Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 67 of 425
Found at i:18635546 original size:13 final size:13
Alignment explanation
Indices: 18635528--18635552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18635518 CAAAATACAC
18635528 ACTTAATATTTAT
1 ACTTAATATTTAT
18635541 ACTTAATATTTA
1 ACTTAATATTTA
18635553 ATATTTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
ACTTAATATTTAT
Found at i:18635657 original size:14 final size:14
Alignment explanation
Indices: 18635627--18635685 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
18635617 TATTTAAGGT
* *
18635627 TTTAAGATCTAATG
1 TTTAAGATTTAAAG
*
18635641 TTTAATATTTAAAG
1 TTTAAGATTTAAAG
* *
18635655 TTTAAGGTTTAAGG
1 TTTAAGATTTAAAG
*
18635669 TTTAGGATTTAAAG
1 TTTAAGATTTAAAG
18635683 TTT
1 TTT
18635686 TTGTGTAGAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (14 bp):
TTTAAGATTTAAAG
Found at i:18635671 original size:28 final size:28
Alignment explanation
Indices: 18635617--18635685 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
18635607 TTAAACTTAG
* *
18635617 TATTTAAGGTTTTAAGATCTAATGTTTAA
1 TATTTAAAG-TTTAAGATCTAAGGTTTAA
* * *
18635646 TATTTAAAGTTTAAGGTTTAAGGTTTAG
1 TATTTAAAGTTTAAGATCTAAGGTTTAA
*
18635674 GATTTAAAGTTT
1 TATTTAAAGTTT
18635686 TTGTGTAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 26 0.76
29 8 0.24
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.48
Consensus pattern (28 bp):
TATTTAAAGTTTAAGATCTAAGGTTTAA
Found at i:18635672 original size:21 final size:22
Alignment explanation
Indices: 18635619--18635672 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
18635609 AAACTTAGTA
* *
18635619 TTTAAGGTTTTAAGATCTAATG
1 TTTAAGGTTTAAAGATCTAAGG
** *
18635641 TTTAATATTTAAAG-TTTAAGG
1 TTTAAGGTTTAAAGATCTAAGG
18635662 TTTAAGGTTTA
1 TTTAAGGTTTA
18635673 GGATTTAAAG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (22 bp):
TTTAAGGTTTAAAGATCTAAGG
Found at i:18649694 original size:15 final size:15
Alignment explanation
Indices: 18649674--18649723 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
18649664 AATTTGGCTA
18649674 ATCATAACAACATCT
1 ATCATAACAACATCT
18649689 ATCATAA-AA-A-CT
1 ATCATAACAACATCT
**
18649701 AATTGTAACAACATCT
1 -ATCATAACAACATCT
18649717 ATCATAA
1 ATCATAA
18649724 AAACTAAGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
12 2 0.07
13 6 0.22
14 4 0.15
15 13 0.48
16 2 0.07
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (15 bp):
ATCATAACAACATCT
Found at i:18649703 original size:28 final size:28
Alignment explanation
Indices: 18649671--18649730 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
18649661 ATAAATTTGG
18649671 CTAATCATAACAACATCTATCATAAAAA
1 CTAATCATAACAACATCTATCATAAAAA
**
18649699 CTAATTGTAACAACATCTATCATAAAAA
1 CTAATCATAACAACATCTATCATAAAAA
18649727 CTAA
1 CTAA
18649731 GTCCCTATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.27
Consensus pattern (28 bp):
CTAATCATAACAACATCTATCATAAAAA
Found at i:18651688 original size:31 final size:30
Alignment explanation
Indices: 18651636--18651694 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
18651626 TAATTCATAA
*
18651636 TTTAGAAAAATGATTGTTTTGCCCTTAGAC
1 TTTACAAAAATGATTGTTTTGCCCTTAGAC
*
18651666 TTTACAAAAATTATTGATTTTGCCCTTAG
1 TTTACAAAAATGATTG-TTTTGCCCTTAG
18651695 GCTCGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (30 bp):
TTTACAAAAATGATTGTTTTGCCCTTAGAC
Found at i:18651812 original size:12 final size:11
Alignment explanation
Indices: 18651791--18651825 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
18651781 TATTTCATAC
18651791 ATTTACAACTT
1 ATTTACAACTT
18651802 ATTTCACAACTT
1 ATTT-ACAACTT
18651814 ATTTTACAACTT
1 A-TTTACAACTT
18651826 TACAAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.18
12 15 0.68
13 3 0.14
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTACAACTT
Found at i:18654295 original size:17 final size:18
Alignment explanation
Indices: 18654273--18654315 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
18654263 TAAATTATTT
*
18654273 AATAAATGTTAAAA-ATA
1 AATAAAAGTTAAAACATA
18654290 AATAAAAGTTAAAACATA
1 AATAAAAGTTAAAACATA
*
18654308 AAAAAAAG
1 AATAAAAG
18654316 GGTATCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (18 bp):
AATAAAAGTTAAAACATA
Found at i:18654314 original size:18 final size:17
Alignment explanation
Indices: 18654280--18654315 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
18654270 TTTAATAAAT
*
18654280 GTTAAAAATAAATAAAA
1 GTTAAAAATAAAAAAAA
18654297 GTTAAAACATAAAAAAAA
1 GTTAAAA-ATAAAAAAAA
18654315 G
1 G
18654316 GGTATCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.19
Consensus pattern (17 bp):
GTTAAAAATAAAAAAAA
Found at i:18660288 original size:19 final size:19
Alignment explanation
Indices: 18660266--18660309 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
18660256 TCTCAAAATT
18660266 ATATATAAACTTTAATTTA
1 ATATATAAACTTTAATTTA
*
18660285 ATATATAAATTTTAATTTA
1 ATATATAAACTTTAATTTA
18660304 ATATAT
1 ATATAT
18660310 TTATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATATAAACTTTAATTTA
Found at i:18664496 original size:67 final size:68
Alignment explanation
Indices: 18664408--18664574 Score: 157
Period size: 67 Copynumber: 2.5 Consensus size: 68
18664398 AACGAGCTCT
* * * *
18664408 ATATGCTGCCATAACTGAGCTATGGTCTTACAC-CATACAT-CCC-CTGTTTACTATCTCAG-TG
1 ATATGCTGCCAT-AGTAAGCTATGGTCTTACACACA-AAATACCCTATGTTTACTATC-CAGATG
*
18664469 AACTCC
63 AACACC
* * *
18664475 ATATGCTGCCATAGTAAAGCTATGGT-TT-CACACAAAATACCCTATGTTTACTGTCCCGATGGA
1 ATATGCTGCCATAGT-AAGCTATGGTCTTACACACAAAATACCCTATGTTTACTATCCAGATGAA
*
18664538 CACT
65 CACC
*
18664542 ATATGCTGCCATAGTCAAGCTATGGTCGTACAC
1 ATATGCTGCCATAGT-AAGCTATGGTCTTACAC
18664575 TCTAAACCTC
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
65 6 0.07
66 11 0.13
67 61 0.74
68 1 0.01
69 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (68 bp):
ATATGCTGCCATAGTAAGCTATGGTCTTACACACAAAATACCCTATGTTTACTATCCAGATGAAC
ACC
Found at i:18667149 original size:40 final size:40
Alignment explanation
Indices: 18666897--18667142 Score: 422
Period size: 40 Copynumber: 6.2 Consensus size: 40
18666887 AACCCAAGTA
* * *
18666897 CCTTCGGGATTTAG-CCGGATATAGCAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18666936 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18666976 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
18667016 CCTTCGGAACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
18667056 CCTTTGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18667096 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18667136 CCTTCGG
1 CCTTCGG
18667143 ATCTTAGTCC
Statistics
Matches: 195, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 13 0.07
40 182 0.93
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:18669904 original size:41 final size:41
Alignment explanation
Indices: 18669819--18670013 Score: 295
Period size: 41 Copynumber: 4.8 Consensus size: 41
18669809 TGTTTTTGCT
*
18669819 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGTTTTACAA
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTACCA
* ****
18669859 AAAACGCCGCTAAAAACCAGAACAATAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTACCA
*
18669900 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTCCCA
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTACCA
*
18669941 AAAACGCCGCTAAAAA-CAGAGCAATAGCAGCGTTTTACCA
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTACCA
*
18669981 AAAATGCCGCTAAAAACCAGAGCAATAGCGGCG
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCG
18670014 CTAAAAACCA
Statistics
Matches: 139, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 53 0.38
41 86 0.62
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTACCA
Found at i:18669916 original size:81 final size:81
Alignment explanation
Indices: 18669763--18670013 Score: 335
Period size: 81 Copynumber: 3.1 Consensus size: 81
18669753 AATAGGGCTT
* * * * * *
18669763 TAGCGGCGTTTTATCAAAAAATGCCG-TAAAAACTGTACAGTAGTGGTGTTTTTGCTAAAACGCC
1 TAGCGGCGTTTTA-CAAAAAACGCCGCTAAAAACAGAACAATAGCGGCGTTTTTGCTAAAACGCC
18669827 GCTAAAAA-CAGAGCAA
65 GCTAAAAACCAGAGCAA
*
18669843 TAGCGGCGTTTTACAAAAAACGCCGCTAAAAACCAGAACAATAGCGGCGTTTTTGGTAAAACGCC
1 TAGCGGCGTTTTACAAAAAACGCCGCTAAAAA-CAGAACAATAGCGGCGTTTTTGCTAAAACGCC
18669908 GCTAAAAACCAGAGCAA
65 GCTAAAAACCAGAGCAA
* * * * ** * *
18669925 TAGCGGCGTTTTCCCAAAAACGCCGCTAAAAACAGAGCAATAGCAGCGTTTTACCAAAAATGCCG
1 TAGCGGCGTTTTACAAAAAACGCCGCTAAAAACAGAACAATAGCGGCGTTTTTGCTAAAACGCCG
18669990 CTAAAAACCAGAGCAA
66 CTAAAAACCAGAGCAA
18670006 TAGCGGCG
1 TAGCGGCG
18670014 CTAAAAACCA
Statistics
Matches: 152, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 11 0.07
80 19 0.12
81 84 0.55
82 38 0.25
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (81 bp):
TAGCGGCGTTTTACAAAAAACGCCGCTAAAAACAGAACAATAGCGGCGTTTTTGCTAAAACGCCG
CTAAAAACCAGAGCAA
Found at i:18670020 original size:24 final size:24
Alignment explanation
Indices: 18669988--18670037 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
18669978 CCAAAAATGC
18669988 CGCTAAAAACCAGAGCAATAGCGG
1 CGCTAAAAACCAGAGCAATAGCGG
*
18670012 CGCTAAAAACCAGAGCAATAGTGG
1 CGCTAAAAACCAGAGCAATAGCGG
18670036 CG
1 CG
18670038 TTTATGGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.26, T:0.10
Consensus pattern (24 bp):
CGCTAAAAACCAGAGCAATAGCGG
Found at i:18670297 original size:7 final size:7
Alignment explanation
Indices: 18670285--18670341 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
18670275 TTTATTTTGG
18670285 GGTTTAA
1 GGTTTAA
18670292 GGTTTAA
1 GGTTTAA
**
18670299 TATTTAA
1 GGTTTAA
* *
18670306 GGTCTAT
1 GGTTTAA
*
18670313 GGTTTAG
1 GGTTTAA
*
18670320 GGTTTTAT
1 GG-TTTAA
18670328 GGTTTAA
1 GGTTTAA
18670335 GGTTTAA
1 GGTTTAA
18670342 TGGCCATAGG
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:18670330 original size:15 final size:15
Alignment explanation
Indices: 18670285--18670344 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
18670275 TTTATTTTGG
*
18670285 GGTTTAAGGTTTAAT
1 GGTTTAAGGTTTTAT
* *
18670300 -ATTTAAGG-TCTAT
1 GGTTTAAGGTTTTAT
*
18670313 GGTTTAGGGTTTTAT
1 GGTTTAAGGTTTTAT
*
18670328 GGTTTAAGGTTTAAT
1 GGTTTAAGGTTTTAT
18670343 GG
1 GG
18670345 CCATAGGTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
13 3 0.09
14 13 0.37
15 19 0.54
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (15 bp):
GGTTTAAGGTTTTAT
Found at i:18674690 original size:78 final size:80
Alignment explanation
Indices: 18674555--18674735 Score: 226
Period size: 78 Copynumber: 2.3 Consensus size: 80
18674545 TCGAATGATG
* *
18674555 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCAGACTAAGATCCGAAGGCATTT
18674620 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * * **
18674634 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCAGACTAAGAT-CCGAAGGCAT
18674696 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
18674713 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
18674736 TTGAACGAGT
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 50 0.57
79 26 0.30
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCAGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:18674745 original size:40 final size:39
Alignment explanation
Indices: 18674556--18674738 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
18674546 CGAATGATGT
* *
18674556 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
18674595 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
18674636 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18674673 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18674714 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18674739 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 68 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18682849 original size:78 final size:80
Alignment explanation
Indices: 18682714--18682894 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 80
18682704 TCGAATGATG
* *
18682714 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
18682779 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
18682793 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
18682855 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
18682872 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
18682895 TTGAACGAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 26 0.29
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:18682904 original size:40 final size:39
Alignment explanation
Indices: 18682715--18682897 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
18682705 CGAATGATGT
* *
18682715 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
18682754 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
18682795 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18682832 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18682873 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18682898 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18684713 original size:3 final size:3
Alignment explanation
Indices: 18684705--18684738 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18684695 AGCAACTGCA
18684705 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
18684739 GAGCTCCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:18688261 original size:19 final size:19
Alignment explanation
Indices: 18688238--18688284 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
18688228 ATTTAATCTA
*
18688238 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
18688256 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
18688276 ATTTTTATT
1 ATTTTTATT
18688285 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:18688485 original size:43 final size:43
Alignment explanation
Indices: 18688422--18688569 Score: 233
Period size: 43 Copynumber: 3.4 Consensus size: 43
18688412 TTTAAATTTT
* * ** *
18688422 ATGACCTTTAGCGGCATTTGTGGGAAAAATGCTGCTAAAGGCC
1 ATGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
18688465 ATGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
1 ATGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
*
18688508 ATGACCAATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
1 ATGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
*
18688551 ATGACCTTTAGCGGCGTTT
1 ATGACCTATAGCGGCGTTT
18688570 TTTCAAAGAA
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (43 bp):
ATGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
Found at i:18694147 original size:40 final size:40
Alignment explanation
Indices: 18694046--18694262 Score: 339
Period size: 40 Copynumber: 5.5 Consensus size: 40
18694036 AACCCAAGTA
* * *
18694046 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
*
18694085 CCTTCGG-ACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
18694124 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
18694164 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
18694204 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
18694244 CCTTTGGATCTTAGTCCGG
1 CCTTCGGAACTTAGCCCGG
18694263 TTATCATCCG
Statistics
Matches: 165, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 5 0.03
39 37 0.22
40 123 0.75
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:18699082 original size:13 final size:13
Alignment explanation
Indices: 18699059--18699136 Score: 77
Period size: 13 Copynumber: 5.8 Consensus size: 13
18699049 TCAAATATCT
18699059 ATTTCCATATAACC
1 ATTT-CATATAACC
*
18699073 AATTCATATAACC
1 ATTTCATATAACC
*
18699086 ATTTCGTAT-ACC
1 ATTTCATATAACC
*
18699098 ATTTTTCCATATAATC
1 A--TTT-CATATAACC
*
18699114 AATTCATATAACC
1 ATTTCATATAACC
18699127 ATTTCATATA
1 ATTTCATATA
18699137 TCATTTTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
12 4 0.08
13 33 0.63
14 8 0.15
15 4 0.08
16 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.40
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:18699106 original size:41 final size:42
Alignment explanation
Indices: 18699060--18699165 Score: 151
Period size: 41 Copynumber: 2.5 Consensus size: 42
18699050 CAAATATCTA
*
18699060 TTTCCATATAACCAATTCATATAACCATTTCGTATACCA-TT
1 TTTCCATATAACCAATTCATATAACCATTTCATATACCATTT
* *
18699101 TTTCCATATAATCAATTCATATAACCATTTCATATATCATTT
1 TTTCCATATAACCAATTCATATAACCATTTCATATACCATTT
** *
18699143 TTTTTATGTAACCAATTCATATA
1 TTTCCATATAACCAATTCATATA
18699166 TCATTTTTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
41 36 0.63
42 21 0.37
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (42 bp):
TTTCCATATAACCAATTCATATAACCATTTCATATACCATTT
Found at i:18699633 original size:16 final size:16
Alignment explanation
Indices: 18699612--18699645 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
18699602 AATTTATTCA
18699612 TAACATA-AATAATAAT
1 TAACATATAAT-ATAAT
18699628 TAACATATAATATAAT
1 TAACATATAATATAAT
18699644 TA
1 TA
18699646 CTTAAGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TAACATATAATATAAT
Found at i:18703418 original size:25 final size:25
Alignment explanation
Indices: 18703390--18703437 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18703380 TTATACCATG
* * *
18703390 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
18703415 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
18703438 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:18703506 original size:20 final size:20
Alignment explanation
Indices: 18703481--18703519 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18703471 TAAATATGGT
18703481 ATGTATGAGATGCACATGAC
1 ATGTATGAGATGCACATGAC
*
18703501 ATGTATGATATGCACATGA
1 ATGTATGAGATGCACATGA
18703520 TGTAATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (20 bp):
ATGTATGAGATGCACATGAC
Found at i:18703597 original size:24 final size:24
Alignment explanation
Indices: 18703570--18703688 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
18703560 GAGGAAGTGA
*
18703570 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
18703594 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
18703617 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
18703641 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
18703665 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18703689 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:18703639 original size:47 final size:48
Alignment explanation
Indices: 18703570--18703688 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
18703560 GAGGAAGTGA
18703570 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
18703617 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
18703665 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18703689 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:18703939 original size:30 final size:31
Alignment explanation
Indices: 18703879--18703942 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
18703869 CGTTTACAGT
18703879 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
18703910 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18703940 AAA
1 AAA
18703943 TGAAAAGGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 10 0.32
31 21 0.68
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18711476 original size:25 final size:25
Alignment explanation
Indices: 18711448--18711495 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18711438 TTATACCATG
* * *
18711448 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
18711473 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
18711496 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:18711655 original size:24 final size:24
Alignment explanation
Indices: 18711628--18711746 Score: 179
Period size: 24 Copynumber: 5.0 Consensus size: 24
18711618 GAGGAAGTGA
*
18711628 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18711652 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18711676 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
18711699 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
18711723 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18711747 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
23 23 0.26
24 56 0.62
25 11 0.12
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:18711973 original size:31 final size:31
Alignment explanation
Indices: 18711938--18712001 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
18711928 CGTTTACAGT
18711938 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
18711969 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18712000 AA
1 AA
18712002 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18716604 original size:43 final size:43
Alignment explanation
Indices: 18716543--18716697 Score: 265
Period size: 43 Copynumber: 3.6 Consensus size: 43
18716533 CCGGCATTAC
* *
18716543 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACTGGCACTAA
* *
18716586 GCCTGCTAGGCCCGAAGGCCCGAATACACATCACTGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACTGGCACTAA
*
18716629 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACTGGCACTAA
18716672 GCCTGCTAGGCACGAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCAAATA
18716698 TAATACCAGC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCAAATACACATCACTGGCACTAA
Found at i:18716744 original size:38 final size:38
Alignment explanation
Indices: 18716695--18716769 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
18716685 GAAGGCCCAA
* * *
18716695 ATATAATACCAGCACTAGGCCTGCAGGATTTATCCCGG
1 ATATAATACCAGCACAAAGCCTGCAGGATTTAACCCGG
*
18716733 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCG
1 ATATAATACCAGCACAAAGCCTGCAGGATTTAACCCG
18716770 AATACACATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACAAAGCCTGCAGGATTTAACCCGG
Found at i:18725561 original size:22 final size:22
Alignment explanation
Indices: 18725533--18725588 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
18725523 TCCTAGGGTC
18725533 ACACGGGCGTGTCCCTTGGACA
1 ACACGGGCGTGTCCCTTGGACA
* *
18725555 ACACGGGCGTATCCCTTGGACC
1 ACACGGGCGTGTCCCTTGGACA
18725577 ACACGGGCGTGT
1 ACACGGGCGTGT
18725589 GAACCCTGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCCCTTGGACA
Found at i:18728251 original size:45 final size:39
Alignment explanation
Indices: 18728168--18728242 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
18728158 TTATTTATAG
18728168 ATCACTTATTCTAGGACTTCTACCATAAATATTCTTCTT
1 ATCACTTATTCTAGGACTTCTACCATAAATATTCTTCTT
18728207 ATCACTTATTCTAGGACTTCTACCATAAATATTCTT
1 ATCACTTATTCTAGGACTTCTACCATAAATATTCTT
18728243 ATTCTTCTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.05, T:0.43
Consensus pattern (39 bp):
ATCACTTATTCTAGGACTTCTACCATAAATATTCTTCTT
Found at i:18728252 original size:3 final size:3
Alignment explanation
Indices: 18728238--18728278 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
18728228 ACCATAAATA
*
18728238 TTC TTA TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
18728279 TTTTAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:18732720 original size:42 final size:43
Alignment explanation
Indices: 18732637--18732856 Score: 309
Period size: 42 Copynumber: 5.1 Consensus size: 43
18732627 AAAAATTTGT
* *
18732637 GGCGTTTGTTGGAAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTG-TGG-GAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* * * *
18732682 GGTGTTTGCGGGAAAAGCGCCGCT-AAGGTCCAGCCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
*
18732724 GGCGTTTGTGGGACAAGCGCCGCTAAAGGTCAAGGCTTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGC
*
18732768 GGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* *
18732811 GGCGTTTGTGTG-AAAGCGTCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
18732853 GGCG
1 GGCG
18732857 CTTTTTTTAC
Statistics
Matches: 157, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
42 69 0.44
43 38 0.24
44 43 0.27
45 7 0.04
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
Found at i:18732789 original size:86 final size:85
Alignment explanation
Indices: 18732656--18732856 Score: 314
Period size: 86 Copynumber: 2.4 Consensus size: 85
18732646 TGGAAAAAAA
* * *
18732656 CGCCGCTAAAGGTCAAGGCTTTTAGCGGTGTTTGCGGGAAAAGCGCCGCT-AAGGTCCAGCCTTT
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGCGGGAAAAACGCCGCTAAAGGTCAAGCCTTT
18732720 TAGCGGCGTTTGTGGGACAAG
66 TAGCGGCGTTTGTGGGA-AAG
* *
18732741 CGCCGCTAAAGGTCAAGGCTTTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGGCTT
1 CGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGCGGGAAAAACGCCGCTAAAGGTCAAGCCTT
*
18732806 TTAGCGGCGTTTGTGTGAAAG
65 TTAGCGGCGTTTGTGGGAAAG
*
18732827 CGTCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
18732857 CTTTTTTTAC
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
85 30 0.28
86 49 0.46
87 28 0.26
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.24
Consensus pattern (85 bp):
CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGCGGGAAAAACGCCGCTAAAGGTCAAGCCTTT
TAGCGGCGTTTGTGGGAAAG
Found at i:18732966 original size:31 final size:31
Alignment explanation
Indices: 18732931--18733011 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
18732921 TTTCCTGCAT
* *
18732931 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
18732962 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
18732993 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
18733012 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:18733281 original size:21 final size:21
Alignment explanation
Indices: 18733257--18733302 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
18733247 GCTCGTGCCT
*
18733257 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
18733278 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
18733299 CTGC
1 CTGC
18733303 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:18738957 original size:9 final size:9
Alignment explanation
Indices: 18738943--18739177 Score: 152
Period size: 9 Copynumber: 25.6 Consensus size: 9
18738933 TATTTAAGTA
18738943 TTATGTAAG
1 TTATGTAAG
*
18738952 TTATGTAAT
1 TTATGTAAG
*
18738961 TTATGATATG
1 TTATG-TAAG
* * *
18738971 ATATAT-AT
1 TTATGTAAG
*
18738979 TTATGTAAA
1 TTATGTAAG
* *
18738988 TTATAT-AT
1 TTATGTAAG
*
18738996 TTATCTAAG
1 TTATGTAAG
18739005 TTATGTAAG
1 TTATGTAAG
*
18739014 TTATGTAAA
1 TTATGTAAG
*
18739023 TTATGATATAAAA
1 TTATG---T-AAG
*
18739036 TATATTTAAG
1 T-TATGTAAG
18739046 TATTATGTAAG
1 --TTATGTAAG
18739057 TTATGTAAG
1 TTATGTAAG
* *
18739066 TTATAT-AT
1 TTATGTAAG
*
18739074 TTATCTAAG
1 TTATGTAAG
*
18739083 TTATATAAG
1 TTATGTAAG
*
18739092 TTATATAAG
1 TTATGTAAG
*
18739101 TTATGTATG
1 TTATGTAAG
*
18739110 TTATATAAG
1 TTATGTAAG
*
18739119 TTATGTATG
1 TTATGTAAG
*
18739128 TTATATAAG
1 TTATGTAAG
18739137 TTATGTAAG
1 TTATGTAAG
* *
18739146 TTATATATG
1 TTATGTAAG
*
18739155 TTATATAAG
1 TTATGTAAG
*
18739164 TTATGTAAA
1 TTATGTAAG
18739173 TTATG
1 TTATG
18739178 ATATCAAATA
Statistics
Matches: 177, Mismatches: 38, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
8 16 0.09
9 137 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:18738994 original size:17 final size:17
Alignment explanation
Indices: 18738972--18739031 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
18738962 TATGATATGA
18738972 TATATATTTATGTAAAT
1 TATATATTTATGTAAAT
* *
18738989 TATATATTTATCTAAGT
1 TATATATTTATGTAAAT
* *
18739006 TATGTAAGTTATGTAAAT
1 TATAT-ATTTATGTAAAT
18739024 TATGATAT
1 TAT-ATAT
18739032 AAAATATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
17 19 0.58
18 13 0.39
19 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (17 bp):
TATATATTTATGTAAAT
Found at i:18739113 original size:105 final size:105
Alignment explanation
Indices: 18738919--18739125 Score: 274
Period size: 105 Copynumber: 2.0 Consensus size: 105
18738909 ACTAGTTATG
* * * * *
18738919 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
* *
18738984 TAAATTATATATTTATCTAAGTTATGTAAGTTATGTAAAT
66 TAAATTATATAGTTATCTAAGTTATATAAGTTATGTAAAT
* *
18739024 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* * *
18739087 ATAAGTTATATAAGTTATGTATGTTATATAAGTTATGTA
65 ATAAATTATAT-AGTTATCTAAGTTATATAAGTTATGTA
18739126 TGTTATATAA
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
103 4 0.05
104 18 0.20
105 66 0.75
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (105 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATATAGTTATCTAAGTTATATAAGTTATGTAAAT
Found at i:18740669 original size:274 final size:277
Alignment explanation
Indices: 18739833--18740969 Score: 1860
Period size: 273 Copynumber: 4.0 Consensus size: 277
18739823 AAGAAATTTA
* *
18739833 AAAATA-TTAAATATTAAAATAAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAAT
1 AAAATATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAAT
* *
18739896 ATCAAAAATGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATA
66 ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGG-----------
*
18739961 TTCAATAGTAAATGAGCTCGATAGAATTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCAT
120 -T-AATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCAT
*
18740026 ACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTC
183 ACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTC
18740091 AGGTTTCCAGCCTATATACTTTGAATCTTT
248 AGGTTTCCAGCCTATATACTTTGAATCTTT
18740121 AAAATATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAAT
1 AAAATATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAAT
18740186 AT-AAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAA-G-AATAGT-AAT
66 ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTAATAGTAAAT
18740247 GAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
131 GAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
* *
18740312 ACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATGAGGCAACCCGTCAGGATTCCAGCCT
196 ACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTCAGGTTTCCAGCCT
18740377 ATATACTTTGAATCTTT
261 ATATACTTTGAATCTTT
*
18740394 AAATTATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAAT
1 AAAATATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAAT
18740459 AT-AAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAA-G-AATAGTAAAT
66 ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTAATAGTAAAT
*
18740521 GAGCTCAATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
131 GAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
18740586 ACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTCAGGTTTCCAGCCT
196 ACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTCAGGTTTCCAGCCT
18740651 ATATACTTTGAATCTTT
261 ATATACTTTGAATCTTT
*
18740668 AAATTATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAAT
1 AAAATATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAAT
18740733 ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATA
66 ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGG-----------
18740798 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCAT
120 -T-AATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCAT
* *
18740863 ACGTGACGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTC
183 ACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTC
18740928 AGGTTTCCAGCCTATATACTTTGAATCTTT
248 AGGTTTCCAGCCTATATACTTTGAATCTTT
18740958 AAAATATTTAAA
1 AAAATATTTAAA
18740970 ATAAGGTTAG
Statistics
Matches: 815, Mismatches: 15, Indels: 36
0.94 0.02 0.04
Matches are distributed among these distances:
273 268 0.33
274 220 0.27
275 49 0.06
276 1 0.00
288 7 0.01
289 77 0.09
290 193 0.24
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (277 bp):
AAAATATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAAT
ATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTAATAGTAAAT
GAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
ACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTCAGGTTTCCAGCCT
ATATACTTTGAATCTTT
Found at i:18744514 original size:3 final size:3
Alignment explanation
Indices: 18744508--18744536 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18744498 TTTTTTTCTT
18744508 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18744537 TCCTATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18744629 original size:28 final size:27
Alignment explanation
Indices: 18744577--18744629 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
18744567 GGTCTCTCTA
*
18744577 ATATATTTAAATTTTAGATTTATTTGC
1 ATATATTTAAATTTTAGATTCATTTGC
*
18744604 ATATACTTTAATTTTTA-ATATCATTT
1 ATATA-TTTAAATTTTAGAT-TCATTT
18744630 AGTCTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (27 bp):
ATATATTTAAATTTTAGATTCATTTGC
Found at i:18744816 original size:12 final size:12
Alignment explanation
Indices: 18744799--18744831 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
18744789 CATTAATATC
18744799 TATATATATCAA
1 TATATATATCAA
*
18744811 TATATATATCCA
1 TATATATATCAA
18744823 TATATATAT
1 TATATATAT
18744832 ATTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATATATCAA
Found at i:18745432 original size:41 final size:40
Alignment explanation
Indices: 18745321--18745433 Score: 124
Period size: 40 Copynumber: 2.8 Consensus size: 40
18745311 ATTTAATCTT
*
18745321 TTAGTGGCGTTTTTTAAAAAA-CGCCGCTAAAGATCGAGCA
1 TTAGCGGCG-TTTTTAAAAAAGCGCCGCTAAAGATCGAGCA
* * * *
18745361 TTAGCGGCATTTTTCAAAAAGCGCCGCTAAAGGT-GTA-CT
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGATCG-AGCA
18745400 TATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAAG
1 T-TAGCGGCGTTT-TTAAAAAAGCGCCGCTAAAG
18745434 CCACTAAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
39 13 0.21
40 30 0.48
41 19 0.31
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (40 bp):
TTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGATCGAGCA
Found at i:18745578 original size:39 final size:40
Alignment explanation
Indices: 18745478--18745587 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 40
18745468 ACAAAATTCT
* *
18745478 TTAGCGGCGCTTTGTAGAAAA-CGCCACTAAAGATCAAGTA
1 TTAGCGGCGTTTTCTA-AAAAGCGCCACTAAAGATCAAGTA
* * *
18745518 TTAGCGGCGCTTTTCCAAAAAGCGCCACTAAAGGTTACA-TA
1 TTAGCGGCG-TTTTCTAAAAAGCGCCACTAAAGATCA-AGTA
*
18745559 -TAGCGGCGTTTTCTAAAAAGCGCCGCTAA
1 TTAGCGGCGTTTTCTAAAAAGCGCCACTAA
18745588 TACTCGATCT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
39 19 0.32
40 21 0.35
41 19 0.32
42 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCGGCGTTTTCTAAAAAGCGCCACTAAAGATCAAGTA
Found at i:18747187 original size:14 final size:13
Alignment explanation
Indices: 18747163--18747192 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
18747153 ATAAATACTT
18747163 ATTATTGTTCTTA
1 ATTATTGTTCTTA
18747176 ATTATGTGTTCTTA
1 ATTAT-TGTTCTTA
18747190 ATT
1 ATT
18747193 CTTGCTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (13 bp):
ATTATTGTTCTTA
Found at i:18752471 original size:56 final size:56
Alignment explanation
Indices: 18752385--18752514 Score: 206
Period size: 56 Copynumber: 2.3 Consensus size: 56
18752375 TCTTACATGT
*
18752385 AATCACATATCGATGCCACTATCCCAGACAGGGTCTTACTCGCACACATATATTGG
1 AATCACATATCGATGCCACTATCCCAGACAGGGTCTTACTCGCACACATATATCGG
* * * *
18752441 AATCACATATCGATGCCACTGTCCTAGACAGGGTCTTACTGGGACACATATATCGG
1 AATCACATATCGATGCCACTATCCCAGACAGGGTCTTACTCGCACACATATATCGG
*
18752497 AATCAGATATCGATGCCA
1 AATCACATATCGATGCCA
18752515 TAGTCTTACT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (56 bp):
AATCACATATCGATGCCACTATCCCAGACAGGGTCTTACTCGCACACATATATCGG
Found at i:18760854 original size:7 final size:6
Alignment explanation
Indices: 18760837--18760905 Score: 111
Period size: 6 Copynumber: 11.0 Consensus size: 6
18760827 TTAAAACTGC
18760837 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
18760885 TTAAAAA TTAAAAA TTAAAAA
1 -TAAAAA -TAAAAA -TAAAAA
18760906 GTAGTTTGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 42 0.68
7 20 0.32
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:18764990 original size:13 final size:13
Alignment explanation
Indices: 18764972--18765004 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
18764962 GGTTGTTTAT
18764972 TAAACTAATTAAC
1 TAAACTAATTAAC
18764985 TAAACTAATTAAC
1 TAAACTAATTAAC
18764998 T-AACTAA
1 TAAACTAA
18765005 ACTAAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:18775169 original size:27 final size:28
Alignment explanation
Indices: 18775092--18775160 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
18775082 GCGTAGATCA
*
18775092 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
18775120 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
*
18775148 CGATA-TACCCCTA
1 CGAAATTACCCCTA
18775161 GGGTTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:18779365 original size:28 final size:27
Alignment explanation
Indices: 18779333--18779400 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 27
18779323 GCGTAGATCA
18779333 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAA-AGCAAAATTAC
*
18779361 CGAAATTACCCCTAAAAGTAAAATTAC
1 CGAAATTACCCCTAAAAGCAAAATTAC
*
18779388 CGATA-TACCCCTA
1 CGAAATTACCCCTA
18779401 GGGTTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 8 0.21
27 14 0.37
28 16 0.42
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (27 bp):
CGAAATTACCCCTAAAAGCAAAATTAC
Found at i:18785884 original size:26 final size:26
Alignment explanation
Indices: 18785855--18785906 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18785845 ACACTTACAT
18785855 AGGCCAGATATGCCTCACATCCTTTC
1 AGGCCAGATATGCCTCACATCCTTTC
18785881 AGGCCAGATATGCCTCACATCCTTTC
1 AGGCCAGATATGCCTCACATCCTTTC
18785907 CAGACCAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (26 bp):
AGGCCAGATATGCCTCACATCCTTTC
Found at i:18801556 original size:27 final size:27
Alignment explanation
Indices: 18801508--18801560 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
18801498 GCGAGGCTGC
*
18801508 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
18801535 CAGATATTGTGGCTAGGCCACCAGAT
1 CAGATATTGTGACGAAGCCACCAGAT
18801561 TGCAGCGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:18818364 original size:35 final size:35
Alignment explanation
Indices: 18818287--18818357 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
18818277 GCTAGTCTCT
* * *
18818287 CCAAAACACACCGATACTTATAAGAGCTAATCCAA
1 CCAAAACACACAGATACTCATAAGACCTAATCCAA
* *
18818322 CCAAAACACACAGATGCTCATAAGACCTAGTCCAA
1 CCAAAACACACAGATACTCATAAGACCTAATCCAA
18818357 C
1 C
18818358 TGAAACATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.44, C:0.31, G:0.10, T:0.15
Consensus pattern (35 bp):
CCAAAACACACAGATACTCATAAGACCTAATCCAA
Found at i:18823052 original size:2 final size:2
Alignment explanation
Indices: 18823003--18823038 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
18822993 TTGTGAATTG
*
18823003 TA TA AA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
18823039 CATTGAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:18830043 original size:58 final size:58
Alignment explanation
Indices: 18829948--18830058 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 58
18829938 GGGCGTGTGA
* *
18829948 CTCAATAAAGTAAGAGAATTTATTAAGTTGTCCAAAATTTATTGAATGTTCTCGGTTT
1 CTCAATAAAGCAAGAGAATTTATTAAGTTCTCCAAAATTTATTGAATGTTCTCGGTTT
*
18830006 CTCACTAAAGCAAGAGAATTTATTAAGTTCTCCAAAATTTATTGAATGTTCTC
1 CTCAATAAAGCAAGAGAATTTATTAAGTTCTCCAAAATTTATTGAATGTTCTC
18830059 AATTTTGTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (58 bp):
CTCAATAAAGCAAGAGAATTTATTAAGTTCTCCAAAATTTATTGAATGTTCTCGGTTT
Found at i:18856237 original size:94 final size:94
Alignment explanation
Indices: 18856076--18856271 Score: 340
Period size: 94 Copynumber: 2.1 Consensus size: 94
18856066 TGTGTTATCA
*
18856076 GTTCAAATGCCTTTGTCGAATTGGGCTTGTTCTCCCTTGTTTCGACGATTTGGTGACCCAATTGT
1 GTTCAATTGCCTTTGTCGAATTGGGCTTGTTCTCCCTTGTTTCGACGATTTGGTGACCCAATTGT
* *
18856141 TTACCAGACTTGTCCATGAATTGACCTTT
66 TTACCAGACTTGTCCATGAATTCACCCTT
18856170 GTTCAATTGCCTTTGTCGAATTGGGCTTGTTCTCCCTTGTTT-GAACGATTTGGTGACCCAATTG
1 GTTCAATTGCCTTTGTCGAATTGGGCTTGTTCTCCCTTGTTTCG-ACGATTTGGTGACCCAATTG
18856234 TTTACCAGACTTGTCCATGAATTCACCCTT
65 TTTACCAGACTTGTCCATGAATTCACCCTT
*
18856264 CTTCAATT
1 GTTCAATT
18856272 AGATCAAATC
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.01
94 96 0.99
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (94 bp):
GTTCAATTGCCTTTGTCGAATTGGGCTTGTTCTCCCTTGTTTCGACGATTTGGTGACCCAATTGT
TTACCAGACTTGTCCATGAATTCACCCTT
Found at i:18860360 original size:43 final size:42
Alignment explanation
Indices: 18860203--18860361 Score: 119
Period size: 43 Copynumber: 3.7 Consensus size: 42
18860193 TATGTGTTAT
* *
18860203 CATGTAAGACCACGTCTGGGACGTTGGCATTGAT-TTGTGATTTA
1 CATGTAAGACCACATCTGGGACGTTGGCA-TCATATT-TGA-TTA
* *** * * *
18860247 CGTGTAAGACCATGCCTGGGACATTGGCATCGTATATGATT-
1 CATGTAAGACCACATCTGGGACGTTGGCATCATATTTGATTA
* *
18860288 CTGTGTAAGACC-CTATCTAGGACAG-TGGCATCAATATTTGATTA
1 C-ATGTAAGACCAC-ATCTGGGAC-GTTGGCATC-ATATTTGATTA
*
18860332 CATGTAAGACCACATCTGGGATGTTGGCAT
1 CATGTAAGACCACATCTGGGACGTTGGCAT
18860362 TATACGAGCT
Statistics
Matches: 90, Mismatches: 17, Indels: 17
0.73 0.14 0.14
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 35 0.39
44 28 0.31
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACATCTGGGACGTTGGCATCATATTTGATTA
Found at i:18865380 original size:43 final size:43
Alignment explanation
Indices: 18865290--18865410 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
18865280 TCTCATATTG
* * * * * **
18865290 ATGCCAATATCCCAAACATGGTCGTACACGAAATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAACA
18865333 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ACACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATA-ACA
* *
18865376 ATGCCAATGTCCCAGACATGGCCTTACATGTAATC
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC
18865411 TCATCTCGGT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAACA
Found at i:18870901 original size:28 final size:29
Alignment explanation
Indices: 18870861--18870930 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 29
18870851 AATCGATACC
* * * *
18870861 TCGCACGCTAAGTGTTATTCTGGAT-GTT
1 TCGCACACTAAGTGTCATCCTGGATACTT
*
18870889 TCGCACACTAAGTGTCATCCTTGATACTT
1 TCGCACACTAAGTGTCATCCTGGATACTT
18870918 T-GCACACTAAGTG
1 TCGCACACTAAGTG
18870931 CCATTTATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 33 0.92
29 3 0.08
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (29 bp):
TCGCACACTAAGTGTCATCCTGGATACTT
Found at i:18871011 original size:40 final size:39
Alignment explanation
Indices: 18870946--18871031 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
18870936 TATATATATA
**
18870946 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * *
18870986 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
18871025 TAGCCGA
1 TAGCCGA
18871032 TAACTTGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:18875061 original size:50 final size:45
Alignment explanation
Indices: 18874981--18875105 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 45
18874971 TCACAATACA
* * * *
18874981 ATGCCAATGTCCCAAACATGGTCTTCCACTGACTCTCTTATATCGAGGCCG
1 ATGCC-ATATCCCAAACATGGTCTTACACTGA--CAC--ATATC-AAGCCG
*
18875032 ATGCCATATCCCAGACATGGTCTTACACTGACACATATCAAGCCG
1 ATGCCATATCCCAAACATGGTCTTACACTGACACATATCAAGCCG
18875077 ATGCCATATCCCAAACATGGTCTTACACT
1 ATGCCATATCCCAAACATGGTCTTACACT
18875106 AGCTCACATG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
45 33 0.49
46 5 0.07
48 2 0.03
50 23 0.34
51 5 0.07
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (45 bp):
ATGCCATATCCCAAACATGGTCTTACACTGACACATATCAAGCCG
Found at i:18881885 original size:43 final size:43
Alignment explanation
Indices: 18881818--18881899 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
18881808 CTTACATGTT
* *
18881818 ATCACATATCAATGCCACTATCCCACACAGGGTCTTACACAAA
1 ATCACATATCAATGCCAATATCCCACACAGAGTCTTACACAAA
* * *
18881861 ATCACAATAT-AATGCCAATGTCCCAGACATAGTCTTACA
1 ATCAC-ATATCAATGCCAATATCCCACACAGAGTCTTACA
18881900 TGTAATTACA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
43 29 0.88
44 4 0.12
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (43 bp):
ATCACATATCAATGCCAATATCCCACACAGAGTCTTACACAAA
Found at i:18884618 original size:28 final size:29
Alignment explanation
Indices: 18884578--18884649 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
18884568 TCGATACCTA
* * * *
18884578 GCACGCTAAGTGCTATTCTGGAT-GTTTT
1 GCACACTAAGTGCCATCCTGGATACTTTT
*
18884606 GCACACTAAGTGCCATCCTTGATACTTTT
1 GCACACTAAGTGCCATCCTGGATACTTTT
18884635 -CACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
18884650 TTATATATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 34 0.89
29 4 0.11
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (29 bp):
GCACACTAAGTGCCATCCTGGATACTTTT
Found at i:18891840 original size:28 final size:28
Alignment explanation
Indices: 18891800--18891856 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
18891790 GCATTTTCAT
*
18891800 TCCATCTGTACATTTTCGTTCCATCTTC
1 TCCATCTATACATTTTCGTTCCATCTTC
18891828 TCCATCTATACATTTTCGTTCCATCTTC
1 TCCATCTATACATTTTCGTTCCATCTTC
18891856 T
1 T
18891857 TTCTTTCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.16, C:0.32, G:0.05, T:0.47
Consensus pattern (28 bp):
TCCATCTATACATTTTCGTTCCATCTTC
Found at i:18893009 original size:41 final size:38
Alignment explanation
Indices: 18892914--18893019 Score: 90
Period size: 41 Copynumber: 2.6 Consensus size: 38
18892904 ATGATGTATT
* * *
18892914 TTTTTTTAAATTTCAGAAA-A-TTTTAAAATTTTTTAT
1 TTTTTTTAAATTTAAAAAATATTTTTAAAATTTTTTAG
*
18892950 TTATTTTTAATTTTTTAAAAAATATTTTTAAAATTATTGTTAG
1 TT-TTTTTAA--ATTTAAAAAATATTTTTAAAATT-TT-TTAG
18892993 TTTTTTTAAATATTAAAGATAATATTT
1 TTTTTTTAAAT-TTAAA-A-AATATTT
18893020 CAACTGATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
36 2 0.04
37 7 0.13
39 7 0.13
40 2 0.04
41 15 0.27
42 10 0.18
43 12 0.22
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.58
Consensus pattern (38 bp):
TTTTTTTAAATTTAAAAAATATTTTTAAAATTTTTTAG
Found at i:18893967 original size:19 final size:19
Alignment explanation
Indices: 18893941--18893986 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
18893931 GTAATTTCTA
18893941 ATAATTTTTT-AGATTTTT
1 ATAATTTTTTGAGATTTTT
*
18893959 ATAATTTTTTGATATTTTT
1 ATAATTTTTTGAGATTTTT
*
18893978 TTAATTTTT
1 ATAATTTTT
18893987 AAATTATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (19 bp):
ATAATTTTTTGAGATTTTT
Found at i:18897329 original size:19 final size:19
Alignment explanation
Indices: 18897305--18897353 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
18897295 AATATATATA
18897305 TTTGAATTTTAAAAACTAT
1 TTTGAATTTTAAAAACTAT
* * *
18897324 TTTGAAAATTTGAAAATTAT
1 TTTG-AATTTTAAAAACTAT
18897344 TTTGAATTTT
1 TTTGAATTTT
18897354 TTTTTGTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (19 bp):
TTTGAATTTTAAAAACTAT
Found at i:18897492 original size:19 final size:19
Alignment explanation
Indices: 18897469--18897511 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
18897459 TGAATTGTGA
18897469 AATTCAACTTGAATTGAAT
1 AATTCAACTTGAATTGAAT
* * * *
18897488 TATTCGAGTTGACTTGAAT
1 AATTCAACTTGAATTGAAT
18897507 AATTC
1 AATTC
18897512 TAATAACTCA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (19 bp):
AATTCAACTTGAATTGAAT
Found at i:18902783 original size:41 final size:41
Alignment explanation
Indices: 18902738--18902855 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
18902728 TGAAAGATAA
18902738 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
18902779 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18902809 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18902850 ATGTAG
1 ATGTAG
18902856 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:18902794 original size:71 final size:71
Alignment explanation
Indices: 18902706--18902869 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18902696 GAGATGTATC
18902706 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18902771 AGGACA
66 AGGACA
18902777 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18902842 AGGACA
66 AGGACA
18902848 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
18902870 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:18910353 original size:41 final size:41
Alignment explanation
Indices: 18910308--18910425 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
18910298 TGAAAGATAA
18910308 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
18910349 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18910379 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18910420 ATGTAG
1 ATGTAG
18910426 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:18910364 original size:71 final size:71
Alignment explanation
Indices: 18910276--18910439 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18910266 GAGATGTATC
18910276 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18910341 AGGACA
66 AGGACA
18910347 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18910412 AGGACA
66 AGGACA
18910418 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
18910440 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:18915912 original size:28 final size:28
Alignment explanation
Indices: 18915872--18915928 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
18915862 ATGAATTCAC
18915872 CAGTGTTCATTCAAGGTAAAGGGTTTAA
1 CAGTGTTCATTCAAGGTAAAGGGTTTAA
*
18915900 CAGTGTTCATTCAGGGTAAAGGGTTTAA
1 CAGTGTTCATTCAAGGTAAAGGGTTTAA
18915928 C
1 C
18915929 GGTTTAGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (28 bp):
CAGTGTTCATTCAAGGTAAAGGGTTTAA
Found at i:18916246 original size:19 final size:19
Alignment explanation
Indices: 18916224--18916269 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
18916214 CAAATTGGGC
18916224 CGTGTGGGCCCCACACAAG
1 CGTGTGGGCCCCACACAAG
18916243 CGTGTGGGCCCCACACAAG
1 CGTGTGGGCCCCACACAAG
18916262 CGTGTGGG
1 CGTGTGGG
18916270 ATTATTGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.17, C:0.33, G:0.37, T:0.13
Consensus pattern (19 bp):
CGTGTGGGCCCCACACAAG
Found at i:18923398 original size:50 final size:50
Alignment explanation
Indices: 18923330--18923490 Score: 148
Period size: 50 Copynumber: 3.2 Consensus size: 50
18923320 AACTATTATA
* *
18923330 AATTGTTTGTTTAGTTTAATGTTTATTGTGATTTGTTAGGCTATGAACGT
1 AATTGTTTATTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGAACGT
* * * * * * ** * *
18923380 AATTTTTTATTTATTTTAAAG-TTATTTTG-TTAGTAATTTTGTGATTAGGTT
1 AATTGTTTATTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGA--ACG-T
* *
18923431 AATTGTTTGTTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGAATGT
1 AATTGTTTATTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGAACGT
18923481 AATT-TTTATT
1 AATTGTTTATT
18923491 ATTTTTTAAT
Statistics
Matches: 82, Mismatches: 24, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
48 9 0.11
49 12 0.15
50 24 0.29
51 20 0.24
52 7 0.09
53 10 0.12
ACGTcount: A:0.24, C:0.01, G:0.18, T:0.57
Consensus pattern (50 bp):
AATTGTTTATTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGAACGT
Found at i:18923400 original size:94 final size:96
Alignment explanation
Indices: 18923288--18923538 Score: 299
Period size: 101 Copynumber: 2.5 Consensus size: 96
18923278 TTTTATGTTG
*
18923288 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTGTTTGTTTAGTTTAATGTT
1 TTTTTTATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTGTTTGTTTAGTTTAATGTT
18923353 TATTGTGATTTGTTAGGCTATGAACG-TA-A
66 TATTGTGATTTGTTAGGCTATGAACGTTATA
* *
18923382 TTTTTTATTTATTTTAAAGTTATTTTGTTAGTAATTTTGTGATTAGGTTAATTGTTTGTTTAGTT
1 TTTTTTATTTATTTTAAAGTTATTTTGTTAGTAA----CT-ATTA--TAAATTGTTTGTTTAGTT
* *
18923447 TAATGTTTATTGTGATTTGTTAGGTTATGAATGTAATTTTTATTA
59 TAATGTTTATTGTGATTTGTTAGGCTATGAACG------TTA-TA
*
18923492 TTTTTTAATTTATTTTGAAGTTATTTTGTTAGTAACTATTATAAATT
1 TTTTTT-ATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATT
18923539 AATTGTTAGT
Statistics
Matches: 132, Mismatches: 8, Indels: 24
0.80 0.05 0.15
Matches are distributed among these distances:
94 33 0.25
98 1 0.01
99 4 0.03
101 48 0.36
104 5 0.04
106 4 0.03
107 1 0.01
108 2 0.02
110 7 0.05
111 27 0.20
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (96 bp):
TTTTTTATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTGTTTGTTTAGTTTAATGTT
TATTGTGATTTGTTAGGCTATGAACGTTATA
Found at i:18927082 original size:7 final size:7
Alignment explanation
Indices: 18927070--18927103 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
18927060 TAATAATGCC
18927070 GATAAAT
1 GATAAAT
18927077 GATAAAT
1 GATAAAT
18927084 GATAAAT
1 GATAAAT
18927091 GATAAAT
1 GATAAAT
18927098 GATAAA
1 GATAAA
18927104 AATGTTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:18929185 original size:25 final size:25
Alignment explanation
Indices: 18929157--18929237 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
18929147 AGCTCCTCCA
18929157 AGCTAAATAATGGGAAGCTCATGTG
1 AGCTAAATAATGGGAAGCTCATGTG
* * * * **
18929182 AGCTGAGTAATAGGAAGCTAATGCA
1 AGCTAAATAATGGGAAGCTCATGTG
* *
18929207 AGCTGAATAATGAGAAGCTCAT-TCG
1 AGCTAAATAATGGGAAGCTCATGT-G
18929232 AGCTAA
1 AGCTAA
18929238 GTATCAGAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (25 bp):
AGCTAAATAATGGGAAGCTCATGTG
Found at i:18929250 original size:50 final size:50
Alignment explanation
Indices: 18929155--18929250 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
18929145 TAAGCTCCTC
* * *
18929155 CAAGCTAAATAATGGGAAGCTCATGTGAGCTGAGTAATAGGAAGCTAATG
1 CAAGCTAAATAATGAGAAGCTCATGTGAGCTAAGTAATAGAAAGCTAATG
*
18929205 CAAGCTGAATAATGAGAAGCTCAT-TCGAGCTAAGT-ATCAGAAAGCT
1 CAAGCTAAATAATGAGAAGCTCATGT-GAGCTAAGTAAT-AGAAAGCT
18929251 CATGAAACCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 3 0.08
50 37 0.93
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (50 bp):
CAAGCTAAATAATGAGAAGCTCATGTGAGCTAAGTAATAGAAAGCTAATG
Found at i:18929263 original size:50 final size:50
Alignment explanation
Indices: 18929162--18929263 Score: 118
Period size: 50 Copynumber: 2.0 Consensus size: 50
18929152 CTCCAAGCTA
* * * * *
18929162 AATAATGGGAAGCTCATGTGAGCTGAGTAATAGGAAGCTAATGCAAGCTG
1 AATAATGAGAAGCTCATGTGAGCTAAGTAATAGAAAGCTAATGAAACCTG
*
18929212 AATAATGAGAAGCTCAT-TCGAGCTAAGT-ATCAGAAAGCTCATGAAACCTG
1 AATAATGAGAAGCTCATGT-GAGCTAAGTAAT-AGAAAGCTAATGAAACCTG
18929262 AA
1 AA
18929264 ATCGGTGACC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
49 3 0.07
50 41 0.93
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (50 bp):
AATAATGAGAAGCTCATGTGAGCTAAGTAATAGAAAGCTAATGAAACCTG
Found at i:18933687 original size:41 final size:41
Alignment explanation
Indices: 18933627--18933723 Score: 167
Period size: 41 Copynumber: 2.4 Consensus size: 41
18933617 ACAAGCCTGG
* *
18933627 TCACACAAGCTGTCTGTCAAGATGTAGCTACACGGTGCTGC
1 TCACACAAGCTGTCAGTCAAGACGTAGCTACACGGTGCTGC
*
18933668 TCACACAAGCTGTCAGTCAAGGCGTAGCTACACGGTGCTGC
1 TCACACAAGCTGTCAGTCAAGACGTAGCTACACGGTGCTGC
18933709 TCACACAAGCTGTCA
1 TCACACAAGCTGTCA
18933724 AGTATCTGCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.22
Consensus pattern (41 bp):
TCACACAAGCTGTCAGTCAAGACGTAGCTACACGGTGCTGC
Found at i:18939654 original size:110 final size:113
Alignment explanation
Indices: 18939540--18939801 Score: 265
Period size: 112 Copynumber: 2.4 Consensus size: 113
18939530 CAAACAACCT
* * *
18939540 ATAAAAATA-T-ACAAAAACAAATTTAATCA-ACATTTCAATAAATC-AAAAAAAATTACATT-A
1 ATAAAAATACTAAC-AAAACAAATTTAAT-ATA-ATTT-AAAAAAACAAAAAAAAACTACATTCA
* * * * *
18939600 TAACAAATCACAATACACATTAAACTA-A-ACAAATAATTTATAACCTAATC
62 TAAAAAATCACAATAAACACTAAACTAGACACAAACAATTCATAACCTAATC
* * *
18939650 AT-AAATTACTAACAAAATAACTTTAATATAATTTAAAAAAACAAAAAAAAACTACATTCATAAA
1 ATAAAAATACTAACAAAACAAATTTAATATAATTTAAAAAAACAAAAAAAAACTACATTCATAAA
*
18939714 AAATCACAATAAACACTAAACTAGACACAAACAATTCATAAGCTAATC
66 AAATCACAATAAACACTAAACTAGACACAAACAATTCATAACCTAATC
* * * * *
18939762 AT-AAATTACTAAAAAAATAACTTTAAAATAA-TTAAAAAAA
1 ATAAAAATACTAACAAAACAAATTTAATATAATTTAAAAAAA
18939802 TTACATTCAT
Statistics
Matches: 131, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
108 6 0.05
109 24 0.18
110 41 0.31
111 12 0.09
112 48 0.37
ACGTcount: A:0.60, C:0.14, G:0.01, T:0.25
Consensus pattern (113 bp):
ATAAAAATACTAACAAAACAAATTTAATATAATTTAAAAAAACAAAAAAAAACTACATTCATAAA
AAATCACAATAAACACTAAACTAGACACAAACAATTCATAACCTAATC
Found at i:18939779 original size:112 final size:108
Alignment explanation
Indices: 18939584--18939801 Score: 319
Period size: 112 Copynumber: 2.0 Consensus size: 108
18939574 TCAATAAATC
* * * * * *
18939584 AAAAAAAATTACATTATAACAAATCACAATACACATTAAACTAAACAAATAATTTATAACCTAAT
1 AAAAAAAACTACATTATAAAAAATCACAATAAACACTAAACTAAACAAACAATTCATAACCTAAT
* *
18939649 CATAAATTACTAACAAAATAACTTTAATATAATTTAAAAAAACA
66 CATAAATTACTAAAAAAATAACTTTAAAATAA-TTAAAAAAACA
*
18939693 AAAAAAAACTACATTCATAAAAAATCACAATAAACACTAAACTAGACACAAACAATTCATAAGCT
1 AAAAAAAACTACATT-ATAAAAAATCACAATAAACACTAAACTA-A-ACAAACAATTCATAACCT
18939758 AATCATAAATTACTAAAAAAATAACTTTAAAATAATTAAAAAAA
63 AATCATAAATTACTAAAAAAATAACTTTAAAATAATTAAAAAAA
18939802 TTACATTCAT
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
109 14 0.14
110 25 0.26
111 10 0.10
112 48 0.49
ACGTcount: A:0.60, C:0.14, G:0.01, T:0.25
Consensus pattern (108 bp):
AAAAAAAACTACATTATAAAAAATCACAATAAACACTAAACTAAACAAACAATTCATAACCTAAT
CATAAATTACTAAAAAAATAACTTTAAAATAATTAAAAAAACA
Found at i:18939882 original size:101 final size:101
Alignment explanation
Indices: 18939653--18939908 Score: 265
Period size: 101 Copynumber: 2.5 Consensus size: 101
18939643 CCTAATCATA
18939653 AATTACTAACAAAATAACTTTAATATAATTTAAAAAAACAAAAAAAAACTACATTCATAAAAAAT
1 AATTACTAA-AAAA-AACTTTAA-ATAATTTAAAAAAACAAAAAAAAACTACATTCATAAAAAAT
*
18939718 CACAATAAACACTAAACTAGACACAAACAATTCATAAGCT
63 CACAATAAACACTAAACTAAACACAAACAATTCATAA-CT
* * ** *
18939758 AATCA-TAAATTACTAAAA----AAATAACTTTAAAATAA-TTAAAAAAATTACATTCATAAAAA
1 AATTACTAAA--A--AAAACTTTAAATAA-TTTAAAAAAACAAAAAAAAACTACATTCATAAAAA
* *
18939817 ATTACAATAAACACTAAACTAAACACAAACAATTTATAA-T
61 ATCACAATAAACACTAAACTAAACACAAACAATTCATAACT
*
18939857 AATTACTAAAAAAAACTTTACAATAAATTAAAAACAACATAAAAAATAACTA
1 AATTACTAAAAAAAACTTTA-AATAATTTAAAAA-AACA-AAAAAA-AACTA
18939909 ATCCCTTTAA
Statistics
Matches: 122, Mismatches: 14, Indels: 31
0.73 0.08 0.19
Matches are distributed among these distances:
96 4 0.03
98 1 0.01
99 5 0.04
100 11 0.09
101 68 0.56
102 11 0.09
103 6 0.05
104 7 0.06
105 5 0.04
106 2 0.02
107 2 0.02
ACGTcount: A:0.61, C:0.14, G:0.01, T:0.25
Consensus pattern (101 bp):
AATTACTAAAAAAAACTTTAAATAATTTAAAAAAACAAAAAAAAACTACATTCATAAAAAATCAC
AATAAACACTAAACTAAACACAAACAATTCATAACT
Found at i:18941716 original size:20 final size:20
Alignment explanation
Indices: 18941691--18941728 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18941681 GTTTATTCGC
*
18941691 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
18941711 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
18941729 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:18946937 original size:46 final size:46
Alignment explanation
Indices: 18946850--18946938 Score: 153
Period size: 46 Copynumber: 1.9 Consensus size: 46
18946840 AAATCTCGTA
*
18946850 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACGTCTCGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCCTACGTCTCGAG
18946896 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACT-CGTCTC
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGC-CTACGTCTC
18946939 AATGCTGATG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
46 40 0.98
47 1 0.02
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCCTACGTCTCGAG
Found at i:18946949 original size:46 final size:46
Alignment explanation
Indices: 18946850--18946972 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 46
18946840 AAATCTCGTA
* *
18946850 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACGTCTCGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCCTACGTCTCAAG
*
18946896 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGC-CTACGTCTCAAG
* * * *
18946942 GCTGATGCCGTGTCCCAAACATGGTCTTACA
1 GCCGATG-CATGTCCTAGACAT-GTCTTACA
18946973 TTGGCTCTCG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 47 0.70
47 12 0.18
48 8 0.12
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCCTACGTCTCAAG
Found at i:18957913 original size:21 final size:21
Alignment explanation
Indices: 18957872--18957911 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
18957862 ATTTTAATAG
*
18957872 TTTTTATATAGTTTTGATTTA
1 TTTTTATAGAGTTTTGATTTA
*
18957893 TTTTTA-AGAGTTTTTATTT
1 TTTTTATAGAGTTTTGATTT
18957912 TAAATATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (21 bp):
TTTTTATAGAGTTTTGATTTA
Found at i:18974442 original size:47 final size:47
Alignment explanation
Indices: 18974359--18974572 Score: 140
Period size: 47 Copynumber: 4.6 Consensus size: 47
18974349 GGTGTCAATG
* *
18974359 CCATGTCCTAGACATGGTCTTACAC-AAGCTCACATCTC-AGGTCGAT
1 CCATGTCCCAGACATGGTCTTACACTAAGCTCACATCTCGA-GCCGAT
* *
18974405 ACCATGTCCCAAACATGGTCTTACACTGA-C-CATCATCTCGTAGCCGAT
1 -CCATGTCCCAGACATGGTCTTACACTAAGCTCA-CATCTCG-AGCCGAT
* * * * *
18974453 GCATGTCCCAGACAT-GTCTTACACT-AGCTCTCGTCTCAATACCGAT
1 CCATGTCCCAGACATGGTCTTACACTAAGCTCACATCTCGA-GCCGAT
* * * * * * *
18974499 GCCATGTCTCAGACATGATCTTACACT-GGCTCTCATAAT-GTGGTCGAT
1 -CCATGTCCCAGACATGGTCTTACACTAAGCTCACAT-CTCG-AGCCGAT
*
18974547 GCATGTCCCAGACAT-GTCTTACACTA
1 CCATGTCCCAGACATGGTCTTACACTA
18974573 GCCAACAATA
Statistics
Matches: 132, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
45 2 0.02
46 32 0.24
47 70 0.53
48 26 0.20
49 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTAAGCTCACATCTCGAGCCGAT
Found at i:18974521 original size:94 final size:93
Alignment explanation
Indices: 18974360--18974574 Score: 247
Period size: 94 Copynumber: 2.3 Consensus size: 93
18974350 GTGTCAATGC
* * * *
18974360 CATGTCCTAGACATGGTCTTACACAAGCTCACATCTCAGGTCGATACCATGTCCCAAACATGGTC
1 CATGTCCCAGACAT-GTCTTACACTAGCTCACATCTCAGATCGATACCATGTCCCAAACATGATC
*
18974425 TTACACTGAC-CATCAT-CTCGTAGCCGATG
65 TTACACTGACTC-TCATAAT-GTAGCCGATG
* * * * *
18974454 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCA-ATACCGATGCCATGTCTCAGACATGAT
1 CATGTCCCAGACATGTCTTACACTAGCTCACATCTCAGAT--CGATACCATGTCCCAAACATGAT
* * *
18974518 CTTACACTGGCTCTCATAATGTGGTCGATG
64 CTTACACTGACTCTCATAATGTAGCCGATG
18974548 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
18974575 CAACAATAAC
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
92 1 0.01
93 20 0.19
94 81 0.78
95 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTCACATCTCAGATCGATACCATGTCCCAAACATGATCT
TACACTGACTCTCATAATGTAGCCGATG
Found at i:18982040 original size:47 final size:46
Alignment explanation
Indices: 18981970--18982189 Score: 189
Period size: 47 Copynumber: 4.7 Consensus size: 46
18981960 TAAGGTGCCA
*
18981970 ATGCCATGTCCTAGACATAGTCTTACACTGGCTTACATCTCAAGTTG
1 ATGCCATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCAAGTCG
* * * * *
18982017 ATGCCATGTCCCAAACATGGTCTTACACTGAC-TATCATCTCGTAGCCG
1 ATGCCATGTCCTAGACAT-GTCTTACACTGGCTTA-CATCTC-AAGTCG
* * * * * *
18982065 ATG-CATATCCCACACATGTCTTACACTGGCTTACGTCTTGAGGTCG
1 ATGCCATGTCCTAGACATGTCTTACACTGGCTTACATC-TCAAGTCG
* * *
18982111 AT-ACATGTCCTAGACATGTCTTACACTAGCTCT-CATCTCAA-TACCA
1 ATGCCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCAAGT--CG
18982157 ATGCCATGTCCTAGACATGATCTTACACTGGCT
1 ATGCCATGTCCTAGACATG-TCTTACACTGGCT
18982190 CTCATAATGT
Statistics
Matches: 138, Mismatches: 25, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 52 0.38
47 65 0.47
48 18 0.13
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (46 bp):
ATGCCATGTCCTAGACATGTCTTACACTGGCTTACATCTCAAGTCG
Found at i:18982128 original size:46 final size:46
Alignment explanation
Indices: 18981974--18982137 Score: 136
Period size: 46 Copynumber: 3.5 Consensus size: 46
18981964 GTGCCAATGC
* ** * *
18981974 CATGTCCTAGACATAGTCTTACACTGGCTTACATCTCAAGTTGATGC
1 CATGTCCCAGACATAGTCTTACACTGGCTTACATCTTGAGTCGAT-A
* * * * * *
18982021 CATGTCCCAAACATGGTCTTACACTGAC-TATCATCTCGTAGCCGATG
1 CATGTCCCAGACATAGTCTTACACTGGCTTA-CATCTTG-AGTCGATA
* * *
18982068 CATATCCCACACAT-GTCTTACACTGGCTTACGTCTTGAGGTCGATA
1 CATGTCCCAGACATAGTCTTACACTGGCTTACATCTTGA-GTCGATA
*
18982114 CATGTCCTAGACAT-GTCTTACACT
1 CATGTCCCAGACATAGTCTTACACT
18982138 AGCTCTCATC
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 45 0.47
47 44 0.46
48 5 0.05
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATAGTCTTACACTGGCTTACATCTTGAGTCGATA
Found at i:18982226 original size:140 final size:140
Alignment explanation
Indices: 18981974--18982234 Score: 323
Period size: 140 Copynumber: 1.9 Consensus size: 140
18981964 GTGCCAATGC
* ** *
18981974 CATGTCCTAGACATAGTCTTACACTGGCTTACATCTCAAGTTGATGCCATGTCCCAAACATGGTC
1 CATGTCCTAGACATAGTCTTACACTAGCTTACATCTCAAGTCAATGCCATGTCCCAAACATGATC
*
18982039 TTACACTGACTATCATCTCGTAGCCGATGCATATCCCACACATGTCTTACACTGGCTTACGTCTT
66 TTACACTGACTATCATATCGTAGCCGATGCATATCCCACACATGTCTTACACTGGCTTACGTCTT
18982104 GAGGTCGATA
131 GAGGTCGATA
* *
18982114 CATGTCCTAGACAT-GTCTTACACTAGCTCT-CATCTCAA-TACCAATGCCATGTCCTAGACATG
1 CATGTCCTAGACATAGTCTTACACTAGCT-TACATCTCAAGT--CAATGCCATGTCCCAAACATG
* * * * * * **
18982176 ATCTTACACTGGCTCTCATAAT-GTGGCTGATTCATGTCCCGGACATGTCTTACACTGGC
63 ATCTTACACTGACTATCAT-ATCGTAGCCGATGCATATCCCACACATGTCTTACACTGGC
18982235 CAACAATAAC
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
138 1 0.01
139 21 0.21
140 79 0.77
141 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (140 bp):
CATGTCCTAGACATAGTCTTACACTAGCTTACATCTCAAGTCAATGCCATGTCCCAAACATGATC
TTACACTGACTATCATATCGTAGCCGATGCATATCCCACACATGTCTTACACTGGCTTACGTCTT
GAGGTCGATA
Found at i:18982492 original size:37 final size:37
Alignment explanation
Indices: 18982437--18982510 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
18982427 TTACAAAATG
* *
18982437 TGGCTACTAGTCAATTTAGTTGATTTGCTTATCTTTC
1 TGGCGACTAGTCAATTTAGTCGATTTGCTTATCTTTC
18982474 TGGCGACTAGTCAATTTAGTCGATTTGCTTATCTTTC
1 TGGCGACTAGTCAATTTAGTCGATTTGCTTATCTTTC
18982511 CCCCGGTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.46
Consensus pattern (37 bp):
TGGCGACTAGTCAATTTAGTCGATTTGCTTATCTTTC
Found at i:18992778 original size:3 final size:3
Alignment explanation
Indices: 18992770--18992796 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18992760 ATGTTTATGA
18992770 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
18992797 TAGTATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18995641 original size:60 final size:59
Alignment explanation
Indices: 18995520--18995655 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 59
18995510 AACTATGTTA
* *
18995520 ATATGGGCAAGGCCCAATATATCTCACTTGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATATCTCACTTGTAATAGGGCTACGGCCCAGATTAATACTG
* * * *
18995579 ATATGGGCTAGGCCCAATATACTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATA-TCTCACT--TGTAATAGGGCTACGGCCCAGATTAATACTG
18995639 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
18995656 GTTAACACTG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
59 21 0.31
60 34 0.51
61 12 0.18
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATATCTCACTTGTAATAGGGCTACGGCCCAGATTAATACTG
Found at i:18996328 original size:16 final size:17
Alignment explanation
Indices: 18996296--18996328 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18996286 CATCAAGAAG
18996296 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
18996314 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
18996329 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:18997635 original size:26 final size:24
Alignment explanation
Indices: 18997606--18997657 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
18997596 TTTACTCATG
*
18997606 TTGTTTGAAGTTTTTTTATTTTAATT
1 TTGTTTCAAG-TTTTTT-TTTTAATT
18997632 TTGTTTCAAGTTTTTTTTTTAATT
1 TTGTTTCAAGTTTTTTTTTTAATT
18997656 TT
1 TT
18997658 AATTTTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.40
25 6 0.24
26 9 0.36
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (24 bp):
TTGTTTCAAGTTTTTTTTTTAATT
Found at i:18997704 original size:23 final size:21
Alignment explanation
Indices: 18997678--18997731 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 21
18997668 TTTTAATTAA
18997678 TTTAATTCATGTTGTTTAAATTT
1 TTTAATTCATG-T-TTTAAATTT
*
18997701 TTTAATAAACATGTTTTAAATTT
1 TTTAAT--TCATGTTTTAAATTT
18997724 TTCTAATT
1 TT-TAATT
18997732 TTATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
23 17 0.65
24 5 0.19
25 4 0.15
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (21 bp):
TTTAATTCATGTTTTAAATTT
Found at i:18999207 original size:24 final size:24
Alignment explanation
Indices: 18999175--18999260 Score: 77
Period size: 24 Copynumber: 3.5 Consensus size: 24
18999165 TTACTCATTT
*
18999175 GCACTCATAGTGCCGCGTTTCCTC
1 GCACACATAGTGCCGCGTTTCCTC
* *
18999199 GCACACATAGTGCCATGTAGTTT--TT
1 GCACACATAGTGCC--G-CGTTTCCTC
* **
18999224 GCACACATAGTGCCGCATAACCTC
1 GCACACATAGTGCCGCGTTTCCTC
18999248 GCACACATAGTGC
1 GCACACATAGTGC
18999261 TGAAATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 27 0.55
25 15 0.31
26 1 0.02
27 4 0.08
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (24 bp):
GCACACATAGTGCCGCGTTTCCTC
Found at i:18999209 original size:49 final size:50
Alignment explanation
Indices: 18999149--18999261 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 50
18999139 TTTAAAGGTC
* * * **
18999149 CGCACATATAGTGCTC-T-TACTCATTTGCACTCATAGTGCCGCGTTTCCT
1 CGCACACATAGTGCTCATGTACT-ATTTGCACACATAGTGCCGCATAACCT
* *
18999198 CGCACACATAGTGC-CATGTAGTTTTTGCACACATAGTGCCGCATAACCT
1 CGCACACATAGTGCTCATGTACTATTTGCACACATAGTGCCGCATAACCT
18999247 CGCACACATAGTGCT
1 CGCACACATAGTGCT
18999262 GAAATTTCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
48 1 0.02
49 50 0.93
50 3 0.06
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (50 bp):
CGCACACATAGTGCTCATGTACTATTTGCACACATAGTGCCGCATAACCT
Found at i:19003300 original size:13 final size:13
Alignment explanation
Indices: 19003268--19003293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19003258 TATGTTATAC
19003268 ATATCAACACATA
1 ATATCAACACATA
19003281 ATATCAACACATA
1 ATATCAACACATA
19003294 TATTCAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
ATATCAACACATA
Found at i:19008501 original size:29 final size:29
Alignment explanation
Indices: 19008467--19008598 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
19008457 TACTCGATTT
** * *
19008467 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
19008496 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
19008525 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
19008554 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
19008583 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
19008599 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:19015111 original size:5 final size:5
Alignment explanation
Indices: 19015101--19015125 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19015091 ATATCTTGTA
19015101 TGATT TGATT TGATT TGATT TGATT
1 TGATT TGATT TGATT TGATT TGATT
19015126 ATGTAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TGATT
Found at i:19019675 original size:15 final size:15
Alignment explanation
Indices: 19019655--19019688 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19019645 TAATTATTTT
*
19019655 AATATAAAATAAATA
1 AATATAAAATAAACA
*
19019670 AATATAAACTAAACA
1 AATATAAAATAAACA
19019685 AATA
1 AATA
19019689 GTGACCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (15 bp):
AATATAAAATAAACA
Found at i:19021928 original size:17 final size:17
Alignment explanation
Indices: 19021906--19021949 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
19021896 AGATGGCAGC
19021906 AATAAGGTTTGAACTTG
1 AATAAGGTTTGAACTTG
19021923 AATAAGGTTTGAACTTG
1 AATAAGGTTTGAACTTG
19021940 AA-AA-GTTTGA
1 AATAAGGTTTGA
19021950 TGGTGCGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.22
16 2 0.07
17 19 0.70
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (17 bp):
AATAAGGTTTGAACTTG
Found at i:19024550 original size:29 final size:28
Alignment explanation
Indices: 19024513--19024621 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 28
19024503 GTGCCATACC
** *
19024513 TTCCGAGCTCGCACACCCAGTGCCGTATTT
1 TTCC-AGCTCGCACACATAGTG-CATATTT
*
19024543 TTCCAGCTTGCACACATAGTGTCATATTT
1 TTCCAGCTCGCACACATAGTG-CATATTT
* * *
19024572 TTCCAGCAT-GCACACTTAGTGCTTATAT
1 TTCCAGC-TCGCACACATAGTGCATATTT
* *
19024600 TTCCAGCACGCACACTTAGTGC
1 TTCCAGCTCGCACACATAGTGC
19024622 CAATCTCGTC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 25 0.37
29 38 0.56
30 5 0.07
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (28 bp):
TTCCAGCTCGCACACATAGTGCATATTT
Found at i:19024612 original size:28 final size:28
Alignment explanation
Indices: 19024542--19024621 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
19024532 GTGCCGTATT
* * *
19024542 TTTCCAGCTTGCACACATAGTGTCATATT
1 TTTCCAGCATGCACACTTAGTG-CATATA
*
19024571 TTTCCAGCATGCACACTTAGTGCTTATA
1 TTTCCAGCATGCACACTTAGTGCATATA
*
19024599 TTTCCAGCACGCACACTTAGTGC
1 TTTCCAGCATGCACACTTAGTGC
19024622 CAATCTCGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 26 0.57
29 20 0.43
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.34
Consensus pattern (28 bp):
TTTCCAGCATGCACACTTAGTGCATATA
Found at i:19028242 original size:27 final size:28
Alignment explanation
Indices: 19028212--19028281 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
19028202 ATAATAAGTC
*
19028212 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
19028239 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
19028267 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19028282 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.