Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 158 of 160
Found at i:32563952 original size:6 final size:6
Alignment explanation
Indices: 32563941--32563975 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
32563931 TTGATAACCT
*
32563941 GAAAAA GAAAAA GAAAAA GAAAAA AAGAAAA GAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GA-AAAA GAAA
32563976 GAAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:32563967 original size:14 final size:14
Alignment explanation
Indices: 32563942--32563980 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
32563932 TGATAACCTG
32563942 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
32563956 AAAGAA-AAAAAGAA
1 AAA-AAGAAAAAGAA
32563970 AAGAAAGAAAA
1 AA-AAAGAAAA
32563981 TTATATCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:32568513 original size:45 final size:45
Alignment explanation
Indices: 32568462--32568609 Score: 242
Period size: 45 Copynumber: 3.3 Consensus size: 45
32568452 GAGATCATAT
** * *
32568462 TGTTTTGGAAGGAAAGAGTTTTGATCTTACATCTGAAAATGATAC
1 TGTTTTGGAAGGAAAGAGGATTGATCTTGCATCAGAAAATGATAC
*
32568507 TGTTTTGGAAGGAAAGAGGATTGATCTTGCATCAGAAAATGACAC
1 TGTTTTGGAAGGAAAGAGGATTGATCTTGCATCAGAAAATGATAC
*
32568552 TGTTTTGGAAGGAAAGAGGATTGATCCTGCATCAGAAAATGATAC
1 TGTTTTGGAAGGAAAGAGGATTGATCTTGCATCAGAAAATGATAC
32568597 TGTTTTGGAAGGA
1 TGTTTTGGAAGGA
32568610 TATAGCACTG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.30
Consensus pattern (45 bp):
TGTTTTGGAAGGAAAGAGGATTGATCTTGCATCAGAAAATGATAC
Found at i:32568627 original size:45 final size:45
Alignment explanation
Indices: 32568462--32568627 Score: 183
Period size: 45 Copynumber: 3.7 Consensus size: 45
32568452 GAGATCATAT
** * * *
32568462 TGTTTTGGAAGGAAAGAGTTTTG-ATCTTACATCTGAAAATGATAC
1 TGTTTTGGAAGGAAAGAGGATTGAAAC-TGCATCAGAAAATGATAC
* *
32568507 TGTTTTGGAAGGAAAGAGGATTG-ATCTTGCATCAGAAAATGACAC
1 TGTTTTGGAAGGAAAGAGGATTGAAAC-TGCATCAGAAAATGATAC
**
32568552 TGTTTTGGAAGGAAAGAGGATTGATCCTGCATCAGAAAATGATAC
1 TGTTTTGGAAGGAAAGAGGATTGAAACTGCATCAGAAAATGATAC
* * * *
32568597 TGTTTTGGAAGGATATAGCACTGAAACTGCA
1 TGTTTTGGAAGGAAAGAGGATTGAAACTGCA
32568628 GATCAACTTG
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 105 0.99
46 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (45 bp):
TGTTTTGGAAGGAAAGAGGATTGAAACTGCATCAGAAAATGATAC
Found at i:32572136 original size:12 final size:12
Alignment explanation
Indices: 32572119--32572145 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32572109 ATATAAAAAC
32572119 ATTATTTTTTTA
1 ATTATTTTTTTA
32572131 ATTATTTTTTTA
1 ATTATTTTTTTA
32572143 ATT
1 ATT
32572146 TTATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
ATTATTTTTTTA
Found at i:32572154 original size:12 final size:12
Alignment explanation
Indices: 32572139--32572190 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
32572129 TAATTATTTT
32572139 TTTAATTTTATA
1 TTTAATTTTATA
32572151 TTTAATTTTATA
1 TTTAATTTTATA
**
32572163 TTTTTTTATATATA
1 TTTAATT-T-TATA
32572177 TTTAATTTTATA
1 TTTAATTTTATA
32572189 TT
1 TT
32572191 ATATTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 23 0.68
13 2 0.06
14 9 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:32572161 original size:26 final size:26
Alignment explanation
Indices: 32572132--32572208 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 26
32572122 ATTTTTTTAA
*
32572132 TTAT-TTTTTTAATTTTATATTTAATT
1 TTATATTTTTTAA-TATATATTTAATT
*
32572158 TTATATTTTTTTATATATATTTAATT
1 TTATATTTTTTAATATATATTTAATT
*
32572184 TTATATTATATTTAAAATAATATTT
1 TTATATT-T-TTTAATAT-ATATTT
32572209 TATTAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 23 0.53
27 8 0.19
28 6 0.14
29 6 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
TTATATTTTTTAATATATATTTAATT
Found at i:32572193 original size:17 final size:17
Alignment explanation
Indices: 32572158--32572198 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
32572148 ATATTTAATT
32572158 TTATATTT--TTTTATA
1 TTATATTTAATTTTATA
32572173 -TATATTTAATTTTATA
1 TTATATTTAATTTTATA
32572189 TTATATTTAA
1 TTATATTTAA
32572199 AATAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.30
16 7 0.30
17 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATATTTAATTTTATA
Found at i:32573274 original size:22 final size:24
Alignment explanation
Indices: 32573249--32573292 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
32573239 GCTATTGAAA
32573249 CATTAAA-AAA-AAAAAAAAAACT
1 CATTAAACAAATAAAAAAAAAACT
*
32573271 CATTAAACAAATAAAGAAAAAA
1 CATTAAACAAATAAAAAAAAAA
32573293 GCTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (24 bp):
CATTAAACAAATAAAAAAAAAACT
Found at i:32573820 original size:4 final size:4
Alignment explanation
Indices: 32573811--32573841 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
32573801 TTTTATTAAT
32573811 AATA AATA AATA AATA AATA AATTA AATA AA
1 AATA AATA AATA AATA AATA AA-TA AATA AA
32573842 AAAGGAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:32574112 original size:15 final size:15
Alignment explanation
Indices: 32574092--32574122 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32574082 TCGTGATGGC
32574092 GAGTAGAGATAGAGA
1 GAGTAGAGATAGAGA
*
32574107 GAGTAGAGATCGAGA
1 GAGTAGAGATAGAGA
32574122 G
1 G
32574123 CTTCTAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.42, T:0.13
Consensus pattern (15 bp):
GAGTAGAGATAGAGA
Found at i:32581463 original size:23 final size:25
Alignment explanation
Indices: 32581437--32581496 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
32581427 TCGCTCGATT
32581437 AAGCTCGATTAATATA-T-AAAAAA
1 AAGCTCGATTAATATACTCAAAAAA
**
32581460 AAGCTCGATTTTTATACTCGAAAAAA
1 AAGCTCGATTAATATACTC-AAAAAA
*
32581486 AAACTCGATTA
1 AAGCTCGATTA
32581497 TTCGAGCTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 14 0.47
24 1 0.03
26 15 0.50
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.28
Consensus pattern (25 bp):
AAGCTCGATTAATATACTCAAAAAA
Found at i:32581506 original size:27 final size:26
Alignment explanation
Indices: 32581454--32581507 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
32581444 ATTAATATAT
* * *
32581454 AAAAAAAAGCTCGATTTTTATACTCG
1 AAAAAAAAACTCGATTATTAGACTCG
*
32581480 AAAAAAAAACTCGATTATTCGAGCTCG
1 AAAAAAAAACTCGATTATTAGA-CTCG
32581507 A
1 A
32581508 GCTCGAGCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (26 bp):
AAAAAAAAACTCGATTATTAGACTCG
Found at i:32581588 original size:12 final size:12
Alignment explanation
Indices: 32581571--32581595 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32581561 TATTTTCAAG
32581571 ATAACAACAACA
1 ATAACAACAACA
32581583 ATAACAACAACA
1 ATAACAACAACA
32581595 A
1 A
32581596 CAATAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (12 bp):
ATAACAACAACA
Found at i:32581593 original size:15 final size:15
Alignment explanation
Indices: 32581573--32581601 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32581563 TTTTCAAGAT
32581573 AACAACAACAATAAC
1 AACAACAACAATAAC
32581588 AACAACAACAATAA
1 AACAACAACAATAA
32581602 TAATAATAAT
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:0.69, C:0.24, G:0.00, T:0.07
Consensus pattern (15 bp):
AACAACAACAATAAC
Found at i:32585289 original size:25 final size:25
Alignment explanation
Indices: 32585252--32585305 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
32585242 TCCCCACAAT
* *
32585252 ATTCATAAGGGTATTTAATTTAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
32585277 ATTCATAAAGGTATTTAATTAAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
32585302 ATTC
1 ATTC
32585306 TTATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (25 bp):
ATTCATAAAGGTATTTAATTAAGGC
Found at i:32585561 original size:19 final size:19
Alignment explanation
Indices: 32585537--32586077 Score: 252
Period size: 19 Copynumber: 30.0 Consensus size: 19
32585527 CGAATGGGTT
32585537 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
*
32585556 CTGTTGAAGTTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
** ***
32585575 C-GTCCAA--TG--G-GTT
1 CTGTTGAAGCTGCTGCAAA
* * *
32585588 CTGTTCAAGAT-CTGTAAA
1 CTGTTGAAGCTGCTGCAAA
* *
32585606 CTATTGAAGCTACTGCAAA
1 CTGTTGAAGCTGCTGCAAA
* * *
32585625 CTGTTCAAGAT-ATGCAAA
1 CTGTTGAAGCTGCTGCAAA
32585643 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
*
32585662 CTGTTGAAGCTGCTGTAAA
1 CTGTTGAAGCTGCTGCAAA
32585681 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
* ***
32585700 C-GTCGAA--TG--G-GTT
1 CTGTTGAAGCTGCTGCAAA
* * *
32585713 TTGTTCAAGAT-CTGCAAA
1 CTGTTGAAGCTGCTGCAAA
* *
32585731 TTGTTGAAGCTGCTGCAAG
1 CTGTTGAAGCTGCTGCAAA
* * * ****
32585750 CTG--CAAACGTCGAATGGGTT
1 CTGTTGAAGC-T-G-CTGCAAA
* * *
32585770 TTGTTCAAGAT-CTGCAAA
1 CTGTTGAAGCTGCTGCAAA
32585788 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
* ***
32585807 C-GTCGAA--TG--G-GTT
1 CTGTTGAAGCTGCTGCAAA
32585820 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
32585839 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
32585858 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
32585877 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
** ***
32585896 C-GTCCAA--TG--G-GTT
1 CTGTTGAAGCTGCTGCAAA
* *
32585909 CTGTTCAAGAT-CTGCAAA
1 CTGTTGAAGCTGCTGCAAA
*
32585927 CTGTTGAAGCTGCTGCAAG
1 CTGTTGAAGCTGCTGCAAA
* * * ****
32585946 CTG--CAAACGTCGAATGGGTT
1 CTGTTGAAGC-T-G-CTGCAAA
* * * *
32585966 TTGTTCAAGAT-CTGTAAA
1 CTGTTGAAGCTGCTGCAAA
32585984 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
* *
32586003 CTGTTCAAGAT-CTGCAAA
1 CTGTTGAAGCTGCTGCAAA
32586021 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
32586040 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
32586059 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
32586078 TGTCGAATGG
Statistics
Matches: 383, Mismatches: 98, Indels: 82
0.68 0.17 0.15
Matches are distributed among these distances:
13 3 0.01
14 23 0.06
16 13 0.03
17 9 0.02
18 98 0.26
19 221 0.58
20 8 0.02
21 2 0.01
22 6 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (19 bp):
CTGTTGAAGCTGCTGCAAA
Found at i:32585570 original size:51 final size:51
Alignment explanation
Indices: 32585505--32585681 Score: 194
Period size: 51 Copynumber: 3.4 Consensus size: 51
32585495 GGATCGGGTT
32585505 CTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAA
* * * * *
32585556 CTGTTGAAGTTGCTGCAAACGTCCAATGGGTTCTGTTCAAGAT-CTGTAAA
1 CTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAA
* * ****
32585606 CTATTGAAGCTACTGCAAACTGTTCAAGATATGCAAACTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAAC-G-TC--GA-ATGGGTTCTGTTGAAGCTGCTGCAAA
*
32585662 CTGTTGAAGCTGCTGTAAAC
1 CTGTTGAAGCTGCTGCAAAC
32585682 TGTTGAAGCT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
50 23 0.23
51 40 0.40
52 2 0.02
54 1 0.01
55 12 0.12
56 23 0.23
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (51 bp):
CTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAA
Found at i:32585644 original size:37 final size:37
Alignment explanation
Indices: 32585588--32585700 Score: 163
Period size: 37 Copynumber: 3.0 Consensus size: 37
32585578 CCAATGGGTT
* *
32585588 CTGTTCAAGATCTGTAAACTATTGAAGCTACTGCAAA
1 CTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAA
* *
32585625 CTGTTCAAGATATGCAAACTGTTGAAGCTGCTGCAAA
1 CTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAA
* *
32585662 CTGTTGAAGCTGCTGTAAACTGTTGAAGCTGCTGCAAA
1 CTGTTCAAGAT-CTGTAAACTGTTGAAGCTGCTGCAAA
32585700 C
1 C
32585701 GTCGAATGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
37 42 0.63
38 25 0.37
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (37 bp):
CTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAA
Found at i:32585785 original size:31 final size:31
Alignment explanation
Indices: 32585693--32585788 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 31
32585683 GTTGAAGCTG
32585693 CTGCAAACGTCGAATGGGTTTTGTTCAAGAT
1 CTGCAAACGTCGAATGGGTTTTGTTCAAGAT
* * * **
32585724 CTGCAAATTGTTGAA--GCTGCTG--CAAG--
1 CTGCAAA-CGTCGAATGGGTTTTGTTCAAGAT
32585750 CTGCAAACGTCGAATGGGTTTTGTTCAAGAT
1 CTGCAAACGTCGAATGGGTTTTGTTCAAGAT
32585781 CTGCAAAC
1 CTGCAAAC
32585789 TGTTGAAGCT
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
25 5 0.10
26 7 0.15
27 4 0.08
28 4 0.08
29 4 0.08
30 4 0.08
31 15 0.31
32 5 0.10
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (31 bp):
CTGCAAACGTCGAATGGGTTTTGTTCAAGAT
Found at i:32585870 original size:196 final size:194
Alignment explanation
Indices: 32585625--32586211 Score: 928
Period size: 196 Copynumber: 3.1 Consensus size: 194
32585615 CTACTGCAAA
* *
32585625 CTGTTCAAGATATGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGTAAACTGTTGAAG
1 CTGTT-AAGATCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAG
* *
32585690 CTGCTGCAAACGTCGAATGGGTTTTGTTCAAGATCTGCAAATTGTTGAAGCTGCTGCAAGCTGCA
65 CTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGCA
32585755 AACGTCGAATGGGTTTTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
130 AACGTCGAATGGGTTTTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
*
32585820 CTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAA
1 CTGTT-AAGAT-CTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAA
*
32585885 GCTGCTGCAAACGTCCAATGGGTTCTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGC
64 GCTGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGC
*
32585950 AAACGTCGAATGGGTTTTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAA---C---T--GT
129 AAACGTCGAATGGGTTTTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAACGTCGAATGGGT
32586007 T
194 T
32586008 C----AAGATCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGC
1 CTGTTAAGATCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGC
* *
32586069 TGCTGCAAATGTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGGCA
66 TGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCT-GCA
* * *
32586134 AACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACGTCGAATGGGT
130 AACGTCGAATGGGTTTTGTTCAAGAT-CTGCAAACTGTTGAAGCTGCTGCAAACGTCGAATGGGT
32586199 T
194 T
32586200 CTGTTCAAGATC
1 CTGTT-AAGATC
32586212 GGGTTATGTT
Statistics
Matches: 360, Mismatches: 16, Indels: 30
0.89 0.04 0.07
Matches are distributed among these distances:
182 113 0.31
183 30 0.08
184 25 0.07
187 1 0.00
188 4 0.01
190 2 0.01
192 4 0.01
193 1 0.00
195 9 0.03
196 165 0.46
197 6 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (194 bp):
CTGTTAAGATCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGC
TGCTGCAAACGTCGAATGGGTTCTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGCAA
ACGTCGAATGGGTTTTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
Found at i:32585924 original size:31 final size:31
Alignment explanation
Indices: 32585889--32585984 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 31
32585879 GTTGAAGCTG
*
32585889 CTGCAAACGTCCAATGGGTTCTGTTCAAGAT
1 CTGCAAACGTCGAATGGGTTCTGTTCAAGAT
* * *
32585920 CTGCAAACTGTTGAA--GCTGCTG--CAAG--
1 CTGCAAAC-GTCGAATGGGTTCTGTTCAAGAT
*
32585946 CTGCAAACGTCGAATGGGTTTTGTTCAAGAT
1 CTGCAAACGTCGAATGGGTTCTGTTCAAGAT
*
32585977 CTGTAAAC
1 CTGCAAAC
32585985 TGTTGAAGCT
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
25 5 0.10
26 8 0.16
27 4 0.08
28 4 0.08
29 4 0.08
30 5 0.10
31 15 0.31
32 4 0.08
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (31 bp):
CTGCAAACGTCGAATGGGTTCTGTTCAAGAT
Found at i:32586022 original size:37 final size:37
Alignment explanation
Indices: 32585967--32586077 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
32585957 GAATGGGTTT
*
32585967 TGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAAC
1 TGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAAC
32586004 TGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAAC
1 TGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAAC
* *
32586041 TGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAA
1 TGTTCAAGAT-CTGCAAACTGTTGAAGCTGCTGCAAA
32586078 TGTCGAATGG
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
37 44 0.63
38 26 0.37
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (37 bp):
TGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAAC
Found at i:32586036 original size:182 final size:184
Alignment explanation
Indices: 32585832--32586187 Score: 635
Period size: 182 Copynumber: 1.9 Consensus size: 184
32585822 GTTGAAGCTG
32585832 CTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAAC
1 CTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAAC
32585897 GTCCAATGGGTTCTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCT-GCAAACGTCGAAT
66 GTCCAATGGGTTCTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGGCAAACGTCGAAT
* *
32585961 GGGTTTTGTTCAAGAT-CTGTAAACTGTTGAAGCTGCTGCAAACTGTTCAAGAT
131 GGGTTCTGTTCAAGATGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTCAAGAT
*
32586014 CTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAAT
1 CTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAAC
* *
32586079 GTCGAATGGGTTCTGTTCAAGATCTGTAAACTGTTGAAGCTGCTGCAAGCTGGCAAACGTCGAAT
66 GTCCAATGGGTTCTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGGCAAACGTCGAAT
* *
32586144 GGGTTCTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAAC
131 GGGTTCTGTTCAAGATGCTGCAAACTGTTGAAGCTGCTGCAAAC
32586188 GTCGAATGGG
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
182 113 0.68
183 26 0.16
184 26 0.16
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (184 bp):
CTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAAC
GTCCAATGGGTTCTGTTCAAGATCTGCAAACTGTTGAAGCTGCTGCAAGCTGGCAAACGTCGAAT
GGGTTCTGTTCAAGATGCTGCAAACTGTTGAAGCTGCTGCAAACTGTTCAAGAT
Found at i:32586173 original size:19 final size:19
Alignment explanation
Indices: 32586149--32586187 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32586139 CGAATGGGTT
32586149 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
32586168 CTGTTGAAGCTGCTGCAAA
1 CTGTTGAAGCTGCTGCAAA
32586187 C
1 C
32586188 GTCGAATGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (19 bp):
CTGTTGAAGCTGCTGCAAA
Found at i:32586187 original size:51 final size:51
Alignment explanation
Indices: 32586040--32586204 Score: 215
Period size: 51 Copynumber: 3.1 Consensus size: 51
32586030 CTGCTGCAAA
*
32586040 CTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAATGTCGAATGGGTT
1 CTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
* * *
32586091 CTGTTCAAGAT-CTGTAAACTGTTGAAGCTGCTGCAAGCTGGCAAACGTCGAATGGGTT
1 CTGTTGAAGCTGCTGCAAACTGTTGAA---GCT----GCT-GCAAACGTCGAATGGGTT
32586149 CTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
1 CTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
32586200 CTGTT
1 CTGTT
32586205 CAAGATCGGG
Statistics
Matches: 98, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
50 14 0.14
51 32 0.33
52 3 0.03
53 3 0.03
56 3 0.03
57 3 0.03
58 26 0.27
59 14 0.14
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (51 bp):
CTGTTGAAGCTGCTGCAAACTGTTGAAGCTGCTGCAAACGTCGAATGGGTT
Found at i:32587971 original size:10 final size:10
Alignment explanation
Indices: 32587956--32587986 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
32587946 GAAATTTTGT
32587956 AAGAGAGAGA
1 AAGAGAGAGA
32587966 AAGAGAGAGA
1 AAGAGAGAGA
*
32587976 GAGAGAGAGA
1 AAGAGAGAGA
32587986 A
1 A
32587987 CTAAAAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (10 bp):
AAGAGAGAGA
Found at i:32596677 original size:3 final size:3
Alignment explanation
Indices: 32596669--32596694 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32596659 TGCAAATGGT
32596669 GGC GGC GGC GGC GGC GGC GGC GGC GG
1 GGC GGC GGC GGC GGC GGC GGC GGC GG
32596695 TAGTAGTGGC
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:0.00, C:0.31, G:0.69, T:0.00
Consensus pattern (3 bp):
GGC
Found at i:32597875 original size:20 final size:19
Alignment explanation
Indices: 32597840--32597894 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
32597830 ATAGCATGTA
*
32597840 ATTAACATAATAAAAATAT
1 ATTAAAATAATAAAAATAT
*
32597859 ATTAAAATAAGTAAAAATTT
1 ATTAAAATAA-TAAAAATAT
32597879 ATTAAAAATAATAAAA
1 ATT-AAAATAATAAAA
32597895 TTAAAATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 9 0.28
20 16 0.50
21 7 0.22
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATTAAAATAATAAAAATAT
Found at i:32600101 original size:33 final size:33
Alignment explanation
Indices: 32600064--32600132 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
32600054 CCGGCACGAA
32600064 CATAACCTCTTGCCAGGATGCTAAATGCAAGGG
1 CATAACCTCTTGCCAGGATGCTAAATGCAAGGG
*
32600097 CATAACCTTTTGCCAGGATGCTAAATGCAAGGG
1 CATAACCTCTTGCCAGGATGCTAAATGCAAGGG
32600130 CAT
1 CAT
32600133 GCTAAATACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (33 bp):
CATAACCTCTTGCCAGGATGCTAAATGCAAGGG
Found at i:32600136 original size:17 final size:17
Alignment explanation
Indices: 32600114--32600149 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32600104 TTTTGCCAGG
* *
32600114 ATGCTAAATGCAAGGGC
1 ATGCTAAATACAACGGC
32600131 ATGCTAAATACAACGGC
1 ATGCTAAATACAACGGC
32600148 AT
1 AT
32600150 CCGGTTCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (17 bp):
ATGCTAAATACAACGGC
Found at i:32602304 original size:22 final size:22
Alignment explanation
Indices: 32602276--32602319 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32602266 CTAAATCTTC
*
32602276 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
32602298 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
32602320 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:32605787 original size:18 final size:18
Alignment explanation
Indices: 32605761--32605795 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32605751 TAATCCATGA
*
32605761 GAACCAGAAGCTTTACCT
1 GAACCAGAAACTTTACCT
*
32605779 GAACTAGAAACTTTACC
1 GAACCAGAAACTTTACC
32605796 CAAAGAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (18 bp):
GAACCAGAAACTTTACCT
Found at i:32606025 original size:23 final size:25
Alignment explanation
Indices: 32605970--32606028 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
32605960 AAAGGGTTCG
* * *
32605970 GCAATGAAGGCCTAAACAGGATTCG
1 GCAATGAAGGCCTAAACAGAAGTCA
32605995 GCAATGAAGGCCTAAA-A-AAGTCA
1 GCAATGAAGGCCTAAACAGAAGTCA
32606018 GCAATGAAGGC
1 GCAATGAAGGC
32606029 TGAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 14 0.45
24 1 0.03
25 16 0.52
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (25 bp):
GCAATGAAGGCCTAAACAGAAGTCA
Found at i:32606205 original size:22 final size:22
Alignment explanation
Indices: 32606177--32606220 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32606167 CTAAATCTTC
*
32606177 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
32606199 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
32606221 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:32610563 original size:136 final size:138
Alignment explanation
Indices: 32610302--32610566 Score: 453
Period size: 136 Copynumber: 1.9 Consensus size: 138
32610292 GCATGTTTTA
*
32610302 TTTATTTTTATTACTTTCTTACATTTTAAGCAACCAATTTCTTCTGTACGGTGGTTCTTGTGTAA
1 TTTATTTTTATTACTTACTTACATTTTAAGCAACCAATTTCTTCTGTACGGTGGTTCTTGTGTAA
* * *
32610367 TGACGTCAACAAATAACATTATTCGTATTGATATAACTACTTGTACTGATTGGACATATGTTTTC
66 TGACATCAACAAATAACATTATTCATATTGATATAACTACTCGTACTGATTGGACATATGTTTTC
32610432 TTACATGT
131 TTACATGT
* *
32610440 TTTATTTTT-TTA-TTACTTACATTTTAAGCAACCAATTTCTTCTGTATGGTGGTTCTTGTGTCA
1 TTTATTTTTATTACTTACTTACATTTTAAGCAACCAATTTCTTCTGTACGGTGGTTCTTGTGTAA
*
32610503 TGATATCAACAAATAACATTATTCATATTGATATAACTACTCGTACTGATTGGACATATGTTTT
66 TGACATCAACAAATAACATTATTCATATTGATATAACTACTCGTACTGATTGGACATATGTTTT
32610567 ATATATTCTG
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
136 108 0.90
137 3 0.03
138 9 0.08
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (138 bp):
TTTATTTTTATTACTTACTTACATTTTAAGCAACCAATTTCTTCTGTACGGTGGTTCTTGTGTAA
TGACATCAACAAATAACATTATTCATATTGATATAACTACTCGTACTGATTGGACATATGTTTTC
TTACATGT
Found at i:32611682 original size:2 final size:2
Alignment explanation
Indices: 32611675--32611707 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32611665 TCCCCACATT
32611675 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32611708 TTATTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32612462 original size:5 final size:6
Alignment explanation
Indices: 32612437--32612552 Score: 89
Period size: 6 Copynumber: 19.2 Consensus size: 6
32612427 CGATACAATA
32612437 TTAAAT TTAAAT TTAAAT TT-AAT TTAAAAT TTAAGAT TTAAAAT TTAAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAA-AT TT-AAAT TT-AAAT
* * *
32612488 TCAAA- TTAAAT TT-AAT TT-AAT TTAATTTT TTTAAT TTAAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA--AT TTAAAT TTAAAT TTAAAT
* * *
32612534 TTAAAA TAAAAA TTAAAT T
1 TTAAAT TTAAAT TTAAAT T
32612553 ATTTGAGTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
5 24 0.26
6 42 0.46
7 19 0.21
8 6 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:32612469 original size:7 final size:7
Alignment explanation
Indices: 32612439--32612488 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
32612429 ATACAATATT
32612439 AAATTT-
1 AAATTTA
32612445 AAATTT-
1 AAATTTA
32612451 AAATTT-
1 AAATTTA
32612457 -AATTTA
1 AAATTTA
32612463 AAATTTA
1 AAATTTA
*
32612470 AGATTTA
1 AAATTTA
32612477 AAATTTA
1 AAATTTA
32612484 AAATT
1 AAATT
32612489 CAAATTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.12
6 12 0.30
7 23 0.57
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (7 bp):
AAATTTA
Found at i:32620471 original size:37 final size:37
Alignment explanation
Indices: 32620421--32620495 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
32620411 GTTCATCATC
*
32620421 ATCATTGGATGTAAGCTCATTACTAACAGTTAAAATT
1 ATCATTGGATGTAAACTCATTACTAACAGTTAAAATT
32620458 ATCATTGGATGTAAACTCATTACTAACAGTTAAAATT
1 ATCATTGGATGTAAACTCATTACTAACAGTTAAAATT
32620495 A
1 A
32620496 GTAGCAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (37 bp):
ATCATTGGATGTAAACTCATTACTAACAGTTAAAATT
Found at i:32625729 original size:27 final size:27
Alignment explanation
Indices: 32625672--32625729 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
32625662 TGACGTAGAG
* **
32625672 GGAGGAGGGGATGGGGTGTTTGAAGGC
1 GGAGGAGCGGATGGGGTGGCTGAAGGC
* * *
32625699 GGAGGAGCTGATGGGGTGGCTGGAGGT
1 GGAGGAGCGGATGGGGTGGCTGAAGGC
32625726 GGAG
1 GGAG
32625730 ATGGAGATGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.05, G:0.60, T:0.17
Consensus pattern (27 bp):
GGAGGAGCGGATGGGGTGGCTGAAGGC
Found at i:32626762 original size:19 final size:19
Alignment explanation
Indices: 32626738--32626776 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32626728 CCCATTCGAC
32626738 GTTTGCAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
32626757 GTTTGCAGCAGCTTCAACA
1 GTTTGCAGCAGCTTCAACA
32626776 G
1 G
32626777 AACCCATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (19 bp):
GTTTGCAGCAGCTTCAACA
Found at i:32626797 original size:51 final size:51
Alignment explanation
Indices: 32626721--32626884 Score: 222
Period size: 51 Copynumber: 3.1 Consensus size: 51
32626711 CCCGATCTTG
32626721 AACAGAACCCATTCGACGTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTC
1 AACAGAACCCATTCGACGTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTC
* * *
32626772 AACAGAACCCATTCGACGTTTGCAGCTTGCAGCAGCTTCAACAGTTTACAG-ATCTTG
1 AACAGAACCCATTCGACG--T-----TTGCAGCAGCTTCAACAGTTTGCAGCAGCTTC
*
32626829 AACAGAACCCATTCGACATTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTC
1 AACAGAACCCATTCGACGTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTC
32626880 AACAG
1 AACAG
32626885 TTTGCAGCAG
Statistics
Matches: 98, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
50 24 0.24
51 27 0.28
53 1 0.01
55 1 0.01
57 21 0.21
58 24 0.24
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (51 bp):
AACAGAACCCATTCGACGTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTC
Found at i:32626851 original size:57 final size:58
Alignment explanation
Indices: 32626740--32626884 Score: 189
Period size: 50 Copynumber: 2.6 Consensus size: 58
32626730 CATTCGACGT
* *
32626740 TTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGAACCCATTCGACGTTTGCAGC
1 TTGCAGCAGCTTCAACAGTTTACAGCAGCTTCAACAGAACCCATTCGACATTTGCAGC
* *
32626798 TTGCAGCAGCTTCAACAGTTTACAG-ATCTTGAACAGAACCCATTCGACA--T-----
1 TTGCAGCAGCTTCAACAGTTTACAGCAGCTTCAACAGAACCCATTCGACATTTGCAGC
*
32626848 TTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAG
1 TTGCAGCAGCTTCAACAGTTTACAGCAGCTTCAACAG
32626885 TTTGCAGCAG
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
50 24 0.30
51 9 0.11
55 1 0.01
57 21 0.27
58 24 0.30
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (58 bp):
TTGCAGCAGCTTCAACAGTTTACAGCAGCTTCAACAGAACCCATTCGACATTTGCAGC
Found at i:32626871 original size:19 final size:19
Alignment explanation
Indices: 32626847--32627368 Score: 214
Period size: 19 Copynumber: 29.0 Consensus size: 19
32626837 CCATTCGACA
32626847 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
32626866 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
32626885 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
* *
32626904 TTTGCAG-ATCTTGAACAG
1 TTTGCAGCAGCTTCAACAG
32626922 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
* * * *
32626941 TTTACAG-ATCTTGAACAA
1 TTTGCAGCAGCTTCAACAG
**** * **
32626959 AACCCATTC-GACGTT-TGCAG
1 TTTGCA-GCAG-C-TTCAACAG
*
32626979 CTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
* *
32626998 TTTGCAG-ATCTTGAACAG
1 TTTGCAGCAGCTTCAACAG
** * **
32627016 --AAC-CCA--TTGGAC-G
1 TTTGCAGCAGCTTCAACAG
32627029 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
32627048 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
32627067 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
** * *
32627086 --AAC-CCA--TTCGAC-G
1 TTTGCAGCAGCTTCAACAG
32627099 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
* * *
32627118 TTTGCAG-ATCTTGAACAA
1 TTTGCAGCAGCTTCAACAG
**** * **
32627136 AACCCATTC-GACGTT-TGCAG
1 TTTGCA-GCAG-C-TTCAACAG
* *
32627156 CTTGCAGCAGCTTCAACAA
1 TTTGCAGCAGCTTCAACAG
* *
32627175 TTTGCAG-ATCTTGAACA-
1 TTTGCAGCAGCTTCAACAG
*** * *
32627192 -AAAC-CCA--TTCGAC-G
1 TTTGCAGCAGCTTCAACAG
32627206 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
*
32627225 TTTACAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
32627244 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
* * *
32627263 TTTGCA-TATCTTGAACAG
1 TTTGCAGCAGCTTCAACAG
* *
32627281 TTTGCAGTAGCTTCAATAG
1 TTTGCAGCAGCTTCAACAG
* * *
32627300 TTTACAG-ATCTTGAACAG
1 TTTGCAGCAGCTTCAACAG
** * **
32627318 --AAC-CCA--TTGGAC-G
1 TTTGCAGCAGCTTCAACAG
*
32627331 TTTGCAGCAACTTCAACAG
1 TTTGCAGCAGCTTCAACAG
32627350 TTTGCAGCAGCTTCAACAG
1 TTTGCAGCAGCTTCAACAG
32627369 AACCCATTCG
Statistics
Matches: 363, Mismatches: 99, Indels: 82
0.67 0.18 0.15
Matches are distributed among these distances:
13 3 0.01
14 19 0.05
15 4 0.01
16 17 0.05
17 1 0.00
18 98 0.27
19 205 0.56
20 12 0.03
21 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (19 bp):
TTTGCAGCAGCTTCAACAG
Found at i:32627032 original size:31 final size:31
Alignment explanation
Indices: 32626940--32627035 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 31
32626930 AGCTTCAACA
* *
32626940 GTTTACAGATCTTGAACAAAACCCATTCGAC
1 GTTTGCAGATCTTGAACAGAACCCATTCGAC
* * *
32626971 GTTTGCAG--CTTG--CAGCA-GC-TTCAAC
1 GTTTGCAGATCTTGAACAGAACCCATTCGAC
*
32626996 AGTTTGCAGATCTTGAACAGAACCCATTGGAC
1 -GTTTGCAGATCTTGAACAGAACCCATTCGAC
32627028 GTTTGCAG
1 GTTTGCAG
32627036 CAGCTTCAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
25 5 0.10
26 9 0.18
27 3 0.06
28 4 0.08
29 4 0.08
30 4 0.08
31 16 0.33
32 4 0.08
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (31 bp):
GTTTGCAGATCTTGAACAGAACCCATTCGAC
Found at i:32627046 original size:182 final size:182
Alignment explanation
Indices: 32626738--32627400 Score: 1017
Period size: 182 Copynumber: 3.7 Consensus size: 182
32626728 CCCATTCGAC
* * * *
32626738 GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGAACCCATTCGACGTTTGCAGCTTGCA
1 GTTTGCAGCAGCTTCAACAGTTTACAG-ATCTTGAACAAAACCCATTCGACGTTTGCAGCTTGCA
* *
32626803 GCAGCTTCAACAGTTTACAGATCTTGAACAGAACCCATTCGACATTTGCAGCAGCTTCAACAGTT
65 GCAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGCAGCTTCAACAGTT
*
32626868 TGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGTTTGCAGATCTTGAACA
130 TGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGTTTGCACATCTTGAACA
32626921 GTTTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAAAACCCATTCGACGTTTGCAGCTTGCAG
1 GTTTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAAAACCCATTCGACGTTTGCAGCTTGCAG
*
32626986 CAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTGGACGTTTGCAGCAGCTTCAACAGTTT
66 CAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGCAGCTTCAACAGTTT
** * *
32627051 GCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAG--AACCCAT-TCG-AC-
131 GCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGTTTGCACATCTTGAACA
*
32627098 GTTTGCAGCAGCTTCAACAGTTTGCAGATCTTGAACAAAACCCATTCGACGTTTGCAGCTTGCAG
1 GTTTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAAAACCCATTCGACGTTTGCAGCTTGCAG
* *
32627163 CAGCTTCAACAATTTGCAGATCTTGAACAAAACCCATTCGACGTTTGCAGCAGCTTCAACAGTTT
66 CAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGCAGCTTCAACAGTTT
* *
32627228 ACAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGTTTGCATATCTTGAACA
131 GCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGTTTGCACATCTTGAACA
* * * *
32627280 GTTTGCAGTAGCTTCAATAGTTTACAGATCTTGAACAGAACCCATTGGACGTTTGCA----GCA-
1 GTTTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAAAACCCATTCGACGTTTGCAGCTTGCAG
* *
32627340 -A-CTTCAACAGTTTGCAGCAGCTTCAACAGAACCCATTCGACGTTTGCAGCAGCTTCAACAG
66 CAGCTTCAACAGTTTGCAG-ATCTTGAACAGAACCCATTCGACGTTTGCAGCAGCTTCAACAG
32627401 AACCCGATCC
Statistics
Matches: 443, Mismatches: 31, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
175 15 0.03
176 41 0.09
177 160 0.36
178 5 0.01
179 5 0.01
180 5 0.01
181 2 0.00
182 184 0.42
183 26 0.06
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (182 bp):
GTTTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAAAACCCATTCGACGTTTGCAGCTTGCAG
CAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGCAGCTTCAACAGTTT
GCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGTTTGCACATCTTGAACA
Found at i:32627102 original size:32 final size:32
Alignment explanation
Indices: 32626997--32627117 Score: 118
Period size: 32 Copynumber: 3.6 Consensus size: 32
32626987 AGCTTCAACA
* * *
32626997 GTTTGCAG-ATCTTGAACAGAACCCATTGGAC
1 GTTTGCAGCAGCTTCAACAGAACCCATTCGAC
** * *
32627028 GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAAC
1 GTTTGCAGCAGCTTCAACAG--AAC-CCA--TTCGAC
32627065 AGTTTGCAGCAGCTTCAACAGAACCCATTCGAC
1 -GTTTGCAGCAGCTTCAACAGAACCCATTCGAC
32627098 GTTTGCAGCAGCTTCAACAG
1 GTTTGCAGCAGCTTCAACAG
32627118 TTTGCAGATC
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
31 8 0.11
32 29 0.40
33 5 0.07
34 1 0.01
35 4 0.06
36 1 0.01
37 4 0.06
38 20 0.28
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (32 bp):
GTTTGCAGCAGCTTCAACAGAACCCATTCGAC
Found at i:32627106 original size:70 final size:69
Alignment explanation
Indices: 32626980--32627124 Score: 254
Period size: 70 Copynumber: 2.1 Consensus size: 69
32626970 CGTTTGCAGC
* * *
32626980 TTGCAGCAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTGGACGTTTGCAGCAGCTTCAA
1 TTGCAGCAGCTTCAACAGTTTGCAGAGCTTCAACAGAACCCATTCGACGTTTGCAGCAGCTTCAA
32627045 CAGT
66 CAGT
32627049 TTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGAACCCATTCGACGTTTGCAGCAGCTTCA
1 TTGCAGCAGCTTCAACAGTTTGCAG-AGCTTCAACAGAACCCATTCGACGTTTGCAGCAGCTTCA
32627114 ACAGT
65 ACAGT
32627119 TTGCAG
1 TTGCAG
32627125 ATCTTGAACA
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 25 0.35
70 47 0.65
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (69 bp):
TTGCAGCAGCTTCAACAGTTTGCAGAGCTTCAACAGAACCCATTCGACGTTTGCAGCAGCTTCAA
CAGT
Found at i:32627155 original size:31 final size:31
Alignment explanation
Indices: 32627117--32627212 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 31
32627107 AGCTTCAACA
32627117 GTTTGCAGATCTTGAACAAAACCCATTCGAC
1 GTTTGCAGATCTTGAACAAAACCCATTCGAC
** * *
32627148 GTTTGCAG--CTTG--CAGCA-GC-TTCAAC
1 GTTTGCAGATCTTGAACAAAACCCATTCGAC
*
32627173 AATTTGCAGATCTTGAACAAAACCCATTCGAC
1 -GTTTGCAGATCTTGAACAAAACCCATTCGAC
32627205 GTTTGCAG
1 GTTTGCAG
32627213 CAGCTTCAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
25 5 0.10
26 8 0.17
27 3 0.06
28 4 0.08
29 4 0.08
30 3 0.06
31 16 0.33
32 5 0.10
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (31 bp):
GTTTGCAGATCTTGAACAAAACCCATTCGAC
Found at i:32627383 original size:51 final size:51
Alignment explanation
Indices: 32627224--32627400 Score: 194
Period size: 51 Copynumber: 3.4 Consensus size: 51
32627214 AGCTTCAACA
* ****
32627224 GTTTACAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGTTTGCATATCTTGAAC
1 GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGAACCCAT-TC--G-AC
* * * * * *
32627279 AGTTTGCAGTAGCTTCAATAGTTTACAG-ATCTTGAACAGAACCCATTGGAC
1 -GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGAACCCATTCGAC
*
32627330 GTTTGCAGCAACTTCAACAGTTTGCAGCAGCTTCAACAGAACCCATTCGAC
1 GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGAACCCATTCGAC
32627381 GTTTGCAGCAGCTTCAACAG
1 GTTTGCAGCAGCTTCAACAG
32627401 AACCCGATCC
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
50 23 0.23
51 41 0.41
52 1 0.01
54 1 0.01
55 12 0.12
56 23 0.23
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (51 bp):
GTTTGCAGCAGCTTCAACAGTTTGCAGCAGCTTCAACAGAACCCATTCGAC
Found at i:32627628 original size:25 final size:25
Alignment explanation
Indices: 32627600--32627653 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
32627590 GTTTAAATAA
* *
32627600 GAATGCCTTAATTAAATACCTTTAT
1 GAATGCCTAAATTAAATACCCTTAT
32627625 GAATGCCTAAATTAAATACCCTTAT
1 GAATGCCTAAATTAAATACCCTTAT
32627650 GAAT
1 GAAT
32627654 ATTGTGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (25 bp):
GAATGCCTAAATTAAATACCCTTAT
Found at i:32631323 original size:15 final size:15
Alignment explanation
Indices: 32631303--32631331 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32631293 ATTATTATTA
32631303 TTATTGTTGTTGTTG
1 TTATTGTTGTTGTTG
32631318 TTATTGTTGTTGTT
1 TTATTGTTGTTGTT
32631332 ATCTTGAAAA
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:0.07, C:0.00, G:0.24, T:0.69
Consensus pattern (15 bp):
TTATTGTTGTTGTTG
Found at i:32631324 original size:12 final size:12
Alignment explanation
Indices: 32631309--32631333 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32631299 ATTATTATTG
32631309 TTGTTGTTGTTA
1 TTGTTGTTGTTA
32631321 TTGTTGTTGTTA
1 TTGTTGTTGTTA
32631333 T
1 T
32631334 CTTGAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (12 bp):
TTGTTGTTGTTA
Found at i:32631455 original size:23 final size:25
Alignment explanation
Indices: 32631409--32631467 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
32631399 GAGCTCGAAT
*
32631409 AATCGAGTTTTTTTTTCGAGTATAAA
1 AATCGAGCTTTTTTTTC-AGTATAAA
**
32631435 AATCGAGCTTTTTTTT-A-TATATT
1 AATCGAGCTTTTTTTTCAGTATAAA
32631458 AATCGAGCTT
1 AATCGAGCTT
32631468 AATCGAGCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.47
24 1 0.03
26 15 0.50
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (25 bp):
AATCGAGCTTTTTTTTCAGTATAAA
Found at i:32633200 original size:13 final size:13
Alignment explanation
Indices: 32633182--32633225 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
32633172 AATACTAAAA
*
32633182 ATTTTTAAATTAT
1 ATTTTTAAATCAT
**
32633195 ATTTTTTTATCAT
1 ATTTTTAAATCAT
32633208 ATTTTTAAA-CAT
1 ATTTTTAAATCAT
32633220 ATTTTT
1 ATTTTT
32633226 GCAATATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTAAATCAT
Found at i:32634470 original size:3 final size:3
Alignment explanation
Indices: 32634462--32634490 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32634452 ATCACAAAAA
32634462 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
32634491 CAATGCGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:32641353 original size:13 final size:12
Alignment explanation
Indices: 32641322--32641356 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
32641312 AACAATCCCT
32641322 AAATTTTTTCTA
1 AAATTTTTTCTA
32641334 AAATTTTTTCTA
1 AAATTTTTTCTA
32641346 AAATTTTTTCT
1 AAATTTTTTCT
32641357 GTTCATCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
AAATTTTTTCTA
Found at i:32646408 original size:2 final size:2
Alignment explanation
Indices: 32646401--32646435 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32646391 CAATCCAAAA
32646401 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
32646436 TTCAATTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32650226 original size:14 final size:14
Alignment explanation
Indices: 32650193--32650235 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
32650183 TTTGTTAAAA
32650193 TTATTTTAAA-TAT
1 TTATTTTAAATTAT
* *
32650206 ATAATTTATAATTAT
1 TTATTTTA-AATTAT
32650221 TTATTTTAAATTAT
1 TTATTTTAAATTAT
32650235 T
1 T
32650236 AAGTATAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.25
14 9 0.38
15 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATTTTAAATTAT
Found at i:32650249 original size:28 final size:28
Alignment explanation
Indices: 32650193--32650250 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
32650183 TTTGTTAAAA
*
32650193 TTATTTTAAATATATAATTTATAATTAT
1 TTATTTTAAATATATAATGTATAATTAT
32650221 TTATTTTAAAT-TATTAA-GTATAATATAT
1 TTATTTTAAATATA-TAATGTATAAT-TAT
32650249 TT
1 TT
32650251 TACTTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
TTATTTTAAATATATAATGTATAATTAT
Found at i:32655908 original size:20 final size:19
Alignment explanation
Indices: 32655879--32655918 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
32655869 ATTTAAATGA
*
32655879 ATTTTTTTATTATTAGACT
1 ATTTTTTTATAATTAGACT
32655898 ATTTCTTTTATAATTAGACT
1 ATTT-TTTTATAATTAGACT
32655918 A
1 A
32655919 AAAAAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTTTTTTATAATTAGACT
Found at i:32659176 original size:15 final size:15
Alignment explanation
Indices: 32659139--32659169 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32659129 TGATAACAGG
32659139 ATAATTAATAATTGA
1 ATAATTAATAATTGA
*
32659154 ATAATTAATTATTGA
1 ATAATTAATAATTGA
32659169 A
1 A
32659170 AACTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATAATTAATAATTGA
Found at i:32659298 original size:22 final size:22
Alignment explanation
Indices: 32659273--32659357 Score: 80
Period size: 22 Copynumber: 3.9 Consensus size: 22
32659263 AATAAATTTG
* *
32659273 TAATAATACAATAATAAATGCA
1 TAATAATATAATAATAAATGAA
* * *
32659295 TAATATTTTAATAGTAAATGAA
1 TAATAATATAATAATAAATGAA
* *
32659317 TTATAATATAATTATAAATGAA
1 TAATAATATAATAATAAATGAA
* * *
32659339 TAACAACATAATACTAAAT
1 TAATAATATAATAATAAAT
32659358 AAAAGTTAAC
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (22 bp):
TAATAATATAATAATAAATGAA
Found at i:32659523 original size:22 final size:21
Alignment explanation
Indices: 32659498--32659561 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
32659488 TTAATAGTAG
32659498 TAAATAATAAATAATTTAGTGA
1 TAAATAAT-AATAATTTAGTGA
* * * *
32659520 TAAATCAATTATAAATTAATGG
1 TAAAT-AATAATAATTTAGTGA
*
32659542 TAAATAATTGATAATTTAGT
1 TAAATAA-TAATAATTTAGT
32659562 AGTTATTTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 28 0.85
23 3 0.09
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (21 bp):
TAAATAATAATAATTTAGTGA
Found at i:32659611 original size:65 final size:64
Alignment explanation
Indices: 32659542--32659694 Score: 141
Period size: 65 Copynumber: 2.4 Consensus size: 64
32659532 AAATTAATGG
*
32659542 TAAATAATTGATAATTTAGTAGTTATTTATTGAAAACTTAAAAGTAAATTAA-TATAATTTAATA
1 TAAATAATTGATAATTTAGTAGTTAATTATTGAAAACTTAAAAGTAAA-TAAGTATAATTTAAT-
32659606 A
64 A
* * * * * * * *
32659607 TAAATCATCGATAATATAATCA-TTAATTATTTATAACTTAATATTAAATAATGTATAATTTAAT
1 TAAATAATTGATAATTTAGT-AGTTAATTATTGAAAACTTAAAAGTAAATAA-GTATAATTTAAT
32659671 A
64 A
* *
32659672 TAAA-ACAGTAATAATTTAGTAGT
1 TAAATA-ATTGATAATTTAGTAGT
32659695 AAATCATAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
64 4 0.06
65 52 0.76
66 12 0.18
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (64 bp):
TAAATAATTGATAATTTAGTAGTTAATTATTGAAAACTTAAAAGTAAATAAGTATAATTTAATA
Found at i:32659789 original size:22 final size:22
Alignment explanation
Indices: 32659726--32659789 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 22
32659716 TAATTTTGTG
32659726 ATAAATGAT-TAAAAAT-TAAGA
1 ATAAAT-ATATAAAAATATAAGA
* * *
32659747 AGTAAAT-TAATAATAACATAATA
1 A-TAAATAT-ATAAAAATATAAGA
32659770 ATAAATATATAAAAATATAA
1 ATAAATATATAAAAATATAA
32659790 CAGTAAATCA
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 25 0.76
23 6 0.18
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
ATAAATATATAAAAATATAAGA
Found at i:32659816 original size:22 final size:22
Alignment explanation
Indices: 32659791--32659881 Score: 64
Period size: 22 Copynumber: 4.3 Consensus size: 22
32659781 AAAATATAAC
*
32659791 AGTAAATCATTGATAATTTAGT
1 AGTAAATCATTAATAATTTAGT
* * *
32659813 AGT-AA--ATTGATAATGTAAT
1 AGTAAATCATTAATAATTTAGT
* *
32659832 CGT-AATCACTAATAATTTAGT
1 AGTAAATCATTAATAATTTAGT
* * * *
32659853 TGTAAATTAATAACAATTTAGT
1 AGTAAATCATTAATAATTTAGT
32659875 AGTAAAT
1 AGTAAAT
32659882 TAGTTAACAA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 16 0.30
21 14 0.26
22 24 0.44
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.38
Consensus pattern (22 bp):
AGTAAATCATTAATAATTTAGT
Found at i:32660042 original size:22 final size:22
Alignment explanation
Indices: 32659994--32660064 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
32659984 CAATGATTAT
*
32659994 TAAATCATTTATAATTTAAT-G
1 TAAATCATTTATAAATTAATAG
*
32660015 ACAAATCATTTATAAATTAATAG
1 -TAAATCATTTATAAATTAATAG
* ** *
32660038 TAAATCATTAATAGCTTAATAA
1 TAAATCATTTATAAATTAATAG
32660060 TAAAT
1 TAAAT
32660065 AACTGATAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAATCATTTATAAATTAATAG
Found at i:32660405 original size:11 final size:11
Alignment explanation
Indices: 32660339--32660492 Score: 55
Period size: 11 Copynumber: 13.9 Consensus size: 11
32660329 AACATATTAG
*
32660339 TAAATTAATGA
1 TAAATTAATAA
*
32660350 TAAGTTAATAA
1 TAAATTAATAA
* **
32660361 AAAAAAAATAA
1 TAAATTAATAA
* *
32660372 TAACTTAGTAGA
1 TAAATTAATA-A
32660384 -AAA-TAATTAA
1 TAAATTAA-TAA
32660394 TAAATTAATAA
1 TAAATTAATAA
** *
32660405 TAAATCGATTA
1 TAAATTAATAA
* * *
32660416 TAACTTAACAG
1 TAAATTAATAA
* *
32660427 TAAATTAGT-T
1 TAAATTAATAA
* *
32660437 TCAATTTAATAG
1 T-AAATTAATAA
32660449 T-AATTAATTAA
1 TAAATTAA-TAA
* *
32660460 TAAATTTAGTAC
1 TAAA-TTAATAA
32660472 TAAATTAATAA
1 TAAATTAATAA
*
32660483 TAACTTAATA
1 TAAATTAATA
32660493 GTTAATAATT
Statistics
Matches: 98, Mismatches: 36, Indels: 18
0.64 0.24 0.12
Matches are distributed among these distances:
10 9 0.09
11 73 0.74
12 13 0.13
13 3 0.03
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.36
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:32660409 original size:22 final size:22
Alignment explanation
Indices: 32660349--32660529 Score: 52
Period size: 22 Copynumber: 8.1 Consensus size: 22
32660339 TAAATTAATG
* * * *
32660349 ATAAGTTAATAAAAAAAAAATA
1 ATAAATTAATAATAAATAATTA
* *
32660371 ATAACTTAGTAGA-AAATAATTA
1 ATAAATTAATA-ATAAATAATTA
*
32660393 ATAAATTAATAATAAATCGATT-
1 ATAAATTAATAATAAAT-AATTA
* * * *
32660415 ATAACTTAACAGTAAATTAGTT-
1 ATAAATTAATAATAAA-TAATTA
* * *
32660437 -TCAATTTAATAGTAATTAATTA
1 AT-AAATTAATAATAAATAATTA
* *
32660459 ATAAATTTAGTACTAAATTAA-TA
1 ATAAA-TTAATAATAAA-TAATTA
* * *
32660482 ATAACTTAATAGTTAATAATTA
1 ATAAATTAATAATAAATAATTA
32660504 A-AAACTTAA-AAGTAAATCAATATA
1 ATAAA-TTAATAA-TAAAT-AAT-TA
32660528 AT
1 AT
32660530 TAATACTAGT
Statistics
Matches: 117, Mismatches: 27, Indels: 27
0.68 0.16 0.16
Matches are distributed among these distances:
21 12 0.10
22 76 0.65
23 23 0.20
24 6 0.05
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.35
Consensus pattern (22 bp):
ATAAATTAATAATAAATAATTA
Found at i:32660467 original size:23 final size:23
Alignment explanation
Indices: 32660442--32660518 Score: 72
Period size: 22 Copynumber: 3.4 Consensus size: 23
32660432 TAGTTTCAAT
*
32660442 TTAATAGTAATTAATTAATAAAT
1 TTAATAGTAATTAATTAATAAAC
* *
32660465 TTAGTACTAAATTAA-TAAT-AAC
1 TTAATAGT-AATTAATTAATAAAC
32660487 TTAATAGTTAA-TAATTAA-AAAC
1 TTAATAG-TAATTAATTAATAAAC
*
32660509 TTAAAAGTAA
1 TTAATAGTAA
32660519 ATCAATATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
21 6 0.14
22 21 0.48
23 11 0.25
24 6 0.14
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (23 bp):
TTAATAGTAATTAATTAATAAAC
Found at i:32660648 original size:22 final size:22
Alignment explanation
Indices: 32660623--32660672 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
32660613 TAACTTGATA
*
32660623 ATAAATC-ATGGTTAATTTTGTG
1 ATAAATCTATGATT-ATTTTGTG
32660645 ATAAATCTATGATTATTTTGTG
1 ATAAATCTATGATTATTTTGTG
32660667 ATAAAT
1 ATAAAT
32660673 AATCGAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (22 bp):
ATAAATCTATGATTATTTTGTG
Found at i:32660792 original size:22 final size:22
Alignment explanation
Indices: 32660766--32660824 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
32660756 AAATTATTGA
* *
32660766 AATTTAGTAGTAAATCACTAAT
1 AATTTAGTAGTAAATAAATAAT
*
32660788 AATTTAGTTGTAAATAAATAAT
1 AATTTAGTAGTAAATAAATAAT
*
32660810 AATTTAGTAGCAAAT
1 AATTTAGTAGTAAAT
32660825 TAGTTAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (22 bp):
AATTTAGTAGTAAATAAATAAT
Found at i:32660885 original size:22 final size:22
Alignment explanation
Indices: 32660847--32661042 Score: 59
Period size: 22 Copynumber: 9.0 Consensus size: 22
32660837 GATAATTTTG
*
32660847 TAGTAAAGTA-TTGATAAATTAA
1 TAGTAAATTAGTT-ATAAATTAA
* *
32660869 TAGTAAATTAGTTATAACTTTA
1 TAGTAAATTAGTTATAAATTAA
** * *
32660891 TAACAAATTA-TCAATAACTTAA
1 TAGTAAATTAGT-TATAAATTAA
* **
32660913 TAGTAAATTA-TCA-ACAATTTGG
1 TAGTAAATTAGTTATA-AA-TTAA
* * * *
32660935 TAGTAAATTAATCATAACTTAG
1 TAGTAAATTAGTTATAAATTAA
* *
32660957 TA-TAAATTTATTTATAAATTAG
1 TAGTAAA-TTAGTTATAAATTAA
*
32660979 TAGT-AATTAG-TAGTAAATTAT
1 TAGTAAATTAGTTA-TAAATTAA
** *
32661000 TCA-TAAATTAGTGGTAAATAAA
1 T-AGTAAATTAGTTATAAATTAA
* *
32661022 T-GCTAATTTAGTAATAAATTA
1 TAG-TAAATTAGTTATAAATTA
32661043 CTGATAATTT
Statistics
Matches: 132, Mismatches: 28, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
20 3 0.02
21 19 0.14
22 102 0.77
23 7 0.05
24 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
TAGTAAATTAGTTATAAATTAA
Found at i:32661000 original size:32 final size:32
Alignment explanation
Indices: 32660953--32661016 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
32660943 TAATCATAAC
*
32660953 TTAGTATAAATTTATTTATAAATTAGTAGTAA
1 TTAGTATAAATTTATTCATAAATTAGTAGTAA
*
32660985 TTAGTAGTAAA-TTATTCATAAATTAGTGGTAA
1 TTAGTA-TAAATTTATTCATAAATTAGTAGTAA
32661017 ATAAATGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (32 bp):
TTAGTATAAATTTATTCATAAATTAGTAGTAA
Found at i:32661017 original size:11 final size:11
Alignment explanation
Indices: 32660971--32661018 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
32660961 AATTTATTTA
32660971 TAAATTAGTAG
1 TAAATTAGTAG
32660982 T-AATTAGTAG
1 TAAATTAGTAG
*
32660992 TAAATTATTCA-
1 TAAATTAGT-AG
*
32661003 TAAATTAGTGG
1 TAAATTAGTAG
32661014 TAAAT
1 TAAAT
32661019 AAATGCTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 10 0.32
11 20 0.65
12 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.40
Consensus pattern (11 bp):
TAAATTAGTAG
Found at i:32661121 original size:22 final size:22
Alignment explanation
Indices: 32661061--32661137 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
32661051 TTGGTAGTAT
*
32661061 ATCATTGATAACTTAACAATAA
1 ATCATTGATAACTTAATAATAA
* *
32661083 ATCGTTGA-AAATATAATAATAA
1 ATCATTGATAACT-TAATAATAA
* * *
32661105 ATCAATGATAACTTAATTATTA
1 ATCATTGATAACTTAATAATAA
*
32661127 ATAATTGATAA
1 ATCATTGATAA
32661138 ATTTTTTTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 3 0.07
22 37 0.86
23 3 0.07
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (22 bp):
ATCATTGATAACTTAATAATAA
Found at i:32661430 original size:11 final size:11
Alignment explanation
Indices: 32661414--32661476 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
32661404 ATATTATAAG
32661414 TTATTAAAAAA
1 TTATTAAAAAA
32661425 TTATT--AAAA
1 TTATTAAAAAA
*
32661434 TTATATAAAGAGA
1 TTAT-TAAA-AAA
**
32661447 TTATTAAAATT
1 TTATTAAAAAA
32661458 TTA-TAAAAAA
1 TTATTAAAAAA
*
32661468 TTATCAAAA
1 TTATTAAAA
32661477 TTATATTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
9 8 0.20
10 9 0.22
11 13 0.32
12 5 0.12
13 6 0.15
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (11 bp):
TTATTAAAAAA
Found at i:32661476 original size:21 final size:21
Alignment explanation
Indices: 32661414--32661560 Score: 136
Period size: 21 Copynumber: 7.0 Consensus size: 21
32661404 ATATTATAAG
*
32661414 TTAT-TAAAAAATTATTAAAA
1 TTATATAAAAAATTATCAAAA
* *
32661434 TTATATAAAGAGATTATTAAAA
1 TTATATAAA-AAATTATCAAAA
*
32661456 TTTTATAAAAAATTATCAAAA
1 TTATATAAAAAATTATCAAAA
* **
32661477 TTATATTAATGATTATCAAAA
1 TTATATAAAAAATTATCAAAA
* * *
32661498 TTATATCATAATTTATCAAAA
1 TTATATAAAAAATTATCAAAA
* * *
32661519 TTTTAT-GAAAGTTATCAAAA
1 TTATATAAAAAATTATCAAAA
* *
32661539 TTTTATAAAAACTTATCAAAA
1 TTATATAAAAAATTATCAAAA
32661560 T
1 T
32661561 CAAAATTTAC
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
20 21 0.20
21 65 0.62
22 19 0.18
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (21 bp):
TTATATAAAAAATTATCAAAA
Found at i:32661484 original size:32 final size:30
Alignment explanation
Indices: 32661447--32661541 Score: 77
Period size: 31 Copynumber: 3.1 Consensus size: 30
32661437 TATAAAGAGA
32661447 TTATTAAAATTTTATAAAAAATTATCAAAAT
1 TTATTAAAATTTTAT-AAAAATTATCAAAAT
* * *
32661478 TATATT--AATGATTATCAAAATTATATCATAAT
1 T-TATTAAAAT-TTTAT-AAAAAT-TATCAAAAT
* * *
32661510 TTATCAAAATTTTATGAAAGTTATCAAAAT
1 TTATTAAAATTTTATAAAAATTATCAAAAT
32661540 TT
1 TT
32661542 TATAAAAACT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
30 13 0.26
31 17 0.34
32 17 0.34
33 3 0.06
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (30 bp):
TTATTAAAATTTTATAAAAATTATCAAAAT
Found at i:32661520 original size:10 final size:10
Alignment explanation
Indices: 32661447--32661560 Score: 70
Period size: 10 Copynumber: 11.0 Consensus size: 10
32661437 TATAAAGAGA
*
32661447 TTATTAAAATT
1 TTATCAAAA-T
* *
32661458 TTATAAAAAA
1 TTATCAAAAT
32661468 TTATCAAAAT
1 TTATCAAAAT
* *
32661478 TATATTAATGA-
1 T-TATCAA-AAT
32661489 TTATCAAAAT
1 TTATCAAAAT
*
32661499 TATATCATAAT
1 T-TATCAAAAT
32661510 TTATCAAAATT
1 TTATCAAAA-T
* *
32661521 TTAT-GAAAG
1 TTATCAAAAT
32661530 TTATCAAAATT
1 TTATCAAAA-T
* *
32661541 TTATAAAAAC
1 TTATCAAAAT
32661551 TTATCAAAAT
1 TTATCAAAAT
32661561 CAAAATTTAC
Statistics
Matches: 78, Mismatches: 18, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.06
10 36 0.46
11 36 0.46
12 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (10 bp):
TTATCAAAAT
Found at i:32674616 original size:2 final size:2
Alignment explanation
Indices: 32674611--32674635 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32674601 ACACACACAC
32674611 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32674636 GTCTGATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32677731 original size:61 final size:59
Alignment explanation
Indices: 32677661--32677839 Score: 195
Period size: 61 Copynumber: 3.0 Consensus size: 59
32677651 TGCTTTTATA
* * *
32677661 CAAGGAAAATTGATACTTTTAACTTTTCCTAAAAATGTTTTTCTTGATAATTTTTATTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTT-TTGA-AATTTTTATTTTT
* * * *
32677722 TAAGAAAAATTGGTACTTCCAACTTTTCCTCAAAATGCTTTTTTTTTTGAAA-TTTTA-ATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATG----TTTTTTTGAAATTTTTATTTTT
*
32677783 CAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATG--TTTTTGAAAATTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTTG-AAATTTTTATTTT
32677840 AGAAATTTTA
Statistics
Matches: 99, Mismatches: 12, Indels: 17
0.77 0.09 0.13
Matches are distributed among these distances:
55 6 0.06
56 3 0.03
57 5 0.05
58 2 0.02
61 67 0.68
62 5 0.05
63 2 0.02
64 4 0.04
65 5 0.05
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTTGAAATTTTTATTTTT
Found at i:32677910 original size:60 final size:61
Alignment explanation
Indices: 32677842--32678103 Score: 268
Period size: 60 Copynumber: 4.3 Consensus size: 61
32677832 TTTATTTTAG
* *
32677842 AAATTTTATTTTTAAGA-AAAATTGATACTTTCAACTTTTCTTTTAAAAATATTTTTCTTC
1 AAATTTTATTTTTAAGAGAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTTTTC
* * * * *
32677902 AAGTTTTATTTTTAAGA-AAAATTGATAC-TTCAAACTTTTCCTCTAGAAATGTTTTTTTTGA
1 AAATTTTATTTTTAAGAGAAAATTGATACTTTC-AACTTTTCCTTTAAAAATATTTTTTTT-C
* * *
32677963 AAAATTTA-TTTTAAAAGAAAATCGATACTTTCAACTTTTCCTTTAAAAATATATATTTTTT-
1 AAATTTTATTTTTAAGAGAAAATTGATACTTTCAACTTTTCCTTTAAAAATAT-T-TTTTTTC
* * * * * *
32678024 AATTTTTATGTTCAA-AGAAAATTGATACATTCAAC-TTTCCTTCAAAAATTTTTTTTTTTC
1 AAATTTTATTTTTAAGAGAAAATTGATACTTTCAACTTTTCCTTTAAAAA-TATTTTTTTTC
*
32678084 AAATTTTCATTTTAAAGAGA
1 AAATTTT-ATTTTTAAGAGA
32678104 TCATTGAAAA
Statistics
Matches: 166, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
59 9 0.05
60 75 0.45
61 65 0.39
62 11 0.07
63 6 0.04
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (61 bp):
AAATTTTATTTTTAAGAGAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTTTTC
Found at i:32678032 original size:61 final size:60
Alignment explanation
Indices: 32677826--32678101 Score: 258
Period size: 61 Copynumber: 4.5 Consensus size: 60
32677816 AATGTTTTTG
* * *
32677826 AAAAT-TTTTATTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCTTTTA
1 AAAATATTTT-TTTTA-AATTTTTATTTTAAAGAAAAATTGATACTTTCAACTTTTCCTTTA
* * * * *
32677887 AAAATATTTTTCTTCAAGTTTTATTTTTAAGAAAAATTGATAC-TTCAAACTTTTCCTCTA
1 AAAATATTTTTTTTAAATTTTTATTTTAAAGAAAAATTGATACTTTC-AACTTTTCCTTTA
* * ** *
32677947 GAAATGTTTTTTTTGAAAAATTTATTTTAAA-AGAAAATCGATACTTTCAACTTTTCCTTTA
1 AAAATATTTTTTTT-AAATTTTTATTTTAAAGA-AAAATTGATACTTTCAACTTTTCCTTTA
* * *
32678008 AAAATATATATTTTTT-AATTTTTATGTTCAAAG-AAAATTGATACATTCAAC-TTTCCTTCA
1 AAAATAT-T-TTTTTTAAATTTTTAT-TTTAAAGAAAAATTGATACTTTCAACTTTTCCTTTA
* *
32678068 AAAATTTTTTTTTTTCAAATTTTCATTTTAAAGA
1 AAAA-TATTTTTTTT-AAATTTTTATTTTAAAGA
32678102 GATCATTGAA
Statistics
Matches: 177, Mismatches: 25, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
59 9 0.05
60 69 0.39
61 80 0.45
62 13 0.07
63 6 0.03
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (60 bp):
AAAATATTTTTTTTAAATTTTTATTTTAAAGAAAAATTGATACTTTCAACTTTTCCTTTA
Found at i:32678101 original size:121 final size:120
Alignment explanation
Indices: 32677826--32678101 Score: 312
Period size: 121 Copynumber: 2.3 Consensus size: 120
32677816 AATGTTTTTG
* * * * *
32677826 AAAATTTTTATTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCTTTTAAAAA
1 AAAATTTTTTTTTTAAAAATTTTATTTTAAAG-AAAATCGATACTTTCAACTTTTCCTTTAAAAA
**
32677891 TATTTTTCTTCAAGTTTTATTTTTAAGAAAAATTGATACTTCAAACTTTTCCTCTA
65 TATTTTTCTTCAAGTTTTATTTCAAAGAAAAATTGATACTTCAAACTTTTCCTCTA
* *
32677947 GAAATGTTTTTTTTGAAAAA-TTTATTTTAAAAGAAAATCGATACTTTCAACTTTTCCTTTAAAA
1 AAAAT-TTTTTTTTTAAAAATTTTATTTT-AAAGAAAATCGATACTTTCAACTTTTCCTTTAAAA
* *
32678011 ATATATATTT-TTTAATTTTTATGTTCAAAG-AAAATTGATACATTC-AAC-TTTCCT-TCA
64 ATAT-T-TTTCTTCAAGTTTTAT-TTCAAAGAAAAATTGATAC-TTCAAACTTTTCCTCT-A
**
32678068 AAAATTTTTTTTTTTCAAATTTTCATTTTAAAGA
1 AAAATTTTTTTTTTAAAAATTTT-ATTTTAAAGA
32678102 GATCATTGAA
Statistics
Matches: 131, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
120 12 0.09
121 64 0.49
122 44 0.34
123 11 0.08
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (120 bp):
AAAATTTTTTTTTTAAAAATTTTATTTTAAAGAAAATCGATACTTTCAACTTTTCCTTTAAAAAT
ATTTTTCTTCAAGTTTTATTTCAAAGAAAAATTGATACTTCAAACTTTTCCTCTA
Found at i:32678527 original size:25 final size:23
Alignment explanation
Indices: 32678467--32678521 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
32678457 AATTCTTCTT
32678467 TTTCCTCTCTCTCTTCCCCCTTC
1 TTTCCTCTCTCTCTTCCCCCTTC
32678490 TTTCCTCTCTCTCTTCCCCCTTC
1 TTTCCTCTCTCTCTTCCCCCTTC
*
32678513 TTTTCTCTC
1 TTTCCTCTC
32678522 CTTCTCTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTCCTCTCTCTCTTCCCCCTTC
Found at i:32680348 original size:114 final size:114
Alignment explanation
Indices: 32680213--32680479 Score: 347
Period size: 114 Copynumber: 2.3 Consensus size: 114
32680203 CTCATCCAAA
* * *
32680213 AGTTTAAAGCTTTTCATTTGAATTCAAAAAG-TTCACATTAAAAAAATCTTAGAGTTTCACATCT
1 AGTTCAAAGCTTTTCGTTTGAATT-AAAAAGATTCACATCAAAAAAATCTTAGAGTTTCACATCT
* * *
32680277 AAGTTCAAAGATACTCACTCAAAAATTTAGAGATTCGCATATAAAAGTAG
65 AAGTTCAAAGATACTCACTAAAAAATTTAGAGATTCGAATACAAAAGTAG
**** * *
32680327 AGTTCAAAGCTTTTCGTTTGAATTTTGGAGATTCACATCCAAGAAATCTTAGAGTTTCACATCTA
1 AGTTCAAAGCTTTTCGTTTGAATTAAAAAGATTCACATCAAAAAAATCTTAGAGTTTCACATCTA
* * * *
32680392 AGTTCAAAGGTTCTCACTAAAAAATTTAGAGATTCGAATCCAAAAGTTG
66 AGTTCAAAGATACTCACTAAAAAATTTAGAGATTCGAATACAAAAGTAG
***
32680441 AGTTCAAAGCTTTTCGTTTGAATTTTGAAGATTCACATC
1 AGTTCAAAGCTTTTCGTTTGAATTAAAAAGATTCACATC
32680480 CATAAGTTTA
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
113 2 0.01
114 133 0.99
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (114 bp):
AGTTCAAAGCTTTTCGTTTGAATTAAAAAGATTCACATCAAAAAAATCTTAGAGTTTCACATCTA
AGTTCAAAGATACTCACTAAAAAATTTAGAGATTCGAATACAAAAGTAG
Found at i:32680480 original size:114 final size:114
Alignment explanation
Indices: 32680256--32680481 Score: 380
Period size: 114 Copynumber: 2.0 Consensus size: 114
32680246 CACATTAAAA
* * *
32680256 AAATCTTAGAGTTTCACATCTAAGTTCAAAGATACTCACTCAAAAATTTAGAGATTCGCATATAA
1 AAATCTTAGAGTTTCACATCTAAGTTCAAAGATACTCACTAAAAAATTTAGAGATTCGAATACAA
*
32680321 AAGTAGAGTTCAAAGCTTTTCGTTTGAATTTTGGAGATTCACATCCAAG
66 AAGTAGAGTTCAAAGCTTTTCGTTTGAATTTTGAAGATTCACATCCAAG
* * *
32680370 AAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCACTAAAAAATTTAGAGATTCGAATCCAA
1 AAATCTTAGAGTTTCACATCTAAGTTCAAAGATACTCACTAAAAAATTTAGAGATTCGAATACAA
*
32680435 AAGTTGAGTTCAAAGCTTTTCGTTTGAATTTTGAAGATTCACATCCA
66 AAGTAGAGTTCAAAGCTTTTCGTTTGAATTTTGAAGATTCACATCCA
32680482 TAAGTTTAAA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (114 bp):
AAATCTTAGAGTTTCACATCTAAGTTCAAAGATACTCACTAAAAAATTTAGAGATTCGAATACAA
AAGTAGAGTTCAAAGCTTTTCGTTTGAATTTTGAAGATTCACATCCAAG
Found at i:32680670 original size:59 final size:59
Alignment explanation
Indices: 32680508--32680696 Score: 211
Period size: 58 Copynumber: 3.2 Consensus size: 59
32680498 CATTAGTTTG
* * * * * * * **
32680508 AAGATTCACA-CCTAACAAACTTTAGGGTTTCATATCTCAAATATTCTCATTTGAATTCG
1 AAGATTCACATTC-AACAAATTTTAAGGTTTCACACCTCAAAGATTCTCATTTAAATTTA
* * * *
32680567 AAGATTTACATTCAATAAATTTT-AGGTTTCACACCTCAAAGATTCTTATTTAAGTTTA
1 AAGATTCACATTCAACAAATTTTAAGGTTTCACACCTCAAAGATTCTCATTTAAATTTA
*
32680625 AAGATTCACATTCGACAAATTTTAAGGTTTCACACCTCAAAGATTCTCATTTAAAATTTA
1 AAGATTCACATTCAACAAATTTTAAGGTTTCACACCTCAAAGATTCTCATTT-AAATTTA
*
32680685 AAGATTCTCATT
1 AAGATTCACATT
32680697 TGAAATTCAA
Statistics
Matches: 108, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
58 46 0.43
59 44 0.41
60 18 0.17
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (59 bp):
AAGATTCACATTCAACAAATTTTAAGGTTTCACACCTCAAAGATTCTCATTTAAATTTA
Found at i:32680732 original size:20 final size:20
Alignment explanation
Indices: 32680661--32680759 Score: 128
Period size: 21 Copynumber: 4.8 Consensus size: 20
32680651 GTTTCACACC
*
32680661 TCAAAGATTCTCATTTAAAAT
1 TCAAAGATTCTCATTT-GAAT
*
32680682 TTAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTG-AAT
32680703 TCAAAGATTCTCATTTGAAT
1 TCAAAGATTCTCATTTGAAT
*
32680723 TCGAAA-ATTCTCATTTGATAC
1 TC-AAAGATTCTCATTTGA-AT
32680744 TCAAAGATTCTCATTT
1 TCAAAGATTCTCATTT
32680760 AAGGATTTCT
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
20 20 0.29
21 50 0.71
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.40
Consensus pattern (20 bp):
TCAAAGATTCTCATTTGAAT
Found at i:32680748 original size:41 final size:42
Alignment explanation
Indices: 32680660--32680761 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 42
32680650 GGTTTCACAC
*
32680660 CTCAAAGATTCTCATTTAAAATTTAAAGATTCTCATTTGAAA
1 CTCAAAGATTCTCATTTAAAATTGAAAGATTCTCATTTGAAA
* * *
32680702 TTCAAAGATTCTCATTT-GAATTCGAAA-ATTCTCATTTGATA
1 CTCAAAGATTCTCATTTAAAATT-GAAAGATTCTCATTTGAAA
32680743 CTCAAAGATTCTCATTTAA
1 CTCAAAGATTCTCATTTAA
32680762 GGATTTCTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 33 0.63
42 19 0.37
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (42 bp):
CTCAAAGATTCTCATTTAAAATTGAAAGATTCTCATTTGAAA
Found at i:32681946 original size:28 final size:25
Alignment explanation
Indices: 32681887--32681933 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
32681877 ATTCTCTCTC
*
32681887 TTTT-TTTTTCTTTTTTTTTCATTT
1 TTTTCTTTTTCTTGTTTTTTCATTT
**
32681911 TTCACTTTTTCTTGTTTTTTCAT
1 TTTTCTTTTTCTTGTTTTTTCAT
32681934 CCATTTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 2 0.11
25 17 0.89
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTTCTTTTTCTTGTTTTTTCATTT
Found at i:32685934 original size:59 final size:62
Alignment explanation
Indices: 32685782--32685943 Score: 199
Period size: 59 Copynumber: 2.7 Consensus size: 62
32685772 TATTTTTGTA
* * * *
32685782 CAAGAAAAATTGATACTTTCAACTTTTTCTAAAAAT-ATTTTTCTTGGTAATTTTTATTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATGCTTTTTCTTGGTAAATTTTATATTT
* * * *
32685843 TAAGAAAAATTGGTACTTTTAA-TATTTTCTCAAAATGCTTTTT-TT-TTAAATTTTA-ATTT
1 CAAGAAAAATTGATACTTTCAACT-TTTTCTCAAAATGCTTTTTCTTGGTAAATTTTATATTT
*
32685902 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGCTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATGCTTTT
32685944 GGAAATTTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
59 39 0.45
60 10 0.12
61 32 0.37
62 5 0.06
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (62 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATGCTTTTTCTTGGTAAATTTTATATTT
Found at i:32685974 original size:15 final size:15
Alignment explanation
Indices: 32685940--32685972 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
32685930 CTCAAAATGC
*
32685940 TTTTGGAAATTTTTA
1 TTTTAGAAATTTTTA
32685955 TTTTAGAAA-TTTTA
1 TTTTAGAAATTTTTA
32685969 TTTT
1 TTTT
32685973 TAAAGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTTAGAAATTTTTA
Found at i:32686097 original size:60 final size:60
Alignment explanation
Indices: 32685946--32686278 Score: 306
Period size: 60 Copynumber: 5.5 Consensus size: 60
32685936 ATGCTTTTGG
*
32685946 AAAT-TTTTATTTTAGAAATTTTATTTTTAA-AGAAAATTGATACTTTCAACTTTTC--CTAA
1 AAATATTTT-TTTTA-AAATTTTATTTTTAAGA-AAAATTGATACTTTCAACTTTTCTTTTAA
** *
32686005 AAATA-TTTTTAAAAAATTTT-TGTTGTCAAGAAAAATTGATACTTTCAACTTTTCTTTTAA
1 AAATATTTTTTTTAAAATTTTAT-TT-TTAAGAAAAATTGATACTTTCAACTTTTCTTTTAA
* * * * * * *
32686065 AAATATTTTTCTTCAAGTTTTATTTTTAAGAAAAATTGGTACTTCCAACTTTT-TCTCAA
1 AAATATTTTTTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCTTTTAA
* *
32686124 GAAATGTTTTTTTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTTTTAA
1 -AAATATTTTTTTT-AAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCTTTTAA
* * * * * **
32686186 AAATATATTTTTTT-AATTTTTATGTTT-AGAGGAAATTGATACATTCAACTTTCCTTCAAA
1 AAATAT-TTTTTTTAAAATTTTATTTTTAAGA-AAAATTGATACTTTCAACTTTTCTTTTAA
* *
32686246 AAATATTTTTTTTTCAAATTTTCATTTTAAAGA
1 AAATA-TTTTTTTTAAAATTTT-ATTTTTAAGA
32686279 GATCATTAAA
Statistics
Matches: 222, Mismatches: 35, Indels: 30
0.77 0.12 0.10
Matches are distributed among these distances:
56 1 0.00
57 9 0.04
58 29 0.13
59 15 0.07
60 90 0.41
61 59 0.27
62 16 0.07
63 3 0.01
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (60 bp):
AAATATTTTTTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCTTTTAA
Found at i:32686171 original size:121 final size:119
Alignment explanation
Indices: 32685964--32686278 Score: 358
Period size: 121 Copynumber: 2.6 Consensus size: 119
32685954 ATTTTAGAAA
* *
32685964 TTTTATTTTTAA-AGAAAATTGATACTTTCAACTTTTCCT-AAAAA-TATTTTTAAAAAATTTT-
1 TTTTATTTTTAAGAGAAAATTGATAC-TTCAACTTTTCCTCAAAAATTTTTTTTTAAAAATTTTA
32686025 TGTTGTCAAGAAAAATTGATACTTTCAACTTTTCTTTTAAAAATAT-TTTTCTTCAAG
65 T-TT-TCAAGAAAAATTGATACTTTCAACTTTTCTTTTAAAAATATATTTT-TTCAAG
* * *
32686082 TTTTATTTTTAAGA-AAAATTGGTACTTCCAACTTTTTCTCAAGAAATGTTTTTTTTGAAAATTT
1 TTTTATTTTTAAGAGAAAATTGATACTT-CAACTTTTCCTCAA-AAAT-TTTTTTTTAAAAATTT
* *
32686146 TATTTTCAAGAAAAATTGATACTTTCAACTTTTCTTTTAAAAATATATTTTTTTAAT
63 TATTTTCAAGAAAAATTGATACTTTCAACTTTTCTTTTAAAAATATATTTTTTCAAG
* * **
32686203 TTTTATGTTT-AGAGGAAATTGATACATTCAAC-TTTCCTTCAAAAAATATTTTTTTTTCAAATT
1 TTTTATTTTTAAGAGAAAATTGATAC-TTCAACTTTTCC-TC-AAAAAT-TTTTTTTTAAAAATT
*
32686266 TTCATTTTAAAGA
62 TT-ATTTTCAAGA
32686279 GATCATTAAA
Statistics
Matches: 169, Mismatches: 15, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
117 2 0.01
118 32 0.19
119 3 0.02
120 10 0.06
121 88 0.52
122 33 0.20
123 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (119 bp):
TTTTATTTTTAAGAGAAAATTGATACTTCAACTTTTCCTCAAAAATTTTTTTTTAAAAATTTTAT
TTTCAAGAAAAATTGATACTTTCAACTTTTCTTTTAAAAATATATTTTTTCAAG
Found at i:32688218 original size:12 final size:12
Alignment explanation
Indices: 32688186--32688219 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32688176 AGTGCTACTT
*
32688186 ATAATAATAATA
1 ATAATAATTATA
32688198 ATAATAATTATA
1 ATAATAATTATA
*
32688210 ATTATAATTA
1 ATAATAATTA
32688220 CAGAATGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAATAATTATA
Found at i:32689674 original size:2 final size:2
Alignment explanation
Indices: 32689667--32689694 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32689657 ATAATTATTA
32689667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32689695 TTGAACTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32690411 original size:4 final size:4
Alignment explanation
Indices: 32690402--32690426 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
32690392 TGTTATTACC
32690402 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
32690427 CAATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:32692037 original size:17 final size:18
Alignment explanation
Indices: 32692012--32692046 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
32692002 AAAGAGATTG
*
32692012 AAATTTAAATGAT-AAAA
1 AAATGTAAATGATGAAAA
32692029 AAATGTAAATGATGAAAA
1 AAATGTAAATGATGAAAA
32692047 TTAAATCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (18 bp):
AAATGTAAATGATGAAAA
Found at i:32694141 original size:60 final size:58
Alignment explanation
Indices: 32694051--32694350 Score: 370
Period size: 60 Copynumber: 4.9 Consensus size: 58
32694041 TTGTGTAGGA
32694051 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGGAAATTT-GATTTTCAAGG
* * * *
32694111 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTTTGAAAATTT-ATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-----TATTTTTTTGGAAATTTGATTTTCAAGG
32694174 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGGAAA-TTTGATTTTCAAGG
* * *
32694234 AAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTTTGAAAATTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA----TATTTTTTTGGAAATTTGATTTTCAAGG
32694296 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTT
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGGAAA-TTTGATTTT
32694351 TCTTTAAAGA
Statistics
Matches: 210, Mismatches: 13, Indels: 34
0.82 0.05 0.13
Matches are distributed among these distances:
58 24 0.11
59 8 0.04
60 70 0.33
61 2 0.01
62 39 0.19
63 40 0.19
64 12 0.06
65 15 0.07
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTGATTTTCAAGG
Found at i:32694352 original size:123 final size:123
Alignment explanation
Indices: 32694051--32694350 Score: 548
Period size: 123 Copynumber: 2.4 Consensus size: 123
32694041 TTGTGTAGGA
* *
32694051 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAAT
**
32694116 TGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTTTGAAAATTTATTTTTAAAG
66 TGATACTTTCAACTTTTCCTCAAAAATCTCCTTTTTTTTTGAAAATTTATTTTTAAAG
32694174 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAAT
*
32694239 TGATACTTTCAACTTTTCCTCAAAAAT-TCCTTTTTTTTTGAAAATTTATTTTTAAGG
66 TGATACTTTCAACTTTTCCTCAAAAATCTCCTTTTTTTTTGAAAATTTATTTTTAAAG
32694296 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTT
32694351 TCTTTAAAGA
Statistics
Matches: 172, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
122 82 0.48
123 90 0.52
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (123 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATCTCCTTTTTTTTTGAAAATTTATTTTTAAAG
Found at i:32694455 original size:46 final size:46
Alignment explanation
Indices: 32694398--32694507 Score: 116
Period size: 46 Copynumber: 2.4 Consensus size: 46
32694388 AAATAAAAAT
*
32694398 AAAAAAAATTAAAGAAAAGTAAAAC-AA-AAATAAAAATAAGATAAAG
1 AAAAAACATTAAA-AAAAGTAAAACTAATAAATAAAAATAA-ATAAAG
* * * *
32694444 AAAAAACATTAAATAAATTTAATCTAATAAATAAAAATAAATAAAG
1 AAAAAACATTAAAAAAAGTAAAACTAATAAATAAAAATAAATAAAG
* *
32694490 ATAAAACAAATAAAAAAA
1 AAAAAAC-ATTAAAAAAA
32694508 AAAACCTGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
45 7 0.13
46 26 0.49
47 20 0.38
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.18
Consensus pattern (46 bp):
AAAAAACATTAAAAAAAGTAAAACTAATAAATAAAAATAAATAAAG
Found at i:32694605 original size:10 final size:10
Alignment explanation
Indices: 32694592--32694617 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
32694582 AGCTCGGCTC
32694592 GGCTCGACTT
1 GGCTCGACTT
32694602 GGCTCGACTT
1 GGCTCGACTT
32694612 GGCTCG
1 GGCTCG
32694618 GAGGGGGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.31, G:0.35, T:0.27
Consensus pattern (10 bp):
GGCTCGACTT
Found at i:32695596 original size:16 final size:16
Alignment explanation
Indices: 32695577--32695610 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
32695567 AATACACAAT
32695577 AATAATAATAATA-ATA
1 AATAATAA-AATACATA
32695593 AATAATAAAATACATA
1 AATAATAAAATACATA
32695609 AA
1 AA
32695611 ATACAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAATAAAATACATA
Found at i:32695639 original size:9 final size:9
Alignment explanation
Indices: 32695574--32695645 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 9
32695564 ATTAATACAC
*
32695574 AATAATAAT
1 AATAATAAA
32695583 AATAATAATA
1 AATAATAA-A
32695593 AATAAT-AA
1 AATAATAAA
32695601 AATACAT-AA
1 AATA-ATAAA
*
32695610 AATACAAAAGA
1 AATA-ATAA-A
* *
32695621 AAGAAAAAA
1 AATAATAAA
32695630 AATAATAAA
1 AATAATAAA
32695639 AATAATA
1 AATAATA
32695646 CCAGATAGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
8 5 0.09
9 34 0.63
10 11 0.20
11 4 0.07
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (9 bp):
AATAATAAA
Found at i:32695816 original size:1 final size:1
Alignment explanation
Indices: 32695810--32695885 Score: 62
Period size: 1 Copynumber: 76.0 Consensus size: 1
32695800 AACATTATCA
* * * * * * * * *
32695810 TTTTTTTTGTTTTTTTGTGTTTTTTGTTTTGTTTTTTGTTCTTTTTTTTTTGTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
32695875 GTTTTTTTTTT
1 TTTTTTTTTTT
32695886 ACCAAAGCTC
Statistics
Matches: 55, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (1 bp):
T
Found at i:32695841 original size:14 final size:13
Alignment explanation
Indices: 32695810--32695885 Score: 79
Period size: 14 Copynumber: 5.8 Consensus size: 13
32695800 AACATTATCA
32695810 TTTTT-TTTGTTT-
1 TTTTTGTTT-TTTG
32695822 TTTTGTGTTTTTTG
1 TTTT-TGTTTTTTG
32695836 -TTTTGTTTTTTG
1 TTTTTGTTTTTTG
*
32695848 TTCTTTTTTTTTTG
1 TT-TTTGTTTTTTG
32695862 TTTTTGTTTTTTTG
1 TTTTTG-TTTTTTG
32695876 TTTTT-TTTTT
1 TTTTTGTTTTT
32695886 ACCAAAGCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
12 18 0.32
13 11 0.20
14 27 0.48
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:32695844 original size:21 final size:20
Alignment explanation
Indices: 32695810--32695885 Score: 95
Period size: 21 Copynumber: 3.8 Consensus size: 20
32695800 AACATTATCA
32695810 TTTT-TTTTGTTTTTTTGTGTT
1 TTTTGTTTTG-TTTTTTGT-TT
32695831 TTTTGTTTTGTTTTTTGTTCT
1 TTTTGTTTTGTTTTTTGTT-T
*
32695852 TTTTTTTTTG-TTTTTGTTT
1 TTTTGTTTTGTTTTTTGTTT
32695871 TTTTGTTTT-TTTTTT
1 TTTTGTTTTGTTTTTT
32695886 ACCAAAGCTC
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
19 14 0.28
20 9 0.18
21 22 0.44
22 5 0.10
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (20 bp):
TTTTGTTTTGTTTTTTGTTT
Found at i:32695858 original size:26 final size:27
Alignment explanation
Indices: 32695811--32695885 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 27
32695801 ACATTATCAT
*
32695811 TTTTTTTGTTTTTTTGTGTTTTTTGTTTTG
1 TTTTTTTGTTTTTTT-T-TTTTGT-TTTTG
32695841 -TTTTTTGTTCTTTTTTTTTTGTTTTTG
1 TTTTTTTGTT-TTTTTTTTTTGTTTTTG
32695868 TTTTTTTGTTTTTTTTTT
1 TTTTTTTGTTTTTTTTTT
32695886 ACCAAAGCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
27 13 0.31
28 14 0.33
29 10 0.24
30 5 0.12
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (27 bp):
TTTTTTTGTTTTTTTTTTTTGTTTTTG
Found at i:32695987 original size:41 final size:41
Alignment explanation
Indices: 32695892--32696222 Score: 513
Period size: 41 Copynumber: 8.0 Consensus size: 41
32695882 TTTTACCAAA
* * *
32695892 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
32695935 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
32695976 GCTCCTTTAAACAGAGGCACCACGATTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
32696016 GCTCCTCTAAACAGAGGTACCATGACTTTAGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
32696058 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
32696100 GCTCCTCTAAACAG-GGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
32696140 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
32696181 GCTCCTCTAAACAGAGGCACCACGACTTTGAAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
32696222 G
1 G
32696223 GTCATTGACA
Statistics
Matches: 269, Mismatches: 15, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
40 60 0.22
41 115 0.43
42 65 0.24
43 29 0.11
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:32697461 original size:33 final size:34
Alignment explanation
Indices: 32697415--32697479 Score: 107
Period size: 33 Copynumber: 1.9 Consensus size: 34
32697405 ATTTGAATCT
32697415 CTTTTTTTATTTTTT-TCATTTTCTCATTTTTCCC
1 CTTTTTTTATTTTTTCTC-TTTTCTCATTTTTCCC
32697449 CTTTTTTT-TTTTTTCTCTTTTCTCATTTTTC
1 CTTTTTTTATTTTTTCTCTTTTCTCATTTTTC
32697480 ATCCATTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 20 0.67
34 10 0.33
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (34 bp):
CTTTTTTTATTTTTTCTCTTTTCTCATTTTTCCC
Found at i:32701529 original size:60 final size:60
Alignment explanation
Indices: 32701338--32701699 Score: 446
Period size: 60 Copynumber: 6.0 Consensus size: 60
32701328 TTTTGTGTAG
* * * *
32701338 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAATTTCGATTTTGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAA
* * * * *
32701397 GAAAAATTGATACTTTCAACTTTT-CCTCAAAAATCCTTTTTTTTTTTTGAAAATTT-ATTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-----TATTTTTTTGGAAATTTTGATTTTCA
32701460 A
60 A
32701461 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAA
* *
32701521 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAA
* * * * *
32701581 GGAAATTTGATACTTTCAACTTTT-CCTCAAAAATCCCTTTTTTTTTGAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAAT---ATTTTTTTGGAAATTTTGATTTTCAA
*
32701643 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAAATTTTGATTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTT
32701700 TCTTTAAAGA
Statistics
Matches: 263, Mismatches: 25, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
58 2 0.01
59 60 0.23
60 99 0.38
62 36 0.14
63 16 0.06
64 36 0.14
65 14 0.05
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAA
Found at i:32701670 original size:182 final size:182
Alignment explanation
Indices: 32701338--32701699 Score: 627
Period size: 182 Copynumber: 2.0 Consensus size: 182
32701328 TTTTGTGTAG
*
32701338 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTTTGAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTTTCAAGAAAAA
*
32701403 TTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTTTTTTGAAAATTTATTTTTAAGGAAAAT
66 TTGATACTTTCAACTTTTCCTCAAAAATCC-TCTTTTTTTTTGAAAATTTATTTTTAAGGAAAAT
*
32701468 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAA
130 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAAATTTTGATTTTCAA
* * * *
32701521 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGAAAATTTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAATTTCGATTTTCAAGAAAA
*
32701586 TTTGATACTTTCAACTTTTCCTCAAAAATCC-CTTTTTTTTTGAAAATTTATTTTTAAGGAAAAT
65 ATTGATACTTTCAACTTTTCCTCAAAAATCCTCTTTTTTTTTGAAAATTTATTTTTAAGGAAAAT
32701650 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAAATTTTGATTTT
130 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAAATTTTGATTTT
32701700 TCTTTAAAGA
Statistics
Matches: 170, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
182 81 0.48
183 33 0.19
184 56 0.33
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (182 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTTTCAAGAAAAA
TTGATACTTTCAACTTTTCCTCAAAAATCCTCTTTTTTTTTGAAAATTTATTTTTAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAAATTTTGATTTTCAA
Found at i:32701736 original size:182 final size:180
Alignment explanation
Indices: 32701366--32701737 Score: 491
Period size: 182 Copynumber: 2.0 Consensus size: 180
32701356 ACTTTTCCCC
*
32701366 AAAAATATTTTTTGAAAATTTCGATTTTGAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 AAAAATATTTTTTGAAAATTTCGATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
*
32701431 CCTTTTTTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA
66 CC-TCTTTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA
* * ** * *****
32701496 TTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTTCCT
130 TTTTTTTAGAAATTTTGATTTTCAAAGAAAATAAATAC-ATCAAC-AAAAACT
* * *
32701549 AAAAATATTTTTTTGAAAATTTTGATTTTCAAGGAAATTTGATACTTTCAACTTTTCCTCAAAAA
1 AAAAATA-TTTTTTGAAAATTTCGATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA
32701614 TCC-CTTTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA
65 TCCTCTTTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA
*
32701678 TTTTTTTAGAAATTTTGATTTTTCTTTAAAGAAAATAAAATA-AT-AA-AAAAAGT
130 TTTTTTTAGAAATTTTGA-TTTTC---AAAGAAAAT-AAATACATCAACAAAAACT
32701731 AAAAATA
1 AAAAATA
32701738 AATAAAAATA
Statistics
Matches: 167, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
182 85 0.51
183 12 0.07
184 58 0.35
185 1 0.01
186 8 0.05
187 3 0.02
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (180 bp):
AAAAATATTTTTTGAAAATTTCGATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
CCTCTTTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
TTTTTTAGAAATTTTGATTTTCAAAGAAAATAAATACATCAACAAAAACT
Found at i:32701743 original size:19 final size:19
Alignment explanation
Indices: 32701714--32701781 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 19
32701704 TAAAGAAAAT
32701714 AAAAT-AATAAAAAAAGTA
1 AAAATAAATAAAAAAAGTA
32701732 AAAATAAAT--AAAAA-TA
1 AAAATAAATAAAAAAAGTA
*
32701748 AAAA-AATTAAAGAAAAGTA
1 AAAATAAATAAA-AAAAGTA
*
32701767 AAACAAAAATAAAAA
1 AAA-ATAAATAAAAA
32701782 TAAGATAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
15 3 0.07
16 6 0.15
17 6 0.15
18 9 0.22
19 8 0.20
20 3 0.07
21 6 0.15
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (19 bp):
AAAATAAATAAAAAAAGTA
Found at i:32701777 original size:36 final size:33
Alignment explanation
Indices: 32701709--32701784 Score: 107
Period size: 36 Copynumber: 2.2 Consensus size: 33
32701699 TTCTTTAAAG
* *
32701709 AAAATAAAATAATAAAAAAAGTAAAAATAAATA
1 AAAATAAAAAAATAAAAAAAGTAAAAAAAAATA
32701742 AAAATAAAAAAATTAAAGAAAAGTAAAACAAAAATA
1 AAAATAAAAAAA-TAAA-AAAAGTAAAA-AAAAATA
32701778 AAAATAA
1 AAAATAA
32701785 GATAAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 11 0.29
34 4 0.11
35 10 0.26
36 13 0.34
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (33 bp):
AAAATAAAAAAATAAAAAAAGTAAAAAAAAATA
Found at i:32701790 original size:22 final size:23
Alignment explanation
Indices: 32701709--32701797 Score: 55
Period size: 22 Copynumber: 3.9 Consensus size: 23
32701699 TTCTTTAAAG
*
32701709 AAAATAAAATAATA-AAAAAAGTA
1 AAAATAAGATAA-AGAAAAAAGTA
* *
32701732 AAAATAA-ATAAAAATAAAAAAATTA
1 AAAATAAGAT--AAA-GAAAAAAGTA
32701757 AAGAA-AAG-TAAA-ACAAAAA-TA
1 AA-AATAAGATAAAGA-AAAAAGTA
32701778 AAAATAAGATAAAGAAAAAA
1 AAAATAAGATAAAGAAAAAA
32701798 TATTAAATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 21
0.71 0.01 0.27
Matches are distributed among these distances:
20 2 0.04
21 8 0.15
22 16 0.29
23 12 0.22
24 2 0.04
25 13 0.24
26 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.15
Consensus pattern (23 bp):
AAAATAAGATAAAGAAAAAAGTA
Done.