Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008188.1 Hibiscus syriacus cultivar Beakdansim tig00110796_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: 349969
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:196 original size:31 final size:31
Alignment explanation
Indices: 158--216 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
148 AAATAGATGG
*
158 AGTGGTG-AAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAG-GGTGTTAAGGGTGA
*
189 AGTGGTGAAAGAAGTTGGGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGGGTGTTAAGGG
217 GTGATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.47, T:0.24
Consensus pattern (31 bp):
AGTGGTGAAAGAAGTAGGGTGTTAAGGGTGA
Found at i:2026 original size:19 final size:19
Alignment explanation
Indices: 2004--2050 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
1994 ATGTAGGGTT
2004 ATTTTGTATAAGATTTATA
1 ATTTTGTATAAGATTTATA
*
2023 ATTTTGTATACGATTTATA
1 ATTTTGTATAAGATTTATA
*
2042 TTTTTGTAT
1 ATTTTGTAT
2051 GTGAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (19 bp):
ATTTTGTATAAGATTTATA
Found at i:2622 original size:198 final size:199
Alignment explanation
Indices: 2167--3324 Score: 2015
Period size: 198 Copynumber: 5.9 Consensus size: 199
2157 CAATATGGCC
* * *
2167 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAATGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* * *
2232 ACCAAAAG--TAATGTAATATGTAATTTTTCAATCTAACCGATAC-ATGTCTACCGGTTTTAT--
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAT-TATACCGGTTTTATGA
2292 GAGAATATGTCTAAATAATGTG-CGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATG
128 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
2355 AATGGAA
193 AATGGAA
*
2362 AACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
2427 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
2492 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCTAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
2557 GGAA
196 GGAA
*
2561 AACAGTGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
2625 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
2689 AATATGTAT-AATAATGTGTCGACACTAATATAGTTTGTGTCGATA--TTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
2751 GGAA
196 GGAA
2755 AACAGGGTGCACCC-TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
2818 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
2882 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
2947 GGAA
196 GGAA
*
2951 AACAGAGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
3015 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
3080 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
3145 GGAA
196 GGAA
3149 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
3214 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* **
3279 AATATGTATAAATAATGTGTCGACACTAATATCTTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
3325 CTAATTTAAA
Statistics
Matches: 924, Mismatches: 24, Indels: 26
0.95 0.02 0.03
Matches are distributed among these distances:
193 113 0.12
194 107 0.12
195 81 0.09
196 86 0.09
197 127 0.14
198 218 0.24
199 192 0.21
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:2921 original size:390 final size:395
Alignment explanation
Indices: 2167--3324 Score: 2023
Period size: 390 Copynumber: 2.9 Consensus size: 395
2157 CAATATGGCC
* * * *
2167 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAATGTCAATCCCAAAAACATCGAAA
1 AACAGAGTGCACCCATAAAGTGTCGATCCATATAT--AAAAGTGTCGATCCCAAAATCATCG-AA
* * *
2232 ACCAAA--AGTAATGTAATATGTAATTTTTCAATCTAACCGATAC-ATGTCTACCGGTTTTAT--
63 CCCAAAGTA-TAATGTAATATGTAATTTTTCAATCTAACCGGTACAAT-TATACCGGTTTTATGA
2292 GAGAATATGTCTAAATAATGTG-CGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGA
126 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGA
*
2356 ATGGAAAACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
191 ATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
2421 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
256 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
* *
2486 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCTAGA
321 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGA
2551 ATGAATGGAA
386 ATGAATGGAA
*
2561 AACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAGAGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
2626 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
*
2691 TATGTAT-AATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAATGGA
131 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGA
2754 AAACAGGGTGCACCC-TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAAC
196 AAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAC
*
2817 CC-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAATTATACCGGTTTTATGAGA
261 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
2881 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
326 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
2946 TGGAA
391 TGGAA
2951 AACAGAGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAGAGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
3016 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
66 -AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
*
3081 ATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
130 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTT-TTCCAGAATGAATG
3146 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
194 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
3211 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
259 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
* **
3276 GAGAATATGTATAAATAATGTGTCGACACTAATATCTTTTGTGTCGATA
324 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
3325 CTAATTTAAA
Statistics
Matches: 732, Mismatches: 19, Indels: 23
0.95 0.02 0.03
Matches are distributed among these distances:
390 193 0.26
391 92 0.13
392 140 0.19
393 50 0.07
394 102 0.14
395 36 0.05
396 14 0.02
397 105 0.14
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (395 bp):
AACAGAGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGA
AAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
TGGAA
Found at i:4801 original size:18 final size:18
Alignment explanation
Indices: 4780--4841 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
4770 AGCGGTCGCA
4780 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
4798 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
4816 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
4834 GAAGATGA
1 GAAGATGA
4842 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:4804 original size:6 final size:6
Alignment explanation
Indices: 4780--4871 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
4770 AGCGGTCGCA
* * * * * *
4780 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
4828 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
4872 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:4815 original size:3 final size:3
Alignment explanation
Indices: 4795--4875 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
4785 TGAAGCTGAC
* * * * * ** *
4795 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
* *
4843 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
4876 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:4834 original size:36 final size:36
Alignment explanation
Indices: 4783--4859 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
4773 GGTCGCAGAA
*
4783 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
4819 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
4855 GATGA
1 GATGA
4860 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:4875 original size:12 final size:12
Alignment explanation
Indices: 4783--4871 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
4773 GGTCGCAGAA
*
4783 GATGAAGCTGAC
1 GATGAAGATGAC
4795 GATGAAGATGAC
1 GATGAAGATGAC
*
4807 GATGATGATGAC
1 GATGAAGATGAC
* *
4819 GATGAAGCTGGC
1 GATGAAGATGAC
*
4831 GATGAAGATGAT
1 GATGAAGATGAC
* * *
4843 GACGATGATGAT
1 GATGAAGATGAC
* *
4855 GATGATGATGAA
1 GATGAAGATGAC
4867 GATGA
1 GATGA
4872 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:4875 original size:18 final size:18
Alignment explanation
Indices: 4780--4871 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
4770 AGCGGTCGCA
*
4780 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
4798 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
4816 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
4834 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
4852 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
4870 GA
1 GA
4872 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:6286 original size:22 final size:22
Alignment explanation
Indices: 6242--6286 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
6232 ATTACATATC
*
6242 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
6264 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
6286 T
1 T
6287 CAACATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:6601 original size:183 final size:183
Alignment explanation
Indices: 6326--6997 Score: 1202
Period size: 183 Copynumber: 3.7 Consensus size: 183
6316 GCAATGCTAT
* *
6326 CGGTATAAATATACCGGTTTTATGCGCGAATAAGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
6391 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTGTTAAAAAGTATCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATT-TAAAAAAGTATCGAC
6455 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
6509 CGGTATAAATATACCGATTTTATGCGCGAATAGGTCTACAACCTATATCGAGAATTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* * *
6574 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGAAA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
6639 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
6692 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
6757 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
*
6822 TTTACACATCGGAACCCATATTTATAATGTAATAGATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
6875 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
6940 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGT
6998 GTCGGTAATT
Statistics
Matches: 469, Mismatches: 19, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
183 466 0.99
184 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:9499 original size:25 final size:25
Alignment explanation
Indices: 9471--9535 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
9461 TTATCATTAA
9471 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
9496 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
9521 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
9536 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:9913 original size:23 final size:23
Alignment explanation
Indices: 9882--10030 Score: 208
Period size: 23 Copynumber: 6.5 Consensus size: 23
9872 ATAGGTAAAC
*
9882 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
9905 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
9928 ATATAATGTAAAAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
9951 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
9974 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
9997 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
10020 ATATATTGTAA
1 ATATAATGTAA
10031 AGTATCTATC
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 110 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:9944 original size:46 final size:46
Alignment explanation
Indices: 9882--10031 Score: 255
Period size: 46 Copynumber: 3.3 Consensus size: 46
9872 ATAGGTAAAC
* *
9882 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
1 ATATAATGTAAAAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
*
9928 ATATAATGTAAAAGGTAGTGCTTATATAATGTAATAGGTATCGTTT
1 ATATAATGTAAAAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
*
9974 ATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
1 ATATAATGTAAAAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
*
10020 ATATATTGTAAA
1 ATATAATGTAAA
10032 GTATCTATCC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 97 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.39
Consensus pattern (46 bp):
ATATAATGTAAAAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
Found at i:10461 original size:18 final size:18
Alignment explanation
Indices: 10440--10476 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10430 GTAATTGGAG
10440 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
10458 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
10476 T
1 T
10477 ATATATTCGG
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:10776 original size:39 final size:39
Alignment explanation
Indices: 10733--10819 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
10723 TCCGATGCTC
*
10733 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
10772 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
10811 ATCAAAATC
1 ATCAAAATC
10820 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:11272 original size:23 final size:23
Alignment explanation
Indices: 11241--11313 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
11231 ATAGGTAAAA
*
11241 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
11264 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
11287 ATATAATGTAATAAGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
11310 ATAT
1 ATAT
11314 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:11701 original size:23 final size:23
Alignment explanation
Indices: 11670--11733 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
11660 ATAGGTAAAA
*
11670 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCACTT
* **
11693 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCACTT
11716 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
11734 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:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCACTT
Found at i:11740 original size:23 final size:23
Alignment explanation
Indices: 11670--11742 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
11660 ATAGGTAAAA
* **
11670 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGTGCTT
*
11693 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
11716 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
11739 ATAT
1 ATAT
11743 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:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:12076 original size:428 final size:429
Alignment explanation
Indices: 11038--12090 Score: 2000
Period size: 429 Copynumber: 2.5 Consensus size: 429
11028 GTTAATGTTG
11038 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
11103 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
*
11168 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTAAATATAAT
130 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTAAATATAAT
*
11233 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGTAA
11298 TAAGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATAATTTTTTCACTGT
260 TAAGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATAATTTTTTCACTGT
11363 CGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
325 CGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
11428 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
11468 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
11533 TAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
11598 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTAAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTAAATATAATA
11663 GGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
* * * *
11728 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 AAGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATAATTTTTTCACTGTC
*
11793 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATA-GCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
11857 TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
11896 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATATTTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
11961 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
12026 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTAAATATAATA
12091 TAATGTAATA
Statistics
Matches: 612, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
428 234 0.38
429 267 0.44
430 111 0.18
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (429 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTAAATATAATA
GGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
AAGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATAATTTTTTCACTGTC
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:13201 original size:37 final size:37
Alignment explanation
Indices: 13151--13223 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
13141 ATAAGGTTTT
13151 GTATTCATCTATATTGTCTTAGTACTAGTTTTCTTTG
1 GTATTCATCTATATTGTCTTAGTACTAGTTTTCTTTG
13188 GTATTCATCTATATTGTCTTAGTACTAGTTTTCTTT
1 GTATTCATCTATATTGTCTTAGTACTAGTTTTCTTT
13224 CTGAAACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.55
Consensus pattern (37 bp):
GTATTCATCTATATTGTCTTAGTACTAGTTTTCTTTG
Found at i:28160 original size:22 final size:23
Alignment explanation
Indices: 28135--28178 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
28125 GAAAATAAAT
*
28135 TATTAAATT-AATAATAAGAAAA
1 TATTAAATTAAAAAATAAGAAAA
* *
28157 TATTTATTTAAAAAATAAGAAA
1 TATTAAATTAAAAAATAAGAAA
28179 TTAATAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (23 bp):
TATTAAATTAAAAAATAAGAAAA
Found at i:28180 original size:37 final size:37
Alignment explanation
Indices: 28139--28222 Score: 168
Period size: 37 Copynumber: 2.3 Consensus size: 37
28129 ATAAATTATT
28139 AAATTAATAATAAGAAAATATTTATTTAAAAAATAAG
1 AAATTAATAATAAGAAAATATTTATTTAAAAAATAAG
28176 AAATTAATAATAAGAAAATATTTATTTAAAAAATAAG
1 AAATTAATAATAAGAAAATATTTATTTAAAAAATAAG
28213 AAATTAATAA
1 AAATTAATAA
28223 GAGAAATGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (37 bp):
AAATTAATAATAAGAAAATATTTATTTAAAAAATAAG
Found at i:30327 original size:16 final size:17
Alignment explanation
Indices: 30293--30331 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
30283 GTTCGATCAG
* *
30293 ATAAAATTTTAAAAGAA
1 ATAAAATTTAAAAAAAA
30310 ATAAAA-TTAAAAAAAA
1 ATAAAATTTAAAAAAAA
30326 ATAAAA
1 ATAAAA
30332 AGTATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
ATAAAATTTAAAAAAAA
Found at i:34810 original size:18 final size:17
Alignment explanation
Indices: 34789--34822 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
34779 TCAAGCTAAA
34789 AAATTAAAATTAATTTAT
1 AAATTAAAATT-ATTTAT
34807 AAATTAAAATTATTTA
1 AAATTAAAATTATTTA
34823 AACAACTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTAAAATTATTTAT
Found at i:39529 original size:2 final size:2
Alignment explanation
Indices: 39524--39554 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
39514 TCATTTTTTC
39524 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
39555 AAAGGTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51873 original size:5 final size:5
Alignment explanation
Indices: 51860--51890 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
51850 AAAATATTAC
*
51860 TTGGT TTGGC TTGGT TTGGT TTGGT TTGGT T
1 TTGGT TTGGT TTGGT TTGGT TTGGT TTGGT T
51891 ACATGTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.03, G:0.39, T:0.58
Consensus pattern (5 bp):
TTGGT
Found at i:52113 original size:50 final size:50
Alignment explanation
Indices: 52027--52138 Score: 154
Period size: 50 Copynumber: 2.3 Consensus size: 50
52017 TTAGCAGGAA
** * *
52027 AGCGCA-CCCCTGCACCGCGTTATATGATGATTTGGCGCCACGTGGGTAT
1 AGCGCACCCCCTGCACCGCAATATACGATGATCTGGCGCCACGTGGGTAT
* *
52076 AGCGCACCCCCTGCCCCGCAATATACGGTGATCTGGCGCCACGTGGGTAT
1 AGCGCACCCCCTGCACCGCAATATACGATGATCTGGCGCCACGTGGGTAT
*
52126 AGCGCGCCCCCTG
1 AGCGCACCCCCTG
52139 ATCCACGCTA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 6 0.11
50 49 0.89
ACGTcount: A:0.17, C:0.35, G:0.29, T:0.20
Consensus pattern (50 bp):
AGCGCACCCCCTGCACCGCAATATACGATGATCTGGCGCCACGTGGGTAT
Found at i:52151 original size:50 final size:49
Alignment explanation
Indices: 52054--52151 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 49
52044 CGTTATATGA
* *
52054 TGATTTGGCGCCACGTGGGTATAGCGCACCCCCTGCCCCGCAATATACGG
1 TGATCTGGCGCCACGTGGGTATAGCGCACCCCCTGCCACGC-ATATACGG
*
52104 TGATCTGGCGCCACGTGGGTATAGCGCGCCCCCTGATCCACGC-TATAC
1 TGATCTGGCGCCACGTGGGTATAGCGCACCCCCTG--CCACGCATATAC
52152 CTGGATATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 38 0.88
52 5 0.12
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (49 bp):
TGATCTGGCGCCACGTGGGTATAGCGCACCCCCTGCCACGCATATACGG
Found at i:52579 original size:111 final size:111
Alignment explanation
Indices: 52439--52660 Score: 390
Period size: 111 Copynumber: 2.0 Consensus size: 111
52429 TGAAAATCAT
*
52439 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * *
52504 TATTTAATTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAATTGATTCATTTAATGCATGATTATTAGATTAAAAATTAA
*
52550 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACTTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
52615 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAAAATTAA
66 TAATTAATTGATTCATTTAATGCATGATTATTAGATTAAAAATTAA
52661 TTTTTGTAAT
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAATTGATTCATTTAATGCATGATTATTAGATTAAAAATTAA
Found at i:53471 original size:21 final size:21
Alignment explanation
Indices: 53445--53487 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
53435 TTTCTGGGTT
* *
53445 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
53466 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
53487 A
1 A
53488 CGAAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:53547 original size:66 final size:68
Alignment explanation
Indices: 53467--53618 Score: 209
Period size: 67 Copynumber: 2.2 Consensus size: 68
53457 ACCCATTCAA
* *
53467 GGGGAACCGATACCCCTTCAACG-AAATGAATTTCCAGAATGCAAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCCA
53531 -GG
66 GGG
* * * **
53533 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCCA
53598 GGGG
66 -GGG
*
53602 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
53619 ATGAAAAAAG
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
66 21 0.28
67 36 0.48
69 18 0.24
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCCA
GGG
Found at i:53982 original size:28 final size:29
Alignment explanation
Indices: 53919--53989 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
53909 CATATTATGA
**
53919 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
53948 TACATGACATGAATTCATA-TATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
53976 TACATGACATGAAT
1 TACATGACATGAAT
53990 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:54073 original size:29 final size:30
Alignment explanation
Indices: 54004--54079 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
53994 AGAAAAAGTT
54004 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGC-CTATGTGATAAAGGTATGTAAATG
*
54035 ATATGCCTATGTGTTAAAGGTATG-AAAT-
1 ATATGCCTATGTGATAAAGGTATGTAAATG
* *
54063 ACTATGGCTATGCGATA
1 A-TATGCCTATGTGATA
54080 TGAACTGCGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 16 0.40
30 17 0.43
31 6 0.15
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (30 bp):
ATATGCCTATGTGATAAAGGTATGTAAATG
Found at i:54310 original size:22 final size:22
Alignment explanation
Indices: 54282--54348 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
54272 TTATGGACAT
54282 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
54304 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
*
54326 AATTCTACTGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
54348 A
1 A
54349 TTTATACGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.28
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:59142 original size:21 final size:21
Alignment explanation
Indices: 59116--59158 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59106 TTTCTGGGTT
* *
59116 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
59137 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
59158 A
1 A
59159 CGAAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:59264 original size:67 final size:65
Alignment explanation
Indices: 59138--59286 Score: 201
Period size: 64 Copynumber: 2.3 Consensus size: 65
59128 ACCCATTCAA
* *
59138 GGGGAACCGATACCCCTTCAACGAAATGAATTTCCAGAATGCAAGGGGAATCGATACCCCCA-GG
1 GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGGGGAATCGATACCCCCAGGG
* * * *
59202 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACG-AAATGAAATTCCAGAATGC--AAGGGGAATCGATACCCCCA
59267 GGG
63 GGG
*
59270 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
59287 ATGAAAAAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
64 21 0.28
65 16 0.22
67 19 0.26
68 18 0.24
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.17
Consensus pattern (65 bp):
GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGGGGAATCGATACCCCCAGGG
Found at i:59622 original size:29 final size:29
Alignment explanation
Indices: 59588--59659 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
59578 CATATTATGA
**
59588 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
59617 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
59646 TACATGACATGAAT
1 TACATGACATGAAT
59660 ATGCAGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:59716 original size:30 final size:29
Alignment explanation
Indices: 59673--59750 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
59663 CAGAAAAAGT
*
59673 TATATGCACTATGTGATAAAGGTATGTAAA
1 TATATGC-CTATGTGATAAAGGTATGAAAA
*
59703 TGATATGCCTATGTGTTAAAGGTATGAAAA
1 T-ATATGCCTATGTGATAAAGGTATGAAAA
* *
59733 TACTATGGCTATGCGATA
1 TA-TATGCCTATGTGATA
59751 TGAACTGCGG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 34 0.83
31 6 0.15
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (29 bp):
TATATGCCTATGTGATAAAGGTATGAAAA
Found at i:60027 original size:22 final size:22
Alignment explanation
Indices: 59953--60019 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
59943 TTATGGACAT
59953 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
59975 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
59997 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
60019 A
1 A
60020 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:68000 original size:74 final size:74
Alignment explanation
Indices: 67873--68052 Score: 238
Period size: 74 Copynumber: 2.4 Consensus size: 74
67863 CAAGTGTCGA
* * * *
67873 CTCTTAAACATTTTGGTATAATAGCATTTTAGTTCTTTTTTAGTTTAAATATT-AGCTAAATAAG
1 CTCTCAAACATTTTGGTATAATAGCATTTTAGGTCTTTATTAGTTTAAATATTAATC-AAATAAG
* *
67937 ATTTTTTTTC
65 ATCTTTTTCC
* * * *
67947 CTCTCAAACATTTTGGTATAATAACATTTTAGGTCTTTATTAGTTTAATTATTAATCAAATAGGG
1 CTCTCAAACATTTTGGTATAATAGCATTTTAGGTCTTTATTAGTTTAAATATTAATCAAATAAGA
68012 TCTTTTTCC
66 TCTTTTTCC
68021 CTCTCAAAC-TTTTCGGTATAATAGCATTTTAG
1 CTCTCAAACATTTT-GGTATAATAGCATTTTAG
68053 ATCCTTTTTC
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
73 4 0.04
74 87 0.94
75 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (74 bp):
CTCTCAAACATTTTGGTATAATAGCATTTTAGGTCTTTATTAGTTTAAATATTAATCAAATAAGA
TCTTTTTCC
Found at i:69894 original size:60 final size:59
Alignment explanation
Indices: 69771--69917 Score: 143
Period size: 60 Copynumber: 2.4 Consensus size: 59
69761 AACATAATGA
* * *
69771 ATAGTCGG-GTGATCATTTTATAACTTTTAATAGCCGAGGGACTTAATAAAGCAACATTAT
1 ATAGTCGGAG-GACCATTTTGT-ACTTTTAATAGCCGAGGGACTTAATAAAGCAACATCAT
* * * * * * ** *
69831 ATAGTTGGAGGACTATTTTGTAGCTTTTAATTGTCGAGGTACTTAATAAAGTAGTATCCT
1 ATAGTCGGAGGACCATTTTGTA-CTTTTAATAGCCGAGGGACTTAATAAAGCAACATCAT
69891 ATAGTCGGAGGACCATTTGTGTACTTT
1 ATAGTCGGAGGACCATTT-TGTACTTT
69918 ACCTATATTT
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
59 1 0.01
60 64 0.91
61 5 0.07
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (59 bp):
ATAGTCGGAGGACCATTTTGTACTTTTAATAGCCGAGGGACTTAATAAAGCAACATCAT
Found at i:74215 original size:28 final size:29
Alignment explanation
Indices: 74184--74238 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
74174 ATATTTTCGT
74184 CCCCTAAAATATT-ATAAA-TTCAAGTTTA
1 CCCCTAAAATATTGA-AAAGTTCAAGTTTA
* *
74212 CCCCTTAAATTTTGAAAAGTTCAAGTT
1 CCCCTAAAATATTGAAAAGTTCAAGTT
74239 CTCTTCTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.36
Consensus pattern (29 bp):
CCCCTAAAATATTGAAAAGTTCAAGTTTA
Found at i:79381 original size:3 final size:3
Alignment explanation
Indices: 79349--79408 Score: 65
Period size: 3 Copynumber: 20.7 Consensus size: 3
79339 ACGGGAAAAA
*
79349 AAT AA- AAT AA- AAT AAGT AAT AA- AA- AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT
79392 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
79409 ATATAAAAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
2 8 0.16
3 36 0.72
4 6 0.12
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:79382 original size:25 final size:27
Alignment explanation
Indices: 79345--79414 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 27
79335 TGAAACGGGA
79345 AAAAAATAA-AATAAAATAA-G-TAAT
1 AAAAAATAATAATAAAATAATGATAAT
79369 AAAAAATAATAAT-AAATAATGATAAT
1 AAAAAATAATAATAAAATAATGATAAT
*
79395 -AATAATAATAATAAATATAA
1 AAAAAATAATAATAAA-ATAA
79415 AAACTATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 15 0.38
25 15 0.38
26 6 0.15
27 4 0.10
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (27 bp):
AAAAAATAATAATAAAATAATGATAAT
Found at i:79583 original size:36 final size:34
Alignment explanation
Indices: 79538--79791 Score: 202
Period size: 36 Copynumber: 7.0 Consensus size: 34
79528 ACCATATAAT
* *
79538 TTTTAAAAATGTTTTAAAAATTACATATTATATA
1 TTTTCAAAATGTTTTAAAAATTATATATTATATA
79572 TGCTTTCAAAATGTTTTTCAAAAAATTATATATTATATTA
1 T--TTTCAAAATG-TTTT--AAAAATTATATATTATA-TA
* * * *
79612 TTTTCAAAACGTTTTAAAAACTATATAATATGTA
1 TTTTCAAAATGTTTTAAAAATTATATATTATATA
** * *
79646 TATTTCAAAAATGTTTTGGAAACTATATATTATATTTC
1 T-TTTC-AAAATGTTTTAAAAATTATATATTATA--TA
* * * *
79684 TTTTCAAAAACGTTTTAAAACTATATAATATATAAATG
1 TTTTC-AAAATGTTTTAAAAAT-TAT-ATAT-TATATA
* *
79722 TTTTTAAAATGTTTTAAAAATTATATATCATATA
1 TTTTCAAAATGTTTTAAAAATTATATATTATATA
* *
79756 TTTTCAAAATGTTTTTTTAAAATTATATAATATATA
1 TTTTCAAAATG--TTTTAAAAATTATATATTATATA
79792 AATAAAAAAC
Statistics
Matches: 176, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
34 17 0.10
35 22 0.12
36 54 0.31
37 38 0.22
38 19 0.11
39 20 0.11
40 6 0.03
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (34 bp):
TTTTCAAAATGTTTTAAAAATTATATATTATATA
Found at i:79657 original size:74 final size:70
Alignment explanation
Indices: 79538--79791 Score: 233
Period size: 74 Copynumber: 3.5 Consensus size: 70
79528 ACCATATAAT
* * * * * *
79538 TTTTAAAAATGTTTTAAAAATTACATATTATATATGCTTTCAAAATGTTTTTCAAAAAATTATAT
1 TTTTCAAAACGTTTTAAAAACTATATAATATATAT-ATTTCAAAATG-TTTT--AAAAATTATAT
79603 ATTATATTA
62 ATTATATTA
* ** *
79612 TTTTCAAAACGTTTTAAAAACTATATAATATGTATATTTCAAAAATGTTTTGGAAACTATATATT
1 TTTTCAAAACGTTTTAAAAACTATATAATATATATATTTC-AAAATGTTTTAAAAATTATATATT
*
79677 ATATTTC
65 ATA-TTA
* *
79684 TTTTCAAAAACGTTTT-AAAACTATATAATATATAAATGTTTTTAAAATGTTTTAAAAATTATAT
1 TTTTC-AAAACGTTTTAAAAACTATATAATATAT--AT-ATTTCAAAATGTTTTAAAAATTATAT
*
79748 ATCATA-TA
62 ATTATATTA
* * *
79756 TTTTCAAAATGTTTTTTTAAAATTATATAATATATA
1 TTTTCAAAACG--TTTTAAAAACTATATAATATATA
79792 AATAAAAAAC
Statistics
Matches: 150, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
71 19 0.13
72 30 0.20
73 22 0.15
74 76 0.51
75 3 0.02
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (70 bp):
TTTTCAAAACGTTTTAAAAACTATATAATATATATATTTCAAAATGTTTTAAAAATTATATATTA
TATTA
Found at i:79813 original size:4 final size:4
Alignment explanation
Indices: 79784--79830 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
79774 AAAATTATAT
* * *
79784 AATA TATA AATA AA-A AACA AACA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
79831 TGGACGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:80527 original size:80 final size:80
Alignment explanation
Indices: 80442--81061 Score: 630
Period size: 84 Copynumber: 7.6 Consensus size: 80
80432 CGAACTCGGG
*
80442 GGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGC
*
80507 GTAGTCGAACTCGAA
66 GTAGTCGAACTCAAA
* * * * * *
80522 GGTCTTTGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGCA-CCCTCGAAG
1 GGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT--ATGCCTTGGAG
* ***
80586 CTGAGCGTAATCGAACTCGGG
60 CTGAGCGTAGTCGAACTCAAA
* *
80607 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGC
80672 GTAGTCGAACTCAAA
66 GTAGTCGAACTCAAA
* * * * * * * * * *
80687 GGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGTT
1 GGTCTTTG---GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATG-CCTTGGAGCT
* * * *
80752 GAGTGTAATCGAACTTAAG
62 GAGCGTAGTCGAACTCAAA
* * *
80771 GGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGC
80836 GTAGTCGAACTCAAA
66 GTAGTCGAACTCAAA
* * * * * * * * *
80851 GGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCT
1 GGTCTTTG---GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATG-CCTTGGAGCT
* * * *
80916 GAGTGTAATCGAACTTAAG
62 GAGCGTAGTCGAACTCAAA
* * *
80935 GGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGC
81000 GTAGTCGAACTCAAA
66 GTAGTCGAACTCAAA
* * * *
81015 GGTCTTGGTGGCAGATAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 GGTCTT--TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
81062 AGTTTGTTTA
Statistics
Matches: 432, Mismatches: 91, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
80 96 0.22
81 103 0.24
82 34 0.08
83 66 0.15
84 104 0.24
85 28 0.06
86 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (80 bp):
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGC
GTAGTCGAACTCAAA
Found at i:80549 original size:84 final size:82
Alignment explanation
Indices: 80447--81061 Score: 605
Period size: 81 Copynumber: 7.5 Consensus size: 82
80437 TCGGGGGTCT
*
80447 TTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
*
80512 CGAACTCGAAGGTCTTTGG
66 CGAACTCAAAGGTC-TT-G
* * * * * *
80531 TTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGCA-CCCTCGAAGCTGAGCGTA
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT--ATGCCTTGGAGCTGAGCGTA
* ***
80595 ATCGAACTCGGGGGTC-T-
64 GTCGAACTCAAAGGTCTTG
* *
80612 TTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
80677 CGAACTCAAAGGTCTTTG
66 CGAACTCAAAGGTC-TTG
* ** * * * * * * * * * * *
80695 CTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGTTGAGTGTAA
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
* *
80760 TCGAACTTAAGGGTC-T-
65 TCGAACTCAAAGGTCTTG
* * *
80776 TTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
80841 CGAACTCAAAGGTCTTTG
66 CGAACTCAAAGGTC-TTG
* ** * * * * * * * * * *
80859 CTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAA
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
* *
80924 TCGAACTTAAGGGTC-T-
65 TCGAACTCAAAGGTCTTG
* * *
80940 TTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
81005 CGAACTCAAAGGTCTTG
66 CGAACTCAAAGGTCTTG
* * * * *
81022 GTGGCAGATAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
81062 AGTTTGTTTA
Statistics
Matches: 418, Mismatches: 100, Indels: 28
0.77 0.18 0.05
Matches are distributed among these distances:
80 82 0.20
81 106 0.25
82 37 0.09
83 68 0.16
84 96 0.23
85 28 0.07
86 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (82 bp):
TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
CGAACTCAAAGGTCTTG
Found at i:80796 original size:164 final size:164
Alignment explanation
Indices: 80373--81048 Score: 980
Period size: 164 Copynumber: 4.1 Consensus size: 164
80363 CTATTGACAA
* * * * * * *
80373 ATAACCCTTCTTGCCTTGAGTTATGTTGTAAACGATATGACCTCGAAGTTAAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTCGAAGCTGAGTGTAATCGAACT
** * * *
80438 CGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCT
66 CAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCT
* * **
80503 GAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
131 GAGCGTAGTCGAACTCAAAGGTCTTT-GCTAACAG
* * * * *
80538 ATAACCCTTCTTGACTTAAGTTATGCTGCAAATG--ATGCACCCTCGAAGCTGAGCGTAATCGAA
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATG--CCCTCGAAGCTGAGTGTAATCGAA
** *
80601 CTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAG
64 CTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAG
80666 CTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
129 CTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
* *
80702 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGTTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTCGAAGCTGAGTGTAATCGAACT
* *
80767 TAAGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCT
66 CAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCT
80832 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
131 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
*
80866 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTCGAAGCTGAGTGTAATCGAACT
* *
80931 TAAGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCT
66 CAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCT
* **
80996 GAGCGTAGTCGAACTCAAAGGTC-TTGGTGGCAG
131 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
* *
81029 ATAGCCCTTCTGGCCTTGAG
1 ATAACCCTTCTAGCCTTGAG
81049 CTAAGCTGCA
Statistics
Matches: 473, Mismatches: 34, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
163 28 0.06
164 304 0.64
165 138 0.29
166 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (164 bp):
ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTCGAAGCTGAGTGTAATCGAACT
CAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCT
GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
Found at i:84426 original size:19 final size:19
Alignment explanation
Indices: 84402--84447 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
84392 AGTTAATGTG
84402 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
84421 AATGCAAAGAAAATAACGA
1 AATGCAAAGAAAATAACAA
84440 AATGCAAA
1 AATGCAAA
84448 ATGTCTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.65, C:0.11, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:87619 original size:3 final size:3
Alignment explanation
Indices: 87587--87649 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
87577 CGGGAAAAAA
*
87587 AAT AA- AAT AA- AAT AAGT AAT AA- AA- AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT
87630 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
87650 ATATAAAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 8 0.15
3 39 0.74
4 6 0.11
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:87655 original size:9 final size:10
Alignment explanation
Indices: 87591--87652 Score: 76
Period size: 10 Copynumber: 6.5 Consensus size: 10
87581 AAAAAAAATA
87591 AAATAA-AAT
1 AAATAATAAT
* *
87600 AAGTAATAAA
1 AAATAATAAT
87610 AAATAATAAT
1 AAATAATAAT
*
87620 AAATAATGAT
1 AAATAATAAT
87630 -AATAATAAT
1 AAATAATAAT
87639 -AATAATAAT
1 AAATAATAAT
87648 AAATA
1 AAATA
87653 TAAAAACTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.49
10 23 0.51
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
AAATAATAAT
Found at i:87768 original size:34 final size:34
Alignment explanation
Indices: 87727--87793 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
87717 TAAAAAACCA
* *
87727 TTTAAAAAACTATATAATTTTCAAAAGTGTTTTT
1 TTTAAAAAACCATATAATTTTCAAAAATGTTTTT
*
87761 TTTAAAAAACCATATAATTTTTAAAAATGTTTT
1 TTTAAAAAACCATATAATTTTCAAAAATGTTTT
87794 AAAAATTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.46
Consensus pattern (34 bp):
TTTAAAAAACCATATAATTTTCAAAAATGTTTTT
Found at i:87824 original size:36 final size:36
Alignment explanation
Indices: 87779--88036 Score: 198
Period size: 36 Copynumber: 6.9 Consensus size: 36
87769 ACCATATAAT
* * *
87779 TTTTAAAAATGTTTTAAAAATTACATATTATATATG
1 TTTTCAAAATGTTTTAAAAATTATATATTATATATA
*
87815 CTTTCAAAATGTTTTTCAAAAAATTATATATTATATATTTA
1 TTTTCAAAATG-TTTT--AAAAATTATATATTATATA--TA
* * * *
87856 TTTTCAAAACGTTTTAAAAACTATATAATATGTATA
1 TTTTCAAAATGTTTTAAAAATTATATATTATATATA
** * * *
87892 TTTTCAAAAATGTTTTGGAAACTATATATTATATTTC
1 TTTTC-AAAATGTTTTAAAAATTATATATTATATATA
* * * *
87929 TTTTCAAAAGCGTTTT-AAAACTATATAATATATAAATG
1 TTTTCAAAA-TGTTTTAAAAATTATAT-AT-TATATATA
* *
87967 TTTTTAAAATGTTTTAAAAATTATATA-T-CATATA
1 TTTTCAAAATGTTTTAAAAATTATATATTATATATA
* * *
88001 TTTTCAAAAAATTTTTTTAAAATTATATAATATATA
1 TTTTC--AAAATGTTTTAAAAATTATATATTATATA
88037 AATAAAAAAC
Statistics
Matches: 177, Mismatches: 31, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
34 7 0.04
35 1 0.01
36 49 0.28
37 47 0.27
38 41 0.23
39 18 0.10
40 4 0.02
41 10 0.06
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.47
Consensus pattern (36 bp):
TTTTCAAAATGTTTTAAAAATTATATATTATATATA
Found at i:87914 original size:37 final size:36
Alignment explanation
Indices: 87772--88036 Score: 180
Period size: 37 Copynumber: 7.1 Consensus size: 36
87762 TTAAAAAACC
* * * *
87772 ATATA-ATTTTTAAAAATGTTTTAAAAATTACATATT
1 ATATATATTTTCAAAAATGTTTT-AAAACTATATAAT
** *
87808 ATATATGCTTTC-AAAATGTTTTTCAAAAAATTATATATTAT
1 ATATATATTTTCAAAAATG-TTTT---AAAACTATATA--AT
* *
87849 ATATTTATTTTC-AAAACGTTTTAAAAACTATATAAT
1 ATATATATTTTCAAAAATGTTTT-AAAACTATATAAT
* * *
87885 ATGTATATTTTCAAAAATGTTTTGGAAACTATATATT
1 ATATATATTTTCAAAAATGTTTT-AAAACTATATAAT
* * **
87922 ATATTTCTTTTCAAAAGCGTTTTAAAACTATATAAT
1 ATATATATTTTCAAAAATGTTTTAAAACTATATAAT
* ** *
87958 ATATAAATGTTTTTAAAATGTTTTAAAAAT-TAT-AT
1 ATATATAT-TTTCAAAAATGTTTTAAAACTATATAAT
* *
87993 ATCATATATTTTCAAAAAATTTTTTTAAAATTATATAAT
1 AT-ATATATTTTC-AAAAA-TGTTTTAAAACTATATAAT
88032 ATATA
1 ATATA
88037 AATAAAAAAC
Statistics
Matches: 180, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
35 7 0.04
36 51 0.28
37 71 0.39
38 17 0.09
39 15 0.08
40 4 0.02
41 15 0.08
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (36 bp):
ATATATATTTTCAAAAATGTTTTAAAACTATATAAT
Found at i:87993 original size:74 final size:72
Alignment explanation
Indices: 87816--88039 Score: 220
Period size: 74 Copynumber: 3.0 Consensus size: 72
87806 TTATATATGC
87816 TTTC-AAAATGTTTTTCAAAAAATTATATATTATATATTTATTTTCAAAACGTTTTAAAAACTAT
1 TTTCAAAAATG-TTTT--AAAAATTATATA-T-TATATTTATTTTCAAAACGTTTT-AAAACTAT
* *
87880 ATAATATGTATAT
60 ATAATATATAAAT
** * *
87893 TTTCAAAAATGTTTTGGAAACTATATATTATATTTCTTTTCAAAAGCGTTTTAAAACTATATAAT
1 TTTCAAAAATGTTTTAAAAATTATATATTATATTTATTTTCAAAA-CGTTTTAAAACTATATAAT
87958 ATATAAAT
65 ATATAAAT
** * ** *
87966 GTTTTTAAAATGTTTTAAAAATTATATATCATA--TATTTTCAAAAAATTTTTTTAAAATTATAT
1 -TTTCAAAAATGTTTTAAAAATTATATATTATATTTATTTTC--AAAA-CGTTTTAAAACTATAT
88029 AATATATAAAT
62 AATATATAAAT
88040 AAAAAACAAA
Statistics
Matches: 125, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
72 6 0.05
73 35 0.28
74 61 0.49
75 9 0.07
77 8 0.06
78 6 0.05
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.46
Consensus pattern (72 bp):
TTTCAAAAATGTTTTAAAAATTATATATTATATTTATTTTCAAAACGTTTTAAAACTATATAATA
TATAAAT
Found at i:93967 original size:22 final size:22
Alignment explanation
Indices: 93937--93981 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
93927 CAAGAATATT
*
93937 AGGGGAATGAGCGTTAAATGTC
1 AGGGAAATGAGCGTTAAATGTC
*
93959 AGGGAAATGAGCGTTTAATGTC
1 AGGGAAATGAGCGTTAAATGTC
93981 A
1 A
93982 AATGATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.33, T:0.24
Consensus pattern (22 bp):
AGGGAAATGAGCGTTAAATGTC
Found at i:94808 original size:17 final size:17
Alignment explanation
Indices: 94788--94845 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
94778 ATAGACCAAC
94788 ATTAATCTGAATTTCAT
1 ATTAATCTGAATTTCAT
94805 ATTAAT-T-AA---C--
1 ATTAATCTGAATTTCAT
94815 ATTAATCTGAATTTCAT
1 ATTAATCTGAATTTCAT
*
94832 ATTAATGTGAATTT
1 ATTAATCTGAATTT
94846 GCACCATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
10 6 0.18
11 1 0.03
12 3 0.09
15 3 0.09
16 1 0.03
17 19 0.58
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (17 bp):
ATTAATCTGAATTTCAT
Found at i:94815 original size:27 final size:27
Alignment explanation
Indices: 94785--94837 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
94775 ACTATAGACC
94785 AACATTAATCTGAATTTCATATTAATT
1 AACATTAATCTGAATTTCATATTAATT
94812 AACATTAATCTGAATTTCATATTAAT
1 AACATTAATCTGAATTTCATATTAAT
94838 GTGAATTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (27 bp):
AACATTAATCTGAATTTCATATTAATT
Found at i:95146 original size:68 final size:71
Alignment explanation
Indices: 95038--95169 Score: 173
Period size: 68 Copynumber: 1.9 Consensus size: 71
95028 TACCTAAAAC
* * * *
95038 ATCATTTTTTAACATTTCCGGTAAAAAGTGTCCAACAATAATAAAATCGGTAGCGTCTAATAATG
1 ATCATTTTTTAACATTTCCGGTAAAAAGTGTCCAACAATAACAAAACCGGTAACGCCTAATAATG
95103 TTTCCG
66 TTTCCG
* *
95109 ATCA-TTTTTACCAATTT-CGGT-AAAA-TGTCCAATAATAACAAAACCGGTAACGCCTAATAAT
1 ATCATTTTTTAAC-ATTTCCGGTAAAAAGTGTCCAACAATAACAAAACCGGTAACGCCTAATAAT
95170 CTATTTAGTC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
68 31 0.57
69 4 0.07
70 11 0.20
71 8 0.15
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (71 bp):
ATCATTTTTTAACATTTCCGGTAAAAAGTGTCCAACAATAACAAAACCGGTAACGCCTAATAATG
TTTCCG
Found at i:95182 original size:68 final size:70
Alignment explanation
Indices: 95038--95184 Score: 158
Period size: 68 Copynumber: 2.1 Consensus size: 70
95028 TACCTAAAAC
* * * * *
95038 ATCATTTTTTAACATTTCCGGTAAAAAGTGTCCAACAATAATAAAATCGGTAGCGTCTAATAATG
1 ATCA-TTTTTAACATTTCCGGTAAAAAGTGTCCAACAATAACAAAACCGGTAACGCCTAATAATC
*
95103 TTTCCG
65 TTTCAG
* *
95109 ATCATTTTTACCAATTT-CGGT-AAAA-TGTCCAATAATAACAAAACCGGTAACGCCTAATAATC
1 ATCATTTTTAAC-ATTTCCGGTAAAAAGTGTCCAACAATAACAAAACCGGTAACGCCTAATAATC
*
95171 TATTTAG
65 T-TTCAG
95178 -TCATTTT
1 ATCATTTT
95185 CACATGTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
68 39 0.60
69 7 0.11
70 11 0.17
71 8 0.12
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (70 bp):
ATCATTTTTAACATTTCCGGTAAAAAGTGTCCAACAATAACAAAACCGGTAACGCCTAATAATCT
TTCAG
Found at i:106186 original size:19 final size:19
Alignment explanation
Indices: 106162--106202 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
106152 AACCGTTGAT
* *
106162 CAACAATGGCGTAAGTATA
1 CAACAACGGCATAAGTATA
106181 CAACAACGGCATAAGTATA
1 CAACAACGGCATAAGTATA
106200 CAA
1 CAA
106203 ACACGATGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (19 bp):
CAACAACGGCATAAGTATA
Found at i:116734 original size:17 final size:17
Alignment explanation
Indices: 116700--116751 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
116690 ACCAGACAAA
*
116700 TTTATTATTTTAGAGAG
1 TTTATTAATTTAGAGAG
**
116717 TTTATTAATTTATCGAG
1 TTTATTAATTTAGAGAG
*
116734 --TATTAATTTAAAGAG
1 TTTATTAATTTAGAGAG
116749 TTT
1 TTT
116752 TTACTATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
TTTATTAATTTAGAGAG
Found at i:122749 original size:24 final size:24
Alignment explanation
Indices: 122679--122758 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
122669 GTTAAAATGA
*
122679 TAAACGAACACAAACGAACGAACG
1 TAAATGAACACAAACGAACGAACG
* * * *
122703 TTAATGAATACACACGAATGAACG
1 TAAATGAACACAAACGAACGAACG
* * *
122727 TAAATGAACATAAATGAACGAACA
1 TAAATGAACACAAACGAACGAACG
122751 TAAATGAA
1 TAAATGAA
122759 TGAACATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.54, C:0.16, G:0.15, T:0.15
Consensus pattern (24 bp):
TAAATGAACACAAACGAACGAACG
Found at i:122751 original size:14 final size:14
Alignment explanation
Indices: 122732--122768 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
122722 GAACGTAAAT
122732 GAACATAAATGAAC
1 GAACATAAATGAAC
*
122746 GAACATAAATGAAT
1 GAACATAAATGAAC
122760 GAACATAAA
1 GAACATAAA
122769 ATTAATTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (14 bp):
GAACATAAATGAAC
Found at i:125038 original size:20 final size:20
Alignment explanation
Indices: 124988--125039 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
124978 GGTCTAGGTT
* *
124988 ATTCCATATTTATATAGAAA
1 ATTCTATATGTATATAGAAA
*
125008 ATTCTAGATGTATATAGAAA
1 ATTCTATATGTATATAGAAA
* *
125028 GTTTTATATGTA
1 ATTCTATATGTA
125040 AAATGTAGAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (20 bp):
ATTCTATATGTATATAGAAA
Found at i:125645 original size:43 final size:44
Alignment explanation
Indices: 125552--125651 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
125542 TAAGATCTTT
* * *
125552 ATTTTTTTTAATCTCACTTTTACCTTTATATTTGAGACTCCTTA
1 ATTTTTTTCAATCTCAATTTTACCTTTATAATTGAGACTCCTTA
* * *
125596 ATTTTTTTCAATCTTAATTTCTACCTTTATAATTGAGGCTTC-TA
1 ATTTTTTTCAATCTCAATTT-TACCTTTATAATTGAGACTCCTTA
125640 ATTTTTTTCAAT
1 ATTTTTTTCAAT
125652 TTCATAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
44 31 0.63
45 18 0.37
ACGTcount: A:0.24, C:0.16, G:0.05, T:0.55
Consensus pattern (44 bp):
ATTTTTTTCAATCTCAATTTTACCTTTATAATTGAGACTCCTTA
Found at i:129593 original size:20 final size:20
Alignment explanation
Indices: 129568--129720 Score: 270
Period size: 20 Copynumber: 7.7 Consensus size: 20
129558 TTTTCCTAAT
129568 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
129588 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
129608 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
129628 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
129648 TTGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
129668 TTGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
129688 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
129708 TCGCAATGCGAAT
1 TCGCAATGCGAAT
129721 CTGACTATCG
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 129 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:129940 original size:22 final size:22
Alignment explanation
Indices: 129915--129979 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
129905 GGCGACATCT
*
129915 GTCCCCATATTCGACGAAATCA
1 GTCCCCATATCCGACGAAATCA
* *
129937 GTCCCCATCTCCGACGATATCA
1 GTCCCCATATCCGACGAAATCA
* * *
129959 GTCTCCATCTCCGGCGAAATC
1 GTCCCCATATCCGACGAAATC
129980 GTTCACGGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.25, C:0.37, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATATCCGACGAAATCA
Found at i:130353 original size:33 final size:34
Alignment explanation
Indices: 130308--130377 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
130298 ATCGCAATGT
** *
130308 GATTCTGTCGTTGCGATTTTC-ATTTCGCGTTGC
1 GATTCTGTCGTTGCGATAGTCAAATTCGCGTTGC
130341 GATTCT-TGCGTTGCGATAGTCAAATTCGCGTTGC
1 GATTCTGT-CGTTGCGATAGTCAAATTCGCGTTGC
130375 GAT
1 GAT
130378 AGTTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 1 0.03
33 17 0.53
34 14 0.44
ACGTcount: A:0.14, C:0.20, G:0.26, T:0.40
Consensus pattern (34 bp):
GATTCTGTCGTTGCGATAGTCAAATTCGCGTTGC
Found at i:130427 original size:20 final size:20
Alignment explanation
Indices: 130389--130427 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
130379 GTTATTTTTT
** *
130389 TGTTGCGATTTTCATTTTCG
1 TGTTGCGATTTAAAGTTTCG
130409 TGTTGCGATTTAAAGTTTC
1 TGTTGCGATTTAAAGTTTC
130428 AGAAACTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.13, G:0.21, T:0.51
Consensus pattern (20 bp):
TGTTGCGATTTAAAGTTTCG
Found at i:132420 original size:20 final size:20
Alignment explanation
Indices: 132393--132450 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
132383 AATCACAACG
*
132393 CGAAAATGACTATCGCAATG
1 CGAAAATGACTATCGCAATA
* *
132413 CTAAAATGACTATTGCAATA
1 CGAAAATGACTATCGCAATA
**
132433 CGAATTTGACTATCGCAA
1 CGAAAATGACTATCGCAA
132451 CGAAATAATC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (20 bp):
CGAAAATGACTATCGCAATA
Found at i:132526 original size:20 final size:20
Alignment explanation
Indices: 132497--132583 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
132487 GATTCTCTCG
**
132497 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
132517 TTGTGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
132537 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
132557 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
132577 TTGCGAT
1 TTGCGAT
132584 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:134577 original size:14 final size:14
Alignment explanation
Indices: 134558--134591 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
134548 TGTTTAATAT
134558 ATTTGTAAAAGATG
1 ATTTGTAAAAGATG
* *
134572 ATTTGTAAATGTTG
1 ATTTGTAAAAGATG
134586 ATTTGT
1 ATTTGT
134592 TTAATTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTGTAAAAGATG
Found at i:134785 original size:34 final size:33
Alignment explanation
Indices: 134697--134792 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
134687 AAAACAGACT
* **
134697 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
134731 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
134764 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
134793 CGAATTTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:134788 original size:20 final size:19
Alignment explanation
Indices: 134730--134796 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
134720 GCAACGAGAG
134730 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
134749 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
134763 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
134783 AATCGCAACGCGAA
1 AATCGCAATGCGAA
134797 TTTAGTTTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 8 0.21
16 5 0.13
17 2 0.05
18 3 0.08
19 10 0.26
20 11 0.28
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:134864 original size:33 final size:34
Alignment explanation
Indices: 134807--134902 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
134797 TTTAGTTTCG
134807 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
134841 CGTTGCGATTTTTA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
134874 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
134903 AGTCATTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.54
34 25 0.46
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:134899 original size:20 final size:20
Alignment explanation
Indices: 134874--134961 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
134864 GCGATTCTCT
134874 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
134894 CGTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCCG
*
134914 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
134934 CGTTGC---A---ATTTCCG
1 CGTTGCGATAGTCATTTCCG
134948 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
134962 AATGAATGTC
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
13 2 0.04
14 10 0.18
17 2 0.04
20 40 0.71
21 2 0.04
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:137411 original size:24 final size:24
Alignment explanation
Indices: 137384--137430 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
137374 CAAAATCCGA
*
137384 GTATTGACCAAGATCAAATTTCGG
1 GTATTAACCAAGATCAAATTTCGG
137408 GTATTAACCAAGATCAAATTTCG
1 GTATTAACCAAGATCAAATTTCG
137431 AATACCGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (24 bp):
GTATTAACCAAGATCAAATTTCGG
Found at i:138296 original size:20 final size:20
Alignment explanation
Indices: 138271--138337 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
138261 AAATTCAGTA
*
138271 TTGCGATAGTCAGAATCTTG
1 TTGCGATAGTCAGAATCTCG
138291 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* * * *
138311 TCGCGATAGTAAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
138331 TTGCGAT
1 TTGCGAT
138338 TTACGTATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:138347 original size:20 final size:20
Alignment explanation
Indices: 138324--138399 Score: 143
Period size: 20 Copynumber: 3.8 Consensus size: 20
138314 CGATAGTAAG
138324 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
*
138344 ATTCGCATTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
138364 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
138384 ATTCGCGTTGCGATTT
1 ATTCGCGTTGCGATTT
138400 CGCATTGCGA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.41
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACGT
Found at i:138357 original size:40 final size:40
Alignment explanation
Indices: 138313--138397 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
138303 GAATCTCGTC
138313 GCGATAGTAAG-ATTCGCGTTGCGATTTACGTATTCGCATT
1 GCGAT-GTAAGTATTCGCGTTGCGATTTACGTATTCGCATT
* * *
138353 GCGATTTACGTATTCGCGTTGCGATTTACGTATTCGCGTT
1 GCGATGTAAGTATTCGCGTTGCGATTTACGTATTCGCATT
138393 GCGAT
1 GCGAT
138398 TTCGCATTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.07
40 38 0.93
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (40 bp):
GCGATGTAAGTATTCGCGTTGCGATTTACGTATTCGCATT
Found at i:138430 original size:21 final size:21
Alignment explanation
Indices: 138406--138451 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
138396 ATTTCGCATT
138406 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
138427 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
138448 GCGA
1 GCGA
138452 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:139930 original size:14 final size:14
Alignment explanation
Indices: 139911--139960 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
139901 TTGAAATTTT
139911 TTCGAGTCGAGTTA
1 TTCGAGTCGAGTTA
** **
139925 TTCGAGTTTAAGAAA
1 TTCGAG-TCGAGTTA
139940 TTCGAGTCGAGTTA
1 TTCGAGTCGAGTTA
139954 TTCGAGT
1 TTCGAGT
139961 TTCTATACTA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (14 bp):
TTCGAGTCGAGTTA
Found at i:143210 original size:24 final size:24
Alignment explanation
Indices: 143166--143215 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
143156 ATAAAGAACC
*
143166 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
143190 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
143214 AA
1 AA
143216 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:152228 original size:2 final size:2
Alignment explanation
Indices: 152178--152209 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
152168 TAATATTTAA
152178 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
152210 CTATTAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:152305 original size:2 final size:2
Alignment explanation
Indices: 152298--152328 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
152288 ACCTATATGC
*
152298 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
152329 TCTGTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:152399 original size:16 final size:15
Alignment explanation
Indices: 152337--152401 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 15
152327 ATTCTGTATT
152337 TTATCTTATTATTTCT-
1 TTAT-TTATT-TTTCTA
*
152353 TTACTTT-TTTTTATA
1 TTA-TTTATTTTTCTA
152368 TTATTTA-TTTTC-A
1 TTATTTATTTTTCTA
152381 TTATTTAGTTTTTCTA
1 TTATTTA-TTTTTCTA
152397 TTATT
1 TTATT
152402 GATATATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 8 0.20
14 11 0.27
15 10 0.24
16 11 0.27
17 1 0.02
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.71
Consensus pattern (15 bp):
TTATTTATTTTTCTA
Found at i:163122 original size:18 final size:20
Alignment explanation
Indices: 163099--163135 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
163089 CCCAAATTGA
163099 AAAAGAAA-AAAA-AAGAGG
1 AAAAGAAATAAAAGAAGAGG
163117 AAAAGAAATAAAAGAAGAG
1 AAAAGAAATAAAAGAAGAG
163136 AAATAAGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (20 bp):
AAAAGAAATAAAAGAAGAGG
Found at i:164132 original size:103 final size:103
Alignment explanation
Indices: 163854--164222 Score: 597
Period size: 103 Copynumber: 3.6 Consensus size: 103
163844 AGGTTTTACC
* * *
163854 CAGAGCCAATTTCGACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
163919 ACGAAGGGACCGCTGGTTGTC-CCAAACATTTCTCCATT
66 ACGAAGGGA-CGCTGGTTGTCAACAAACATTTCTCAATT
163957 CAGAGCCAATTTCAACTTCACAACGAAGGATA-TGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
164021 ACGAAGGGACGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACGCTGGTTGTCAACAAACATTTCTC-AATT
* *
164060 TAGAG-CAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
164124 ACGAAGGGACGCTGCTTGTCAACAAA-ATTTC-CAATCT
66 ACGAAGGGACGCTGGTTGTCAACAAACATTTCTCAAT-T
164161 CAGAGCCAATTTCAAC-TCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
164223 AAACTTTCCA
Statistics
Matches: 251, Mismatches: 10, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
100 3 0.01
101 62 0.25
102 92 0.37
103 94 0.37
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (103 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACGCTGGTTGTCAACAAACATTTCTCAATT
Found at i:164237 original size:76 final size:76
Alignment explanation
Indices: 164146--164299 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 76
164136 TGCTTGTCAA
164146 CAAAATTTCCAATCTCAGAGCCAATTTCAAC-TCACAACGAAGGATATTGGACTCCAGACAACGC
1 CAAAATTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
164210 AAGTTCAACTT
66 AAGTTCAACTT
164221 CAAAACTTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
1 CAAAA-TTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
164286 CAAGTTCAACTT
65 CAAGTTCAACTT
164298 CA
1 CA
164300 CGACGAAGGG
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
75 5 0.06
76 26 0.34
77 46 0.60
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (76 bp):
CAAAATTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
AAGTTCAACTT
Found at i:170867 original size:15 final size:15
Alignment explanation
Indices: 170847--170880 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
170837 CCTTCTTCTC
170847 CTTCCTCCTCGTCTT
1 CTTCCTCCTCGTCTT
*
170862 CTTCCTCCTCTTCTT
1 CTTCCTCCTCGTCTT
170877 CTTC
1 CTTC
170881 TTCAATGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (15 bp):
CTTCCTCCTCGTCTT
Found at i:170882 original size:18 final size:19
Alignment explanation
Indices: 170838--170883 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
170828 AGATGATGCC
170838 CTTCTTC-TCCTTCCTCCT
1 CTTCTTCTTCCTTCCTCCT
* *
170856 CGTCTTCTTCC-TCCTCTT
1 CTTCTTCTTCCTTCCTCCT
170874 CTTCTTCTTC
1 CTTCTTCTTC
170884 AATGGCTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.00, C:0.46, G:0.02, T:0.52
Consensus pattern (19 bp):
CTTCTTCTTCCTTCCTCCT
Found at i:171423 original size:14 final size:15
Alignment explanation
Indices: 171404--171438 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
171394 AAGAAATGAG
171404 AGAGAGTGGGA-TAC
1 AGAGAGTGGGAGTAC
*
171418 AGAGAGTGTGAGTAC
1 AGAGAGTGGGAGTAC
171433 AGAGAG
1 AGAGAG
171439 AAAGGGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.37, C:0.06, G:0.43, T:0.14
Consensus pattern (15 bp):
AGAGAGTGGGAGTAC
Found at i:171823 original size:29 final size:30
Alignment explanation
Indices: 171758--171831 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
171748 AATAATATAG
* *
171758 GTAAAATAAATTATCTGGGAAATTATTTTAT
1 GTAAAATAAATTATCT-GAAAATTATTTTAC
* * *
171789 GCAAAATGAATTATCT-AAAATTATTTTCC
1 GTAAAATAAATTATCTGAAAATTATTTTAC
171818 GTAAAATAAATTAT
1 GTAAAATAAATTAT
171832 ATTTTTTAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 22 0.61
31 14 0.39
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (30 bp):
GTAAAATAAATTATCTGAAAATTATTTTAC
Found at i:174276 original size:39 final size:39
Alignment explanation
Indices: 174218--174308 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 39
174208 TCTATGACTT
* * **
174218 GTAAGTCCTTACTGTAGGC-TCATCGGCTTTGTGCTCAGA
1 GTAAGTCCTTACCGCAGGCTTC-TCAACTTTGTGCTCAGA
*
174257 GTAAGTCCTTACCGCAGGCTTCTCAACTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAGGCTTCTCAACTTTGTGCTCAGA
174296 GTAAGTCCTTACC
1 GTAAGTCCTTACC
174309 ACTTGTCCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 44 0.96
40 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAGGCTTCTCAACTTTGTGCTCAGA
Found at i:176402 original size:11 final size:11
Alignment explanation
Indices: 176386--176419 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
176376 AAACAAAATC
176386 TTTTAAAATAA
1 TTTTAAAATAA
176397 TTTTAAAAAATAA
1 TTTT--AAAATAA
176410 TTTTAAAATA
1 TTTTAAAATA
176420 TAAAAAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTTAAAATAA
Found at i:176408 original size:13 final size:13
Alignment explanation
Indices: 176390--176422 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
176380 AAAATCTTTT
176390 AAAATAATTTTAA
1 AAAATAATTTTAA
176403 AAAATAATTTTAA
1 AAAATAATTTTAA
*
176416 AATATAA
1 AAAATAA
176423 AAAGTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATAATTTTAA
Found at i:178348 original size:16 final size:16
Alignment explanation
Indices: 178324--178366 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
178314 AAACATAAAT
178324 AATAATAATAATATTA
1 AATAATAATAATATTA
*
178340 AATATTAATAATATTA
1 AATAATAATAATATTA
*
178356 AATAACAATAA
1 AATAATAATAA
178367 CCTAGACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATAATAATATTA
Found at i:179630 original size:14 final size:15
Alignment explanation
Indices: 179549--179668 Score: 82
Period size: 15 Copynumber: 7.5 Consensus size: 15
179539 TAATAAGGTT
179549 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
179564 AATTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
179579 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
179598 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
179616 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
* * *
179630 ATTTATTAGTATGAATTG
1 ATTTATT--T-TAAAATA
179648 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
179662 ATTTATT
1 ATTTATT
179669 AGTATGGATT
Statistics
Matches: 86, Mismatches: 8, Indels: 23
0.74 0.07 0.20
Matches are distributed among these distances:
14 22 0.26
15 31 0.36
16 6 0.07
17 3 0.03
18 11 0.13
19 1 0.01
20 2 0.02
21 4 0.05
22 6 0.07
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:179653 original size:18 final size:18
Alignment explanation
Indices: 179630--179686 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
179620 ATTTTAAATA
179630 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
179648 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
*
179662 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
179680 ATTTATT
1 ATTTATT
179687 TTAAAATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.53
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:179655 original size:32 final size:32
Alignment explanation
Indices: 179616--179691 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
179606 TTTTAAAATA
179616 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
*
179648 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
179680 ATTTATTTTAAA
1 ATTTATTTTAAA
179692 ATATGGATTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTG
Found at i:179742 original size:80 final size:79
Alignment explanation
Indices: 179592--179825 Score: 287
Period size: 80 Copynumber: 2.9 Consensus size: 79
179582 TATTATAAAA
* *
179592 TATGGATTGATTTATTTTAAAATA---ATTTATTTTAAATAATTTATTAGTATGAATTGATTTAT
1 TATGGATTGATTTATTTTAAAATATGGATTGA-TTT--ATTATTTATTAGTATGAATTGATTTAT
179654 TTTAAATAATTTATTAG
63 TTTAAATAATTTATTAG
*
179671 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTT-GTATGGATTGATTTATT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATT-TA-TTAGTATGAATTGATTTATT
179735 TTAAATAATTTATTAG
64 TTAAATAATTTATTAG
* *
179751 TATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTA---T---T-ATTTATTAGTATGAATTGAT
179816 TTATTTTAAA
59 TTATTTTAAA
179826 ATATGGATTG
Statistics
Matches: 138, Mismatches: 4, Indels: 19
0.86 0.02 0.12
Matches are distributed among these distances:
79 29 0.21
80 69 0.50
81 5 0.04
82 4 0.03
83 1 0.01
85 2 0.01
86 25 0.18
87 3 0.02
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (79 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTTATTAGTATGAATTGATTTATTTT
AAATAATTTATTAG
Found at i:179764 original size:32 final size:32
Alignment explanation
Indices: 179718--179991 Score: 201
Period size: 32 Copynumber: 8.7 Consensus size: 32
179708 TATTGTAGTT
179718 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
179750 GTATAGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
179773 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
179804 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
179827 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
179858 GTATGGATTGATTTATTTTAAAATATGGATTAATTTA
1 GTATGGATTGATTTATTTT-AAATA---ATTTA-TTA
* * * *
179895 TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
1 GTA-TGGA-TTG-AT--TTA------TTTTAAATAATTTATTA
179938 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
179970 GTATGTATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
179992 ATATGGATTG
Statistics
Matches: 193, Mismatches: 13, Indels: 72
0.69 0.05 0.26
Matches are distributed among these distances:
22 27 0.14
23 8 0.04
25 2 0.01
26 6 0.03
28 6 0.03
29 2 0.01
31 8 0.04
32 84 0.44
33 5 0.03
36 4 0.02
37 5 0.03
38 4 0.02
39 3 0.02
40 4 0.02
41 3 0.02
42 4 0.02
43 5 0.03
44 4 0.02
47 5 0.03
48 4 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:179784 original size:54 final size:54
Alignment explanation
Indices: 179719--180023 Score: 426
Period size: 54 Copynumber: 5.6 Consensus size: 54
179709 ATTGTAGTTG
*
179719 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
179773 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
179827 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
179881 TATGGATTAATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A
*
179938 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAA
1 -TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
179993 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
180024 TTGTAGTTGT
Statistics
Matches: 227, Mismatches: 6, Indels: 36
0.84 0.02 0.13
Matches are distributed among these distances:
48 18 0.08
49 5 0.02
50 2 0.01
52 5 0.02
54 151 0.67
55 2 0.01
57 2 0.01
58 13 0.06
60 5 0.02
62 2 0.01
63 5 0.02
64 17 0.07
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:179830 original size:22 final size:22
Alignment explanation
Indices: 179805--179847 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
179795 AATTTATTAG
179805 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
179827 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
179848 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:179987 original size:22 final size:22
Alignment explanation
Indices: 179971--180013 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
179961 AATTTATTAG
*
179971 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
179993 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
180014 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:179992 original size:112 final size:104
Alignment explanation
Indices: 179718--180008 Score: 383
Period size: 112 Copynumber: 2.7 Consensus size: 104
179708 TATTGTAGTT
179718 GTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTGA
*
179783 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
65 TTTA--TT-AAT-ATGTATTAGTATGGATTGATTTATTTTAAAA
*
179827 -TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTGA
179891 TTTATT-AT-TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTA
65 TTTATTAATATGTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A
179938 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTGA
180003 TTTATT
65 TTTATT
180009 TTAAATAATT
Statistics
Matches: 166, Mismatches: 4, Indels: 21
0.87 0.02 0.11
Matches are distributed among these distances:
102 18 0.11
103 5 0.03
104 2 0.01
106 5 0.03
108 66 0.40
109 1 0.01
111 2 0.01
112 67 0.40
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (104 bp):
GTATGGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAAAATATGGATTGAT
TTATTAATATGTATTAGTATGGATTGATTTATTTTAAAA
Found at i:180073 original size:31 final size:31
Alignment explanation
Indices: 180038--180096 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
180028 AGTTGTATGG
* *
180038 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
180069 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
180097 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:182776 original size:42 final size:43
Alignment explanation
Indices: 182717--182801 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 43
182707 CATTTCTAAC
182717 AACGAAAATCTTATATGTATGTATGTA-TTAGGTACATACCTG
1 AACGAAAATCTTATATGTATGTATGTATTTAGGTACATACCTG
*
182759 AACGAAAATCTTATATGTATGTATGTATTTAGGTACGTACCTG
1 AACGAAAATCTTATATGTATGTATGTATTTAGGTACATACCTG
182802 GATCATTCGA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 27 0.66
43 14 0.34
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (43 bp):
AACGAAAATCTTATATGTATGTATGTATTTAGGTACATACCTG
Found at i:186926 original size:60 final size:60
Alignment explanation
Indices: 186821--186933 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
186811 TCGAGGTTTA
* *
186821 AATATAAAATATTTCAAAGATTTAGGGATTAAGCTAGAATAAGATCATAATTTAAGAATT
1 AATATAAAATATTTCAAAGATTTAGGGATTAAACTAAAATAAGATCATAATTTAAGAATT
** * * *
186881 AATATAAAATATTT-TGAGATTTTGGGATTAAATTAAAATTTAGATCATAATTT
1 AATATAAAATATTTCAAAGATTTAGGGATTAAACTAAAA-TAAGATCATAATTT
186934 TATGATATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 18 0.40
60 27 0.60
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (60 bp):
AATATAAAATATTTCAAAGATTTAGGGATTAAACTAAAATAAGATCATAATTTAAGAATT
Found at i:209385 original size:101 final size:98
Alignment explanation
Indices: 209259--209610 Score: 330
Period size: 100 Copynumber: 3.5 Consensus size: 98
209249 GTACAGCTAA
* * * *
209259 AATCGAATTCAGCAAAGTAAAGTATTGTTGACGCCTAAGATTAAACAATTAATAGGAGAAAAAAT
1 AATCGAATTCA-CTAAGTAAAGTATTGTCGATGCCAAAGATTAAACAATTAATAGGAGAAAAAAT
* *
209324 TATATATATTCATACAAAGAATTAAAGAAAAATTTC
65 TATATATA-TCATA-AAAGAATTAAAGATAAATTTG
* * * ** * * * * * *
209360 AATCGAATTCTACTTAGTAAAGTATTGCCGATACTTATGACTATACAACTAGTCA-GAAAAAAAA
1 AATCGAATTC-ACTAAGTAAAGTATTGTCGATGCCAAAGATTAAACAATTAAT-AGGAGAAAAAA
* * * *
209424 TTATATATAACAGAAAAGAACTAAAGGTTAAATTTG
64 TTATATATATCATAAAAGAATTAAA-GATAAATTTG
* * * * *
209460 AATCGGATTCAGCGAAGTGAAGTATTGTCGATGCCAAATATTAAACAATTAATTAGAAGAAAAAA
1 AATCGAATTCA-CTAAGTAAAGTATTGTCGATGCCAAAGATTAAACAATTAA-TAGGAGAAAAAA
* * *
209525 TCATATACAT-ATATAAAGAATTAAAGCTAAATTTG
64 TTATATATATCATA-AAAGAATTAAAGATAAATTTG
*
209560 AATCGAATTCAACTAAGTAAAGTATTGTTGATGCCAAAGATTAAACAATTA
1 AATCGAATTC-ACTAAGTAAAGTATTGTCGATGCCAAAGATTAAACAATTA
209611 GTTAGAACAA
Statistics
Matches: 197, Mismatches: 46, Indels: 17
0.76 0.18 0.07
Matches are distributed among these distances:
99 11 0.06
100 102 0.52
101 82 0.42
102 2 0.01
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (98 bp):
AATCGAATTCACTAAGTAAAGTATTGTCGATGCCAAAGATTAAACAATTAATAGGAGAAAAAATT
ATATATATCATAAAAGAATTAAAGATAAATTTG
Found at i:209625 original size:200 final size:201
Alignment explanation
Indices: 209259--209625 Score: 468
Period size: 200 Copynumber: 1.8 Consensus size: 201
209249 GTACAGCTAA
* * *
209259 AATCGAATTCAGCAAAGTAAAGTATTGTTGACGCCTAAGATTAAACAATTAATAGGAGAAAAAAT
1 AATCGAATTCAGCAAAGTAAAGTATTGTCGACGCCAAAGATTAAACAATTAATAGAAGAAAAAAT
* * * *
209324 TATATATATTCATACAAAGAATTAAAGAAAAATTTCAATCGAATTCTACTTAGTAAAGTATTGCC
66 CATATACATTCATACAAAGAATTAAAGAAAAATTTCAATCGAATTCAACTAAGTAAAGTATTGCC
** * *
209389 GATACTTATGACTATACAACTAGTCAGAAAAAAAATTATATATAACAGAAAAGAACTAAAGGTTA
131 GATACCAAAGACTAAACAACTAGTCAGAAAAAAAATTATATATAACAGAAAAGAACTAAAGGTTA
209454 AATTTG
196 AATTTG
* * * * *
209460 AATCGGATTCAGCGAAGTGAAGTATTGTCGATGCCAAATATTAAACAATTAATTAGAAGAAAAAA
1 AATCGAATTCAGCAAAGTAAAGTATTGTCGACGCCAAAGATTAAACAATTAA-TAGAAGAAAAAA
* ** * *
209525 TCATATACA-T-ATATAAAGAATTAAAGCTAAATTTGAATCGAATTCAACTAAGTAAAGTATTGT
65 TCATATACATTCATACAAAGAATTAAAGAAAAATTTCAATCGAATTCAACTAAGTAAAGTATTGC
* * * * * *
209588 TGATGCCAAAGATTAAACAATTAGTTAGAACAAAAATT
130 CGATACCAAAGACTAAACAACTAGTCAGAAAAAAAATT
209626 GTACAAAAAA
Statistics
Matches: 138, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
200 74 0.54
201 46 0.33
202 18 0.13
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (201 bp):
AATCGAATTCAGCAAAGTAAAGTATTGTCGACGCCAAAGATTAAACAATTAATAGAAGAAAAAAT
CATATACATTCATACAAAGAATTAAAGAAAAATTTCAATCGAATTCAACTAAGTAAAGTATTGCC
GATACCAAAGACTAAACAACTAGTCAGAAAAAAAATTATATATAACAGAAAAGAACTAAAGGTTA
AATTTG
Found at i:209662 original size:200 final size:201
Alignment explanation
Indices: 209259--209684 Score: 464
Period size: 200 Copynumber: 2.1 Consensus size: 201
209249 GTACAGCTAA
* * * * *
209259 AATCGAATTCAGCAAAGTAAAGTATTGTTGACGCCTAAGATTAAACAATTAATAGGAGAAAAAAT
1 AATCGAATTCAGCGAAGTGAAGTATTGTCGACGCCAAAGATTAAACAATTAATAGAAGAAAAAAT
* * * *
209324 TATATATATTCATACAAAGAATTAAAGAAAAATTTCAATCGAATTCTACTTAGTAAAGTATTGCC
66 CATATACATTCATACAAAGAATTAAAGAAAAATTTCAATCGAATTCAACTAAGTAAAGTATTGCC
** * * * * * *
209389 GATACTTATGACTATACAACTAGTCAGAAAAAAAATTATATATAACAGAAAAGAACTAAAGGTTA
131 GATACCAAAGACTAAACAACTAGTCAGAAAAAAAATTATACAAAAAAGAAAAGAACTAAAGATTA
209454 AATTTG
196 AATTTG
* * *
209460 AATCGGATTCAGCGAAGTGAAGTATTGTCGATGCCAAATATTAAACAATTAATTAGAAGAAAAAA
1 AATCGAATTCAGCGAAGTGAAGTATTGTCGACGCCAAAGATTAAACAATTAA-TAGAAGAAAAAA
* ** * *
209525 TCATATACA-T-ATATAAAGAATTAAAGCTAAATTTGAATCGAATTCAACTAAGTAAAGTATTGT
65 TCATATACATTCATACAAAGAATTAAAGAAAAATTTCAATCGAATTCAACTAAGTAAAGTATTGC
* * * * * * * **
209588 TGATGCCAAAGATTAAACAATTAGTTAGAACAAAAATTGTACAAAAAAGAAAATCA-TAAA-ATA
130 CGATACCAAAGACTAAACAACTAGTCAGAAAAAAAATTATACAAAAAAGAAAAGAACTAAAGAT-
209651 TAAATTTTG
194 TAAA-TTTG
* * *
209660 AATCCAATTCAACGAAGTGGAGTAT
1 AATCGAATTCAGCGAAGTGAAGTAT
209685 GAAGTTGAAC
Statistics
Matches: 184, Mismatches: 38, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
198 1 0.01
199 8 0.04
200 111 0.60
201 46 0.25
202 18 0.10
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.28
Consensus pattern (201 bp):
AATCGAATTCAGCGAAGTGAAGTATTGTCGACGCCAAAGATTAAACAATTAATAGAAGAAAAAAT
CATATACATTCATACAAAGAATTAAAGAAAAATTTCAATCGAATTCAACTAAGTAAAGTATTGCC
GATACCAAAGACTAAACAACTAGTCAGAAAAAAAATTATACAAAAAAGAAAAGAACTAAAGATTA
AATTTG
Found at i:209663 original size:100 final size:99
Alignment explanation
Indices: 209184--209623 Score: 315
Period size: 100 Copynumber: 4.4 Consensus size: 99
209174 CTTTTCCTAT
* * * *
209184 GTATTGTTGATGCCTAAGATTTAAACAA-TAATTATATAAAAAAAATCATATACATATAT-AAGA
1 GTATTGTCGATGCCAAAGA-TTAAACAATTAATTAGA-AGAAAAAAT-ATATACATATATAAAG-
* * * * *
209247 AAGTACAGCT-AA----AATCGAATTCAGCAAAGTAAA
62 AATTAAAGATAAATTTGAATCGAATTCAACGAAGTAAA
* * * * * *
209280 GTATTGTTGACGCCTAAGATTAAACAATTAA-TAGGAGAAAAAATTATATATATTCATACAAAGA
1 GTATTGTCGATGCCAAAGATTAAACAATTAATTAGAAGAAAAAA-TATATACA-T-ATATAAAGA
* * * **
209344 ATTAAAGAAAAATTTCAATCGAATTCTACTTAGTAAA
63 ATTAAAGATAAATTTGAATCGAATTCAACGAAGTAAA
* * ** * * * * * * * * *
209381 GTATTGCCGATACTTATGACTATACAACTAGTCAGAA-AAAAAAT-TATATATAACAGAAAAGAA
1 GTATTGTCGATGCCAAAGATTAAACAATTAATTAGAAGAAAAAATATATACAT-ATA-TAAAGAA
* * * * *
209444 CTAAAGGTTAAATTTGAATCGGATTCAGCGAAGTGAA
64 TTAAA-GATAAATTTGAATCGAATTCAACGAAGTAAA
*
209481 GTATTGTCGATGCCAAATATTAAACAATTAATTAGAAGAAAAAATCATATACATATATAAAGAAT
1 GTATTGTCGATGCCAAAGATTAAACAATTAATTAGAAGAAAAAAT-ATATACATATATAAAGAAT
* *
209546 TAAAGCTAAATTTGAATCGAATTCAACTAAGTAAA
65 TAAAGATAAATTTGAATCGAATTCAACGAAGTAAA
* * *
209581 GTATTGTTGATGCCAAAGATTAAACAATTAGTTAGAACAAAAA
1 GTATTGTCGATGCCAAAGATTAAACAATTAATTAGAAGAAAAA
209624 TTGTACAAAA
Statistics
Matches: 265, Mismatches: 63, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
94 13 0.05
95 12 0.05
96 30 0.11
97 5 0.02
98 3 0.01
99 16 0.06
100 114 0.43
101 61 0.23
102 5 0.02
103 6 0.02
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.28
Consensus pattern (99 bp):
GTATTGTCGATGCCAAAGATTAAACAATTAATTAGAAGAAAAAATATATACATATATAAAGAATT
AAAGATAAATTTGAATCGAATTCAACGAAGTAAA
Found at i:210210 original size:21 final size:20
Alignment explanation
Indices: 210175--210223 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
210165 TGATGTTATT
*
210175 TTAATTTATTGTTATA-ATAA
1 TTAATTTATTATTATAGA-AA
210195 TTAATCTTATTATTATAGAAA
1 TTAAT-TTATTATTATAGAAA
210216 TTAATTTA
1 TTAATTTA
210224 AACATCAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 17 0.65
22 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (20 bp):
TTAATTTATTATTATAGAAA
Found at i:212405 original size:16 final size:16
Alignment explanation
Indices: 212386--212417 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
212376 TGATTTTAGC
212386 TATCCGAAATTTCGGA
1 TATCCGAAATTTCGGA
*
212402 TATCCGAATTTTCGGA
1 TATCCGAAATTTCGGA
212418 GCGGATATCC
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:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (16 bp):
TATCCGAAATTTCGGA
Done.