Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006168.1 Hibiscus syriacus cultivar Beakdansim tig00014652_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: 53842
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Found at i:7514 original size:20 final size:20
Alignment explanation
Indices: 7491--7535 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
7481 TTAACTTTTT
*
7491 CTTTTCTCTTTC-TTCCTTAA
1 CTTTTCTATTTCATT-CTTAA
*
7511 CTTTTCTATTTCATTTTTAA
1 CTTTTCTATTTCATTCTTAA
7531 CTTTT
1 CTTTT
7536 ATTTTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTCTATTTCATTCTTAA
Found at i:10810 original size:23 final size:23
Alignment explanation
Indices: 10780--10828 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
10770 TGGTGGTTGG
*
10780 TTTAATGG-ATGTTTAGACTTTAT
1 TTTAATGGTATATTTA-ACTTTAT
*
10803 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
10826 TTT
1 TTT
10829 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:12423 original size:20 final size:21
Alignment explanation
Indices: 12384--12437 Score: 85
Period size: 20 Copynumber: 2.6 Consensus size: 21
12374 TTGTAGCTAT
12384 ATCTGCTGAAGC-ATTGGGAAG
1 ATCTGCTGAA-CTATTGGGAAG
12405 ATCTGCTGAACTA-TGGGAAG
1 ATCTGCTGAACTATTGGGAAG
12425 ATCTGCTGAACTA
1 ATCTGCTGAACTA
12438 GGAGAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (21 bp):
ATCTGCTGAACTATTGGGAAG
Found at i:16915 original size:12 final size:12
Alignment explanation
Indices: 16897--16926 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
16887 AAATGGTAAT
16897 AAAAAAATTAAGC
1 AAAAAAATTAA-C
16910 AAAAAAATTAAC
1 AAAAAAATTAAC
16922 AAAAA
1 AAAAA
16927 GTCCAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAAAATTAAC
Found at i:19283 original size:9 final size:9
Alignment explanation
Indices: 19269--19302 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
19259 TAAGTAAAAT
19269 ATTAAATAA
1 ATTAAATAA
19278 ATTAAAT-A
1 ATTAAATAA
*
19286 CTTAAATAA
1 ATTAAATAA
19295 ATTAAATA
1 ATTAAATA
19303 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:19301 original size:17 final size:17
Alignment explanation
Indices: 19265--19303 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
19255 TAATTAAGTA
19265 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
19281 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
19298 AAATAC
1 AAATAC
19304 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:19362 original size:10 final size:10
Alignment explanation
Indices: 19349--19378 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
19339 AGAGATTATA
*
19349 AGAGTATTTG
1 AGAGAATTTG
19359 AGAGAATTTG
1 AGAGAATTTG
19369 AGAGAATTTG
1 AGAGAATTTG
19379 GTGTGAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:21001 original size:2 final size:2
Alignment explanation
Indices: 20994--21045 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
20984 TTCAAGGTGG
20994 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
21036 AT AT AT AT AT
1 AT AT AT AT AT
21046 GTTATATGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25317 original size:20 final size:20
Alignment explanation
Indices: 25281--25319 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25271 TATTTATATA
*
25281 TTATTTTTTCAATTAAATTT
1 TTATTTTTTCAAATAAATTT
25301 TTATTTTATT-AAATAAATT
1 TTATTTT-TTCAAATAAATT
25320 AAAATCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTTTTCAAATAAATTT
Found at i:26923 original size:15 final size:17
Alignment explanation
Indices: 26906--26937 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26896 AATATCTAAA
26906 TTTAG-AAATATAAAAT
1 TTTAGAAAATATAAAAT
26922 TTTAGAAAATATAAAA
1 TTTAGAAAATATAAAA
26938 AATATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
TTTAGAAAATATAAAAT
Found at i:28129 original size:20 final size:20
Alignment explanation
Indices: 28035--28403 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
28025 GATTTTCCAT
* ** *
28035 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
28055 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
28075 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
28095 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
28115 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
28135 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
28155 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
28175 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
28195 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
28215 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
28235 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
28255 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
28275 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
28295 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
28315 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
28335 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
28355 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
28375 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
28395 AATCACAAC
1 AATCGCAAC
28404 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:29124 original size:24 final size:24
Alignment explanation
Indices: 29085--29131 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
29075 AAATTTGGTC
29085 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
29109 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
29132 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:29321 original size:12 final size:12
Alignment explanation
Indices: 29304--29328 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29294 ATATAATCCT
29304 GAAGAAGAAAAA
1 GAAGAAGAAAAA
29316 GAAGAAGAAAAA
1 GAAGAAGAAAAA
29328 G
1 G
29329 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:31625 original size:19 final size:19
Alignment explanation
Indices: 31603--31895 Score: 392
Period size: 19 Copynumber: 16.4 Consensus size: 19
31593 CGGAAAATAC
*
31603 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
31622 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
31636 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
31656 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
31670 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
31689 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
31708 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
31722 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
31741 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
31760 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
31779 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
31798 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
31817 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
31836 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
31850 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
31869 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
31888 AATCGCAA
1 AATCGCAA
31896 CGAGATAATC
Statistics
Matches: 245, Mismatches: 8, Indels: 42
0.83 0.03 0.14
Matches are distributed among these distances:
14 38 0.16
15 1 0.00
16 14 0.06
17 12 0.05
18 2 0.01
19 165 0.67
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:31718 original size:52 final size:55
Alignment explanation
Indices: 31631--31917 Score: 356
Period size: 52 Copynumber: 5.4 Consensus size: 55
31621 AAATCCCAAC
*
31631 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
31684 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
*
31736 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
31793 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
31848 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
31898 A-GATAATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAAT
31918 TATAAACGCA
Statistics
Matches: 222, Mismatches: 2, Indels: 21
0.91 0.01 0.09
Matches are distributed among these distances:
50 2 0.01
52 127 0.57
53 16 0.07
54 6 0.03
55 7 0.03
57 64 0.29
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:31814 original size:128 final size:128
Alignment explanation
Indices: 31603--31917 Score: 462
Period size: 128 Copynumber: 2.6 Consensus size: 128
31593 CGGAAAATAC
* *
31603 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
* *
31663 A--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
65 ATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
31722 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
31787 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
66 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
31850 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GATAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
31910 TGCGAAAT
66 TGCGAAAT
31918 TATAAACGCA
Statistics
Matches: 179, Mismatches: 7, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
119 24 0.13
121 1 0.01
123 34 0.19
124 17 0.09
125 2 0.01
126 2 0.01
127 1 0.01
128 98 0.55
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (128 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:31968 original size:19 final size:19
Alignment explanation
Indices: 31924--32021 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
31914 AAATTATAAA
31924 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
31943 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
31963 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
31979 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
31996 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
32015 CGCATTG
1 CGCATTG
32022 TGATAGTCAT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 32 0.45
20 19 0.27
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:32031 original size:19 final size:19
Alignment explanation
Indices: 31924--32033 Score: 86
Period size: 19 Copynumber: 6.0 Consensus size: 19
31914 AAATTATAAA
**
31924 CGCATTGCGATTTTCATTT
1 CGCATTGCGATAGTCATTT
**
31943 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATAGTCATTT
*
31963 CGCATTGCGAT--TC-TCT
1 CGCATTGCGATAGTCATTT
**
31979 CG--TTGCGATTTTCATTT
1 CGCATTGCGATAGTCATTT
**
31996 CGCATTGCGATTTTCATTT
1 CGCATTGCGATAGTCATTT
*
32015 CGCATTGTGATAGTCATTT
1 CGCATTGCGATAGTCATTT
32034 TTGCCTTCAA
Statistics
Matches: 80, Mismatches: 5, Indels: 11
0.83 0.05 0.11
Matches are distributed among these distances:
14 7 0.09
16 6 0.08
17 6 0.08
19 42 0.52
20 19 0.24
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
CGCATTGCGATAGTCATTT
Found at i:32148 original size:13 final size:14
Alignment explanation
Indices: 32132--32167 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
32122 CATCAATTAC
32132 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
*
32145 ACAAATCATCTTTT
1 ACAAATCAACTTTT
32159 ACAAATCAA
1 ACAAATCAA
32168 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:34087 original size:20 final size:19
Alignment explanation
Indices: 34062--34126 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 19
34052 TAGTTTACTT
*
34062 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
34082 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
34100 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
34119 TCGCAACG
1 TCGCAACG
34127 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 16 0.40
19 11 0.28
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:34121 original size:19 final size:19
Alignment explanation
Indices: 34062--34195 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
34052 TAGTTTACTT
* *
34062 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
34082 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATGAAAA
34100 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
34119 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
34133 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
34152 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
34166 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
34185 TCGCAATGCGA
1 TCGCAACGCGA
34196 TTTGGTTTCG
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
18 16 0.17
19 29 0.31
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:34136 original size:14 final size:14
Alignment explanation
Indices: 34117--34173 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
34107 GCGAAATGAA
*
34117 AATCGCAACGACAG
1 AATCGCAACGAAAG
34131 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
34148 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
34164 AATCGCAACG
1 AATCGCAACG
34174 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:34144 original size:33 final size:33
Alignment explanation
Indices: 34062--34190 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
34052 TAGTTTACTT
* * *
34062 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAA
1 TCGCAACGCGAAA-TGAAAATCGCAA--CGAAA--GAA
*
34100 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
*
34133 TCGCAATGCGAAATGAAAATCGCAACGAAAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
34166 TCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAATGAAAATCGCAA
34191 TGCGATTTGG
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
33 57 0.68
35 4 0.05
37 11 0.13
38 12 0.14
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
Found at i:34237 original size:34 final size:33
Alignment explanation
Indices: 34191--34282 Score: 134
Period size: 34 Copynumber: 2.8 Consensus size: 33
34181 AAAATCGCAA
34191 TGCGA-TTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
34223 TGCGATTTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGA-TTTTGGTTTCGCGTTGCGATTCTGTCGT
**
34257 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
34283 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
32 5 0.09
33 19 0.35
34 29 0.53
35 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:34245 original size:20 final size:19
Alignment explanation
Indices: 34191--34319 Score: 109
Period size: 19 Copynumber: 7.3 Consensus size: 19
34181 AAAATCGCAA
34191 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
34209 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
34223 TGCGATTTTTGGTTTCGCGT
1 TGCGA-TTTTGGTTTCGCGT
*
34243 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
34257 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
34276 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
34295 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
34315 TGCGA
1 TGCGA
34320 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
14 19 0.21
15 3 0.03
16 3 0.03
17 1 0.01
18 8 0.09
19 34 0.38
20 21 0.24
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:34541 original size:91 final size:93
Alignment explanation
Indices: 34363--34648 Score: 540
Period size: 93 Copynumber: 3.1 Consensus size: 93
34353 TTGAATGGAT
34363 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
34428 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
34456 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TA-TTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
34519 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
34547 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
34612 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
34640 AAATTTACT
1 AAATTTACT
34649 AAGCAATCTA
Statistics
Matches: 188, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
91 88 0.47
92 4 0.02
93 96 0.51
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:36384 original size:19 final size:19
Alignment explanation
Indices: 36360--36429 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
36350 GCAACGAGAG
* *
36360 AATCGCAACGCGAGATGAC
1 AATCGCAACGCGAAATGAA
36379 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
36398 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
36417 AATCGCAATGCGA
1 AATCGCAACGCGA
36430 TTTTGGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:36421 original size:38 final size:35
Alignment explanation
Indices: 36338--36429 Score: 107
Period size: 38 Copynumber: 2.6 Consensus size: 35
36328 TCTTTTGGTT
*
36338 GAAATGAAAATCGCAA-CG-AGAGAATCGCAACGC
1 GAAATGAAAATCGCAAGCGAAGAAAATCGCAACGC
* *
36371 GAGATGACAATCGCAACGCGAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAA-GCG-AA-GAAAATCGCAACGC
36409 GAAATGAAAATCGCAATGCGA
1 GAAATGAAAATCGCAA-GCGA
36430 TTTTGGTTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
33 14 0.29
35 2 0.04
37 2 0.04
38 30 0.62
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.11
Consensus pattern (35 bp):
GAAATGAAAATCGCAAGCGAAGAAAATCGCAACGC
Found at i:36460 original size:14 final size:14
Alignment explanation
Indices: 36441--36495 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
36431 TTTGGTTTCG
36441 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
36455 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
36474 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
36488 CGTTGCGA
1 CGTTGCGA
36496 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:36473 original size:33 final size:33
Alignment explanation
Indices: 36425--36495 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
36415 AAAATCGCAA
**
36425 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
36458 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
36491 TGCGA
1 TGCGA
36496 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:36503 original size:33 final size:33
Alignment explanation
Indices: 36436--36517 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
36426 GCGATTTTGG
***
36436 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
36469 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
36502 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
36518 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:36522 original size:20 final size:20
Alignment explanation
Indices: 36448--36536 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
36438 TCGCGTTGCG
36448 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
36468 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
36481 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
36501 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
36521 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
36537 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:36657 original size:33 final size:33
Alignment explanation
Indices: 36615--36685 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
36605 AATACTAACT
*
36615 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
36648 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
36681 TGAAA
1 TGAAA
36686 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:36898 original size:25 final size:25
Alignment explanation
Indices: 36870--36922 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 25
36860 TGTGAGGGAT
36870 TTCGCCGGAGATGGGGACGGAAATC
1 TTCGCCGGAGATGGGGACGGAAATC
**
36895 TT---C-GAGATGGGGACGGATTTC
1 TTCGCCGGAGATGGGGACGGAAATC
36916 TTCGCCG
1 TTCGCCG
36923 TAGAGAGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 8
0.69 0.06 0.25
Matches are distributed among these distances:
21 18 0.82
22 1 0.05
24 1 0.05
25 2 0.09
ACGTcount: A:0.19, C:0.21, G:0.38, T:0.23
Consensus pattern (25 bp):
TTCGCCGGAGATGGGGACGGAAATC
Found at i:37088 original size:20 final size:20
Alignment explanation
Indices: 37063--37255 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
37053 CTTTAAATAT
37063 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
37083 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
37105 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
37124 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
37144 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
37164 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
37184 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
37204 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
37224 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
37244 CGCGTTGCGATT
1 CGCGTTGCGATT
37256 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:37250 original size:60 final size:60
Alignment explanation
Indices: 37063--37255 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
37053 CTTTAAATAT
**
37063 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
37124 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
37184 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
37244 CGCGTTGCGATT
1 CGCGTTGCGATT
37256 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:37336 original size:20 final size:20
Alignment explanation
Indices: 37311--37362 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
37301 AAGAATCGCG
*
37311 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
37331 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
37351 TTGCGATTCTGG
1 TTGCGATTCTGG
37363 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:38585 original size:64 final size:64
Alignment explanation
Indices: 38502--38625 Score: 164
Period size: 64 Copynumber: 1.9 Consensus size: 64
38492 ATGCACTCTT
* *
38502 TTAAAATAAAAACATCGAATGCA-ATTAGTGCATCGATGCATAAGGCA-TGCATCGATGCATCCC
1 TTAAAATAAAAACATCGAATGCATATTA-TGCACCGATGCACAA-GCAGTGCATCGATGCATCCC
38565 A
64 A
* *
38566 TTAATAAT-AAAACATCGAATGCATTTTATGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TTAA-AATAAAAACATCGAATGCATATTATGCACCGATGCACAAGCAGTGCATCGATGCAT
38626 ACCTTCATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
63 2 0.04
64 45 0.85
65 6 0.11
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (64 bp):
TTAAAATAAAAACATCGAATGCATATTATGCACCGATGCACAAGCAGTGCATCGATGCATCCCA
Found at i:45440 original size:64 final size:64
Alignment explanation
Indices: 45339--45462 Score: 171
Period size: 64 Copynumber: 1.9 Consensus size: 64
45329 ATGCACTCTT
* * *
45339 TTAAAATAAAAACATCGAATGCAATTAGTGCATCGATGCATAAGGATTGCATCGATGCATCCCA
1 TTAAAATAAAAACATCGAATGCAATTAGTGCACCGATGCACAAGGAGTGCATCGATGCATCCCA
* *
45403 TTAATAAT-AAAACATCGAATGCATTTTA-TGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TTAA-AATAAAAACATCGAATGCA-ATTAGTGCACCGATGCACAAGGAGTGCATCGATGCAT
45463 ACCTTCATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
64 47 0.89
65 6 0.11
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (64 bp):
TTAAAATAAAAACATCGAATGCAATTAGTGCACCGATGCACAAGGAGTGCATCGATGCATCCCA
Found at i:50635 original size:8 final size:8
Alignment explanation
Indices: 50622--50662 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
50612 CTTATTTTCA
50622 GAGAATTT
1 GAGAATTT
50630 GAGAATTT
1 GAGAATTT
*
50638 -AGAGTTT
1 GAGAATTT
*
50645 GGGAATTT
1 GAGAATTT
50653 GAGAATTT
1 GAGAATTT
50661 GA
1 GA
50663 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:51136 original size:128 final size:128
Alignment explanation
Indices: 50743--51594 Score: 1406
Period size: 128 Copynumber: 6.7 Consensus size: 128
50733 ACTATTCACA
* *
50743 TGAAGGCGCATTCCCGGGGGCGCTCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
50808 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTATCTATTATTTCTTAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
50871 TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTA-TTTGTCAGAG-A-ATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
50933 TTATGTCACTCATGTCCCT--GGGATACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
50994 TGAAGGCGCGTTCCCGGGGGCGCGCATTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* * *
51059 TTATGTCACTCATGTCCCTCGGGGACACTAGAT-ATATTAGTACCTATTATTTCTCAAGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTA-TTCATATCAGTACCTATTATTTCTCAGGGGACT
*
51122 TGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
51187 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA-TTCTC-GGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* * *
51248 TGAAGGCGCGTTCTCGGGGGCGCACCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* * * *
51313 TTATGTCA-TCATATCCCTCGGGGACACTAGAT-ATATCCGTACCTATTATTTATCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTA-TTCATATCAGTACCTATTATTTCTCAGGGGACT
*
51375 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTTCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
51440 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCA-TACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
51502 TGAAGGTGCGTT-CCGGGGGCGCG-CTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
51565 TTATGTCACTCATGTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
51595 GATGGATTGT
Statistics
Matches: 676, Mismatches: 36, Indels: 27
0.91 0.05 0.04
Matches are distributed among these distances:
123 71 0.11
124 10 0.01
125 140 0.21
126 128 0.19
127 126 0.19
128 200 0.30
129 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:51445 original size:253 final size:255
Alignment explanation
Indices: 50743--51597 Score: 1426
Period size: 253 Copynumber: 3.4 Consensus size: 255
50733 ACTATTCACA
*
50743 TGAAGGCGCATTCCCGGGGGCGCTCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGC-CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* * *
50808 TTATGTCACTCATGTCCCTCGGGGACACTA-TTCATATCAGTATCTATTATTTCTTAGGGGACTT
65 TTATGTCACTCATGTCCCTCGGGGACACTAGAT-ATATCAGTACCTATTATTTCTCAGGGGACTT
*
50872 GAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTA-TTTGTCAGAG-A-ATGTTATCATTGCCCTAT
129 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
*
50934 TATGTCACTCATGTCCCT--GGGATACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
194 TATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
50994 TGAAGGCGCGTTCCCGGGGGCGCGCATTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGC-CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
51059 TTATGTCACTCATGTCCCTCGGGGACACTAGATATATTAGTACCTATTATTTCTCAAGGGACTTG
65 TTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGACTTG
*
51124 AAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
130 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
51189 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTA-TTCTC-GGGGACT
195 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
51248 TGAAGGCGCGTTCTCGGGGGCGCACCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGC-CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* * *
51313 TTATGTCA-TCATATCCCTCGGGGACACTAGATATATCCGTACCTATTATTTATCAGGGGACTTG
65 TTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGACTTG
*
51377 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTTCCCTATT
130 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
51442 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCA-TACCTATTATTTCTCAGGGGACT
195 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* * *
51502 TGAAGGTGCGTT-CCGGGGGCGCGCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTAT
1 TGAAGGCGCGTTCCCGGGGGCGCCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
51566 TATGTCACTCATGTCCCTCGGGGACACTAGAT
66 TATGTCACTCATGTCCCTCGGGGACACTAGAT
51598 GGATTGTGAA
Statistics
Matches: 567, Mismatches: 28, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
251 150 0.26
252 66 0.12
253 189 0.33
254 130 0.23
255 5 0.01
256 27 0.05
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (255 bp):
TGAAGGCGCGTTCCCGGGGGCGCCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGACTTGA
AGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
TGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:52616 original size:20 final size:21
Alignment explanation
Indices: 52555--52626 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
52545 TATGGTATAA
*
52555 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
52576 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
52597 AACCCTGCGGGCT-CGAATGT
1 AACCCTGCGGGCTAGGAATGT
52617 AACCCTGCGG
1 AACCCTGCGG
52627 AGATGGTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.40
21 25 0.53
22 3 0.06
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Done.