Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006737.1 Hibiscus syriacus cultivar Beakdansim tig00016905_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: 79488
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:10242 original size:2 final size:2
Alignment explanation
Indices: 10235--10260 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10225 TTAATATTGT
10235 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
10261 CTAGGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18224 original size:18 final size:19
Alignment explanation
Indices: 18189--18225 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
18179 CACGGAATGT
18189 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
18209 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
18226 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:18448 original size:35 final size:37
Alignment explanation
Indices: 18377--18449 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
18367 GTTGGAAAAT
* * *
18377 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATAATTTCTTTAAAAAATTAAAAATCATAAA
*
18414 ATTTATATAATTT-TTTACAAAATTAAAAAT-ATAAA
1 ATTTATATAATTTCTTTAAAAAATTAAAAATCATAAA
18449 A
1 A
18450 AAAGTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 6 0.19
36 14 0.44
37 12 0.38
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (37 bp):
ATTTATATAATTTCTTTAAAAAATTAAAAATCATAAA
Found at i:31780 original size:21 final size:21
Alignment explanation
Indices: 31726--31780 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
31716 ATGTCATATA
*
31726 TTCGGGTCGGGTAAAACTTTG
1 TTCGGGTCGGGTGAAACTTTG
31747 TTCGGGTCGGGTGAAACTTTG
1 TTCGGGTCGGGTGAAACTTTG
**
31768 TTTTGGTCGGGTG
1 TTCGGGTCGGGTG
31781 GAAGCTCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.13, G:0.38, T:0.36
Consensus pattern (21 bp):
TTCGGGTCGGGTGAAACTTTG
Found at i:37371 original size:2 final size:2
Alignment explanation
Indices: 37364--37398 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
37354 TAAAGCCAAG
37364 GA GA GA GA G- GA G- GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
37399 GTTCTTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
GA
Found at i:37936 original size:15 final size:15
Alignment explanation
Indices: 37916--37966 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
37906 GAGACATTAG
37916 CCGCCCCGCATCCGC
1 CCGCCCCGCATCCGC
*
37931 CCGCCCCGCATTCGC
1 CCGCCCCGCATCCGC
*
37946 CCGCCCCACATCCGC
1 CCGCCCCGCATCCGC
37961 CCGCCC
1 CCGCCC
37967 AGCTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.08, C:0.67, G:0.18, T:0.08
Consensus pattern (15 bp):
CCGCCCCGCATCCGC
Found at i:41416 original size:4 final size:4
Alignment explanation
Indices: 41407--41440 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
41397 AACAAAAACA
* *
41407 TTAT TTAT TTAT TTAT TTAT CTAT TTAT CTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
41441 TTCAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:42901 original size:21 final size:21
Alignment explanation
Indices: 42784--42920 Score: 75
Period size: 21 Copynumber: 6.7 Consensus size: 21
42774 ACGCGAAATA
**
42784 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
42804 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
42824 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* ** *
42845 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
42866 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
42887 AGAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
42907 AAAATCGCAACGCG
1 AAAATCGCAACGCG
42921 TATCCGTAAA
Statistics
Matches: 86, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 37 0.43
21 46 0.53
22 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:42931 original size:20 final size:20
Alignment explanation
Indices: 42889--43020 Score: 201
Period size: 20 Copynumber: 6.6 Consensus size: 20
42879 GATTTTCCAG
* ** *
42889 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
42909 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
42929 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
42949 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
42969 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
42989 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
43009 AATCGCAACGCG
1 AATCGCAACGCG
43021 ATTTTTAAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 102 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:43429 original size:14 final size:14
Alignment explanation
Indices: 43410--43466 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
43400 TTTCATTTCG
43410 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
43424 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
43443 CGTTGCTATTCTCT
1 CGTTGCGATTCTCT
43457 CGTTGCGATT
1 CGTTGCGATT
43467 TTCAAGTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:43437 original size:33 final size:33
Alignment explanation
Indices: 43400--43470 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
43390 TTCACTTAGA
43400 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
*
43433 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
43466 TTTCA
1 TTTCA
43471 AGTTAGTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
Found at i:43448 original size:19 final size:18
Alignment explanation
Indices: 43398--43448 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 18
43388 ATTTCACTTA
43398 GATTTCATTTCGCGTTGC
1 GATTTCATTTCGCGTTGC
*
43416 GA-TTC---TCTCGTTGC
1 GATTTCATTTCGCGTTGC
43430 GATTTTCATTTCGCGTTGC
1 GA-TTTCATTTCGCGTTGC
43449 TATTCTCTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
14 10 0.38
16 3 0.12
17 3 0.12
18 2 0.08
19 8 0.31
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.45
Consensus pattern (18 bp):
GATTTCATTTCGCGTTGC
Found at i:43578 original size:21 final size:20
Alignment explanation
Indices: 43554--43625 Score: 90
Period size: 21 Copynumber: 3.5 Consensus size: 20
43544 AAAGAGTCGT
43554 AACGAGAGAAATGAAAATCGC
1 AACGAGA-AAATGAAAATCGC
* **
43575 AACGTGAAAATGACTATCTGC
1 AACGAGAAAATGAAAATC-GC
43596 AACGAGAAAAATGAAAATCGC
1 AACGAG-AAAATGAAAATCGC
43617 AACGAGAAA
1 AACGAGAAA
43626 CCAAAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 12 0.28
21 21 0.49
22 10 0.23
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.12
Consensus pattern (20 bp):
AACGAGAAAATGAAAATCGC
Found at i:43654 original size:19 final size:19
Alignment explanation
Indices: 43632--43745 Score: 103
Period size: 19 Copynumber: 6.1 Consensus size: 19
43622 GAAACCAAAA
*
43632 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
43651 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
43665 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
43684 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
43704 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
43724 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
43744 TC
1 TC
43746 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.13
16 3 0.04
17 3 0.04
19 28 0.36
20 21 0.27
21 13 0.17
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:43723 original size:40 final size:41
Alignment explanation
Indices: 43662--43745 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
43652 CGCGTTGCGA
***
43662 TTCTCTCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATTTTCAT
*
43702 TTCTCTCGTTGCGACAGTCATTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATTTTCAT
43743 TTC
1 TTC
43746 AACCAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 19 0.49
41 20 0.51
ACGTcount: A:0.11, C:0.25, G:0.17, T:0.48
Consensus pattern (41 bp):
TTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATTTTCAT
Found at i:43727 original size:20 final size:20
Alignment explanation
Indices: 43661--43743 Score: 114
Period size: 20 Copynumber: 4.2 Consensus size: 20
43651 TCGCGTTGCG
43661 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
43681 ATT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
43700 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
43721 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
43741 ATT
1 ATT
43744 TCAACCAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.30
20 24 0.45
21 13 0.25
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:45693 original size:14 final size:14
Alignment explanation
Indices: 45674--45730 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
45664 CGAAACTTAA
45674 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
45688 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
45707 AATCGCAACGACAG
1 AATCGCAACGAGAG
45721 AATCGCAACG
1 AATCGCAACG
45731 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:45712 original size:19 final size:18
Alignment explanation
Indices: 45688--45779 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
45678 GCAACGAGAG
45688 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
45707 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
45721 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
45740 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
45754 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
45773 AATCGCA
1 AATCGCA
45780 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:45714 original size:33 final size:33
Alignment explanation
Indices: 45656--45779 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
45646 TAGTTTACTT
* * *
45656 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
45690 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
45723 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
45756 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
45780 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:45756 original size:14 final size:14
Alignment explanation
Indices: 45705--45763 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
45695 ACGCGAAATG
45705 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
45719 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
45738 AAAATCGCAACGAC
1 AAAATCGCAACGAC
45752 AAAATCGCAACG
1 AAAATCGCAACG
45764 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:45797 original size:19 final size:19
Alignment explanation
Indices: 45775--45947 Score: 143
Period size: 19 Copynumber: 9.6 Consensus size: 19
45765 GAAACCAAAA
* *
45775 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
45794 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
45808 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
45827 TCGCATTGCGA--TTC-TGT
1 TCGCGTTGCGATTTTCAT-T
45844 T---GTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
45860 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
45879 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
45898 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
45917 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
45937 TCGTGTTGCGA
1 TCGCGTTGCGA
45948 AAGTAAACTA
Statistics
Matches: 125, Mismatches: 16, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
14 16 0.13
16 9 0.07
17 8 0.06
19 80 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:45905 original size:38 final size:38
Alignment explanation
Indices: 45775--45947 Score: 159
Period size: 33 Copynumber: 4.8 Consensus size: 38
45765 GAAACCAAAA
* *
45775 TCGCATTGCGATTTTTATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
45810 T--CGTTGCGATTTTCATTTCGCATTGCGATTCT--GT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
45844 T---GTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
45879 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
45917 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
45948 AAGTAAACTA
Statistics
Matches: 114, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
33 56 0.49
34 1 0.01
35 3 0.03
38 43 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:47900 original size:14 final size:14
Alignment explanation
Indices: 47881--47916 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
47871 ATTGTTTAAT
47881 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
47895 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
47909 TGATTTGT
1 TGATTTGT
47917 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:48040 original size:20 final size:19
Alignment explanation
Indices: 48023--48121 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
48013 AAAAATGACT
48023 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
48043 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
48062 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
48076 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
48095 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
48115 ATCGCAA
1 ATCGCAA
48122 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 29 0.41
20 26 0.37
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:48153 original size:53 final size:53
Alignment explanation
Indices: 48023--48140 Score: 220
Period size: 53 Copynumber: 2.2 Consensus size: 53
48013 AAAAATGACT
48023 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
48076 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
48129 ATCGCAATGCGA
1 ATCGCAATGCGA
48141 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 19 0.30
53 45 0.70
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:48158 original size:19 final size:19
Alignment explanation
Indices: 48130--48358 Score: 281
Period size: 19 Copynumber: 12.7 Consensus size: 19
48120 AACGAGAGAA
*
48130 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
48149 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
48168 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
48185 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
48202 GCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
48221 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
48238 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
48255 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
48274 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
48293 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
48312 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
48330 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
48346 TCGCATTGCGATT
1 TCGCATTGCGATT
48359 CTCTCGTTGC
Statistics
Matches: 183, Mismatches: 9, Indels: 36
0.80 0.04 0.16
Matches are distributed among these distances:
14 23 0.13
16 12 0.07
17 12 0.07
18 7 0.04
19 93 0.51
20 36 0.20
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:48199 original size:53 final size:53
Alignment explanation
Indices: 48136--48330 Score: 311
Period size: 53 Copynumber: 3.6 Consensus size: 53
48126 AGAATCGCAA
48136 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
48189 TGCGATTTTCATTGCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
48242 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCG--T
48299 TGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCAT
48331 GTTGGGATTT
Statistics
Matches: 133, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
52 10 0.08
53 84 0.63
54 3 0.02
55 4 0.03
57 15 0.11
58 17 0.13
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:48298 original size:91 final size:88
Alignment explanation
Indices: 48154--48372 Score: 322
Period size: 91 Copynumber: 2.5 Consensus size: 88
48144 TCATTTCGCA
48154 TTGCGATTTTCATTTCCGCATTGCGA--TTCTCTCGTTGCGATTTTCATTGCGCATTGCGATTTT
1 TTGCGATTTTCATTT-CGCATTGCGATTTTCTCTCGTTGCGATTTTCATTGCGCATTGCGATTTT
48217 CATTTCCGCATTGCGATTCTC-TCG
65 CATTTCCGCATTGCGATTCTCAT-G
* *
48241 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTC-TCTCG--TTGCGATTTTCATTGCGCATTGCGATT
*
48306 TTCATTTCCGCATTGCGATTTTCATG
63 TTCATTTCCGCATTGCGATTCTCATG
*
48332 TTGGGATTTTCATTTCGCATTGCGA--TTCTCTCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCTCTCGTTGCGATT
48373 GTAATTTCCG
Statistics
Matches: 121, Mismatches: 5, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
86 18 0.15
87 15 0.12
88 7 0.06
89 7 0.06
91 73 0.60
92 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (88 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCTCTCGTTGCGATTTTCATTGCGCATTGCGATTTTC
ATTTCCGCATTGCGATTCTCATG
Found at i:50674 original size:12 final size:12
Alignment explanation
Indices: 50657--50681 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50647 TCTTCGGGGA
50657 CTTTTTCTTCTT
1 CTTTTTCTTCTT
50669 CTTTTTCTTCTT
1 CTTTTTCTTCTT
50681 C
1 C
50682 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:50890 original size:24 final size:24
Alignment explanation
Indices: 50856--50902 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
50846 CTGAAACATC
50856 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
50880 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
50903 GACCAAATTT
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:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:51624 original size:20 final size:20
Alignment explanation
Indices: 51596--51786 Score: 224
Period size: 20 Copynumber: 9.6 Consensus size: 20
51586 AAATTTCAGT
* * * *
51596 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
51616 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
51636 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
51656 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
51676 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
51696 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
51716 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
51736 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
51756 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
51776 GTTGCGATTTA
1 GTTGCGATTTA
51787 TGTGTTCGCA
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.02
20 144 0.97
21 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:51801 original size:40 final size:40
Alignment explanation
Indices: 51601--51824 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 40
51591 TCAGTGTTGT
* * *
51601 GATTTACAGATTCTCGTTGCGATTTACGGATTATCG--TTGC
1 GATTTACGGATACGCGTTGCGATTTACGGA-TA-CGCATTGC
* * * *
51641 GATTTACAGATTCTCGTTGCGATTTACGGATTA-TCATTGC
1 GATTTACGGATACGCGTTGCGATTTACGGA-TACGCATTGC
51681 GATTTACGGATACGCGTTGCGATTTACGGATACGCATTGC
1 GATTTACGGATACGCGTTGCGATTTACGGATACGCATTGC
* * *
51721 GATTTACGGATACGCGTTGCTATTTACGGATACACGTTGC
1 GATTTACGGATACGCGTTGCGATTTACGGATACGCATTGC
* * *
51761 GGTTTACGGATACGCGTTGCGATTTATGTG-TTCGCATTGC
1 GATTTACGGATACGCGTTGCGATTTACG-GATACGCATTGC
* ** *
51801 GATTTTCATATTCGCGTTGCGATT
1 GATTTACGGATACGCGTTGCGATT
51825 CTGGAAAATC
Statistics
Matches: 161, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 158 0.98
41 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (40 bp):
GATTTACGGATACGCGTTGCGATTTACGGATACGCATTGC
Found at i:51819 original size:60 final size:60
Alignment explanation
Indices: 51596--51824 Score: 237
Period size: 60 Copynumber: 3.8 Consensus size: 60
51586 AAATTTCAGT
* * * * * * * *
51596 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGCATTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACGC
**
51656 GTTGCGATTTACGGATTATCATTGCGATTTACGGATACGCGTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGCATTGCGATTTACGGATACGCGTTGCGATTTACGGATACGC
* * * * * *
51716 ATTGCGATTTACGGATACGCGTTGCTATTTACGGATACACGTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGCATTGCGATTTACGGATACGCGTTGCGATTTACGGATACGC
* * ** *
51776 GTTGCGATTTATGTG-TTCGCATTGCGATTTTCATATTCGCGTTGCGATT
1 GTTGCGATTTACG-GATTCGCATTGCGATTTACGGATACGCGTTGCGATT
51825 CTGGAAAATC
Statistics
Matches: 140, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
59 2 0.01
60 137 0.98
61 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (60 bp):
GTTGCGATTTACGGATTCGCATTGCGATTTACGGATACGCGTTGCGATTTACGGATACGC
Found at i:51877 original size:21 final size:20
Alignment explanation
Indices: 51792--51889 Score: 63
Period size: 21 Copynumber: 4.8 Consensus size: 20
51782 ATTTATGTGT
* *
51792 TCGCATTGCGATTTTCATAT
1 TCGCATTGCGATTTTCAAAA
* **
51812 TCGCGTTGCGATTCTGGAAAA
1 TCGCATTGCGATT-TTCAAAA
* **
51833 TCGCAATGCGAATTTGT-ACTA
1 TCGCATTGCG-ATTT-TCAAAA
51854 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTCAA-AA
* *
51875 TCGCGTTGTGATTTT
1 TCGCATTGCGATTTT
51890 GGAAACTGAT
Statistics
Matches: 58, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.29
21 37 0.64
22 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTTCAAAA
Found at i:52482 original size:22 final size:22
Alignment explanation
Indices: 52454--52542 Score: 71
Period size: 22 Copynumber: 4.1 Consensus size: 22
52444 TGTTAGAAGT
52454 AAAAAAAGAAGTGAATAAAATA
1 AAAAAAAGAAGTGAATAAAATA
*
52476 AAAAAAACAA--G--TAAAATA
1 AAAAAAAGAAGTGAATAAAATA
* * *
52494 AAGCAAAAGAAAT-AATAAGATA
1 AA-AAAAAGAAGTGAATAAAATA
52516 AAAAATAAGAAAAGTGAATAAAATA
1 AAAAA-AAG--AAGTGAATAAAATA
52541 AA
1 AA
52543 TAAAGTAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
18 9 0.18
19 6 0.12
20 1 0.02
21 2 0.04
22 20 0.39
24 3 0.06
25 10 0.20
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAAAAGAAGTGAATAAAATA
Found at i:52547 original size:18 final size:17
Alignment explanation
Indices: 52489--52569 Score: 64
Period size: 18 Copynumber: 4.8 Consensus size: 17
52479 AAAACAAGTA
*
52489 AAATAAAGCAAAAGAAAT
1 AAATAAAGTAAAA-AAAT
52507 -AAT-AAG-ATAAAAAAT
1 AAATAAAGTA-AAAAAAT
*
52522 AAGA-AAAGTGAATAAAAT
1 AA-ATAAAGT-AAAAAAAT
52540 AAATAAAGTAAAATAAAT
1 AAATAAAGTAAAA-AAAT
52558 AAATAAA-TAAAA
1 AAATAAAGTAAAA
52570 TAAGAAAACA
Statistics
Matches: 53, Mismatches: 2, Indels: 17
0.74 0.03 0.24
Matches are distributed among these distances:
15 5 0.09
16 7 0.13
17 16 0.30
18 24 0.45
19 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.09, T:0.17
Consensus pattern (17 bp):
AAATAAAGTAAAAAAAT
Found at i:52553 original size:14 final size:13
Alignment explanation
Indices: 52467--52568 Score: 63
Period size: 12 Copynumber: 7.8 Consensus size: 13
52457 AAAAGAAGTG
52467 AATAAAATAAA-A
1 AATAAAATAAATA
52479 AA-AACAAGTAAAATA
1 AATAA-AA-T-AAATA
* *
52494 AAGCAAAAGAAAT-
1 AA-TAAAATAAATA
*
52507 AATAAGATAAA-A
1 AATAAAATAAATA
* *
52519 AATAAGAA-AAGTG
1 AATAA-AATAAATA
52532 AATAAAATAAATA
1 AATAAAATAAATA
52545 AAGTAAAATAAATA
1 AA-TAAAATAAATA
52559 AAT-AAATAAA
1 AATAAAATAAA
52569 ATAAGAAAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
11 2 0.03
12 26 0.37
13 15 0.21
14 20 0.29
15 3 0.04
16 2 0.03
17 2 0.03
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.17
Consensus pattern (13 bp):
AATAAAATAAATA
Found at i:52568 original size:22 final size:21
Alignment explanation
Indices: 52507--52568 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
52497 CAAAAGAAAT
52507 AATAAGATAAA-AAAT-AAGAA
1 AATAA-ATAAATAAATAAAGAA
*
52527 AAGTGAATAAAATAAATAAAGTAA
1 AA-TAAAT-AAATAAATAAAG-AA
52551 AATAAATAAATAAATAAA
1 AATAAATAAATAAATAAA
52569 ATAAGAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 4 0.11
21 5 0.14
22 15 0.43
23 7 0.20
24 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (21 bp):
AATAAATAAATAAATAAAGAA
Found at i:52771 original size:3 final size:3
Alignment explanation
Indices: 52763--52810 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
52753 CATGTAAAAT
52763 ATA ATA ATA ATA ATA ATA AT- ATA AT- ATA TATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
52807 ATA A
1 ATA A
52811 ATAAATAACC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:54754 original size:36 final size:36
Alignment explanation
Indices: 54697--55150 Score: 352
Period size: 36 Copynumber: 12.9 Consensus size: 36
54687 CAAAGGTTGG
* *
54697 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
54733 TGTTTCAAGGGAAATTGTCTCAAGAGAGATAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
54770 AGTTCCAAAAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
54806 TGTTTAAAG-GAAAACAGAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAACTG-TCTCAAGAGAGACAAAATT
*
54835 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
54871 TGATTCGAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * *
54907 TGTTTCAAAAGAAATTGTCTAAAGAGAGCCAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * * *
54944 AGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* **
54980 TGTTTCAAGGAAAACACAT-TCT----A-AG----TTTT
1 TGTTTCAA-GAGAA-AC-TGTCTCAAGAGAGACAAAATT
* * *
55009 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * *
55045 TGTTTTAAGAGAAAATGTCTAAAGAGATACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
55081 TGTTTTACGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
55117 TGTTTTAAGAGAAATTGTCTCAAGAGAGACAAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
55151 CTTTATTTTG
Statistics
Matches: 329, Mismatches: 63, Indels: 52
0.74 0.14 0.12
Matches are distributed among these distances:
26 1 0.00
27 5 0.02
28 4 0.01
29 28 0.09
30 2 0.01
31 2 0.01
32 4 0.01
33 4 0.01
34 1 0.00
35 2 0.01
36 210 0.64
37 60 0.18
38 5 0.02
39 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:54910 original size:101 final size:103
Alignment explanation
Indices: 54732--54920 Score: 276
Period size: 102 Copynumber: 1.9 Consensus size: 103
54722 GAGACAAAAC
* *
54732 TTGTTTCAAGGGAAATTGTCTCAAGAGAGATAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
* *
54797 GACGAAATTTGTTT-AAAGGAAAACAGATTCAAAGATT
66 GACAAAATTTGTTTCAAAAGAAAACAGATTCAAAGATT
* * **
54834 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGATT-CGAGGGAAACTGTCTCAAGAG
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTAG-TTCCAAAAGAAACTGTCTCAAGAG
54897 AGACAAAATTTGTTTCAAAAGAAA
65 AGACAAAATTTGTTTCAAAAGAAA
54921 TTGTCTAAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 35 0.45
102 42 0.55
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (103 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
GACAAAATTTGTTTCAAAAGAAAACAGATTCAAAGATT
Found at i:55012 original size:174 final size:174
Alignment explanation
Indices: 54700--55146 Score: 608
Period size: 174 Copynumber: 2.6 Consensus size: 174
54690 AGGTTGGTGT
* * * *
54700 TTCAAGAGAAACTATCTCAAGAGAGACAAAACTTGTTTCAAGGGAAATTGTCTCAAGAGAGATAA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAA
* *
54765 AACTTAGTTCCAAAAGAAACTGTCTCAAGAGAGACGAAATTTGTTTAAAGGAAAACAGATTCAAA
66 AACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAATTTGTTTAAAGGAAAACACATTCAAA
* *
54830 GATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGA
131 GATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTTGA
* * * * *
54874 TTCGAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAAGAAATTGTCTAAAGAGAGCCAA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAA
* * *
54939 AACTTAGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACACATTCTAA
66 AACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAATTTGTTTAAAGGAAAACACATTCAAA
* *
55004 GTTTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTTGT
131 GATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTTGA
* * * * * * *
55048 TTTAAGAGAAAATGTCTAAAGAGATACAAAATTTGTTTTACGAGAAACTGTCTCAAGAGAGACAA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAA
* ** * * *
55113 AA-TTTGTTTTAAGAGAAATTGTCTCAAGAGAGAC
66 AACTTAGTTCCAAAAGAAACTATCTCAAGAGAGAC
55147 AAAACTTTAT
Statistics
Matches: 236, Mismatches: 37, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
173 25 0.11
174 211 0.89
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (174 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAA
AACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAATTTGTTTAAAGGAAAACACATTCAAA
GATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTTGA
Found at i:55020 original size:138 final size:138
Alignment explanation
Indices: 54869--55130 Score: 346
Period size: 138 Copynumber: 1.9 Consensus size: 138
54859 AGAGACAAAA
* * * *
54869 TTTGATTCGAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAAGAAATTGTCTAAAGAGA
1 TTTGATTCAAGGGAAACTATCTCAAGAGAGACAAAACTTGTTTCAAAAGAAAATGTCTAAAGAGA
* * *
54934 GCCAAAACTTAGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATTTGTTTCAAG-GAAAACACA
66 GACAAAA-TTAGTTCCAAAAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAACACA
54998 TTCTAAGTT
130 TTCTAAGTT
* * *
55007 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTTGTTTTAAGAGAAAATGTCTAAAGAGA
1 TTTGATTCAAGGGAAACTATCTCAAGAGAGACAAAACTTGTTTCAAAAGAAAATGTCTAAAGAGA
* * ** ** * *
55072 TACAAAATTTGTTTTACGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAA
66 GACAAAATTAGTTCCAAAAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
55131 TTGTCTCAAG
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
137 38 0.36
138 67 0.64
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (138 bp):
TTTGATTCAAGGGAAACTATCTCAAGAGAGACAAAACTTGTTTCAAAAGAAAATGTCTAAAGAGA
GACAAAATTAGTTCCAAAAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAACACAT
TCTAAGTT
Found at i:55168 original size:36 final size:35
Alignment explanation
Indices: 55026--55173 Score: 181
Period size: 36 Copynumber: 4.1 Consensus size: 35
55016 AGGGAAACTA
* *
55026 TCTCAAGAGAGACAAAACTTGTTTTAAGAGAAAATG
1 TCTCAAGAGAGACAAAATTTGTTTT-AGAGAAATTG
* * *
55062 TCTAAAGAGATACAAAATTTGTTTTACGAGAAACTG
1 TCTCAAGAGAGACAAAATTTGTTTTA-GAGAAATTG
55098 TCTCAAGAGAGACAAAATTTGTTTTAAGAGAAATTG
1 TCTCAAGAGAGACAAAATTTGTTTT-AGAGAAATTG
*
55134 TCTCAAGAGAGACAAAACTTTATTTT-GAGTAAATTAG
1 TCTCAAGAGAGACAAAA-TTTGTTTTAGAG-AAATT-G
55171 TCT
1 TCT
55174 TGGGCGAGAC
Statistics
Matches: 99, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
35 4 0.04
36 83 0.84
37 12 0.12
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (35 bp):
TCTCAAGAGAGACAAAATTTGTTTTAGAGAAATTG
Found at i:56703 original size:95 final size:95
Alignment explanation
Indices: 56494--56756 Score: 330
Period size: 95 Copynumber: 2.7 Consensus size: 95
56484 GGCTAGCTGA
* * * *
56494 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACATCTTAATATCATTGTATAG-AT
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAAC-TCA-AGC-TT-TATTGTAT
* **
56558 ATTATAATCGCCTTTATCACGCTAGATGAATTTT
62 ATTATAATCACCTTTATCACGCTAGATGAATCAT
* *
56592 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAAGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
* * *
56657 TAATCACCTTTATCAGGTTAGTTGAATCAT
66 TAATCACCTTTATCACGCTAGATGAATCAT
* * * *
56687 ATCCATAAAGTTGGGGCATTTAACCAATTGCTTTAGAGGGATAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-T
56752 ATAAT
65 ATAAT
56757 ATTATAATGT
Statistics
Matches: 145, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
94 4 0.03
95 89 0.61
96 8 0.06
97 2 0.01
98 42 0.29
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (95 bp):
ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACCTTTATCACGCTAGATGAATCAT
Found at i:58466 original size:16 final size:16
Alignment explanation
Indices: 58441--58501 Score: 97
Period size: 16 Copynumber: 3.9 Consensus size: 16
58431 GGACCATCTT
58441 CATC-TGATCTTCTAA
1 CATCATGATCTTCTAA
*
58456 CATCATGATCTTTTAA
1 CATCATGATCTTCTAA
*
58472 CATCATGATCTTTTAA
1 CATCATGATCTTCTAA
58488 CATCATGATCTTCT
1 CATCATGATCTTCT
58502 TTGTCTTATC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
15 4 0.09
16 39 0.91
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.43
Consensus pattern (16 bp):
CATCATGATCTTCTAA
Found at i:60935 original size:4 final size:4
Alignment explanation
Indices: 60926--60967 Score: 57
Period size: 4 Copynumber: 9.8 Consensus size: 4
60916 AAAGTGAATA
60926 AAAT AAAT AAAGT AAAATT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAA-T -AAA-T AAAT AAAT AAAT AAAT AAAT AAA
60968 ATAAGAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
4 27 0.77
5 4 0.11
6 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:61042 original size:28 final size:31
Alignment explanation
Indices: 61000--61057 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
60990 GACAACATAC
61000 ACATGCAAGATAAAAAAAT-AATAAATAGAA
1 ACATGCAAGATAAAAAAATAAATAAATAGAA
* *
61030 ACATG-AA-ATAAAAGAATAAATAACTAGA
1 ACATGCAAGATAAAAAAATAAATAAATAGA
61058 TAAGAATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.36
29 11 0.44
30 5 0.20
ACGTcount: A:0.66, C:0.07, G:0.10, T:0.17
Consensus pattern (31 bp):
ACATGCAAGATAAAAAAATAAATAAATAGAA
Found at i:68767 original size:37 final size:37
Alignment explanation
Indices: 68721--68795 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
68711 AACATAACGT
*
68721 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGAA
1 TAGAATTTTACTAGGATTCAAACTCCTAAAAATAGAA
*
68758 TAGAATTTTATTAGGATTCAAACTCCTAAAAATAGAA
1 TAGAATTTTACTAGGATTCAAACTCCTAAAAATAGAA
68795 T
1 T
68796 TCAGAAGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (37 bp):
TAGAATTTTACTAGGATTCAAACTCCTAAAAATAGAA
Found at i:69090 original size:23 final size:22
Alignment explanation
Indices: 69059--69101 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 22
69049 CTTTTCTCTT
69059 TTTTCATGTAATATTTTTTTTAAA
1 TTTTCATGT-AT-TTTTTTTTAAA
69083 TTTT-ATGTATTTTTTTTTA
1 TTTTCATGTATTTTTTTTTA
69102 CTTTAGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 2 0.11
23 4 0.21
24 4 0.21
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTCATGTATTTTTTTTTAAA
Found at i:69113 original size:2 final size:2
Alignment explanation
Indices: 69108--69176 Score: 95
Period size: 2 Copynumber: 34.5 Consensus size: 2
69098 TTTACTTTAG
* * *
69108 TA TA TA TA TA TT TT TA GA T- TA CTA 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
69150 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
69177 GTTAATTTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.02
2 58 0.95
3 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:69119 original size:26 final size:26
Alignment explanation
Indices: 69099--69170 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
69089 GTATTTTTTT
*
69099 TTACTTTAGTATATATATATTTTTAGA
1 TTACTATA-TATATATATATTTTTAGA
* * *
69126 TTACTATATATATATATATATATATA
1 TTACTATATATATATATATTTTTAGA
69152 TATA-TATATATATATATAT
1 T-TACTATATATATATATAT
69171 ATATATGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 31 0.77
27 9 0.22
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (26 bp):
TTACTATATATATATATATTTTTAGA
Found at i:69121 original size:22 final size:22
Alignment explanation
Indices: 69096--69162 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
69086 TATGTATTTT
* *
69096 TTTTTACTTTAGTATATATATA
1 TTTTTACATTACTATATATATA
*
69118 TTTTTAGATTACTATATATATA
1 TTTTTACATTACTATATATATA
* * *
69140 TATATATATATA-TATATATATA
1 TTTTTACAT-TACTATATATATA
69162 T
1 T
69163 ATATATATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 36 0.95
23 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (22 bp):
TTTTTACATTACTATATATATA
Found at i:69121 original size:24 final size:24
Alignment explanation
Indices: 69093--69168 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
69083 TTTTATGTAT
* *
69093 TTTTTTTTACTTTAGTATATATATA
1 TTTTTATTACTATA-TATATATATA
69118 TTTTTAGATTACTATATATATATATA
1 TTTTT--ATTACTATATATATATATA
* *
69144 TATATATATA-TATATATATATATA
1 TTTTTAT-TACTATATATATATATA
69168 T
1 T
69169 ATATATATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
24 17 0.39
25 7 0.16
26 13 0.30
27 7 0.16
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (24 bp):
TTTTTATTACTATATATATATATA
Found at i:69210 original size:40 final size:39
Alignment explanation
Indices: 69166--69255 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
69156 TATATATATA
69166 TATATATATATGTTA-ATTTTCATTATCTGTTTTA-TTAATT
1 TATATATATAT-TTACATTTT-ATTATCT-TTTTATTTAATT
* * *
69206 TATATATATATTTACTATTTTTTTATGTTTTTATTTATTT
1 TATATATATATTTAC-ATTTTATTATCTTTTTATTTAATT
69246 TATATATATA
1 TATATATATA
69256 CATATTATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
39 8 0.18
40 31 0.70
41 5 0.11
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (39 bp):
TATATATATATTTACATTTTATTATCTTTTTATTTAATT
Found at i:69509 original size:23 final size:24
Alignment explanation
Indices: 69483--69527 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
69473 CTTGTTATCG
69483 TTAA-TTTATTATTATTC-TTTTCT
1 TTAACTTTATT-TTATTCGTTTTCT
*
69506 TTAACTTTCTTTTATTCGTTTT
1 TTAACTTTATTTTATTCGTTTT
69528 ATTTTATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (24 bp):
TTAACTTTATTTTATTCGTTTTCT
Found at i:72597 original size:13 final size:14
Alignment explanation
Indices: 72566--72616 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 14
72556 ATCAGAGCAA
*
72566 AAAGAGAAAAAAAGC
1 AAAGAGAAAATAA-C
72581 AAAGAGAAAATAA-
1 AAAGAGAAAATAAC
72594 AAAGAGAAAA-AAC
1 AAAGAGAAAATAAC
72607 AAAG-GAAAAT
1 AAAGAGAAAAT
72617 TGAAGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.21
13 14 0.42
15 12 0.36
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAGAAAATAAC
Found at i:72610 original size:26 final size:27
Alignment explanation
Indices: 72564--72616 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
72554 CAATCAGAGC
72564 AAAAAGAGAAAAAAAGCAAAGAGAAAAT
1 AAAAAGAGAAAAAAAGCAAAG-GAAAAT
72592 AAAAAGAG-AAAAAA-CAAAGGAAAAT
1 AAAAAGAGAAAAAAAGCAAAGGAAAAT
72617 TGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
27 6 0.24
28 8 0.32
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (27 bp):
AAAAAGAGAAAAAAAGCAAAGGAAAAT
Found at i:73728 original size:32 final size:32
Alignment explanation
Indices: 73673--73775 Score: 127
Period size: 32 Copynumber: 3.2 Consensus size: 32
73663 AGGAACAATG
* *
73673 AGGGCA-TCTTTGAAGATTCAACATCAGATGTT
1 AGGGCATTTTTTG-AGATTCAACATCAAATGTT
* * *
73705 GGGGTATTTTTTGAGATTTAACATCAAATGTT
1 AGGGCATTTTTTGAGATTCAACATCAAATGTT
* *
73737 AGGGCATTTTTTGAGATTCAACATTAAATATT
1 AGGGCATTTTTTGAGATTCAACATCAAATGTT
73769 AGGGCAT
1 AGGGCAT
73776 CTTTGGGAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 55 0.92
33 5 0.08
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (32 bp):
AGGGCATTTTTTGAGATTCAACATCAAATGTT
Found at i:73788 original size:32 final size:32
Alignment explanation
Indices: 73673--73789 Score: 94
Period size: 32 Copynumber: 3.7 Consensus size: 32
73663 AGGAACAATG
* * *
73673 AGGGCATCTTT-GAAGATTCAACATCAGATGTT
1 AGGGCAT-TTTGGGAGATTCAACATCAAATATT
* * ** * *
73705 GGGGTATTTTTTGAGATTTAACATCAAATGTT
1 AGGGCATTTTGGGAGATTCAACATCAAATATT
** *
73737 AGGGCATTTTTTGAGATTCAACATTAAATATT
1 AGGGCATTTTGGGAGATTCAACATCAAATATT
73769 AGGGCATCTTTGGGA-ATTCAA
1 AGGGCAT-TTTGGGAGATTCAA
73790 TATCCTGATG
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
31 3 0.04
32 62 0.89
33 5 0.07
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (32 bp):
AGGGCATTTTGGGAGATTCAACATCAAATATT
Found at i:75104 original size:37 final size:36
Alignment explanation
Indices: 75043--75159 Score: 128
Period size: 36 Copynumber: 3.2 Consensus size: 36
75033 TATCTTTTCC
* * * *
75043 TTGAAAAAAAATTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
* *
75079 TT-ATAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTT
1 TTGA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTT
* * *
75116 TTGAAACAAATTTTGTCCCTTTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
75152 TTGAAACA
1 TTGAAACA
75160 CAAAAAAAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
35 1 0.01
36 36 0.54
37 29 0.43
38 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:75365 original size:83 final size:84
Alignment explanation
Indices: 75225--75480 Score: 268
Period size: 83 Copynumber: 3.1 Consensus size: 84
75215 CTCTTGAAAC
* * * *
75225 ACAAAG-CCTTCGAGTTCGATTACACTCAGCTTCGAGGGTACATCATTTGCAGCATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTCAAGG
* *
75289 CTAGAAGGGTTATCTGTCA
66 CAAGAAGGGTTATCAGTCA
* * *
75308 ACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGTAGTATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTCAAGG
*
75372 CAAGAAGGGTTATCAGTTA
66 CAAGAAGGGTTATCAGTCA
* * * * * * * *
75391 TCAAAGACCTTCGAGTTCGATTACATTCAAC-T-CAGAGGAAAATCAAATTTACAGCATAGCTCA
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCCA-AGGCACATC--ATTTGCAGCATAACTCA
* * *
75454 AGGCAAGAAGGGCTATCTGCCA
63 AGGCAAGAAGGGTTATCAGTCA
75476 ACAAA
1 ACAAA
75481 ATTGTCGAGT
Statistics
Matches: 143, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
82 2 0.01
83 84 0.59
84 22 0.15
85 35 0.24
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (84 bp):
ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTCAAGG
CAAGAAGGGTTATCAGTCA
Found at i:76022 original size:37 final size:37
Alignment explanation
Indices: 75981--76092 Score: 152
Period size: 37 Copynumber: 3.0 Consensus size: 37
75971 AACATAGCGT
*
75981 TAGAGTTTTACTAGGATTCAAACTCCTAAAAAAATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAAAAGGA
* * *
76018 TAGAGTTTTACTAGGATTCAAGCTCCTTAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAAAAGGA
* * * *
76055 TGGAGTTCTACTATGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAAAAGGA
76092 T
1 T
76093 CTAGAAGCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAAAAGGA
Found at i:76402 original size:2 final size:2
Alignment explanation
Indices: 76397--76454 Score: 73
Period size: 2 Copynumber: 29.5 Consensus size: 2
76387 TTTACTTTAG
* * * *
76397 TA TA TA TA TA TA TA TA TA TA TA TT TT TA GA T- TA CA 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
76438 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
76455 GTTAATTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76613 original size:4 final size:4
Alignment explanation
Indices: 76604--76628 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
76594 CCCCTCTTGC
76604 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
76629 CTATGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:76718 original size:4 final size:4
Alignment explanation
Indices: 76709--76739 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
76699 TTTTATGTCT
76709 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
76740 TTCTTTTCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Done.