1 AATTGATTTGT
28041 TTATTTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:28193 original size:19 final size:19
Alignment explanation
Indices: 28169--28236 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
28159 ATCGCAACGA
*
28169 GAAAATTGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
28188 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
28207 AAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
28221 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
28237 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.49, C:0.16, G:0.21, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:28280 original size:20 final size:20
Alignment explanation
Indices: 28255--28339 Score: 102
Period size: 20 Copynumber: 4.2 Consensus size: 20
28245 TCGCATTGCG
28255 ATTTTCGAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* *
28275 ATTTTCGCGTTGCGAT-TCTTC
1 ATTTTCGAGTTGCGATAGC--C
*
28296 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
28315 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
28335 ATTTT
1 ATTTT
28340 GAACAGATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 3 0.06
20 48 0.89
21 3 0.06
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:28531 original size:20 final size:20
Alignment explanation
Indices: 28506--28618 Score: 77
Period size: 20 Copynumber: 5.5 Consensus size: 20
28496 TTAAAGATGA
28506 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
28526 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
28546 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
28567 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
28587 TTGCGATTTTCCA-AAT-TCG
1 TTGCGATTTT-CAGAATCTCG
28606 CATTGCGATTTTC
1 --TTGCGATTTTC
28619 CAAATTCGCA
Statistics
Matches: 69, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.01
20 41 0.59
21 27 0.39
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:28608 original size:21 final size:21
Alignment explanation
Indices: 28582--28654 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
28572 ATAGTCAGTA
28582 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
28603 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * **
28624 TCGCATTTCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
28644 TCGCATTGCGA
1 TCGCATTGCGA
28655 ATTAGGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 16 0.34
21 31 0.66
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:30006 original size:14 final size:14
Alignment explanation
Indices: 29972--30010 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
29962 TTGATTGTTT
29972 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
29986 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
30000 TGTTGATTTGT
1 AATTGATTTGT
30011 TTATTTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:30171 original size:19 final size:19
Alignment explanation
Indices: 30147--30195 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
30137 ATCGCAACGA
30147 GAAAATCACAATGCGAAAT
1 GAAAATCACAATGCGAAAT
*
30166 GAAAATCACAATGCGAATT
1 GAAAATCACAATGCGAAAT
*
30185 AAAAATCACAA
1 GAAAATCACAA
30196 CGAGAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.55, C:0.16, G:0.12, T:0.16
Consensus pattern (19 bp):
GAAAATCACAATGCGAAAT
Found at i:30258 original size:20 final size:20
Alignment explanation
Indices: 30233--30308 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
30223 TCGCATTGCG
*
30233 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
***
30253 ATTTTC-ACGTTGCGATTTTTC
1 ATTTTCGA-GTTGCGA-TAGCC
*
30274 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
30293 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
30309 TTCCCCGTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
19 4 0.09
20 35 0.81
21 4 0.09
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:30547 original size:20 final size:20
Alignment explanation
Indices: 30522--30634 Score: 77
Period size: 20 Copynumber: 5.5 Consensus size: 20
30512 TTAAAGATGA
30522 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
30542 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
30562 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
30583 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
30603 TTGCGATTTTCCA-AAT-TCG
1 TTGCGATTTT-CAGAATCTCG
30622 CATTGCGATTTTC
1 --TTGCGATTTTC
30635 CAAATTCGCA
Statistics
Matches: 69, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.01
20 41 0.59
21 27 0.39
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:30624 original size:21 final size:21
Alignment explanation
Indices: 30598--30670 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
30588 ATAGTCAGTA
30598 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
30619 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * **
30640 TCGCATTTCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
30660 TCGCATTGCGA
1 TCGCATTGCGA
30671 ATTAGGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 16 0.34
21 31 0.66
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:32022 original size:14 final size:14
Alignment explanation
Indices: 31988--32026 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
31978 TTGATTGTTT
31988 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
32002 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
32016 TGTTGATTTGT
1 AATTGATTTGT
32027 TTATTTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:32187 original size:19 final size:19
Alignment explanation
Indices: 32163--32211 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
32153 ATCGCAACGA
32163 GAAAATCACAATGCGAAAT
1 GAAAATCACAATGCGAAAT
*
32182 GAAAATCACAATGCGAATT
1 GAAAATCACAATGCGAAAT
*
32201 AAAAATCACAA
1 GAAAATCACAA
32212 CGAGAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.55, C:0.16, G:0.12, T:0.16
Consensus pattern (19 bp):
GAAAATCACAATGCGAAAT
Found at i:32274 original size:20 final size:20
Alignment explanation
Indices: 32249--32324 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
32239 TCGCATTGCG
*
32249 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
***
32269 ATTTTC-ACGTTGCGATTTTTC
1 ATTTTCGA-GTTGCGA-TAGCC
*
32290 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
32309 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
32325 TTCCCCGTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
19 4 0.09
20 35 0.81
21 4 0.09
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:32563 original size:20 final size:20
Alignment explanation
Indices: 32538--32629 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
32528 TTGAAGATGA
32538 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
32558 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
32578 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
32599 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
32619 TTGCGATTTTC
1 TTGCGATTTTC
32630 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:32658 original size:20 final size:21
Alignment explanation
Indices: 32614--32665 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
32604 ATAGTCAGTA
*
32614 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
32635 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
32655 TCGCATTGCGA
1 TCGCATTGCGA
32666 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:33697 original size:14 final size:14
Alignment explanation
Indices: 33678--33708 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33668 ATATAATCCT
*
33678 GAAGAAGAAAAGAA
1 GAAGAAAAAAAGAA
33692 GAAGAAAAAAAGAA
1 GAAGAAAAAAAGAA
33706 GAA
1 GAA
33709 AAAGTCCCCG
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
GAAGAAAAAAAGAA
Found at i:33711 original size:11 final size:11
Alignment explanation
Indices: 33679--33711 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
33669 TATAATCCTG
*
33679 AAGAAGAAAAG
1 AAGAAGAAAAA
33690 AAGAAGAAAAA
1 AAGAAGAAAAA
33701 AAGAAGAAAAA
1 AAGAAGAAAAA
33712 GTCCCCGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAGAAGAAAAA
Found at i:36046 original size:33 final size:33
Alignment explanation
Indices: 36003--36161 Score: 232
Period size: 33 Copynumber: 4.8 Consensus size: 33
35993 CGGAAATTAC
36003 TATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGA-A
* *
36037 -ATCGCAATGCGAAATGAAAATTGCAACGCGAA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGAA
* *
36069 TTTCGCAATGCGAAATGAAAATCGCAACGCGAA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGAA
* *
36102 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 TATCGCAATGCGAAATGAAAATCGCAACGA-GAA
36136 -ATCGCAATGCGAAATGAAAATCGCAA
1 TATCGCAATGCGAAATGAAAATCGCAA
36162 AGCGAATTTA
Statistics
Matches: 116, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
32 1 0.01
33 113 0.97
34 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
TATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:36250 original size:19 final size:19
Alignment explanation
Indices: 36222--36286 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
36212 TATTGCAAAA
*
36222 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
36241 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* *
36257 CTCG--TTGCAATTTTCAT
1 TTCGCATTGCGATTTTCAT
36274 TTCGCATTGCGAT
1 TTCGCATTGCGAT
36287 AGTACTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 5 0.14
16 7 0.19
17 7 0.19
19 17 0.47
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:36284 original size:33 final size:32
Alignment explanation
Indices: 36173--36286 Score: 129
Period size: 33 Copynumber: 3.4 Consensus size: 32
36163 GCGAATTTAG
* *
36173 TTTCGCGTTGCGATTTTGTCGTTGCAAATTTTCA
1 TTTCGCATTGCGA-TTTCTCGTTGC-AATTTTCA
* * * * *
36207 TTTCGTATTGCAAAATTCGCGTTGCGATTTTCA
1 TTTCGCATTGC-GATTTCTCGTTGCAATTTTCA
36240 TTTCGCATTGCGATTCTCTCGTTGCAATTTTCA
1 TTTCGCATTGCGATT-TCTCGTTGCAATTTTCA
36273 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
36287 AGTACTTTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
32 2 0.03
33 46 0.70
34 17 0.26
35 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (32 bp):
TTTCGCATTGCGATTTCTCGTTGCAATTTTCA
Found at i:36412 original size:14 final size:15
Alignment explanation
Indices: 36393--36429 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
36383 CATCAATTAA
36393 ACAAATCAA-CTTTT
1 ACAAATCAACCTTTT
36407 ACAAAT-AACCTTTT
1 ACAAATCAACCTTTT
36421 ACAAATCAA
1 ACAAATCAA
36430 TTAAACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.81
15 2 0.10
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
ACAAATCAACCTTTT
Found at i:37848 original size:21 final size:21
Alignment explanation
Indices: 37782--37848 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
37772 GTGAATCGGG
*
37782 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
37802 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
37824 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
37845 CTCT
1 CTCT
37849 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:38288 original size:90 final size:88
Alignment explanation
Indices: 38120--38301 Score: 285
Period size: 90 Copynumber: 2.0 Consensus size: 88
38110 ATTTCAAACT
*
38120 TTCAACCAAAAGACAAAAAAAACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAG
1 TTCAACCAAAAGACAAAAAAAACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAG
38185 AATTGGCAGCAACCGAATAAATTTAC
63 AATTGGCAGCAACCGAATAAATTTAC
38211 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAG
1 TTCAACCAAAAGAC-AAA-AAAA-ACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAG
*
38275 TATTGGCAGCAACCGAATAAATTTAC
63 AATTGGCAGCAACCGAATAAATTTAC
38301 T
1 T
38302 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
90 42 0.49
91 14 0.16
92 3 0.03
93 4 0.05
94 23 0.27
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (88 bp):
TTCAACCAAAAGACAAAAAAAACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAAT
TGGCAGCAACCGAATAAATTTAC
Found at i:40006 original size:20 final size:20
Alignment explanation
Indices: 39976--40035 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
39966 CTTTTGGTTG
39976 AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
* * *
39996 TAATGAGAATCGCAACGCGA
1 AAATGAAAATCGCAACGAGA
**
40016 AAATGACTATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
40036 GAATCGCAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (20 bp):
AAATGAAAATCGCAACGAGA
Found at i:40633 original size:20 final size:20
Alignment explanation
Indices: 40608--40719 Score: 64
Period size: 20 Copynumber: 5.5 Consensus size: 20
40598 GCTATGTAAA
40608 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* * *
40628 TCGCATTGCTATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
40648 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* * ** *
40669 TCGCATTACGATTTACTTAA
1 TCGCATTGCGATGTAAGTAT
* * *
40689 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
40709 TCGCATTGCGA
1 TCGCATTGCGA
40720 ATTATGAAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
19 3 0.04
20 55 0.73
21 17 0.23
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:40683 original size:41 final size:40
Alignment explanation
Indices: 40626--40715 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 40
40616 CGATAGTAAG
* * * *
40626 ATTCGCATTGCTATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTACGATTTACGTAATCGCATTGCGATTTACCT
* * *
40666 AATTCGCATTACGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTACGATTTACGTAATCGCATTGCGATTTACCT
40707 ATTCGCATT
1 ATTCGCATT
40716 GCGAATTATG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 9 0.21
41 33 0.79
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (40 bp):
ATTCGCATTACGATTTACGTAATCGCATTGCGATTTACCT
Found at i:40732 original size:41 final size:41
Alignment explanation
Indices: 40687--40857 Score: 150
Period size: 41 Copynumber: 4.2 Consensus size: 41
40677 CGATTTACTT
* *
40687 AATCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGAA
1 AATCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAA
** * * *
40728 AATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAA
1 AATCGCATTGCGATTTACGT-ATTCGCATTGCGAATTAGGAA
* * * ***
40769 AATTGCATTGCGATAGT-CAGTA-TCGCATTGCGATTTTCCAA
1 AATCGCATTGCGAT-TTAC-GTATTCGCATTGCGAATTAGGAA
* * *
40810 ATTCGCATTGCGATTTACTTATTCGCATTGCGAATTGGGAA
1 AATCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAA
40851 AATCGCA
1 AATCGCA
40858 ACGCGAAATT
Statistics
Matches: 99, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
40 8 0.08
41 86 0.87
42 2 0.02
43 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (41 bp):
AATCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAA
Found at i:40740 original size:21 final size:21
Alignment explanation
Indices: 40716--40771 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
40706 TATTCGCATT
*
40716 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
40737 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
40757 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
40772 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:40780 original size:21 final size:21
Alignment explanation
Indices: 40709--40781 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
40699 ATTTACGTAT
* *
40709 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
40730 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
40750 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
40771 TTGCATTGCGA
1 TCGCAATGCGA
40782 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:40835 original size:20 final size:21
Alignment explanation
Indices: 40791--40842 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
40781 ATAGTCAGTA
*
40791 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
40812 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
40832 TCGCATTGCGA
1 TCGCATTGCGA
40843 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:40884 original size:21 final size:22
Alignment explanation
Indices: 40832--40884 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
40822 ATTTACTTAT
40832 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
40853 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
40874 TCGCATTGCGA
1 TCGCATTGCGA
40885 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:42083 original size:18 final size:19
Alignment explanation
Indices: 42062--42100 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
42052 AAAATTGATA
*
42062 ATTTAT-TAAAAATATTAT
1 ATTTATATAAAAATAATAT
42080 ATTTATAATAAAAATAATAT
1 ATTTAT-ATAAAAATAATAT
42100 A
1 A
42101 AAATTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTATATAAAAATAATAT
Found at i:43938 original size:43 final size:43
Alignment explanation
Indices: 43890--43972 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
43880 CGAAGGGGCC
*
43890 ATCCACGATTTCAACTCCACAACGGAGGATATCGTGCCCACAA
1 ATCCACGATTTCAACTCCACAACGAAGGATATCGTGCCCACAA
* **
43933 ATCCACGATTTCAACTTCACGGCGAAGGATATCGTGCCCA
1 ATCCACGATTTCAACTCCACAACGAAGGATATCGTGCCCA
43973 TCTACATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACAACGAAGGATATCGTGCCCACAA
Found at i:44262 original size:240 final size:248
Alignment explanation
Indices: 43933--44545 Score: 670
Period size: 240 Copynumber: 2.4 Consensus size: 248
43923 GTGCCCACAA
* * *
43933 ATCCACGATTTCAACTTCACGGCGAAGGATATCGTGCCCATCTACATAATATTGGATTTCAACTT
1 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCAACT-C-TAAGATTGGATTTCAACTT
** * *
43998 CACGATGAATGATATCCAATTCAAAGCTCAACTTCACGACGAAGGGGCTTCCCAGTTTAATTCAG
64 CACGACAAACGATATCCAATTCAAAGCTCAACTTCACGACGAAGGGGCTTCCCAGTTTAATTAAG
* * * *
44063 AGGCAATTGCAACTTCACGGCGAAGGATATTGGACTCG-A-AACAAT-A-C-AAGCTTGGATTTC
129 AGGCAATTGCAACTTCAAGACGAAGGATATTGAACTCGAACAACAATCATCTAAGATTGGATTTC
* * * *
44123 AACTTCACGATGAAGGATATTCAAGTCAAGGCTCAACTTCACAACGAA-TGGGTC
194 AACTTCACGACGAAGGATATCCAAGTCAAGACTCAACTTCACAACGAAGGGGGTC
* *
44177 ATCCACGATTTTAACTTCACGATGAAGGATATCGTG-CCAACTCT-AGATTGGATTTCAACTTCA
1 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCAACTCTAAGATTGGATTTCAACTTCA
* * * * *
44240 CGACAAACGATATCCAATTCAAAGATCAACTTTATGGCGAAGGGGCTTCCCAGTTTCATTAAGAG
66 CGACAAACGATATCCAATTCAAAGCTCAACTTCACGACGAAGGGGCTTCCCAGTTTAATTAAGAG
* ** * * * *
44305 TCAATTTTAACTTCAATACGAAGGATATTGAACTCGAAGCAACATTCATCTTTATATTGGATTTC
131 GCAATTGCAACTTCAAGACGAAGGATATTGAACTCGAA-CAACAATCATC-TAAGATTGGATTTC
*
44370 AACTTCACGACGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGGTC
194 AACTTCACGACGAAGGATATCCAAGTCAAGACTCAACTTCACAACGAAGGGGGTC
* * *
44425 ATCTAC-AGTTTCAATTTCACGACGAAGGGA-ATCGTGCCCACTAGTAACATTCATCTGCAGATT
1 ATCCACGA-TTTCAACTTCACGACGAA-GGATATCGTG-CC-C-----A-A--C-TCT-AAGATT
* * *
44488 GGATTTCAACTTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGG
52 GGATTTCAACTTCACGACAAACGATATCCAATTCAAAGCTCAACTTCACGACGAAGGG
44546 CCCTCCACGA
Statistics
Matches: 304, Mismatches: 41, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
240 103 0.34
241 2 0.01
242 1 0.00
243 10 0.03
244 34 0.11
245 1 0.00
247 55 0.18
248 31 0.10
249 3 0.01
250 1 0.00
251 1 0.00
256 1 0.00
257 1 0.00
259 1 0.00
260 3 0.01
262 56 0.18
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (248 bp):
ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCAACTCTAAGATTGGATTTCAACTTCA
CGACAAACGATATCCAATTCAAAGCTCAACTTCACGACGAAGGGGCTTCCCAGTTTAATTAAGAG
GCAATTGCAACTTCAAGACGAAGGATATTGAACTCGAACAACAATCATCTAAGATTGGATTTCAA
CTTCACGACGAAGGATATCCAAGTCAAGACTCAACTTCACAACGAAGGGGGTC
Found at i:44755 original size:84 final size:82
Alignment explanation
Indices: 44585--44810 Score: 267
Period size: 84 Copynumber: 2.7 Consensus size: 82
44575 GATATCGTGT
* * * *
44585 TCATTTGCAACATAGCTCAAGGCAAAAAGGGTTATTTGTTAACAAAAGACCTTTGAGTTCGACTA
1 TCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG-TAAC-AAAGACCTTCGAGTTCGACTA
* *
44650 CGCTCAGCTCCAAGACACA
64 CACTCAGCTCAAAGACACA
* * * * *
44669 TCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGCTCGACTCC
1 TCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGT-AACAAAGACCTTCGAGTTCGACTAC
*
44734 ACTCAGCTCAAAGGCACCA
65 ACTCAGCTCAAAGACA-CA
* * *
44753 TCATTTGTAGCACAGCTCAAGGCAAGAAGGGCTATCTGT--CAAAGACCTTCGAGTTCGA
1 TCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTAACAAAGACCTTCGAGTTCGA
44811 TTTCATTCAG
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
81 18 0.15
83 33 0.27
84 70 0.58
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (82 bp):
TCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTAACAAAGACCTTCGAGTTCGACTACA
CTCAGCTCAAAGACACA
Found at i:46041 original size:2 final size:2
Alignment explanation
Indices: 46034--46065 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
46024 ACACCGGTTC
*
46034 AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46066 TCCCTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47172 original size:25 final size:25
Alignment explanation
Indices: 47144--47198 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
47134 TATGTACTTA
**
47144 AAAGTGTCTCATAGGGTTGCACTCG
1 AAAGTGTCTCATAGGAATGCACTCG
*
47169 AAAGTGTCTCATAGTAATGCACTCG
1 AAAGTGTCTCATAGGAATGCACTCG
47194 AAAGT
1 AAAGT
47199 ACCTCGTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAGTGTCTCATAGGAATGCACTCG
Found at i:49433 original size:37 final size:37
Alignment explanation
Indices: 49392--49491 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
49382 AATAACTTCT
49392 ATTCTATTCTTCATTTAAGAACTTGAAAAAACCGTTG
1 ATTCTATTCTTCATTTAAGAACTTGAAAAAACCGTTG
49429 ATTCTATTCTTCATTTAAGAACTTG-AAAAACCGTTG
1 ATTCTATTCTTCATTTAAGAACTTGAAAAAACCGTTG
*
49465 ATTCTA-TCTTCATTTAAGAACGTGAAA
1 ATTCTATTCTTCATTTAAGAACTTGAAA
49492 TAACAATTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
35 17 0.28
36 19 0.31
37 25 0.41
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (37 bp):
ATTCTATTCTTCATTTAAGAACTTGAAAAAACCGTTG
Found at i:50903 original size:16 final size:15
Alignment explanation
Indices: 50882--50933 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
50872 TCAGATTGAT
*
50882 TTTCGGTTCAGGTTGC
1 TTTCGGTAC-GGTTGC
* *
50898 TTTCGGTGCGGTTAC
1 TTTCGGTACGGTTGC
*
50913 TTTCGGTACTGGTTGG
1 TTTCGGTAC-GGTTGC
50929 TTTCG
1 TTTCG
50934 TAAACTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 13 0.43
16 17 0.57
ACGTcount: A:0.06, C:0.17, G:0.33, T:0.44
Consensus pattern (15 bp):
TTTCGGTACGGTTGC
Found at i:50915 original size:15 final size:16
Alignment explanation
Indices: 50882--50919 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
50872 TCAGATTGAT
* *
50882 TTTCGGTTCAGGTTGC
1 TTTCGGTGCAGGTTAC
50898 TTTCGGTGC-GGTTAC
1 TTTCGGTGCAGGTTAC
50913 TTTCGGT
1 TTTCGGT
50920 ACTGGTTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.05, C:0.18, G:0.32, T:0.45
Consensus pattern (16 bp):
TTTCGGTGCAGGTTAC
Done.