Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003067.1 Hibiscus syriacus cultivar Beakdansim tig00006394_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: 82536
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:59 original size:4 final size:4
Alignment explanation
Indices: 50--82 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
40 GTATATAGTA
50 TATT TATT TATT TATT TA-T TATTT TATT TATT T
1 TATT TATT TATT TATT TATT TA-TT TATT TATT T
83 TTCTTTGCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 21 0.78
5 3 0.11
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:291 original size:19 final size:19
Alignment explanation
Indices: 269--305 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
259 TTTTTTCATT
*
269 TATTTATTATTATTATTAC
1 TATTTAGTATTATTATTAC
*
288 TATTTAGTATTTTTATTA
1 TATTTAGTATTATTATTA
306 TATATACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTTAGTATTATTATTAC
Found at i:311 original size:2 final size:2
Alignment explanation
Indices: 304--351 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
294 GTATTTTTAT
* * *
304 TA TA TA TA CA TA TA TT TT TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
345 TA TA TA T
1 TA TA TA T
352 GTTTATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:322 original size:22 final size:22
Alignment explanation
Indices: 295--351 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
285 TACTATTTAG
295 TATTTTTAT-TATATATACATA
1 TATTTTTATATATATATACATA
*
316 TATTTTTATATATATATATATA
1 TATTTTTATATATATATACATA
*
338 TA-TTATATATATAT
1 TATTTTTATATATAT
352 GTTTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTTTTATATATATATACATA
Found at i:367 original size:19 final size:19
Alignment explanation
Indices: 246--379 Score: 81
Period size: 21 Copynumber: 6.5 Consensus size: 19
236 TTTTTAGTTA
*
246 ATATTTATGTATATTTTTTCAT
1 ATATTTAT-TAT-TTTTAT-AT
* *
268 TTATTTATTATTATTAT-T
1 ATATTTATTATTTTTATAT
*
286 ACTATTTAGTATTTTTATTAT
1 A-TATTTATTATTTTTA-TAT
**
307 ATATACATATATTTTTATAT
1 ATATTTAT-TATTTTTATAT
*
327 ATATATATATATATTATATATAT
1 ATAT-T-TAT-TATT-TTTATAT
*
350 ATGTTTATTATTTTTATACT
1 ATATTTATTATTTTTATA-T
370 ATTATTTATT
1 A-TATTTATT
380 TTCATTATAT
Statistics
Matches: 88, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
18 1 0.01
19 18 0.20
20 22 0.25
21 23 0.26
22 15 0.17
23 9 0.10
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
ATATTTATTATTTTTATAT
Found at i:516 original size:20 final size:19
Alignment explanation
Indices: 476--524 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
466 TTTTAACTTC
*
476 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATCCA
495 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATCCA
515 A-TTATTTTAT
1 ATTTATTTTAT
525 GTTTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 10 0.38
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTATTTTATTTTATCCA
Found at i:2504 original size:17 final size:17
Alignment explanation
Indices: 2463--2534 Score: 83
Period size: 17 Copynumber: 4.2 Consensus size: 17
2453 ATTCATGCAT
2463 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
2480 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
2498 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
*
2515 CTAGTTCATTTATTAAA
1 CTAGTTCATTAATTAAA
2532 CTA
1 CTA
2535 ACTCTTAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
17 34 0.72
18 13 0.28
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:16198 original size:39 final size:39
Alignment explanation
Indices: 16155--16259 Score: 158
Period size: 39 Copynumber: 2.7 Consensus size: 39
16145 CTTGTTAAGG
*
16155 AGTTTTGACAAGACTAGATATTGGGTTGTATTCCCAAGA
1 AGTTTTGACAAGACTAGATATTGGGTTATATTCCCAAGA
* *
16194 AGTTTTGACAAGACTAGATATTGGGTTATCTTCCCAAGG
1 AGTTTTGACAAGACTAGATATTGGGTTATATTCCCAAGA
* *
16233 ATTTTTCA-AAGACTAGATATTGGGTTA
1 AGTTTTGACAAGACTAGATATTGGGTTA
16260 AAATATTCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
38 19 0.31
39 42 0.69
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (39 bp):
AGTTTTGACAAGACTAGATATTGGGTTATATTCCCAAGA
Found at i:18490 original size:13 final size:13
Alignment explanation
Indices: 18474--18498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18464 AAAGAGAACT
18474 TTGTAAATTAATC
1 TTGTAAATTAATC
18487 TTGTAAATTAAT
1 TTGTAAATTAAT
18499 GATCCAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTGTAAATTAATC
Found at i:22797 original size:7 final size:7
Alignment explanation
Indices: 22785--22841 Score: 91
Period size: 7 Copynumber: 8.4 Consensus size: 7
22775 GTCAAAGAAA
22785 GTCAACG
1 GTCAACG
22792 GTCAACG
1 GTCAACG
22799 GTC-ACG
1 GTCAACG
22805 GTCAACG
1 GTCAACG
22812 GTC-ACG
1 GTCAACG
22818 GTCAACG
1 GTCAACG
*
22825 GTCATCG
1 GTCAACG
22832 GTCAACG
1 GTCAACG
22839 GTC
1 GTC
22842 GGGTCGGGTC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 12 0.26
7 34 0.74
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:22807 original size:13 final size:13
Alignment explanation
Indices: 22789--22841 Score: 97
Period size: 13 Copynumber: 4.0 Consensus size: 13
22779 AAGAAAGTCA
22789 ACGGTCAACGGTC
1 ACGGTCAACGGTC
22802 ACGGTCAACGGTC
1 ACGGTCAACGGTC
22815 ACGGTCAACGGTC
1 ACGGTCAACGGTC
22828 ATCGGTCAACGGTC
1 A-CGGTCAACGGTC
22842 GGGTCGGGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
13 27 0.69
14 12 0.31
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:22810 original size:20 final size:21
Alignment explanation
Indices: 22785--22841 Score: 91
Period size: 20 Copynumber: 2.8 Consensus size: 21
22775 GTCAAAGAAA
22785 GTCAACGGTCAACGGTC-ACG
1 GTCAACGGTCAACGGTCAACG
22805 GTCAACGGTC-ACGGTCAACG
1 GTCAACGGTCAACGGTCAACG
*
22825 GTCATCGGTCAACGGTC
1 GTCAACGGTCAACGGTC
22842 GGGTCGGGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 6 0.18
20 22 0.65
21 6 0.18
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.18
Consensus pattern (21 bp):
GTCAACGGTCAACGGTCAACG
Found at i:22853 original size:17 final size:17
Alignment explanation
Indices: 22831--22888 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
22821 AACGGTCATC
22831 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
22848 GGTCAATGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
22865 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
22882 GGTCAAC
1 GGTCAAC
22889 CCGGTTCAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.16, C:0.22, G:0.43, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:22924 original size:29 final size:28
Alignment explanation
Indices: 22882--22946 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
22872 AGTCGGGTCG
* *
22882 GGTCAACCCGGTTC-AGACCGGTCCAGACC
1 GGTCAAACCGGTTCGA-ACCGGT-CAAACC
22911 GGTCAAACCGGTTCGAACCGGTCAAACC
1 GGTCAAACCGGTTCGAACCGGTCAAACC
22939 GGTTCAAA
1 GG-TCAAA
22947 ACTGGTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 7 0.22
29 24 0.75
30 1 0.03
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (28 bp):
GGTCAAACCGGTTCGAACCGGTCAAACC
Found at i:22929 original size:10 final size:10
Alignment explanation
Indices: 22884--22962 Score: 74
Period size: 10 Copynumber: 8.1 Consensus size: 10
22874 TCGGGTCGGG
*
22884 TCAACCCGGT
1 TCAAACCGGT
*
22894 TCAGACCGGT
1 TCAAACCGGT
* *
22904 CCAGACCGG-
1 TCAAACCGGT
22913 TCAAACCGGT
1 TCAAACCGGT
*
22923 TCGAACCGG-
1 TCAAACCGGT
22932 TCAAACCGGT
1 TCAAACCGGT
*
22942 TCAAAACTGGT
1 TC-AAACCGGT
22953 T-AAACCGGT
1 TCAAACCGGT
22962 T
1 T
22963 TTCCAGCAGC
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 23 0.40
10 26 0.46
11 8 0.14
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:22959 original size:20 final size:19
Alignment explanation
Indices: 22884--22962 Score: 77
Period size: 19 Copynumber: 4.1 Consensus size: 19
22874 TCGGGTCGGG
* *
22884 TCAACCCGGTTCAGACCGGT
1 TCAAACCGG-TCAAACCGGT
* *
22904 CCAGACCGGTCAAACCGGT
1 TCAAACCGGTCAAACCGGT
*
22923 TCGAACCGGTCAAACCGGT
1 TCAAACCGGTCAAACCGGT
* *
22942 TCAAAACTGGTTAAACCGGT
1 TC-AAACCGGTCAAACCGGT
22962 T
1 T
22963 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
19 27 0.56
20 21 0.44
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (19 bp):
TCAAACCGGTCAAACCGGT
Found at i:29970 original size:7 final size:7
Alignment explanation
Indices: 29958--30007 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
29948 GTCAAAGAAA
29958 GTCAACG
1 GTCAACG
29965 GTCAACG
1 GTCAACG
* *
29972 ATC-ACT
1 GTCAACG
29978 GTCAACG
1 GTCAACG
29985 GTC-ACG
1 GTCAACG
29991 GTCAACG
1 GTCAACG
29998 GTCAACG
1 GTCAACG
30005 GTC
1 GTC
30008 GGGTCGGGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 10 0.27
7 27 0.73
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:29983 original size:13 final size:13
Alignment explanation
Indices: 29962--30007 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
29952 AAGAAAGTCA
29962 ACGGTCAACGATC
1 ACGGTCAACGATC
* *
29975 ACTGTCAACGGTC
1 ACGGTCAACGATC
*
29988 ACGGTCAACGGTC
1 ACGGTCAACGATC
30001 AACGGTC
1 -ACGGTC
30008 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 23 0.79
14 6 0.21
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.17
Consensus pattern (13 bp):
ACGGTCAACGATC
Found at i:29983 original size:20 final size:20
Alignment explanation
Indices: 29958--30007 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
29948 GTCAAAGAAA
*
29958 GTCAACGGTCAACGATC-ACT
1 GTCAACGGTC-ACGATCAACG
*
29978 GTCAACGGTCACGGTCAACG
1 GTCAACGGTCACGATCAACG
29998 GTCAACGGTC
1 GTCAACGGTC
30008 GGGTCGGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.18
Consensus pattern (20 bp):
GTCAACGGTCACGATCAACG
Found at i:30019 original size:17 final size:17
Alignment explanation
Indices: 29997--30037 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
29987 CACGGTCAAC
*
29997 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
30014 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
30031 GGTCAAC
1 GGTCAAC
30038 CCGGTTCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:30055 original size:19 final size:20
Alignment explanation
Indices: 30031--30101 Score: 92
Period size: 19 Copynumber: 3.6 Consensus size: 20
30021 AGTCGGGTCG
*
30031 GGTCAACCCGGTTCAG-ACC
1 GGTCAAACCGGTTCAGAACC
*
30050 GGTCAAACCAGTTC-GAACC
1 GGTCAAACCGGTTCAGAACC
* *
30069 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTCAGAACC
30089 GGTCAAACCGGTT
1 GGTCAAACCGGTT
30102 TTCCAGCAGC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
18 1 0.02
19 28 0.62
20 16 0.36
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (20 bp):
GGTCAAACCGGTTCAGAACC
Found at i:30084 original size:10 final size:10
Alignment explanation
Indices: 30033--30101 Score: 63
Period size: 9 Copynumber: 7.1 Consensus size: 10
30023 TCGGGTCGGG
*
30033 TCAACCCGGT
1 TCAAACCGGT
*
30043 TCAGACCGG-
1 TCAAACCGGT
*
30052 TCAAACCAGT
1 TCAAACCGGT
*
30062 TCGAACCGG-
1 TCAAACCGGT
30071 TCAAACCGGT
1 TCAAACCGGT
*
30081 TCAAAACTGG-
1 TC-AAACCGGT
30091 TCAAACCGGT
1 TCAAACCGGT
30101 T
1 T
30102 TTCCAGCAGC
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
9 21 0.46
10 19 0.41
11 6 0.13
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:44862 original size:2 final size:2
Alignment explanation
Indices: 44855--44899 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
44845 TTTTATTTTG
44855 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44897 TA T
1 TA T
44900 CGATTAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46091 original size:6 final size:6
Alignment explanation
Indices: 46080--46115 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
46070 TGTTATACTA
*
46080 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TATTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
46116 ATGTATTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:46122 original size:18 final size:18
Alignment explanation
Indices: 46083--46122 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
46073 TATACTATTT
* * *
46083 TATTTTTATTTTTATTTT
1 TATTTTTATTATTATATG
46101 TATTTTTATTATTATATG
1 TATTTTTATTATTATATG
46119 TATT
1 TATT
46123 CTATTATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TATTTTTATTATTATATG
Found at i:46197 original size:8 final size:9
Alignment explanation
Indices: 46178--46229 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
46168 TTAAACCTTC
46178 TTTTCAACT
1 TTTTCAACT
*
46187 TTTTCAATT
1 TTTTCAACT
46196 TTCATTCTAACT
1 TT--TTC-AACT
46208 TTTTCAAC-
1 TTTTCAACT
*
46216 TTTTCAACC
1 TTTTCAACT
46225 TTTTC
1 TTTTC
46230 CTTTTAGCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 8 0.22
9 18 0.49
10 3 0.08
11 3 0.08
12 5 0.14
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTCAACT
Found at i:52349 original size:52 final size:52
Alignment explanation
Indices: 52284--52388 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
52274 AGGGGTTTGG
52284 AAAGCAGTTGCAAGGAATGATAAATCCA-CCCTTCCCATTTCGAAGCTAGATA
1 AAAGCAGTTGCAAGGAATGAT-AATCCAGCCCTTCCCATTTCGAAGCTAGATA
52336 AAAGCAGTTGCAAGGAATGATAATCCAGCCCTTCCCATTTCGAAGCTAGATA
1 AAAGCAGTTGCAAGGAATGATAATCCAGCCCTTCCCATTTCGAAGCTAGATA
52388 A
1 A
52389 GTTTGGGCTC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 6 0.12
52 46 0.88
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (52 bp):
AAAGCAGTTGCAAGGAATGATAATCCAGCCCTTCCCATTTCGAAGCTAGATA
Found at i:54784 original size:15 final size:14
Alignment explanation
Indices: 54739--54776 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
54729 ATATACATAG
*
54739 TTTTTCTACACGTT
1 TTTTTCAACACGTT
54753 TTTTTCAACACGTT
1 TTTTTCAACACGTT
54767 TTTTTCAACA
1 TTTTTCAACA
54777 TTCTTTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (14 bp):
TTTTTCAACACGTT
Found at i:56629 original size:12 final size:12
Alignment explanation
Indices: 56597--56636 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
56587 TGCGGGAAAA
56597 TTAAAATC-A-T
1 TTAAAATCTATT
56607 TT-AAATCTATT
1 TTAAAATCTATT
*
56618 TTAAAATTTATT
1 TTAAAATCTATT
56630 TTAAAAT
1 TTAAAAT
56637 ATAGATTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 5 0.19
10 3 0.12
11 3 0.12
12 15 0.58
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAAAATCTATT
Found at i:56648 original size:22 final size:22
Alignment explanation
Indices: 56623--57065 Score: 434
Period size: 22 Copynumber: 20.6 Consensus size: 22
56613 CTATTTTAAA
*
56623 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
56645 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
***
56667 ATTTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGATTG
56689 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
56711 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
* *
56733 ATTTATTTTAAAATATGAAAAT-
1 ATTTATTTTAAAATATG-GATTG
* *
56755 ATTTATTTTAAAATATGAATTT
1 ATTTATTTTAAAATATGGATTG
**
56777 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
56798 ATTTTATTTTAAAATATGGATTG
1 A-TTTATTTTAAAATATGGATTG
*
56821 ATTTATTTTAAAATATGGATTT
1 ATTTATTTTAAAATATGGATTG
*
56843 ATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAAATATGGATTG
*
56865 ATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAAATATGGATTG
56887 ATTTATTTTAAAATAT--A-T-
1 ATTTATTTTAAAATATGGATTG
*** ** *
56905 -TTTAAAATATGGAT-T-GATTT
1 ATTTATTTTA-AAATATGGATTG
*** ** *
56925 ATTTTAAAATATGGAT-T-GATTT
1 A-TTTATTTTA-AAATATGGATTG
*
56947 ATTT-T---AAAATATGGGA--A
1 ATTTATTTTAAAATAT-GGATTG
56964 ATTTTATTTTAAAATATGGATTG
1 A-TTTATTTTAAAATATGGATTG
**
56987 ATTTATTTTAAAATATAAATTG
1 ATTTATTTTAAAATATGGATTG
57009 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
57031 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
*
57053 ATTTATTTAAAAA
1 ATTTATTTTAAAA
57066 AAAATATTAT
Statistics
Matches: 367, Mismatches: 34, Indels: 40
0.83 0.08 0.09
Matches are distributed among these distances:
16 2 0.01
17 10 0.03
18 6 0.02
19 5 0.01
20 1 0.00
21 10 0.03
22 329 0.90
23 4 0.01
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:56672 original size:44 final size:44
Alignment explanation
Indices: 56623--57065 Score: 590
Period size: 44 Copynumber: 10.3 Consensus size: 44
56613 CTATTTTAAA
*
56623 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
***
56667 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
* *
56711 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAT-
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATG-GATTG
* * **
56755 ATTTATTTTAAAATATGAATTTATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
*
56798 ATTTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTT
1 A-TTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
* *
56843 ATTTATTTTAAAATATTGATTGATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
56887 ATTTATTTT--AA-A---A-T-A--TATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
*
56921 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGGA--A
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATAT-GGATTG
**
56964 ATTTTATTTTAAAATATGGATTGATTTATTTTAAAATATAAATTG
1 A-TTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
*
57009 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
*
57053 ATTTATTTAAAAA
1 ATTTATTTTAAAA
57066 AAAATATTAT
Statistics
Matches: 354, Mismatches: 27, Indels: 36
0.85 0.06 0.09
Matches are distributed among these distances:
34 27 0.08
36 3 0.01
37 2 0.01
38 1 0.00
40 1 0.00
41 2 0.01
42 3 0.01
43 4 0.01
44 304 0.86
45 7 0.02
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (44 bp):
ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
Found at i:56697 original size:66 final size:66
Alignment explanation
Indices: 56623--57065 Score: 556
Period size: 66 Copynumber: 6.9 Consensus size: 66
56613 CTATTTTAAA
*
56623 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAA
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAA
*
56688 A
66 G
*
56689 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAA
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAA
*
56754 T
66 G
* * ** *
56755 ATTTATTTTAAAATATGAATTTATTTATTTTAAAATATGGA-AAATTTTATTTTAAAATATGGAT
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGA-TTTATTTTAAAATATGGAA
*
56819 TG
65 AG
* * * **
56821 ATTTATTTTAAAATATGGATTTATTTATTTTAAAATATTGATTGATTTATTTTAAAATATTGATT
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAA
56886 G
66 G
**
56887 ATTTATTTT--AA-A---A-T-A--TATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAA
56942 G
66 G
*
56943 ATTTATTTTAAAATATGGGA--AATTTTATTTTAAAATATGGATTGATTTATTTTAAAATAT--A
1 ATTTATTTTAAAATAT-GGATTGA-TTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGA
57004 AATTG
64 AA--G
* *
57009 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAATTGATTTATTTAAAAA
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
57066 AAAATATTAT
Statistics
Matches: 337, Mismatches: 23, Indels: 34
0.86 0.06 0.09
Matches are distributed among these distances:
56 48 0.14
58 3 0.01
59 2 0.01
60 1 0.00
63 3 0.01
64 3 0.01
65 4 0.01
66 271 0.80
67 2 0.01
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (66 bp):
ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAA
G
Found at i:56905 original size:12 final size:12
Alignment explanation
Indices: 56890--56914 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56880 TTGATTGATT
56890 TATTTTAAAATA
1 TATTTTAAAATA
56902 TATTTTAAAATA
1 TATTTTAAAATA
56914 T
1 T
56915 GGATTGATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTTTAAAATA
Found at i:56911 original size:34 final size:34
Alignment explanation
Indices: 56868--56936 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
56858 TTGATTGATT
*
56868 TATTTTAAAATATTGATTGATTTATTTTAAAATA
1 TATTTTAAAATATGGATTGATTTATTTTAAAATA
56902 TATTTTAAAATATGGATTGATTTATTTTAAAATA
1 TATTTTAAAATATGGATTGATTTATTTTAAAATA
56936 T
1 T
56937 GGATTGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (34 bp):
TATTTTAAAATATGGATTGATTTATTTTAAAATA
Found at i:57169 original size:17 final size:17
Alignment explanation
Indices: 57134--57169 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57124 GTTTAAAAAA
*
57134 TCAGTTTATTTTATATT
1 TCAGTTTATTTTAGATT
*
57151 TCAGTTTATTTTAGCTT
1 TCAGTTTATTTTAGATT
57168 TC
1 TC
57170 TGCAGACGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.61
Consensus pattern (17 bp):
TCAGTTTATTTTAGATT
Found at i:60807 original size:13 final size:14
Alignment explanation
Indices: 60789--60826 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
60779 TAAGGTCTTT
60789 AATCTAATCT-ATG
1 AATCTAATCTAATG
60802 AATCTAATCTAATG
1 AATCTAATCTAATG
60816 -ATCTAAT-TAAT
1 AATCTAATCTAAT
60827 AAAGTTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 4 0.17
13 17 0.71
14 3 0.12
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.39
Consensus pattern (14 bp):
AATCTAATCTAATG
Found at i:61100 original size:17 final size:17
Alignment explanation
Indices: 61078--61135 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
61068 CAATCATGTA
*
61078 TAATAACTAAATACATT
1 TAATAAATAAATACATT
61095 TAATAAATAAATACATT
1 TAATAAATAAATACATT
61112 TAATAAATAAATACATT
1 TAATAAATAAATACATT
61129 TAATAAA
1 TAATAAA
61136 AATTAAACAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (17 bp):
TAATAAATAAATACATT
Found at i:63802 original size:14 final size:14
Alignment explanation
Indices: 63785--63835 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
63775 CCTGAACCTG
63785 AAAAGGTAATAATT
1 AAAAGGTAATAATT
63799 AAAAGGGTGAACT-ATT
1 AAAA-GGT-AA-TAATT
63815 GAAAAGGTAATAATT
1 -AAAAGGTAATAATT
63830 AAAAGG
1 AAAAGG
63836 GTGAACTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 11 0.34
15 8 0.25
16 8 0.25
17 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.24
Consensus pattern (14 bp):
AAAAGGTAATAATT
Found at i:63818 original size:31 final size:31
Alignment explanation
Indices: 63783--63845 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
63773 AACCTGAACC
63783 TGAAAAGGTAATAATTAAAAGGGTGAACTAT
1 TGAAAAGGTAATAATTAAAAGGGTGAACTAT
63814 TGAAAAGGTAATAATTAAAAGGGTGAACTAT
1 TGAAAAGGTAATAATTAAAAGGGTGAACTAT
63845 T
1 T
63846 AAGCCCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.03, G:0.22, T:0.27
Consensus pattern (31 bp):
TGAAAAGGTAATAATTAAAAGGGTGAACTAT
Found at i:64263 original size:36 final size:36
Alignment explanation
Indices: 64216--64613 Score: 390
Period size: 36 Copynumber: 11.1 Consensus size: 36
64206 TGAGTAAAAG
* * *
64216 ATCATGCATATAACCACCAATAGAAAGAACATGTAT
1 ATCATGCATATAATCATCAATAGAAAGCACATGTAT
* **
64252 ATCATGCATATAATCATTAATATCAAGCACATGTAT
1 ATCATGCATATAATCATCAATAGAAAGCACATGTAT
* **
64288 ATCATGTATATAATCATCGGTAGTAAA-CACATGTAT
1 ATCATGCATATAATCATCAATAG-AAAGCACATGTAT
* * *
64324 ATCATACATATAATCATTAATA-ACAAGTACATGTAT
1 ATCATGCATATAATCATCAATAGA-AAGCACATGTAT
* * * * *
64360 ATCATTCATATTATAATCAGTAGGAAGCACATGTAT
1 ATCATGCATATAATCATCAATAGAAAGCACATGTAT
* * * *
64396 ATCATGCATAT-TTCATCAGTAGCAAGCACATTTAT
1 ATCATGCATATAATCATCAATAGAAAGCACATGTAT
* * *
64431 ATCATGCATAT-TTCATCAGTAGAAAACACATGTAT
1 ATCATGCATATAATCATCAATAGAAAGCACATGTAT
** * * *
64466 ATCATGCATATGTTCATCAATAGCAAGCACGTTTAT
1 ATCATGCATATAATCATCAATAGAAAGCACATGTAT
* * * *
64502 ATTATGTATATAATCCTCAATAGCAAGCACATGTAT
1 ATCATGCATATAATCATCAATAGAAAGCACATGTAT
* * *
64538 ATCATGCATATAATCATCAGTCGCAAGCACATGTAT
1 ATCATGCATATAATCATCAATAGAAAGCACATGTAT
* * * *
64574 ATCTTGCATATAATCATCATTAGAAAGCGCATGCAT
1 ATCATGCATATAATCATCAATAGAAAGCACATGTAT
64610 ATCA
1 ATCA
64614 CACATAGGAA
Statistics
Matches: 300, Mismatches: 57, Indels: 10
0.82 0.16 0.03
Matches are distributed among these distances:
34 1 0.00
35 65 0.22
36 232 0.77
37 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (36 bp):
ATCATGCATATAATCATCAATAGAAAGCACATGTAT
Found at i:65115 original size:2 final size:2
Alignment explanation
Indices: 65108--65134 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65098 GCATTACGGA
65108 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
65135 ATCTTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65443 original size:19 final size:19
Alignment explanation
Indices: 65421--65523 Score: 82
Period size: 19 Copynumber: 5.4 Consensus size: 19
65411 TAAAATGTAA
*
65421 TTTCCAACAAAAAATCCAG
1 TTTCCAACAAAAAATCTAG
* *
65440 TTTCCAATC-AAAAATTTGG
1 TTTCCAA-CAAAAAATCTAG
**
65459 TTTCCAACCTAAAATCTAG
1 TTTCCAACAAAAAATCTAG
* **
65478 TTGCCAACCTAAAATCTAG
1 TTTCCAACAAAAAATCTAG
* * *
65497 TTACTAACAAAAAATTTAG
1 TTTCCAACAAAAAATCTAG
*
65516 TTGCCAAC
1 TTTCCAAC
65524 CTAAAAAACC
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
18 1 0.01
19 66 0.97
20 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (19 bp):
TTTCCAACAAAAAATCTAG
Found at i:65463 original size:38 final size:38
Alignment explanation
Indices: 65412--65530 Score: 103
Period size: 38 Copynumber: 3.1 Consensus size: 38
65402 CTTACACCCT
* * * *
65412 AAAATGTAATTTCCAACAAAAAATCCAGTTTCCAATCA
1 AAAATCTAGTTTCCAACAAAAAATCCAGTTGCCAACCA
* * ** * *
65450 AAAATTTGGTTTCCAACCTAAAATCTAGTTGCCAACCT
1 AAAATCTAGTTTCCAACAAAAAATCCAGTTGCCAACCA
* * **
65488 AAAATCTAGTTACTAACAAAAAATTTAGTTGCCAACCTA
1 AAAATCTAGTTTCCAACAAAAAATCCAGTTGCCAACC-A
65527 AAAA
1 AAAA
65531 ACCTGGTTGT
Statistics
Matches: 63, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
38 59 0.94
39 4 0.06
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.28
Consensus pattern (38 bp):
AAAATCTAGTTTCCAACAAAAAATCCAGTTGCCAACCA
Found at i:65529 original size:19 final size:19
Alignment explanation
Indices: 65462--65529 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 19
65452 AATTTGGTTT
65462 CCAACCTAAAATCTAGTTG
1 CCAACCTAAAATCTAGTTG
*
65481 CCAACCTAAAATCTAGTTA
1 CCAACCTAAAATCTAGTTG
* ** *
65500 CTAACAAAAAATTTAGTTG
1 CCAACCTAAAATCTAGTTG
65519 CCAACCTAAAA
1 CCAACCTAAAA
65530 AACCTGGTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (19 bp):
CCAACCTAAAATCTAGTTG
Found at i:73654 original size:21 final size:22
Alignment explanation
Indices: 73630--73672 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
73620 TAATTCAATG
*
73630 GTATCAATA-TCAAATGTAGGA
1 GTATCAATACTCAAATGGAGGA
*
73651 GTATCGATACTCAAATGGAGGA
1 GTATCAATACTCAAATGGAGGA
73673 TTCAAGTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.26
Consensus pattern (22 bp):
GTATCAATACTCAAATGGAGGA
Found at i:74840 original size:39 final size:38
Alignment explanation
Indices: 74759--75053 Score: 343
Period size: 39 Copynumber: 7.7 Consensus size: 38
74749 CTACATAACG
* * *
74759 TATATAATATATAGTGTTGAAAGCATTTTTTTCG-AAAGTA
1 TATATAATATATAGTTTTGAAAACA--TTTTT-GAAAAATA
74799 TATATAATATATAGTTTTGAAAACATTTTTGAAAATATA
1 TATATAATATATAGTTTTGAAAACATTTTTGAAAA-ATA
* *
74838 TATACAATATATAGTTTTGAAAACATTTTTCAAAAATA
1 TATATAATATATAGTTTTGAAAACATTTTTGAAAAATA
* *
74876 TATATAATATATAATTTT-AAAACGTTTTTTG-AAAATA
1 TATATAATATATAGTTTTGAAAAC-ATTTTTGAAAAATA
74913 TATATAATATATAGTTTTGAAAACATTTTTGAAAATATA
1 TATATAATATATAGTTTTGAAAACATTTTTGAAAA-ATA
* * *
74952 TACATAATATATAGTTTTGAAAACATTTTTCAAAAAAA
1 TATATAATATATAGTTTTGAAAACATTTTTGAAAAATA
* *
74990 TATATAATATATA-TGTTT-AAAACGTTTTTTTG-GAAA-A
1 TATATAATATATAGT-TTTGAAAAC--ATTTTTGAAAAATA
75027 TATATAATATATAGTTTTGGAAAACAT
1 TATATAATATATAGTTTT-GAAAACAT
75054 ATATTATATA
Statistics
Matches: 224, Mismatches: 19, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
37 59 0.26
38 61 0.27
39 81 0.36
40 23 0.10
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (38 bp):
TATATAATATATAGTTTTGAAAACATTTTTGAAAAATA
Found at i:74841 original size:77 final size:75
Alignment explanation
Indices: 74759--75053 Score: 355
Period size: 77 Copynumber: 3.9 Consensus size: 75
74749 CTACATAACG
* *
74759 TATATAATATATAGTGTTGAAAGCATTTTTTTCGAAAGTATATATAATATATAGTTTTGAAAACA
1 TATATAATATATAGTGTTGAAAACA--TTTTTCGAAAATATATATAATATATAGTTTTGAAAACA
74824 TTTTTGAAAATA
64 TTTTTGAAAATA
* * *
74836 TATATACAATATATAGTTTTGAAAACATTTTTCAAAAATATATATAATATATAATTTT-AAAACG
1 TATAT--AATATATAGTGTTGAAAACATTTTTCGAAAATATATATAATATATAGTTTTGAAAAC-
*
74900 TTTTTTGAAAATA
63 ATTTTTGAAAATA
*
74913 TATATAATATATAGTTTTGAAAACATTTTT-GAAAATATATACATAATATATAGTTTTGAAAACA
1 TATATAATATATAGTGTTGAAAACATTTTTCGAAAATATAT--ATAATATATAGTTTTGAAAACA
* *
74977 TTTTTCAAAAAAA
64 TTTTT-GAAAATA
* * * *
74990 TATATAATATATA-TGTTTAAAACGTTTTTTTGGAAA-ATATATAATATATAGTTTTGGAAAACA
1 TATATAATATATAGTGTTGAAAAC-ATTTTTCGAAAATATATATAATATATAGTTTT-GAAAACA
75053 T
64 T
75054 ATATTATATA
Statistics
Matches: 193, Mismatches: 15, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
74 9 0.05
75 40 0.21
76 40 0.21
77 82 0.42
78 4 0.02
79 18 0.09
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (75 bp):
TATATAATATATAGTGTTGAAAACATTTTTCGAAAATATATATAATATATAGTTTTGAAAACATT
TTTGAAAATA
Found at i:74932 original size:114 final size:115
Alignment explanation
Indices: 74759--75053 Score: 461
Period size: 114 Copynumber: 2.6 Consensus size: 115
74749 CTACATAACG
* * * *
74759 TATATAATATATAGTGTTGAAAGCATTTTTTTCGAAAGTATATATAATATATAGTTTTGAAAACA
1 TATATAATATATA-TGTTTAAAACGTTTTTTT-GAAAATATATATAATATATAGTTTTGAAAACA
* *
74824 TTTTTGAAAATATATATACAATATATAGTTTTGAAAACATTTTTCAAAAATA
64 TTTTTGAAAATATATACACAATATATAGTTTTGAAAACATTTTTCAAAAAAA
74876 TATATAATATATAAT-TTTAAAACG-TTTTTTGAAAATATATATAATATATAGTTTTGAAAACAT
1 TATATAATATAT-ATGTTTAAAACGTTTTTTTGAAAATATATATAATATATAGTTTTGAAAACAT
*
74939 TTTTGAAAATATATACATAATATATAGTTTTGAAAACATTTTTCAAAAAAA
65 TTTTGAAAATATATACACAATATATAGTTTTGAAAACATTTTTCAAAAAAA
*
74990 TATATAATATATATGTTTAAAACGTTTTTTTGGAAA-ATATATAATATATAGTTTTGGAAAACAT
1 TATATAATATATATGTTTAAAACGTTTTTTTGAAAATATATATAATATATAGTTTT-GAAAACAT
75054 ATATTATATA
Statistics
Matches: 166, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
113 2 0.01
114 120 0.72
115 24 0.14
116 6 0.04
117 13 0.08
118 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (115 bp):
TATATAATATATATGTTTAAAACGTTTTTTTGAAAATATATATAATATATAGTTTTGAAAACATT
TTTGAAAATATATACACAATATATAGTTTTGAAAACATTTTTCAAAAAAA
Found at i:75044 original size:26 final size:24
Alignment explanation
Indices: 75017--75063 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
75007 TAAAACGTTT
*
75017 TTTTGGAAAATATATAATATATAG
1 TTTTGGAAAACATATAATATATAG
*
75041 TTTTGGAAAACATATATTATATA
1 TTTTGGAAAACATATAATATATA
75064 ATTTCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (24 bp):
TTTTGGAAAACATATAATATATAG
Found at i:75213 original size:16 final size:15
Alignment explanation
Indices: 75194--75228 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
75184 AGTTTAATTC
75194 ATTTTTATTTTATTTT
1 ATTTTTATTTT-TTTT
75210 ATTTTTATTTTTTTT
1 ATTTTTATTTTTTTT
75225 -TTTT
1 ATTTT
75229 CCCATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 4 0.21
16 11 0.58
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
ATTTTTATTTTTTTT
Found at i:77614 original size:17 final size:18
Alignment explanation
Indices: 77581--77615 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
77571 TTTTACTGAC
77581 TTGTTCTCCTTTCATTTT
1 TTGTTCTCCTTTCATTTT
*
77599 TTGTTCT-CTTTTATTTT
1 TTGTTCTCCTTTCATTTT
77616 ATCATTTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.71
Consensus pattern (18 bp):
TTGTTCTCCTTTCATTTT
Done.