Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001858.1 Hibiscus syriacus cultivar Beakdansim tig00003760_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: 92055
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:7005 original size:52 final size:52
Alignment explanation
Indices: 6943--7045 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
6933 AAACTTCTTA
*
6943 TTAAAGCTTTCACCAGTGGAAAGAGAAACATAAAAGCAAATAAGATACGACC
1 TTAAAGCTTTCACCAGGGGAAAGAGAAACATAAAAGCAAATAAGATACGACC
*
6995 TTAAAGCTTTCACCAGGGGAAAGAGAAACATAAAAGCAAATTAGATACGAC
1 TTAAAGCTTTCACCAGGGGAAAGAGAAACATAAAAGCAAATAAGATACGAC
7046 TTACCATCCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (52 bp):
TTAAAGCTTTCACCAGGGGAAAGAGAAACATAAAAGCAAATAAGATACGACC
Found at i:8194 original size:16 final size:15
Alignment explanation
Indices: 8173--8213 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
8163 TTATAAAATT
8173 ATTATTTTATTATTC
1 ATTATTTTATTATTC
*
8188 ATATATTTTA-AATTC
1 AT-TATTTTATTATTC
8203 ATT-TTTTATTA
1 ATTATTTTATTA
8214 AAAAATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.23
14 2 0.09
15 8 0.36
16 7 0.32
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTTTATTATTC
Found at i:8835 original size:6 final size:6
Alignment explanation
Indices: 8815--8898 Score: 62
Period size: 6 Copynumber: 13.2 Consensus size: 6
8805 TTCATCATTC
* * * *
8815 AAAAT- AAAATG AAAATA AAAATA ATGAACTA AAAATA TAAAATG AAAATG
1 AAAATA AAAATA AAAATA AAAATA A--AAATA AAAATA -AAAATA AAAATA
*
8865 AAAATA AAAATA ATGAACTA AAAATA TAAAATA A
1 AAAATA AAAATA A--AAATA AAAATA -AAAATA A
8899 TTGTATAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
5 5 0.08
6 39 0.60
7 11 0.17
8 10 0.15
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:8849 original size:14 final size:14
Alignment explanation
Indices: 8830--8890 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
8820 AAAATGAAAA
8830 TAAAAATAATGAAC
1 TAAAAATAATGAAC
* *
8844 TAAAAAT-ATAAAA
1 TAAAAATAATGAAC
*
8857 TGAAAATGAA--AA-
1 TAAAAAT-AATGAAC
8869 TAAAAATAATGAAC
1 TAAAAATAATGAAC
8883 TAAAAATA
1 TAAAAATA
8891 TAAAATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
11 2 0.05
12 6 0.16
13 14 0.37
14 15 0.39
15 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (14 bp):
TAAAAATAATGAAC
Found at i:8860 original size:18 final size:18
Alignment explanation
Indices: 8837--8896 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
8827 AAATAAAAAT
8837 AATGAACTAAAAATATAA
1 AATGAACTAAAAATATAA
* * *
8855 AATGAAAATGAAAATAAAAA
1 AATG-AACTAAAAAT-ATAA
8875 TAATGAACTAAAAATATAA
1 -AATGAACTAAAAATATAA
8894 AAT
1 AAT
8897 AATTGTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 7 0.21
19 11 0.33
20 11 0.33
21 4 0.12
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.22
Consensus pattern (18 bp):
AATGAACTAAAAATATAA
Found at i:8868 original size:39 final size:38
Alignment explanation
Indices: 8815--8898 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 38
8805 TTCATCATTC
8815 AAAATAAAATGAAAATAAAAATAATGAACTAAAAATAT
1 AAAATAAAATGAAAATAAAAATAATGAACTAAAAATAT
8853 AAAATGAAAATGAAAATAAAAATAATGAACTAAAAATAT
1 AAAAT-AAAATGAAAATAAAAATAATGAACTAAAAATAT
8892 AAAATAA
1 AAAATAA
8899 TTGTATAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 7 0.16
39 38 0.84
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (38 bp):
AAAATAAAATGAAAATAAAAATAATGAACTAAAAATAT
Found at i:15987 original size:22 final size:23
Alignment explanation
Indices: 15961--16009 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
15951 TAAATAACCG
15961 AAAACATATCATAAGA-ATAGA-A
1 AAAACATATCATAA-ATATAGAGA
*
15983 AAAACATATTATAAATATAGAGA
1 AAAACATATCATAAATATAGAGA
16006 AAAA
1 AAAA
16010 TATACTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.20
Consensus pattern (23 bp):
AAAACATATCATAAATATAGAGA
Found at i:16018 original size:23 final size:22
Alignment explanation
Indices: 15961--16020 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
15951 TAAATAACCG
15961 AAAACATA-TCATAAGA-ATAGAA
1 AAAACATACT-ATAA-ATATAGAA
*
15983 AAAACATATTATAAATATAGAGA
1 AAAACATACTATAAATATAGA-A
*
16006 AAAATATACTATAAA
1 AAAACATACTATAAA
16021 ACTTAGCCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 1 0.03
22 17 0.52
23 15 0.45
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (22 bp):
AAAACATACTATAAATATAGAA
Found at i:18237 original size:38 final size:38
Alignment explanation
Indices: 18195--18270 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
18185 ATAAAATAAG
18195 ACATATACAACATATAAGATTAATATGGTTCGACCTTA
1 ACATATACAACATATAAGATTAATATGGTTCGACCTTA
18233 ACATATACAACATATAAGATTAATATGGTTCGACCTTA
1 ACATATACAACATATAAGATTAATATGGTTCGACCTTA
18271 CCTACCTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (38 bp):
ACATATACAACATATAAGATTAATATGGTTCGACCTTA
Found at i:23657 original size:228 final size:227
Alignment explanation
Indices: 23261--23749 Score: 863
Period size: 228 Copynumber: 2.1 Consensus size: 227
23251 ATTATATTGT
* * * *
23261 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTTACTGTGAAAATATATTTATATTAT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATATTAT
*
23326 CTATGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAT
66 ATATGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAT
*
23391 AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
131 AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAA
*
23456 AAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAATGAAACATAAATTACATAACTTTAAAA
23488 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTA-TATT
* *
23553 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAA
64 ATATATGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
*
23617 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTA
129 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTA
23682 AAAAAAATGAAACATAAATTACATAACTTTAAAA
194 AAAAAAATGAAACATAAATTACATAACTTTAAAA
23716 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
23750 GTATAAAAGT
Statistics
Matches: 250, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
227 43 0.17
228 151 0.60
229 56 0.22
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (227 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATATTAT
ATATGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAT
AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAA
AAAAATGAAACATAAATTACATAACTTTAAAA
Found at i:24217 original size:181 final size:182
Alignment explanation
Indices: 23829--24292 Score: 666
Period size: 181 Copynumber: 2.6 Consensus size: 182
23819 AAAAAATGCG
* * * *
23829 TCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGATAAAATCGGT
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGT-TACAAAATGATAAAACCGGT
* * * * * *
23893 AAAGCGCTACCGGATACATTTAAAGTGTTGGTACTTTAATATAAGGATCGACACTTCGTGAATTT
65 AAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTT
* * *
23958 AAAAGAGAAGCAGTTTTAAATCCTATAAAGTATCGATACTTTTAAAAAATGTA
130 AAAAGACAAGCAGTTTTAAATCCTATAAAGTATCGATACTTTAAAAAAATATA
*
24011 TCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTTACAAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTTACAAAATGATAAAACCGGTA
* *
24076 AAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTGTGAATTTA
66 AAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
* ** * *
24140 AAAGACAAGTAGTTTTAGCGT-CTATAATGTGTCGATACTTTAAAAAAATATA
131 AAAGACAAGCAGTTTTA-AATCCTATAAAGTATCGATACTTTAAAAAAATATA
*
24192 TCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGG-TATCAAAATGATAAAACCGGT
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTTA-CAAAATGATAAAACCGGT
*
24256 AAAATGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAAACGATACCGGATATATTGAAAGTGTCGATACTTT
24293 CGTAAGTACG
Statistics
Matches: 255, Mismatches: 24, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
180 2 0.01
181 165 0.65
182 88 0.35
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTTACAAAATGATAAAACCGGTA
AAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
AAAGACAAGCAGTTTTAAATCCTATAAAGTATCGATACTTTAAAAAAATATA
Found at i:24236 original size:20 final size:19
Alignment explanation
Indices: 24213--24259 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
24203 CGATATAACA
24213 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
24233 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
24253 GGTAAAA
1 GGTAAAA
24260 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:24261 original size:17 final size:19
Alignment explanation
Indices: 24222--24264 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
24212 AGGTAAAAAT
24222 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
24242 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
24259 ATGATA
1 ATGATA
24265 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:26493 original size:21 final size:21
Alignment explanation
Indices: 26469--26512 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
26459 AAGACAATCA
26469 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
26490 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
26511 AG
1 AG
26513 GCATAAGGGG
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:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:26588 original size:33 final size:33
Alignment explanation
Indices: 26546--26611 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
26536 AAATAGATGG
*
26546 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
26579 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
26612 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:28421 original size:19 final size:19
Alignment explanation
Indices: 28397--28445 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
28387 AATGTATGGT
28397 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
28416 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
28435 TATTTTTGTAT
1 TAATTTTGTAT
28446 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:29024 original size:198 final size:198
Alignment explanation
Indices: 28564--29513 Score: 1555
Period size: 198 Copynumber: 4.9 Consensus size: 198
28554 CAATATGACC
*
28564 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
28629 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
28694 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCAAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
28759 CGGAA
194 TGGAA
*
28764 AACAAGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
28829 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
28894 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
28959 GAA
196 GAA
* *
28962 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
29027 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
29092 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
29157 TGGAA
194 TGGAA
* *
29162 AACAGGGTGCAACCATAAAGTGTCGATCC-----CAAAAA----C-AT--C---GA-A-C---CC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
29207 AA-AAGTATAACGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
29271 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
29336 GAA
196 GAA
* *
29339 AACAGGGTGCACCCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
29404 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
29469 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
29514 CTAATTTAAA
Statistics
Matches: 698, Mismatches: 29, Indels: 48
0.90 0.04 0.06
Matches are distributed among these distances:
177 66 0.09
178 88 0.13
179 2 0.00
182 5 0.01
183 1 0.00
184 1 0.00
185 1 0.00
186 1 0.00
187 2 0.00
188 1 0.00
189 1 0.00
190 2 0.00
191 1 0.00
192 1 0.00
193 1 0.00
194 1 0.00
195 5 0.01
197 3 0.00
198 201 0.29
199 187 0.27
200 127 0.18
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
GAA
Found at i:29295 original size:377 final size:375
Alignment explanation
Indices: 28801--29513 Score: 1372
Period size: 377 Copynumber: 1.9 Consensus size: 375
28791 CCATATATAA
*
28801 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAACGTAATATGTAATTTTTCAATCTAAC
*
28866 TGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
*
28931 TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATA
131 TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCAATCCATATA
28996 TAAAAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATC
196 TAAAAAGTGTCGATCCCAAAAACATCG-AAACCAAAAGTATAATGTAATATGTAATTTTTCAATC
29061 TAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTATTTTA
260 TAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT-TTTTA
29126 GTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCAT
324 GTTTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCAT
29178 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAACGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAACGTAATATGTAATTTTTCAATCTAAC
29243 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
29308 TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCAATCCATATA
131 TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCAATCCATATA
*
29373 TAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCT
196 TAAAAAGTGTCGATCCCAAAAACATCGAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCT
29438 AACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGT
261 AACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGT
29503 TTGTGTCGATA
326 TTGTGTCGATA
29514 CTAATTTAAA
Statistics
Matches: 332, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
375 18 0.05
376 95 0.29
377 219 0.66
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (375 bp):
AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAACGTAATATGTAATTTTTCAATCTAAC
CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCAATCCATATA
TAAAAAGTGTCGATCCCAAAAACATCGAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCT
AACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGT
TTGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCAT
Found at i:31003 original size:6 final size:6
Alignment explanation
Indices: 30979--31040 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
30969 AGCGGTCGCA
* * * * * *
30979 GAAGAT GAAGCT GACGAT GATGAT GACGAT GAAGCT GACGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
*
31027 GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA
31041 TGATCCAAAC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.39, C:0.08, G:0.34, T:0.19
Consensus pattern (6 bp):
GAAGAT
Found at i:31010 original size:24 final size:24
Alignment explanation
Indices: 30982--31036 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
30972 GGTCGCAGAA
*
30982 GATGAAGCTGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGAC
*
31006 GATGAAGCTGACGATGAAGATGAT
1 GATGAAGCTGACGATGAAGATGAC
31030 GATGAAG
1 GATGAAG
31037 ATGATGATCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.36, C:0.09, G:0.35, T:0.20
Consensus pattern (24 bp):
GATGAAGCTGACGATGAAGATGAC
Found at i:31044 original size:12 final size:12
Alignment explanation
Indices: 30982--31040 Score: 82
Period size: 12 Copynumber: 4.9 Consensus size: 12
30972 GGTCGCAGAA
*
30982 GATGAAGCTGAC
1 GATGAAGATGAC
*
30994 GATGATGATGAC
1 GATGAAGATGAC
*
31006 GATGAAGCTGAC
1 GATGAAGATGAC
*
31018 GATGAAGATGAT
1 GATGAAGATGAC
31030 GATGAAGATGA
1 GATGAAGATGA
31041 TGATCCAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:32269 original size:16 final size:16
Alignment explanation
Indices: 32237--32270 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32227 TATCCACAAC
* *
32237 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
32253 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
32269 AA
1 AA
32271 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:32663 original size:23 final size:23
Alignment explanation
Indices: 32632--32704 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
32622 ATAGGTAAAA
*
32632 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
32655 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
32678 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
32701 ATAT
1 ATAT
32705 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:33361 original size:183 final size:182
Alignment explanation
Indices: 33086--33578 Score: 878
Period size: 183 Copynumber: 2.7 Consensus size: 182
33076 GCAATGCTAT
33086 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
33151 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
*
33216 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
33269 CGGTATAAATATACCGATTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
33334 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
* *
33399 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAT
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
33452 CGGTATAAATATACCGGTTTTATGAGCGAATAGCTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
33517 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
33579 GTAATTTTAA
Statistics
Matches: 296, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
183 292 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:36074 original size:25 final size:25
Alignment explanation
Indices: 36046--36110 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
36036 TTATCATTAA
36046 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
36071 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
36096 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
36111 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:36489 original size:23 final size:23
Alignment explanation
Indices: 36458--36530 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
36448 ATAGGTAAAA
*
36458 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36481 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36504 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
36527 ATAT
1 ATAT
36531 TGTAAAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:36842 original size:25 final size:25
Alignment explanation
Indices: 36804--36853 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
36794 AAATCAATTA
*
36804 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
36829 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
36854 GAAAAATAAT
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:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:37261 original size:18 final size:18
Alignment explanation
Indices: 37240--37276 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37230 GTAATTGGAG
37240 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
37258 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
37276 T
1 T
37277 ATATTTCGGC
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:37586 original size:39 final size:39
Alignment explanation
Indices: 37543--37629 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
37533 TCCGATGCTC
*
37543 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
37582 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
37621 ATCAAAATC
1 ATCAAAATC
37630 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:38081 original size:23 final size:23
Alignment explanation
Indices: 38050--38122 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
38040 ATAGGTAAAA
*
38050 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
38073 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
38096 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
38119 ATAT
1 ATAT
38123 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:38147 original size:46 final size:45
Alignment explanation
Indices: 38050--38147 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
38040 ATAGGTAAAA
* * *
38050 ATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATATCTATCCTTT
* *
38096 ATATAATGTAATAGGTAGTGGTTATAT-TGTAAAGTATCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TATCTATCCTTT
*
38142 TTATAA
1 ATATAA
38148 AAGTGTTCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATATCTATCCTTT
Found at i:38552 original size:23 final size:23
Alignment explanation
Indices: 38480--38542 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
38470 ATAGGTAAAA
*
38480 ATATGATGTAATAGGTATCGCTT
1 ATATAATGTAATAGGTATCGCTT
* *
38503 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTATCGCTT
38526 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
38543 GTGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:38816 original size:431 final size:430
Alignment explanation
Indices: 37848--39765 Score: 3559
Period size: 431 Copynumber: 4.5 Consensus size: 430
37838 GTTAATGTTG
* *
37848 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
37912 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
37977 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAATTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
* *
38042 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
* *
38107 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGT
261 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
38172 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
38237 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
38277 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
38342 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
38407 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
* * *
38472 AGGTAAAAATATGATGTAATAGGTATCGCTTATATAATGTAATATGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
* * * *
38537 TAGGTAGTGGTTATATTGTAAAGTATCTATTCTTTTTATAAAAGTGTCCATATTTTTTTAACTGT
261 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
* *
38602 GGAAATACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTATTAATTATAGG
326 GGAAA-ACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
38667 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
38708 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
38773 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
38838 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACGCTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
38903 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
38968 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
39033 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
39098 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
39138 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
39203 ATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
*
39268 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
39333 TAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
*
39398 ATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
260 ATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
39463 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
39528 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
* *
39569 TTAAATTAAAAATTCTAAATATTATTTTTATAAAATATCAAAACAATCAAATAATTTTTTGTACA
1 TTAAATTAAAAATTCTAAATAATA-TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
* *
39634 AATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAATAT
65 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACAT
39699 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
39764 TA
195 TA
39766 TAATGTAATA
Statistics
Matches: 1452, Mismatches: 33, Indels: 6
0.97 0.02 0.00
Matches are distributed among these distances:
429 7 0.00
430 523 0.36
431 836 0.58
432 86 0.06
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:38942 original size:23 final size:23
Alignment explanation
Indices: 38911--38983 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
38901 ATAGGTAAAA
*
38911 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
38934 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
38957 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
38980 ATAT
1 ATAT
38984 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:39372 original size:23 final size:23
Alignment explanation
Indices: 39342--39414 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
39332 ATAGGTAAAA
39342 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
39365 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
39388 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
39411 ATAT
1 ATAT
39415 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:39524 original size:861 final size:861
Alignment explanation
Indices: 37848--39765 Score: 3588
Period size: 861 Copynumber: 2.2 Consensus size: 861
37838 GTTAATGTTG
*
37848 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
37912 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
37977 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAATTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
* *
38042 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
* *
38107 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGT
261 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
38172 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
38237 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
*
38302 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
456 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTGTA
38367 GGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
521 GGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
* *
38432 CGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTA
586 CGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTA
* * * *
38497 TCGCTTATATAATGTAATATGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTA
651 GCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTA
* * *
38562 TCTATTCTTTTTATAAAAGTGTCCATATTTTTTTAACTGTGGAAATACATTAATTTAAGGTTATC
716 TATATCCTTTTTATAAAAGTGTCCATACTTTTTTAACTGTGGAAATACATTAATTTAAGGTTATC
*
38627 TTTTGAGTGAGTTTTAAGATATTAATTTATTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
781 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
38692 ACGATATATATTATTA
846 ACGATATATATTATTA
*
38708 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
38773 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
38838 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACGCTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
38903 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
38968 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
39033 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
39098 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
39163 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTGTA
456 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTGTA
39228 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
521 GGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
39293 TCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGT
585 TCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGT
39358 AGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGT
650 AGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGT
*
39423 ATATATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAA-ACATTAATTTAAGGTTAT
715 ATATATCCTTTTTATAAAAGTGTCCATACTTTTTTAACTGTGGAAATACATTAATTTAAGGTTAT
39487 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
780 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
39552 TACGATATATATTATTA
845 TACGATATATATTATTA
*
39569 TTAAATTAAAAATTCTAAATATTATTTTTATAAAATATCAAAACAATCAAATAATTTTTTGTACA
1 TTAAATTAAAAATTCTAAATATTA-TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
* *
39634 AATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAATAT
65 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACAT
39699 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
39764 TA
195 TA
39766 TAATGTAATA
Statistics
Matches: 1029, Mismatches: 26, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
860 7 0.01
861 647 0.63
862 375 0.36
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (861 bp):
TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTGTA
GGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
CGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTA
GCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTA
TATATCCTTTTTATAAAAGTGTCCATACTTTTTTAACTGTGGAAATACATTAATTTAAGGTTATC
TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
ACGATATATATTATTA
Found at i:39865 original size:23 final size:23
Alignment explanation
Indices: 39832--39879 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
39822 AAATAGGTAA
*
39832 ATATAAACGCTACCTATTATATT
1 ATATAAACGCTACCTAGTATATT
* *
39855 ATATAAGCGCTACCTAGTATGTT
1 ATATAAACGCTACCTAGTATATT
39878 AT
1 AT
39880 TGTACTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (23 bp):
ATATAAACGCTACCTAGTATATT
Found at i:40872 original size:9 final size:9
Alignment explanation
Indices: 40858--40887 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
40848 TTGGAGTGCT
40858 TTTTCTTTA
1 TTTTCTTTA
*
40867 TTTTCTTTG
1 TTTTCTTTA
40876 TTTTCTTTA
1 TTTTCTTTA
40885 TTT
1 TTT
40888 GGATTGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTCTTTA
Found at i:54288 original size:20 final size:20
Alignment explanation
Indices: 54263--54322 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
54253 ATTTAAATGA
54263 TAAACGAACATAAACGAACG
1 TAAACGAACATAAACGAACG
54283 TAAACGAACATAAACGAACG
1 TAAACGAACATAAACGAACG
* *
54303 TAAACAAACACAAACGAACG
1 TAAACGAACATAAACGAACG
54323 AACACAAACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.57, C:0.22, G:0.13, T:0.08
Consensus pattern (20 bp):
TAAACGAACATAAACGAACG
Found at i:54326 original size:14 final size:14
Alignment explanation
Indices: 54309--54335 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54299 AACGTAAACA
54309 AACACAAACGAACG
1 AACACAAACGAACG
54323 AACACAAACGAAC
1 AACACAAACGAAC
54336 ATAATAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.30, G:0.11, T:0.00
Consensus pattern (14 bp):
AACACAAACGAACG
Found at i:54329 original size:20 final size:20
Alignment explanation
Indices: 54263--54331 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
54253 ATTTAAATGA
*
54263 TAAACGAACATAAACGAACG
1 TAAACAAACATAAACGAACG
*
54283 TAAACGAACATAAACGAACG
1 TAAACAAACATAAACGAACG
*
54303 TAAACAAACACAAACGAACG
1 TAAACAAACATAAACGAACG
54323 -AACACAAAC
1 TAA-ACAAAC
54332 GAACATAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 2 0.04
20 44 0.96
ACGTcount: A:0.58, C:0.23, G:0.12, T:0.07
Consensus pattern (20 bp):
TAAACAAACATAAACGAACG
Found at i:54359 original size:10 final size:10
Alignment explanation
Indices: 54262--54321 Score: 84
Period size: 10 Copynumber: 6.0 Consensus size: 10
54252 CATTTAAATG
54262 ATAAACGAAC
1 ATAAACGAAC
54272 ATAAACGAAC
1 ATAAACGAAC
*
54282 GTAAACGAAC
1 ATAAACGAAC
54292 ATAAACGAAC
1 ATAAACGAAC
* *
54302 GTAAACAAAC
1 ATAAACGAAC
*
54312 ACAAACGAAC
1 ATAAACGAAC
54322 GAACACAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.58, C:0.22, G:0.12, T:0.08
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:58066 original size:16 final size:16
Alignment explanation
Indices: 58045--58077 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58035 TAATAAATAG
58045 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
58061 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
58077 A
1 A
58078 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:58158 original size:10 final size:10
Alignment explanation
Indices: 58143--58217 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
58133 CATTTAATAA
58143 ATAAACGAAC
1 ATAAACGAAC
58153 ATAAACGAAC
1 ATAAACGAAC
58163 ----ACGAAC
1 ATAAACGAAC
58169 ATAAACGAAC
1 ATAAACGAAC
** *
58179 ACGAAC-ATAA
1 ATAAACGA-AC
58189 ATGAACACGAAC
1 AT-AA-ACGAAC
58201 ATAAACGAAC
1 ATAAACGAAC
58211 ATAAACG
1 ATAAACG
58218 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:58168 original size:16 final size:16
Alignment explanation
Indices: 58147--58211 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
58137 TAATAAATAA
58147 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
58163 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
58179 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
58195 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
58211 A
1 A
58212 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:58979 original size:14 final size:14
Alignment explanation
Indices: 58962--59017 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
58952 AATGAACATA
58962 AACGAACATAATCG
1 AACGAACATAATCG
58976 AACGAACAT-A---
1 AACGAACATAATCG
* *
58986 AACAAACATAACCG
1 AACGAACATAATCG
59000 AACGAACATAATCG
1 AACGAACATAATCG
59014 AACG
1 AACG
59018 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:58982 original size:24 final size:24
Alignment explanation
Indices: 58955--59016 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
58945 ATAAATGAAT
*
58955 GAACATAAACGAACATAATCGAAC
1 GAACATAAACGAACATAACCGAAC
*
58979 GAACATAAACAAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
59003 GAACATAATCGAAC
1 GAACATAAACGAAC
59017 GTTCACGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.55, C:0.23, G:0.11, T:0.11
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:74741 original size:18 final size:17
Alignment explanation
Indices: 74709--74743 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74699 AAGAAGAGGG
*
74709 GAAGAAGATTTGCAGTT
1 GAAGAAGAGTTGCAGTT
74726 GAAGAAGCAGTTGCAGTT
1 GAAGAAG-AGTTGCAGTT
74744 CAGCTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (17 bp):
GAAGAAGAGTTGCAGTT
Found at i:75076 original size:4 final size:4
Alignment explanation
Indices: 75067--75093 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
75057 AACTACACCA
75067 TTTG TTTG TTTG TTTG TTTG TTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTT
75094 TTGTGCTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (4 bp):
TTTG
Found at i:77363 original size:22 final size:22
Alignment explanation
Indices: 77324--77376 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
77314 TACGGAGATT
*
77324 TTATTTTATTACGAATTT-TCAA
1 TTATTTTATTACAAATTTGT-AA
77346 TTATTTTATTA-AATATTTGTAA
1 TTATTTTATTACAA-ATTTGTAA
77368 TTAATTTTA
1 TT-ATTTTA
77377 GCTTTATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.04
22 19 0.70
23 7 0.26
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (22 bp):
TTATTTTATTACAAATTTGTAA
Found at i:77428 original size:10 final size:11
Alignment explanation
Indices: 77410--77442 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
77400 TTAAAATAAA
77410 TTAAGATTTTT
1 TTAAGATTTTT
*
77421 TTTA-ATTTTT
1 TTAAGATTTTT
77431 TTAAGATTTTT
1 TTAAGATTTTT
77442 T
1 T
77443 CTTTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (11 bp):
TTAAGATTTTT
Found at i:78087 original size:19 final size:17
Alignment explanation
Indices: 78055--78092 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
78045 TCTAAATTAA
78055 TTATTTTTCTTTTATTT
1 TTATTTTTCTTTTATTT
78072 TTATTCTTTCCTTTTATTT
1 TTATT-TTT-CTTTTATTT
78091 TT
1 TT
78093 TTATTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
19 11 0.58
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (17 bp):
TTATTTTTCTTTTATTT
Found at i:83915 original size:2 final size:2
Alignment explanation
Indices: 83908--83957 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
83898 TCATAAGTTC
83908 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
83950 AT AT AT AT
1 AT AT AT AT
83958 TGTGTACAGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85307 original size:19 final size:19
Alignment explanation
Indices: 85266--85307 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
85256 TGGTAATTTT
*
85266 ATATTTATATTTTTTCATA
1 ATATTTATATTTTTTAATA
*
85285 ATATTT-TATGTTTTTAATG
1 ATATTTATAT-TTTTTAATA
85304 ATAT
1 ATAT
85308 GGAGCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
ATATTTATATTTTTTAATA
Done.