Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001468.1 Hibiscus syriacus cultivar Beakdansim tig00002844_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: 61619
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:1587 original size:19 final size:19
Alignment explanation
Indices: 1563--1611 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1553 AATGTAGGGT
1563 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1582 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1601 TATTTTTGTAT
1 TAATTTTGTAT
1612 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:2215 original size:194 final size:195
Alignment explanation
Indices: 1730--2683 Score: 1649
Period size: 194 Copynumber: 4.9 Consensus size: 195
1720 CAATATGGCC
* *
1730 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCC--ATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
1795 ACCAAAAGTATAATG---TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
62 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT-AG
*
1857 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
126 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGA
1922 ATGGAA
190 ATGGAA
1928 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAAATCATCGAACCC
*
1993 AAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTATAATTATACCGGTTTTAT-GAGAA
65 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATAGAGAA
2056 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGA
130 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGA
2121 A
195 A
2122 AACAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
2187 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT-AGAGAA
2252 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGA
130 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGA
2317 A
195 A
2318 AACA--GTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
* *
2381 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCTGTACAATTATACCGGTTTTATGTGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT-AGAGAA
*
2446 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGA
130 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGA
2511 A
195 A
2512 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAAATCATCGAACCC
2577 -AAAGTATAATGTAATATGTAA-TTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGA
65 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT-AGAGA
* *
2639 ATATGTCTAAATAATGTGTCGACATTAATAGAGTTTGTGTCGATA
129 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
2684 CTAATTTAAA
Statistics
Matches: 734, Mismatches: 12, Indels: 24
0.95 0.02 0.03
Matches are distributed among these distances:
193 52 0.07
194 350 0.48
195 80 0.11
196 151 0.21
197 65 0.09
198 36 0.05
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (195 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATAGAGAAT
ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAA
Found at i:2506 original size:390 final size:390
Alignment explanation
Indices: 1730--2683 Score: 1683
Period size: 390 Copynumber: 2.4 Consensus size: 390
1720 CAATATGGCC
* *
1730 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCC--ATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
1795 ACCAAAAGTATAATG---TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
62 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
*
1857 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
127 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTATTTCCAGAATGA
1922 ATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATC
192 ATGGAAAACA-GGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATC
*
1987 GAACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTATAATTATACCGGTTTTATG
256 GAACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
2052 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAA
321 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAA
2117 TGGAA
386 TGGAA
2122 AACAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
2187 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
2252 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTATTTCCAGAATGAATGG
2316 AAAACA-GTGCACCCATAAAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAAATCATCGAACC
196 AAAACAGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACC
*
2379 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCTGTACAATTATACCGGTTTTATGTGAG
261 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTA--TGAG
*
2444 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
323 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATG
2509 GAA
388 GAA
2512 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAAATCATCGAACCC
2577 -AAAGTATAATGTAATATGTAA-TTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGA
65 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
* *
2639 ATATGTCTAAATAATGTGTCGACATTAATAGAGTTTGTGTCGATA
130 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
2684 CTAATTTAAA
Statistics
Matches: 546, Mismatches: 9, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
387 52 0.10
388 147 0.27
389 38 0.07
390 155 0.28
391 125 0.23
392 29 0.05
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (390 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTATTTCCAGAATGAATGG
AAAACAGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAAT
ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAA
Found at i:4158 original size:6 final size:6
Alignment explanation
Indices: 4134--4222 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
4124 AGCGGTCGCA
* * * * * *
4134 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * *
4182 GGCGAT GAAGAT GATGACGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA--A-GAT GAAGAT GAAGAT GAAGAT GA
4223 TGATCCAAAC
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
6 58 0.91
8 1 0.02
9 5 0.08
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:4169 original size:3 final size:3
Alignment explanation
Indices: 4149--4226 Score: 66
Period size: 3 Copynumber: 26.0 Consensus size: 3
4139 TGAAGCTGAC
* * * * * ** *
4149 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
4197 GAC GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
4227 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:4188 original size:36 final size:39
Alignment explanation
Indices: 4137--4218 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
4127 GGTCGCAGAA
4137 GATGAAGCTGACGATG-A-A-GATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGATGACGATGATGATGAC
* *
4173 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGATGACGATGATGATGAC
4212 GATGAAG
1 GATGAAG
4219 ATGATGATCC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 15 0.37
37 1 0.02
38 1 0.02
39 24 0.59
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (39 bp):
GATGAAGCTGACGATGAAGATGATGACGATGATGATGAC
Found at i:4226 original size:12 final size:12
Alignment explanation
Indices: 4137--4222 Score: 91
Period size: 12 Copynumber: 6.9 Consensus size: 12
4127 GGTCGCAGAA
*
4137 GATGAAGCTGAC
1 GATGAAGATGAC
4149 GATGAAGATGAC
1 GATGAAGATGAC
*
4161 GATGATGATGAC
1 GATGAAGATGAC
* *
4173 GATGAAGCTGGC
1 GATGAAGATGAC
4185 GATGAAGATGATGAC
1 GATG-A-A-GATGAC
* *
4200 GATGATGATGAT
1 GATGAAGATGAC
4212 GATGAAGATGA
1 GATGAAGATGA
4223 TGATCCAAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
12 50 0.82
13 1 0.02
14 2 0.03
15 8 0.13
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:4226 original size:18 final size:18
Alignment explanation
Indices: 4137--4226 Score: 81
Period size: 18 Copynumber: 4.8 Consensus size: 18
4127 GGTCGCAGAA
* * *
4137 GATGAAGCTGACGATGAA
1 GATGAAGATGATGATGAT
* *
4155 GATGACGATGATGATGAC
1 GATGAAGATGATGATGAT
* *
4173 GATGAAGCTGGCGATGAAGAT
1 GATGAAGAT---GATGATGAT
*
4194 GATGACGATGATGATGAT
1 GATGAAGATGATGATGAT
4212 GATGAAGATGATGAT
1 GATGAAGATGATGAT
4227 CCAAACAAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
18 43 0.75
21 14 0.25
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.22
Consensus pattern (18 bp):
GATGAAGATGATGATGAT
Found at i:5998 original size:183 final size:182
Alignment explanation
Indices: 5690--6213 Score: 897
Period size: 182 Copynumber: 2.9 Consensus size: 182
5680 CTTTTAACAT
** * * *
5690 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
5755 GGTATACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AA
*
5820 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
130 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGA
*
5873 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTCTAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
5938 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
6003 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGA
131 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGA
* *
6055 TTTATAATGTAATAGATAATTTTGTAATATAACCGGTAT-AATATACCGGTTTTTATGAGCGAAT
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG-TTTTATGCGCGAAT
* *
6119 AGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
65 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAA
*
6184 AATGTGTCGATACCATTTAAAAAAGTGTCG
130 AATGTGTCGATACGATTTAAAAAAGTGTCG
6214 GTAATTTTAA
Statistics
Matches: 324, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
181 10 0.03
182 194 0.60
183 120 0.37
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (182 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGA
Found at i:8709 original size:25 final size:25
Alignment explanation
Indices: 8675--8739 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
8665 TTATCATTAA
8675 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
8700 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
8725 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
8740 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:9113 original size:23 final size:23
Alignment explanation
Indices: 9082--9145 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
9072 ATAGGTAAAC
*
9082 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
9105 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
9128 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
9146 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:9152 original size:23 final size:23
Alignment explanation
Indices: 9082--9154 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
9072 ATAGGTAAAC
* **
9082 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
9105 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
9128 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
9151 ATAT
1 ATAT
9155 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:9847 original size:334 final size:329
Alignment explanation
Indices: 9197--9860 Score: 1265
Period size: 334 Copynumber: 2.0 Consensus size: 329
9187 CATACTTTTT
9197 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
9262 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATTATTATTAAATTAAAAATTCTAAAT
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATTATTATTAAATTAAAAATTCTAAAT
*
9327 ATTATTTTATAAATATCAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATT
131 AATATTTTATAAATATCAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATT
*
9392 GTAGGTGGAAAACATGAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
196 GTAGGTGGAAAACATGAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAAT
9457 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTGCA
261 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTGCA
9522 ATGC
326 ATGC
9526 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
9591 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACG--ATATATTATTATTAAATTAAAAATTCTAA
9656 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
129 ATAATATTTTAT-AAATATC-AAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
9721 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
192 TATTGTAGGTGGAAAACATG-AACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
9786 GAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
256 GAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
9851 TTGCAATGC
321 TTGCAATGC
9860 T
1 T
9861 ATCGGTATAA
Statistics
Matches: 328, Mismatches: 2, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
329 99 0.30
331 40 0.12
332 7 0.02
333 64 0.20
334 118 0.36
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (329 bp):
TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATTATTATTAAATTAAAAATTCTAAAT
AATATTTTATAAATATCAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATT
GTAGGTGGAAAACATGAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAAT
ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTGCA
ATGC
Found at i:14502 original size:205 final size:205
Alignment explanation
Indices: 13953--14565 Score: 970
Period size: 205 Copynumber: 3.0 Consensus size: 205
13943 TTCTTTTTAA
* * **
13953 GGGTTATCTACATGATTGATCACTTATGTTTGTGTTTTGTCCACTTTTCCTCA-T--TACCAAAA
1 GGGTTAACTACATGATTGATCACTTATGTTTGTGTTTT-TTCACTTTTCCTCACTGATTTC-AAA
* *
14015 AAACA-TA-ATATATGGTCACTTTCGTTTTTATTTAATTAAAATGTGGTCACTACAGG-TTAACT
64 AAACATTATATATATGGTCACTTTCGTTTTTATTTAATTAAGATGTGGTCACCAC-GGATTAACT
** * * * * *
14077 GTCATTAGACCATTAACGATTTGCTAAGCTATCATGGTAATTAAATAAAATAAAAAATACATCAT
128 GTTGTTAGACCATTAACGATTTACTAAGCTAGCACGATAATTAAATAAAATAGAAAATACATCAT
14142 TTCCACATGGATT
193 TTCCACATGGATT
14155 GGGTTAACTACATGATTGATCACTTATGTTTGTGTTATTTTCACTTTTCCTCACTGATTTCAAAA
1 GGGTTAACTACATGATTGATCACTTATGTTTGTGTT-TTTTCACTTTTCCTCACTGATTTCAAAA
* *
14220 AACATTATATATATGGTCACTTTCGTTTTTATTAAATTAAGATGTGGTCACCACGGATTAACTGC
65 AACATTATATATATGGTCACTTTCGTTTTTATTTAATTAAGATGTGGTCACCACGGATTAACTGT
14285 TGTTAGACCATTAACGATTTACTAAGCTAGCACGATAATTAAATAAAATAGAAAATACATCATTT
130 TGTTAGACCATTAACGATTTACTAAGCTAGCACGATAATTAAATAAAATAGAAAATACATCATTT
14350 CCACATGGATT
195 CCACATGGATT
14361 GGGTTAACTACATGATTGATCACTTATGTTTGTGTTTTTTCACTTTTCCTCACTGATTTCAAAAA
1 GGGTTAACTACATGATTGATCACTTATGTTTGTGTTTTTTCACTTTTCCTCACTGATTTCAAAAA
* *
14426 ACATTATATATATGGTCACATTCGTTTTTATTTAATTAAGATGCGGTCACCACGGATTAACTGTT
66 ACATTATATATATGGTCACTTTCGTTTTTATTTAATTAAGATGTGGTCACCACGGATTAACTGTT
14491 GTTAGACCATTAACGATTTACTAAGCTAGCAC-AGTAATTAAATAAAATAGAAAATACATCATTT
131 GTTAGACCATTAACGATTTACTAAGCTAGCACGA-TAATTAAATAAAATAGAAAATACATCATTT
*
14555 CCACATTGATT
195 CCACATGGATT
14566 ATACGTGGAT
Statistics
Matches: 383, Mismatches: 20, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
202 48 0.13
203 3 0.01
204 9 0.02
205 168 0.44
206 155 0.40
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (205 bp):
GGGTTAACTACATGATTGATCACTTATGTTTGTGTTTTTTCACTTTTCCTCACTGATTTCAAAAA
ACATTATATATATGGTCACTTTCGTTTTTATTTAATTAAGATGTGGTCACCACGGATTAACTGTT
GTTAGACCATTAACGATTTACTAAGCTAGCACGATAATTAAATAAAATAGAAAATACATCATTTC
CACATGGATT
Found at i:19448 original size:16 final size:16
Alignment explanation
Indices: 19427--19458 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19417 TAAAATTCTC
19427 CTCCTTCCAATTTCCG
1 CTCCTTCCAATTTCCG
*
19443 CTCCTTCCGATTTCCG
1 CTCCTTCCAATTTCCG
19459 TCGAGCTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.44, G:0.09, T:0.38
Consensus pattern (16 bp):
CTCCTTCCAATTTCCG
Found at i:20265 original size:23 final size:23
Alignment explanation
Indices: 20222--20265 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20212 ACAAATTAGA
* **
20222 TAGCGTTTATATAATGTAATAGG
1 TAGCGCTTATATAATAAAATAGG
20245 TAGCGCTTATATAATAAAATA
1 TAGCGCTTATATAATAAAATA
20266 TGTTAATTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (23 bp):
TAGCGCTTATATAATAAAATAGG
Found at i:20322 original size:23 final size:23
Alignment explanation
Indices: 20296--20355 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
20286 ATTAATCATA
* *
20296 ATAACATATTAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
20319 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
20342 ATAATAAAATAGGT
1 ATAACATAATAGGT
20356 TAATTACTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:20342 original size:87 final size:87
Alignment explanation
Indices: 20208--20430 Score: 338
Period size: 87 Copynumber: 2.6 Consensus size: 87
20198 TATAAAATAA
* * *
20208 AATAACAAATTAGATAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATAAAATATGTTAAT
1 AATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
* ** *
20273 TACTGAAAACATTATTAATCAT
66 TACTGAAAACATTATCAAGAAC
20295 AATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
1 AATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
* *
20360 TACTGGAAATATTATCAAGAAC
66 TACTGAAAACATTATCAAGAAC
* * *
20382 AATAACATATTAGGTAGCGCTTATATAATATAATAGGCAGCGCTTATAT
1 AATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATAT
20431 TGACCTATTC
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 124 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (87 bp):
AATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
TACTGAAAACATTATCAAGAAC
Found at i:20418 original size:23 final size:23
Alignment explanation
Indices: 20383--20430 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
20373 ATCAAGAACA
* *
20383 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGCAGCGCTTAT
*
20406 ATAATATAATAGGCAGCGCTTAT
1 ATAACATAATAGGCAGCGCTTAT
20429 AT
1 AT
20431 TGACCTATTC
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:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGCAGCGCTTAT
Found at i:21078 original size:200 final size:199
Alignment explanation
Indices: 20432--21111 Score: 807
Period size: 198 Copynumber: 3.4 Consensus size: 199
20422 CGCTTATATT
* ** * * * *
20432 GACCTATTCTATTATAAAACTGGTATATTTATACTTGTAACATTATAAATTTACCTATTATATTA
1 GACCTATTCTATCATAAAACCAGTATATTTATACTAGTTACATTGTAAATTTACCTATTACATTA
* * * * * *
20497 TAATTATCGGTTTTGATGTTTTTGGGATCGATACAATTT--TAAATGTATTGATACTTTATGCGT
66 TAATTATCAGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGTGT
* * * ** **
20560 GCACCTCGTTGGGCATTCATTCTGAAAAAAAGTATCGACACAAACTTAAAACATGTTAATATATT
130 GCACCTCGTTTGGCATTCATTCTGGAAAAAAGTATCGACACAAATTTAAAATGTGTCGATATATT
20625 ATGTA
195 ATGTA
* * * * * ** * * *
20630 GACATATTTTCTCATAAAATCAGTATATTTCTACCGGGTACATTGTAAATTTACCTAATACATTG
1 GACCTATTCTATCATAAAACCAGTATATTTATACTAGTTACATTGTAAATTTACCTATTACATTA
*
20695 TAATTATAAGTTTCGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTG
66 TAATTATCAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTG
* *
20759 CACCTCG-TTGGACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATT
131 CACCTCGTTTGG-CATTCATTCTGGAAAAAAGTATCGACACAAATTTAAAATGTGTCGATATATT
20823 ATGTA
195 ATGTA
* * * *
20828 GACCTATTTTATCATAAAACC-GATATATTTCTAC-CGAATACATTGTAAATTTACCTATTACAT
1 GACCTATTCTATCATAAAACCAG-TATATTTATACTAG-TTACATTGTAAATTTACCTATTACAT
* **
20891 TGTAATTATCAGTTTCGATGTTTTTGGGAAAGATACTTTTAATAAATGTATCGACACTTTATGTG
64 TATAATTATCAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTG
** * * ** *
20956 AACACCTCGTTTGGCATTCATTATGGACAAAACGTATCGACAC-TTTTTAAATTTGTGTCGATAT
129 TGCACCTCGTTTGGCATTCATTCTGGA-AAAAAGTATCGACACAAATTTAAA-ATGTGTCGATAT
*
21020 ATTATCTA
192 ATTATGTA
*
21028 GACCTATTCTCTCATAAAACCAGTATATTTATACTAGTTACATTGTAAATTTACCTATTACATTA
1 GACCTATTCTATCATAAAACCAGTATATTTATACTAGTTACATTGTAAATTTACCTATTACATTA
*
21093 TAATTATCGGTTTCGATGT
66 TAATTATCAGTTTCGATGT
21112 AACATATGCG
Statistics
Matches: 415, Mismatches: 56, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
196 3 0.01
197 21 0.05
198 214 0.52
199 67 0.16
200 108 0.26
201 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (199 bp):
GACCTATTCTATCATAAAACCAGTATATTTATACTAGTTACATTGTAAATTTACCTATTACATTA
TAATTATCAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTG
CACCTCGTTTGGCATTCATTCTGGAAAAAAGTATCGACACAAATTTAAAATGTGTCGATATATTA
TGTA
Found at i:22044 original size:30 final size:31
Alignment explanation
Indices: 21993--22058 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
21983 TAAAAATAAA
*
21993 AAAATATAATTTATAATAATTTTATT-TTAAT
1 AAAATATAATTAATAATAATTTT-TTATTAAT
* *
22024 AAAATATAA-TAATTATAATTTTTTATTTAT
1 AAAATATAATTAATAATAATTTTTTATTAAT
22054 AAAAT
1 AAAAT
22059 TATAGATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 20 0.65
31 9 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
AAAATATAATTAATAATAATTTTTTATTAAT
Found at i:22075 original size:28 final size:32
Alignment explanation
Indices: 21993--22076 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 32
21983 TAAAAATAAA
21993 AAAATATAAT--TTATAATAATTTTATTTTAAT
1 AAAATATAATAATTATAAT-ATTTTATTTTAAT
*
22024 AAAATATAATAATTATAATTTTTTA-TTT-AT
1 AAAATATAATAATTATAATATTTTATTTTAAT
22054 AAAAT-T-ATAGA-TATAATATTTTA
1 AAAATATAATA-ATTATAATATTTTA
22077 ATAATAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
28 14 0.29
29 2 0.04
30 7 0.15
31 13 0.27
32 5 0.10
33 7 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
AAAATATAATAATTATAATATTTTATTTTAAT
Found at i:22083 original size:14 final size:14
Alignment explanation
Indices: 22001--22102 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
21991 AAAAAATATA
**
22001 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
22016 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
22029 ATAATAATTATAAT
1 ATTTTAATAATAAT
* * * *
22043 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
22057 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
22071 ATTTTAATAATAAT
1 ATTTTAATAATAAT
22085 A-TTTACATAAATAAT
1 ATTTTA-AT-AATAAT
22100 ATT
1 ATT
22103 AAATAAATTA
Statistics
Matches: 66, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
13 14 0.21
14 39 0.59
15 12 0.18
16 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:22083 original size:28 final size:28
Alignment explanation
Indices: 22015--22083 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
22005 ATAATAATTT
*
22015 TATTTTAATAA-AATATAATAATTATAA
1 TATTTTAATAATAAAATAATAATTATAA
* * * *
22042 TTTTTTATTTATAAAATTATAGA-TATAA
1 TATTTTAATAATAAAATAATA-ATTATAA
22070 TATTTTAATAATAA
1 TATTTTAATAATAA
22084 TATTTACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 23 0.72
29 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATTATAA
Found at i:22108 original size:14 final size:15
Alignment explanation
Indices: 22066--22110 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
22056 AATTATAGAT
*
22066 ATAATATTTTAAT-A
1 ATAATATTTAAATAA
*
22080 ATAATATTTACATAA
1 ATAATATTTAAATAA
22095 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
22109 AT
1 AT
22111 TATTCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:22170 original size:24 final size:24
Alignment explanation
Indices: 22119--22170 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
22109 ATTATTCTAA
22119 TATT-TTAAAAATAATATTATTAT
1 TATTGTTAAAAATAATATTATTAT
*
22142 T-TTGTTAATAAATAATATTGTT-T
1 TATTGTTAA-AAATAATATTATTAT
22165 TATTGT
1 TATTGT
22171 ATTTGATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
TATTGTTAAAAATAATATTATTAT
Found at i:22449 original size:22 final size:23
Alignment explanation
Indices: 22424--22472 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
22414 ACATATTTTA
* *
22424 TTATATAAGTGCTACCTATTA-G
1 TTATATAAGCGCTACCTAATATG
22446 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATATG
22469 TTAT
1 TTAT
22473 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATATG
Found at i:22534 original size:23 final size:23
Alignment explanation
Indices: 22503--22559 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
22493 GTAATTAACA
*
22503 TATTTTATTATATAAGCGCTACC
1 TATTATATTATATAAGCGCTACC
*
22526 TATTATATTATATAAGCGGTACC
1 TATTATATTATATAAGCGCTACC
* *
22549 TAATATGTTAT
1 TATTATATTAT
22560 TATGTTTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (23 bp):
TATTATATTATATAAGCGCTACC
Found at i:22573 original size:87 final size:87
Alignment explanation
Indices: 22408--22634 Score: 393
Period size: 87 Copynumber: 2.6 Consensus size: 87
22398 ACAAATTAAA
* *
22408 TAATTAACATATTTTATTATATAAGTGCTACCTATTA-GTTATATAAGCGCTACCTAATATGTTA
1 TAATTAACATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGCTACCTAATATGTTA
* *
22472 TTGTGCTTGATAATGTTTCTAG
66 TTATGCTTGATAATGTTTCCAG
*
22494 TAATTAACATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGGTACCTAATATGTTA
1 TAATTAACATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGCTACCTAATATGTTA
*
22559 TTATGTTTGATAATGTTTCCAG
66 TTATGCTTGATAATGTTTCCAG
22581 TAATTAACATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGCTAC
1 TAATTAACATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGCTAC
22635 TTATTACATT
Statistics
Matches: 133, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 36 0.27
87 97 0.73
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (87 bp):
TAATTAACATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGCTACCTAATATGTTA
TTATGCTTGATAATGTTTCCAG
Found at i:22621 original size:23 final size:23
Alignment explanation
Indices: 22590--22692 Score: 127
Period size: 23 Copynumber: 4.5 Consensus size: 23
22580 GTAATTAACA
*
22590 TATTTTATTATATAAGCGCTACC
1 TATTATATTATATAAGCGCTACC
*
22613 TATTATATTATATAAGCGCTACT
1 TATTATATTATATAAGCGCTACC
*
22636 TATTACATTATATAAGCG-TCACC
1 TATTATATTATATAAGCGCT-ACC
* *
22659 TATTAGATTATATAAGCGGTACC
1 TATTATATTATATAAGCGCTACC
* *
22682 TAATATGTTAT
1 TATTATATTAT
22693 TGTGCATTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
22 1 0.01
23 68 0.97
24 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (23 bp):
TATTATATTATATAAGCGCTACC
Found at i:22746 original size:64 final size:64
Alignment explanation
Indices: 22523--22747 Score: 177
Period size: 64 Copynumber: 3.4 Consensus size: 64
22513 TATAAGCGCT
* * * **
22523 ACCTATTATATTATATAAGCGGTACCTAATATGTTATTATG-TTTGATAATGTTTCCAGTAATTA
1 ACCTATTATATTATATAAGCGCTACCTAATATGTTATTGTGCATT-ATAATGTTTATAGTAATTA
* * * * * * **
22587 ACATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGCTACTTATTA-CATTATA-TA
1 ACCTATTATATTATATAAGCGCTACCTAATATGTTAT-T--GTGC-A-TTATAATGTTTATAGTA
* *
22650 AGCGTC
61 A--TTA
* * *
22656 ACCTATTAGATTATATAAGCGGTACCTAATATGTTATTGTGCATTATAATGTTTGTAGTAATTA
1 ACCTATTATATTATATAAGCGCTACCTAATATGTTATTGTGCATTATAATGTTTATAGTAATTA
* *
22720 ACCTATTTTATTATATAAGTGCTACCTA
1 ACCTATTATATTATATAAGCGCTACCTA
22748 TTACATCATA
Statistics
Matches: 119, Mismatches: 32, Indels: 20
0.70 0.19 0.12
Matches are distributed among these distances:
64 62 0.52
65 6 0.05
66 6 0.05
67 4 0.03
68 4 0.03
69 35 0.29
70 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (64 bp):
ACCTATTATATTATATAAGCGCTACCTAATATGTTATTGTGCATTATAATGTTTATAGTAATTA
Found at i:22747 original size:133 final size:133
Alignment explanation
Indices: 22509--22750 Score: 389
Period size: 133 Copynumber: 1.8 Consensus size: 133
22499 AACATATTTT
* *
22509 ATTATATAAGCGCTACCTATTATATTATATAAGCGGTACCTAATATGTTATTATGTTTGATAATG
1 ATTATATAAGCGCTACCTATTAGATTATATAAGCGGTACCTAATATGTTATTATGATTGATAATG
22574 TTTCCAGTAATTAACATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGCTACTTAT
66 TTTCCAGTAATTAACATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGCTACTTAT
22639 TAC
131 TAC
*
22642 ATTATATAAGCG-TCACCTATTAGATTATATAAGCGGTACCTAATATGTTATTGTGCATT-ATAA
1 ATTATATAAGCGCT-ACCTATTAGATTATATAAGCGGTACCTAATATGTTATTATG-ATTGATAA
** * *
22705 TGTTTGTAGTAATTAACCTATTTTATTATATAAGTGCTACCTATTA
64 TGTTTCCAGTAATTAACATATTTTATTATATAAGCGCTACCTATTA
22751 CATCATATTT
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
132 1 0.01
133 97 0.97
134 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (133 bp):
ATTATATAAGCGCTACCTATTAGATTATATAAGCGGTACCTAATATGTTATTATGATTGATAATG
TTTCCAGTAATTAACATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGCTACTTAT
TAC
Found at i:22872 original size:62 final size:62
Alignment explanation
Indices: 22796--22920 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
22786 ATCCTTTTTA
22796 TAAAAAGGATCGATACTTTCAACATATCAGGTAACATTATGATAAAACCGATAAAATTTACC
1 TAAAAAGGATCGATACTTTCAACATATCAGGTAACATTATGATAAAACCGATAAAATTTACC
*
22858 TAAAAAGGATCGATACTTTCAACATATCAGGTAACATTATGATAAAACCGGTAAAATTTACC
1 TAAAAAGGATCGATACTTTCAACATATCAGGTAACATTATGATAAAACCGATAAAATTTACC
22920 T
1 T
22921 GATATGTTGA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (62 bp):
TAAAAAGGATCGATACTTTCAACATATCAGGTAACATTATGATAAAACCGATAAAATTTACC
Found at i:24638 original size:19 final size:20
Alignment explanation
Indices: 24611--24652 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
24601 CTTCTTCTAG
* *
24611 AAACGAAAATG-AATTTTGA
1 AAACCAAAATGAAATCTTGA
24630 AAACCAAAATGAAATCTTGA
1 AAACCAAAATGAAATCTTGA
24650 AAA
1 AAA
24653 AGGATTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (20 bp):
AAACCAAAATGAAATCTTGA
Found at i:27837 original size:9 final size:9
Alignment explanation
Indices: 27823--27856 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
27813 TAAGTAAAAT
27823 ATTAAATAA
1 ATTAAATAA
27832 ATTAAAT-A
1 ATTAAATAA
*
27840 CTTAAATAA
1 ATTAAATAA
27849 ATTAAATA
1 ATTAAATA
27857 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:27855 original size:17 final size:17
Alignment explanation
Indices: 27819--27857 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
27809 TATATAAGTA
27819 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
27835 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
27852 AAATAC
1 AAATAC
27858 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:27870 original size:24 final size:25
Alignment explanation
Indices: 27835--27881 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
27825 TAAATAAATT
*
27835 AAATACTTAAATA-AATTAAATACA
1 AAATACTTAAATATAATAAAATACA
27859 AAATA-TTAAAATATAATAAAATA
1 AAATACTT-AAATATAATAAAATA
27882 TACCTTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 10 0.50
25 8 0.40
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
AAATACTTAAATATAATAAAATACA
Found at i:29018 original size:30 final size:31
Alignment explanation
Indices: 28978--29048 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 31
28968 AGAATATAAT
* *
28978 ATATGATCACTTTTGTTTTTA-TTAATTAAG
1 ATATGGTCACTTTCGTTTTTATTTAATTAAG
29008 ATATGGTCACTTTCGTTTTTATTTAATTAAG
1 ATATGGTCACTTTCGTTTTTATTTAATTAAG
*
29039 ATATTGTCAC
1 ATATGGTCAC
29049 CATGAGTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 19 0.51
31 18 0.49
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.51
Consensus pattern (31 bp):
ATATGGTCACTTTCGTTTTTATTTAATTAAG
Found at i:30746 original size:20 final size:20
Alignment explanation
Indices: 30707--30747 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30697 CTTTCGTTTT
* * *
30707 TTTTCTTTTTTTTTTTTCTG
1 TTTTCTATTTTTGTTCTCTG
30727 TTTTCTATTTTTGTTCTCTG
1 TTTTCTATTTTTGTTCTCTG
30747 T
1 T
30748 CTCTCTGTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTCTATTTTTGTTCTCTG
Found at i:30982 original size:30 final size:30
Alignment explanation
Indices: 30948--31005 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
30938 AAGCAGCGTC
30948 GCAGCGACTGGTTGGACCATCTGGCAGTCG
1 GCAGCGACTGGTTGGACCATCTGGCAGTCG
30978 GCAGCGACTGGTTGGACCATCTGGCAGT
1 GCAGCGACTGGTTGGACCATCTGGCAGT
31006 GGAGGCGTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.26, G:0.36, T:0.21
Consensus pattern (30 bp):
GCAGCGACTGGTTGGACCATCTGGCAGTCG
Found at i:31226 original size:3 final size:3
Alignment explanation
Indices: 31218--31258 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
31208 ATTTTTTATT
*
31218 TAA TAA TAA TAA T-A TAA TAA -AT TAA TAA TTAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA
31259 AATGAACTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:31333 original size:12 final size:12
Alignment explanation
Indices: 31316--31343 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
31306 TTGTGTTAAC
31316 AAGAATAGAGCA
1 AAGAATAGAGCA
31328 AAGAATAGAGCA
1 AAGAATAGAGCA
31340 AAGA
1 AAGA
31344 CGAAAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.07, G:0.25, T:0.07
Consensus pattern (12 bp):
AAGAATAGAGCA
Found at i:31576 original size:76 final size:76
Alignment explanation
Indices: 31397--31653 Score: 455
Period size: 76 Copynumber: 3.4 Consensus size: 76
31387 GAAATGTTGA
* *
31397 AAACATCATGCACTGAAGGGCTTACAGATGACCCT-AGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
31461 AGGC-TTTTGG
66 AGGCTTTTTGG
*
31471 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
31536 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
31547 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
31612 AGGCTTTTTGG
66 AGGCTTTTTGG
31623 AAACATCATGCACTGAAGGACTTACAGATGA
1 AAACATCATGCACTGAAGGACTTACAGATGA
31654 GGGAAATAGT
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
74 33 0.19
75 32 0.18
76 111 0.63
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:32527 original size:225 final size:225
Alignment explanation
Indices: 32057--33027 Score: 1478
Period size: 224 Copynumber: 4.3 Consensus size: 225
32047 ATAGAATTAT
* *
32057 GCAAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * **
32122 ATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGAGCAAAAGGTTGAAC-AAT
66 ATTATGAACTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAAGCAAAAGGTTGAACAAAT
*
32186 TCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
32251 CAAAAATAATCCATCAAGTGATGAATTCAGA
196 -AAAAATAATCCATCAAGTGATGAATTCAGA
32282 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * **
32346 ATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
66 ATTATGAACTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAAGCAAAAGGTTGAACAAAT
*
32411 TCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
32476 CAAAAATAATCCATCAAGTGATGAATTCAGA
196 -AAAAATAATCCATCAAGTGATGAATTCAGA
32507 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
32571 ATTATGAACTTTCTCTGG-AAA-TTGATCCATCAAATAATAGATTCAAGTAAAAGGTTGAACAAA
66 ATTATGAAC-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAAGCAAAAGGTTGAACAAA
* *
32634 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTG
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * *
32699 G-AAATTGATCCATCAAATAAT-AGATTCA-A
195 GAAAAATAATCCATCAAGTGATGA-ATTCAGA
* *
32728 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
32793 ATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAGATTGAACAAG
66 ATTATGAAC-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAAGCAAAAGGTTGAACAAA
* *
32858 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAA-CTTCTATG
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
** * *
32922 GAAATGTCAATCCATCGAA-TGATGGATT-TGA
195 GAAAAAT-AATCCATC-AAGTGATGAATTCAGA
*
32953 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
33018 ATTATGAACT
66 ATTATGAACT
33028 CGACCTGGAA
Statistics
Matches: 697, Mismatches: 38, Indels: 23
0.92 0.05 0.03
Matches are distributed among these distances:
221 2 0.00
222 101 0.14
223 9 0.01
224 315 0.45
225 260 0.37
226 10 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (225 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAAGCAAAAGGTTGAACAAAT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
AAAAATAATCCATCAAGTGATGAATTCAGA
Found at i:32895 original size:24 final size:23
Alignment explanation
Indices: 32860--32904 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
32850 TGAACAAGTT
32860 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
32884 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
32905 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:33490 original size:22 final size:22
Alignment explanation
Indices: 33465--33519 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
33455 CATAAAGTTT
*
33465 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
33487 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
33509 TCATCTTTGAA
1 TCATCTTTGAA
33520 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:34237 original size:35 final size:35
Alignment explanation
Indices: 34184--34253 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
34174 CTTGTTAAGA
34184 TGAGCCTACAAGAATGCCCAAATATTCATATTTCTG
1 TGAGCCTACAAGAATGCCCAAATATTC-TATTTCTG
* *
34220 TGAGCCTTCAA-AATGCCCCAATATTCTATTTCTG
1 TGAGCCTACAAGAATGCCCAAATATTCTATTTCTG
34254 GTTGAAATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 8 0.25
35 14 0.44
36 10 0.31
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (35 bp):
TGAGCCTACAAGAATGCCCAAATATTCTATTTCTG
Found at i:34240 original size:36 final size:34
Alignment explanation
Indices: 34184--34253 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 34
34174 CTTGTTAAGA
34184 TGAGCCTACAAGAATGCCCAAATATTCATATTTCTG
1 TGAGCCTACAAGAATGCCC-AATATTC-TATTTCTG
*
34220 TGAGCCTTCAA-AATGCCCCAATATTCTATTTCTG
1 TGAGCCTACAAGAATG-CCCAATATTCTATTTCTG
34254 GTTGAAATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 8 0.25
35 11 0.34
36 13 0.41
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (34 bp):
TGAGCCTACAAGAATGCCCAATATTCTATTTCTG
Found at i:35311 original size:83 final size:83
Alignment explanation
Indices: 35172--35344 Score: 328
Period size: 83 Copynumber: 2.1 Consensus size: 83
35162 CTTATTTCTC
35172 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
35237 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
35255 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
35320 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
35338 CTATGAG
1 CTATGAG
35345 TCTCTTTCAG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 88 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:37621 original size:11 final size:10
Alignment explanation
Indices: 37601--37639 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
37591 TCAATTTTCC
37601 TTTTTCTTTT
1 TTTTTCTTTT
37611 TTTTTCTTTT
1 TTTTTCTTTT
*
37621 TTTTTCTTCT
1 TTTTTCTTTT
*
37631 TCTTTCTTT
1 TTTTTCTTT
37640 GCTGGATGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:43900 original size:11 final size:12
Alignment explanation
Indices: 43879--43912 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
43869 TATCTCTTCC
43879 TTTCGTTTTTTT
1 TTTCGTTTTTTT
*
43891 TTTCTTTTTTTT
1 TTTCGTTTTTTT
43903 TTTCTGTTTT
1 TTTC-GTTTT
43913 CTATTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (12 bp):
TTTCGTTTTTTT
Found at i:43914 original size:19 final size:19
Alignment explanation
Indices: 43890--43926 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43880 TTCGTTTTTT
* *
43890 TTTTCTTTTTTTTTTTCTG
1 TTTTCTATTTTTTGTTCTG
43909 TTTTCTATTTTTTGTTCT
1 TTTTCTATTTTTTGTTCT
43927 CTGTCTCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTCTATTTTTTGTTCTG
Found at i:44386 original size:3 final size:3
Alignment explanation
Indices: 44378--44418 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
44368 ATTTTTTATT
*
44378 TAA TAA TAA TAA T-A TAA TAA -AT TAA TAA TTAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA
44419 AATGAACTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:51851 original size:14 final size:15
Alignment explanation
Indices: 51825--51853 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51815 ATAAATACGG
51825 GTAAAACTAAACTAA
1 GTAAAACTAAACTAA
51840 GTAAAA-TAAACTAA
1 GTAAAACTAAACTAA
51854 AATAGTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (15 bp):
GTAAAACTAAACTAA
Found at i:55752 original size:28 final size:28
Alignment explanation
Indices: 55712--55768 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
55702 TAACTCGTTC
55712 TCATTTCCATTGAGGAATAGAGATAGGT
1 TCATTTCCATTGAGGAATAGAGATAGGT
55740 TCATTTCCATTGAGGAATAGAGATAGGT
1 TCATTTCCATTGAGGAATAGAGATAGGT
55768 T
1 T
55769 GTAATAATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.33
Consensus pattern (28 bp):
TCATTTCCATTGAGGAATAGAGATAGGT
Found at i:59634 original size:14 final size:15
Alignment explanation
Indices: 59608--59636 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59598 ATAAATACGG
59608 GTAAAACTAAACTAA
1 GTAAAACTAAACTAA
59623 GTAAAA-TAAACTAA
1 GTAAAACTAAACTAA
59637 AATAGTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (15 bp):
GTAAAACTAAACTAA
Done.