Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 166 of 290
Found at i:53762915 original size:22 final size:22
Alignment explanation
Indices: 53762887--53762929 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
53762877 GACTATACGA
53762887 TCTGAGCTCATGAGT-TATGTGG
1 TCTGAGCTCATGA-TATATGTGG
53762909 TCTGAGCTCATGATATATGTG
1 TCTGAGCTCATGATATATGTG
53762930 ACACATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGATATATGTGG
Found at i:53764924 original size:21 final size:23
Alignment explanation
Indices: 53764894--53764945 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
53764884 GGTTAGTGTA
*
53764894 TTTAGTTAGTTTTAA-T-GTTATT
1 TTTA-TTAGTTATAATTAGTTATT
53764916 TTTATTAG-TATAATTAGTTATT
1 TTTATTAGTTATAATTAGTTATT
53764938 TTT-TTAGT
1 TTTATTAGT
53764946 AGTAGTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.15
21 9 0.35
22 13 0.50
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (23 bp):
TTTATTAGTTATAATTAGTTATT
Found at i:53765130 original size:24 final size:22
Alignment explanation
Indices: 53765071--53765117 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
53765061 TTTCAATAGT
53765071 GTTATTTTAGAAACAACCATTG
1 GTTATTTTAGAAACAACCATTG
*
53765093 GTTATTCTAGAAACAACCATTG
1 GTTATTTTAGAAACAACCATTG
53765115 GTT
1 GTT
53765118 GTATTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
GTTATTTTAGAAACAACCATTG
Found at i:53767148 original size:41 final size:40
Alignment explanation
Indices: 53767091--53767173 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 40
53767081 TTCAGAATGC
53767091 CTAAGAGCCCTCAAAAGTGACCTTTTCCGAATAGGACTATA
1 CTAAGAGCCCTCAAAAGTGACCTTTTCCGAATAGGA-TATA
* *
53767132 CTAAGAGCCTTCAAAAGTGGCCTTTTCCGAATAGGATATA
1 CTAAGAGCCCTCAAAAGTGACCTTTTCCGAATAGGATATA
53767172 CT
1 CT
53767174 TGGGCTCGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 6 0.15
41 34 0.85
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (40 bp):
CTAAGAGCCCTCAAAAGTGACCTTTTCCGAATAGGATATA
Found at i:53773482 original size:40 final size:40
Alignment explanation
Indices: 53773411--53773628 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
53773401 AAACCAAGTA
* * *
53773411 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
53773450 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
53773490 CCTTCGGGACCTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
53773530 CCTTCGGGACCTAGCCCGGATATATTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
53773570 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
53773610 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53773629 TTATCATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 149 0.91
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:53781805 original size:40 final size:40
Alignment explanation
Indices: 53781744--53781951 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
53781734 CCTTCAGAAT
*
53781744 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
53781783 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
53781823 CTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
53781863 CTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * * *
53781903 TTAGCCC-GAAATTAGTCACTAGCACAAATGCCTTCGAGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
53781943 TTAGCCCGG
1 TTAGCCCGG
53781952 TTATCATCCG
Statistics
Matches: 154, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 8 0.05
40 145 0.94
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:53789930 original size:21 final size:21
Alignment explanation
Indices: 53789906--53789950 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
53789896 TTGTTAGCTA
53789906 ATATATGCTAAA-TGTTGAAAT
1 ATATATGC-AAATTGTTGAAAT
* *
53789927 ATATATTCAAATTGTTGAATT
1 ATATATGCAAATTGTTGAAAT
53789948 ATA
1 ATA
53789951 ATCTTGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (21 bp):
ATATATGCAAATTGTTGAAAT
Found at i:53791798 original size:44 final size:42
Alignment explanation
Indices: 53791649--53791803 Score: 140
Period size: 44 Copynumber: 3.7 Consensus size: 42
53791639 AACATATACA
* * *
53791649 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAACATCA
1 ATGCCAACGTCCTAGACGTGGTCTTACATGTAA-AAAAGATCG
**
53791692 ATGCC-ACTGTCCTAGACAGT-G--TTACATG-AAATCAGATACG
1 ATGCCAAC-GTCCTAGAC-GTGGTCTTACATGTAAAAAAGAT-CG
* * * *
53791732 ATGCCGATGTCCCAGACATGGTCTTACATGTAAAAAAGAAGTCG
1 ATGCCAACGTCCTAGACGTGGTCTTACATGTAAAAAAG-A-TCG
53791776 ATGCCAACGTCCTAGACGTGGTCTTACA
1 ATGCCAACGTCCTAGACGTGGTCTTACA
53791804 CGAAATCACA
Statistics
Matches: 88, Mismatches: 14, Indels: 19
0.73 0.12 0.16
Matches are distributed among these distances:
39 4 0.05
40 17 0.19
41 8 0.09
42 9 0.10
43 20 0.23
44 29 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCTAGACGTGGTCTTACATGTAAAAAAGATCG
Found at i:53795243 original size:50 final size:50
Alignment explanation
Indices: 53795168--53795399 Score: 193
Period size: 50 Copynumber: 4.6 Consensus size: 50
53795158 CTTGCACGCA
* * *
53795168 TAGTAGCCTGA-ACTTAGTAGTACACACGTGGCTTATCCATATGATACACG
1 TAGTAGCCT-ACACTTAGTACTACACACGTGACCTATCCATATGATACACG
** * * * * *
53795218 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGT-TA-ACGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CCTA-TCCATA-TGATACACG
* * * ** * *
53795269 TAGTAGCCTGCACTTAATACTACACATGCAACCTATCAATCT-AGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCCATATGA-TACACG
* * * * *
53795319 TAGTAGCCTACATTTAGAACTGCACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCCATATGATACACG
53795369 TAGTAGCCTACACTTAGTACTACACACGTGA
1 TAGTAGCCTACACTTAGTACTACACACGTGA
53795400 TCGAAACTAT
Statistics
Matches: 139, Mismatches: 35, Indels: 16
0.73 0.18 0.08
Matches are distributed among these distances:
49 2 0.01
50 101 0.73
51 35 0.25
52 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCTATCCATATGATACACG
Found at i:53795434 original size:51 final size:51
Alignment explanation
Indices: 53795212--53795445 Score: 195
Period size: 50 Copynumber: 4.6 Consensus size: 51
53795202 ATCCATATGA
* * ** *
53795212 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAACGGG
1 TACACATAGTAGCCTACACTTAGTACTACACACGTGATCCAAACTATCGGG
* * * * * * * **
53795263 TACGCATAGTAGCCTGCACTTAATACTACACA--TGCAACCTATCAATCTAG
1 TACACATAGTAGCCTACACTTAGTACTACACACGTG-ATCCAAACTATCGGG
* * * * * * * *
53795313 TACACGTAGTAGCCTACATTTAGAACTGCACACGTGA-CCTAACCATCTGA
1 TACACATAGTAGCCTACACTTAGTACTACACACGTGATCCAAACTATCGGG
* *
53795363 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAACTATCGGG
1 TACACATAGTAGCCTACACTTAGTACTACACACGTGATCCAAACTATCGGG
** *
53795414 TATGCATAGTAGCCTGCACTTAGTACTACACA
1 TACACATAGTAGCCTACACTTAGTACTACACA
53795446 TGCGACCTAA
Statistics
Matches: 143, Mismatches: 36, Indels: 8
0.76 0.19 0.04
Matches are distributed among these distances:
49 2 0.01
50 74 0.52
51 65 0.45
52 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
TACACATAGTAGCCTACACTTAGTACTACACACGTGATCCAAACTATCGGG
Found at i:53805802 original size:21 final size:21
Alignment explanation
Indices: 53805759--53805802 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
53805749 ACACACTCAG
*
53805759 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAGCTATTAATAAA
53805780 CTTAATTGAGCTAATTAA-AAA
1 CTTAATTGAGCT-ATTAATAAA
53805801 CT
1 CT
53805803 ACAAGACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (21 bp):
CTTAATTGAGCTATTAATAAA
Found at i:53811496 original size:31 final size:29
Alignment explanation
Indices: 53811432--53811500 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
53811422 ATTTACTAGA
*
53811432 ATACCCCTATGTATGCAAAAATTACCATT
1 ATACCCCTATGTATGCAAAAATGACCATT
53811461 ATACCCCTATGTATGC-AAAATGACCTTTATT
1 ATACCCCTATGTATGCAAAAATGACC---ATT
53811492 ATACCCCTA
1 ATACCCCTA
53811501 GGGTTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 8 0.22
29 16 0.44
31 12 0.33
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (29 bp):
ATACCCCTATGTATGCAAAAATGACCATT
Found at i:53811649 original size:28 final size:27
Alignment explanation
Indices: 53811618--53811692 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
53811608 GGTGGCTATG
*
53811618 CCACAAATTATCTGTTCTGGTGGCCCTA
1 CCACAAA-TATCTGTTCTGGTGGCACTA
** *
53811646 CCACGTATATCTGTTCTGGTGGCACTG
1 CCACAAATATCTGTTCTGGTGGCACTA
53811673 CCACAAAATATCTGTATCTG
1 CCAC-AAATATCTGT-TCTG
53811693 ATGAGTCTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
27 22 0.56
28 13 0.33
29 4 0.10
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (27 bp):
CCACAAATATCTGTTCTGGTGGCACTA
Found at i:53812797 original size:11 final size:10
Alignment explanation
Indices: 53812769--53812802 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
53812759 AGCCTGTAAG
53812769 TATTCTGAAT
1 TATTCTGAAT
*
53812779 TTTTCTGAAT
1 TATTCTGAAT
53812789 ATATTCTGAAT
1 -TATTCTGAAT
53812800 TAT
1 TAT
53812803 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:53819350 original size:28 final size:29
Alignment explanation
Indices: 53819292--53819357 Score: 107
Period size: 28 Copynumber: 2.3 Consensus size: 29
53819282 ATTTACTAGA
*
53819292 ATACCCCTATGTATGCAAAAATTACCATT
1 ATACCCCTATGTATGCAAAAATGACCATT
*
53819321 ATACCCCTATGTATGC-AAAATGACCTTT
1 ATACCCCTATGTATGCAAAAATGACCATT
53819349 ATACCCCTA
1 ATACCCCTA
53819358 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (29 bp):
ATACCCCTATGTATGCAAAAATGACCATT
Found at i:53819563 original size:29 final size:28
Alignment explanation
Indices: 53819463--53819552 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
53819453 AGGAAGCGTC
*
53819463 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
53819491 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
53819518 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
53819547 CTGGTG
1 CTGGTG
53819553 AGTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:53822784 original size:46 final size:46
Alignment explanation
Indices: 53822731--53822906 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
53822721 TGGTTGAGCA
*
53822731 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * * *
53822777 TCTGAACTCGTTGAGTTGATTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
53822824 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53822870 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53822907 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 60 0.59
47 27 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53822887 original size:93 final size:93
Alignment explanation
Indices: 53822728--53822899 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
53822718 GGATGGTTGA
* * * *
53822728 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
* *
53822793 TGATTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
53822821 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
53822886 TGAGTCCAAGTTCG
66 TGAGTCCAAGTTCG
53822900 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:53828712 original size:30 final size:30
Alignment explanation
Indices: 53828667--53828726 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
53828657 ATTTAATACG
* *
53828667 AACTTTGGCAAAATTATATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
53828697 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
53828727 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:53832619 original size:10 final size:11
Alignment explanation
Indices: 53832606--53832647 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 11
53832596 TTTTTCATTT
53832606 TATTTCTGG-G
1 TATTTCTGGTG
53832616 TATTTCTGGTG
1 TATTTCTGGTG
*
53832627 TATTTTCAGGTG
1 TA-TTTCTGGTG
53832639 TATTTCTGG
1 TATTTCTGG
53832648 GTCTGAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.32
11 9 0.32
12 10 0.36
ACGTcount: A:0.12, C:0.10, G:0.26, T:0.52
Consensus pattern (11 bp):
TATTTCTGGTG
Found at i:53833276 original size:20 final size:20
Alignment explanation
Indices: 53833234--53833286 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
53833224 AATAATTTAT
*
53833234 CAAAATTTCT-AAGGTTAAA
1 CAAAATTTCTAAAGCTTAAA
*
53833253 CAAAAATTTCTAAAGCTT-AC
1 C-AAAATTTCTAAAGCTTAAA
53833273 CAAAATTTCTAAAG
1 CAAAATTTCTAAAG
53833287 ATTTACTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 14 0.47
20 11 0.37
21 5 0.17
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (20 bp):
CAAAATTTCTAAAGCTTAAA
Found at i:53833292 original size:20 final size:20
Alignment explanation
Indices: 53833210--53833292 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
53833200 TACTAAGTAG
* *
53833210 TTACCAAAGTTGCTAATA-AT
1 TTACCAAAATTTCTAA-AGAT
* *
53833230 TTATCAAAATTTCT-AAGGT
1 TTACCAAAATTTCTAAAGAT
* * *
53833249 TAAACAAAAATTTCTAAAG-C
1 T-TACCAAAATTTCTAAAGAT
53833269 TTACCAAAATTTCTAAAGAT
1 TTACCAAAATTTCTAAAGAT
53833289 TTAC
1 TTAC
53833293 TAGTATCTCT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
18 1 0.02
19 18 0.38
20 26 0.54
21 3 0.06
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (20 bp):
TTACCAAAATTTCTAAAGAT
Found at i:53833445 original size:20 final size:20
Alignment explanation
Indices: 53833430--53833468 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53833420 TATAAGGTTA
53833430 TAACAAAATATCTAAGGATT
1 TAACAAAATATCTAAGGATT
* *
53833450 TACCAAAATTTCTAAGGAT
1 TAACAAAATATCTAAGGAT
53833469 ATTTTGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (20 bp):
TAACAAAATATCTAAGGATT
Found at i:53836423 original size:120 final size:119
Alignment explanation
Indices: 53836252--53836529 Score: 289
Period size: 120 Copynumber: 2.3 Consensus size: 119
53836242 TCGGTATGCC
* * * *
53836252 AAAATGTTGAGTTGATCAAGTTTGAGACACTAAGGAAATCTTAAGAAATTTTGGTG-AGCTCTCA
1 AAAATGTTGAGTTGATCGAGTTTGAGACACTAAAGAAATCTTAAGAAATTTTGATGAATC-CTCA
* * **
53836316 GAAATATTGGTATAAA-CTTAGAAA-TTTTGGAAAAGCCTT-GAAATTTTTGTTATGTT
65 AAAATATT-G-ATAAACCTT-GAAAGTTTTGCAAAAGCCTTGGAAA-TTTTGGCATGTT
* * * * *
53836372 AAAATGTTGAGTTGATCGAGTTTGGGGCACTAAAGAAATATTTAA-ATATTTTGATGAATCCTTA
1 AAAATGTTGAGTTGATCGAGTTTGAGACACTAAAGAAAT-CTTAAGAAATTTTGATGAATCCTCA
*
53836436 AAAATATTGATAAATCCTTGAAAGTTTTGCTAAAGCCTTGGAAATTTTGGCATGTT
65 AAAATATTGATAAA-CCTTGAAAGTTTTGCAAAAGCCTTGGAAATTTTGGCATGTT
* * * *
53836492 AAAATGTTGAATTGATTGAGTTTAAGACAC-AAGGAAAT
1 AAAATGTTGAGTTGATCGAGTTTGAGACACTAAAGAAAT
53836530 TATTAGATAT
Statistics
Matches: 132, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
118 5 0.04
119 12 0.09
120 105 0.80
121 10 0.08
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (119 bp):
AAAATGTTGAGTTGATCGAGTTTGAGACACTAAAGAAATCTTAAGAAATTTTGATGAATCCTCAA
AAATATTGATAAACCTTGAAAGTTTTGCAAAAGCCTTGGAAATTTTGGCATGTT
Found at i:53836469 original size:20 final size:20
Alignment explanation
Indices: 53836446--53836484 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
53836436 AAAATATTGA
*
53836446 TAAATCCTT-GAAAGTTTTGC
1 TAAAGCCTTGGAAA-TTTTGC
53836466 TAAAGCCTTGGAAATTTTG
1 TAAAGCCTTGGAAATTTTG
53836485 GCATGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (20 bp):
TAAAGCCTTGGAAATTTTGC
Found at i:53841275 original size:11 final size:12
Alignment explanation
Indices: 53841249--53841282 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
53841239 TAGGTTTCCA
53841249 AAAATGGAAATG
1 AAAATGGAAATG
* *
53841261 GAAATGAAAATG
1 AAAATGGAAATG
53841273 AAAATGGAAA
1 AAAATGGAAA
53841283 CTTGCAATCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:53851922 original size:50 final size:50
Alignment explanation
Indices: 53851847--53851943 Score: 167
Period size: 50 Copynumber: 1.9 Consensus size: 50
53851837 TACTAGAAGA
* * *
53851847 AAATAAATCAGCGACAAAAATCTCATTTAATAGATAGAAGATTAACTCGC
1 AAATAAATCAACGACAAAAATCTCATTTAACAGACAGAAGATTAACTCGC
53851897 AAATAAATCAACGACAAAAATCTCATTTAACAGACAGAAGATTAACT
1 AAATAAATCAACGACAAAAATCTCATTTAACAGACAGAAGATTAACT
53851944 GGCTTCAGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.23
Consensus pattern (50 bp):
AAATAAATCAACGACAAAAATCTCATTTAACAGACAGAAGATTAACTCGC
Found at i:53861568 original size:14 final size:14
Alignment explanation
Indices: 53861549--53861583 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
53861539 TTCAATAATA
53861549 TTGATTTGAAAATT
1 TTGATTTGAAAATT
53861563 TTGATTTGAAAATT
1 TTGATTTGAAAATT
53861577 TTGATTT
1 TTGATTT
53861584 ACTCACAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (14 bp):
TTGATTTGAAAATT
Found at i:53862490 original size:343 final size:339
Alignment explanation
Indices: 53861868--53862494 Score: 889
Period size: 343 Copynumber: 1.8 Consensus size: 339
53861858 GTTGAGTTTG
* * *
53861868 TGCCATTGTTCTTGTGATGACCTCCATGTTACTCCTACAAATGTGGTTGAAGGGATTTTTTTACC
1 TGCCATTGTGCTTGTGATGACCTCCATGTTACTCCTACAAATGTGGGTAAAGGGATTTTTTTACC
* * * * *
53861933 ACGGTAGCAAAGCTAAAGAATTCGCTTGCTTTTGCCAAATCTCTTGAGGTAATATCACATGGAAT
66 ACGGTAGCAAAGCCAAAGAATTCACTTACTTTTGCCAAAGCTCTTGAGATAATATCACATGGAAT
** * * * *
53861998 GGGTTTACTTGTGAAGACTGATGAGTTCTATACCAGCCAAAATTTTCTTCTCAAATAGTGAAGCA
131 GGGTTTACTTGTGAAGACCAATGAGTTCCATACAAGCCAAAATTTTCTTCTCAAATAGAGAAACA
* ** * *
53862063 GTTAACGTAATTCTAAGTTATTTGAACTTTTTGGAATCAAACATTTGAGACAACATTAGCTTTGA
196 GTTAACGTAATTATAAGGAATTTGAACTTTTTAGAACCAAACATTTGAGACAACATTAGCTTTGA
53862128 GCCATTCAAACTAGCTAAGTCTTGTATCTAACACTTTATTCCCAAATTCCCCATGATGGAGTCAT
261 GCCATTCAAACTAGCTAAGTCTTGTATCTAACACTTTATTCCCAAATTCCCCATGATGGAGTCAT
53862193 TTGTATTAAGTTAA
326 TTGTATTAAGTTAA
* * *
53862207 TGCCATTGTGCTTGTGGTGCCCTCCATGTTACTCCTACAATTGTGGGTAAAGGGATTTTCTTTTT
1 TGCCATTGTGCTTGTGATGACCTCCATGTTACTCCTACAAATGTGGGTAAAGGGA--TT-TTTTT
* * * * *
53862272 AATCACGGTAGCAAGGCCAAAGAATTCATTTACTTTTGCTAAAGCTCTTGAGATAATATCACTTG
63 -ACCACGGTAGCAAAGCCAAAGAATTCACTTACTTTTGCCAAAGCTCTTGAGATAATATCACATG
53862337 GAATGGGTTTACTTGTGAAGACCAATGAGTTCCATACAAGCCAAAATTTTCTTCTCTGAAA-A-A
127 GAATGGGTTTACTTGTGAAGACCAATGAGTTCCATACAAGCCAAAATTTTCTTCTC--AAATAGA
* * * *
53862400 GAAACAGTTCACGTATTTATAAGGAATTTGAACTTTTTAGAACCAAACCTTTGAGTCAACATTAG
190 GAAACAGTTAACGTAATTATAAGGAATTTGAACTTTTTAGAACCAAACATTTGAGACAACATTAG
**
53862465 CTTTGAGCCATTTGAACTAGCTAAGTCTTG
255 CTTTGAGCCATTCAAACTAGCTAAGTCTTG
53862495 GAGCAACAAT
Statistics
Matches: 249, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
339 49 0.20
341 2 0.01
342 5 0.02
343 189 0.76
344 1 0.00
345 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (339 bp):
TGCCATTGTGCTTGTGATGACCTCCATGTTACTCCTACAAATGTGGGTAAAGGGATTTTTTTACC
ACGGTAGCAAAGCCAAAGAATTCACTTACTTTTGCCAAAGCTCTTGAGATAATATCACATGGAAT
GGGTTTACTTGTGAAGACCAATGAGTTCCATACAAGCCAAAATTTTCTTCTCAAATAGAGAAACA
GTTAACGTAATTATAAGGAATTTGAACTTTTTAGAACCAAACATTTGAGACAACATTAGCTTTGA
GCCATTCAAACTAGCTAAGTCTTGTATCTAACACTTTATTCCCAAATTCCCCATGATGGAGTCAT
TTGTATTAAGTTAA
Found at i:53869385 original size:15 final size:14
Alignment explanation
Indices: 53869367--53869406 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
53869357 TTTTTCCATT
53869367 TTCTTTTTCTTGTTC
1 TTCTTTTTCTT-TTC
53869382 TTCTTTTTCTTTTC
1 TTCTTTTTCTTTTC
*
53869396 -TCATTTTCTTT
1 TTCTTTTTCTTT
53869407 CCTCTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 10 0.42
14 3 0.12
15 11 0.46
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.75
Consensus pattern (14 bp):
TTCTTTTTCTTTTC
Found at i:53869474 original size:21 final size:23
Alignment explanation
Indices: 53869450--53869499 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
53869440 TCATTTCTCA
53869450 TTTCTTTTTC-ATT-TTCTTTTC
1 TTTCTTTTTCAATTATTCTTTTC
53869471 TTTCTTTTTCTAATTCATTCTTTTC
1 TTTCTTTTTC-AATT-ATTCTTTTC
53869496 TTTC
1 TTTC
53869500 AATTGATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.40
23 3 0.12
25 12 0.48
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTCTTTTTCAATTATTCTTTTC
Found at i:53870906 original size:15 final size:15
Alignment explanation
Indices: 53870886--53870915 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53870876 ATAATCTTAA
*
53870886 TAATTATCTTAATAT
1 TAATTATCCTAATAT
53870901 TAATTATCCTAATAT
1 TAATTATCCTAATAT
53870916 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:53872203 original size:29 final size:29
Alignment explanation
Indices: 53872161--53872219 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
53872151 GTGAACGAAC
*
53872161 TTAAACTTCAAGAAAGATTCGATACTATA
1 TTAAACTTCAAGAAAGATTCAATACTATA
53872190 TTAAACTTCAAGAAAGATTCAATACTATA
1 TTAAACTTCAAGAAAGATTCAATACTATA
53872219 T
1 T
53872220 CGAGTATCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (29 bp):
TTAAACTTCAAGAAAGATTCAATACTATA
Found at i:53873676 original size:56 final size:56
Alignment explanation
Indices: 53873590--53873709 Score: 215
Period size: 56 Copynumber: 2.2 Consensus size: 56
53873580 TCACGTCATT
* *
53873590 TTGATATTGCTGTTGAGGTGCCTTATATGGCATATTGGTTGAATGATATTGGATTA
1 TTGATATTGCTATTGAGGTGCCTTATATGGCATATTGGTTGAATGATATTGGACTA
53873646 TTGATATTGCTATTGAGGTGCCTTATATGGCATATTGGTTGAATGATATTGGACTA
1 TTGATATTGCTATTGAGGTGCCTTATATGGCATATTGGTTGAATGATATTGGACTA
53873702 TTGA-ATTG
1 TTGATATTG
53873710 GCCATTTCAT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 4 0.06
56 58 0.94
ACGTcount: A:0.24, C:0.07, G:0.26, T:0.42
Consensus pattern (56 bp):
TTGATATTGCTATTGAGGTGCCTTATATGGCATATTGGTTGAATGATATTGGACTA
Found at i:53873680 original size:28 final size:28
Alignment explanation
Indices: 53873593--53873682 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 28
53873583 CGTCATTTTG
*
53873593 ATATTGCTGTTGAGGTGCCTTATATGGC
1 ATATTGCTATTGAGGTGCCTTATATGGC
* * ** **
53873621 ATATTGGTTGAATGATATTGGATTAT-T-G-
1 ATATT-GCT-ATTGA-GGTGCCTTATATGGC
53873649 ATATTGCTATTGAGGTGCCTTATATGGC
1 ATATTGCTATTGAGGTGCCTTATATGGC
53873677 ATATTG
1 ATATTG
53873683 GTTGAATGAT
Statistics
Matches: 43, Mismatches: 13, Indels: 12
0.63 0.19 0.18
Matches are distributed among these distances:
25 6 0.14
26 5 0.12
27 3 0.07
28 16 0.37
29 3 0.07
30 4 0.09
31 6 0.14
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.42
Consensus pattern (28 bp):
ATATTGCTATTGAGGTGCCTTATATGGC
Found at i:53877073 original size:80 final size:80
Alignment explanation
Indices: 53876940--53877190 Score: 423
Period size: 80 Copynumber: 3.1 Consensus size: 80
53876930 ATTTGAATGA
53876940 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
53877005 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
53877020 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
53877085 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
* * * * *
53877100 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
* * *
53877165 TTGTGCTTGTGGTTA
66 TTGTGCTAGTGATTT
53877180 TATCC-GGCTAA
1 TATCCGGGCTAA
53877191 ATTCCGAAGA
Statistics
Matches: 163, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
79 6 0.04
80 157 0.96
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
TTGTGCTAGTGATTT
Found at i:53877182 original size:40 final size:40
Alignment explanation
Indices: 53876939--53877190 Score: 299
Period size: 40 Copynumber: 6.3 Consensus size: 40
53876929 CATTTGAATG
* * *
53876939 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
53876979 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * *
53877019 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
53877059 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * *
53877099 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
**
53877139 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
53877179 ATATCC-GGCTAA
1 ATATCCGGGCTAA
53877191 ATTCCGAAGA
Statistics
Matches: 173, Mismatches: 39, Indels: 1
0.81 0.18 0.00
Matches are distributed among these distances:
39 6 0.03
40 167 0.97
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
Found at i:53882818 original size:21 final size:22
Alignment explanation
Indices: 53882789--53882829 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
53882779 TCGTGTTAGG
*
53882789 GACTATATGATTGTATTTGAAT
1 GACTATATGATTGGATTTGAAT
*
53882811 GACT-TATGTTTGGATTTGA
1 GACTATATGATTGGATTTGA
53882830 TAAATGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (22 bp):
GACTATATGATTGGATTTGAAT
Found at i:53886021 original size:42 final size:42
Alignment explanation
Indices: 53885910--53886074 Score: 204
Period size: 42 Copynumber: 3.9 Consensus size: 42
53885900 TACCGTACCA
* ** * * *
53885910 ATGCCATATCCCATATATGGTCTTACTTGTAATATCAGATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
* * ** *
53885952 ATGCCAATAGCCCAGCTATGGTCTTACACAAAGTCTCATATTT
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
* *
53885995 ATGCCATATCCTAGATATGGTCTTACACGTAGCCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
53886037 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCAT
53886075 TAACCCTAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 71 0.70
43 31 0.30
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
Found at i:53886037 original size:85 final size:84
Alignment explanation
Indices: 53885910--53886074 Score: 213
Period size: 85 Copynumber: 2.0 Consensus size: 84
53885900 TACCGTACCA
* ** * *
53885910 ATGCCATATCCCATATATGGTCTTACTTGTAATATCAGATTGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGTAACATCAGATTGATGCC-ATAGCCCAGATATGGTC
53885975 TTACACAAAGTCTCATATTT
65 TTACACAAAGTCTCATATTT
* * * * *
53885995 ATGCCATATCCTAGATATGGTCTTACACGTAGCCTCATATTGATGCCATATCCCAGATATGGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAACATCAGATTGATGCCATAGCCCAGATATGGTCT
**
53886060 TACACGTAGTCTCAT
66 TACACAAAGTCTCAT
53886075 TAACCCTAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 29 0.43
85 39 0.57
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAACATCAGATTGATGCCATAGCCCAGATATGGTCT
TACACAAAGTCTCATATTT
Found at i:53891346 original size:46 final size:46
Alignment explanation
Indices: 53891279--53891445 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 46
53891269 TGTAACCCGC
53891279 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
53891325 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * * *
53891375 CTC-T---CGAACTCGGACTCAACCCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
53891418 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
53891446 AAGTTCGGAT
Statistics
Matches: 102, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 55 0.54
47 26 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:53891400 original size:93 final size:93
Alignment explanation
Indices: 53891287--53891457 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
53891277 GCCCATAAGT
* * *
53891287 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACCCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
53891352 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* *
53891380 GAACTCGGACTCAACCCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACCCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
53891445 CAAGTTCGGATGC
66 CAAGCTCGGATGC
53891458 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACCCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:53891473 original size:46 final size:45
Alignment explanation
Indices: 53891284--53891473 Score: 147
Period size: 46 Copynumber: 4.1 Consensus size: 45
53891274 CCCGCCCATA
** *
53891284 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-ACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCC-T
53891329 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACATC-CT
* * * *** *
53891379 --CGAACTCGGACTCAACCCAACGAGTTCGGACATTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCC-T
* *
53891422 AAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAA-CATCCT
53891469 AGTGA
1 AGTGA
53891474 CATGTCACTT
Statistics
Matches: 114, Mismatches: 17, Indels: 26
0.73 0.11 0.17
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
45 1 0.01
46 66 0.58
47 28 0.25
48 6 0.05
50 6 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCCT
Found at i:53897261 original size:17 final size:17
Alignment explanation
Indices: 53897239--53897272 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
53897229 TTTGATAATT
53897239 AATTAAAA-ATGTAAAAG
1 AATTAAAAGATG-AAAAG
53897256 AATTAAAAGATGAAAAG
1 AATTAAAAGATGAAAAG
53897273 GTTATCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (17 bp):
AATTAAAAGATGAAAAG
Found at i:53900288 original size:101 final size:102
Alignment explanation
Indices: 53900107--53900291 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
53900097 TGAGAACACA
* ** *
53900107 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATGG-TTTAGGTCACATGTGTAGTACTAA
*
53900172 GTGCAAGCTATTATGCGTACCCGACAGCTTCGATCACG
65 GTGCAAGCTACTATGCGTACCCGACAGCTTCGATCACG
* * *
53900210 TGTGTAGTACTAAGTTCAGGCTACTACATGTATCAGATGG-TTAGGTTACATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATGGTTTAGGTCACATGTGTAGTACTAAG
*
53900274 TGCAGGCTACTATGCGTA
66 TGCAAGCTACTATGCGTA
53900292 TCAGATAACT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 39 0.53
103 34 0.47
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (102 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATGGTTTAGGTCACATGTGTAGTACTAAG
TGCAAGCTACTATGCGTACCCGACAGCTTCGATCACG
Found at i:53900293 original size:50 final size:50
Alignment explanation
Indices: 53900103--53900297 Score: 201
Period size: 50 Copynumber: 3.8 Consensus size: 50
53900093 ATTGTGAGAA
* * * *
53900103 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGG--TTAGGT
* * * * * * * *
53900155 CACATGTGTAGTACTAAGTGCAAGCTATTATGCGTACCCGACAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGA-TGGTTAGGT
* * ***
53900206 CACGTGTGTAGTACTAAGTTCAGGCTACTACATGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGGTTAGGT
*
53900256 TACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
53900298 AACTTCGGTT
Statistics
Matches: 111, Mismatches: 31, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
50 41 0.37
51 36 0.32
52 33 0.30
53 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGGTTAGGT
Found at i:53900331 original size:101 final size:102
Alignment explanation
Indices: 53900110--53900331 Score: 239
Period size: 101 Copynumber: 2.2 Consensus size: 102
53900100 GAACACATGT
* ** *
53900110 GTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACATGTGTAGTACTAAGTG
1 GTAGTAATATGTGCAGGCTACTACATGTATAAGATGG-TTTAGGTCACATGTGTAGTACTAAGTG
* * * ** *
53900175 CAAGCTATTATGCGTACCCGACAGCTTCGATCACGTGT
65 CAAGCTACTATGCGTACCAGACAACTTCGATCACAAGG
* * * * *
53900213 GTAGTACTAAGTTCAGGCTACTACATGTATCAGATGG-TTAGGTTACATGTGTAGTACTAAGTGC
1 GTAGTAATATGTGCAGGCTACTACATGTATAAGATGGTTTAGGTCACATGTGTAGTACTAAGTGC
* * * * *
53900277 AGGCTACTATGCGTATCAGATAACTTCGGTTACAAGG
66 AAGCTACTATGCGTACCAGACAACTTCGATCACAAGG
*
53900314 GTGGTAATATGTGCAGGC
1 GTAGTAATATGTGCAGGC
53900332 AACCATGTAT
Statistics
Matches: 97, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
101 66 0.68
103 31 0.32
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (102 bp):
GTAGTAATATGTGCAGGCTACTACATGTATAAGATGGTTTAGGTCACATGTGTAGTACTAAGTGC
AAGCTACTATGCGTACCAGACAACTTCGATCACAAGG
Found at i:53900517 original size:16 final size:15
Alignment explanation
Indices: 53900496--53900525 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
53900486 GAATGGAGTA
53900496 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
53900512 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
53900526 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:53906369 original size:15 final size:15
Alignment explanation
Indices: 53906336--53906369 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
53906326 TGACTTATCC
*
53906336 AAAACCCTAAAACCT
1 AAAACCCTAAAACCA
*
53906351 AAAACCCTAAACCCA
1 AAAACCCTAAAACCA
53906366 AAAA
1 AAAA
53906370 TTGATAAATA
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:0.59, C:0.32, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAACCCTAAAACCA
Found at i:53919074 original size:46 final size:46
Alignment explanation
Indices: 53919021--53919196 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
53919011 TGGTTGAGCA
*
53919021 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
53919067 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
53919114 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53919160 CCCGAGCTCGTTAAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53919197 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 63 0.57
47 30 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53919177 original size:93 final size:93
Alignment explanation
Indices: 53919018--53919188 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
53919008 AGATGGTTGA
* * * *
53919018 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTAAGT
53919083 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* *
53919111 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTAAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTAAGT
53919176 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53919189 GCTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTAAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:53922158 original size:15 final size:15
Alignment explanation
Indices: 53922138--53922193 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
53922128 GTATCTTGGG
53922138 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53922153 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
53922168 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
53922183 TTTCTTTATTC
1 TTTCTTTATTC
53922194 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53924152 original size:46 final size:46
Alignment explanation
Indices: 53924102--53924277 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
53924092 TGGTTGAGCA
*
53924102 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53924148 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
53924195 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
53924241 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53924278 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53924258 original size:93 final size:93
Alignment explanation
Indices: 53924099--53924270 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
53924089 GGATGGTTGA
* * ***
53924099 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
53924164 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
53924192 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
53924257 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53924271 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53927201 original size:29 final size:29
Alignment explanation
Indices: 53927166--53927241 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
53927156 AGTTATACCA
* *
53927166 ATTTGGCTTCGGGGCATGCATATCGGATG
1 ATTTGGCTTCGGGCCATGCATATCGAATG
*
53927195 ATTTGGCTTCGGGCCATGCATATTGAATG
1 ATTTGGCTTCGGGCCATGCATATCGAATG
53927224 ATTTGGCTTCGGGCCATG
1 ATTTGGCTTCGGGCCATG
53927242 ATAATTTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (29 bp):
ATTTGGCTTCGGGCCATGCATATCGAATG
Found at i:53933289 original size:17 final size:19
Alignment explanation
Indices: 53933256--53933305 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
53933246 AATTGAATCC
*
53933256 TAATT-AAATTAAGTT-AA
1 TAATTAAAATTTAGTTAAA
53933273 TAATTAAAATTTA-TTAAAA
1 TAATTAAAATTTAGTT-AAA
53933292 TAATTAAAATTTAG
1 TAATTAAAATTTAG
53933306 AGTAGACTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.25
18 6 0.21
19 15 0.54
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
TAATTAAAATTTAGTTAAA
Found at i:53933366 original size:22 final size:23
Alignment explanation
Indices: 53933314--53933359 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
53933304 AGAGTAGACT
53933314 AAATAATTTTTAATCTTGAAGAA
1 AAATAATTTTTAATCTTGAAGAA
53933337 AAATAATTTTTAATCTTGAAGAA
1 AAATAATTTTTAATCTTGAAGAA
53933360 TTTAATTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (23 bp):
AAATAATTTTTAATCTTGAAGAA
Found at i:53935984 original size:40 final size:41
Alignment explanation
Indices: 53935849--53936034 Score: 254
Period size: 41 Copynumber: 4.6 Consensus size: 41
53935839 TACTCGAATG
*
53935849 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAAGCGACT
* *
53935890 ATATCCGGACTAAGATCCGAAGGCATTGGTGCTAAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACT
*
53935931 ATATCCGGACTAAGATCCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACT
* * *
53935971 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAAGCGACT
*
53936011 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
53936035 CTTGTGCAAG
Statistics
Matches: 133, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.47
41 68 0.51
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACT
Found at i:53935996 original size:81 final size:79
Alignment explanation
Indices: 53935849--53936070 Score: 252
Period size: 81 Copynumber: 2.8 Consensus size: 79
53935839 TACTCGAATG
*
53935849 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGACTAAGAT-CCGAAG
1 ATATCCGGGCTAAGAT-CCGAAGGC-TTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCCGAAG
* *
53935912 GCATTGGTGCTAAGCGACT
62 GCATTGATGCT-AGCGACC
*
53935931 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGATCCGAAGGC-TTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
* *
53935996 TTTATGCTAGTGACC
65 TTGATGCTAGCGACC
* * * * ** *
53936011 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTGGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGATCCGAAGGCTTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAG
53936071 ATGCTTGATT
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
78 14 0.11
79 16 0.13
80 28 0.23
81 35 0.28
82 29 0.24
83 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGATCCGAAGGCTTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TGATGCTAGCGACC
Found at i:53938981 original size:14 final size:13
Alignment explanation
Indices: 53938932--53938983 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
53938922 TTAATTTTTT
53938932 TATTTATAAAAACCA
1 TATTTATAAAAA--A
53938947 -ATTTATAAAAAA
1 TATTTATAAAAAA
* *
53938959 TAGTAATAAAAAA
1 TATTTATAAAAAA
53938972 TATTTTATAAAA
1 TA-TTTATAAAA
53938984 TCACTTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 12 0.39
14 18 0.58
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:53939176 original size:24 final size:24
Alignment explanation
Indices: 53939143--53939189 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
53939133 CAGTTTTATC
*
53939143 CCTAAATTTTCCCCCTCTGAAAAG
1 CCTAAATTTTCCCCCTCTCAAAAG
* *
53939167 CCTAATTTTTTCCCCTCTCAAAA
1 CCTAAATTTTCCCCCTCTCAAAA
53939190 CACCCCCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.34, G:0.04, T:0.34
Consensus pattern (24 bp):
CCTAAATTTTCCCCCTCTCAAAAG
Found at i:53943221 original size:43 final size:43
Alignment explanation
Indices: 53943174--53943333 Score: 216
Period size: 43 Copynumber: 3.7 Consensus size: 43
53943164 TGAGAAAAGT
* *
53943174 GCCGCTAAAGGTTATGATCTTTAGCGGCGTTTGCAAAAAAGCC
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCAAAAAAGCC
*
53943217 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAA-CC
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCAAAAAAGCC
* ** *
53943259 GCTGCTAAAGGTCATGGTCTTTAATGGCGTTTGCGAAAAAAG-T
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGC-AAAAAAGCC
* *
53943302 GTCACTAAAGGTCATGGTCTTTAGCGGCGTTT
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT
53943334 TTTTGAAAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 33 0.32
43 69 0.68
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCAAAAAAGCC
Found at i:53943279 original size:42 final size:42
Alignment explanation
Indices: 53943150--53943333 Score: 215
Period size: 43 Copynumber: 4.3 Consensus size: 42
53943140 AATCATTATT
** ** * *
53943150 TTTAGCGGCGTTTATGAGAAAAGTGCCGCTAAAGGTTATGATC
1 TTTAGCGGCGTTTGCGA-AAAACCGCCGCTAAAGGTCATGGTC
*
53943193 TTTAGCGGCGTTTGCAAAAAAGCCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGAAAAA-CCGCCGCTAAAGGTCATGGTC
*
53943236 TTTAGCGGCGTTTGCGAAAAACCGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGAAAAACCGCCGCTAAAGGTCATGGTC
** ** * *
53943278 TTTAATGGCGTTTGCGAAAAAAGTGTCACTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCG-AAAAACCGCCGCTAAAGGTCATGGTC
53943321 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
53943334 TTTTGAAAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
42 38 0.31
43 83 0.69
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGTTTGCGAAAAACCGCCGCTAAAGGTCATGGTC
Found at i:53943298 original size:85 final size:86
Alignment explanation
Indices: 53943150--53943333 Score: 228
Period size: 85 Copynumber: 2.2 Consensus size: 86
53943140 AATCATTATT
* ** * *
53943150 TTTAGCGGCGTTTATGAGAAAAGTGCCGCTAAAGGTTATGATCTTTAGCGGCGTTTGC-AAAAAA
1 TTTAGCGGCGTTTACGAGAAAACCGCCGCTAAAGGTCATGATCTTTAACGGCGTTTGCAAAAAAA
*
53943214 GCCGCCGCTAAAGGTCATGGTC
66 G-CGCCACTAAAGGTCATGGTC
* * * * *
53943236 TTTAGCGGCGTTTGCGA-AAAACCGCTGCTAAAGGTCATGGTCTTTAATGGCGTTTGCGAAAAAA
1 TTTAGCGGCGTTTACGAGAAAACCGCCGCTAAAGGTCATGATCTTTAACGGCGTTTGCAAAAAAA
* *
53943300 GTGTCACTAAAGGTCATGGTC
66 GCGCCACTAAAGGTCATGGTC
53943321 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
53943334 TTTTGAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
85 63 0.74
86 22 0.26
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (86 bp):
TTTAGCGGCGTTTACGAGAAAACCGCCGCTAAAGGTCATGATCTTTAACGGCGTTTGCAAAAAAA
GCGCCACTAAAGGTCATGGTC
Found at i:53946461 original size:20 final size:20
Alignment explanation
Indices: 53946418--53946461 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
53946408 AAGCTTATTC
*
53946418 AATTTAGTCTAAATTATTTC
1 AATTTAGTCTAAATTATTTA
*
53946438 AATTTAGTCCTTAA-TATTTA
1 AATTTAGT-CTAAATTATTTA
53946458 AATT
1 AATT
53946462 AATTATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (20 bp):
AATTTAGTCTAAATTATTTA
Found at i:53958677 original size:28 final size:28
Alignment explanation
Indices: 53958609--53958762 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
53958599 CATGAGATTG
* * * *
53958609 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
53958638 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
53958666 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
53958694 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
53958722 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53958749 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
53958763 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.65
29 18 0.16
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:53965874 original size:28 final size:28
Alignment explanation
Indices: 53965806--53965959 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
53965796 CATGAGATTG
* * * *
53965806 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
53965835 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
53965863 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
53965891 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
53965919 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53965946 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
53965960 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.65
29 18 0.16
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:53976521 original size:35 final size:35
Alignment explanation
Indices: 53976482--53976554 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
53976472 CCCCTTTCAA
*
53976482 GGTGTCTCCCTGAAGGACCTGTATACCGTTTGCAT
1 GGTGTCACCCTGAAGGACCTGTATACCGTTTGCAT
53976517 GGTGTCACCCTGAAGGACCTGTATACCGTTTGCAT
1 GGTGTCACCCTGAAGGACCTGTATACCGTTTGCAT
53976552 GGT
1 GGT
53976555 ATTGTCTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (35 bp):
GGTGTCACCCTGAAGGACCTGTATACCGTTTGCAT
Found at i:53980180 original size:19 final size:19
Alignment explanation
Indices: 53980144--53980182 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
53980134 TTAAAATTTG
* *
53980144 AAGAATAGGTATCGATACC
1 AAGAATAGGTACCAATACC
*
53980163 AAGACTAGGTACCAATACC
1 AAGAATAGGTACCAATACC
53980182 A
1 A
53980183 TTTTTAGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (19 bp):
AAGAATAGGTACCAATACC
Found at i:53981810 original size:16 final size:15
Alignment explanation
Indices: 53981783--53981815 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
53981773 AAAATTTTAA
53981783 AAATTAAAATAAATT
1 AAATTAAAATAAATT
53981798 AAATTAGAAATAAATT
1 AAATTA-AAATAAATT
53981814 AA
1 AA
53981816 TGTTGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AAATTAAAATAAATT
Found at i:53983240 original size:23 final size:23
Alignment explanation
Indices: 53983210--53983279 Score: 140
Period size: 23 Copynumber: 3.0 Consensus size: 23
53983200 AGACATAGTT
53983210 TATTCCTCTTGTAATTATTTGAA
1 TATTCCTCTTGTAATTATTTGAA
53983233 TATTCCTCTTGTAATTATTTGAA
1 TATTCCTCTTGTAATTATTTGAA
53983256 TATTCCTCTTGTAATTATTTGAA
1 TATTCCTCTTGTAATTATTTGAA
53983279 T
1 T
53983280 TCGACATAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.53
Consensus pattern (23 bp):
TATTCCTCTTGTAATTATTTGAA
Found at i:53986487 original size:50 final size:49
Alignment explanation
Indices: 53986376--53986551 Score: 176
Period size: 50 Copynumber: 3.5 Consensus size: 49
53986366 CTGGTACGCA
* * **
53986376 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
* * *
53986425 TAGTAGCCTGCACTTAGTATTACATACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* *** * *
53986475 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
53986526 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
53986552 TGCGACCTCA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 27 0.26
50 39 0.37
51 36 0.34
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:53986559 original size:101 final size:99
Alignment explanation
Indices: 53986376--53986562 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 99
53986366 CTGGTACGCA
* * *
53986376 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
* * *
53986441 GTATTACATACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
53986475 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
53986539 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
53986563 AATAGATCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.40
101 41 0.55
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:53988739 original size:15 final size:15
Alignment explanation
Indices: 53988692--53988747 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
53988682 CAAGAAAATC
53988692 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
53988707 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
53988722 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
53988737 GAATAAAGAAA
1 GAATAAAGAAA
53988748 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.09
15 29 0.83
16 3 0.09
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:53991824 original size:23 final size:23
Alignment explanation
Indices: 53991798--53991875 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
53991788 CAACAGTCTG
53991798 GTACACGTAGTAGCCTGCACTTA
1 GTACACGTAGTAGCCTGCACTTA
** *
53991821 GTACTACACACGT-GACCTTCACCATCTA
1 GTAC-ACGTA-GTAG-CCTGCA-C-T-TA
*
53991849 ATACACGTAGTAGCCTGCACTTA
1 GTACACGTAGTAGCCTGCACTTA
53991872 GTAC
1 GTAC
53991876 TACACACGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
23 9 0.22
24 5 0.12
25 8 0.20
26 8 0.20
27 5 0.12
28 5 0.12
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (23 bp):
GTACACGTAGTAGCCTGCACTTA
Found at i:53991905 original size:51 final size:51
Alignment explanation
Indices: 53991756--53991932 Score: 191
Period size: 51 Copynumber: 3.5 Consensus size: 51
53991746 CTGGTATGCA
* * * *
53991756 TAGTAGCATGCACTTAGTACTACACA--TGA-CACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCATCACCA-TCGGGTACACG
* ***
53991805 TAGTAGCCTGCACTTAGTACTACACACGTGACCTTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCATCACCATCGGGTACACG
* *** *
53991856 TAGTAGCCTGCACTTAGTACTACACACGTGATCAT-AGTTTTCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCATCA-CCATCGGGTACACG
53991907 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
53991933 TGCGACCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
49 25 0.23
50 1 0.01
51 78 0.72
52 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCATCACCATCGGGTACACG
Found at i:54001416 original size:13 final size:14
Alignment explanation
Indices: 54001390--54001421 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
54001380 ACTAACGATG
54001390 AATTAAACCATTAT
1 AATTAAACCATTAT
54001404 AATTAAA-CATTAT
1 AATTAAACCATTAT
54001417 AATTA
1 AATTA
54001422 TTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:54006533 original size:79 final size:77
Alignment explanation
Indices: 54006422--54006645 Score: 245
Period size: 79 Copynumber: 2.8 Consensus size: 77
54006412 GCTACTCGTT
* * *
54006422 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAA-TGCCTTCGGGACTTAGCCCGG
*
54006487 ATTTAGTAACTCGCA
64 ATAT-GTAACTCGCA
* *
54006502 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCAC-AATGCCTTCGGGA-CTTAGCCCG
*
54006565 GATATGTATCTCGCA
63 GATATGTAACTCGCA
* * * * * *
54006580 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGG
54006645 A
64 A
54006646 CATCATTCAA
Statistics
Matches: 122, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
78 26 0.21
79 71 0.58
80 25 0.20
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGAT
ATGTAACTCGCA
Found at i:54006539 original size:39 final size:39
Alignment explanation
Indices: 54006422--54006645 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 39
54006412 GCTACTCGTT
* *
54006422 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
54006462 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
54006502 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* *
54006541 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTA-GTAACTCGCA
* * * *
54006580 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
54006621 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54006646 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
38 4 0.02
39 69 0.43
40 76 0.47
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:54008609 original size:40 final size:40
Alignment explanation
Indices: 54008525--54008708 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
54008515 TTGAATGCTG
* * * *
54008525 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
54008564 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
54008605 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
54008645 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
54008685 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54008709 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:54008662 original size:80 final size:81
Alignment explanation
Indices: 54008525--54008705 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
54008515 TTGAATGCTG
* * *
54008525 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
54008589 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
54008605 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
54008666 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
54008685 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
54008706 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:54008729 original size:39 final size:38
Alignment explanation
Indices: 54008606--54008755 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
54008596 GTTATTAATT
* ** * *
54008606 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
54008646 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
54008685 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
54008725 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
54008756 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:54016518 original size:40 final size:40
Alignment explanation
Indices: 54016412--54016594 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
54016402 TTGAATGCTG
* * * *
54016412 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
54016451 ATCCGGACTAAGAT-CCGAAGGTA-TTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
54016491 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
54016531 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
54016571 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54016595 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 22 0.18
40 97 0.80
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:54016548 original size:79 final size:81
Alignment explanation
Indices: 54016412--54016591 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
54016402 TTGAATGCTG
* * *
54016412 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
*
54016476 -GTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
54016491 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
54016552 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
54016571 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
54016592 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
78 2 0.02
79 46 0.52
80 41 0.46
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:54016615 original size:39 final size:38
Alignment explanation
Indices: 54016465--54016641 Score: 122
Period size: 40 Copynumber: 4.5 Consensus size: 38
54016455 GGACTAAGAT
* ** * *
54016465 CCGAAGGTATTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTGAACGAGTTACT-ATACCGGGTTAAGTC
* ** * *
54016504 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGG-CATTGAACGAGTTACT-ATACCGGGTTAAGTC
** * *
54016544 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATT-GAACGAGTTACT-ATA-CCGGGTTAAGTC
* * *
54016584 CCGAAGGCATTGAATGAGTTACTATGACCGGGCTATGTC
1 CCGAAGGCATTGAACGAGTTACTAT-ACCGGGTTAAGTC
54016623 CCGAAGGCACTTGAACGAG
1 CCGAAGGCA-TTGAACGAG
54016642 GAGCTATATC
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
39 39 0.34
40 76 0.66
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (38 bp):
CCGAAGGCATTGAACGAGTTACTATACCGGGTTAAGTC
Found at i:54020148 original size:78 final size:80
Alignment explanation
Indices: 54019998--54020175 Score: 220
Period size: 78 Copynumber: 2.3 Consensus size: 80
54019988 ATGATGTCCG
* *
54019998 GGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGC
1 GGCTAAGTCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTGC
*
54020062 GAGATACTA-ATTCCA
66 GAGATACTATA-ACCA
* * * * *
54020077 GGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGATTAAG-TCCGAAGGCAATTGTGC
1 GGCTAAGTCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTGC
* *
54020140 GAGTTACTATAACCG
66 GAGATACTATAACCA
*
54020155 GGCTATGTCCGAAGGCATTTG
1 GGCTAAGTCCGAAGGCATTTG
54020176 AACGAGTAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 45 0.53
79 33 0.39
80 7 0.08
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
GGCTAAGTCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTGC
GAGATACTATAACCA
Found at i:54020182 original size:39 final size:38
Alignment explanation
Indices: 54019995--54020175 Score: 184
Period size: 39 Copynumber: 4.6 Consensus size: 38
54019985 TGAATGATGT
* * * *
54019995 CCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
54020034 CCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
54020074 CCAGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
** *
54020112 TCCGGATTAAGTCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54020152 CCGGGCTATGTCCGAAGGCATTTG
1 CCGGGCTAAGTCCGAAGGCATTTG
54020176 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 86 0.73
40 25 0.21
41 7 0.06
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (38 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54020182 original size:78 final size:78
Alignment explanation
Indices: 54020032--54020208 Score: 198
Period size: 78 Copynumber: 2.3 Consensus size: 78
54020022 AAGTGACCAT
* * *
54020032 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAGCCCGAAGGCATTT
1 ATCCGGATTAAG-TCCGAAGGCAATTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTT
**
54020097 GTGCGAGTTA-CTAA
65 GAACGAG-TAGCTAA
* * * *
54020111 ATCCGGATTAAGTCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTT
1 ATCCGGATTAAGTCCGAAGGCAATTGTGCGAGATACTAAT-ACCAGGCTAAGCCCGAAGGCATTT
*
54020175 GAACGAGTAGCTAT
65 GAACGAGTAGCTAA
*
54020189 ATCCGG-TTAAATTCCGAAGG
1 ATCCGGATT-AAGTCCGAAGG
54020209 TACGTGATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 6 0.07
78 67 0.80
79 11 0.13
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (78 bp):
ATCCGGATTAAGTCCGAAGGCAATTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTG
AACGAGTAGCTAA
Found at i:54023326 original size:48 final size:46
Alignment explanation
Indices: 54023254--54023573 Score: 203
Period size: 48 Copynumber: 6.8 Consensus size: 46
54023244 AATAAGTTGT
* *
54023254 CGATGCCATGTTCCGGACATGGTCTTACACTGGCTACATCATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACATCATC-AGGC
* ** * **
54023302 TGATGCCATGTCCCAGACATGGTCTTACACTATCTC-TCGCATATACTTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACAT--C--AT-CAGGC
* * * * *
54023352 TGAT-TCATGTCCCAGACAT-GTCTTACACTAGCACAACTTTCA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACATC-ATCAGGC
* * *
54023396 CGATG-CATGTCCCACACA-CGTCTTACACTGGGTATCATCATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GGCA-CATCATC-AGGC
** * * *
54023443 CGATGCCATGT-TTAGACATGGTCTTATACTAGCAC-TCATCTCTATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACATCA--TC-AGGC
* *
54023490 TGATGCCATGTCCCAGACATGGTCTTACACTGGCAC-TCATAATTTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACATCATCA---GGC
54023538 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACAT
54023574 AAGTAATCCG
Statistics
Matches: 214, Mismatches: 37, Indels: 43
0.73 0.13 0.15
Matches are distributed among these distances:
44 27 0.13
45 9 0.04
46 24 0.11
47 45 0.21
48 86 0.40
49 14 0.07
50 8 0.04
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACATCATCAGGC
Found at i:54023515 original size:140 final size:140
Alignment explanation
Indices: 54023275--54023573 Score: 367
Period size: 140 Copynumber: 2.1 Consensus size: 140
54023265 TCCGGACATG
* * *
54023275 GTCTTACACTGGCTACATCATCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACTATCTCTC
1 GTCTTACACTGGCTACATCATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTC
* *
54023340 GCATATACTTGCTGATTCATGTCCCAGACATGTCTTACACTAGCA-CA-ACTTTCAGCCGATGCA
66 -CATATACTTGCTGATCCATGTCCCAGACATGTCTTACACTAGCACCATAATTT-AGCCGATGCA
54023403 TGTCCCACACAC
129 TGTCCCACACAC
* ** *
54023415 GTCTTACACTGGGTATCATCATCGAGGCCGATGCCATGT-TTAGACATGGTCTTATACTAGCACT
1 GTCTTACACTGGCTA-CATCATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACT
* * *
54023479 -CATCT-CTATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATTTGGCCGAT
65 CCATATACT-TGCTGAT-CCATGTCCCAGACAT-GTCTTACACTAGCAC-CATAATTTAGCCGAT
* *
54023542 GCATGTCCCAGACAT
126 GCATGTCCCACACAC
54023557 GTCTTACACTGGC-ACAT
1 GTCTTACACTGGCTACAT
54023574 AAGTAATCCG
Statistics
Matches: 137, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
137 2 0.01
138 11 0.08
139 14 0.10
140 50 0.36
141 23 0.17
142 33 0.24
143 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
GTCTTACACTGGCTACATCATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTC
CATATACTTGCTGATCCATGTCCCAGACATGTCTTACACTAGCACCATAATTTAGCCGATGCATG
TCCCACACAC
Found at i:54025170 original size:17 final size:19
Alignment explanation
Indices: 54025128--54025171 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
54025118 ATGAAATTTT
*
54025128 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
54025147 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
54025165 AA-TATTA
1 AATTATTA
54025172 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:54025284 original size:15 final size:15
Alignment explanation
Indices: 54025266--54025294 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54025256 ATATTTGTAA
54025266 AATTATTATTATTAT
1 AATTATTATTATTAT
54025281 AATTATTATTATTA
1 AATTATTATTATTA
54025295 GATAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:54026033 original size:109 final size:109
Alignment explanation
Indices: 54025842--54026059 Score: 427
Period size: 109 Copynumber: 2.0 Consensus size: 109
54025832 GGACATCATC
54025842 AGGTAACCTTTAAGATAAAATGTGACGGTATATTGTTGAAAGAGAACGCGCGTCCCAGTGGCCAA
1 AGGTAACCTTTAAGATAAAATGTGACGGTATATTGTTGAAAGAGAACGCGCGTCCCAGTGGCCAA
54025907 CAGCATGCTGGGCAACCTGGAGGTCCCAGGTTTTAGCAGCGTTA
66 CAGCATGCTGGGCAACCTGGAGGTCCCAGGTTTTAGCAGCGTTA
54025951 AGGTAACCTTTAAGATAAAATGTGACGGTATATTGTTGAAAGAGAACGCGCGTCCCAGTGGCCAA
1 AGGTAACCTTTAAGATAAAATGTGACGGTATATTGTTGAAAGAGAACGCGCGTCCCAGTGGCCAA
*
54026016 CAGCGTGCTGGGCAACCTGGAGGTCCCAGGTTTTAGCAGCGTTA
66 CAGCATGCTGGGCAACCTGGAGGTCCCAGGTTTTAGCAGCGTTA
54026060 CGCGTAAGAG
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (109 bp):
AGGTAACCTTTAAGATAAAATGTGACGGTATATTGTTGAAAGAGAACGCGCGTCCCAGTGGCCAA
CAGCATGCTGGGCAACCTGGAGGTCCCAGGTTTTAGCAGCGTTA
Found at i:54027780 original size:26 final size:26
Alignment explanation
Indices: 54027708--54027786 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
54027698 TTAAAACTGA
* * *
54027708 TAAAATTACTGAAATACCTTTATAGGTG
1 TAAAATTACTGATATACC-CT-TAGGAG
* * *
54027736 GAAAATTTACAGATTTACCCTTAGGAG
1 TAAAA-TTACTGATATACCCTTAGGAG
*
54027763 TAAAATTACTGATATACCCCTAGG
1 TAAAATTACTGATATACCCTTAGG
54027787 GTTAAGGTTG
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
26 16 0.40
27 9 0.22
28 5 0.12
29 10 0.25
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (26 bp):
TAAAATTACTGATATACCCTTAGGAG
Found at i:54031707 original size:27 final size:27
Alignment explanation
Indices: 54031677--54031736 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
54031667 TTATATTAAT
*
54031677 ATAATTTTAATGTGTCTAGTTTAGAAC
1 ATAATTTTAATGTGTCTAGTGTAGAAC
*
54031704 ATAATTTTAATGTGTCTAGTGTAGGAC
1 ATAATTTTAATGTGTCTAGTGTAGAAC
54031731 A-AATTT
1 ATAATTT
54031737 ATTAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (27 bp):
ATAATTTTAATGTGTCTAGTGTAGAAC
Found at i:54033724 original size:14 final size:15
Alignment explanation
Indices: 54033707--54033735 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54033697 ATTCATATTC
54033707 CATCATTCT-CAATT
1 CATCATTCTACAATT
54033721 CATCATTCTACAATT
1 CATCATTCTACAATT
54033736 TAATTACATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (15 bp):
CATCATTCTACAATT
Found at i:54035114 original size:24 final size:24
Alignment explanation
Indices: 54035069--54035116 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
54035059 TATTATGTGA
* **
54035069 GAATATGTTTTGAAAAGGGTTCTT
1 GAATATGTTCTGAAAAAAGTTCTT
54035093 GAATATGTTCTGAAAAAAGTTCTT
1 GAATATGTTCTGAAAAAAGTTCTT
54035117 CTTTCTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (24 bp):
GAATATGTTCTGAAAAAAGTTCTT
Found at i:54038297 original size:48 final size:48
Alignment explanation
Indices: 54038240--54038336 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
54038230 AAGACTATGC
54038240 TGCAATCATTAAGTTTAACTTATGTCTTTATATGTTGTACGTAGCAAT
1 TGCAATCATTAAGTTTAACTTATGTCTTTATATGTTGTACGTAGCAAT
54038288 TGCAATCATTAAGTTTAACTTATGTCTTTATATGTTGTACGTAGCAAT
1 TGCAATCATTAAGTTTAACTTATGTCTTTATATGTTGTACGTAGCAAT
54038336 T
1 T
54038337 TCTCTCCACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.44
Consensus pattern (48 bp):
TGCAATCATTAAGTTTAACTTATGTCTTTATATGTTGTACGTAGCAAT
Found at i:54057057 original size:46 final size:45
Alignment explanation
Indices: 54057003--54057127 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
54056993 CTCGTAGCCA
* * **
54057003 ATGCATGTCCCATACATGTCTTACACTAGCTTACGTCTCGAGGGCG
1 ATGCATGTCCCAAACATGTCTTACACTAGCTT-CGTCTCAAGACCG
* * * *
54057049 ATGCATGTCCCAGACATGCCTTACACTAGCACTCGTCTCAATACCG
1 ATGCATGTCCCAAACATGTCTTACACTAGC-TTCGTCTCAAGACCG
54057095 ATGCCATGTCCCAAACATGGTCTTACACTAGCT
1 ATG-CATGTCCCAAACAT-GTCTTACACTAGCT
54057128 CTCATAATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
46 40 0.61
47 14 0.21
48 12 0.18
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (45 bp):
ATGCATGTCCCAAACATGTCTTACACTAGCTTCGTCTCAAGACCG
Found at i:54057145 original size:94 final size:94
Alignment explanation
Indices: 54056910--54057177 Score: 257
Period size: 94 Copynumber: 2.9 Consensus size: 94
54056900 AGACATCGAC
* * *
54056910 GCCATGTCCCATACATGGTTTTACACAAG-TCT-AGTATATTTGTGCCGATGCCATGTCCCAGAC
1 GCCATGTCCCATACATGGTCTTACACTAGCTCTCA-TA-ATGTG-GCCGATG-CATGTCCCAGAC
*
54056973 ATGGTCTTACACT-G-ACACATCTCGTAGCCAAT
62 AT-GTCTTACACTAGCACACATCTCATAGCCAAT
* * * *
54057005 G-CATGTCCCATACAT-GTCTTACACTAGCT-TACGT-CTCGAGGGCGATGCATGTCCCAGACAT
1 GCCATGTCCCATACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGCATGTCCCAGACAT
* * * *
54057066 GCCTTACACTAGCACTCGTCTCAATA-CCGAT
64 GTCTTACACTAGCACACATCTC-ATAGCCAAT
* *
54057097 GCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCTAGACATGT
1 GCCATGTCCCATACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGT
* *
54057162 CTTATACTAGCTCACA
66 CTTACACTAGCACACA
54057178 CAAGTGACCC
Statistics
Matches: 139, Mismatches: 23, Indels: 23
0.75 0.12 0.12
Matches are distributed among these distances:
90 9 0.06
91 15 0.11
92 19 0.14
93 27 0.19
94 66 0.47
95 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (94 bp):
GCCATGTCCCATACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGT
CTTACACTAGCACACATCTCATAGCCAAT
Found at i:54072255 original size:39 final size:40
Alignment explanation
Indices: 54072093--54072316 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
54072083 GCTACTCGTT
* *
54072093 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
54072133 CAAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
54072173 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
*
54072213 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
54072252 CAAATGCCTTC-GGATCTTAGTCCGG-A-TATGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTA-GTAAC-TCGCA
54072292 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54072317 CATCATTCAA
Statistics
Matches: 161, Mismatches: 14, Indels: 18
0.83 0.07 0.09
Matches are distributed among these distances:
38 4 0.02
39 50 0.31
40 105 0.65
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:54072295 original size:79 final size:79
Alignment explanation
Indices: 54072093--54072316 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 79
54072083 GCTACTCGTT
* * ** * *
54072093 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAAAGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCAC-AAAGCCTTCGGGACTTAGCCCGG
*
54072158 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
54072173 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
54072237 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * *
54072252 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
54072315 GA
64 GA
54072317 CATCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 16 0.13
79 64 0.52
80 44 0.35
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:54082259 original size:44 final size:44
Alignment explanation
Indices: 54082209--54082296 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
54082199 CTCTAGCAGT
* *
54082209 AGTATTACTCGATCTTGCATTTTGAAAATTATCTTTTTCAACAA
1 AGTATTACTCAATCTTGCAATTTGAAAATTATCTTTTTCAACAA
54082253 AGTATTACTCAATCTTGCAATTTGAAAATTATCTTTTTCAACAA
1 AGTATTACTCAATCTTGCAATTTGAAAATTATCTTTTTCAACAA
54082297 TTTCAGGGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (44 bp):
AGTATTACTCAATCTTGCAATTTGAAAATTATCTTTTTCAACAA
Found at i:54084930 original size:40 final size:40
Alignment explanation
Indices: 54084772--54084916 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
54084762 TGAATGATGT
* * * * *
54084772 CCGGGCCAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
54084812 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
54084852 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
54084892 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54084917 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 83 0.90
41 8 0.09
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:54104355 original size:27 final size:27
Alignment explanation
Indices: 54104315--54104382 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
54104305 TGAATCAGAA
* *
54104315 TGCTCACATGAGCTATGAAAATGGGTC
1 TGCTCACACGAGCTATGAAAATGGGCC
*
54104342 TGCTCACACAAGCTATGAAAATGGGCC
1 TGCTCACACGAGCTATGAAAATGGGCC
*
54104369 TGTTCACACGAGCT
1 TGCTCACACGAGCT
54104383 GTGGGTCGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (27 bp):
TGCTCACACGAGCTATGAAAATGGGCC
Found at i:54119687 original size:24 final size:24
Alignment explanation
Indices: 54119637--54119804 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
54119627 GCTTTATCAT
*
54119637 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
54119662 ATAGCTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
54119686 ATAGCTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
54119710 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
54119734 ATAACTGGGGCAGAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
54119758 ATAACTGGGGCAGAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54119782 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
54119805 GCACTTCCTC
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
24 124 0.92
25 11 0.08
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:54119880 original size:20 final size:20
Alignment explanation
Indices: 54119855--54119920 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
54119845 TATGAATACC
54119855 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
54119875 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
54119895 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
54119915 CCATGT
1 TCATGT
54119921 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:54119885 original size:11 final size:11
Alignment explanation
Indices: 54119855--54119909 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
54119845 TATGAATACC
54119855 TCATGTGCATA
1 TCATGTGCATA
*
54119866 TCA--TACATA
1 TCATGTGCATA
54119875 TCATGTGCATA
1 TCATGTGCATA
* *
54119886 TCA--TACATG
1 TCATGTGCATA
54119895 TCATGTGCATA
1 TCATGTGCATA
54119906 TCAT
1 TCAT
54119910 ACATACCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:54127769 original size:24 final size:24
Alignment explanation
Indices: 54127715--54127906 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
54127705 GCTTTATCAT
*
54127715 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
54127740 AAAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54127764 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
54127788 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
54127812 ATAACTGGGGCAGAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
54127836 ATAACTGGGGCAGAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54127860 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54127884 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
54127907 GCACTTCATC
Statistics
Matches: 157, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
24 146 0.93
25 11 0.07
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:54127985 original size:20 final size:20
Alignment explanation
Indices: 54127957--54128020 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
54127947 TATGAATACC
*
54127957 TCATATGCATATCATACATA
1 TCATGTGCATATCATACATA
54127977 TCATGTGCATATCATACA-A
1 TCATGTGCATATCATACATA
*
54127996 -AATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
54128015 CCATGT
1 TCATGT
54128021 TTATCAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 16 0.41
19 2 0.05
20 21 0.54
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:54128002 original size:18 final size:20
Alignment explanation
Indices: 54127962--54128014 Score: 83
Period size: 18 Copynumber: 2.8 Consensus size: 20
54127952 ATACCTCATA
*
54127962 TGCATATCATACATATCATG
1 TGCATATCATACATATAATG
54127982 TGCATATCATACA-A-AATG
1 TGCATATCATACATATAATG
54128000 TGCATATCATACATA
1 TGCATATCATACATA
54128015 CCATGTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 16 0.52
19 2 0.06
20 13 0.42
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (20 bp):
TGCATATCATACATATAATG
Found at i:54128089 original size:25 final size:25
Alignment explanation
Indices: 54128057--54128104 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54128047 ATATATAAAC
* * *
54128057 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
54128082 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
54128105 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:54160264 original size:25 final size:26
Alignment explanation
Indices: 54160223--54160275 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
54160213 TCTCTTGAAA
*
54160223 TTCAATTTTATTTAATTACTTAAT-TT
1 TTCAATTTTATTGAATTA-TTAATATT
54160249 TTCAA-TTTATTGAATTATTAATATT
1 TTCAATTTTATTGAATTATTAATATT
54160274 TT
1 TT
54160276 ATACTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 5 0.20
25 15 0.60
26 5 0.20
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
TTCAATTTTATTGAATTATTAATATT
Found at i:54161169 original size:3 final size:3
Alignment explanation
Indices: 54161161--54161186 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
54161151 TGAGGATCCC
54161161 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
54161187 TTCCAGAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:54170687 original size:22 final size:23
Alignment explanation
Indices: 54170662--54170705 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
54170652 TAACATGTTG
54170662 AATTTTAATTAATTTT-ATAATA
1 AATTTTAATTAATTTTGATAATA
*
54170684 AATTTTGATTAATTTTGATAAT
1 AATTTTAATTAATTTTGATAAT
54170706 TTTTGATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
AATTTTAATTAATTTTGATAATA
Found at i:54170718 original size:20 final size:20
Alignment explanation
Indices: 54170662--54170712 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
54170652 TAACATGTTG
* *
54170662 AATTTTAATTAATTTTATAATA
1 AATTTTGATTAA-TTT-TGATA
54170684 AATTTTGATTAATTTTGATA
1 AATTTTGATTAATTTTGATA
*
54170704 ATTTTTGAT
1 AATTTTGAT
54170713 AGATTTGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 12 0.46
21 3 0.12
22 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
AATTTTGATTAATTTTGATA
Found at i:54175854 original size:40 final size:40
Alignment explanation
Indices: 54175799--54175879 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
54175789 CCATGAATGC
54175799 TGAGATTACTGGAGTTTCATATTTTTCGATTATGACTATT
1 TGAGATTACTGGAGTTTCATATTTTTCGATTATGACTATT
*
54175839 TGAGATTACTGGAGTTTCATATTTTTTGATTATGACTATT
1 TGAGATTACTGGAGTTTCATATTTTTCGATTATGACTATT
54175879 T
1 T
54175880 ACTATGAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.09, G:0.17, T:0.49
Consensus pattern (40 bp):
TGAGATTACTGGAGTTTCATATTTTTCGATTATGACTATT
Found at i:54180617 original size:21 final size:22
Alignment explanation
Indices: 54180578--54180618 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
54180568 TCGGCCTCGC
*
54180578 ATGGTCTCGTTTCGAGTCATGG
1 ATGGTCTCGTTTCCAGTCATGG
*
54180600 ATGG-CTCGTTTCCTGTCAT
1 ATGGTCTCGTTTCCAGTCAT
54180619 AATCATGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.22, G:0.27, T:0.39
Consensus pattern (22 bp):
ATGGTCTCGTTTCCAGTCATGG
Found at i:54182331 original size:63 final size:65
Alignment explanation
Indices: 54182227--54182360 Score: 164
Period size: 63 Copynumber: 2.1 Consensus size: 65
54182217 TTCAGGTTAG
** *
54182227 TTTCATTATTAATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATTT-AATTTCTCCAT
1 TTTCATTATTAATTTTCATTTTGGAGAAAACCACAACCATTTCCAAAAGATTTCAATTTCTCCAT
* * * * * * *
54182291 TTTCATT-TTCATTTTCATTTTGGAGAAAGCCATAACCATTTTCAAAAGTTTTCCATTTCTCTAT
1 TTTCATTATTAATTTTCATTTTGGAGAAAACCACAACCATTTCCAAAAGATTTCAATTTCTCCAT
54182355 TTTCAT
1 TTTCAT
54182361 CATTTTATTC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 37 0.63
64 22 0.37
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (65 bp):
TTTCATTATTAATTTTCATTTTGGAGAAAACCACAACCATTTCCAAAAGATTTCAATTTCTCCAT
Found at i:54184837 original size:28 final size:28
Alignment explanation
Indices: 54184769--54184978 Score: 341
Period size: 28 Copynumber: 7.5 Consensus size: 28
54184759 CATGAGATTG
* * * *
54184769 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
54184798 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54184826 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54184854 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54184882 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
54184910 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54184938 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54184965 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
54184979 GACTTAATAT
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 23 0.13
28 131 0.76
29 18 0.10
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Done.