Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003135.1 Hibiscus syriacus cultivar Beakdansim tig00006576_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: 104402
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:825 original size:23 final size:25
Alignment explanation
Indices: 774--825 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
764 TTTTGTGTTA
774 ATTATGTTATAAATATTGTAAAATT
1 ATTATGTTATAAATATTGTAAAATT
* *
799 -TTATGTTGT-AATATT-TAGAATT
1 ATTATGTTATAAATATTGTAAAATT
821 ATTAT
1 ATTAT
826 AATACTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 6 0.25
23 10 0.42
24 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (25 bp):
ATTATGTTATAAATATTGTAAAATT
Found at i:4630 original size:27 final size:27
Alignment explanation
Indices: 4555--4621 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
4545 TTTTTTTTTG
* *
4555 CCCATTAGGCCATGCGAAAAATGTTAG
1 CCCATTAGGTCATGCGAAAAATGTTAA
4582 CCCATTAGGTCATGCGAAAAATGTTAA
1 CCCATTAGGTCATGCGAAAAATGTTAA
4609 CCCATTAGGTCAT
1 CCCATTAGGTCAT
4622 ATCTAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (27 bp):
CCCATTAGGTCATGCGAAAAATGTTAA
Found at i:6414 original size:43 final size:44
Alignment explanation
Indices: 6335--6423 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
6325 ATATATATAT
6335 ATACAGACGACACTAAAAACACGTGTCACCAAAATATAACAGAG
1 ATACAGACGACACTAAAAACACGTGTCACCAAAATATAACAGAG
* * *
6379 ATACAGACGATAGTAAAAACACGTGTCA-CTAAATATAACAGAG
1 ATACAGACGACACTAAAAACACGTGTCACCAAAATATAACAGAG
6422 AT
1 AT
6424 GGGCGTGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 16 0.38
44 26 0.62
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.17
Consensus pattern (44 bp):
ATACAGACGACACTAAAAACACGTGTCACCAAAATATAACAGAG
Found at i:8324 original size:32 final size:32
Alignment explanation
Indices: 8288--8360 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
8278 ATAAGAGATG
8288 AAATTTAAGCATGTTTCAGTTTTATTTACAAT
1 AAATTTAAGCATGTTTCAGTTTTATTTACAAT
8320 AAATTTAAGCATGTTTCAGTTTTATTTACAAT
1 AAATTTAAGCATGTTTCAGTTTTATTTACAAT
8352 AAATTTAAG
1 AAATTTAAG
8361 GATTACGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (32 bp):
AAATTTAAGCATGTTTCAGTTTTATTTACAAT
Found at i:14096 original size:2 final size:2
Alignment explanation
Indices: 14089--14135 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
14079 ATTATCTTAT
14089 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14131 TA TA T
1 TA TA T
14136 GGAAGTATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14478 original size:4 final size:4
Alignment explanation
Indices: 14469--14497 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
14459 GCAACAACAA
14469 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
14498 GAAGGATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:18909 original size:15 final size:16
Alignment explanation
Indices: 18887--18925 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
18877 CATTATATTG
18887 TAAATTTAAAATATAT
1 TAAATTTAAAATATAT
* *
18903 T-AATTTAAATTATTT
1 TAAATTTAAAATATAT
18918 TAAATTTA
1 TAAATTTA
18926 TTAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATTTAAAATATAT
Found at i:20210 original size:60 final size:59
Alignment explanation
Indices: 20118--20229 Score: 136
Period size: 60 Copynumber: 1.9 Consensus size: 59
20108 ATATATCCTC
* * * * *
20118 AAATTATGATTATCATTTTAAATATGTCTTTAAATTTTTAGATATTTTAATTTTATATCA
1 AAATTATGACTATCATTTTAAATATGTATTTAAACTTTGA-ATATTTCAATTTTATATCA
* *
20178 AAATTATGACTCTTATTTTAAAT-TGATATTTAAACTTTGAATATTTCAATTT
1 AAATTATGACTATCATTTTAAATATG-TATTTAAACTTTGAATATTTCAATTT
20230 CATCATTGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
59 13 0.30
60 31 0.70
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (59 bp):
AAATTATGACTATCATTTTAAATATGTATTTAAACTTTGAATATTTCAATTTTATATCA
Found at i:20872 original size:6 final size:6
Alignment explanation
Indices: 20861--20896 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
20851 TATATAAAAA
20861 AGAATT AGAATT AGAATT AGAATT AGAATT AGAATT
1 AGAATT AGAATT AGAATT AGAATT AGAATT AGAATT
20897 TATCAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
AGAATT
Found at i:21467 original size:180 final size:179
Alignment explanation
Indices: 21158--21625 Score: 638
Period size: 180 Copynumber: 2.6 Consensus size: 179
21148 GTCGATACAA
** * **
21158 ATAAAAATGTATCGATCCATAGGAATATAACAGGTAAAAATATGACAAAACCGGTTTC-ATTGTG
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGA-AATG
* ** * * *
21222 ACAAAATCGGTAAAGCGCTACCAAATATGTTAAAAGTATCAATTAGATTGAAATAAGTAACACTT
65 ACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGA-TAGATTGAAATAAGTAACACTT
*
21287 TTGGAATTTAAAAGAAAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
129 TTGGAATTTAAAAGAAAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTT
* *
21338 ATAAAAATATATCGCTCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGA
* *
21403 CAAAACCGGT-AA-CGCTACCGGATATGTTGAAAGTGTCGATA-CTTGGATATAAGTATCGACAC
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAGATT-GAAATAAGTA---ACAC
* *
21465 TTTTGGAATTTAAAAGAGAATAAGTAATAGCGCCTATAAAGTGTCGATACTTT
127 TTTTGGAATTTAAAAGAAAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * *
21518 ATAAAAATGTATCGATCCATAACAATATTACATGTAAAAATATGACAAAACAGGTCTCGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGA
* * *
21583 CAAAACCGGTAAATCGATACTGGATATGTTGAAAGTGTCGATA
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATA
21626 TTTTAATAAG
Statistics
Matches: 256, Mismatches: 25, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
176 2 0.01
177 11 0.04
178 22 0.09
179 2 0.01
180 189 0.74
181 3 0.01
182 27 0.11
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (179 bp):
ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGA
CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAGATTGAAATAAGTAACACTTTT
GGAATTTAAAAGAAAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTT
Found at i:24343 original size:18 final size:18
Alignment explanation
Indices: 24322--24361 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
24312 AAAAAAATAT
24322 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
24340 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
24358 GAAG
1 GAAG
24362 TAAGGAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.40, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:25920 original size:19 final size:19
Alignment explanation
Indices: 25896--25940 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
25886 TAGGGGAAAT
25896 TTTGTATACGATTTATAAG
1 TTTGTATACGATTTATAAG
* *
25915 TTTGTATATGATTTATAAT
1 TTTGTATACGATTTATAAG
25934 TTTGTAT
1 TTTGTAT
25941 GTGAATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTGTATACGATTTATAAG
Found at i:29217 original size:199 final size:199
Alignment explanation
Indices: 28553--29299 Score: 1049
Period size: 200 Copynumber: 3.7 Consensus size: 199
28543 AACAATTTTT
* * * *
28553 AAATTGTATCGATCCCAAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTTATAACGT
1 AAATTATATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGT
* * *
28618 AACCGGTATAAATATACC-AGTTTTATGAGAAAATAGGTCTACATAATGTATCGAAACTTTTTAA
66 AACCGGTAGAAATATACCGA-TTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTAAA
* * * * *
28682 ATTTGTGTAGATACTCTTTGTCAAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATAT
130 ATTTGTGTCGATACTTTTTGTCCAGAATGCATGCCAAACTAGGTGCACGCATAAAGTGTCGATA-
**
28747 TTTTTA
194 CATTTA
28753 AAATTATATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGT
1 AAATTATATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGT
* * * *
28818 AACCGGTA-AGAATATACCGGTTTTATGAGAAAAATAGGTCTACATAATGTATCAACATTTTTTT
66 AACCGGTAGA-AATATACCGATTTTATGAG-AAAATAGGTCTACATAATGTATCGACA-CTTTTA
*
28882 AAATTTGTGTCGATACTTTTTGTCCAGAATGCATACCAAACTAGGTGCACGCATAAAGTGTCGAT
128 AAATTTGTGTCGATACTTTTTGTCCAGAATGCATGCCAAACTAGGTGCACGCATAAAGTGTCGAT
28947 ACATTTA
193 ACATTTA
* * * *
28954 TTAAA--AGTATCGAT--CAAAAAAATCGAAACCCATAATTTTAATGTAATGGGTAAATTTACAA
1 --AAATTA-TATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAA
*
29015 TGTAACCGGTAGAAATATACCGACTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTA
63 TGTAACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTA
* * *
29080 AAATTTGTGTCGATTCTTTTTTTCCAGAATGCATGCCAAACTAGGTGCACGCATAAAGTGTTGAT
128 AAATTTGTGTCGATACTTTTTGTCCAGAATGCATGCCAAACTAGGTGCACGCATAAAGTGTCGAT
29145 ACATTTA
193 ACATTTA
* ** * *
29152 AAATTTTATTAATCCCAAAAACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGT
1 AAATTATATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGT
* *
29217 AACCGGTAGATATATACCAATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAA
66 AACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTATCGACAC-TTTTAAA
*
29282 A-TTATGTCGATACTTTTT
130 ATTTGTGTCGATACTTTTT
29300 TTAAATTACG
Statistics
Matches: 492, Mismatches: 42, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
196 3 0.01
197 5 0.01
198 72 0.15
199 141 0.29
200 165 0.34
201 31 0.06
202 72 0.15
203 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (199 bp):
AAATTATATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGT
AACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTAAAA
TTTGTGTCGATACTTTTTGTCCAGAATGCATGCCAAACTAGGTGCACGCATAAAGTGTCGATACA
TTTA
Found at i:31876 original size:33 final size:33
Alignment explanation
Indices: 31820--31892 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
31810 ATGTATAAAT
*
31820 TTGT-TGTGTATGTATGTTTTGGTTTGATTATA
1 TTGTGTGTGTATGTATGTTATGGTTTGATTATA
* *
31852 TTGTGTGTGTGTGTGTGTTATGGTTTGATTATA
1 TTGTGTGTGTATGTATGTTATGGTTTGATTATA
31885 TTGTGTGT
1 TTGTGTGT
31893 ATATTTTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.12, C:0.00, G:0.30, T:0.58
Consensus pattern (33 bp):
TTGTGTGTGTATGTATGTTATGGTTTGATTATA
Found at i:34083 original size:179 final size:178
Alignment explanation
Indices: 33762--34872 Score: 923
Period size: 196 Copynumber: 5.8 Consensus size: 178
33752 TACAATTTTA
* *
33762 AAAGTATCGACCCCAAAAAATCAAAACCGATAATTATCATG---TAGGTAAATTTACAATGTAAC
1 AAAGTGTCGACCCCAAAAAATCGAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTAAC
* *
33824 CGGTAGAAATATATCGGTTTAATTAGAAAATAGGTTAACATAATGTATCGACACTTGTGAAATTT
66 CGGTAGAAATATACCGG-TTAATTAGAAAATAGGTCAACATAATGTATCGACACTTGTGAAATTT
* *
33889 GTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACGAGGTACACACAT
130 GTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACACAT
* *
33938 AAAGTGTCGACCCCAAAAACATTGAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTGA
1 AAAGTGTCGACCCCAAAAA-ATCGAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTAA
34003 CCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTGTGAAATTT
65 CCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTGTGAAATTT
*
34068 GTGTCGATACTTTTTGTCCATAATGAATGCCCAAACGAGGTGCACACAT
130 GTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACACAT
* *
34117 AAAGTGTCGATACATTTTTAAAAGTATCGACCCAAAAAAATCGAAACCGATAATTATAATTTAAT
1 AAA--GT-G-T-C----------G-A-C--CCC-AAAAAATCGAAACCGATAATTATCATGTAAT
* * *
34182 AGGTTAATTTACAATGTAACCGGTAGAAATATACCAGTTAATTAGAAAATAGGTCAACAAAATGT
46 AGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGT
* * *
34247 ATCGACACTAT-TTAAA-TTGTATCGATACTTTTTGTCCAGAATGAATG-ACAAACGAGGTGCAC
111 ATCGACACT-TGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCAC
*
34309 GCAT
175 ACAT
* *
34313 AAAGTGTCGATACATTTTTTAAGTATCGACCCCAACAACATCGAAACCGATAATTATAATGTAAT
1 AAA--GT-G-T-C---------G-A-C---CCCAA-AAAATCGAAACCGATAATTATCATGTAAT
*
34378 AGGTAAATTTACAATGTAACCGGTAGAAATATACCAGTTAATTAGAAAATAGGTCAACATAATGT
46 AGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGT
*
34443 ATCGACACTAT-TTAAA-TTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAACGAGGTGCAC
111 ATCGACACT-TGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCA-
34505 GCATAAAGTGTCGAT
174 -C----A----C-AT
* * * * *
34520 ACAATTTTAAAAGTATCGACCCCAAAAACATCAAAATCAATAATTATCATATAAT-GAGTAAATT
1 A-AA--GT----G--TCGACCCCAAAAA-ATCGAAACCGATAATTATCATGTAATAG-GTAAATT
* * * * **
34584 TACAATGTAACCGGTAGAAATATATCAGTTAATTAAAAAATAGGTCAACATAATCTATCGATGCT
55 TACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGTATCGACACT
* * * * *
34649 AT-TTAAATTT-TGTTGATACTTTTTGTCTAGAATGAATGCCCAAACGAGGTGTACGCAT
120 -TGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACACAT
*
34707 AAAGTGTCGATATATTTATTAAAAGTATCGACCCCAAAAACATCAAAACCGATAATTATCATGTA
1 AAA--GT-G------------------TCGACCCCAAAAA-ATCGAAACCGATAATTATCATGTA
* *
34772 ATAGGTAAATTTACAATGTAACCGATAGAAATATACTGGTTAATTAGAAAATAGGTCAACATAAT
44 ATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAAT
* * * * *
34837 GTATCAACACTTTTTAAATTTGTATCGATATTTTTT
109 GTATCGACACTTGTGAAATTTGTGTCGATACTTTTT
34873 AAAATTACGC
Statistics
Matches: 800, Mismatches: 69, Indels: 108
0.82 0.07 0.11
Matches are distributed among these distances:
176 18 0.02
177 20 0.03
179 95 0.12
180 36 0.05
181 2 0.00
182 1 0.00
183 2 0.00
184 1 0.00
186 4 0.00
187 3 0.00
188 1 0.00
194 1 0.00
195 14 0.02
196 187 0.23
197 155 0.19
198 117 0.15
199 116 0.14
200 13 0.02
201 1 0.00
202 1 0.00
206 1 0.00
207 3 0.00
208 4 0.00
211 2 0.00
212 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (178 bp):
AAAGTGTCGACCCCAAAAAATCGAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTAAC
CGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTGTGAAATTTG
TGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACACAT
Found at i:34389 original size:196 final size:198
Alignment explanation
Indices: 33938--34872 Score: 1423
Period size: 196 Copynumber: 4.7 Consensus size: 198
33928 GTACACACAT
* * *
33938 AAAGTGTCGACCCCAAAAACATTGAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTGA
1 AAAGTATCGACCCCAAAAACATCGAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTAA
* *
34003 CCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGTATCGACACT-TGTGAAATT
66 CCGGTAGAAATATACCAGTTAATTAGAAAATAGGTCAACATAATGTATCGACACTAT-TTAAA-T
* *
34067 TGTGTCGATACTTTTTGTCCATAATGAATGCCCAAACGAGGTGCACACATAAAGTGTCGATACAT
129 TGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACAT
34132 TTTTA
194 TTTTA
* * * *
34137 AAAGTATCGA-CCCAAAAAAATCGAAACCGATAATTATAATTTAATAGGTTAATTTACAATGTAA
1 AAAGTATCGACCCCAAAAACATCGAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTAA
*
34201 CCGGTAGAAATATACCAGTTAATTAGAAAATAGGTCAACAAAATGTATCGACACTATTTAAATTG
66 CCGGTAGAAATATACCAGTTAATTAGAAAATAGGTCAACATAATGTATCGACACTATTTAAATTG
* *
34266 TATCGATACTTTTTGTCCAGAATGAATG-ACAAACGAGGTGCACGCATAAAGTGTCGATACATTT
131 TGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATTT
34330 TT-
196 TTA
* * *
34332 TAAGTATCGACCCCAACAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTATCGACCCCAAAAACATCGAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTAA
34397 CCGGTAGAAATATACCAGTTAATTAGAAAATAGGTCAACATAATGTATCGACACTATTTAAATTG
66 CCGGTAGAAATATACCAGTTAATTAGAAAATAGGTCAACATAATGTATCGACACTATTTAAATTG
*
34462 TGTCGATACTTTTTGTCCAGAATGAATG-CCAAACGAGGTGCACGCATAAAGTGTCGATACAATT
131 TGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATTT
34526 TTA
196 TTA
* * * *
34529 AAAGTATCGACCCCAAAAACATCAAAATCAATAATTATCATATAAT-GAGTAAATTTACAATGTA
1 AAAGTATCGACCCCAAAAACATCGAAACCGATAATTATCATGTAATAG-GTAAATTTACAATGTA
* * * **
34593 ACCGGTAGAAATATATCAGTTAATTAAAAAATAGGTCAACATAATCTATCGATGCTATTTAAATT
65 ACCGGTAGAAATATACCAGTTAATTAGAAAATAGGTCAACATAATGTATCGACACTATTTAAATT
* * * * *
34658 TTGTTGATACTTTTTGTCTAGAATGAATGCCCAAACGAGGTGTACGCATAAAGTGTCGATATATT
130 GTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATT
34723 TATTA
195 T-TTA
*
34728 AAAGTATCGACCCCAAAAACATCAAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTAA
1 AAAGTATCGACCCCAAAAACATCGAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTAA
* ** * *
34793 CCGATAGAAATATACTGGTTAATTAGAAAATAGGTCAACATAATGTATCAACACTTTTTAAATTT
66 CCGGTAGAAATATACCAGTTAATTAGAAAATAGGTCAACATAATGTATCGACACTATTTAAA-TT
* *
34858 GTATCGATATTTTTT
130 GTGTCGATACTTTTT
34873 AAAATTACGC
Statistics
Matches: 670, Mismatches: 58, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
195 9 0.01
196 214 0.32
197 170 0.25
198 138 0.21
199 125 0.19
200 14 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (198 bp):
AAAGTATCGACCCCAAAAACATCGAAACCGATAATTATCATGTAATAGGTAAATTTACAATGTAA
CCGGTAGAAATATACCAGTTAATTAGAAAATAGGTCAACATAATGTATCGACACTATTTAAATTG
TGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATTT
TTA
Found at i:36447 original size:2 final size:2
Alignment explanation
Indices: 36440--36465 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36430 CGCACGCAAA
36440 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
36466 TCCATACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36911 original size:158 final size:158
Alignment explanation
Indices: 36736--37100 Score: 649
Period size: 158 Copynumber: 2.3 Consensus size: 158
36726 TAATGTGCAA
* *
36736 CCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAAC
1 CCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAAC
36801 AGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTA
66 AGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTA
*
36866 ATTAATCTATTTTATTATATAAGCGATG
131 ATTAACCTATTTTATTATATAAGCGATG
* *
36894 CCTATTACGTTATATAAGCACTACCTAATATGTTATTGTGCTTGATAATGTTTCCGGTAATTAAC
1 CCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAAC
*
36959 CGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTA
66 AGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTA
*
37024 ATTAACCTATTTTATTATATAAGCGTTG
131 ATTAACCTATTTTATTATATAAGCGATG
* *
37052 CCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAAT
1 CCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAAT
37101 ATTTATGGTT
Statistics
Matches: 197, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
158 197 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (158 bp):
CCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAAC
AGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTA
ATTAACCTATTTTATTATATAAGCGATG
Found at i:36920 original size:23 final size:23
Alignment explanation
Indices: 36880--36929 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
36870 ATCTATTTTA
* *
36880 TTATATAAGCGATGCCTATTACG
1 TTATATAAGCGATACCTAATACG
*
36903 TTATATAAGC-ACTACCTAATATG
1 TTATATAAGCGA-TACCTAATACG
36926 TTAT
1 TTAT
36930 TGTGCTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGATACCTAATACG
Found at i:37078 original size:23 final size:23
Alignment explanation
Indices: 37028--37078 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
37018 TAAGTAATTA
** *
37028 ACCTATTTTATTATATAAGCGTT
1 ACCTATTACATTATATAAGCGCT
*
37051 GCCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
37074 ACCTA
1 ACCTA
37079 ATATGTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:38148 original size:43 final size:42
Alignment explanation
Indices: 38076--38157 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 42
38066 TCAATATTAA
*
38076 ATAAGTATTAAATATAATTAACTTCATATTATATTTGTTAAAT
1 ATAAGTATTAAATATAATTAAC-TCATATTAAATTTGTTAAAT
38119 ATAAGTATTAAATATATATATATA-T-ATATTAAATTTGTT
1 ATAAGTATTAAATATA-AT-TA-ACTCATATTAAATTTGTT
38158 TAAAGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
43 29 0.83
44 3 0.09
45 2 0.06
46 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (42 bp):
ATAAGTATTAAATATAATTAACTCATATTAAATTTGTTAAAT
Found at i:38442 original size:21 final size:20
Alignment explanation
Indices: 38414--38457 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
38404 ATTTTAGGAT
*
38414 TTAAATTTTAAATTTTAAA-A
1 TTAAATTTGAAA-TTTAAATA
38434 TTAAGATTTGAAATTTAAATA
1 TTAA-ATTTGAAATTTAAATA
38455 TTA
1 TTA
38458 TAATATAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
TTAAATTTGAAATTTAAATA
Found at i:41303 original size:31 final size:31
Alignment explanation
Indices: 41248--41310 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
41238 TAACATTATC
*
41248 TTCTGTCATTAAATCGAATCAATAAATTTTA
1 TTCTGTCATTAAATCGAATCAATAAACTTTA
* * * *
41279 TTCTGTCATTCAGTTGAATGAATAAACTTTA
1 TTCTGTCATTAAATCGAATCAATAAACTTTA
41310 T
1 T
41311 ACACATTGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.43
Consensus pattern (31 bp):
TTCTGTCATTAAATCGAATCAATAAACTTTA
Found at i:41493 original size:2 final size:2
Alignment explanation
Indices: 41486--41517 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
41476 CTAAACCTAT
41486 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41518 ACACCCCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44235 original size:10 final size:9
Alignment explanation
Indices: 44200--44298 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
44190 GCTGCTGGAA
*
44200 ACCGGTTTA
1 ACCGGTTTG
*
44209 ACCGGTTTTCA
1 ACCGG-TTT-G
44220 ACCGGTTCTG
1 ACCGGTT-TG
44230 ACCGGTTTG
1 ACCGGTTTG
*
44239 ACCGGTTTCA
1 ACCGGTTT-G
*
44249 ACCGGTTCG
1 ACCGGTTTG
44258 AACCGGTTTG
1 -ACCGGTTTG
*
44268 ACCGGTCTG
1 ACCGGTTTG
44277 ACTCGGTTTG
1 AC-CGGTTTG
*
44287 ACCGGTCTG
1 ACCGGTTTG
44296 ACC
1 ACC
44299 CGACCCGACC
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
9 34 0.45
10 35 0.46
11 7 0.09
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:44244 original size:19 final size:19
Alignment explanation
Indices: 44201--44298 Score: 87
Period size: 19 Copynumber: 5.1 Consensus size: 19
44191 CTGCTGGAAA
* * *
44201 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
44221 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
44240 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
44260 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
44278 CTCGGTTTGACCGG-TCTGA
1 C-CGGTTTGACCGGTTCTGA
44297 CC
1 CC
44299 CGACCCGACC
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
18 6 0.09
19 39 0.57
20 15 0.22
21 8 0.12
ACGTcount: A:0.14, C:0.29, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:44262 original size:29 final size:30
Alignment explanation
Indices: 44199--44273 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
44189 GGCTGCTGGA
*
44199 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
44230 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
44258 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
44274 CTGACTCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:44283 original size:29 final size:28
Alignment explanation
Indices: 44200--44298 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
44190 GCTGCTGGAA
* *
44200 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTCAACCGGTTC-G
*
44230 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTCTCAACCGGTTCG
* *
44258 AACCGGTTTGACCGGTCT-GACTCGGTTTG
1 -ACCGGTTTGACCGGTCTCAAC-CGGTTCG
*
44287 ACCGGTCTGACC
1 ACCGGTTTGACC
44299 CGACCCGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
28 14 0.23
29 35 0.56
30 13 0.21
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTCAACCGGTTCG
Found at i:44305 original size:5 final size:5
Alignment explanation
Indices: 44295--44352 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
44285 TGACCGGTCT
* *
44295 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
44344 GACCC GACC
1 GACCC GACC
44353 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:44321 original size:22 final size:22
Alignment explanation
Indices: 44295--44359 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
44285 TGACCGGTCT
44295 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
44317 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
44339 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
44360 GTTGACTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:51559 original size:10 final size:9
Alignment explanation
Indices: 51524--51622 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
51514 GCTGCTGGAA
*
51524 ACCGGTTTA
1 ACCGGTTTG
*
51533 ACCGGTTTTCA
1 ACCGG-TTT-G
51544 ACCGGTTCTG
1 ACCGGTT-TG
51554 ACCGGTTTG
1 ACCGGTTTG
*
51563 ACCGGTTTCA
1 ACCGGTTT-G
*
51573 ACCGGTTCG
1 ACCGGTTTG
51582 AACCGGTTTG
1 -ACCGGTTTG
*
51592 ACCGGTCTG
1 ACCGGTTTG
51601 ACTCGGTTTG
1 AC-CGGTTTG
*
51611 ACCGGTCTG
1 ACCGGTTTG
51620 ACC
1 ACC
51623 CGACCCGACC
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
9 34 0.45
10 35 0.46
11 7 0.09
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:51568 original size:19 final size:19
Alignment explanation
Indices: 51525--51622 Score: 87
Period size: 19 Copynumber: 5.1 Consensus size: 19
51515 CTGCTGGAAA
* * *
51525 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
51545 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
51564 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
51584 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
51602 CTCGGTTTGACCGG-TCTGA
1 C-CGGTTTGACCGGTTCTGA
51621 CC
1 CC
51623 CGACCCGACC
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
18 6 0.09
19 39 0.57
20 15 0.22
21 8 0.12
ACGTcount: A:0.14, C:0.29, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:51586 original size:29 final size:30
Alignment explanation
Indices: 51523--51597 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
51513 GGCTGCTGGA
*
51523 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
51554 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
51582 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
51598 CTGACTCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:51607 original size:29 final size:28
Alignment explanation
Indices: 51524--51622 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
51514 GCTGCTGGAA
* *
51524 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTCAACCGGTTC-G
*
51554 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTCTCAACCGGTTCG
* *
51582 AACCGGTTTGACCGGTCT-GACTCGGTTTG
1 -ACCGGTTTGACCGGTCTCAAC-CGGTTCG
*
51611 ACCGGTCTGACC
1 ACCGGTTTGACC
51623 CGACCCGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
28 14 0.23
29 35 0.56
30 13 0.21
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTCAACCGGTTCG
Found at i:51629 original size:5 final size:5
Alignment explanation
Indices: 51619--51676 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
51609 TGACCGGTCT
* *
51619 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
51668 GACCC GACC
1 GACCC GACC
51677 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:51645 original size:22 final size:22
Alignment explanation
Indices: 51619--51683 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
51609 TGACCGGTCT
51619 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
51641 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
51663 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
51684 GTTGACTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:53672 original size:2 final size:2
Alignment explanation
Indices: 53665--53689 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
53655 AGGGTGTTAC
53665 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
53690 ATTTTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57346 original size:3 final size:3
Alignment explanation
Indices: 57338--57443 Score: 203
Period size: 3 Copynumber: 35.3 Consensus size: 3
57328 TCAAATCCTT
*
57338 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57386 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57434 TTA TTA TTA T
1 TTA TTA TTA T
57444 CACAGTAATT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 101 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:60530 original size:2 final size:2
Alignment explanation
Indices: 60523--60559 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
60513 TTATTGAAAT
60523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60560 GAATTAGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:61043 original size:16 final size:17
Alignment explanation
Indices: 61018--61052 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
61008 CCGAAGTGTC
61018 GCATTGACTTTT-CAAA
1 GCATTGACTTTTACAAA
*
61034 GCATTTACTTTTACAAA
1 GCATTGACTTTTACAAA
61051 GC
1 GC
61053 GACTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (17 bp):
GCATTGACTTTTACAAA
Found at i:61622 original size:19 final size:20
Alignment explanation
Indices: 61598--61635 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
61588 AAAATGTTTT
61598 TATGAATAGTACT-ATACTA
1 TATGAATAGTACTGATACTA
61617 TATGAATAGTACTGATACT
1 TATGAATAGTACTGATACT
61636 GTGGAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
TATGAATAGTACTGATACTA
Found at i:62658 original size:30 final size:30
Alignment explanation
Indices: 62624--62691 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 30
62614 GTTTTGAAGA
62624 ACATAGATAAT-TGTCCATATGTCCCGAAAG
1 ACATAG-TAATCTGTCCATATGTCCCGAAAG
62654 ACATATGTAATCCTGTCCATATGTCCCGAAAG
1 ACATA-GTAAT-CTGTCCATATGTCCCGAAAG
62686 ACATAG
1 ACATAG
62692 GTAACCCTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
30 9 0.26
31 2 0.06
32 24 0.69
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (30 bp):
ACATAGTAATCTGTCCATATGTCCCGAAAG
Found at i:62675 original size:32 final size:32
Alignment explanation
Indices: 62635--62695 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
62625 CATAGATAAT
*
62635 TGTCCATATGTCCCGAAAGACATATGTAATCC
1 TGTCCATATGTCCCGAAAGACATAGGTAATCC
62667 TGTCCATATGTCCCGAAAGACATAGGTAA
1 TGTCCATATGTCCCGAAAGACATAGGTAA
62696 CCCTCGACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (32 bp):
TGTCCATATGTCCCGAAAGACATAGGTAATCC
Found at i:67802 original size:21 final size:21
Alignment explanation
Indices: 67777--67820 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
67767 CCAGACCCGA
67777 GAGCTTAAAGATCGGCAGACT
1 GAGCTTAAAGATCGGCAGACT
* *
67798 GAGCTTAAAGCTTGGCAGACT
1 GAGCTTAAAGATCGGCAGACT
67819 GA
1 GA
67821 AAAGACAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (21 bp):
GAGCTTAAAGATCGGCAGACT
Found at i:70980 original size:17 final size:18
Alignment explanation
Indices: 70950--70992 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
70940 AAATTGTCCT
* *
70950 TATTATATATTTGTATAA
1 TATTATATAATTGTAAAA
70968 TATTATA-AATTGTAAAA
1 TATTATATAATTGTAAAA
70985 TATT-TATA
1 TATTATATA
70993 GATTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 13 0.59
18 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TATTATATAATTGTAAAA
Found at i:72051 original size:18 final size:19
Alignment explanation
Indices: 72028--72071 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
72018 TCAGTAATCC
72028 TATTCC-CTGGTAATCTTT-
1 TATTCCACTGGTAAT-TTTA
72046 TATTCCCACTGGTAATTTTA
1 TATT-CCACTGGTAATTTTA
72066 TATTCC
1 TATTCC
72072 GTAAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 7 0.30
20 12 0.52
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (19 bp):
TATTCCACTGGTAATTTTA
Found at i:72059 original size:20 final size:20
Alignment explanation
Indices: 72034--72071 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
72024 ATCCTATTCC
72034 CTGGTAATCTTT-TATTCCCA
1 CTGGTAAT-TTTATATTCCCA
72054 CTGGTAATTTTATATTCC
1 CTGGTAATTTTATATTCC
72072 GTAAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (20 bp):
CTGGTAATTTTATATTCCCA
Found at i:72938 original size:109 final size:110
Alignment explanation
Indices: 72746--72961 Score: 319
Period size: 109 Copynumber: 2.0 Consensus size: 110
72736 TGACAATATC
* * *
72746 GATACTTGTACATTTTCGCCTATTTTCATTATACCAGTAGAAACGTTTACCATGTACATTGTTAA
1 GATACTTGTACATTTTCGCATATTTCCATTATACCAGTAGAAACGTCTACCATGTACATTGTTAA
72811 TTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTACT
66 TTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTACT
* * * *
72856 GATACTTGTACATTTAT-GCATATTTCCATTCTACCGGTTGAAA-GTCTACCGTGTACATTGTTA
1 GATACTTGTACATTT-TCGCATATTTCCATTATACCAGTAGAAACGTCTACCATGTACATTGTTA
* * *
72919 ATTTACTTGTTACTTTAAAGTAATATGTTTCAAAATTATAAGT
65 ATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGT
72962 TTAGATATTT
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
109 58 0.61
110 36 0.38
111 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (110 bp):
GATACTTGTACATTTTCGCATATTTCCATTATACCAGTAGAAACGTCTACCATGTACATTGTTAA
TTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTACT
Found at i:73089 original size:131 final size:131
Alignment explanation
Indices: 72902--73341 Score: 646
Period size: 131 Copynumber: 3.4 Consensus size: 131
72892 GTTGAAAGTC
* * * * * *
72902 TACCGTGTACATTGTTAATTTACTTGTTACTTTAAAGTAATATGTTTCAAAATTATAAGTTTAGA
1 TACCGTGTACATTGTTAATTTACCTATTACTTTAAAATAATAGGTTTCAAAATTATAAGTATCGA
* * * * * *
72967 TATTTTGTATATGAGTATCGATACTTGGATATTTACGCCTATTTTTATTATATCGGTAGAAACGT
66 TAATTTGTATATGAGTATCAATAGTTGGACATTTACGCCTATTTTTATTATACCGATAGAAACGT
73032 T
131 T
* * *
73033 TACCGTGTACATTGTTAATTTACCTATTACTTCAAAATAATAAGTTTCGAAATTATAAGTATCGA
1 TACCGTGTACATTGTTAATTTACCTATTACTTTAAAATAATAGGTTTCAAAATTATAAGTATCGA
* * *
73098 TAATTTGTATATGAGTATCAATAGTTGGACATTTACGTCTATTTTTATTATACCAATAGAAAAGT
66 TAATTTGTATATGAGTATCAATAGTTGGACATTTACGCCTATTTTTATTATACCGATAGAAACGT
73163 T
131 T
*
73164 TACTGTGTACATTGTTAATTTACCTATTACTTTAAAATAATAGGTTTCAAAATTATAAGTATCGA
1 TACCGTGTACATTGTTAATTTACCTATTACTTTAAAATAATAGGTTTCAAAATTATAAGTATCGA
* * * * *
73229 TAATTTGTATATGATTATCAATAGTTGGGCATTTACGCCTATTTTCATTATACCGATAAAAACAT
66 TAATTTGTATATGAGTATCAATAGTTGGACATTTACGCCTATTTTTATTATACCGATAGAAACGT
73294 T
131 T
* *
73295 TACAGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTT
1 TACCGTGTACATTGTTAATTTACCTATTACTTTAAAATAATAGGTTT
73342 ATGTTGAACT
Statistics
Matches: 278, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 278 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (131 bp):
TACCGTGTACATTGTTAATTTACCTATTACTTTAAAATAATAGGTTTCAAAATTATAAGTATCGA
TAATTTGTATATGAGTATCAATAGTTGGACATTTACGCCTATTTTTATTATACCGATAGAAACGT
T
Found at i:77693 original size:21 final size:21
Alignment explanation
Indices: 77669--77732 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
77659 AAATGTATCA
*
77669 ATACACATATTTAAAGTATTG
1 ATACACATATATAAAGTATTG
*
77690 AT--AC-T-TATAAATGTATCG
1 ATACACATATATAAA-GTATTG
77708 ATACACATATATAAAGTATTG
1 ATACACATATATAAAGTATTG
77729 ATAC
1 ATAC
77733 TTTGGTACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 5 0.14
18 8 0.23
19 2 0.06
20 2 0.06
21 12 0.34
22 6 0.17
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (21 bp):
ATACACATATATAAAGTATTG
Found at i:77713 original size:39 final size:39
Alignment explanation
Indices: 77659--77734 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
77649 TTTTCATGCA
*
77659 AAATGTATCAATACACATATTTAAAGTATTGATACTTAT
1 AAATGTATCAATACACATATATAAAGTATTGATACTTAT
*
77698 AAATGTATCGATACACATATATAAAGTATTGATACTT
1 AAATGTATCAATACACATATATAAAGTATTGATACTT
77735 TGGTACATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (39 bp):
AAATGTATCAATACACATATATAAAGTATTGATACTTAT
Found at i:78054 original size:197 final size:197
Alignment explanation
Indices: 77718--78227 Score: 725
Period size: 197 Copynumber: 2.6 Consensus size: 197
77708 ATACACATAT
* * *
77718 ATAAAGTATTGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACCATTTCGA
1 ATAAAGTATCGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACAATTCCGA
* * * * *
77783 TAACTCTTTACCGGTTTTGTCAAATTGAAATTGGTTTTGTCAAATTTAAACCTGTTATATTGTCA
66 TAACTCTTTACCGGTTTTGTCAAATTGAAACTGATTTTGTCAAATTTCAACATGTTATATTATCA
* *
77848 TGTATCGATACATGTGTCTAAGGTATCGATACTTTATAGTCGCTATTATTGCAATTCTTTTAAAT
131 TGTATCGATACATGTGTCTAAGGTATCGATACTTTATAGCCGCTATTATTACAATTCTTTTAAAT
77913 TC
196 TC
* * * * * * *
77915 CTAAAGTACCGATACATTGGTACTTATACTAATAAATGTATCGATACAAATTTCAACAATTCCAA
1 ATAAAGTATCGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACAATTCCGA
* *
77980 TAAATCTTTACCGGTTTTGTCAAATTGAAACTGATTTTGTCAAATTTCATCATGTTATATTATCA
66 TAACTCTTTACCGGTTTTGTCAAATTGAAACTGATTTTGTCAAATTTCAACATGTTATATTATCA
*
78045 TGTATCGATACATGTGTGTAAGGTATCGATACTTTATAGCCGCTATTATTACAATTCTTTTAAAT
131 TGTATCGATACATGTGTCTAAGGTATCGATACTTTATAGCCGCTATTATTACAATTCTTTTAAAT
78110 TC
196 TC
* * * * * * *
78112 ATACAGTTTCGATACTTTGGTAAATATACTTATAAACGTATCAATACAAATTTCAACAATTCTGG
1 ATAAAGTATCGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACAATTCCGA
* * * *
78177 TAGCTTTTTACCGGTTTTGTCAAATTAAAAC-AAGTTTTGTCAAATTTCAAC
66 TAACTCTTTACCGGTTTTGTCAAATTGAAACTGA-TTTTGTCAAATTTCAAC
78228 CGATTTTGTC
Statistics
Matches: 273, Mismatches: 39, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
196 1 0.00
197 272 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (197 bp):
ATAAAGTATCGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACAATTCCGA
TAACTCTTTACCGGTTTTGTCAAATTGAAACTGATTTTGTCAAATTTCAACATGTTATATTATCA
TGTATCGATACATGTGTCTAAGGTATCGATACTTTATAGCCGCTATTATTACAATTCTTTTAAAT
TC
Found at i:78234 original size:20 final size:20
Alignment explanation
Indices: 78211--78263 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
78201 TTAAAACAAG
78211 TTTTGTCAAATTTCAACCGA
1 TTTTGTCAAATTTCAACCGA
* * *
78231 TTTTGTCAAATTTTAATCGG
1 TTTTGTCAAATTTCAACCGA
78251 TTTTGTCAAATTT
1 TTTTGTCAAATTT
78264 GTTACTTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.49
Consensus pattern (20 bp):
TTTTGTCAAATTTCAACCGA
Found at i:80450 original size:2 final size:2
Alignment explanation
Indices: 80445--80486 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
80435 AAAATATTAA
80445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80487 TTAGCTTTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81187 original size:16 final size:16
Alignment explanation
Indices: 81156--81202 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
81146 AGATTTTTTA
81156 ATAATTTAA-TATATAT
1 ATAATTTAATTA-ATAT
81172 ATAATTTAATTAATAT
1 ATAATTTAATTAATAT
*
81188 ACTAAAATTAATTAA
1 A-T-AATTTAATTAA
81203 ATTAACCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 14 0.52
17 3 0.11
18 10 0.37
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATTTAATTAATAT
Found at i:83922 original size:13 final size:13
Alignment explanation
Indices: 83904--83929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83894 AATAATTTGA
83904 CCTTGAATTCAAC
1 CCTTGAATTCAAC
83917 CCTTGAATTCAAC
1 CCTTGAATTCAAC
83930 AGAAGTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
CCTTGAATTCAAC
Found at i:84694 original size:2 final size:2
Alignment explanation
Indices: 84687--84715 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
84677 GGTCAAACGA
84687 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84716 AACATGCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85246 original size:24 final size:24
Alignment explanation
Indices: 85210--85256 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
85200 TTCATATGTT
* *
85210 AAATTGATGTTTTATCTAAAGTTA
1 AAATTGATATTTTATATAAAGTTA
*
85234 AAATTTATATTTTATATAAAGTT
1 AAATTGATATTTTATATAAAGTT
85257 TAGGATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (24 bp):
AAATTGATATTTTATATAAAGTTA
Found at i:86083 original size:2 final size:2
Alignment explanation
Indices: 86076--86110 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
86066 TCTTTAAGCT
* *
86076 TC TC TC TC TC TT TC TC TC TC TC TT TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
86111 GTCATTGTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (2 bp):
TC
Found at i:86090 original size:12 final size:12
Alignment explanation
Indices: 86075--86110 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
86065 CTCTTTAAGC
86075 TTCTCTCTCTCT
1 TTCTCTCTCTCT
86087 TTCTCTCTCTCT
1 TTCTCTCTCTCT
86099 TTCTCTCTCTCT
1 TTCTCTCTCTCT
86111 GTCATTGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (12 bp):
TTCTCTCTCTCT
Found at i:87273 original size:26 final size:26
Alignment explanation
Indices: 87244--87314 Score: 133
Period size: 26 Copynumber: 2.7 Consensus size: 26
87234 ATATTTGATA
87244 TTACTGATGTTTTAGTTACACGTGAG
1 TTACTGATGTTTTAGTTACACGTGAG
87270 TTACTGATGTTTTAGTTACACGTGAG
1 TTACTGATGTTTTAGTTACACGTGAG
*
87296 TTCCTGATGTTTTAGTTAC
1 TTACTGATGTTTTAGTTAC
87315 TGAACCAGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (26 bp):
TTACTGATGTTTTAGTTACACGTGAG
Found at i:93088 original size:31 final size:31
Alignment explanation
Indices: 93053--93122 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
93043 CCAAATCACT
* * *
93053 AAAACTTGATAAAATGATAATATAAGTGAAC
1 AAAACTTAATAAAATAATAACATAAGTGAAC
* * *
93084 AAAACATAATAAAATAATAACGTAAGTGACC
1 AAAACTTAATAAAATAATAACATAAGTGAAC
93115 AAAACTTA
1 AAAACTTA
93123 TATTTTTTGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (31 bp):
AAAACTTAATAAAATAATAACATAAGTGAAC
Found at i:93289 original size:31 final size:31
Alignment explanation
Indices: 93254--93320 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
93244 TCAACATTTT
*
93254 GTGACAACATCTTAA-TAAAAACAAAACGAAA
1 GTGACAAAATCTTAACT-AAAACAAAACGAAA
* *
93285 GTGACAAAATCTTAACTAAAACGAAATGAAA
1 GTGACAAAATCTTAACTAAAACAAAACGAAA
93316 GTGAC
1 GTGAC
93321 CAAACTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.54, C:0.15, G:0.13, T:0.18
Consensus pattern (31 bp):
GTGACAAAATCTTAACTAAAACAAAACGAAA
Found at i:93825 original size:2 final size:2
Alignment explanation
Indices: 93814--93860 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
93804 TCGTCCTTAT
93814 TA TA -A TA TA TA TA TA TA TA TA T- TA TA TA -A TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
93852 TT TA TA TA T
1 TA TA TA TA T
93861 TTTTTCTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 4 0.10
2 35 0.90
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:93836 original size:22 final size:23
Alignment explanation
Indices: 93811--93861 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
93801 ATTTCGTCCT
93811 TATTATAATATATA-TATATATA
1 TATTATAATATATATTATATATA
*
93833 TATTATATAATATATATTATTTATA
1 TA-T-TATAATATATATTATATATA
93858 TATT
1 TATT
93862 TTTTCTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 2 0.08
24 12 0.48
25 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTATAATATATATTATATATA
Found at i:97994 original size:155 final size:157
Alignment explanation
Indices: 97686--98025 Score: 495
Period size: 155 Copynumber: 2.2 Consensus size: 157
97676 TGTGGTATAT
* * *
97686 GAGCATGTGGTTTAAATTTGGTAAAAAAGTGACTTAAAATAAATCACAAATTGAAGGAATAAGGA
1 GAGCATGTGGTTCAAATTTGGT-AAAAAGTGACTAAAAATAAATCACAAATTGAAGAAATAAGGA
* * * *
97751 GATTATGAAGAATTGAAGGACTAAATTGAAAATAAAAAATTTTGTTATAAAAAAGAGGAATTGAA
65 GATTATGAAAAATTAAAAGACTAAATTGAAAATAAAAAATTTTGTTATAAAAAAGAGGAATTAAA
* *
97816 AGTACACATGTATTCTACTATGGTTTAG
130 AGTACACACGCATTCTACTATGGTTTAG
* * *
97844 GAGCATGTGGCTCAAATTTGGTAAAAAG-GACTAAAAATAAATGACGAATTGAAGAAATAAGGAG
1 GAGCATGTGGTTCAAATTTGGTAAAAAGTGACTAAAAATAAATCACAAATTGAAGAAATAAGGAG
* * *
97908 ATTATGAAAAATTAAAAGACTAAATTGAAAA-ATAAAATTTTGTTATCACAAAGAGGAATTAAAA
66 ATTATGAAAAATTAAAAGACTAAATTGAAAATAAAAAATTTTGTTATAAAAAAGAGGAATTAAAA
*
97972 TTACACACGCATTCTACTATGGTTTAG
131 GTACACACGCATTCTACTATGGTTTAG
* *
97999 GAGCGTGTAGTTCAAATTTGGTAAAAA
1 GAGCATGTGGTTCAAATTTGGTAAAAA
98026 AAATAGACTT
Statistics
Matches: 163, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
155 77 0.47
156 60 0.37
157 6 0.04
158 20 0.12
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (157 bp):
GAGCATGTGGTTCAAATTTGGTAAAAAGTGACTAAAAATAAATCACAAATTGAAGAAATAAGGAG
ATTATGAAAAATTAAAAGACTAAATTGAAAATAAAAAATTTTGTTATAAAAAAGAGGAATTAAAA
GTACACACGCATTCTACTATGGTTTAG
Found at i:99077 original size:20 final size:20
Alignment explanation
Indices: 99052--99114 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
99042 CCAAATTCGA
99052 AACGCGAATCTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
99072 AACGCGAATCTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
* *
99092 AATGCGAATTTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
99112 AAC
1 AAC
99115 ACATAAGTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
AACGCGAATCTGTAAATCGC
Found at i:99149 original size:20 final size:20
Alignment explanation
Indices: 99120--99214 Score: 129
Period size: 20 Copynumber: 4.8 Consensus size: 20
99110 GCAACACATA
*
99120 AGTCAAATTCGAAACGCGAT
1 AGTCAAATTCGCAACGCGAT
* * *
99140 ACTAAAATTCGCAATGCGAT
1 AGTCAAATTCGCAACGCGAT
99160 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
* *
99180 AGTCAAATTCGCAACAC-AA
1 AGTCAAATTCGCAACGCGAT
99199 AGTCAAATTCGCAACG
1 AGTCAAATTCGCAACG
99215 TGGAATTTCA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 16 0.25
20 49 0.75
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCGAT
Found at i:99152 original size:40 final size:40
Alignment explanation
Indices: 99108--99214 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
99098 AATTTGTAAA
*
99108 TCGCAACACATAAGTCAAATTCGAAACGCGATACTAAAAT
1 TCGCAACACATAAGTCAAATTCGCAACGCGATACTAAAAT
** * *
99148 TCGCAATGCGAT-AGTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACAC-ATAAGTCAAATTCGCAACGCGATACTAAAAT
99188 TCGCAACACA-AAGTCAAATTCGCAACG
1 TCGCAACACATAAGTCAAATTCGCAACG
99215 TGGAATTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
39 17 0.29
40 39 0.67
41 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (40 bp):
TCGCAACACATAAGTCAAATTCGCAACGCGATACTAAAAT
Found at i:99152 original size:80 final size:79
Alignment explanation
Indices: 99043--99214 Score: 185
Period size: 80 Copynumber: 2.2 Consensus size: 79
99033 TGCGATTTTC
* * * *
99043 CAAATTCGAAACGCGAATCTGTAAATCGCAACGCGAATCTGT-AAA-TCGCAATGCGAATTTGT-
1 CAAATTCGAAACGCGAATCTGAAAATCGCAACGCG-AT-AGTCAAATTCGCAACGCG-A-TAGTC
99105 AAA-TCGCAACACATAAGT
62 AAATTCGCAACACA-AAGT
*
99123 CAAATTCGAAACGCG-ATACT-AAAATTCGCAATGCGATAGTCAAATTCGCAACGCGATAGTCAA
1 CAAATTCGAAACGCGAAT-CTGAAAA-TCGCAACGCGATAGTCAAATTCGCAACGCGATAGTCAA
99186 ATTCGCAACACAAAGT
64 ATTCGCAACACAAAGT
*
99202 CAAATTCGCAACG
1 CAAATTCGAAACG
99215 TGGAATTTCA
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
78 5 0.06
79 30 0.38
80 45 0.56
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (79 bp):
CAAATTCGAAACGCGAATCTGAAAATCGCAACGCGATAGTCAAATTCGCAACGCGATAGTCAAAT
TCGCAACACAAAGT
Found at i:99226 original size:40 final size:39
Alignment explanation
Indices: 99108--99234 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
99098 AATTTGTAAA
* * *
99108 TCGCAACACATAAGTCAAATTCGAAACGCGATACTAAAAT
1 TCGCAACACA-AAGTCAAATTCGCAACGCGATATTCAAAT
** * *
99148 TCGCAATGCGATAGTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACAC-AAAGTCAAATTCGCAACGCGATATTCAAAT
*
99188 TCGCAACACAAAGTCAAATTCGCAACGTGGA-ATTTCAAAT
1 TCGCAACACAAAGTCAAATTCGCAACG-CGATA-TTCAAAT
99228 TCGCAAC
1 TCGCAAC
99235 TGAATTTCAA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 18 0.25
40 54 0.74
41 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (39 bp):
TCGCAACACAAAGTCAAATTCGCAACGCGATATTCAAAT
Found at i:99241 original size:19 final size:19
Alignment explanation
Indices: 99182--99272 Score: 110
Period size: 19 Copynumber: 4.7 Consensus size: 19
99172 AACGCGATAG
** **
99182 TCAAATTCGCAACACAAAG
1 TCAAATTCGCAACTGAATT
99201 TCAAATTCGCAACGTGGAATT
1 TCAAATTCGCAAC-T-GAATT
99222 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
99241 TCAAATTCGTAACTGAATT
1 TCAAATTCGCAACTGAATT
*
99260 TCAAATTTGCAAC
1 TCAAATTCGCAAC
99273 AGGTTTTAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
19 47 0.75
20 1 0.02
21 15 0.24
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:99245 original size:40 final size:38
Alignment explanation
Indices: 99160--99273 Score: 113
Period size: 40 Copynumber: 2.9 Consensus size: 38
99150 GCAATGCGAT
* *
99160 AGTCAAATTCGCAAC-GCGATAGTCAAATTCGCAACACAA
1 AGTCAAATTCGCAACTG-AAT-TTCAAATTCGCAACACAA
**
99199 AGTCAAATTCGCAACGTGGAATTTCAAATTCGCAACTGAA
1 AGTCAAATTCGCAAC-T-GAATTTCAAATTCGCAACACAA
** * *
99239 TTTCAAATTCGTAACTGAATTTCAAATTTGCAACA
1 AGTCAAATTCGCAACTGAATTTCAAATTCGCAACA
99274 GGTTTTAGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
38 17 0.27
39 16 0.25
40 27 0.43
41 2 0.03
42 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (38 bp):
AGTCAAATTCGCAACTGAATTTCAAATTCGCAACACAA
Found at i:99464 original size:16 final size:15
Alignment explanation
Indices: 99429--99467 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
99419 TCCCCATCTC
*
99429 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
99444 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
99460 TAATTTTT
1 TAATTTTT
99468 CAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:100206 original size:24 final size:24
Alignment explanation
Indices: 100179--100232 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
100169 GTATTCGAAA
100179 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* * *
100203 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
100227 TTTGAT
1 TTTGAT
100233 GATATGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:100425 original size:12 final size:13
Alignment explanation
Indices: 100408--100442 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
100398 TATAACCCTG
100408 AAGAAGAA-AAAA
1 AAGAAGAAGAAAA
100420 AAGAAGAAGAAAA
1 AAGAAGAAGAAAA
100433 AA-AAGAAGAA
1 AAGAAGAAGAA
100443 GAAGTCCCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAAA
Found at i:100427 original size:15 final size:15
Alignment explanation
Indices: 100407--100445 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
100397 ATATAACCCT
100407 GAAGAAGAAAAAAAA
1 GAAGAAGAAAAAAAA
100422 GAAGAAGAAAAAAAA
1 GAAGAAGAAAAAAAA
100437 GAAGAAGAA
1 GAAGAAGAA
100446 GTCCCCGAAA
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAAAAAAA
Found at i:100430 original size:18 final size:18
Alignment explanation
Indices: 100407--100446 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
100397 ATATAACCCT
100407 GAAGAAGAAAAAAAAGAA
1 GAAGAAGAAAAAAAAGAA
100425 GAAGAA-AAAAAAGAAGAA
1 GAAGAAGAAAAAA-AAGAA
100443 GAAG
1 GAAG
100447 TCCCCGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAAAAAAAGAA
Found at i:103465 original size:23 final size:23
Alignment explanation
Indices: 103431--103491 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
103421 CTCATATAAA
103431 TGCACCGA-AGTGCCACAAAGAAT
1 TGCACC-ATAGTGCCACAAAGAAT
* **
103454 TGCACCATAGTGCCGCGTAGAAT
1 TGCACCATAGTGCCACAAAGAAT
*
103477 TGCACCGTAGTGCCA
1 TGCACCATAGTGCCA
103492 TATAATAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCATAGTGCCACAAAGAAT
Found at i:103712 original size:121 final size:121
Alignment explanation
Indices: 103511--103861 Score: 596
Period size: 121 Copynumber: 2.9 Consensus size: 121
103501 GTCCATAAGG
* *
103511 ACCACATATTATTCCTTAAGAATCATATACATAT-ACTAGGGATCAAGTATGCGTCTCACCAGAC
1 ACCACATATCATTCCTTAAGAATCATATACATATGA-TAGGGATCAAGTATGTGTCTCACCAGAC
* *
103575 TTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACAATGTCTCGAAAA
65 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAAA
*
103632 ACCACATATCATTCCTTAAGAATTATATACATATGATAGGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATGATAGGGATCAAGTATGTGTCTCACCAGACT
* **
103697 TCACACATGTTCCAAAGAATACATATATGTTCCGAAGGACCACAATGTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAAA
* *
103753 ACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATTAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATGATAGGGATCAAGTATGTGTCTCACCAGACT
103818 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACA
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACA
103862 TAGACCCTCG
Statistics
Matches: 217, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
121 216 1.00
122 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (121 bp):
ACCACATATCATTCCTTAAGAATCATATACATATGATAGGGATCAAGTATGTGTCTCACCAGACT
TCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAAA
Found at i:103749 original size:18 final size:18
Alignment explanation
Indices: 103723--103758 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
103713 GAATACATAT
*
103723 ATGTTCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
103741 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
103759 TATCATTCCT
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:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Done.