Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 50
Found at i:5868052 original size:23 final size:24
Alignment explanation
Indices: 5868018--5868067 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
5868008 ATGTGAAGGA
5868018 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
5868042 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
5868065 AAA
1 AAA
5868068 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:5869072 original size:35 final size:36
Alignment explanation
Indices: 5869010--5869078 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
5869000 TAAGACCCTA
*
5869010 AAATATTAAAATTAAAATAATTAATAAA-CAATTTG
1 AAATATTAAAATTAAAATAAATAATAAAGCAATTTG
* *
5869045 AAATATTGAGATTAAAATAAA-ATATAAAGCAATT
1 AAATATTAAAATTAAAATAAATA-ATAAAGCAATT
5869079 ATATCATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 1 0.03
35 23 0.79
36 5 0.17
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (36 bp):
AAATATTAAAATTAAAATAAATAATAAAGCAATTTG
Found at i:5869623 original size:3 final size:3
Alignment explanation
Indices: 5869615--5869642 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5869605 TACTTTGGAC
5869615 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
5869643 ACACAATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5871312 original size:102 final size:99
Alignment explanation
Indices: 5871136--5871363 Score: 348
Period size: 102 Copynumber: 2.3 Consensus size: 99
5871126 ATAAACAACG
*
5871136 AACAGTAGCAACAAATTAAACAGTTTATTTAAACTGTAAATAAAGACAGCTAACAACCTTATAAA
1 AACAGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAGCTAACAACCTTATAAA
5871201 AACAATCCGAATGAACAACCAACAACACAAACAAATC
66 AACAATCCGAATGAA-AA--AACAACACAAACAAATC
* * * *
5871238 AACAGTAGCAACAAATTGAACAGTTTATTTAAACTCTAAATAAAGGCATCTAACAACCTTATAGA
1 AACAGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAGCTAACAACCTTATAAA
** *
5871303 AGTAATCCGAATGAAAAACCAACACAAACAAATC
66 AACAATCCGAATGAAAAAACAACACAAACAAATC
*
5871337 AACAGTAGCAACAAATTAAACATTTTA
1 AACAGTAGCAACAAATTAAACAGTTTA
5871364 GTTACCTCTT
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 41 0.35
101 2 0.02
102 73 0.63
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.21
Consensus pattern (99 bp):
AACAGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAGCTAACAACCTTATAAA
AACAATCCGAATGAAAAAACAACACAAACAAATC
Found at i:5871603 original size:32 final size:33
Alignment explanation
Indices: 5871552--5871637 Score: 147
Period size: 33 Copynumber: 2.6 Consensus size: 33
5871542 AGGATTCAAA
*
5871552 TATCAACCAAAAAACAGAGAAAAAA-GATTCGAT
1 TATCAACC-AAAAATAGAGAAAAAACGATTCGAT
5871585 TATCAACCAAAAATAGAGAAAAAACGATTCGAT
1 TATCAACCAAAAATAGAGAAAAAACGATTCGAT
5871618 TATCAACCAAAAATAGAGAA
1 TATCAACCAAAAATAGAGAA
5871638 TTTGAGAGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 15 0.29
33 36 0.71
ACGTcount: A:0.57, C:0.15, G:0.12, T:0.16
Consensus pattern (33 bp):
TATCAACCAAAAATAGAGAAAAAACGATTCGAT
Found at i:5871687 original size:22 final size:22
Alignment explanation
Indices: 5871661--5871709 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
5871651 GAGAGCTAGT
5871661 GAGATCAAAATGAGAGAAATGA
1 GAGATCAAAATGAGAGAAATGA
*
5871683 GAGATCAAAATGAGATAAATGA
1 GAGATCAAAATGAGAGAAATGA
5871705 GAGAT
1 GAGAT
5871710 AACCAGTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.53, C:0.04, G:0.27, T:0.16
Consensus pattern (22 bp):
GAGATCAAAATGAGAGAAATGA
Found at i:5872660 original size:20 final size:20
Alignment explanation
Indices: 5872508--5872876 Score: 469
Period size: 20 Copynumber: 18.4 Consensus size: 20
5872498 GATTTTCCAT
* ** *
5872508 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
5872528 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
5872548 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5872568 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5872588 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5872608 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5872628 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5872648 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5872668 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
5872688 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5872708 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5872728 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5872748 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
5872768 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5872788 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
5872808 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
5872828 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
5872848 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
5872868 AATCACAAC
1 AATCGCAAC
5872877 ACTTAAATTT
Statistics
Matches: 309, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
19 4 0.01
20 301 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:5873599 original size:24 final size:24
Alignment explanation
Indices: 5873560--5873606 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5873550 AAATTTGGTC
5873560 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
5873584 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
5873607 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:5873798 original size:12 final size:12
Alignment explanation
Indices: 5873781--5873805 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5873771 ATATAATCCT
5873781 GAAGAAGAAAAA
1 GAAGAAGAAAAA
5873793 GAAGAAGAAAAA
1 GAAGAAGAAAAA
5873805 G
1 G
5873806 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:5876109 original size:19 final size:19
Alignment explanation
Indices: 5876087--5876431 Score: 452
Period size: 19 Copynumber: 19.4 Consensus size: 19
5876077 CGGAAAATAC
*
5876087 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5876106 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
5876120 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
5876140 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
5876154 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5876173 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5876192 AATCGCAA--CGACAT---
1 AATCGCAATGCGAAATGAA
*
5876206 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
5876225 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5876244 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5876263 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5876282 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5876301 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5876320 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
5876334 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5876353 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5876372 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
5876386 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5876405 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5876424 AATCGCAA
1 AATCGCAA
5876432 CGAGATAATC
Statistics
Matches: 291, Mismatches: 9, Indels: 52
0.83 0.03 0.15
Matches are distributed among these distances:
14 48 0.16
15 2 0.01
16 16 0.05
17 15 0.05
18 3 0.01
19 194 0.67
20 13 0.04
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:5876174 original size:33 final size:34
Alignment explanation
Indices: 5876087--5876453 Score: 332
Period size: 33 Copynumber: 10.5 Consensus size: 34
5876077 CGGAAAATAC
* *
5876087 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
5876120 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
5876154 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
5876192 AATCGCAA--CGACAT---AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
5876225 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
5876263 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
5876301 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
5876333 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
5876372 AATCGCAA--CG--A-GATAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
5876405 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
5876438 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
5876454 TATAAACGCA
Statistics
Matches: 299, Mismatches: 11, Indels: 48
0.84 0.03 0.13
Matches are distributed among these distances:
32 2 0.01
33 126 0.42
34 32 0.11
35 12 0.04
36 11 0.04
37 3 0.01
38 111 0.37
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:5876469 original size:52 final size:52
Alignment explanation
Indices: 5876087--5876453 Score: 419
Period size: 52 Copynumber: 6.9 Consensus size: 52
5876077 CGGAAAATAC
* * *
5876087 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GATAATCGCAATGC-GAAATGAA
* * * * *
5876140 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
1 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGATAATCGCAATGCGAAATGAA
* *
5876192 AATCGCAA--CGACAT---AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAGA-T--AATCGCAATGCGAAATGAA
*
5876244 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GATAATCGCAATGCGAAATGAA
* *
5876301 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAA
5876353 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAA
5876405 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
5876454 TATAAACGCA
Statistics
Matches: 279, Mismatches: 16, Indels: 39
0.84 0.05 0.12
Matches are distributed among these distances:
45 4 0.01
46 3 0.01
47 2 0.01
48 1 0.00
49 2 0.01
50 2 0.01
52 162 0.58
53 24 0.09
54 12 0.04
55 6 0.02
56 1 0.00
57 58 0.21
59 1 0.00
60 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAA
Found at i:5876469 original size:71 final size:72
Alignment explanation
Indices: 5876087--5876453 Score: 400
Period size: 71 Copynumber: 5.2 Consensus size: 72
5876077 CGGAAAATAC
* *
5876087 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
*
5876147 A-CGAGAG
65 AGCGAGAA
*
5876154 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGACAT---AATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
*
5876214 TGCGAAATTAA
66 -GCG--A-GAA
5876225 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
5876290 TGCGAAATGAA
66 -GCG--A-GAA
5876301 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
5876361 TGCGAAATGAA
66 -GCG--A-GAA
*
5876372 AATCGCAA--CG--A-GATAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
*
5876432 -CGAGAT
66 GCGAGAA
5876438 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
5876454 TATAAACGCA
Statistics
Matches: 266, Mismatches: 9, Indels: 46
0.83 0.03 0.14
Matches are distributed among these distances:
66 28 0.11
67 27 0.10
68 9 0.03
69 10 0.04
70 3 0.01
71 120 0.45
72 13 0.05
73 6 0.02
74 5 0.02
76 45 0.17
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
GCGAGAA
Found at i:5876568 original size:19 final size:19
Alignment explanation
Indices: 5876460--5876560 Score: 133
Period size: 20 Copynumber: 5.6 Consensus size: 19
5876450 AAATTATAAA
5876460 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
5876479 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
5876499 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
*
5876515 CG--TTGCAATTTTCATTT
1 CGCATTGCGATTTTCATTT
5876532 CGCATTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
5876550 CGCATTGCGAT
1 CGCATTGCGAT
5876561 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
14 5 0.07
16 7 0.10
17 7 0.10
18 18 0.25
19 15 0.21
20 19 0.27
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:5876686 original size:14 final size:14
Alignment explanation
Indices: 5876667--5876703 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5876657 CATCAATTAC
5876667 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
5876681 ACAAATCATCTTTT
1 ACAAATCAACTTTT
5876695 ACAAATCAA
1 ACAAATCAA
5876704 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:5878682 original size:14 final size:14
Alignment explanation
Indices: 5878663--5878719 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
5878653 GCGAAATGAA
*
5878663 AATCGCAACGACAG
1 AATCGCAACGAAAG
5878677 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
5878694 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
5878710 AATCGCAACG
1 AATCGCAACG
5878720 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:5878690 original size:33 final size:33
Alignment explanation
Indices: 5878644--5878736 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
5878634 GCGAAACCAA
*
5878644 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
5878677 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
5878710 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
5878737 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:5878701 original size:19 final size:19
Alignment explanation
Indices: 5878607--5878741 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
5878597 TAGTTTACTT
* *
5878607 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
5878627 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
5878646 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
5878665 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
5878679 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
5878698 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
5878712 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
5878731 TCGCAATGCGA
1 TCGCAACGCGA
5878742 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:5878759 original size:19 final size:19
Alignment explanation
Indices: 5878737--5878865 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
5878727 AAAATCGCAA
5878737 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
5878756 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
5878770 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
5878789 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
5878803 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
5878822 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
5878841 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
5878861 TGCGA
1 TGCGA
5878866 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:5878779 original size:33 final size:33
Alignment explanation
Indices: 5878737--5878828 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
5878727 AAAATCGCAA
5878737 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
5878770 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
5878803 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
5878829 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:5879200 original size:93 final size:93
Alignment explanation
Indices: 5878909--5879380 Score: 912
Period size: 93 Copynumber: 5.1 Consensus size: 93
5878899 TTGAATGGAT
5878909 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5878974 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5879002 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5879066 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5879094 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5879159 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
5879187 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5879251 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5879279 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
5879344 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5879372 AAATTTACT
1 AAATTTACT
5879381 AAGCAATCTA
Statistics
Matches: 374, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
92 183 0.49
93 191 0.51
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:5879221 original size:185 final size:185
Alignment explanation
Indices: 5878909--5879380 Score: 926
Period size: 185 Copynumber: 2.6 Consensus size: 185
5878899 TTGAATGGAT
5878909 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5878974 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
5879039 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
5879094 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5879159 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
5879224 TATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
5879279 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
5879344 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
5879381 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 285 1.00
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:5881104 original size:14 final size:14
Alignment explanation
Indices: 5881085--5881174 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
5881075 TTGAAATGAA
5881085 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5881099 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
5881116 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
5881132 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
5881151 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5881165 AATCGCAACG
1 AATCGCAACG
5881175 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:5881122 original size:33 final size:33
Alignment explanation
Indices: 5881077--5881191 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
5881067 TCTTTTGGTT
5881077 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
5881110 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5881143 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5881176 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
5881192 TGCGATTTGG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:5881123 original size:19 final size:18
Alignment explanation
Indices: 5881084--5881196 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
5881074 GTTGAAATGA
5881084 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
5881099 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
5881116 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
5881132 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
5881149 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
5881165 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
5881182 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
5881197 TTTGGTTTCG
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:5881226 original size:14 final size:14
Alignment explanation
Indices: 5881207--5881261 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
5881197 TTTGGTTTCG
5881207 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5881221 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
5881240 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
5881254 CGTTGCGA
1 CGTTGCGA
5881262 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5881269 original size:33 final size:33
Alignment explanation
Indices: 5881202--5881283 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
5881192 TGCGATTTGG
***
5881202 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
5881235 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
5881268 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
5881284 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:5881288 original size:20 final size:20
Alignment explanation
Indices: 5881214--5881302 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
5881204 TCGCGTTGCG
5881214 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
5881234 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
5881247 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
5881267 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
5881287 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
5881303 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:5881424 original size:33 final size:33
Alignment explanation
Indices: 5881382--5881452 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
5881372 AATACTAACT
*
5881382 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
5881415 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
5881448 TGAAA
1 TGAAA
5881453 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:5881686 original size:22 final size:22
Alignment explanation
Indices: 5881634--5881688 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
5881624 TGGTTGTGAG
**
5881634 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
5881656 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
5881678 GGATTTCTTCG
1 GGATTTCTTCG
5881689 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:5881859 original size:20 final size:20
Alignment explanation
Indices: 5881834--5882026 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
5881824 CTTTAAATAT
5881834 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5881854 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
5881876 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5881895 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
5881915 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
5881935 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5881955 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5881975 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
5881995 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
5882015 CGCGTTGCGATT
1 CGCGTTGCGATT
5882027 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:5882021 original size:60 final size:60
Alignment explanation
Indices: 5881834--5882026 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
5881824 CTTTAAATAT
**
5881834 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
5881895 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
5881955 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
5882015 CGCGTTGCGATT
1 CGCGTTGCGATT
5882027 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:5882107 original size:20 final size:20
Alignment explanation
Indices: 5882082--5882133 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
5882072 AAGAATCGCG
*
5882082 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
5882102 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
5882122 TTGCGATTCTGG
1 TTGCGATTCTGG
5882134 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:5883416 original size:20 final size:21
Alignment explanation
Indices: 5883391--5883439 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
5883381 GTAAGGGTTA
5883391 AGGTTTAGGATT-TAAAGTTT
1 AGGTTTAGGATTATAAAGTTT
*
5883411 AGGTTTA-GATTATCAAGTTT
1 AGGTTTAGGATTATAAAGTTT
5883431 AGGGTTTAG
1 A-GGTTTAG
5883440 AGTTTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 15 0.60
21 6 0.24
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.43
Consensus pattern (21 bp):
AGGTTTAGGATTATAAAGTTT
Found at i:5883595 original size:18 final size:18
Alignment explanation
Indices: 5883572--5883642 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
5883562 GTACTATAAG
5883572 TTACATATATAGTTTACA
1 TTACATATATAGTTTACA
* * *
5883590 TTACATGTATACATATACTATAA
1 TTACATATATA-GT-T--TA-CA
5883613 GTTACATATATAGTTTACA
1 -TTACATATATAGTTTACA
*
5883632 TTACATGTATA
1 TTACATATATA
5883643 CACATACTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
18 20 0.50
19 2 0.05
20 3 0.08
22 3 0.08
23 2 0.05
24 10 0.25
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATATATAGTTTACA
Found at i:5883602 original size:42 final size:42
Alignment explanation
Indices: 5883556--5883665 Score: 202
Period size: 42 Copynumber: 2.6 Consensus size: 42
5883546 TAGTTTATAC
*
5883556 ATACATGTACTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
5883598 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
*
5883640 ATACACATACTATAAGTTACATATAT
1 ATACATATACTATAAGTTACATATAT
5883666 TAACTATTGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (42 bp):
ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
Found at i:5883617 original size:24 final size:24
Alignment explanation
Indices: 5883590--5883661 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
5883580 ATAGTTTACA
5883590 TTACATGTATACATATACTATAAG
1 TTACATGTATACATATACTATAAG
* * *
5883614 TTACATATATA-GT-T--TA-CA-
1 TTACATGTATACATATACTATAAG
*
5883632 TTACATGTATACACATACTATAAG
1 TTACATGTATACATATACTATAAG
5883656 TTACAT
1 TTACAT
5883662 ATATTAACTA
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
18 10 0.29
19 1 0.03
20 3 0.09
22 3 0.09
23 2 0.06
24 16 0.46
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (24 bp):
TTACATGTATACATATACTATAAG
Found at i:5884028 original size:14 final size:16
Alignment explanation
Indices: 5883994--5884023 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5883984 TATAGTTTAT
5883994 ATATATATATATATTA
1 ATATATATATATATTA
5884010 ATATATATA-ATATT
1 ATATATATATATATT
5884024 TTATAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATATATATATTA
Found at i:5884036 original size:72 final size:73
Alignment explanation
Indices: 5883922--5884070 Score: 194
Period size: 72 Copynumber: 2.0 Consensus size: 73
5883912 TTATGCATAC
*
5883922 ATATATATACTATTTAATATAAATTATAACATATAAACTATATAGTTTATATAGTTTATAC-ATA
1 ATATATATACTATTTAATATAAATAATAACATATAAACTATATAGTTTATATAGTTTATACAATA
5883986 TAGTTTAT
66 TAGTTTAT
* *** * * *
5883994 ATATATATA-TATATTAATATATATAATATTTTATAAACTATATATTTTTTGTAGTTTATACATA
1 ATATATATACTAT-TTAATATAAATAATAACATATAAACTATATAGTTTATATAGTTTATACA-A
5884058 TATAGTTTAT
64 TATAGTTTAT
5884068 ATA
1 ATA
5884071 CATAGTTTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
71 3 0.05
72 49 0.74
74 14 0.21
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (73 bp):
ATATATATACTATTTAATATAAATAATAACATATAAACTATATAGTTTATATAGTTTATACAATA
TAGTTTAT
Found at i:5884144 original size:16 final size:17
Alignment explanation
Indices: 5884105--5884154 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
5884095 AACATAATTT
*
5884105 ATATATAGCTTATAATA
1 ATATATAGTTTATAATA
5884122 ATTATATAGTTTATAATA
1 A-TATATAGTTTATAATA
5884140 A-ATATAGTTTATAAT
1 ATATATAGTTTATAAT
5884155 TTTATATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 14 0.45
17 1 0.03
18 16 0.52
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (17 bp):
ATATATAGTTTATAATA
Found at i:5884201 original size:94 final size:95
Alignment explanation
Indices: 5884063--5884237 Score: 284
Period size: 96 Copynumber: 1.9 Consensus size: 95
5884053 ACATATATAG
*
5884063 TTTATATACATAGTTTATATATAGTTCACATAAACATAA-TT-TATATATAGCTTATAATAATTA
1 TTTATATACATAGTTTATATATAGTGCACATAAACATAATTTATATATATAGCTTATAATAATTA
5884126 TATAGTTTATA-ATAAATATAGTTTATAAT
66 TATAGTTTATATATAAATATAGTTTATAAT
* *
5884155 TTTATATACATAGCTTATATATATAGTGCACATAAATATAATTTATATATATAGTTTATAATAAT
1 TTTATATACATAG-TT-TATATATAGTGCACATAAACATAATTTATATATATAGCTTATAATAAT
5884220 TATATAGTTTATATATAA
64 TATATAGTTTATATATAA
5884238 TTTTATATTA
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
92 13 0.17
93 2 0.03
94 22 0.29
95 2 0.03
96 32 0.43
97 4 0.05
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (95 bp):
TTTATATACATAGTTTATATATAGTGCACATAAACATAATTTATATATATAGCTTATAATAATTA
TATAGTTTATATATAAATATAGTTTATAAT
Found at i:5884212 original size:13 final size:13
Alignment explanation
Indices: 5883969--5884251 Score: 73
Period size: 13 Copynumber: 21.5 Consensus size: 13
5883959 CTATATAGTT
5883969 TATATAGTTTATA
1 TATATAGTTTATA
*
5883982 CATATAGTTTATA
1 TATATAGTTTATA
5883995 TATATA---TATA
1 TATATAGTTTATA
* *
5884005 TAT-TAATATATA
1 TATATAGTTTATA
*
5884017 TA-ATATTTTATAAA
1 TATATAGTTTAT--A
5884031 CTATATA-TTT-T-
1 -TATATAGTTTATA
*
5884042 T-TGTAGTTTATACA
1 TATATAGTTTAT--A
5884056 TATATAGTTTATA
1 TATATAGTTTATA
*
5884069 TACATAG-TT-TA
1 TATATAGTTTATA
*
5884080 TATATAGTTCACATA
1 TATATAGTT--TATA
* * *
5884095 AACATA-ATT-TA
1 TATATAGTTTATA
5884106 TATATAGCTTATAATAA
1 TATATAG-TT-T-AT-A
5884123 TTATATAGTTTATAA
1 -TATATAGTTTAT-A
5884138 TAAATATAG-TT-TA
1 T--ATATAGTTTATA
5884151 TA-AT--TTTATA
1 TATATAGTTTATA
* *
5884161 TACATAGCTTATA
1 TATATAGTTTATA
**
5884174 TATATAGTGCACATA
1 TATATAGT--TTATA
* *
5884189 AATATAATTTATA
1 TATATAGTTTATA
5884202 TATATAGTTTATAATAA
1 TATATAG-TT-T-AT-A
5884219 TTATATAGTTTATA
1 -TATATAGTTTATA
*
5884233 TATA-ATTTTATA
1 TATATAGTTTATA
5884245 TTATATA
1 -TATATA
5884252 TATATATTAT
Statistics
Matches: 201, Mismatches: 28, Indels: 81
0.65 0.09 0.26
Matches are distributed among these distances:
9 7 0.03
10 17 0.08
11 18 0.09
12 22 0.11
13 54 0.27
14 11 0.05
15 38 0.19
16 14 0.07
17 6 0.03
18 14 0.07
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.48
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:5884225 original size:18 final size:19
Alignment explanation
Indices: 5884202--5884263 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
5884192 ATAATTTATA
5884202 TATATAGTTTATA-ATAAT
1 TATATAGTTTATATATAAT
5884220 TATATAGTTTATATATAAT
1 TATATAGTTTATATATAAT
*
5884239 TTTATA-TTATATATATATAT
1 TATATAGTT-TATATATA-AT
5884259 TATAT
1 TATAT
5884264 TTTTTTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.38
19 18 0.46
20 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TATATAGTTTATATATAAT
Found at i:5884257 original size:13 final size:13
Alignment explanation
Indices: 5884190--5884263 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
5884180 GTGCACATAA
5884190 ATATA-ATT-TAT
1 ATATATATTATAT
5884201 ATATATAGTT-TAT
1 ATATATA-TTATAT
5884214 A-ATA-ATTATAT
1 ATATATATTATAT
*
5884225 AGTTTATA-TATA-
1 A-TATATATTATAT
*
5884237 ATTTTATATTATAT
1 A-TATATATTATAT
5884251 ATATATATTATAT
1 ATATATATTATAT
5884264 TTTTTTCATT
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
10 2 0.04
11 10 0.19
12 11 0.21
13 27 0.52
14 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
ATATATATTATAT
Found at i:5884262 original size:26 final size:26
Alignment explanation
Indices: 5884198--5884267 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
5884188 AAATATAATT
*
5884198 TATATATATAGTTTATAATAATTATATAG
1 TATATATATAATTT-T-AT-ATTATATAG
*
5884227 TTTATATATAATTTTATATTATATA-
1 TATATATATAATTTTATATTATATAG
*
5884252 TATATATTATATTTTT
1 TATATA-TATAATTTT
5884268 TTCATTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 5 0.14
26 16 0.44
27 2 0.06
28 1 0.03
29 12 0.33
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (26 bp):
TATATATATAATTTTATATTATATAG
Found at i:5886440 original size:12 final size:12
Alignment explanation
Indices: 5886423--5886450 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5886413 ATTATTTAAT
5886423 ATAAATAATAAA
1 ATAAATAATAAA
5886435 ATAAATAATAAA
1 ATAAATAATAAA
5886447 ATAA
1 ATAA
5886451 TAAAAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
ATAAATAATAAA
Found at i:5887976 original size:21 final size:21
Alignment explanation
Indices: 5887952--5887991 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5887942 TTAATAACTC
*
5887952 TGTCTTTATGATATATTTTTT
1 TGTCTTTATGACATATTTTTT
5887973 TGTCTTTATGACATATTTT
1 TGTCTTTATGACATATTTT
5887992 CCTTTATCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.62
Consensus pattern (21 bp):
TGTCTTTATGACATATTTTTT
Found at i:5888427 original size:24 final size:23
Alignment explanation
Indices: 5888382--5888428 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
5888372 ATTTTGGATA
* * *
5888382 TTTTTTTTAAATAAAATTAATAG
1 TTTTTTTAAAAAAAAATAAATAG
5888405 TTTTTTTAAAAAAAAAGTAAATAG
1 TTTTTTTAAAAAAAAA-TAAATAG
5888429 ATAGAAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
TTTTTTTAAAAAAAAATAAATAG
Found at i:5893061 original size:6 final size:6
Alignment explanation
Indices: 5893050--5893074 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5893040 AAATATATTA
5893050 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
5893075 TATAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:5899784 original size:21 final size:22
Alignment explanation
Indices: 5899759--5899799 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5899749 CTTTTATAAA
5899759 AATAAAATTATA-AATATTTCT
1 AATAAAATTATATAATATTTCT
**
5899780 AATAATTTTATATAATATTT
1 AATAAAATTATATAATATTT
5899800 AATTTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATAAAATTATATAATATTTCT
Found at i:5904699 original size:23 final size:23
Alignment explanation
Indices: 5904673--5904776 Score: 100
Period size: 23 Copynumber: 4.5 Consensus size: 23
5904663 GCCAACTATA
* *
5904673 TCTATGTGGTCCTTCGGGATATT
1 TCTACGTGGTCCTTCGGGATAAT
* *
5904696 TCTACATGGTCCTTCGGGAAAAAT
1 TCTACGTGGTCCTTCGGG-ATAAT
* * *
5904720 TCTACGCGGTCCTTCGGGACAAA
1 TCTACGTGGTCCTTCGGGATAAT
* * *
5904743 ACTATGTGGTCCTTCGGGATATT
1 TCTACGTGGTCCTTCGGGATAAT
*
5904766 TCTACATGGTC
1 TCTACGTGGTC
5904777 ATTCAGAACA
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
23 44 0.70
24 19 0.30
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (23 bp):
TCTACGTGGTCCTTCGGGATAAT
Found at i:5904828 original size:70 final size:70
Alignment explanation
Indices: 5904672--5904821 Score: 239
Period size: 70 Copynumber: 2.1 Consensus size: 70
5904662 TGCCAACTAT
* * * *
5904672 ATCTATGTGGTCCTTCGGGATATTTCTACATGGTCCTTCGGGAAAAATTCTACGCGGTCCTTCGG
1 ATCTATGTGGTCCTTCGGGATATTTCTACATGGTCATTCGAGAAAAATTATAAGCGGTCCTTCGG
5904737 GACAA
66 GACAA
*
5904742 AACTATGTGGTCCTTCGGGATATTTCTACATGGTCATTC-AGAACAAATTATAAGCGGTCCTTCG
1 ATCTATGTGGTCCTTCGGGATATTTCTACATGGTCATTCGAGAA-AAATTATAAGCGGTCCTTCG
5904806 GGACAA
65 GGACAA
5904812 ATCTATGTGG
1 ATCTATGTGG
5904822 CTCTTCGATG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
69 3 0.04
70 70 0.96
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (70 bp):
ATCTATGTGGTCCTTCGGGATATTTCTACATGGTCATTCGAGAAAAATTATAAGCGGTCCTTCGG
GACAA
Found at i:5906840 original size:2 final size:2
Alignment explanation
Indices: 5906833--5906876 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
5906823 ATTGCTATGA
5906833 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
5906875 AT
1 AT
5906877 TATGTGAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5907268 original size:23 final size:23
Alignment explanation
Indices: 5907238--5907337 Score: 114
Period size: 23 Copynumber: 4.3 Consensus size: 23
5907228 TTCTACGCGA
*
5907238 TCCTTCGGGACAAAACTATGTGG
1 TCCTTCGGGACAAATCTATGTGG
* **
5907261 TCCTTCGGGATATTTCTATGTGG
1 TCCTTCGGGACAAATCTATGTGG
* *
5907284 TCCTTCGGGACAAATTCTACGCGG
1 TCCTTCGGGACAAA-TCTATGTGG
5907308 TCCTTCGGGA-AAATCTATGTGG
1 TCCTTCGGGACAAATCTATGTGG
5907330 -CACTTCGG
1 TC-CTTCGG
5907338 TGCATATTCT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
21 1 0.02
22 13 0.20
23 33 0.52
24 17 0.27
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (23 bp):
TCCTTCGGGACAAATCTATGTGG
Found at i:5907325 original size:46 final size:47
Alignment explanation
Indices: 5907238--5907350 Score: 126
Period size: 46 Copynumber: 2.4 Consensus size: 47
5907228 TTCTACGCGA
* * * **
5907238 TCCTTCGGGACAAA-ACTATGTGGTCCTTCGGGATATTTCTATGTGG
1 TCCTTCGGGACAAATTCTACGCGGTCCTTCGGGATAAATCTATGTGG
5907284 TCCTTCGGGACAAATTCTACGCGGTCCTTCGGGA-AAATCTATGTGG
1 TCCTTCGGGACAAATTCTACGCGGTCCTTCGGGATAAATCTATGTGG
*
5907330 -CACTTCGGTG-CATATTCTACG
1 TC-CTTCGG-GACAAATTCTACG
5907351 TGGCACTTTG
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
45 1 0.02
46 40 0.69
47 17 0.29
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (47 bp):
TCCTTCGGGACAAATTCTACGCGGTCCTTCGGGATAAATCTATGTGG
Found at i:5909207 original size:13 final size:13
Alignment explanation
Indices: 5909191--5909215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5909181 ATGTTATAAA
5909191 AAATTAAATTATC
1 AAATTAAATTATC
5909204 AAATTAAATTAT
1 AAATTAAATTAT
5909216 AGATATTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAAATTATC
Found at i:5909614 original size:87 final size:87
Alignment explanation
Indices: 5909468--5909641 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 87
5909458 TATAGGGTTT
5909468 AGGGTTCCTTGGAACAAAGCTAAAGGTTCTCCTTTCACCTTTGCTAACAACAAAATACAAATAAG
1 AGGGTTCCTTGGAACAAAGCTAAAGGTTCTCCTTTCACCTTTGCTAACAACAAAATACAAATAAG
*
5909533 TGACGTTAATGACCTACAAATA
66 TGACATTAATGACCTACAAATA
5909555 AGGGTTCCTTGGAACAAAGCTAAAGGTTCTCCTTTCACCTTTGCTAACAACAAAATACAAATAAG
1 AGGGTTCCTTGGAACAAAGCTAAAGGTTCTCCTTTCACCTTTGCTAACAACAAAATACAAATAAG
*
5909620 TGGCATTAATGACCTACAAATA
66 TGACATTAATGACCTACAAATA
5909642 TGTGGCTGCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (87 bp):
AGGGTTCCTTGGAACAAAGCTAAAGGTTCTCCTTTCACCTTTGCTAACAACAAAATACAAATAAG
TGACATTAATGACCTACAAATA
Found at i:5910748 original size:16 final size:16
Alignment explanation
Indices: 5910729--5910764 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
5910719 TAATAAAAAT
5910729 TATATTTTTTAAACTC
1 TATATTTTTTAAACTC
*
5910745 TATATTTTTTTAACTC
1 TATATTTTTTAAACTC
5910761 TATA
1 TATA
5910765 CGAGTTACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (16 bp):
TATATTTTTTAAACTC
Found at i:5914589 original size:26 final size:26
Alignment explanation
Indices: 5914553--5914613 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
5914543 TTTTGTACTG
*
5914553 ATTGGGTCTCCCTTATTATGAGATGC
1 ATTGAGTCTCCCTTATTATGAGATGC
5914579 ATTGAGTCTCCCTTATTATGAGATGC
1 ATTGAGTCTCCCTTATTATGAGATGC
5914605 ATTGAGTCT
1 ATTGAGTCT
5914614 ATTACTTCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (26 bp):
ATTGAGTCTCCCTTATTATGAGATGC
Found at i:5917062 original size:17 final size:19
Alignment explanation
Indices: 5917036--5917073 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
5917026 CTTTAATGAC
5917036 TATTTAATATA-AAA-TAA
1 TATTTAATATAGAAATTAA
*
5917053 TATTTTATATAGAAATTAA
1 TATTTAATATAGAAATTAA
5917072 TA
1 TA
5917074 AATATTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TATTTAATATAGAAATTAA
Found at i:5919419 original size:19 final size:19
Alignment explanation
Indices: 5919365--5919419 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
5919355 AACCAATAAT
5919365 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
5919384 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
5919403 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
5919420 GAAGATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:5919538 original size:13 final size:12
Alignment explanation
Indices: 5919522--5919575 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
5919512 TATAATGAAA
5919522 ATAAATAAATAGT
1 ATAAATAAATA-T
5919535 ATAAATAAA-AT
1 ATAAATAAATAT
5919546 AATAAA-AAATAT
1 -ATAAATAAATAT
*
5919558 ATATATAAATAT
1 ATAAATAAATAT
*
5919570 AAAAAT
1 ATAAAT
5919576 GTATGTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
11 8 0.23
12 18 0.51
13 9 0.26
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (12 bp):
ATAAATAAATAT
Found at i:5919541 original size:28 final size:27
Alignment explanation
Indices: 5919509--5919571 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
5919499 AAGAAACTAA
*
5919509 AAATATAATGAA-AATAAATAAATAGTAT
1 AAATATAAT-AATAAAAAATAAATA-TAT
* *
5919537 AAATAAAATAATAAAAAATATATATAT
1 AAATATAATAATAAAAAATAAATATAT
5919564 AAATATAA
1 AAATATAA
5919572 AAATGTATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 12 0.40
28 18 0.60
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (27 bp):
AAATATAATAATAAAAAATAAATATAT
Found at i:5919567 original size:22 final size:22
Alignment explanation
Indices: 5919521--5919595 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 22
5919511 ATATAATGAA
*
5919521 AATAAATAAATAGTATAAATAAAAT
1 AATAAA-AAATA-TATATAT-AAAT
5919546 AATAAAAAATATATATATAAAT
1 AATAAAAAATATATATATAAAT
* *
5919568 -AT-AAAAATGTATGTATAATAT
1 AATAAAAAATATATATATAA-AT
5919589 AATAAAA
1 AATAAAA
5919596 TACTAAATAG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
20 14 0.32
21 4 0.09
22 6 0.14
23 9 0.20
24 5 0.11
25 6 0.14
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AATAAAAAATATATATATAAAT
Found at i:5919571 original size:21 final size:21
Alignment explanation
Indices: 5919507--5919597 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 21
5919497 CAAAGAAACT
5919507 AAAAATATA-ATGA-AAATA-A
1 AAAAATATATAT-ATAAATATA
* *
5919526 ATAAATAGTATAAATAAAATAATA
1 AAAAATA-TATATAT-AAAT-ATA
5919550 AAAAATATATATATAAATAT-
1 AAAAATATATATATAAATATA
* *
5919570 AAAAATGTATGTAT-AATATA
1 AAAAATATATATATAAATATA
5919590 ATAAAATA
1 A-AAAATA
5919598 CTAAATAGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
19 11 0.19
20 16 0.28
21 8 0.14
22 8 0.14
23 7 0.12
24 7 0.12
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (21 bp):
AAAAATATATATATAAATATA
Found at i:5919842 original size:23 final size:24
Alignment explanation
Indices: 5919807--5919872 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
5919797 ACGCAAAGAA
*
5919807 AAATGAAAAAAAATTATAA-TAAAT
1 AAAT-AAATAAAATTATAATTAAAT
5919831 AAATAAATAAAA-TATAATTAAAT
1 AAATAAATAAAATTATAATTAAAT
* * *
5919854 ATATACATATAAATAATAA
1 AAATAAATA-AAATTATAA
5919873 GGGTTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 5 0.14
23 19 0.54
24 7 0.20
25 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATAAATAAAATTATAATTAAAT
Found at i:5921409 original size:106 final size:106
Alignment explanation
Indices: 5921100--5923534 Score: 3686
Period size: 106 Copynumber: 23.0 Consensus size: 106
5921090 GCATTGTTCC
* * * * *
5921100 GAGTCCAATATCC-TCAG-TCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTATTTTTTGAC
1 GAGTCCAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
* * * *
5921163 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
5921206 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *** * *
5921265 TCAGCCACCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * * * *
5921307 G-GTCCAAGATCCTTCACTGAGAAGTTAAAATTGGCTCTGAAATTGAGAGGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
5921371 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
5921412 GAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5921477 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
5921518 CAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5921583 CCAGCGGTCCCTTCGTCGTTAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
5921624 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
5921689 CCAGCGGTCCCTTCATCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
5921730 GAGTCTAATATCATTCGCTGTGAAGTTGAAATTGGATCCGAAATTGGGAAATTGTTTGTTAACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
5921795 CCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
5921836 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5921901 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * **
5921942 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGCTGTTTACTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
5922007 CCAGAGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
5922048 GAGTCCAATATCCTACG-TCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
5922112 ACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
5922154 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGTCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
5922219 CAAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
5922260 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5922325 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
5922366 GAGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5922431 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
5922472 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
5922537 CCAGTGGTCCCTTCATTGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
5922578 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5922643 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
5922684 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGACTTTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
5922749 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
5922790 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATATGTTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
5922855 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
5922896 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5922961 CCAGCGGTCCCTTCGTCGTGAATTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
5923002 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT-TTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
** *
5923066 CCAGTAGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
5923107 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5923172 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
5923213 GAGTCCAATATCTTTTGCTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5923278 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
5923319 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
5923384 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
5923425 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
5923490 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
5923531 GAGT
1 GAGT
5923535 GGCACGATAT
Statistics
Matches: 2124, Mismatches: 192, Indels: 26
0.91 0.08 0.01
Matches are distributed among these distances:
100 77 0.04
101 5 0.00
102 4 0.00
104 3 0.00
105 104 0.05
106 1927 0.91
107 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:5925134 original size:7 final size:7
Alignment explanation
Indices: 5925122--5925193 Score: 58
Period size: 7 Copynumber: 10.1 Consensus size: 7
5925112 CTTTTTTGTC
5925122 CTTTTTT
1 CTTTTTT
5925129 CTTTTTT
1 CTTTTTT
5925136 C-TTTTT
1 CTTTTTT
* *
5925142 GTTCTTT
1 CTTTTTT
5925149 -TTTTTT
1 CTTTTTT
*
5925155 GTTTTCTT
1 CTTTT-TT
*
5925163 CTTTCTTG
1 CTTT-TTT
5925171 CTTCTTTT
1 CTT-TTTT
5925179 CTTTTTT
1 CTTTTTT
*
5925186 GTTTTTT
1 CTTTTTT
5925193 C
1 C
5925194 CCTTTTTGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
6 10 0.19
7 26 0.50
8 14 0.27
9 2 0.04
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (7 bp):
CTTTTTT
Found at i:5925184 original size:31 final size:28
Alignment explanation
Indices: 5925122--5925205 Score: 100
Period size: 31 Copynumber: 2.9 Consensus size: 28
5925112 CTTTTTTGTC
*
5925122 CTTTTTTCTTTTTTCTTTTTGTTC-TTT
1 CTTTTTTGTTTTTTCTTTTTGTTCTTTT
5925149 -TTTTTTGTTTTCTTCTTTCTTGCTTCTTTT
1 CTTTTTTGTTTT-TTCTTT-TTG-TTCTTTT
5925179 CTTTTTTGTTTTTTCCCTTTTTGTTCT
1 CTTTTTTGTTTTTT--CTTTTTGTTCT
5925206 GATTGAATCT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
26 10 0.20
27 6 0.12
28 3 0.06
29 3 0.06
30 9 0.18
31 14 0.29
32 4 0.08
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (28 bp):
CTTTTTTGTTTTTTCTTTTTGTTCTTTT
Found at i:5928663 original size:20 final size:20
Alignment explanation
Indices: 5928634--5928679 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
5928624 CTGAGTTCTC
5928634 CTTGCCGGTGCCCCATTGGG
1 CTTGCCGGTGCCCCATTGGG
* *
5928654 CTTGCTGGTGCCCCCTTGGG
1 CTTGCCGGTGCCCCATTGGG
5928674 CTTGCC
1 CTTGCC
5928680 AGACCCTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.02, C:0.37, G:0.33, T:0.28
Consensus pattern (20 bp):
CTTGCCGGTGCCCCATTGGG
Found at i:5929547 original size:20 final size:19
Alignment explanation
Indices: 5929496--5929552 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
5929486 AACCAATAAT
5929496 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
5929515 GATGAAAAAAAAATTAAATTG
1 AAT-AAAATAAAA-TAAATTG
5929536 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
5929553 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 12 0.39
20 12 0.39
21 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:5929697 original size:13 final size:14
Alignment explanation
Indices: 5929653--5929695 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
5929643 TATAATGAAA
5929653 ATAAATAAATAT-T
1 ATAAATAAATATAT
5929666 ATAAATAAA-ATA-
1 ATAAATAAATATAT
5929678 ATAAA-AAATATAT
1 ATAAATAAATATAT
5929691 ATAAA
1 ATAAA
5929696 AATATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 3 0.11
12 10 0.37
13 14 0.52
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAATAAATATAT
Found at i:5929697 original size:22 final size:22
Alignment explanation
Indices: 5929638--5929766 Score: 72
Period size: 21 Copynumber: 5.9 Consensus size: 22
5929628 CAAAGAAACT
*
5929638 AAAAATATA-ATGAAAATAAATA
1 AAAAATATATATAAAAAT-AATA
* * *
5929660 AATATTATAAAT-AAAATAATA
1 AAAAATATATATAAAAATAATA
5929681 AAAAATATATATAAAAAT-AT-
1 AAAAATATATATAAAAATAATA
* * *
5929701 AAAAATGTATGTATAATATAATA
1 AAAAATATATATA-AAAATAATA
* * *
5929724 AAATACTAAATAGTAATAATAATA
1 AAA-AATATATA-TAAAAATAATA
*
5929748 ATAAATA-A-ATGAAAAATAA
1 AAAAATATATAT-AAAAATAA
5929767 ATATACACAT
Statistics
Matches: 82, Mismatches: 17, Indels: 17
0.71 0.15 0.15
Matches are distributed among these distances:
20 12 0.15
21 27 0.33
22 20 0.24
23 8 0.10
24 13 0.16
25 2 0.02
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAAATATATATAAAAATAATA
Found at i:5930480 original size:37 final size:37
Alignment explanation
Indices: 5930386--5930487 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 37
5930376 ATGCTTGTGG
* * ** * * *
5930386 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
* * *
5930423 ATCATATTTTTAGGACTTTGAATCCTAGCAAAATTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
5930460 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
5930488 TAGGACGAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
Found at i:5931966 original size:24 final size:23
Alignment explanation
Indices: 5931946--5932029 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 23
5931936 TGAATTCTAT
*
5931946 TATGATACCTGACCTGGATTCTGA
1 TATGATA-CTGACATGGATTCTGA
5931970 TATGATACTGACATGGATTCTGA
1 TATGATACTGACATGGATTCTGA
* **
5931993 TATGTTACATGATTTGGATTCTGA
1 TATGATAC-TGACATGGATTCTGA
*
5932017 TCTGATACATGAC
1 TATGATAC-TGAC
5932030 CTAAATTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
23 22 0.42
24 30 0.58
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (23 bp):
TATGATACTGACATGGATTCTGA
Found at i:5933024 original size:65 final size:64
Alignment explanation
Indices: 5932889--5933041 Score: 175
Period size: 65 Copynumber: 2.4 Consensus size: 64
5932879 ACACCCTAAT
* * *
5932889 TCGAATGCATTTTATGTACCGATGCACAACCATACATCGATGCACTCCTAATTTTATTGAAACA
1 TCGAATGCATTTTATGTACCGATGCACAACCATACATCGATACACTCATAATCTTATTGAAACA
* * **
5932953 TCGAATGCATTTTATGTATCGATGCACATACCATGCATCGATACACTCATGGCTCTT-TTGAAAC
1 TCGAATGCATTTTATGTACCGATGCACA-ACCATACATCGATACACTCAT-AATCTTATTGAAAC
5933017 A
64 A
* * *
5933018 TTGAATGTA-ATTAGTGTACCGATG
1 TCGAATGCATTTTA-TGTACCGATG
5933042 TACCCCTAGT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
64 30 0.40
65 42 0.56
66 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (64 bp):
TCGAATGCATTTTATGTACCGATGCACAACCATACATCGATACACTCATAATCTTATTGAAACA
Found at i:5933793 original size:2 final size:2
Alignment explanation
Indices: 5933781--5933831 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
5933771 AATACATAAA
5933781 AT AT A- AT AT AT AT A- AT -T 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 AT AT AT AT AT AT AT
5933820 AT AT AT AT AT AT
1 AT AT AT AT AT AT
5933832 GGCATAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5936311 original size:15 final size:16
Alignment explanation
Indices: 5936291--5936324 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
5936281 AAATAAAGTA
*
5936291 AAAAAATTACTTT-AT
1 AAAAAACTACTTTAAT
5936306 AAAAAACTACTTTAAT
1 AAAAAACTACTTTAAT
5936322 AAA
1 AAA
5936325 GTACTCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAAACTACTTTAAT
Found at i:5937909 original size:70 final size:70
Alignment explanation
Indices: 5937803--5937937 Score: 182
Period size: 70 Copynumber: 1.9 Consensus size: 70
5937793 CTGTAGTGTT
* * **
5937803 AATATGACACATAAGGTTATGCCAACCATACACACTAAGTTTCTTGGGTATACACTTTAGTGTTG
1 AATATGACACATAAGGTCATGCCAACCATACACACTAAGTGTCTTGGGTATACACGCTAGTGTTG
5937868 AACCA
66 AACCA
* * * *
5937873 AATATGACACATAAGGTCGTGCCCACCA-CCTGCACTAAGTGTCTTGGGTATACACGCTAGTGTT
1 AATATGACACATAAGGTCATGCCAACCATAC-ACACTAAGTGTCTTGGGTATACACGCTAGTGTT
5937937 G
65 G
5937938 CACTAAGTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 1 0.02
70 55 0.98
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (70 bp):
AATATGACACATAAGGTCATGCCAACCATACACACTAAGTGTCTTGGGTATACACGCTAGTGTTG
AACCA
Found at i:5937945 original size:33 final size:33
Alignment explanation
Indices: 5937903--5937966 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
5937893 GCCCACCACC
5937903 TGCACTAAGTGTCTTGGGTATACACGCTAGTGT
1 TGCACTAAGTGTCTTGGGTATACACGCTAGTGT
*
5937936 TGCACTAAGTGTCTTGGGTATACACTCTAGT
1 TGCACTAAGTGTCTTGGGTATACACGCTAGT
5937967 ACTAAACTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (33 bp):
TGCACTAAGTGTCTTGGGTATACACGCTAGTGT
Found at i:5938014 original size:103 final size:102
Alignment explanation
Indices: 5937835--5938186 Score: 433
Period size: 103 Copynumber: 3.4 Consensus size: 102
5937825 CAACCATACA
* * ** * ** *
5937835 CACTAAGTTTCTTGGGTATACACTTTAGTGTTGAACCAAATATGACACATAAGGTCGTGCCCACC
1 CACTAAGTGTCTTGGGTATACACTCTAGTACTAAACTGAATATGACATATAAGGTCGTGCCCACC
5937900 ACCTGCACTAAGTGTCTTGGGTATACACGCTAGTGTTG
66 ACCTGCACTAAGTGTCTTGGGTATACAC-CTAGTGTTG
*
5937938 CACTAAGTGTCTTGGGTATACACTCTAGTACTAAACTGAATATGACATATAAGGTCGTGCCTACC
1 CACTAAGTGTCTTGGGTATACACTCTAGTACTAAACTGAATATGACATATAAGGTCGTGCCCACC
*
5938003 ACCTGCACTAAGTGTCTTGGGTATACACTTCAGTGTTG
66 ACCTGCACTAAGTGTCTTGGGTATACACCT-AGTGTTG
* * * * *
5938041 CACTAAGTGTCTTGTGTATACACTTTAGTGCTAAAATGAATATGACATATAAGGTCGTGCCCATC
1 CACTAAGTGTCTTGGGTATACACTCTAGTACTAAACTGAATATGACATATAAGGTCGTGCCCACC
* * * *
5938106 ACCTACACGAAGTGTCTTGGGTATACACTCTTGT-TCTA
66 ACCTGCACTAAGTGTCTTGGGTATACAC-CTAGTGT-TG
*
5938144 CAC-ATAGCT-TCTTAGGTATACACTCTAGTACTAATAC-GAATAT
1 CACTA-AG-TGTCTTGGGTATACACTCTAGTACTAA-ACTGAATAT
5938187 CCAACCTTGC
Statistics
Matches: 217, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
102 3 0.01
103 211 0.97
104 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (102 bp):
CACTAAGTGTCTTGGGTATACACTCTAGTACTAAACTGAATATGACATATAAGGTCGTGCCCACC
ACCTGCACTAAGTGTCTTGGGTATACACCTAGTGTTG
Found at i:5938048 original size:33 final size:33
Alignment explanation
Indices: 5938006--5938070 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
5937996 GCCTACCACC
5938006 TGCACTAAGTGTCTTGGGTATACACTTCAGTGT
1 TGCACTAAGTGTCTTGGGTATACACTTCAGTGT
* *
5938039 TGCACTAAGTGTCTTGTGTATACACTTTAGTG
1 TGCACTAAGTGTCTTGGGTATACACTTCAGTG
5938071 CTAAAATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (33 bp):
TGCACTAAGTGTCTTGGGTATACACTTCAGTGT
Found at i:5939608 original size:19 final size:20
Alignment explanation
Indices: 5939584--5939629 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
5939574 CAAAATGGCC
*
5939584 CAATTTC-ACATTCTAACAT
1 CAATTTCAACACTCTAACAT
5939603 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
5939623 TAATTTC
1 CAATTTC
5939630 CAGCATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:5942998 original size:16 final size:15
Alignment explanation
Indices: 5942977--5943020 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
5942967 ATAATTAAGT
5942977 GCAATACAACTAGAA
1 GCAATACAACTAGAA
*
5942992 GCAAATACAACTGGAA
1 GC-AATACAACTAGAA
5943008 GCAATAACAACTA
1 GCAAT-ACAACTA
5943021 CGATAACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.52, C:0.20, G:0.14, T:0.14
Consensus pattern (15 bp):
GCAATACAACTAGAA
Found at i:5949940 original size:22 final size:22
Alignment explanation
Indices: 5949912--5949953 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
5949902 TTCATTCTTC
*
5949912 CATTGGTGCTCTTGTCGATTAA
1 CATTGGTGCCCTTGTCGATTAA
5949934 CATTGGTGCCCTTGTCGATT
1 CATTGGTGCCCTTGTCGATT
5949954 CTTCGGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.40
Consensus pattern (22 bp):
CATTGGTGCCCTTGTCGATTAA
Found at i:5950793 original size:24 final size:24
Alignment explanation
Indices: 5950735--5950794 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
5950725 TCAGATTCCG
*
5950735 AGAAGTGAAGAAGCATAACTACTA
1 AGAAGTGAAGCAGCATAACTACTA
5950759 AGAAGTGAAGCAGCATAACTACTA
1 AGAAGTGAAGCAGCATAACTACTA
5950783 AGAAGTGAAGCA
1 AGAAGTGAAGCA
5950795 TATGCCGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.48, C:0.13, G:0.23, T:0.15
Consensus pattern (24 bp):
AGAAGTGAAGCAGCATAACTACTA
Found at i:5954206 original size:22 final size:22
Alignment explanation
Indices: 5954167--5954209 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5954157 TTTAGTGACA
5954167 ATCACTTGTACAAGATACCAAC
1 ATCACTTGTACAAGATACCAAC
*
5954189 ATCA-TTGTATCAATATACCAA
1 ATCACTTGTA-CAAGATACCAA
5954210 TAGTCGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (22 bp):
ATCACTTGTACAAGATACCAAC
Found at i:5958123 original size:6 final size:6
Alignment explanation
Indices: 5958106--5958135 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
5958096 TAGTTAACAT
*
5958106 ATATCC ACATCC ATATCC ATATCC ATATCC
1 ATATCC ATATCC ATATCC ATATCC ATATCC
5958136 CTACTGCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (6 bp):
ATATCC
Found at i:5960135 original size:20 final size:21
Alignment explanation
Indices: 5960104--5960143 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
5960094 TATTACAAGT
5960104 ACAAATATGACAAAACCGGTC
1 ACAAATATGACAAAACCGGTC
5960125 ACAAA-ATGACAAAACCGGT
1 ACAAATATGACAAAACCGGT
5960144 AAAACGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.50, C:0.23, G:0.15, T:0.12
Consensus pattern (21 bp):
ACAAATATGACAAAACCGGTC
Found at i:5960495 original size:182 final size:182
Alignment explanation
Indices: 5960079--5960938 Score: 1124
Period size: 182 Copynumber: 4.7 Consensus size: 182
5960069 TGAAAATTGG
* * * * * * * *
5960079 ATCGCTCCATAGCAATATTACAAGTACAAATATGACAAAACCGGTCAC-AAAATGACAAAACCGG
1 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGG
* *
5960143 TAAAACGCTACCAGATATGTGTCG--AGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAA
66 -AAAAAGCTACCAGATATGT-T-GAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAA
* * *
5960206 TTT-AAA-AG-AGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAAATAT
128 TTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTT-ATAAAAATGT
* ** * *
5960259 ATCGATCCACAACAATATAACAGGTAAAAATATGATAAAATTGGTCTAAAAAATGACAAAACTGG
1 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGG
* * * * *
5960324 AAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATTAGCATCGACACTTTCTGAATTT
66 AAAAAGCTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTT
*
5960389 AAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATGAAAATGT
131 AAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAAAAATGT
* * *
5960441 ATCGATCCTTACCAATATAACATGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGG
1 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGG
* * *
5960506 AAAAAGTTACCAGATATGTTAAAAGTATCGATAATTTAATATAAGTATCGACACTTTCTGAATTT
66 AAAAAGCTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTT
* * * *
5960571 AAAAGAGAAAAAGTTATTGCGCTTAAAAAGTGTCGACACTTTATAAAAATGT
131 AAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAAAAATGT
* *
5960623 ATCGATCCATAACAATATAACAGGT-AAAATATGATAAAACAGGTCTCGAAATTGACAAAACCAG
1 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACC-G
* * ** * *
5960687 TAAAACGCTACTGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATT
65 GAAAAAGCTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATT
* * * *
5960752 TAAAAGAGAAGAAGTTATAGCTCCTATAAAGTGTCGATACTTTAAAAAAATAT
130 TAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAAAAATGT
* * * * *
5960805 ATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACATGTCCCAAAATTGACAAAACC-A
1 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGG
* *
5960869 ATAAAACGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAAA
66 A-AAAA-GCTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAAT
5960934 TTAAA
129 TTAAA
5960939 CTAAAAAGTG
Statistics
Matches: 594, Mismatches: 76, Indels: 17
0.86 0.11 0.02
Matches are distributed among these distances:
178 1 0.00
179 1 0.00
180 91 0.15
181 54 0.09
182 323 0.54
183 124 0.21
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (182 bp):
ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGG
AAAAAGCTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTT
AAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAAAAATGT
Found at i:5961030 original size:164 final size:170
Alignment explanation
Indices: 5960068--5961438 Score: 1100
Period size: 182 Copynumber: 7.7 Consensus size: 170
5960058 GTCGATACAA
* * * * * * * * *
5960068 ATGAAAATTGGATCGCTCCATAGCAATATTACAAGTACAAATATGACAAAACCGGTCAC-AAAAT
1 ATGAAAA-TGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACTGGTCTCAAAAAT
* * *
5960132 GACAAAACCGGTAAAACGCTACCAGATATGTGTCG--AGTGTCGATAATTTAATATAAGTATCGA
65 GACAAAACC--AAAAAAGATACCAGATATGT-T-GAAAGTGTCGATAATTTAATATAAGTATCGA
* * * *
5960195 AACTTTCTGAATTTAAAAGAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT
126 AACTTTC-----TT-AGA-AGAAGTTATA-CGCTTAAAAAGTGTCGACACTTT
** * * * *
5960248 AAAAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAATTGGTCTAAAAAAT
1 -ATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACTGGTCTCAAAAAT
** * * * * * *
5960313 GACAAAACTGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATTAGCATCGACAC
65 GACAAAAC-CAAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAAC
* *
5960378 TTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTT
129 TTTC-----TT-----AGAAGAAGTTATA-CGCTTAAAAAGTGTCGACACTTT
* * * *
5960431 ATGAAAATGTATCGATCCTTACCAATATAACATGTAAAAATATGATAAAACAGGTCTCAAAAATG
1 ATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACTGGTCTCAAAAATG
* * * * *
5960496 ACAAAACCGGAAAAAGTTACCAGATATGTTAAAAGTATCGATAATTTAATATAAGTATCGACACT
66 ACAAAACC-AAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACT
* *
5960561 TTCTGAATTTAAAAGAGAAAAAGTTATTGCGCTTAAAAAGTGTCGACACTTT
130 TTC-----TT-----AGAAGAAGTTA-TACGCTTAAAAAGTGTCGACACTTT
* * * *
5960613 ATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAATATGATAAAACAGGTCTCGAAATTG
1 ATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACTGGTCTCAAAAATG
* * ** *
5960677 ACAAAACCAGTAAAACGCTACTGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAAC
66 ACAAAACCA--AAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAAC
* *
5960742 TTTCTGAATTTAAAAGAGAAGAAGTTATA-GCTCCTATAAAGTGTCGATACTTT
129 TTTC-----TT-----AGAAGAAGTTATACGCT--TAAAAAGTGTCGACACTTT
** * * * *
5960795 AAAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACAT-GTCCCAAAATT
1 ATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC-TGGTCTCAAAAAT
*
5960859 GACAAAACCAATAAAACGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACA
65 GACAAAACCAA-AAAA-GATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAA
*
5960924 CTTTC-T-G-A-AA-TTA-A-AC-TAAAAAGTGTCGACACTTT
128 CTTTCTTAGAAGAAGTTATACGCTTAAAAAGTGTCGACACTTT
*
5960959 ATGAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAACTGGTCTCAAAAATG
1 ATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACTGGTCTCAAAAATG
* * * * * * *
5961024 ACAAAACCGGAAAAAGTTATCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGATACT
66 ACAAAACC-AAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACT
* *
5961089 TTCTGAATTTAAAAGAGAAGAAGTTATAGCGCTTAAAATGTGTAGACACTTT
130 TTC-----TT-----AGAAGAAGTTATA-CGCTTAAAAAGTGTCGACACTTT
* * * * **
5961141 ATTAAAATGTATCGATCCTTACCAATATAACAGGTAAAAATATGATAATACAAGTCTCAAAAATG
1 ATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACTGGTCTCAAAAATG
* * * *
5961206 ACAAAATCGGAAAAAA-TTACCGGATCTGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAAC
66 ACAAAA-C-CAAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAAC
*
5961270 TTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCTTAAAAAGCGTCGACACTTT
129 TTTC-----TT-----AGAAGAAGTTATA-CGCTTAAAAAGTGTCGACACTTT
* *
5961323 ATGAAAATGTATCGATCCAGAACAATATAACAGGTAAAAATATGATAAAACCGGTCTC-AAAATG
1 ATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACTGGTCTCAAAAATG
* * *
5961387 ACAAAACCGGTAAATAGATACCAGATATGTTGAAAGTGTCGATACTTTAATA
66 ACAAAACC--AAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATA
5961439 AGTACGCATA
Statistics
Matches: 1016, Mismatches: 130, Indels: 87
0.82 0.11 0.07
Matches are distributed among these distances:
163 48 0.05
164 85 0.08
165 1 0.00
167 2 0.00
168 3 0.00
169 3 0.00
170 1 0.00
171 1 0.00
175 1 0.00
176 1 0.00
177 3 0.00
178 4 0.00
179 2 0.00
180 96 0.09
181 72 0.07
182 569 0.56
183 122 0.12
184 2 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (170 bp):
ATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACTGGTCTCAAAAATG
ACAAAACCAAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTT
TCTTAGAAGAAGTTATACGCTTAAAAAGTGTCGACACTTT
Found at i:5961068 original size:528 final size:531
Alignment explanation
Indices: 5960079--5961438 Score: 1830
Period size: 528 Copynumber: 2.5 Consensus size: 531
5960069 TGAAAATTGG
* * * * * * *
5960079 ATCGCTCCATAGCAATATTACAAGTACAAATATGACAAAACCGGTCACAAAATGACAAAACCGGT
1 ATCGATCCATAACAATATAACAGGTA-AAATATGATAAAACAGGTCTCAAAATGACAAAACC-GT
*
5960144 AAAACGCTACCAGATATGTGTCG--AGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAAT
64 AAAACGCTACCGGATATGT-T-GAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAAT
5960207 TT-AAA-AG-AGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAAATATATCGATCCAC
127 TTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-AAAAAAATATATCGATCCAC
* * * *
5960269 AACAATATAACAGGTAAAAATATGATAAAA-TTGGTCTAAAAAATGACAAAACTGGA-AAAAGTT
191 AACAATATAACAGGTAAAAATATGATAAAACAT-GTCT-CAAAATGACAAAAC-CGATAAAAGAT
* * *
5960332 ACCGGATATATTGAAAGTGTCGATAATTTAATATTAGCATCGACACTTTCTGAATTTAAAAGAGA
253 ACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGCATCGACACTTTC-----TT-----AGA
* * * *
5960397 AGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATGAAAATGTATCGATCCTTACCAATATAAC
308 AGAAGTTATA--GACTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAAC
*
5960462 ATGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGGAAAAAGTTACCAGATATGTTA
371 ATGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGGAAAAAGTTACCAGATATATTA
*
5960527 AAAGTATCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATTGCG
436 AAAGTATCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCG
*
5960592 CTTAAAAAGTGTCGACACTTTATAAAAATGT
501 CTTAAAAAGTGTAGACACTTTATAAAAATGT
*
5960623 ATCGATCCATAACAATATAACAGGTAAAATATGATAAAACAGGTCTCGAAATTGACAAAACCAGT
1 ATCGATCCATAACAATATAACAGGTAAAATATGATAAAACAGGTCTC-AAAATGACAAAACC-GT
* *
5960688 AAAACGCTACTGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTT
64 AAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTT
*
5960753 AAAAGAGAAGAAGTTATAGCTCCTATAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAAC
129 AAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAAC
* *
5960818 AATATAACAGGTAAAAATATGATAAAACATGTCCCAAAATTGACAAAACCAATAAAACGATACCA
194 AATATAACAGGTAAAAATATGATAAAACATGTCTCAAAA-TGACAAAACCGATAAAA-GATACCA
*
5960883 GATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTC-T-G-A-AA-TTA-A-ACT
257 GATATGTTGAAAGTGTCGATAATTTAATATAAGCATCGACACTTTCTTAGAAGAAGTTATAGACT
5960941 AAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATA
322 AAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATA
* * * * *
5961006 AAACTGGTCTCAAAAATGACAAAACCGGAAAAAGTTATCGGATATATTGAAAGTGTCGATAATTT
387 AAACAGGTCTCAAAAATGACAAAACCGGAAAAAGTTACCAGATATATTAAAAGTATCGATAATTT
* * * *
5961071 AATATTAGTATCGATACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCTTAAAATGTGTAGAC
452 AATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCGCTTAAAAAGTGTAGAC
*
5961136 ACTTTATTAAAATGT
517 ACTTTATAAAAATGT
* * * * * *
5961151 ATCGATCCTTACCAATATAACAGGTAAAAATATGATAATACAAGTCTCAAAAATGACAAAATCGG
1 ATCGATCCATAACAATATAACAGGT-AAAATATGATAAAACAGGTCTC-AAAATGACAAAACCGT
*** *
5961216 AAAAAATTACCGGATCTGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTT
64 AAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTT
* * * * ** * *
5961281 AAAAGAGAAGAAGTTATAGCGCTTAAAAAGCGTCGACACTTTATGAAAATGTATCGATCCAGAAC
129 AAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAAC
** *
5961346 AATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAACCGGTAAATAGATACCAG
194 AATATAACAGGTAAAAATATGATAAAACATGTCTCAAAATGACAAAACCGATAAA-AGATACCAG
*
5961411 ATATGTTGAAAGTGTCGATACTTTAATA
258 ATATGTTGAAAGTGTCGATAATTTAATA
5961439 AGTACGCATA
Statistics
Matches: 735, Mismatches: 69, Indels: 41
0.87 0.08 0.05
Matches are distributed among these distances:
527 49 0.07
528 372 0.51
529 32 0.04
531 1 0.00
532 3 0.00
533 2 0.00
534 1 0.00
535 1 0.00
541 1 0.00
542 1 0.00
543 19 0.03
544 95 0.13
545 8 0.01
546 68 0.09
547 82 0.11
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (531 bp):
ATCGATCCATAACAATATAACAGGTAAAATATGATAAAACAGGTCTCAAAATGACAAAACCGTAA
AACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAA
AAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAACAA
TATAACAGGTAAAAATATGATAAAACATGTCTCAAAATGACAAAACCGATAAAAGATACCAGATA
TGTTGAAAGTGTCGATAATTTAATATAAGCATCGACACTTTCTTAGAAGAAGTTATAGACTAAAA
AGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAAC
AGGTCTCAAAAATGACAAAACCGGAAAAAGTTACCAGATATATTAAAAGTATCGATAATTTAATA
TAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCGCTTAAAAAGTGTAGACACTT
TATAAAAATGT
Found at i:5961869 original size:19 final size:19
Alignment explanation
Indices: 5961821--5961870 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
5961811 CTTTTAGTTA
*
5961821 ATATTTATACGTAAAAAATG
1 ATATTT-TAGGTAAAAAATG
* *
5961841 ATATTATAGGTAGAAAATG
1 ATATTTTAGGTAAAAAATG
5961860 ATATTTTAGGT
1 ATATTTTAGGT
5961871 TGTATAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.38
Consensus pattern (19 bp):
ATATTTTAGGTAAAAAATG
Found at i:5962156 original size:18 final size:18
Alignment explanation
Indices: 5962121--5962159 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5962111 TTGAAATGGT
5962121 AATTGGATTAAAACTTTA
1 AATTGGATTAAAACTTTA
*
5962139 AATT-GATTACAAATTTTA
1 AATTGGATTA-AAACTTTA
5962157 AAT
1 AAT
5962160 GTTGTCAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTGGATTAAAACTTTA
Found at i:5963429 original size:9 final size:9
Alignment explanation
Indices: 5963415--5963448 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
5963405 TCAAGAAGTT
5963415 AGAGGAGGC
1 AGAGGAGGC
*
5963424 AGAGGAAGC
1 AGAGGAGGC
5963433 AGAGGAGGC
1 AGAGGAGGC
*
5963442 AGTGGAG
1 AGAGGAG
5963449 AAGGAAGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.53, T:0.03
Consensus pattern (9 bp):
AGAGGAGGC
Found at i:5963877 original size:18 final size:18
Alignment explanation
Indices: 5963854--5963892 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
5963844 GAAAAAATTT
*
5963854 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
5963872 GAAGAATAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
5963890 GAA
1 GAA
5963893 ATGAGGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:5965386 original size:19 final size:19
Alignment explanation
Indices: 5965360--5965408 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
5965350 AAATGCATGG
5965360 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
5965378 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
5965397 ATAATTTTGTAT
1 TTAATTTTGTAT
5965409 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:5966447 original size:199 final size:199
Alignment explanation
Indices: 5965754--5966453 Score: 1186
Period size: 199 Copynumber: 3.5 Consensus size: 199
5965744 GTAAACTTAT
*
5965754 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACAATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * * *
5965819 GGTAAATTAGCAATATAACCGGTTTAAATATATC-GATTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
5965883 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
5965948 AAAA
196 AAAA
5965952 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* **
5966017 GGTAAATTAGCAATATAACCAGTCTAAATATATTAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
5966082 TCGACACAAATCGAACAAGTGTCGATACTTTTTGTCCAGAATGAATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
5966147 AAAA
196 AAAA
* * *
5966151 GTGTCAATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
5966216 GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAAAAAACCGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
5966281 TCGACACAAATTGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
5966346 AAAA
196 AAAA
* * * *
5966350 GTGTCGATACATTTATAACAAGTGTTGATCCTAAAAAAATCGAAAACCATAATTATAATATAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
5966415 GGTAAATTAACAATATAACTGGTCTAAATATACCAGTTT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTT
5966454 AAATTGAAAA
Statistics
Matches: 472, Mismatches: 29, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
198 95 0.20
199 377 0.80
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:5966800 original size:15 final size:15
Alignment explanation
Indices: 5966780--5966837 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
5966770 TTTCTCAAAT
5966780 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
5966795 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
5966810 CTCTTCTCAACCACAAC
1 CTCTTCTCAACC-C-AC
5966827 CTCATTCTCAA
1 CTC-TTCTCAA
5966838 ACAATCGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 24 0.67
16 1 0.03
17 4 0.11
18 7 0.19
ACGTcount: A:0.24, C:0.48, G:0.02, T:0.26
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:5969439 original size:21 final size:22
Alignment explanation
Indices: 5969415--5969462 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
5969405 ACAAAATATA
5969415 TCGATACAAAT-AAAACAAGTG
1 TCGATACAAATAAAAACAAGTG
**
5969436 TCGATACATTTAAAAACAAGTG
1 TCGATACAAATAAAAACAAGTG
5969458 TCGAT
1 TCGAT
5969463 CCCAAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (22 bp):
TCGATACAAATAAAAACAAGTG
Found at i:5969965 original size:199 final size:199
Alignment explanation
Indices: 5969431--5970282 Score: 1161
Period size: 199 Copynumber: 4.3 Consensus size: 199
5969421 CAAATAAAAC
*
5969431 AAGTGTCGATACATTTAAAAACAAGTGTCGATCCC-AAAACATCGAAAAACA-AA--ATAATGTA
1 AAGTGTCGATACATTT-ATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTA
* * *
5969492 ATAGGT-AATTATTCATGTAAAAGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAA
65 ATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAA
* *
5969556 GTATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCA-AACTGTATTTCAAAACCATGTGC
130 GTATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAA-TGTATTTCAAAACCAAGTGC
5969620 ACTAAA
194 ACTAAA
* * * *
5969626 AAATGTCGATACATATATAACAAGTGTCGATCCCAAAAATATCG-AAAACCTAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * *
5969690 TAGGTAAATTAGTAAT-TAACCGGTCTAAATATACCGATTTTTGAGAAAACATGTGTACAAACAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAG
* ** * *
5969754 TATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTACTTCAGAACCAAGTGCAC
131 TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
5969819 -ATAA
196 TA-AA
* *
5969823 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
*
5969888 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAG
5969953 TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
5970018 TAAA
196 TAAA
*
5970022 AAGTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATC-AAAAACTATAATTATAATGTA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAAC-ATAATTATAATGTA
* * * * * * * **
5970086 ATAAGTAAATTA-ACAATGTAACCGGTCTAAATGTACCGGTTTATGAGAAAACAGGTATACATGA
65 ATAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAA
* * * * * * *
5970150 AGTATCGACACAAATACATCAAGTTTCGATACATTTTTGTCCAGACTATATTTTAAAAACCAAGT
129 AGTATCGACACAAATATAACAAGTGTCGATAC-TTTTTCTCCAGAATGTA-TTTCAAAACCAAGT
5970215 GCAC-AACA
192 GCACTAA-A
* * *
5970223 AAGTTTCGATACATTTATAACAATTGTCAATCCCAAAAACATCGAAAAACATAATTATAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
5970283 CTAAATGTCT
Statistics
Matches: 582, Mismatches: 59, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
194 22 0.04
195 24 0.04
196 1 0.00
197 154 0.26
198 50 0.09
199 241 0.41
200 17 0.03
201 67 0.12
202 6 0.01
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (199 bp):
AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAG
TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
TAAA
Found at i:5973294 original size:198 final size:195
Alignment explanation
Indices: 5972777--5973486 Score: 718
Period size: 198 Copynumber: 3.6 Consensus size: 195
5972767 ATACATATGT
* * * * *
5972777 AAGAAT-ATGTGTCGATACATTTTCAAAA-AGTATCGACCCCAAAAACATCAAAACAAATAATTA
1 AAGAATAAAGTGTCGATACA-TTT-AAAATTGTATCGATCCCAAAAACATCGAAACGAATAATTA
** * * * * * * *
5972840 TAATGTAATATTTAAATTAACAATGTAGCCAATATACATATATACCGG-TTAATTATAAAACAGG
64 TAATGTAATAGGTAAATTTACAATGTA-CCGATATA-A-ATATACCGGTTTTATGAGAAAATATG
* * * *
5972904 TCAACATAAAGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCA-AAAGAAAGCACAAA
126 TCAA-ATAAAGTATCGACACTTTATAA-TTTGTGTCGATACTTTTTTCCATAATGAATGC-CCAA
* *
5972968 C-ACGTTC
188 CGAGGTGC
* * * *
5972975 ACGCATAAAGTGTCGATACATTTAAAATTGTATCGAT--TACAAACATCGAAACCG-ATAATTAT
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAA-CGAATAATTAT
* * * *
5973037 AATGTAATAGGTCAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATATGTCA
65 AATGTAATAGGTAAATTTACAATGT-ACCGATATAAATATACCGGTTTTATGAGAAAATATGTCA
* *
5973102 GAATAAAGTATCGACACTTGTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGA
129 -AATAAAGTATCGACACTT-TATAATTTGTGTCGATAC-TTTTTTCCATAATGAATGCCCAACGA
5973167 GGTGC
191 GGTGC
* * *
5973172 AAGAATAACGTGTCGATACATTTAAAATTGTATTGATCCCAAAAACATCGAAACGAA-AATTACA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAATAATTATA
* * *
5973236 ATGTTATAGGTAGATTTACAATGTACCCGATATAAATATATCGGTTTTATGAGAAAATATGTCTA
66 ATGTAATAGGTAAATTTACAATGTA-CCGATATAAATATACCGGTTTTATGAGAAAATATGTC-A
** * *
5973301 AATATTGTATCGACACCTTTATAGTTTGTGTCAATACTTTTTTCCAGAATGAATTAGGAATGCCC
129 AATAAAGTATCGACA-CTTTATAATTTGTGTCGATACTTTTTTCC---AT-AA-T--GAATGCCC
5973366 AACGAGGTGC
186 AACGAGGTGC
* * * *
5973376 AAGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAAACAACGAAACCAATAATTATA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAATAATTATA
* * *
5973441 ATGCAATAGGTAAATTTGCAATGCTACCGGTATAAATATACCGGTT
66 ATGTAATAGGTAAATTTACAATG-TACCGATATAAATATACCGGTT
5973487 AAATACCTAT
Statistics
Matches: 425, Mismatches: 62, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
194 8 0.02
195 45 0.11
196 62 0.15
197 58 0.14
198 104 0.24
199 29 0.07
200 2 0.00
201 2 0.00
202 1 0.00
204 69 0.16
205 43 0.10
206 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (195 bp):
AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAATAATTATA
ATGTAATAGGTAAATTTACAATGTACCGATATAAATATACCGGTTTTATGAGAAAATATGTCAAA
TAAAGTATCGACACTTTATAATTTGTGTCGATACTTTTTTCCATAATGAATGCCCAACGAGGTGC
Found at i:5975449 original size:12 final size:12
Alignment explanation
Indices: 5975418--5975450 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
5975408 CATACCATCT
*
5975418 TTCTTTATTTTG
1 TTCTTTATTTTC
5975430 TT-TTTATTTTC
1 TTCTTTATTTTC
5975441 TTCTTTATTT
1 TTCTTTATTT
5975451 CTTTCAGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (12 bp):
TTCTTTATTTTC
Found at i:5977110 original size:57 final size:57
Alignment explanation
Indices: 5977022--5977133 Score: 224
Period size: 57 Copynumber: 2.0 Consensus size: 57
5977012 GATTTGCCAT
5977022 TCCCTACTTGTAGCTTCGCATGGTCTCTAAGGCAACCTCCGATAAAATCATCTTTTG
1 TCCCTACTTGTAGCTTCGCATGGTCTCTAAGGCAACCTCCGATAAAATCATCTTTTG
5977079 TCCCTACTTGTAGCTTCGCATGGTCTCTAAGGCAACCTCCGATAAAATCATCTTT
1 TCCCTACTTGTAGCTTCGCATGGTCTCTAAGGCAACCTCCGATAAAATCATCTTT
5977134 GATGAAGTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (57 bp):
TCCCTACTTGTAGCTTCGCATGGTCTCTAAGGCAACCTCCGATAAAATCATCTTTTG
Found at i:5987795 original size:45 final size:45
Alignment explanation
Indices: 5987744--5987840 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
5987734 CTTATAGGTT
*
5987744 CTACCATCCCTCAGACTTCGCGGTTTCTCCAGTTCAACCTGCTGC
1 CTACCATCCCTCAGACTTCGCGGATTCTCCAGTTCAACCTGCTGC
** *
5987789 CTACCATCCCTCAGACTTTTCGGATTCTCCATTTCAACCTGCTGC
1 CTACCATCCCTCAGACTTCGCGGATTCTCCAGTTCAACCTGCTGC
*
5987834 CTCCCAT
1 CTACCAT
5987841 TGTCCCCTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.16, C:0.40, G:0.12, T:0.31
Consensus pattern (45 bp):
CTACCATCCCTCAGACTTCGCGGATTCTCCAGTTCAACCTGCTGC
Found at i:5991772 original size:29 final size:29
Alignment explanation
Indices: 5991738--5991809 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
5991728 TTTAAAGCTA
5991738 ATTTAGTTGCATATAGCTACATTTAACCT
1 ATTTAGTTGCATATAGCTACATTTAACCT
5991767 ATTTAGTTGCATATAGCTACATTTAACCT
1 ATTTAGTTGCATATAGCTACATTTAACCT
*
5991796 ATTTAGTCGCATAT
1 ATTTAGTTGCATAT
5991810 GATGGTGTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (29 bp):
ATTTAGTTGCATATAGCTACATTTAACCT
Found at i:5993300 original size:29 final size:29
Alignment explanation
Indices: 5993221--5993301 Score: 76
Period size: 32 Copynumber: 2.7 Consensus size: 29
5993211 TTAAGAGCAT
* *
5993221 TAAATAAAATAAATTAAACATGTAATAAGGGC
1 TAAATTAAATAAAATAAA-ATGTAAT-A-GGC
5993253 TAAATTAAA-ACAAATTAAAATGTAAT-GGC
1 TAAATTAAATA-AAA-TAAAATGTAATAGGC
5993282 TAAATCTAAATAAAATAAAA
1 TAAAT-TAAATAAAATAAAA
5993302 AATTAGTCAG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
29 13 0.30
30 7 0.16
31 2 0.05
32 17 0.40
33 4 0.09
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (29 bp):
TAAATTAAATAAAATAAAATGTAATAGGC
Found at i:5994481 original size:25 final size:25
Alignment explanation
Indices: 5994440--5994505 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
5994430 GGTTTTGGTT
*
5994440 GTTTTTAAGTTAGGGTTCTGGTTGG
1 GTTTTTAGGTTAGGGTTCTGGTTGG
*
5994465 GTTTTTAGGTT-GTGGTTTTGGTTGG
1 GTTTTTAGGTTAG-GGTTCTGGTTGG
*
5994490 G-TTTTAGGTTTGGGTT
1 GTTTTTAGGTTAGGGTT
5994506 GGGCTTGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
24 14 0.38
25 23 0.62
ACGTcount: A:0.08, C:0.02, G:0.38, T:0.53
Consensus pattern (25 bp):
GTTTTTAGGTTAGGGTTCTGGTTGG
Found at i:5994841 original size:134 final size:135
Alignment explanation
Indices: 5994674--5995193 Score: 497
Period size: 134 Copynumber: 3.8 Consensus size: 135
5994664 GCAGTTCTTC
* * * * * *
5994674 TCATCATGAACTCTCTACTGGAATTGTTGATCCCTCGAGTGAGGCGTCGTTCATTCAATTCCAAA
1 TCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCG-TCATTCAATTCCAAA
* * *
5994739 TGTGATGAATCAACCAAAGATTAAACAAGTTTTTCTCATTATGAACTTCTTTTCCCTTTATCAGA
65 TGTGATGAATCAACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCCTCTATCAGA
*
5994804 TAAG-T
130 TGAGTT
* * * * *
5994809 TC-TTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCATCGATGATTCAACTCCATA
1 TCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCG-TCATTCAATTCCAAA
* *
5994873 TGTGATGAATCGACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGA
65 TGTGATGAATCAACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCCTCTATCAGA
5994938 TGAGTTCTT
130 TGAG---TT
* *
5994947 CTCATTATGAACT-TCCCATTGGAAATGTTAATCCCTCAAATGAGGCGTTAC-TGATTCAACTT-
1 -TCATTATGAACTCT-CCATTGGAAATGTTAATCCCTCAAGTGAGGCG-T-CGTCATTCAA-TTC
* * * * ** *
5995009 CATATGTGATGAATCGAGCAAAGGTTGAGTATGTTCTTCTCATTATGAACTTCTTTTCCCTCTAT
61 CAAATGTGATGAATCAACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCCTCTAT
5995074 C-GAATGAGTTCT
126 CAG-ATGAG-T-T
* * * * *
5995086 TCTTATTATGAACTCTCAATTGGAAATGTAAATCCCTCAAGT-AGGTGTCG-C--T-GATTCAAA
1 TC--ATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGTCATTCAATTCCAA
* * * *
5995146 ATATGATGAAT-AGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACT
64 ATGTGATGAATCA-ACCAAAGATTGAACAAGTTCTTCTCATTATGAACT
5995194 CTCCATTGGA
Statistics
Matches: 324, Mismatches: 43, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
133 2 0.01
134 156 0.48
135 3 0.01
137 1 0.00
138 5 0.02
139 9 0.03
140 144 0.44
141 3 0.01
142 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (135 bp):
TCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCGTCATTCAATTCCAAAT
GTGATGAATCAACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCCTCTATCAGAT
GAGTT
Found at i:5995017 original size:140 final size:139
Alignment explanation
Indices: 5994666--5995193 Score: 580
Period size: 140 Copynumber: 3.9 Consensus size: 139
5994656 TTCAAGTAGC
* * * * * * ** *
5994666 AGTTCTTCTCATCATGAACTCTCTACTGGAATTGTTGATCCCTCGAGTGAGGCGTCGTTCATTCA
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCACTGATTCA
* * * *
5994731 ATTCCAAATGTGATGAATCAACCAAAGATTAAACAAGTTTTTCTCATTATGAACTTCTTTTCCCT
66 ATT-CATATGTGATGAATCGACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCCT
* *
5994796 TTATCAGATA
130 CTATCAGATG
* *
5994806 AG----T-TC-TTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCATCGA-TGATTC
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTC-ACTGATTC
* *
5994864 AACTCCATATGTGATGAATCGACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC
65 AA-TTCATATGTGATGAATCGACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCC
5994929 TCTATCAGATG
129 TCTATCAGATG
* *
5994940 AGTTCTTCTCATTATGAACT-TCCCATTGGAAATGTTAATCCCTCAAATGAGGCGTTACTGATTC
1 AGTTCTTCTCATTATGAACTCT-CCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCACTGATTC
* * ** *
5995004 AACTTCATATGTGATGAATCGAGCAAAGGTTGAGTATGTTCTTCTCATTATGAACTTCTTTTCCC
65 AA-TTCATATGTGATGAATCGACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCC
5995069 TCTATC-GAATG
129 TCTATCAG-ATG
* * * * *
5995080 AGTTCTTCTTATTATGAACTCTCAATTGGAAATGTAAATCCCTCAAGT-AGGTGTCGCTGATTCA
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCACTGATTCA
* * * * *
5995144 A---A-ATATGATGAATAGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACT
66 ATTCATATGTGATGAATCGACCAAAGATTGAACAAGTTCTTCTCATTATGAACT
5995194 CTCCATTGGA
Statistics
Matches: 334, Mismatches: 42, Indels: 30
0.82 0.10 0.07
Matches are distributed among these distances:
134 152 0.46
135 4 0.01
136 1 0.00
138 1 0.00
139 19 0.06
140 156 0.47
141 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (139 bp):
AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCGTCACTGATTCA
ATTCATATGTGATGAATCGACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCCTC
TATCAGATG
Found at i:5995278 original size:95 final size:94
Alignment explanation
Indices: 5995080--5995288 Score: 294
Period size: 95 Copynumber: 2.2 Consensus size: 94
5995070 CTATCGAATG
* * *
5995080 AGTTCTTCTTATTATGAACTCTCAATTGGAAATGTAAATCCCTCAAGTAGGTGTCGCTGATTCAA
1 AGTTCTTCTCATTATGAACTCTCAATTGGAAATGTAAATCCCTCAAGTAGGTATCACTGATTCAA
* * *
5995145 AATATGATGAATAGAGCAAAGGTTGAACA
66 AATACGATGAATAGAGAAAAGGTAGAACA
* * * *
5995174 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGT-GAGTCATTACTGATTC
1 AGTTCTTCTCATTATGAACTCTCAATTGGAAATGTAAATCCCTCAAGTAG-GT-ATCACTGATTC
*
5995238 AAAATACGATGAATCGAGAAAAGGTAGAACA
64 AAAATACGATGAATAGAGAAAAGGTAGAACA
5995269 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
5995289 TCTTCTCCCT
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
93 1 0.01
94 46 0.46
95 54 0.53
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (94 bp):
AGTTCTTCTCATTATGAACTCTCAATTGGAAATGTAAATCCCTCAAGTAGGTATCACTGATTCAA
AATACGATGAATAGAGAAAAGGTAGAACA
Found at i:5995391 original size:369 final size:374
Alignment explanation
Indices: 5994811--5995565 Score: 1040
Period size: 369 Copynumber: 2.0 Consensus size: 374
5994801 AGATAAGTTC
**
5994811 TTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCATCGATGATTCAACTCCATATGT
1 TTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCATCGATGATTCAA---CATATAC
* *
5994876 GATGAATCGACCAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGA
63 GATGAATCGACAAAAGATAGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGA
* * *
5994941 GTTCTTCTCATTATGAACTTCCCATTGGAAATGTTAATCCCTCAAATGAGGCGTTACTGATTCAA
128 GTTATTCTCATTATGAACTTCCCATTGGAAATGTTAATCCCTCAAATGAGGCATCACTGATTCAA
* ** * ** *
5995006 CTTCATATGTGATGAATCGAGCAAAGGTT-GAGTATGTTCTTCTCATTATGAACTTCTTTTCCCT
193 CTCCATATACGATGAATCGAGCAAAGGTTAAAAAAT-TTCTTCTCATTATGAACTTCTTCTCCCT
* * *
5995070 CTATCGAATGAGTTCTTCTTATTATGAACTCTCAATTGGAAATGTAAATCCCTCAAGT-AGGTGT
257 CTATCGAATGAGTTCTTCTCATTATGAACTCCCAATTGGAAATGTAAATCCCTCAAGTAAGGTAT
*
5995134 CGCTGATTCAA-AATAT-GATGAATAGAGCAAAGGTTGAACAAGTTATTCTCA
322 CACTGATTCAACAATATCGATGAATAGAGCAAAGGTTGAACAAGTTATTCTCA
* * *
5995185 TTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGTCAT-TACTGATTCAA-A-ATACGA
1 TTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCATCGA-TGATTCAACATATACGA
* * *
5995247 TGAATCGAGAAAAGGTAGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGT
65 TGAATCGACAAAAGATAGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGT
* * * *
5995312 TATTCTCATTATGAAC-TCTCCATTGGAAATGTTAATCCTTCAAGTGAGGCATCATTGATTCCAC
130 TATTCTCATTATGAACTTC-CCATTGGAAATGTTAATCCCTCAAATGAGGCATCACTGATTCAAC
*
5995376 TCCCTATACGATGAATCGAGCAAAGGTTAAAAAATTTCTTCTCATTATGAACTTCTTCTCCCTCT
194 TCCATATACGATGAATCGAGCAAAGGTTAAAAAATTTCTTCTCATTATGAACTTCTTCTCCCTCT
* * * *
5995441 ATCGGATGAGTTTTTCTCATTATGAACTCCCCATTGGAAATGTTAATCCCTCAAGTAAGGTATCA
259 ATCGAATGAGTTCTTCTCATTATGAACTCCCAATTGGAAATGTAAATCCCTCAAGTAAGGTATCA
* * *
5995506 CTGATTCAACTCTATATGCGATGAATCGAGCAAAGGTTGAACAAGTTCTTCTCA
324 CTGATTCAA--CAATAT-CGATGAATAGAGCAAAGGTTGAACAAGTTATTCTCA
*
5995560 CTATGA
1 TTATGA
5995566 GATTCTTCTC
Statistics
Matches: 335, Mismatches: 37, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
368 2 0.01
369 221 0.66
370 19 0.06
373 5 0.01
374 50 0.15
375 38 0.11
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (374 bp):
TTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCATCGATGATTCAACATATACGAT
GAATCGACAAAAGATAGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTT
ATTCTCATTATGAACTTCCCATTGGAAATGTTAATCCCTCAAATGAGGCATCACTGATTCAACTC
CATATACGATGAATCGAGCAAAGGTTAAAAAATTTCTTCTCATTATGAACTTCTTCTCCCTCTAT
CGAATGAGTTCTTCTCATTATGAACTCCCAATTGGAAATGTAAATCCCTCAAGTAAGGTATCACT
GATTCAACAATATCGATGAATAGAGCAAAGGTTGAACAAGTTATTCTCA
Found at i:5995445 original size:140 final size:135
Alignment explanation
Indices: 5995174--5995759 Score: 762
Period size: 140 Copynumber: 4.3 Consensus size: 135
5995164 AGGTTGAACA
* *
5995174 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGTCATTACTGATTCA
1 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCACTGATTCA
* *
5995239 AAATACGATGAATCGAGAAAAGG-TAGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTAT
66 AAATACGATGAATCGAGCAAAGGTTA-AAAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTAT
5995303 CGGATG
130 CGGATG
* *
5995309 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCTTCAAGTGAGGCATCATTGATTCC
1 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCACTGATT-C
** *
5995374 ACTCCCTATACGATGAATCGAGCAAAGGTTAAAAAATTTCTTCTCATTATGAACTTCTTCTCCCT
65 A----AAATACGATGAATCGAGCAAAGGTTAAAAAAGTTCTTCTCATTATGAACTTCTTCTCCCT
5995439 CTATCGGATG
126 CTATCGGATG
* * * *
5995449 AGTTTTTCTCATTATGAACTCCCCATTGGAAATGTTAATCCCTCAAGTAAGGTATCACTGATTCA
1 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCACTGATTCA
* * * * *
5995514 ACTCTATATGCGATGAATCGAGCAAAGGTTGAACAAGTTCTTCTCACTATGAGA-TTCTTCTCCA
66 A----A-ATACGATGAATCGAGCAAAGGTTAAAAAAGTTCTTCTCATTATGA-ACTTCTTCTCCC
5995578 TCTATCGGATG
125 TCTATCGGATG
** ** *
5995589 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGTGTCGTTGAGTCA
1 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCACTGATTCA
* * * * * *
5995654 AAATACGACGAATCGAGCAAAGGTTGAACAAGTTTTTCTCATTATGAACTTCTTCTTCTTCTATC
66 AAATACGATGAATCGAGCAAAGGTTAAAAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATC
5995719 GGATG
131 GGATG
* * *
5995724 AGTTCTTCTGATTATGAACTCTACATTGGAAATGTT
1 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTT
5995760 GATTGGTTTA
Statistics
Matches: 399, Mismatches: 39, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
134 1 0.00
135 152 0.38
136 3 0.01
139 2 0.01
140 238 0.60
141 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (135 bp):
AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCACTGATTCA
AAATACGATGAATCGAGCAAAGGTTAAAAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATC
GGATG
Found at i:5995707 original size:275 final size:272
Alignment explanation
Indices: 5995174--5995759 Score: 822
Period size: 275 Copynumber: 2.1 Consensus size: 272
5995164 AGGTTGAACA
* *
5995174 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGTCATTACTGATTCA
1 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTAAGTCATCACTGATTCA
* *
5995239 AAATACGATGAATCGAGAAAAGGTAGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATC
66 AAATACGATGAATCGAGAAAAGGTAGAACAAGTTCTTCTCACTATGAACTTCTTCTCCATCTATC
*
5995304 GGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCTTCAAGTGAGGCATCATTG
131 GGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCATTG
* ** *
5995369 ATTCCACTCCCTATACGATGAATCGAGCAAAGGTTAAAAAATTTCTTCTCATTATGAACTTCTTC
196 AGTCCA---CAAATACGACGAATCGAGCAAAGGTTAAAAAATTTCTTCTCATTATGAACTTCTTC
5995434 TCCCTCTATCGGATG
258 TCCCTCTATCGGATG
* *
5995449 AGTTTTTCTCATTATGAACTCCCCATTGGAAATGTTAATCCCTCAAGTAAGGT-ATCACTGATTC
1 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTAA-GTCATCACTGATTC
* * *
5995513 AACTCTATATGCGATGAATCGAGCAAAGGTTGAACAAGTTCTTCTCACTATGAGA-TTCTTCTCC
65 AA----A-ATACGATGAATCGAGAAAAGGTAGAACAAGTTCTTCTCACTATGA-ACTTCTTCTCC
*
5995577 ATCTATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGT
124 ATCTATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGC
* * * *
5995642 GTCGTTGAGT-CA-AAATACGACGAATCGAGCAAAGGTTGAACAAGTTT-TTCTCATTATGAACT
189 ATCATTGAGTCCACAAATACGACGAATCGAGCAAAGGTT-AAAAAATTTCTTCTCATTATGAACT
* *
5995704 TCTTCTTCTTCTATCGGATG
253 TCTTCTCCCTCTATCGGATG
* * *
5995724 AGTTCTTCTGATTATGAACTCTACATTGGAAATGTT
1 AGTTATTCTCATTATGAACTCTCCATTGGAAATGTT
5995760 GATTGGTTTA
Statistics
Matches: 278, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
275 146 0.53
276 9 0.03
279 3 0.01
280 119 0.43
281 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (272 bp):
AGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTAAGTCATCACTGATTCA
AAATACGATGAATCGAGAAAAGGTAGAACAAGTTCTTCTCACTATGAACTTCTTCTCCATCTATC
GGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGTGAGGCATCATTG
AGTCCACAAATACGACGAATCGAGCAAAGGTTAAAAAATTTCTTCTCATTATGAACTTCTTCTCC
CTCTATCGGATG
Found at i:6018766 original size:20 final size:19
Alignment explanation
Indices: 6018722--6018771 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
6018712 ACAATTTTTT
* *
6018722 TATGAATAGTATTATACTG
1 TATGAATAGTATGATACTC
6018741 TATGAATAGTATCGATACTC
1 TATGAATAGTAT-GATACTC
* *
6018761 TGTGAACAGTA
1 TATGAATAGTA
6018772 ATAAACAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (19 bp):
TATGAATAGTATGATACTC
Found at i:6022192 original size:13 final size:13
Alignment explanation
Indices: 6022174--6022198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6022164 ACATAAATAA
6022174 ATAAAATTAAAAG
1 ATAAAATTAAAAG
6022187 ATAAAATTAAAA
1 ATAAAATTAAAA
6022199 TGCATAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
ATAAAATTAAAAG
Found at i:6030226 original size:3 final size:3
Alignment explanation
Indices: 6030220--6030288 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
6030210 GGCTAACAAC
6030220 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6030268 ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
6030289 TATATTTAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6035719 original size:85 final size:85
Alignment explanation
Indices: 6035569--6035736 Score: 237
Period size: 85 Copynumber: 2.0 Consensus size: 85
6035559 AAATACAATC
** * * *
6035569 ATGACACATGAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATTACACGCAATGTAAGTCA
1 ATGACACACAAATATGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGCAAGTCA
* **
6035634 TACATGCGTGTCATAAATTT
66 TAAATGCACGTCATAAATTT
* **
6035654 ATGACACACAAATATGTGTCATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATGCGCGTCA
1 ATGACACACAAATATGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGCAAGTCA
6035719 TAAATGCACGTCATAAAT
66 TAAATGCACGTCATAAAT
6035737 GAGCGTCATA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (85 bp):
ATGACACACAAATATGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGCAAGTCA
TAAATGCACGTCATAAATTT
Found at i:6035730 original size:13 final size:13
Alignment explanation
Indices: 6035708--6035749 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
6035698 AATGACGCGC
*
6035708 AATGCGCGTCATA
1 AATGCACGTCATA
6035721 AATGCACGTCATA
1 AATGCACGTCATA
6035734 AATG-AGCGTCATA
1 AATGCA-CGTCATA
6035747 AAT
1 AAT
6035750 TTTCGTCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 1 0.04
13 26 0.96
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (13 bp):
AATGCACGTCATA
Found at i:6039236 original size:42 final size:42
Alignment explanation
Indices: 6039189--6039317 Score: 97
Period size: 42 Copynumber: 3.1 Consensus size: 42
6039179 CCTGTGATAT
6039189 TAAGAGTTACTTCTATTGTCTTCGAAAGTATGATTGTTTTGC
1 TAAGAGTTACTTCTATTGTCTTCGAAAGTATGATTGTTTTGC
* ** * * * * ** * **
6039231 TAAGAGGT--TTAAACTCGAAC-T-G-CAGTTTGCCTGTTATAT
1 TAAGAGTTACTTCTA-TTG-TCTTCGAAAGTATGATTGTTTTGC
6039270 TAAGAGTTACTTCTATTGTCTTCGAAAGTATGATTGTTTTGC
1 TAAGAGTTACTTCTATTGTCTTCGAAAGTATGATTGTTTTGC
6039312 TAAGAG
1 TAAGAG
6039318 GTTTAAACTC
Statistics
Matches: 56, Mismatches: 24, Indels: 14
0.60 0.26 0.15
Matches are distributed among these distances:
39 18 0.32
40 7 0.12
41 7 0.12
42 24 0.43
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.41
Consensus pattern (42 bp):
TAAGAGTTACTTCTATTGTCTTCGAAAGTATGATTGTTTTGC
Done.