Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004119.1 Hibiscus syriacus cultivar Beakdansim tig00009015_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: 89348
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:816 original size:14 final size:14
Alignment explanation
Indices: 778--808 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
768 ATTGCTGCTA
778 AGAGATATAAATTG
1 AGAGATATAAATTG
792 AGAGATATAAATTG
1 AGAGATATAAATTG
806 AGA
1 AGA
809 TATCTAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (14 bp):
AGAGATATAAATTG
Found at i:1356 original size:3 final size:3
Alignment explanation
Indices: 1348--1428 Score: 155
Period size: 3 Copynumber: 27.3 Consensus size: 3
1338 TTTTTCTTAA
1348 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1395 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1429 ATTACAAGCC
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 75 0.97
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:5428 original size:14 final size:14
Alignment explanation
Indices: 5392--5430 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
5382 TTCATATATG
5392 CATTTT-CATTTTC
1 CATTTTGCATTTTC
*
5405 CATCTTTGCATTTTT
1 CAT-TTTGCATTTTC
5420 CATTTTGCATT
1 CATTTTGCATT
5431 CATACTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.15, C:0.21, G:0.05, T:0.59
Consensus pattern (14 bp):
CATTTTGCATTTTC
Found at i:8361 original size:15 final size:15
Alignment explanation
Indices: 8343--8385 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
8333 AAAAAAAGAT
**
8343 GAAAAAGGAAAATGA
1 GAAAAAGGAAAAAAA
*
8358 GAAAAAAGAAAAAAA
1 GAAAAAGGAAAAAAA
*
8373 AAAAAAGGAAAAA
1 GAAAAAGGAAAAA
8386 TGGAGAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (15 bp):
GAAAAAGGAAAAAAA
Found at i:8372 original size:25 final size:25
Alignment explanation
Indices: 8321--8373 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
8311 CTCATCTAGC
**
8321 AAAGGAAGAAGAAAAAAAAGATGAA
1 AAAGGAAGAAGAAAAAAAAGAAAAA
*
8346 AAAGGAA-AATGAGAAAAAAGAAAAA
1 AAAGGAAGAA-GAAAAAAAAGAAAAA
8371 AAA
1 AAA
8374 AAAAAGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (25 bp):
AAAGGAAGAAGAAAAAAAAGAAAAA
Found at i:10707 original size:114 final size:114
Alignment explanation
Indices: 10507--10840 Score: 580
Period size: 114 Copynumber: 2.9 Consensus size: 114
10497 CATGTTCTCG
*
10507 TAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
10572 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
** *
10621 TAGTAGAAATAATAAGACCCAATAGCATCTTCTGGAATTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
*
10686 GGTATGAACCCCAAAACCAATCATCGGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
*
10735 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
10800 GGTA-GAAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GGTATG-AACCCCAAAACCAATCATTGGATTTGAAAGATGAA
10841 CTGCATGATC
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
113 1 0.00
114 206 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
Found at i:12863 original size:50 final size:54
Alignment explanation
Indices: 12731--12888 Score: 209
Period size: 54 Copynumber: 3.0 Consensus size: 54
12721 TAATTGAGAA
*
12731 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
* *
12785 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTAC-ATC
1 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
* ***
12838 -TC-GA-CAGAAACCACAGGAAAA-GATGAATGCACTGTCAAATGTTTTACGAAC
1 ATCTGAGCAGAAGCCACA-GAAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
12889 CTGCTATTCT
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
50 32 0.34
51 9 0.10
52 2 0.02
53 2 0.02
54 48 0.52
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
Found at i:13216 original size:22 final size:22
Alignment explanation
Indices: 13188--13241 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
13178 ATTTCAAGAG
13188 TCAAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTCTCTTT
*
13210 TTAAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTCTCTTT
13232 TCAAAGATGA
1 TCAAAGATGA
13242 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (22 bp):
TCAAAGATGATAGATTCTCTTT
Found at i:14107 original size:185 final size:185
Alignment explanation
Indices: 13791--14158 Score: 666
Period size: 185 Copynumber: 2.0 Consensus size: 185
13781 CCAATCAACA
13791 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
1 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
13856 AAATTGCTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
66 AAATTGCTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
*
13921 TGTAAGTCCTGCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATAT
131 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAT
**
13976 TGTTATTTTGAAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCT-AAAAT
1 TGTTATTTTG-AAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAAT
* * *
14040 GAAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTATTAAACTATTTCCTACAT
65 GAAATTGCTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACAT
14105 CTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
130 CTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
14159 GTTTTCAAAG
Statistics
Matches: 176, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
185 130 0.74
186 46 0.26
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (185 bp):
TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
AAATTGCTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAT
Found at i:14367 original size:3 final size:3
Alignment explanation
Indices: 14359--14421 Score: 90
Period size: 3 Copynumber: 20.3 Consensus size: 3
14349 TTTTTCTTAA
**
14359 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
14405 ATT ATTT ATT ATT ATT A
1 ATT A-TT ATT ATT ATT A
14422 CAAGCCCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
3 48 0.89
4 6 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:14399 original size:22 final size:22
Alignment explanation
Indices: 14371--14421 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
14361 TATTATTAAA
14371 ATTATTATTATTATTATTTATT
1 ATTATTATTATTATTATTTATT
14393 ATTATTATTATTATTATTTATT
1 ATTATTATTATTATTATTTATT
14415 ATTATTA
1 ATTATTA
14422 CAAGCCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTATTATTATTATTATTTATT
Found at i:15705 original size:17 final size:17
Alignment explanation
Indices: 15683--15716 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15673 TATTAATTTG
15683 TTATTACTTTT-ATATTA
1 TTATTA-TTTTCATATTA
15700 TTATTATTTTCATATTA
1 TTATTATTTTCATATTA
15717 GTCACATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTTTCATATTA
Found at i:27833 original size:60 final size:60
Alignment explanation
Indices: 27719--27833 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
27709 TAAATGATAT
* * ** ** *
27719 TATAGTCTAAGGATTGATATAGAATATTTTAAAATTTATGAACTTATTTTAAATAGAAAG
1 TATAGTCTAAAGAATGATATAGAATATTTTAAAATTTAAAAACCAATTTAAAATAGAAAG
* *
27779 TATAGTTTAAAGAATGATATAGAATTTTTTAAAATTTAAAAACCAATTTAAAATA
1 TATAGTCTAAAGAATGATATAGAATATTTTAAAATTTAAAAACCAATTTAAAATA
27834 TATCATATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.39
Consensus pattern (60 bp):
TATAGTCTAAAGAATGATATAGAATATTTTAAAATTTAAAAACCAATTTAAAATAGAAAG
Found at i:28253 original size:38 final size:37
Alignment explanation
Indices: 28179--28254 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 37
28169 GTTGTAAAAT
* *
28179 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
28216 ATTTATATAATTTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-A-TTTTCTTTAAAAAATTGAAAATCATAAA
28254 A
1 A
28255 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 8 0.24
38 7 0.21
39 18 0.55
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:30331 original size:18 final size:16
Alignment explanation
Indices: 30302--30343 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
30292 TTTCGTAGAG
*
30302 AATTAATGATTATGCAA
1 AATTAATTATTATG-AA
30319 AATATAATTATTATGAA
1 AAT-TAATTATTATGAA
30336 AATTAATT
1 AATTAATT
30344 TAAAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 8 0.35
18 10 0.43
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (16 bp):
AATTAATTATTATGAA
Found at i:31860 original size:42 final size:42
Alignment explanation
Indices: 31631--32019 Score: 433
Period size: 43 Copynumber: 9.1 Consensus size: 42
31621 AAACCAAAAT
* *
31631 CGCCGCTATAGGTCAAGATCTATAGCGGCGTTTTTGGAACAAA
1 CGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAA
* * * * * *
31674 CGCCGCAAAATGTCGATATCAATACCGGCATTTTTAGAACAAA
1 CGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAA
* *
31717 CGCCGCAAAAGGTCGAGATCTATAGCGACGTTTATGGAACAAA
1 CGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAA
* * * *
31760 CGCCGCAAAAGGTTAGATATTTAGCGGTGTTTTTGGATACAAA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAA
* * *
31803 CGCCGCAAACGGTCAGATCTATAGCGGTGTTTTTGGACCAAA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAA
* * *
31845 CACCGTAAAAGGTCAGATCTATAACGGCGTTTTTGGAACAAA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAA
* * * *
31887 CGCTGCAAAAGGTTAGAT-TAATAGCGGTGTTTTT-TATAC-AA
1 CGCCGCAAAAGGTCAGATCT-ATAGCGGCGTTTTTGGA-ACAAA
* *
31928 CGCCGCAAAAGGTCAGATCTATAGCGACGTTTTTGGACATAAA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAA
* *
31971 CACCGCAAAAGGTTAGATCTATAGCGGCGTTTTTGGATACAAA
1 CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAA
32014 CGCCGC
1 CGCCGC
32020 TAATTACCAT
Statistics
Matches: 286, Mismatches: 54, Indels: 12
0.81 0.15 0.03
Matches are distributed among these distances:
41 32 0.11
42 89 0.31
43 165 0.58
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (42 bp):
CGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAA
Found at i:35386 original size:21 final size:21
Alignment explanation
Indices: 35362--35405 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
35352 CCTTGGTAGG
35362 ATATTGAAGCTTGCAAAAGGT
1 ATATTGAAGCTTGCAAAAGGT
35383 ATATTGAAGCTTGCAAAAGGT
1 ATATTGAAGCTTGCAAAAGGT
35404 AT
1 AT
35406 CCTCCTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (21 bp):
ATATTGAAGCTTGCAAAAGGT
Found at i:36232 original size:41 final size:41
Alignment explanation
Indices: 36178--36671 Score: 423
Period size: 41 Copynumber: 12.1 Consensus size: 41
36168 TTAGAGGCAG
* * * *
36178 AAACGCCATTAAAGTACAGATCTTTGGCGGCATTTGTATAA
1 AAACGCCACTAAAGTACAGATATTTAGCGGCGTTTGTATAA
* *
36219 AAATGCCACTAAAGTACA-AGTCTTTAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACAGA-TATTTAGCGGCGTTTGTATAA
* * * *
36260 AAACGCCACTAAAGTA-TGAGTCTTTGGCGGCGTTTGTATAT
1 AAACGCCACTAAAGTACAGA-TATTTAGCGGCGTTTGTATAA
* * * * *
36301 AAACGCCACTAAAGCACGGGTATTTAGCGGCGTTTTTATAC
1 AAACGCCACTAAAGTACAGATATTTAGCGGCGTTTGTATAA
* * *
36342 AAATGCCACTAAAGTAC-GAGCATTTAGCGGCGTTTGTGATTA
1 AAACGCCACTAAAGTACAGA-TATTTAGCGGCGTTTGT-ATAA
* * * * *
36384 AAACGTCACTAAAGTATAG-TATTTAGCAGCGTTTATACAA
1 AAACGCCACTAAAGTACAGATATTTAGCGGCGTTTGTATAA
* * *
36424 AAACGCCACTAAAGTACAAGA-ATTTAGCGGCGCTTGTGCTTA
1 AAACGCCACTAAAGTAC-AGATATTTAGCGGCGTTTGT-ATAA
* * * *
36466 AAACGCCACTAAAGAACAG-TATTTAGCGGCATTTATATAG
1 AAACGCCACTAAAGTACAGATATTTAGCGGCGTTTGTATAA
* * * * * *
36506 AAACACCACTAAAGTAC-GAGCATTTACCCGCGTTTGTGCTTA
1 AAACGCCACTAAAGTACAGA-TATTTAGCGGCGTTTGT-ATAA
* * * *
36548 AAACGCCACTAAAGTACA-TTATTTAACGGCTTTTATATAA
1 AAACGCCACTAAAGTACAGATATTTAGCGGCGTTTGTATAA
* *
36588 AAACACCACTAAAGTACA-ATATTTAGCGGCGTTTATATAA
1 AAACGCCACTAAAGTACAGATATTTAGCGGCGTTTGTATAA
* * * *
36628 AAATGCCACTAAAGCACA-AGTATTTACCGGCGTTTGTTTAA
1 AAACGCCACTAAAGTACAGA-TATTTAGCGGCGTTTGTATAA
36669 AAA
1 AAA
36672 ATGCGCTAAA
Statistics
Matches: 364, Mismatches: 74, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.00
40 89 0.24
41 222 0.61
42 51 0.14
43 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAGATATTTAGCGGCGTTTGTATAA
Found at i:36490 original size:164 final size:162
Alignment explanation
Indices: 36178--36662 Score: 537
Period size: 164 Copynumber: 3.0 Consensus size: 162
36168 TTAGAGGCAG
* * * * * * *
36178 AAACGCCATTAAAGTACAGATC-TTTGGCGGCATTTGT-ATAAAAATGCCACTAAAGTACAAGTC
1 AAACGCCACTAAAGTAC-GAGCATTTAGCGGCGTTTGTGATTAAAACGCCACTAAAGTA-AAGTA
* ** * *
36241 TTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTTTGGCGGCGTTTGTATATAAACG
64 TTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACAAGTATTTAGCGGCGTTTGT-TA-AAACG
** *
36306 CCACTAAAGCACGGGTATTTAGCGGCGTTTTTATAC
127 CCACTAAAGCACAAGTATTTAGCGGCGTTTATATAC
* * *
36342 AAATGCCACTAAAGTACGAGCATTTAGCGGCGTTTGTGATTAAAACGTCACTAAAGTATAGTATT
1 AAACGCCACTAAAGTACGAGCATTTAGCGGCGTTTGTGATTAAAACGCCACTAAAGTAAAGTATT
* * *
36407 TAGCAGCGTTTATACAAAAACGCCACTAAAGTACAAGAATTTAGCGGCGCTTGTGCTTAAAACGC
66 TAGCGGCGTTTATATAAAAACGCCACTAAAGTACAAGTATTTAGCGGCG-TT-TG-TTAAAACGC
* * *
36472 CACTAAAGAAC-AGTATTTAGCGGCATTTATATAG
128 CACTAAAGCACAAGTATTTAGCGGCGTTTATATAC
* * * * * *
36506 AAACACCACTAAAGTACGAGCATTTACCCGCGTTTGTGCTTAAAACGCCACTAAAGTACATTATT
1 AAACGCCACTAAAGTACGAGCATTTAGCGGCGTTTGTGATTAAAACGCCACTAAAGTAAAGTATT
* * * * *
36571 TAACGGCTTTTATATAAAAACACCACTAAAGTACAA-TATTTAGCGGCGTTTATATAAAAATGCC
66 TAGCGGCGTTTATATAAAAACGCCACTAAAGTACAAGTATTTAGCGGCGTTTGT-T-AAAACGCC
*
36635 ACTAAAGCACAAGTATTTACCGGCGTTT
129 ACTAAAGCACAAGTATTTAGCGGCGTTT
36663 GTTTAAAAAA
Statistics
Matches: 271, Mismatches: 42, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
160 1 0.00
161 2 0.01
162 18 0.07
163 29 0.11
164 181 0.67
165 35 0.13
166 4 0.01
167 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (162 bp):
AAACGCCACTAAAGTACGAGCATTTAGCGGCGTTTGTGATTAAAACGCCACTAAAGTAAAGTATT
TAGCGGCGTTTATATAAAAACGCCACTAAAGTACAAGTATTTAGCGGCGTTTGTTAAAACGCCAC
TAAAGCACAAGTATTTAGCGGCGTTTATATAC
Found at i:36791 original size:33 final size:33
Alignment explanation
Indices: 36754--36848 Score: 89
Period size: 26 Copynumber: 3.1 Consensus size: 33
36744 TTTTCACCCT
36754 AAACCCGAATCCGACCCAAATATCACACTT--A
1 AAACCCGAATCCGACCCAAATATCACACTTAAA
36785 AAA----AA-CCGACCCAAATATCACACTTAAAA
1 AAACCCGAATCCGACCCAAATATCACACTT-AAA
* * * *
36814 AAACCCGACT-CGACCCGATTATCAAACTTAAA
1 AAACCCGAATCCGACCCAAATATCACACTTAAA
36846 AAA
1 AAA
36849 ACATGACCCG
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
26 20 0.38
27 2 0.04
29 4 0.08
31 3 0.06
32 6 0.12
33 17 0.33
ACGTcount: A:0.47, C:0.31, G:0.06, T:0.16
Consensus pattern (33 bp):
AAACCCGAATCCGACCCAAATATCACACTTAAA
Found at i:36793 original size:26 final size:26
Alignment explanation
Indices: 36764--36815 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
36754 AAACCCGAAT
36764 CCGACCCAAATATCACACTTAAAAAA
1 CCGACCCAAATATCACACTTAAAAAA
36790 CCGACCCAAATATCACACTTAAAAAA
1 CCGACCCAAATATCACACTTAAAAAA
36816 ACCCGACTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.31, G:0.04, T:0.15
Consensus pattern (26 bp):
CCGACCCAAATATCACACTTAAAAAA
Found at i:36861 original size:33 final size:33
Alignment explanation
Indices: 36790--36865 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
36780 ACTTAAAAAA
* *
36790 CCGACCCAAATATCACACTTAAAAAAACCCGAC
1 CCGACCCAAATATCAAACTTAAAAAAACACGAC
* * * *
36823 TCGACCCGATTATCAAACTTAAAAAAACATGAC
1 CCGACCCAAATATCAAACTTAAAAAAACACGAC
36856 CCGACCCAAA
1 CCGACCCAAA
36866 ACCAAAATTT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.33, G:0.08, T:0.14
Consensus pattern (33 bp):
CCGACCCAAATATCAAACTTAAAAAAACACGAC
Found at i:37035 original size:23 final size:23
Alignment explanation
Indices: 37009--37062 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
36999 CATGTTATGA
37009 ATGGAATTTACTTTCCTCCCTTG
1 ATGGAATTTACTTTCCTCCCTTG
*
37032 ATGGAATTTACTTTCCTCCTTTG
1 ATGGAATTTACTTTCCTCCCTTG
37055 ATGGAATT
1 ATGGAATT
37063 GTATTCCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.44
Consensus pattern (23 bp):
ATGGAATTTACTTTCCTCCCTTG
Found at i:38373 original size:31 final size:31
Alignment explanation
Indices: 38337--38396 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
38327 AACTTAAAAG
* *
38337 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
38368 AGTTTTATAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
38397 CATACAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:38890 original size:16 final size:17
Alignment explanation
Indices: 38869--38914 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
38859 AATTAAAATA
38869 AATATAAAATTTTA-AT
1 AATATAAAATTTTATAT
38885 AATATAAAATAATTTATAT
1 AATATAAAAT--TTTATAT
*
38904 GATATAAAATT
1 AATATAAAATT
38915 AAATATCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 10 0.38
17 1 0.04
18 4 0.15
19 11 0.42
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
AATATAAAATTTTATAT
Found at i:38898 original size:19 final size:19
Alignment explanation
Indices: 38854--38913 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
38844 AATTTAAATC
**
38854 AAAATAATTAAAATAA-AT
1 AAAATAATTTTAATAATAT
*
38872 ATAA-AATTTTAATAATAT
1 AAAATAATTTTAATAATAT
*
38890 AAAATAA-TTTATATGATAT
1 AAAATAATTTTA-ATAATAT
38909 AAAAT
1 AAAAT
38914 TAAATATCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
17 9 0.26
18 12 0.35
19 13 0.38
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATAATTTTAATAATAT
Found at i:38931 original size:21 final size:21
Alignment explanation
Indices: 38883--39072 Score: 65
Period size: 21 Copynumber: 9.0 Consensus size: 21
38873 TAAAATTTTA
*
38883 ATAATATAAAA-T-AATTTAT
1 ATAATATAAAATTAAATATAT
* *
38902 ATGATATAAAATTAAATATCT
1 ATAATATAAAATTAAATATAT
* *
38923 ATAATATAATATTAAA-AAAT
1 ATAATATAAAATTAAATATAT
* * ** * *
38943 -TAATATTTAATTTATTTAAAAA
1 ATAATA-TAAAATTAAAT-ATAT
*
38965 ATAATATTAAAATT-AATATCT
1 ATAATA-TAAAATTAAATATAT
* *
38986 ATAATATAATATTAAA-AAAT
1 ATAATATAAAATTAAATATAT
* *
39006 -TAATATTTAATTTATTTAAA-AAAT
1 ATAATA--TAA---AATTAAATATAT
*
39030 -TAATATTAAAATTAAAATCAAAT
1 ATAATA-TAAAATT-AAAT-ATAT
39053 ATAATATAAAATTAAATATA
1 ATAATATAAAATTAAATATA
39073 AAACCTCTTT
Statistics
Matches: 128, Mismatches: 27, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
19 20 0.16
20 19 0.15
21 36 0.28
22 8 0.06
23 26 0.20
24 19 0.15
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.41
Consensus pattern (21 bp):
ATAATATAAAATTAAATATAT
Found at i:38976 original size:64 final size:65
Alignment explanation
Indices: 38908--39063 Score: 270
Period size: 63 Copynumber: 2.5 Consensus size: 65
38898 TTATATGATA
38908 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAA-TAATAT
1 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
38972 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
39036 TAAAATTAAA-ATC-A-AATATAATA-TAAAA
1 TAAAATTAAATATCTATAATATAATATTAAAA
39064 TTAAATATAA
Statistics
Matches: 90, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
61 5 0.06
62 9 0.10
63 51 0.57
64 23 0.26
65 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (65 bp):
TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:38978 original size:24 final size:25
Alignment explanation
Indices: 38934--39002 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 25
38924 TAATATAATA
*
38934 TTAAAAAATTAATATT-TAATT-TAT
1 TTAAAAAA-TAATATTAAAATTATAT
38958 TTAAAAAATAATATTAAAATTAATAT
1 TTAAAAAATAATATTAAAATT-ATAT
* * *
38984 CTATAATATAATATTAAAA
1 TTAAAAAATAATATTAAAA
39003 AATTAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.18
24 12 0.32
26 19 0.50
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (25 bp):
TTAAAAAATAATATTAAAATTATAT
Found at i:39029 original size:24 final size:27
Alignment explanation
Indices: 38965--39037 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 27
38955 TATTTAAAAA
38965 ATAATATT--AAAATTAATATCTATAAT
1 ATAATATTAAAAAATTAATAT-TATAAT
38991 ATAATATTAAAAAATTAATATT-TAAT
1 ATAATATTAAAAAATTAATATTATAAT
*
39017 -TTAT-TTAAAAAATTAATATTA
1 ATAATATTAAAAAATTAATATTA
39038 AAATTAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
24 16 0.37
25 3 0.07
26 12 0.28
27 1 0.02
28 11 0.26
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (27 bp):
ATAATATTAAAAAATTAATATTATAAT
Found at i:39070 original size:12 final size:12
Alignment explanation
Indices: 39025--39075 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
39015 ATTTATTTAA
39025 AAAATT-AATATT
1 AAAATTAAATA-T
39037 AAAATTAAA-AT
1 AAAATTAAATAT
*
39048 CAAA-TATAATAT
1 AAAATTA-AATAT
39060 AAAATTAAATAT
1 AAAATTAAATAT
39072 AAAA
1 AAAA
39076 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:39535 original size:3 final size:3
Alignment explanation
Indices: 39527--39567 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
39517 AAGAGTACAC
39527 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
39568 TTTTCAATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:47976 original size:18 final size:17
Alignment explanation
Indices: 47950--47994 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
47940 AAAACACACA
47950 AAAATAATTAAAAAGAT
1 AAAATAATTAAAAAGAT
*
47967 AAAATAAATTAAAAATAT
1 AAAAT-AATTAAAAAGAT
47985 AAAAATAATT
1 -AAAATAATT
47995 GAATTACTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 5 0.20
18 15 0.60
19 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATAATTAAAAAGAT
Found at i:48160 original size:31 final size:32
Alignment explanation
Indices: 48110--48170 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
48100 ACGGGTAAAT
*
48110 TATGTATTTAGTACTTAAATTATCAGTTTTAG
1 TATGTATTTAGTACCTAAATTATCAGTTTTAG
* * *
48142 TATGT-TTTTGTACCTAAATTTTCATTTTT
1 TATGTATTTAGTACCTAAATTATCAGTTTT
48171 GTCAAACTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (32 bp):
TATGTATTTAGTACCTAAATTATCAGTTTTAG
Found at i:50471 original size:24 final size:24
Alignment explanation
Indices: 50444--50514 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
50434 CACCACAGCT
* *
50444 CGTATAAATTGCATCGAAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
* * *
50468 CGTAGAATTTCCACCGAAGTGCCG
1 CGTAGAAATTGCACCGAAGTGCCA
*
50492 CGTAGAAA-TGCACCGTAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
50515 TATAAGATTA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 12 0.32
24 26 0.68
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (24 bp):
CGTAGAAATTGCACCGAAGTGCCA
Found at i:58354 original size:60 final size:60
Alignment explanation
Indices: 58200--58360 Score: 175
Period size: 60 Copynumber: 2.7 Consensus size: 60
58190 TCATTATAAA
* *
58200 TTGATCCCTAAACTTTTAAAT-ATTCTAATTTCATCCTCAAACTATGATCTTCATTCAAAAT
1 TTGA-CCCTAAACTTTTAAATCTTTC-AATTTCATCCTCAAACAATGATCTTCATTCAAAAT
** * * * *
58261 TTGTTCTTAAACTTTTGAA-CATTTCAATCTCATCCTCAAACAATTACTCTT-ATTCAAAAT
1 TTGACCCTAAACTTTTAAATC-TTTCAATTTCATCCTCAAACAATGA-TCTTCATTCAAAAT
* *
58321 TTGACCCTAAACTTTTAAATCTTTCGATTTCATCATCAAA
1 TTGACCCTAAACTTTTAAATCTTTCAATTTCATCCTCAAA
58361 TTCATTCAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
60 70 0.86
61 11 0.14
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.41
Consensus pattern (60 bp):
TTGACCCTAAACTTTTAAATCTTTCAATTTCATCCTCAAACAATGATCTTCATTCAAAAT
Found at i:60924 original size:23 final size:24
Alignment explanation
Indices: 60887--60933 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
60877 TTCGATATTG
60887 AAAAAATATTAAAATAATTTATTTA
1 AAAAAATATTAAAATAA-TTATTTA
*
60912 AAAAAATA-T-AAATTATTATTTA
1 AAAAAATATTAAAATAATTATTTA
60934 TCATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 5 0.24
24 1 0.05
25 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAAAATATTAAAATAATTATTTA
Found at i:61341 original size:29 final size:30
Alignment explanation
Indices: 61297--61355 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
61287 ATTTTAATAT
61297 GAAGAACTAAAATAAATAAAATTA-AAATTC
1 GAAGAACTAAAATAAA-AAAATTATAAATTC
* *
61327 GAAG-ACTAAATTAAAAATATTATAAATTC
1 GAAGAACTAAAATAAAAAAATTATAAATTC
61356 AGTTTAGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.23
29 16 0.62
30 4 0.15
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (30 bp):
GAAGAACTAAAATAAAAAAATTATAAATTC
Found at i:62442 original size:20 final size:19
Alignment explanation
Indices: 62419--62463 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
62409 TTTTTTTTAT
* *
62419 TATTTATTTATTTTTAATAA
1 TATTTATATATATTTAAT-A
*
62439 TATTTATATGTATTTAATA
1 TATTTATATATATTTAATA
62458 TATTTA
1 TATTTA
62464 ATAATAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTATATATATTTAATA
Found at i:62453 original size:26 final size:30
Alignment explanation
Indices: 62414--62469 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
62404 ATTATTTTTT
*
62414 TTTATTATTTATTT-AT-T-TTTAATAATA
1 TTTATTATGTATTTAATATATTTAATAATA
62441 TTTA-TATGTATTTAATATATTTAATAATA
1 TTTATTATGTATTTAATATATTTAATAATA
62470 ATAGTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 8 0.32
27 6 0.24
28 1 0.04
29 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTATTATGTATTTAATATATTTAATAATA
Found at i:62470 original size:3 final size:3
Alignment explanation
Indices: 62462--62538 Score: 136
Period size: 3 Copynumber: 25.7 Consensus size: 3
62452 TTAATATATT
*
62462 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
62510 TAA TAA TAG TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
62539 TGGATAAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:63107 original size:113 final size:113
Alignment explanation
Indices: 62857--63409 Score: 858
Period size: 113 Copynumber: 4.9 Consensus size: 113
62847 GAATTATGCC
* *
62857 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
62921 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGAT
62968 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
63033 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGAATCCATAT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGAT
63081 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** * * *
63146 TATGAACTCGAACTAGAAAAGATGATCCACCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGAT
63194 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
63259 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGAT
63307 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** *
63372 TATGAACTCGAACTGGAAAAGATGATCCTTCAAATGAT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGAT
63410 AAATTTGAAT
Statistics
Matches: 400, Mismatches: 40, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
111 4 0.01
112 65 0.16
113 331 0.83
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGAT
Found at i:63237 original size:226 final size:226
Alignment explanation
Indices: 62857--63409 Score: 977
Period size: 226 Copynumber: 2.5 Consensus size: 226
62847 GAATTATGCC
* *
62857 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
62921 TATGAACTTC--TCCGGAAAAGATAATCCATCAATTGATGGATTCAGGTAAAAGGTTGAACAAAT
66 TATGAAC-TCGAACTGGAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAAT
62984 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
130 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
63049 AAAAGCTGATCCATTAAATGATGAATCCATAT
195 AAAAGCTGATCCATTAAATGATGAATCCATAT
63081 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
63146 TATGAACTCGAACTAGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
66 TATGAACTCGAACTGGAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
63211 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
* *
63276 AAAGCTGATCCATTAAATGATGGATTCATAT
196 AAAGCTGATCCATTAAATGATGAATCCATAT
63307 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
63372 TATGAACTCGAACTGGAAAAGATGATCCTTCAAATGAT
66 TATGAACTCGAACTGGAAAAGATGATCCATCAAATGAT
63410 AAATTTGAAT
Statistics
Matches: 313, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
224 6 0.02
225 65 0.21
226 242 0.77
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (226 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCGAACTGGAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
AAAGCTGATCCATTAAATGATGAATCCATAT
Found at i:64125 original size:83 final size:82
Alignment explanation
Indices: 63986--64453 Score: 719
Period size: 83 Copynumber: 5.7 Consensus size: 82
63976 GTTCCTACCA
* * * *
63986 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTA-TGAACACATTCATCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAAT
*
64050 TTAATGATTAGTTCTGTCT
65 TCAATGATT-GTTCTGTCT
64069 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
* *
64134 CAATGATTGTTCTTATCA
66 CAATGATTGTTC-TGTCT
*
64152 AACCGGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
64217 CAATGATTGTTCTG-CT
66 CAATGATTGTTCTGTCT
* * *
64233 AAACCAGGTCAGATAAATCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAAT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAAT
*
64298 TCAATGCTTGATTCTGTAC-
65 TCAATGATTG-TTCTGT-CT
*
64317 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
64382 CAATGATTGTTCTG-CT
66 CAATGATTGTTCTGTCT
*
64398 AAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
64454 TTGTTCTATT
Statistics
Matches: 355, Mismatches: 22, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
80 1 0.00
81 1 0.00
82 132 0.37
83 218 0.61
84 2 0.01
85 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.28
Consensus pattern (82 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
CAATGATTGTTCTGTCT
Found at i:64300 original size:165 final size:167
Alignment explanation
Indices: 63807--64453 Score: 916
Period size: 165 Copynumber: 3.8 Consensus size: 167
63797 GACTTCTGAT
* * *
63807 TCAAAACAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 TCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCCAA
* * *
63872 ATTCAATGATTGGTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGTTGCTAT
66 ATTCAATGATTAGTTCTGCT-AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
*
63936 TGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTA
130 TG-GCAAATTCATCTTCTAAATTCAATGATT-GTTCTGTA
* *
63976 GTTCCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGAACACATTCAT
1 -----T--CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCAT
*
64041 CTTCCAAATTTAATGATTAGTTCTGTCT-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
59 CTTCCAAATTCAATGATTAGTTCTG-CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
64105 ATGCTATTGGCAAATTCATCTTCTAAATTCAATGATTGTTCT-TA
123 ATGCTATTGGCAAATTCATCTTCTAAATTCAATGATTGTTCTGTA
* * *
64149 TCAAACCGGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTA
1 TCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTTCCA
* *
64213 AATTCAATGATT-GTTCTGCTAAACCAGGTCAGATAAATCAAAGAACACTTCCAGAAGATGCTAT
65 AATTCAATGATTAGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
* *
64277 TGGCAAATTCATCTTCCAAATTCAATGCTTGATTCTGTA
130 TGGCAAATTCATCTTCTAAATTCAATGATTG-TTCTGTA
* * *
64316 -C-AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTA
1 TCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTTCCA
*
64378 AATTCAATGATT-GTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
65 AATTCAATGATTAGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
64442 TGGCAAATTCAT
130 TGGCAAATTCAT
64454 TTGTTCTATT
Statistics
Matches: 445, Mismatches: 20, Indels: 25
0.91 0.04 0.05
Matches are distributed among these distances:
164 2 0.00
165 210 0.47
166 71 0.16
167 4 0.01
168 1 0.00
173 2 0.00
174 6 0.01
175 27 0.06
176 121 0.27
178 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.28
Consensus pattern (167 bp):
TCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCCAA
ATTCAATGATTAGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
GGCAAATTCATCTTCTAAATTCAATGATTGTTCTGTA
Found at i:64357 original size:248 final size:253
Alignment explanation
Indices: 63813--64453 Score: 919
Period size: 248 Copynumber: 2.5 Consensus size: 253
63803 TGATTCAAAA
* * * *
63813 CAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAATTCA
* * * *
63877 ATGATTGGTTC-TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGTTGCTATTGAGC
65 ATGATT-GTTCTTATCAAACCGGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GC
* *
63941 ACATTCATCTTCTAAATTCAATGATTGGTTCTGTAGTTCCTACCAAACCAGATCAGATAACTCAA
128 AAATTCATCTTCTAAATTCAATGATTGGTTC-GTAG-T-CT--CAAACCAGATCAGATAAATCAA
* *
64006 AGAACACTTCCAGAAAATGCTATGAACACATTCATCTTCCAAATTTAATGATTAGTTCTGTCTAA
188 AGAACACTTCCAGAAAATGCTATGAACAAATTCATCTTCCAAATTCAATGATTAGTTCTGTCTAA
64071 C
253 C
64072 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAA
64137 TGATTGTTCTTATCAAACCGGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAA
66 TGATTGTTCTTATCAAACCGGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAA
*
64202 TTCATCTTCTAAATTCAATGATT-GTTC-T-G-CT-AAACCAGGTCAGATAAATCAAAGAACACT
131 TTCATCTTCTAAATTCAATGATTGGTTCGTAGTCTCAAACCAGATCAGATAAATCAAAGAACACT
* * * *
64262 TCCAGAAGATGCTATTG-GCAAATTCATCTTCCAAATTCAATGCTT-GATTCTGTAC-AAT
196 TCCAGAAAATGCTA-TGAACAAATTCATCTTCCAAATTCAATGATTAG-TTCTGT-CTAAC
64320 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAA
**
64385 TGATTGTTCTGCT-AAACCAGG-TCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAA
66 TGATTGTTCTTATCAAACC-GGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAA
64448 ATTCAT
130 ATTCAT
64454 TTGTTCTATT
Statistics
Matches: 357, Mismatches: 19, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
247 54 0.15
248 150 0.42
249 3 0.01
251 2 0.01
254 1 0.00
255 1 0.00
257 4 0.01
258 31 0.09
259 109 0.31
260 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (253 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAA
TGATTGTTCTTATCAAACCGGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAA
TTCATCTTCTAAATTCAATGATTGGTTCGTAGTCTCAAACCAGATCAGATAAATCAAAGAACACT
TCCAGAAAATGCTATGAACAAATTCATCTTCCAAATTCAATGATTAGTTCTGTCTAAC
Found at i:65606 original size:9 final size:9
Alignment explanation
Indices: 65594--65662 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 9
65584 TTGACCCCCT
65594 TTCTTTTTC
1 TTCTTTTTC
65603 TTCTCTTTT-
1 TTCT-TTTTC
65612 TTCTATTTTC
1 TTCT-TTTTC
* *
65622 TATTATTTTTTT
1 --TT-CTTTTTC
*
65634 TTCTTTTTT
1 TTCTTTTTC
*
65643 TTCTTTTTT
1 TTCTTTTTC
65652 TTCTTTTTC
1 TTCTTTTTC
65661 TT
1 TT
65663 TTCTTTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
9 37 0.74
10 6 0.12
12 6 0.12
13 1 0.02
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:65637 original size:15 final size:14
Alignment explanation
Indices: 65592--65671 Score: 81
Period size: 15 Copynumber: 5.5 Consensus size: 14
65582 CCTTGACCCC
*
65592 CTTTCTTTTTCTTCT
1 CTTT-TTTTTCTTTT
* *
65607 CTTTTTTCTATTTT
1 CTTTTTTTTCTTTT
65621 CTATTATTTTT-TTTT
1 CT-TT-TTTTTCTTTT
65636 CTTTTTTTTCTTTT
1 CTTTTTTTTCTTTT
*
65650 TTTTCTTTTTCTTTT
1 CTTT-TTTTTCTTTT
65665 CTTTTTT
1 CTTTTTT
65672 CTTCAAGCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
13 5 0.09
14 21 0.38
15 25 0.45
16 4 0.07
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTTTTTTCTTTT
Found at i:65637 original size:40 final size:39
Alignment explanation
Indices: 65593--65671 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
65583 CTTGACCCCC
65593 TTTCTTTTTCTTCTCTTTTTTCTATTTTCTATTATTTTTT
1 TTTCTTTTTCTTCTCTTTTTTCT-TTTTCTATTATTTTTT
* * * *
65633 TTTCTTTTTTTTCTTTTTTTTCTTTTTCTTTTCTTTTTT
1 TTTCTTTTTCTTCTCTTTTTTCTTTTTCTATTATTTTTT
65672 CTTCAAGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 14 0.40
40 21 0.60
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (39 bp):
TTTCTTTTTCTTCTCTTTTTTCTTTTTCTATTATTTTTT
Found at i:65640 original size:7 final size:7
Alignment explanation
Indices: 65606--65674 Score: 54
Period size: 7 Copynumber: 9.6 Consensus size: 7
65596 CTTTTTCTTC
65606 TCTTTTT
1 TCTTTTT
*
65613 TCTATTT
1 TCTTTTT
65620 TCTATTATT
1 TCT-TT-TT
65629 T-TTTTT
1 TCTTTTT
65635 TCTTTTTTT
1 TC--TTTTT
65644 TCTTTTT
1 TCTTTTT
65651 T-TTCTTT
1 TCTT-TTT
*
65658 T-TCTTT
1 TCTTTTT
65664 TCTTTTT
1 TCTTTTT
65671 TCTT
1 TCTT
65675 CAAGCATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
6 9 0.18
7 30 0.59
8 2 0.04
9 10 0.20
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (7 bp):
TCTTTTT
Found at i:65640 original size:29 final size:29
Alignment explanation
Indices: 65597--65673 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
65587 ACCCCCTTTC
*
65597 TTTTTCTTCTCTTTTTTCTATTTTCTATTA
1 TTTTTCTTTTCTTTTTTCTATTTT-TATTA
* * * *
65627 TTTTT-TTTTCTTTTTTTTCTTTTTTTTC
1 TTTTTCTTTTCTTTTTTCTATTTTTATTA
65655 TTTTTCTTTTCTTTTTTCT
1 TTTTTCTTTTCTTTTTTCT
65674 TCAAGCATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 8 0.20
29 27 0.68
30 5 0.12
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (29 bp):
TTTTTCTTTTCTTTTTTCTATTTTTATTA
Found at i:65644 original size:24 final size:25
Alignment explanation
Indices: 65617--65669 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
65607 CTTTTTTCTA
65617 TTTTCTATTATTTT-TTTTTCTTTT-
1 TTTTCT-TTATTTTCTTTTTCTTTTC
*
65641 TTTTCTTTTTTTTCTTTTTCTTTTC
1 TTTTCTTTATTTTCTTTTTCTTTTC
65666 TTTT
1 TTTT
65670 TTCTTCAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.23
24 16 0.62
25 4 0.15
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (25 bp):
TTTTCTTTATTTTCTTTTTCTTTTC
Found at i:76328 original size:19 final size:19
Alignment explanation
Indices: 76262--76337 Score: 59
Period size: 19 Copynumber: 4.0 Consensus size: 19
76252 TTGACAGTAA
76262 AATAAATGAAATA-AAATAAT
1 AATAAAT-AAATATAAA-AAT
* *
76282 TACAAATAAA-ATAAAACA-
1 AATAAATAAATATAAAA-AT
* *
76300 GATAAATAAATATGAAAAT
1 AATAAATAAATATAAAAAT
*
76319 AATAAGTAAATATAAAAAT
1 AATAAATAAATATAAAAAT
76338 TTTGAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
18 11 0.25
19 28 0.64
20 5 0.11
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (19 bp):
AATAAATAAATATAAAAAT
Found at i:77040 original size:23 final size:24
Alignment explanation
Indices: 77003--77049 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
76993 TTCGATATTG
77003 AAAAAATATTAAAATAATTTATTTA
1 AAAAAATATTAAAATAA-TTATTTA
*
77028 AAAAAATA-T-AAATTATTATTTA
1 AAAAAATATTAAAATAATTATTTA
77050 TCATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 5 0.24
24 1 0.05
25 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAAAATATTAAAATAATTATTTA
Found at i:77448 original size:29 final size:30
Alignment explanation
Indices: 77409--77467 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
77399 TATTTTTTAT
77409 GAAGAACTAAAATAAATAAAATTA-AAATTC
1 GAAGAACTAAAATAAA-AAAATTATAAATTC
* *
77439 GAAG-ACTAAATTAAAAATATTATAAATTC
1 GAAGAACTAAAATAAAAAAATTATAAATTC
77468 AGTTTAGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.23
29 16 0.62
30 4 0.15
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (30 bp):
GAAGAACTAAAATAAAAAAATTATAAATTC
Found at i:78549 original size:20 final size:19
Alignment explanation
Indices: 78526--78570 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
78516 TTTTTTTTAT
* *
78526 TATTTATTTATTTTTAATAA
1 TATTTATATATATTTAAT-A
*
78546 TATTTATATGTATTTAATA
1 TATTTATATATATTTAATA
78565 TATTTA
1 TATTTA
78571 ATAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTATATATATTTAATA
Found at i:78560 original size:26 final size:30
Alignment explanation
Indices: 78521--78576 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
78511 TTATATTTTT
*
78521 TTTATTATTTATTT-AT-T-TTTAATAATA
1 TTTATTATGTATTTAATATATTTAATAATA
78548 TTTA-TATGTATTTAATATATTTAATAATA
1 TTTATTATGTATTTAATATATTTAATAATA
78577 ATAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 8 0.32
27 6 0.24
28 1 0.04
29 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTATTATGTATTTAATATATTTAATAATA
Found at i:78577 original size:3 final size:3
Alignment explanation
Indices: 78569--78636 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
78559 TTAATATATT
*
78569 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
78617 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
78637 TGGATAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:79790 original size:19 final size:20
Alignment explanation
Indices: 79754--79791 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
79744 ATTCCTGAAC
*
79754 AAGAGAAAAAGCTCTGTAAG
1 AAGAGAAAAAACTCTGTAAG
79774 AAGAGAAAAAACT-TGTAA
1 AAGAGAAAAAACTCTGTAA
79792 ATATGACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.55, C:0.08, G:0.21, T:0.16
Consensus pattern (20 bp):
AAGAGAAAAAACTCTGTAAG
Found at i:86639 original size:31 final size:30
Alignment explanation
Indices: 86600--86665 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 30
86590 TGTAATATAA
*
86600 TCCCCAACATTTTGTCTGTTTACAATATGG
1 TCCCCAACATTTAGTCTGTTTACAATATGG
*
86630 TCCCTCAACATTTAGTCTGTTTGCAATATGG
1 TCCC-CAACATTTAGTCTGTTTACAATATGG
86661 TCCCC
1 TCCCC
86666 GACGTAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (30 bp):
TCCCCAACATTTAGTCTGTTTACAATATGG
Found at i:88007 original size:23 final size:23
Alignment explanation
Indices: 87981--88058 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
87971 CACCACAGCT
87981 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
88004 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
88027 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
88050 TATAATAAT
1 CAT-ATAAT
88059 GTCCATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 43 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:88992 original size:22 final size:21
Alignment explanation
Indices: 88967--89007 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
88957 TTTTCCTTTA
88967 GGGGAATCGGTTCCCTCCTGTG
1 GGGGAATCGGTT-CCTCCTGTG
*
88989 GGGGTATCGGTTCCTCCTG
1 GGGGAATCGGTTCCTCCTG
89008 GACATTCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.07, C:0.27, G:0.37, T:0.29
Consensus pattern (21 bp):
GGGGAATCGGTTCCTCCTGTG
Done.