Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009342.1 Hibiscus syriacus cultivar Beakdansim tig00113122_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: 69350
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Found at i:13496 original size:90 final size:90
Alignment explanation
Indices: 13343--13816 Score: 750
Period size: 90 Copynumber: 5.3 Consensus size: 90
13333 GCTCGAAAGA
* * * * * *
13343 CTTATAGATGACCCGAAGGATTTAAAAATCAAGAAACCCCTAAAGGCTTAGTTTCTAAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
*
13408 TTTGAAAACATCATGCACTGAAGGT
66 TTTGAAAACATCCTGCACTGAAGGT
* * * ** *
13433 CTTATGAATGGCCCGAATGACTTAAAAATCAAGAAACCCCCAAATGCTTAGTTTCTTAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
*
13498 TTTGAAAACATCTTGCACTGAAGGT
66 TTTGAAAACATCCTGCACTGAAGGT
** *
13523 CTTATGGATATCCCGAAGGACTTACAAATCAAGAAACCGCTGAAGGCTTAGTTTCTTAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
13588 TTTGAAAACATCCTGCACTGAAGGT
66 TTTGAAAACATCCTGCACTGAAGGT
* * *
13613 CTTATGGATGGCCCGAATGACATACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTAAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
*
13678 TTTGAAAACATCCTGCATTGAAGGT
66 TTTGAAAACATCCTGCACTGAAGGT
13703 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
13768 TTTGAAAACATCCTGCACTGAAGGT
66 TTTGAAAACATCCTGCACTGAAGGT
*
13793 CTTATAGATGGCCCGAAGGACTTA
1 CTTATGGATGGCCCGAAGGACTTA
13817 TGATCTTGCT
Statistics
Matches: 353, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 353 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (90 bp):
CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
TTTGAAAACATCCTGCACTGAAGGT
Found at i:13816 original size:20 final size:20
Alignment explanation
Indices: 13787--13853 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
13777 ATCCTGCACT
*
13787 GAAGGTCTTATAGATGGCCC
1 GAAGGACTTATAGATGGCCC
* **
13807 GAAGGACTTAT-GATCTTGCTA
1 GAAGGACTTATAGA--TGGCCC
* *
13828 GAAAGACTTATAGATGACCC
1 GAAGGACTTATAGATGGCCC
13848 GAAGGA
1 GAAGGA
13854 TTTACGCATC
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 17 0.50
21 13 0.38
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (20 bp):
GAAGGACTTATAGATGGCCC
Found at i:13880 original size:22 final size:21
Alignment explanation
Indices: 13855--13922 Score: 50
Period size: 22 Copynumber: 3.2 Consensus size: 21
13845 CCCGAAGGAT
13855 TTACGCATCATGCTCGAAAGAC
1 TTAC-CATCATGCTCGAAAGAC
* * * *
13877 TTA-C-TGATGACCCGAAGGAT
1 TTACCATCATG-CTCGAAAGAC
*
13897 TTACACATCATGCTCGAAAGGC
1 TTAC-CATCATGCTCGAAAGAC
13919 TTAC
1 TTAC
13923 TGATGGCCTG
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 4 0.12
20 11 0.33
22 14 0.42
23 4 0.12
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (21 bp):
TTACCATCATGCTCGAAAGAC
Found at i:13886 original size:42 final size:42
Alignment explanation
Indices: 13799--13950 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 42
13789 AGGTCTTATA
* * * *
13799 GATGGCCCGAAGGACTTATG-ATCTTGCTAGAAAGACTTA-T
1 GATGACCCGAAGGACTTACGCATCATGCTCGAAAGACTTACT
*
13839 AGATGACCCGAAGGATTTACGCATCATGCTCGAAAGACTTACT
1 -GATGACCCGAAGGACTTACGCATCATGCTCGAAAGACTTACT
* * *
13882 GATGACCCGAAGGATTTACACATCATGCTCGAAAGGCTTACT
1 GATGACCCGAAGGACTTACGCATCATGCTCGAAAGACTTACT
* * *
13924 GATGGCCTGAAGGACTTACTCATCATG
1 GATGACCCGAAGGACTTACGCATCATG
13951 AAACTCTTGA
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
41 17 0.17
42 80 0.82
43 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (42 bp):
GATGACCCGAAGGACTTACGCATCATGCTCGAAAGACTTACT
Found at i:13900 original size:20 final size:19
Alignment explanation
Indices: 13840--13900 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 19
13830 AAGACTTATA
13840 GATGACCCGAAGGATTTAC
1 GATGACCCGAAGGATTTAC
* * * *
13859 GCATCATGCTCGAAAGACTTAC
1 G-ATGA--CCCGAAGGATTTAC
13881 TGATGACCCGAAGGATTTAC
1 -GATGACCCGAAGGATTTAC
13901 ACATCATGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 7
0.67 0.18 0.16
Matches are distributed among these distances:
19 1 0.03
20 14 0.47
22 14 0.47
23 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (19 bp):
GATGACCCGAAGGATTTAC
Found at i:13917 original size:23 final size:23
Alignment explanation
Indices: 13849--13917 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
13839 AGATGACCCG
*
13849 AAGGATTTACGCATCATGCTCGA
1 AAGGATTTACACATCATGCTCGA
* * *
13872 AA-GACTT--AC-TGATGACCCG-
1 AAGGATTTACACATCATG-CTCGA
13891 AAGGATTTACACATCATGCTCGA
1 AAGGATTTACACATCATGCTCGA
13914 AAGG
1 AAGG
13918 CTTACTGATG
Statistics
Matches: 33, Mismatches: 7, Indels: 12
0.63 0.13 0.23
Matches are distributed among these distances:
19 6 0.18
20 8 0.24
22 9 0.27
23 10 0.30
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (23 bp):
AAGGATTTACACATCATGCTCGA
Found at i:14043 original size:43 final size:43
Alignment explanation
Indices: 13982--14220 Score: 379
Period size: 43 Copynumber: 5.6 Consensus size: 43
13972 AGTTTCTTAG
* * * * *
13982 TTGTCACCAAGGAACCCCTATATATTATGTTGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
* *
14025 TTGTCATCAAGGAACCCCTACATATCACGATAGTCTCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
14068 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
* *
14111 TTGTCATCAAGGAACCCCTACATATCACGATAGTCTCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
*
14154 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
*
14197 TTATCATCAAGGAACCCCTACATA
1 TTGTCATCAAGGAACCCCTACATA
14221 ACACGAGGTT
Statistics
Matches: 181, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 181 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (43 bp):
TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
Found at i:14127 original size:86 final size:86
Alignment explanation
Indices: 13982--14226 Score: 427
Period size: 86 Copynumber: 2.8 Consensus size: 86
13972 AGTTTCTTAG
* * * *
13982 TTGTCACCAAGGAACCCCTATATATTATGTTGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
14047 TATCACGATAGTCTCTCAAGC
66 TATCACGATAGTCTCTCAAGC
*
14068 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
14133 TATCACGATAGTCTCTCAAGC
66 TATCACGATAGTCTCTCAAGC
*
14154 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTATCATCAAGGAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
*
14219 TAACACGA
66 TATCACGA
14227 GGTTCTACCA
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 151 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (86 bp):
TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
TATCACGATAGTCTCTCAAGC
Found at i:16418 original size:48 final size:55
Alignment explanation
Indices: 16319--16423 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 55
16309 TCACTGGTTC
* * *
16319 GTAAAACATTTGACAACACATTCATCCTTTCTTGTGCCTTTTGCTCAGATTT-TT
1 GTAAAACATTTGACAACACATTCATCCTATCTTGTGCCTTCTGCCCAGATTTCTT
*
16373 GTAAAACATTTGACCACA-ATTCAT-C-AT-TTG-G-CTTCTGCCCAGATTTCTT
1 GTAAAACATTTGACAACACATTCATCCTATCTTGTGCCTTCTGCCCAGATTTCTT
16422 GT
1 GT
16424 CAGTGAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
48 13 0.28
49 5 0.11
50 3 0.07
51 1 0.02
52 1 0.02
53 6 0.13
54 17 0.37
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (55 bp):
GTAAAACATTTGACAACACATTCATCCTATCTTGTGCCTTCTGCCCAGATTTCTT
Found at i:16930 original size:52 final size:52
Alignment explanation
Indices: 16873--17018 Score: 222
Period size: 52 Copynumber: 2.8 Consensus size: 52
16863 TACCCCAACC
* * *
16873 TTTTCATACTGGTGTGAGCCTTCAAGTTGCCCCACATGGATTACTTTTGTCT
1 TTTTCATACTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTGTCT
* *
16925 TTTTCATTCTGATGTGAACCTTCAAGATGCCCCACATGGATTACTTCTGTCT
1 TTTTCATACTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTGTCT
* *
16977 TTTTCATGCTGATGTGAGCCTTCAAGAT-ACCCACATGGATTA
1 TTTTCATACTGATGTGAGCCTTCAAGATGCCCCACATGGATTA
17019 TATGGACCTT
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 13 0.15
52 73 0.85
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (52 bp):
TTTTCATACTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTGTCT
Found at i:18200 original size:10 final size:10
Alignment explanation
Indices: 18174--18252 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 10
18164 ATCTTCCTCA
*
18174 TTCTTTTTGT
1 TTCTTTTTCT
*
18184 TAC-TTTTCT
1 TTCTTTTTCT
18193 TTCTTTTT-T
1 TTCTTTTTCT
18202 CTTCTTTTGTC-
1 -TTCTTTT-TCT
18213 TTCTTTTTTCT
1 TTC-TTTTTCT
*
18224 TTCTTTTTTT
1 TTCTTTTTCT
18234 CTTCTTTTTTCT
1 -TTC-TTTTTCT
*
18246 CTCTTTT
1 TTCTTTT
18253 GTTTCTCTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
9 8 0.15
10 28 0.51
11 13 0.24
12 6 0.11
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (10 bp):
TTCTTTTTCT
Found at i:18200 original size:20 final size:18
Alignment explanation
Indices: 18186--18245 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 18
18176 CTTTTTGTTA
18186 CTTTTCTTTCTTTTTTCTT
1 CTTTT-TTTCTTTTTTCTT
18205 CTTTTGTCTTCTTTTTTCTTT
1 CTTTT-T-TTCTTTTTTC-TT
18226 CTTTTTTTCTTCTTTT-TT
1 CTTTTTTTCTT-TTTTCTT
18244 CT
1 CT
18246 CTCTTTTGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 4 0.11
19 11 0.30
20 15 0.41
21 7 0.19
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (18 bp):
CTTTTTTTCTTTTTTCTT
Found at i:18203 original size:11 final size:11
Alignment explanation
Indices: 18187--18266 Score: 85
Period size: 11 Copynumber: 7.2 Consensus size: 11
18177 TTTTTGTTAC
18187 TTTTCTTTCTT
1 TTTTCTTTCTT
18198 TTTTC-TTCTT
1 TTTTCTTTCTT
*
18208 TTGTC-TTCTT
1 TTTTCTTTCTT
18218 TTTTCTTTCTT
1 TTTTCTTTCTT
18229 TTTT-TCTTCTT
1 TTTTCT-TTCTT
*
18240 TTTTCTCTCTTT
1 TTTTCTTTC-TT
18252 TGTTTCTCTTCTT
1 T-TTTCT-TTCTT
18265 TT
1 TT
18267 ACAGATAATG
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
10 19 0.32
11 25 0.42
12 5 0.08
13 8 0.14
14 2 0.03
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.78
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:18225 original size:31 final size:33
Alignment explanation
Indices: 18187--18266 Score: 110
Period size: 32 Copynumber: 2.4 Consensus size: 33
18177 TTTTTGTTAC
18187 TTTTCTTTCTTTTTTCTTCTTTTGTCT-TC-TT
1 TTTTCTTTCTTTTTTCTTCTTTTGTCTCTCTTT
*
18218 TTTTCTTTCTTTTTTTCTTCTTTTTTCTCTCTTT
1 TTTTCTTTC-TTTTTTCTTCTTTTGTCTCTCTTT
18252 TGTTTCTCTTCTTTT
1 T-TTTCT-TTCTTTT
18267 ACAGATAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
31 9 0.21
32 17 0.40
33 2 0.05
34 3 0.07
35 9 0.21
36 3 0.07
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.78
Consensus pattern (33 bp):
TTTTCTTTCTTTTTTCTTCTTTTGTCTCTCTTT
Found at i:32110 original size:21 final size:20
Alignment explanation
Indices: 32024--32181 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
32014 AAATGACCAA
**
32024 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
32043 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
32063 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
32083 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
32104 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
32125 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
32145 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
32166 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
32182 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 42 0.40
21 46 0.44
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:32210 original size:20 final size:20
Alignment explanation
Indices: 32149--32397 Score: 252
Period size: 20 Copynumber: 12.4 Consensus size: 20
32139 GATTTTCAAG
* ** *
32149 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
32169 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
32189 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
32209 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
32229 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
32249 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
32269 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
32289 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
32309 AATCGCAATG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
32329 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
32349 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
32369 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
32389 AATCACAAC
1 AATCGCAAC
32398 ACTGAAATTT
Statistics
Matches: 193, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
19 2 0.01
20 189 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:33784 original size:72 final size:72
Alignment explanation
Indices: 33691--33924 Score: 295
Period size: 72 Copynumber: 3.3 Consensus size: 72
33681 GCAACGAGAG
33691 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
33756 AAATGAA
66 AAATGAA
* * *
33763 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
33828 AAATGAA
66 AAATGAA
* * * * * *
33835 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAAAATCGCAATGC-GAAATGAAAATCGCAA--
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATG
*
33895 CG--A-GAG
64 CGAAATGAA
33901 AATCGCAATGCGGAAATGAAAATC
1 AATCGCAATGC-GAAATGAAAATC
33925 GCAATGCGAA
Statistics
Matches: 141, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
65 1 0.01
66 17 0.12
67 3 0.02
69 2 0.01
71 16 0.11
72 93 0.66
73 8 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:33812 original size:53 final size:52
Alignment explanation
Indices: 33677--33946 Score: 415
Period size: 53 Copynumber: 5.1 Consensus size: 52
33667 CGGAAATTAC
*
33677 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--AA-GAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
33724 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
33782 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
33835 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
33887 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
33940 AATCGCA
1 AATCGCA
33947 TTGCGATTCT
Statistics
Matches: 207, Mismatches: 3, Indels: 20
0.90 0.01 0.09
Matches are distributed among these distances:
47 8 0.04
49 1 0.00
50 1 0.00
52 66 0.32
53 115 0.56
55 2 0.01
56 1 0.00
57 2 0.01
58 11 0.05
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:33952 original size:72 final size:68
Alignment explanation
Indices: 33658--33951 Score: 276
Period size: 72 Copynumber: 4.2 Consensus size: 68
33648 GCATTTGTCT
** * * *
33658 ATCGCAACACGGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-AAG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAG
33722 AAA
66 AAA
*
33725 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAA
*
33790 CG-AGAGA
61 CGAAGAAA
* * * * *
33797 ATCGCAATGCGGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAA--
33859 CGAAATGAAA
61 CG-AA-GAAA
33869 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAA--CG
33933 AAATGAAA
63 -AA-GAAA
*
33941 ATCGCATTGCG
1 ATCGCAATGCG
33952 ATTCTCTCGT
Statistics
Matches: 189, Mismatches: 19, Indels: 32
0.79 0.08 0.13
Matches are distributed among these distances:
65 7 0.04
66 7 0.04
67 33 0.17
69 4 0.02
70 1 0.01
71 21 0.11
72 108 0.57
73 3 0.02
74 5 0.03
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (68 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAG
AAA
Found at i:33966 original size:105 final size:105
Alignment explanation
Indices: 33677--33946 Score: 426
Period size: 105 Copynumber: 2.6 Consensus size: 105
33667 CGGAAATTAC
*
33677 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C--AA-GAAAATCGCAATGCG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--C-
*
33736 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
63 G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
33782 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
33847 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
66 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
33887 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
33947 TTGCGATTCT
Statistics
Matches: 157, Mismatches: 2, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
105 125 0.80
106 16 0.10
108 2 0.01
109 1 0.01
110 2 0.01
111 11 0.07
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (105 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:33986 original size:53 final size:52
Alignment explanation
Indices: 33923--34038 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
33913 GAAATGAAAA
*
33923 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
33975 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
34028 TCGCATTGCGA
1 TCGCATTGCGA
34039 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:34001 original size:19 final size:19
Alignment explanation
Indices: 33961--34048 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
33951 GATTCTCTCG
33961 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
33981 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
34000 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
34014 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
34033 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
34049 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.11
17 7 0.11
19 26 0.43
20 15 0.25
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:34157 original size:14 final size:14
Alignment explanation
Indices: 34138--34174 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
34128 CATCAATTAC
34138 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
34152 ACAAATCATCTTTT
1 ACAAATCAACTTTT
34166 ACAAATCAA
1 ACAAATCAA
34175 TTAAAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:36139 original size:19 final size:19
Alignment explanation
Indices: 36097--36255 Score: 166
Period size: 19 Copynumber: 8.6 Consensus size: 19
36087 TAGTTTACTT
* *
36097 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
36117 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* * **
36136 TCGCAATGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
36155 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
36174 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
36193 TCGCAA--CGACAT---AA
1 TCGCAACGCGAAATGAAAA
*
36207 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
36226 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
36245 TCGCAATGCGA
1 TCGCAACGCGA
36256 TTTTGGTTTC
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
14 8 0.07
16 5 0.04
17 5 0.04
19 88 0.75
20 12 0.10
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:36231 original size:52 final size:55
Alignment explanation
Indices: 36097--36250 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 55
36087 TAGTTTACTT
* * *
36097 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGAGAATCGCAATGAGAAACCAAAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGCGAAATGAAAATCGCAA-GAG-AACCAAAA
* *
36155 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAA-CG-A-CATAA
1 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAAGAGAACCAAAA
* **
36207 TCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAA
36251 TGCGATTTTG
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
52 45 0.51
53 1 0.01
55 1 0.01
57 28 0.32
58 13 0.15
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.12
Consensus pattern (55 bp):
TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAAGAGAACCAAAA
Found at i:36286 original size:14 final size:14
Alignment explanation
Indices: 36267--36325 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
36257 TTTGGTTTCG
36267 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
36281 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
36298 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
36314 CGTTGCGATTTT
1 CGTTGCGATTTT
36326 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:36293 original size:33 final size:33
Alignment explanation
Indices: 36251--36374 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
36241 AAAATCGCAA
*
36251 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
36284 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
36317 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
36350 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
36375 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:36305 original size:19 final size:18
Alignment explanation
Indices: 36251--36342 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
36241 AAAATCGCAA
36251 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
36270 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
36284 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
36303 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
36317 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
36336 TGCGATT
1 TGCGATT
36343 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:36352 original size:14 final size:14
Alignment explanation
Indices: 36300--36356 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
36290 TTTGGTTTCG
*
36300 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
36314 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
36333 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
36347 CGTTGCGATT
1 CGTTGCGATT
36357 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:36748 original size:93 final size:93
Alignment explanation
Indices: 36472--36784 Score: 596
Period size: 93 Copynumber: 3.4 Consensus size: 93
36462 TCAGGGTATT
36472 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
36537 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
36565 AG-TTAGCAGAATTGGCAGCAA-CGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
36627 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
36655 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
36720 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
36748 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
36785 AAGCAATCTA
Statistics
Matches: 216, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
90 43 0.20
91 47 0.22
92 47 0.22
93 79 0.37
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:38501 original size:20 final size:20
Alignment explanation
Indices: 38470--38533 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
38460 TTTTGGTTGA
38470 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
38490 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
38510 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
38531 AAT
1 AAT
38534 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:38522 original size:21 final size:21
Alignment explanation
Indices: 38468--38532 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
38458 TCTTTTGGTT
38468 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
38489 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
38509 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
38530 GAA
1 GAA
38533 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:38592 original size:14 final size:14
Alignment explanation
Indices: 38573--38629 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
38563 TTTGGTTTCG
38573 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
38587 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
38606 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
38620 CGTTGCGATT
1 CGTTGCGATT
38630 TCATTTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:38605 original size:33 final size:33
Alignment explanation
Indices: 38557--38635 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
38547 GAAATCGCAA
**
38557 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
38590 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
38623 TGCGA-TTTCATTT
1 TGCGATTTTCATTT
38636 TTCTCGTTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 8 0.18
33 36 0.82
ACGTcount: A:0.09, C:0.22, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:38685 original size:21 final size:20
Alignment explanation
Indices: 38584--38689 Score: 93
Period size: 21 Copynumber: 5.5 Consensus size: 20
38574 GTTGCGATTC
38584 TCTCGTTGCGATTTTCA-TT
1 TCTCGTTGCGATTTTCATTT
*
38603 TCGCGTTGCGA--TTC----
1 TCTCGTTGCGATTTTCATTT
38617 TCTCGTTGCGA-TTTCATTTT
1 TCTCGTTGCGATTTTCA-TTT
**
38637 TCTCGTTGCAGATAGTCATTT
1 TCTCGTTGC-GATTTTCATTT
*
38658 TCACGTTGCGATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
38678 ATCTCGTTGCGA
1 -TCTCGTTGCGA
38690 CTCTTCTGCA
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
14 10 0.14
15 3 0.04
17 3 0.04
19 10 0.14
20 18 0.26
21 23 0.33
22 3 0.04
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (20 bp):
TCTCGTTGCGATTTTCATTT
Found at i:38811 original size:33 final size:33
Alignment explanation
Indices: 38769--38839 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
38759 AATACTAACT
*
38769 TGAAAATCGCAATGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
38802 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
38835 TGAAA
1 TGAAA
38840 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:0.15, G:0.24, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:39243 original size:20 final size:20
Alignment explanation
Indices: 39218--39409 Score: 226
Period size: 20 Copynumber: 9.6 Consensus size: 20
39208 TTTAAAAATT
*
39218 GCGTTGCGATTTACGAATAC
1 GCGTTGCGATTTACGGATAC
* *
39238 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAC
39258 GTCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAC
* *
39279 GCGTTGCGATATACGAATAC
1 GCGTTGCGATTTACGGATAC
*
39299 GCATTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
39319 GCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
*
39339 ACGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* *
39359 GCGTTGCGATTTATGTG-TTC
1 GCGTTGCGATTTACG-GATAC
* ** *
39379 GCGTTGCGATTTTCATATTC
1 GCGTTGCGATTTACGGATAC
39399 GCGTTGCGATT
1 GCGTTGCGATT
39410 CTGGAAAATC
Statistics
Matches: 149, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
20 131 0.88
21 18 0.12
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAC
Found at i:40158 original size:24 final size:23
Alignment explanation
Indices: 40113--40171 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 23
40103 TTTTTTGTGT
*
40113 TGTTCGTTTATTGTGTTTGTTTA
1 TGTTCGTTTATTGTGTTCGTTTA
*
40136 TGTTCGTTTGTTCGTGTTCGTTTA
1 TGTTCGTTTATT-GTGTTCGTTTA
40160 TGTTCGTTTATT
1 TGTTCGTTTATT
40172 ATTTAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 11 0.34
24 21 0.66
ACGTcount: A:0.07, C:0.08, G:0.22, T:0.63
Consensus pattern (23 bp):
TGTTCGTTTATTGTGTTCGTTTA
Found at i:42258 original size:22 final size:23
Alignment explanation
Indices: 42196--42261 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
42186 CATTAAGGTC
*
42196 TGATA-TGATTTTATATGTTATGAT
1 TGATATTGTTTTTA-ATG-TATGAT
*
42220 TG-TATTTTTCTTTAATGTATG-T
1 TGATATTGTT-TTTAATGTATGAT
42242 TGATATTGTTTTTAATGTAT
1 TGATATTGTTTTTAATGTAT
42262 TTTTTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 13 0.36
23 12 0.33
24 7 0.19
25 4 0.11
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.59
Consensus pattern (23 bp):
TGATATTGTTTTTAATGTATGAT
Found at i:42569 original size:27 final size:27
Alignment explanation
Indices: 42527--42582 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
42517 AATGTTTTAT
42527 TACCAATAGTAAATTTTATGGGGTATA
1 TACCAATAGTAAATTTTATGGGGTATA
*
42554 TACCAATAGTAGATTTTATGGGGTATA
1 TACCAATAGTAAATTTTATGGGGTATA
42581 TA
1 TA
42583 TCATTCTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (27 bp):
TACCAATAGTAAATTTTATGGGGTATA
Found at i:42901 original size:37 final size:36
Alignment explanation
Indices: 42826--42901 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
42816 TTTTTATATT
* *
42826 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATATATAAATATTATCAA
* *
42862 TTTAATTTTTTAAAAAAAATATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATATATAAATATTAT-CAA
42899 TTT
1 TTT
42902 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
36 30 0.86
37 5 0.14
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAAATATATAAATATTATCAA
Found at i:43064 original size:18 final size:19
Alignment explanation
Indices: 43041--43077 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
43031 CCAGTAATCC
43041 TATTCCC-TGGTAATCTTT
1 TATTCCCATGGTAATCTTT
43059 TATTCCCATTGGTAATCTT
1 TATTCCCA-TGGTAATCTT
43078 ACATTCCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.49
Consensus pattern (19 bp):
TATTCCCATGGTAATCTTT
Found at i:43540 original size:20 final size:21
Alignment explanation
Indices: 43515--43566 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
43505 TTTTCCCAAT
*
43515 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
43535 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
43556 TCGCAATGCGA
1 TCGCAATGCGA
43567 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:43580 original size:20 final size:20
Alignment explanation
Indices: 43555--43608 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
43545 AATTGGGAAA
43555 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
43575 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
43595 ATCGCAATGCGATA
1 ATCGCAATGCGATA
43609 ATACAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:43665 original size:20 final size:20
Alignment explanation
Indices: 43617--43669 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
43607 TAATACAAAA
* *
43617 TCGCAACGAGATACTAACTT
1 TCGCAACGCGATTCTAACTT
*
43637 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTAACTT
*
43657 TTGCAACGCGATT
1 TCGCAACGCGATT
43670 TACATAGCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGATTCTAACTT
Found at i:43668 original size:61 final size:61
Alignment explanation
Indices: 43552--43668 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
43542 GCGAATTGGG
* * * * * *
43552 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTAACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
43613 AAAATCGCAACGAGATACTAACTTTCGCAACGCGATTCTGACTTTTGCAACGCGAT
1 AAAATCGCAACGAGATACTAACTATCGCAACGCGATACTGACTATCGCAACGCGAT
43669 TTACATAGCG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTAACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:44193 original size:19 final size:19
Alignment explanation
Indices: 44155--44221 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
44145 TTCAAGAATG
44155 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
44175 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
44194 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
44213 AAAATCGCA
1 AAAATCGCA
44222 TTGCGATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:44281 original size:20 final size:19
Alignment explanation
Indices: 44217--44398 Score: 136
Period size: 19 Copynumber: 10.1 Consensus size: 19
44207 GAAACCAAAA
*
44217 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
*
44235 TCGCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
44254 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
44273 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
* *
44293 TCGCGTTGCGAATGTC---
1 TCGCGTTGCGATTTTCATT
* **
44309 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
44326 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
44340 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
44359 TCCGCGTTGCGATTCTCATA
1 T-CGCGTTGCGATTTTCATT
*
44379 TCTCGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
44397 TC
1 TC
44399 AACCAAAAGA
Statistics
Matches: 130, Mismatches: 21, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
14 19 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 17 0.13
19 54 0.42
20 33 0.25
ACGTcount: A:0.13, C:0.22, G:0.23, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:44291 original size:39 final size:37
Alignment explanation
Indices: 44217--44398 Score: 141
Period size: 33 Copynumber: 5.1 Consensus size: 37
44207 GAAACCAAAA
* *
44217 TCGCATTGCGATTTCATTTCGCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTCATTTCGCGTTGCGATTTTCATT
*
44254 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATTTCGC-GTTGCGATTTTCATT
* * **
44293 TCGCGTTGCGA----ATGTCTG-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTCATTTC-GCGTTGCGATTTTCATT
* **
44326 TCGCGTTGCGA-TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTCATTTCGCGTTGCGATTTTCATT
* *
44359 TCCGCGTTGCGATTCTCATATCTCGTTGCGA-TTTCATT
1 T-CGCGTTGCGATT-TCATTTCGCGTTGCGATTTTCATT
44397 TC
1 TC
44399 AACCAAAAGA
Statistics
Matches: 121, Mismatches: 11, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
33 40 0.33
34 14 0.12
35 2 0.02
36 2 0.02
37 11 0.09
38 16 0.13
39 36 0.30
ACGTcount: A:0.13, C:0.22, G:0.23, T:0.43
Consensus pattern (37 bp):
TCGCGTTGCGATTTCATTTCGCGTTGCGATTTTCATT
Found at i:46452 original size:42 final size:42
Alignment explanation
Indices: 46392--46514 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
46382 GCCCGACTCG
* * *
46392 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
46434 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
46476 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
46515 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:46472 original size:21 final size:21
Alignment explanation
Indices: 46448--46514 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
46438 TCATTCCTCG
46448 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
46469 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
46490 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
46511 AGAG
1 AGAG
46515 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:47882 original size:14 final size:14
Alignment explanation
Indices: 47862--47898 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
47852 GATTGTTTAA
47862 TTGATTTGTAAAA-
1 TTGATTTGTAAAAG
47875 TGTGATTTGTAAAAG
1 T-TGATTTGTAAAAG
47890 TTGATTTGT
1 TTGATTTGT
47899 TTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:48085 original size:19 final size:19
Alignment explanation
Indices: 48057--48187 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
48047 CGAAATTAAA
*
48057 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
48076 TTCTCATTGCGA--TTC--
1 TTCGCATTGCGATTTTCAT
* *
48091 -CCTCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
48109 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
48123 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
48142 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
48158 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
48175 TTCGCATTGCGAT
1 TTCGCATTGCGAT
48188 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
16 10 0.12
17 10 0.12
19 37 0.44
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:48105 original size:33 final size:32
Alignment explanation
Indices: 48061--48187 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
48051 ATTAAATTCG
*
48061 CGTTGCGATTTTCATTTCTCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
48094 CATTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
48127 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
48160 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
48188 AGTAATTTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
31 3 0.04
33 77 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:48139 original size:66 final size:66
Alignment explanation
Indices: 48054--48186 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
48044 ACGCGAAATT
* *
48054 AAATTCGCGTTGCGATTTTCATTTCTCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
48119 G
66 G
* *
48120 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
48185 G
66 G
48186 A
1 A
48187 TAGTAATTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
G
Found at i:49389 original size:26 final size:28
Alignment explanation
Indices: 49360--49414 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
49350 GTATGTCCAT
49360 TGTGC-TTTTT-TACCAGCAGACCTTGA
1 TGTGCTTTTTTATACCAGCAGACCTTGA
49386 TGTGCTTTTTTATACCAGCAGACCTTGA
1 TGTGCTTTTTTATACCAGCAGACCTTGA
49414 T
1 T
49415 TTTAGATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 5 0.19
27 5 0.19
28 17 0.63
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (28 bp):
TGTGCTTTTTTATACCAGCAGACCTTGA
Found at i:50516 original size:12 final size:12
Alignment explanation
Indices: 50499--50523 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50489 TCTTCGGGGA
50499 CTTTTTCTTCTT
1 CTTTTTCTTCTT
50511 CTTTTTCTTCTT
1 CTTTTTCTTCTT
50523 C
1 C
50524 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:50732 original size:24 final size:24
Alignment explanation
Indices: 50698--50751 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
50688 CTGAAACATC
* *
50698 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
* *
50722 ATCAAAGTCCGGGTATTGATCAAG
1 ATCAAAATCCGGGTATTGACCAAG
50746 ATCAAA
1 ATCAAA
50752 TTTTGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:51826 original size:20 final size:20
Alignment explanation
Indices: 51801--51838 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
51791 ATTCATTTGA
*
51801 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
51821 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
51839 CGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:51898 original size:19 final size:19
Alignment explanation
Indices: 51857--51943 Score: 121
Period size: 19 Copynumber: 4.8 Consensus size: 19
51847 GAAATGAAAA
51857 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
51873 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
51890 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
51909 TCACATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
51928 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
51944 TCGTTGCGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
14 10 0.16
16 3 0.05
17 3 0.05
19 46 0.74
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:51961 original size:33 final size:33
Alignment explanation
Indices: 51857--51972 Score: 133
Period size: 33 Copynumber: 3.4 Consensus size: 33
51847 GAAATGAAAA
*
51857 TCGCATTGCGATTTTCTCGTTGCAATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
*
51890 TCGCATTGCGATTTTCATTTCACATTGCGATTTTCATT
1 TCGCATTGCGATTTTC---T--CGTTGCGATTTTCATT
***
51928 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
*
51961 TCGCGTTGCGAT
1 TCGCATTGCGAT
51973 AGTCTGTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
33 39 0.55
35 1 0.01
36 1 0.01
38 30 0.42
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:52079 original size:14 final size:14
Alignment explanation
Indices: 52060--52096 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
52050 CATCAATTAA
52060 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
52074 ACAAATCATCTTTT
1 ACAAATCAACATTT
52088 ACAAATCAA
1 ACAAATCAA
52097 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:53985 original size:20 final size:19
Alignment explanation
Indices: 53950--54016 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
53940 GAAACTTAAA
53950 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
53969 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
53989 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
54008 ATCGCAACG
1 ATCGCAACG
54017 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:54024 original size:14 final size:14
Alignment explanation
Indices: 54005--54062 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
53995 ATGCGAAATG
54005 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
54019 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
54035 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
54051 AAAATCGCAACG
1 AAAATCGCAACG
54063 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:54047 original size:32 final size:33
Alignment explanation
Indices: 53989--54067 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
53979 GGAAATGGCT
*
53989 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
54022 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
54054 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
54068 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:54096 original size:19 final size:18
Alignment explanation
Indices: 54074--54168 Score: 107
Period size: 18 Copynumber: 5.7 Consensus size: 18
54064 GAAACACAAA
54074 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
*
54093 TCGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
54109 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
*
54125 TCGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
54141 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
54157 TCGCATTGCGAT
1 TCGCATTGCGAT
54169 AGCCATTTCC
Statistics
Matches: 64, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
14 18 0.28
16 16 0.25
18 19 0.30
19 11 0.17
ACGTcount: A:0.14, C:0.20, G:0.21, T:0.45
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:54117 original size:14 final size:14
Alignment explanation
Indices: 54098--54152 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
54088 TCATTTCGCA
54098 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
54112 TTGCGATTTCATTTCG
1 TTGCGATTT--TGTCG
54128 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
54144 TTGCGATTT
1 TTGCGATTT
54153 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 18 0.51
16 8 0.23
18 9 0.26
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:54126 original size:32 final size:32
Alignment explanation
Indices: 54079--54168 Score: 171
Period size: 32 Copynumber: 2.8 Consensus size: 32
54069 ACAAATCGCA
54079 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
54112 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
54144 TTGCGATTTCATTTCGCATTGCGAT
1 TTGCGATTTCATTTCGCATTGCGAT
54169 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 51 0.89
33 6 0.11
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCATTGCGATTTTGTCG
Found at i:54710 original size:18 final size:18
Alignment explanation
Indices: 54684--54728 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
54674 GTCGATCAGA
*
54684 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
54702 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
54720 TGATGGCTC
1 TGATGGCTC
54729 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:55867 original size:20 final size:20
Alignment explanation
Indices: 55842--55884 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
55832 AATAGTTTCT
55842 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
55862 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
55882 GAA
1 GAA
55885 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:56190 original size:22 final size:22
Alignment explanation
Indices: 56163--56206 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
56153 GATGGAGATA
56163 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
56185 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
56207 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:56488 original size:20 final size:20
Alignment explanation
Indices: 56374--56488 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
56364 CGCTTTGAAA
56374 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCATT
* *
56395 ATCGCGTTGCGAAAGTCATT
1 ATCGCATTGCGATAGTCATT
* * * *
56415 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCATT
* * ** *
56435 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCATT
*
56456 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCATT
56476 ATCGCATTGCGAT
1 ATCGCATTGCGAT
56489 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCATT
Found at i:56506 original size:21 final size:21
Alignment explanation
Indices: 56477--56569 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
56467 ATAGTCAGTA
56477 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
56498 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
56518 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
56539 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
56559 TCGCATTGCGA
1 TCGCATTGCGA
56570 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:56507 original size:41 final size:41
Alignment explanation
Indices: 56416--56550 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
56406 AAAGTCATTA
* * * ** *
56416 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
56456 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
56498 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
56539 TCGCGTTGCGAT
1 TCGCGTTGCGAT
56551 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:56551 original size:41 final size:41
Alignment explanation
Indices: 56477--56569 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
56467 ATAGTCAGTA
56477 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
56518 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
56559 TCGCATTGCGA
1 TCGCATTGCGA
56570 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:57268 original size:19 final size:20
Alignment explanation
Indices: 57244--57398 Score: 90
Period size: 20 Copynumber: 7.8 Consensus size: 20
57234 AAATGACCAA
*
57244 CAAATTCGCAACGCGATCT-
1 CAAATTCGCAACGCGATGTC
57263 CAAATTCGCAACGCGAAT-TC
1 CAAATTCGCAACGCG-ATGTC
* * *
57283 CAATTTCGCAAC-CCAGTTTC
1 CAAATTCGCAACGCGA-TGTC
* * * *
57303 CAATTTCGCAACGCAAATATG
1 CAAATTCGCAACGC-GATGTC
* ** *
57324 TAAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCGA-TGTC
57344 CAAATTCGCAACGCGATAGT-
1 CAAATTCGCAACGCGAT-GTC
*
57364 CAAATTCGC-ACGCGAAAGT-
1 CAAATTCGCAACGCG-ATGTC
57383 CAAATTCGCAACGCGA
1 CAAATTCGCAACGCGA
57399 ATTTGTAAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.01
19 36 0.33
20 55 0.51
21 15 0.14
22 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (20 bp):
CAAATTCGCAACGCGATGTC
Found at i:57355 original size:41 final size:39
Alignment explanation
Indices: 57299--57412 Score: 106
Period size: 41 Copynumber: 2.8 Consensus size: 39
57289 CGCAACCCAG
* * *
57299 TTTCCAATTTCGCAACGCAAATATGTAAATCGCATTGCGAT
1 TTTCCAAATTCGCAACGC-AATATGTAAATCGCA-CGCGAA
*
57340 TTTCCAAATTCGCAACGCGATA-GTCAAATTCGCACGCGAA
1 TTTCCAAATTCGCAACGCAATATGT-AAA-TCGCACGCGAA
** *
57380 AGT-CAAATTCGCAACGCGAATTTGTAAATCGCA
1 TTTCCAAATTCGCAACGC-AATATGTAAATCGCA
57413 ACATAGAAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
39 21 0.34
40 16 0.26
41 24 0.39
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (39 bp):
TTTCCAAATTCGCAACGCAATATGTAAATCGCACGCGAA
Found at i:57367 original size:20 final size:20
Alignment explanation
Indices: 57344--57448 Score: 110
Period size: 20 Copynumber: 5.3 Consensus size: 20
57334 TGCGATTTTC
*
57344 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
57364 CAAATTCGC-ACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
57383 CAAATTCGCAACGCGAATTTGT
1 CAAATTCGCAACGCGAA--AGT
**
57405 -AAA-TCGCAAC-ATAGAAGT
1 CAAATTCGCAACGCGA-AAGT
*
57423 CAAATTCGCAATGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
57443 CAAATT
1 CAAATT
57449 TTTTTTTACG
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.03
19 22 0.31
20 40 0.57
21 4 0.06
22 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:57599 original size:22 final size:22
Alignment explanation
Indices: 57574--57624 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
57564 CTACGGCGAC
*
57574 ATCCGTCCCCATCTCCGATGAA
1 ATCCGTCCCCATCTCCGACGAA
*
57596 ATCCGTCCCCATTTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
57618 ATCCGTC
1 ATCCGTC
57625 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:59534 original size:21 final size:21
Alignment explanation
Indices: 59510--59557 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
59500 GTTAGGGGAA
*
59510 TTACGTCATGAGGTCGGTGCT
1 TTACGTCATGAGGTCGGTACT
*
59531 TTACGTCATGAGGTTGGTACT
1 TTACGTCATGAGGTCGGTACT
59552 TTACGT
1 TTACGT
59558 GAAGATAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.38
Consensus pattern (21 bp):
TTACGTCATGAGGTCGGTACT
Found at i:59791 original size:4 final size:4
Alignment explanation
Indices: 59782--59827 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
59772 TTTTTCGGCA
* * * *
59782 TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT ATAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
59828 TCAGCGGCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:60051 original size:21 final size:21
Alignment explanation
Indices: 59977--60062 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 21
59967 CCTATAATCA
* *
59977 TTCAAGAGGCGCCTCCTATCG
1 TTCAAGAGGCCCCTCCCATCG
**
59998 TTCAAGAGGCCCCTATCATC-
1 TTCAAGAGGCCCCTCCCATCG
* * * *
60018 ATCAAAAAAGCCCCTCCCACCG
1 TTC-AAGAGGCCCCTCCCATCG
**
60040 TTCAAGAGGCCCCTATCATCG
1 TTCAAGAGGCCCCTCCCATCG
60061 TT
1 TT
60063 TAAGTGGTCC
Statistics
Matches: 47, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
20 2 0.04
21 43 0.91
22 2 0.04
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCATCG
Found at i:61501 original size:14 final size:14
Alignment explanation
Indices: 61482--61521 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
61472 TTTTGATTAA
61482 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
61496 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
61510 TTGATTTGTAAA
1 TTGATTTGTAAA
61522 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:61514 original size:61 final size:64
Alignment explanation
Indices: 61431--61572 Score: 166
Period size: 67 Copynumber: 2.2 Consensus size: 64
61421 TTTTACATTG
61431 AAAGTTGATTTG-TTACAATTGATGAGGAAATAAG-ATTTATTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTACAATTGATGAGGAAATAAGAATTTATTTTCTTGATTAATTGATTTGTA
* ** * * *
61492 AAAGTTGATTTGTTTA-ATTTGATTTGTAAATAAGAATTATTTTTTTTGCTTGTTTAATTGATTT
1 AAAGTTGATTTGTTTACAATTGATGAGGAAATAAG-A--ATTTATTTT-CTTGATTAATTGATTT
61556 GTA
62 GTA
61559 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
61573 GTTTCTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
61 26 0.38
62 3 0.04
65 8 0.12
67 31 0.46
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (64 bp):
AAAGTTGATTTGTTTACAATTGATGAGGAAATAAGAATTTATTTTCTTGATTAATTGATTTGTA
Found at i:61656 original size:20 final size:20
Alignment explanation
Indices: 61631--61668 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61621 GTTGAAGGTA
61631 CAAATTCACAACACGAAAGT
1 CAAATTCACAACACGAAAGT
* *
61651 CAAATTCGCAACGCGAAA
1 CAAATTCACAACACGAAA
61669 TAAGGGTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.26, G:0.13, T:0.13
Consensus pattern (20 bp):
CAAATTCACAACACGAAAGT
Found at i:61943 original size:39 final size:39
Alignment explanation
Indices: 61889--61971 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
61879 CAAGTTGTAG
*
61889 ATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTGA
1 ATTTTAATTTCCTTTTGCTTGACACCATATGAGATTTGA
* * *
61928 ATTTTAATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTAATTTCCTTTTGCTTGACACCATATGAGATTTGA
61967 ATTTT
1 ATTTT
61972 GATGAGCATC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (39 bp):
ATTTTAATTTCCTTTTGCTTGACACCATATGAGATTTGA
Found at i:62302 original size:18 final size:18
Alignment explanation
Indices: 62279--62315 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62269 CGAAATTTAT
62279 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
62297 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
62315 A
1 A
62316 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:62736 original size:25 final size:25
Alignment explanation
Indices: 62702--62751 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
62692 ATTATTTTTC
*
62702 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
62727 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
62752 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:62811 original size:20 final size:20
Alignment explanation
Indices: 62786--62839 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
62776 AATCTGAATT
*
62786 ATGTTGAAGTTAAAAAAGAC
1 ATGTTGAAGGTAAAAAAGAC
62806 ATGTTGAAGGTAAAAAAGAC
1 ATGTTGAAGGTAAAAAAGAC
62826 ATGTTGAAGGTAAA
1 ATGTTGAAGGTAAA
62840 TTCGCAACGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (20 bp):
ATGTTGAAGGTAAAAAAGAC
Found at i:62959 original size:33 final size:33
Alignment explanation
Indices: 62917--62993 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
62907 TTTCGTGTTT
* *
62917 CGAATTTGACTATCGCAACGC-TATTTCACGTTG
1 CGAATTTGACTACCGCAACGCTTA-TTCACATTG
* *
62950 CGAATTTGACTACCGTAACGCTTATTCGCATTG
1 CGAATTTGACTACCGCAACGCTTATTCACATTG
62983 CGAATTTGACT
1 CGAATTTGACT
62994 TTCGTGTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 37 0.95
34 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (33 bp):
CGAATTTGACTACCGCAACGCTTATTCACATTG
Found at i:63294 original size:18 final size:18
Alignment explanation
Indices: 63271--63306 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
63261 AAGCCGGTTG
*
63271 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
63289 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
63307 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:65364 original size:3 final size:3
Alignment explanation
Indices: 65356--65395 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
65346 TCTTTGGGGA
* *
65356 CTT CTT CTT CTT CTT TTT CTT CTT CTT CTT TTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
65396 AGGGTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:65375 original size:15 final size:15
Alignment explanation
Indices: 65357--65395 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
65347 CTTTGGGGAC
65357 TTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTT
65372 TTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTT
65387 TTCTTCTTC
1 TTCTTCTTC
65396 AGGGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCTTCTTCTTCTTT
Found at i:65592 original size:24 final size:24
Alignment explanation
Indices: 65565--65618 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
65555 TCTTCACATC
* *
65565 ATCAAAATCTGAGTATTGACCGAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
65589 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
65613 ATCAAA
1 ATCAAA
65619 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:66471 original size:27 final size:27
Alignment explanation
Indices: 66433--66494 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
66423 TGAAGATGCA
*
66433 ATGAGTTTCGATTTAGGGATTTAGGTT
1 ATGAGTTGCGATTTAGGGATTTAGGTT
66460 ATGAGTTGCGATTTAGGGATTTAGGTT
1 ATGAGTTGCGATTTAGGGATTTAGGTT
*
66487 ATAAGTTG
1 ATGAGTTG
66495 ATGCTGCTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.24, C:0.03, G:0.31, T:0.42
Consensus pattern (27 bp):
ATGAGTTGCGATTTAGGGATTTAGGTT
Found at i:66571 original size:19 final size:19
Alignment explanation
Indices: 66528--66593 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
66518 AAAAATATTT
* *
66528 GTGTTGCGAAACTAAA-AC
1 GTGTTGCGAAATTAAATTC
*
66546 CTGTTGCGAAATTAAATTC
1 GTGTTGCGAAATTAAATTC
*
66565 GTGTTGCGAATTTGAAATTC
1 GTGTTGCGAAATT-AAATTC
*
66585 -AGTTGCGAA
1 GTGTTGCGAA
66594 TTTGACTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 14 0.35
19 20 0.50
20 6 0.15
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (19 bp):
GTGTTGCGAAATTAAATTC
Found at i:66594 original size:19 final size:20
Alignment explanation
Indices: 66548--66617 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 20
66538 ACTAAAACCT
* *
66548 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTCGA
66567 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
**
66586 GTTGCGAATTTGACTTTCGCA
1 GTTGCGAATTTGAAATTCG-A
66607 -TTGCGAATTTG
1 GTTGCGAATTTG
66618 GAATATCGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
19 26 0.59
20 17 0.39
21 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:66633 original size:21 final size:21
Alignment explanation
Indices: 66609--66670 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
66599 CTTTCGCATT
66609 GCGAATTTGGAATATCGCAAC
1 GCGAATTTGGAATATCGCAAC
66630 GCGAATTTGGAATATCGCAAC
1 GCGAATTTGGAATATCGCAAC
* *
66651 GCGAATTTAGAAAATCGCAA
1 GCGAATTTGGAATATCGCAA
66671 TACAATTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (21 bp):
GCGAATTTGGAATATCGCAAC
Found at i:66732 original size:20 final size:20
Alignment explanation
Indices: 66683--66736 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
66673 CAATTTACAT
66683 ATTCGCGTTGCGAAATTAGA
1 ATTCGCGTTGCGAAATTAGA
* * *
66703 A-ACTGGGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTAGA
66723 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
66737 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTAGA
Done.