Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 57 of 143
Found at i:18303062 original size:587 final size:588
Alignment explanation
Indices: 18301878--18303063 Score: 1410
Period size: 587 Copynumber: 2.0 Consensus size: 588
18301868 TATTTACATG
* * *
18301878 AGAATTGTTTTTCTCTGGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTATGAGTTCTTTT
1 AGAATTGTTTCTCTCTGGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTTACGAGTTCTTTT
* * * * * * *
18301943 GTAACTTTGGTTCCTTAAAGTATTCAAAGACGATCAGTTCCTTTGAGCAATTTTTCGATCATTCC
66 ATAACTTCGGTTACTGAAAGTATTCAAAGACGATCAGTTCCTTCGACCAATTTTTCGAACATTCC
* * *
18302008 ATGCTCGGGAAATTGTATCATTTGGTCTAAATAGTTTGTTATTTTTTAAACAACTTTTGGCCTTT
131 ATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGCCTTT
* * * *
18302073 GAATAAAAACTTATTTACGTGAGAATTGTTTCTTTCTTGGTTCTAGGATGAACTTTCGAACTTCT
196 GAATAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTAGGACGAACTTCCAAACTTCT
* * * * * *
18302138 CAAACATTTACGTGTTCTTTTAGAACTTTAGTTCCTGAGATTATTCAAGACGCTCCCTTCCTTCG
261 CAAACATTTACGAGTTCTTTTAGAACTTGAGTTCCTAAGAGTATTCAAGACGATCCATTCCTTCG
* **
18302203 ACCAATATTCCGAACATTCTGTGCTCAGGAAATCGTATCATTTGGCCAAATTGTTTGCCACTTTG
326 ACCAATATTCCGAACATTCTGTGCTCAGGAAATCGCATCATTTGGCCAAAAAGTTTGCCACTTTG
* * * * * *
18302268 TAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTATTTTTCTCTTGGTTCTT
391 TAAAAAAATTTTGGTCTTTGAATCAAAAACTTATTTACATGAGAATGATTTCTCTCTTGCTTCTT
* * *
18302333 GGACGAAGTTACGAACTAGCAAAACTTTTATGAGTTCTTATATGACTTCAGTTCCTTAAAGTGTT
456 GGACGAACTTACGAACTAGCAAAACTTTTACGAGTTCTTATATGACTTCAGTTCCTTAAAGTATT
** * * * *
18302398 CAAAGACGATCCATTCCTTTGAGCAATTTTCCAAACATTCCATGCTCGAGAAAAAGAATATTTAT
521 CAAAGACGATCCATTCCTTCAACCAATTTTCCAAACATTCCATACTCGAGAAAAACAATATTTAG
*
18302463 GTG
586 GTC
* * * *
18302466 GGAATTGTTTCTCTCTTGGTTCTTGGACGAAGTTCTGAACTTGTCAAACATTTACGAGTTCTTTT
1 AGAATTGTTTCTCTCTGGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTTACGAGTTCTTTT
* * *
18302531 ATAACTTCGGTTACTGAGAGTATTC-ATGACGATCCA-TTCCTTCGACCAA-TTTTCTTAACATT
66 ATAACTTCGGTTACTGAAAGTATTCAAAGACGAT-CAGTTCCTTCGACCAATTTTTC-GAACATT
* * * * * **
18302593 CCATGCTTGGGAAATTGCATCATTTGGTC-AAATTGTTTGTCATTTTGTAAACTAGTTTTTGTTT
129 CCATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGCCT
* *
18302657 TTGAATTAAAAACTTATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACT
194 TTGAA-TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTAGGACGAACTTCCAAACT
* * * *
18302722 TGTCAAACATTTACGAGTTCTTTTATAAGTTCGA-TTCGTAAGAGTATTCAAGACGATCCATTCC
258 TCTCAAACATTTACGAGTTCTTTTAGAACTT-GAGTTCCTAAGAGTATTCAAGACGATCCATTCC
* * * * *
18302786 TTCGACCAATTTTTCGAACATTCTGTGCTC-GAGAATTCGCATCATTTGGTCTAAAAAGTTTGTC
322 TTCGACCAATATTCCGAACATTCTGTGCTCAG-GAAATCGCATCATTTGG-CCAAAAAGTTTGCC
* * *
18302850 A-TTCTGTAAAAAAATTTTTGTCTTTGAATCAAAAACTTATTTACGTGAGGAATG-GTTCTCTCC
385 ACTT-TGTAAAAAAATTTTGGTCTTTGAATCAAAAACTTATTTACATGA-GAATGATTTCTCT-C
* ** * **
18302913 TT-CTTCTTGGACGAACTTCCGAACTAGTCAAATTTTTTACGAGTTCTTTTAT-AGCTTTGGTTC
447 TTGCTTCTTGGACGAACTTACGAACTAG-CAAAACTTTTACGAGTTCTTATATGA-CTTCAGTTC
** * * * *
18302976 CTTAAAGTATTC-AAGGTGATCCATTCGTTCAACCAATTTTTCAAACATTTCATACTCG-GTAAA
510 CTTAAAGTATTCAAAGACGATCCATTCCTTCAACCAATTTTCCAAACATTCCATACTCGAGAAAA
*
18303039 TCACATCATTT-GGTC
575 ACA-AT-ATTTAGGTC
18303054 AG-ATTGTTTC
1 AGAATTGTTTC
18303064 ACATTTTGTA
Statistics
Matches: 501, Mismatches: 84, Indels: 27
0.82 0.14 0.04
Matches are distributed among these distances:
586 38 0.08
587 213 0.43
588 201 0.40
589 49 0.10
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (588 bp):
AGAATTGTTTCTCTCTGGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTTACGAGTTCTTTT
ATAACTTCGGTTACTGAAAGTATTCAAAGACGATCAGTTCCTTCGACCAATTTTTCGAACATTCC
ATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGCCTTT
GAATAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTAGGACGAACTTCCAAACTTCT
CAAACATTTACGAGTTCTTTTAGAACTTGAGTTCCTAAGAGTATTCAAGACGATCCATTCCTTCG
ACCAATATTCCGAACATTCTGTGCTCAGGAAATCGCATCATTTGGCCAAAAAGTTTGCCACTTTG
TAAAAAAATTTTGGTCTTTGAATCAAAAACTTATTTACATGAGAATGATTTCTCTCTTGCTTCTT
GGACGAACTTACGAACTAGCAAAACTTTTACGAGTTCTTATATGACTTCAGTTCCTTAAAGTATT
CAAAGACGATCCATTCCTTCAACCAATTTTCCAAACATTCCATACTCGAGAAAAACAATATTTAG
GTC
Found at i:18303390 original size:215 final size:215
Alignment explanation
Indices: 18302456--18303400 Score: 928
Period size: 215 Copynumber: 4.4 Consensus size: 215
18302446 AGAAAAAGAA
* * * *
18302456 TATTTATGTGGGAATTGTTTCTCTCTTGGTTCTTGGACGAAGTTCTGAACTTGTCAAACATTTAC
1 TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTTAC
* * * * *
18302521 GAGTTCTTTTATAACTTCGGTTACTGAGAGTATTCATGACGATCCATTCCTTCGACCAA-TTTTC
66 GAGTTCTTTTATAACTTCGATTACTTAAAGTATTCAAGACGATCCATTCCTTCAACCAATTTTTC
* * * * * ** * **
18302585 TTAACATTCCATGCTTGGGAAATTGCATCATTTGGTCAAATTGTTTGTCATTTTGTAAACTAGTT
131 -GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCAAATAGTCAGTCATCTTGTAAAC-AACT
18302650 TTTGTT-TTTGAATTAAAAACT
194 TTTGTTCTTTGAATTAAAAACT
* *
18302671 TATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACATTTAC
1 TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTTAC
* * *
18302736 GAGTTCTTTTATAAGTTCGATT-CGTAAGAGTATTCAAGACGATCCATTCCTTCGACCAATTTTT
66 GAGTTCTTTTATAACTTCGATTACTTAA-AGTATTCAAGACGATCCATTCCTTCAACCAATTTTT
** * * ** * *
18302800 CGAACATTCTGTGCTCGAGAATTCGCATCATTTGGTCTAAAAAGTTTGTCAT-TCTGTAAAAAAA
130 CGAACATTCCATGCTCGAGAAATCGCATCATTTGGTC-AAATAGTCAGTCATCT-TGTAAACAAC
*
18302864 TTTT-TGTCTTTGAATCAAAAACT
193 TTTTGT-TCTTTGAATTAAAAACT
* * * **
18302887 TATTTACGTGAGGAA-TGGTTCTCTCCTT-CTTCTTGGACGAACTTCCGAACTAGTCAAATTTTT
1 TATTTACGTGA-GAATTGTTTCTCT-CTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA-CATT
* * * * ** *
18302950 TACGAGTTCTTTTATAGCTTTGGTTCCTTAAAGTATTCAAGGTGATCCATTCGTTCAACCAATTT
63 TACGAGTTCTTTTATAACTTCGATTACTTAAAGTATTCAAGACGATCCATTCCTTCAACCAATTT
* * * * * * *
18303015 TTCAAACATTTCATACTCG-GTAAATCACATCATTTGGTCAGATTGTTTCA--CATTTTGTAAAC
128 TTCGAACATTCCATGCTCGAG-AAATCGCATCATTTGGTCAAATAG--TCAGTCATCTTGTAAAC
*
18303077 AACTTTTGGTCTTTGAATTAAAAACT
190 AACTTTTGTTCTTTGAATTAAAAACT
*** * * * * * *
18303103 TATTTTTATGAGAATTGTTTTTCTGTGGGTTCTTAGATGAACTTTCGAACTTGTCAAAC-TTTAA
1 TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTT-A
* * *
18303167 TGAGTTCTTTTATAACTTCGATTACTTAAAGTATTCAAAGACGATCCATTCCTTTAAGCAATTTT
65 CGAGTTCTTTTATAACTTCGATTACTTAAAGTATTC-AAGACGATCCATTCCTTCAACCAATTTT
* * * * *
18303232 TCGATCATTCCATGCTCGAAAAATCGCATCATTTGGTCTAAATAGGCAGTTAGCTT-TAAACAAC
129 TCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTC-AAATAGTCAGTCATCTTGTAAACAAC
*
18303296 TTTTGTTCTTTGAA-AAAAAACT
193 TTTTGTTCTTTGAATTAAAAACT
* * * * * * *
18303318 TATTTACGTGAGAATTATTTCTCTCTTGGTT-TTAGGACGAACCTACGAACCTGTTAACCGTTTA
1 TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT-GGACGAACTTCCGAACTTGTCAAACATTTA
* *
18303382 CAAGTTCTTTTAGAACTTC
65 CGAGTTCTTTTATAACTTC
18303401 TGTTCCTAAG
Statistics
Matches: 594, Mismatches: 111, Indels: 50
0.79 0.15 0.07
Matches are distributed among these distances:
214 8 0.01
215 249 0.42
216 235 0.40
217 97 0.16
218 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (215 bp):
TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTTAC
GAGTTCTTTTATAACTTCGATTACTTAAAGTATTCAAGACGATCCATTCCTTCAACCAATTTTTC
GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCAAATAGTCAGTCATCTTGTAAACAACTTT
TGTTCTTTGAATTAAAAACT
Found at i:18304007 original size:217 final size:215
Alignment explanation
Indices: 18303439--18304022 Score: 714
Period size: 215 Copynumber: 2.7 Consensus size: 215
18303429 TTCCGTGCTT
*
18303439 GGGAAATCGCATCATTTGGTC-AAATTGTTTGTCATTTTGTAAACAACTTTTTGTCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* * * * *
18303503 AAAACTTATTTACATGAGAATTGTTTGTCTCTTGATTCTTGGATGAACTTCCGAACTTGTCAACC
66 AAAACTTATTTACATGAGAATTGTTTCTCTCTTGATTCTTGGACGAAGTT-CGAACTAGTCAAAC
* * * * **
18303568 ATTTACGAGTTCTTTTACAACTTCGGTTCTTAAGAGCATTTAAGATGATCCATTCTTTTGACCAA
130 ATTTATGAGTTCTTTTATAACTTAGGTTCTTAAGAGCATTAAAGACAATCCATTCTTTTGACCAA
* *
18303633 TTTTCCAAACATTCCAAGCTT
195 TTTTCCAAACATTCCAAGATC
* * * * *
18303654 GGGAAATAGCATCATTTGGT-TAGATTGTTTGCCATTTAGTAAACAGCTTTTGGTCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* * * * *
18303718 AAAACTTATTTACATGAGACTTGTTTTTCTCTT-AGTTCCTGGACTAAGTTACGAACTAGTTAAA
66 AAAACTTATTTACATGAGAATTGTTTCTCTCTTGA-TTCTTGGACGAAGTT-CGAACTAGTCAAA
* * * *
18303782 CTTTTATGAGTTCTTATATAACTTATGTTCCTTAA-AGTATTCAAAGACAATCCATTAC-TTTGA
129 CATTTATGAGTTCTTTTATAACTTAGGTT-CTTAAGAGCATT-AAAGACAATCCATT-CTTTTGA
* * *
18303845 GCGATTTTCCAAACATTCCATGATC
191 CCAATTTTCCAAACATTCCAAGATC
* * *
18303870 GGGAAATCGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAATTA
1 GGGAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* *
18303935 AAAACTT-TTT-TATGTAGGAATTGTTTCTCTCTTGATTCTTGGACGAAGTTCTAAACTAGTCAA
66 AAAACTTATTTACATG-A-GAATTGTTTCTCTCTTGATTCTTGGACGAAGTTC-GAACTAGTCAA
18303998 ACATTTATGAGTTCTTTTATAACTT
128 ACATTTATGAGTTCTTTTATAACTT
18304023 TGATTACTGG
Statistics
Matches: 311, Mismatches: 48, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
214 1 0.00
215 140 0.45
216 64 0.21
217 105 0.34
218 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.41
Consensus pattern (215 bp):
GGGAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
AAAACTTATTTACATGAGAATTGTTTCTCTCTTGATTCTTGGACGAAGTTCGAACTAGTCAAACA
TTTATGAGTTCTTTTATAACTTAGGTTCTTAAGAGCATTAAAGACAATCCATTCTTTTGACCAAT
TTTCCAAACATTCCAAGATC
Found at i:18304797 original size:74 final size:74
Alignment explanation
Indices: 18304707--18304851 Score: 254
Period size: 74 Copynumber: 2.0 Consensus size: 74
18304697 CAAAATGAGA
* *
18304707 GTGAACAACCATCATTCATCATTCATAAATGAATGTGTTGATTCATTTAGAAACTCCTGAATGAA
1 GTGAACAACCATCATTCATCATTCATAAATAAATGTGTTGATTCATTTAAAAACTCCTGAATGAA
18304772 ACATTGAAT
66 ACATTGAAT
* *
18304781 GTGAACAGCCATCATTCATCATTCATAAATAAATGTGTTGATTCATTTAAAAACTCTTGAATGAA
1 GTGAACAACCATCATTCATCATTCATAAATAAATGTGTTGATTCATTTAAAAACTCCTGAATGAA
18304846 ACATTG
66 ACATTG
18304852 TATCCCTCCA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (74 bp):
GTGAACAACCATCATTCATCATTCATAAATAAATGTGTTGATTCATTTAAAAACTCCTGAATGAA
ACATTGAAT
Found at i:18308052 original size:51 final size:51
Alignment explanation
Indices: 18307989--18308126 Score: 156
Period size: 50 Copynumber: 2.7 Consensus size: 51
18307979 TGCATGACTT
*
18307989 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGAAAG
1 GATTT-ATGATGCAAACTTTAACTAACATGAGAGTTACATAATGCATGAAAG
* * ** *
18308041 GATTTATGATGCATA-TTTAACTAACATGTA-AGTTACTTAATGCATGTCAT
1 GATTTATGATGCAAACTTTAACTAACATG-AGAGTTACATAATGCATGAAAG
* *
18308091 TATTTATGATGCAAAC-TTAACTGATCATGAGAGTTA
1 GATTTATGATGCAAACTTTAACT-AACATGAGAGTTA
18308127 ATGGATGTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
50 49 0.67
51 19 0.26
52 5 0.07
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (51 bp):
GATTTATGATGCAAACTTTAACTAACATGAGAGTTACATAATGCATGAAAG
Found at i:18308341 original size:17 final size:17
Alignment explanation
Indices: 18308321--18308353 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18308311 AAAACACTTA
18308321 TTAAACTAAAA-TAAAAC
1 TTAAA-TAAAATTAAAAC
18308338 TTAAATAAAATTAAAA
1 TTAAATAAAATTAAAA
18308354 AGTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAATAAAATTAAAAC
Found at i:18309756 original size:32 final size:32
Alignment explanation
Indices: 18309704--18309766 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
18309694 GCCATCCATA
* * *
18309704 CATGTACCTGAAATATATTAATCAGCTAATTG
1 CATGTACCTAAAACACATTAATCAGCTAATTG
**
18309736 CATGTACCTAAAACACATTAATTTGCTAATT
1 CATGTACCTAAAACACATTAATCAGCTAATT
18309767 AATTTCAGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (32 bp):
CATGTACCTAAAACACATTAATCAGCTAATTG
Found at i:18314274 original size:18 final size:18
Alignment explanation
Indices: 18314251--18314294 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
18314241 TTTTTCCTTT
18314251 TTTTTTTCAA-ACTTTGAA
1 TTTTTTTCAATACTTTG-A
*
18314269 TTTTTTTCAATATTTTGA
1 TTTTTTTCAATACTTTGA
18314287 TTTTTTTC
1 TTTTTTTC
18314295 TTTTTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTTTTCAATACTTTGA
Found at i:18314274 original size:19 final size:19
Alignment explanation
Indices: 18314250--18314293 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
18314240 TTTTTTCCTT
18314250 TTTTTTTTCAA-ACTTTGA
1 TTTTTTTTCAATACTTTGA
* *
18314268 ATTTTTTTCAATATTTTGA
1 TTTTTTTTCAATACTTTGA
18314287 TTTTTTT
1 TTTTTTT
18314294 CTTTTTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTTTTTCAATACTTTGA
Found at i:18317839 original size:18 final size:18
Alignment explanation
Indices: 18317816--18317852 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18317806 TCTTAGGAGC
*
18317816 ATTCTGTCCCCATTTAGA
1 ATTCTGACCCCATTTAGA
*
18317834 ATTCTGACTCCATTTAGA
1 ATTCTGACCCCATTTAGA
18317852 A
1 A
18317853 GTAGAAGAGT
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:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (18 bp):
ATTCTGACCCCATTTAGA
Found at i:18320436 original size:24 final size:24
Alignment explanation
Indices: 18320404--18320459 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
18320394 TGTATGGGTA
*
18320404 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCAGTTTCATTT
*
18320428 TCTTCTTGTTTTTCAGTTTCTTTT
1 TCTTCTTGTTTTTCAGTTTCATTT
*
18320452 TCCTCTTG
1 TCTTCTTG
18320460 AGAACTCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.05, C:0.20, G:0.07, T:0.68
Consensus pattern (24 bp):
TCTTCTTGTTTTTCAGTTTCATTT
Found at i:18323187 original size:213 final size:210
Alignment explanation
Indices: 18322789--18323958 Score: 1155
Period size: 214 Copynumber: 5.5 Consensus size: 210
18322779 TGAGGAATTG
* * * *
18322789 AAGTTATGAAAGAAC-CGTAAATGTTTGACAAGTTCAAAAGTTCGTCTAAGAACTAAGAGAG-AA
1 AAGTTATAAAAGAACTCATAAA-GTTTGACAAGTTCAAAAGTTCGTCCAAGAACCAAGAGAGAAA
* * *
18322852 CAATTCTCACGTAAATAAGTTTTT-ATTTAAAGACCAAAAGTTTTTTGAAAAAATGACAAACT-A
65 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC-AAAGTTGTTT-ACAAAATGACAAA-TAA
* * * * * *
18322915 TTTAGACCTAATGATGCAATTTCCCAAGCTTGAAATGTTTGGAAAATTGCTCAAAGGAATGGGTC
127 TTT-GACCAAATGATGCGATTT-CCAAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATC
*
18322980 GTCTTTAAATACTTAAAGGACCC
190 GTC-TTGAATACTT-AAGGACCC
* * * *
18323003 AAGTTATAAAAGTACTCATAAAAGTTTTGACTAGTTCATAAGTT-GTCCAAGAACCAAAAGAGAA
1 AAGTTATAAAAGAACTCAT-AAAG-TTTGACAAGTTCAAAAGTTCGTCCAAGAACCAAGAGAGAA
* *
18323067 ATAATTCTCACATAAATAAG-TTTTAATTCAAAGACCAAAGTTGTTTACAAAATGACAAATAATT
64 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAGTTGTTTACAAAATGACAAATAATT
* * * * *
18323131 TCACGAAATGATGCAATTTCTCGAGCATGGAATGTTTGGAAAATTGGTCGAAGGAATGGATCGTC
129 TGACCAAATGATGCGATTTC-CAAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATCGTC
* * *
18323196 ATGAATACCTTAAGGAATCA
193 TTGAATA-CTTAAGG-ACCC
** * ***
18323216 AAGTTATAAAAAGAACTCATTAACCTTTGATAAGTTTTGAAGTTCGTCCAAGAA-CAAGAGAGAA
1 AAGTTAT-AAAAGAACTCA-TAAAGTTTGACAAGTTCAAAAGTTCGTCCAAGAACCAAGAGAGAA
* * * *
18323280 ACAATTCTCACGTAAATAAGTTTTTTTAATTTAAAGACAAAAGGTTGTTTACAAAATAACAAACA
64 ACAATTCTCACGTAAATAAG--TTTTTAATTCAAAGACCAAA-GTTGTTTACAAAATGACAAATA
* * * * * * *
18323345 ATTTAACCAAATGATACGATTTCCTAAGGATGGAATGTTCGG-AAATAGGTCGAAGGAATAGATC
126 ATTTGACCAAATGATGCGATTTCC-AAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATC
* *
18323409 ATCTTGAATACTTCAAGGAACCG
190 GTCTTGAATACTT-AAGG-ACCC
*** *
18323432 AAGTTATAAAAGAACTCATTAAAGTTTGACAAGTTTGGAAGTTTGTCCAAGAACCAAGAGAGAAA
1 AAGTTATAAAAGAACTCA-TAAAGTTTGACAAGTTCAAAAGTTCGTCCAAGAACCAAGAGAGAAA
* * * * * * *
18323497 CAATTCTCACATGAATAAGTTTTTAGTTCATAGACCAATAGTTGTATACAAAAAGACAAATAGTT
65 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAA-AGTTGTTTACAAAATGACAAATAATT
* * ** * * * *
18323562 TGACCAAATGATACGA-TTCTTAAGCACAGAAT-TTTCGAAAAAATAGTTAAAGGAATGGATCGT
129 TGACCAAATGATGCGATTTC-CAAGCATGGAATGTTT-GGAAAATTGGTCAAAGGAATGGATCGT
* * *
18323625 CCTAAATACTCTTAA-GAGCCG
192 CTTGAATA--CTTAAGGA-CCC
* * * *
18323646 AAGTTATAATAGAACTCATAAATGTTTGACAAATT-GAAAGTTCGTCCAAGAACC-AGAGAAAAA
1 AAGTTATAAAAGAACTCATAAA-GTTTGACAAGTTCAAAAGTTCGTCCAAGAACCAAGAGAGAAA
* * *
18323709 CAATTCTCACGTAAATAACTTTTTAATTCAAAGACCAAAAGTTGTTTACTAAATGAC-AA-AATC
65 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC-AAAGTTGTTTACAAAATGACAAATAATT
* * **
18323772 TGACCAAATGATGTGATTTCCTGAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATTATC
129 TGACCAAATGATGCGATTTCC-AAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATCGTC
* *
18323837 TTGAATACTCTCAGGAACC
193 TTGAATACT-TAAGGACCC
* * * **
18323856 AAGTTGTAAAAGAACTCGTAATGTTTGACAAGTTCAAAAGTTAATCCAAGAACCAAGAGAGAAAC
1 AAGTTATAAAAGAACTCATAAAGTTTGACAAGTTCAAAAGTTCGTCCAAGAACCAAGAGAGAAAC
*
18323921 AATTCACACGTAAATAAGTTTTTAATTCAAAGACCAAA
66 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
18323959 TGATATGATT
Statistics
Matches: 792, Mismatches: 129, Indels: 74
0.80 0.13 0.07
Matches are distributed among these distances:
209 13 0.02
210 56 0.07
211 84 0.11
212 69 0.09
213 143 0.18
214 155 0.20
215 79 0.10
216 140 0.18
217 53 0.07
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (210 bp):
AAGTTATAAAAGAACTCATAAAGTTTGACAAGTTCAAAAGTTCGTCCAAGAACCAAGAGAGAAAC
AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAGTTGTTTACAAAATGACAAATAATTTG
ACCAAATGATGCGATTTCCAAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATCGTCTTG
AATACTTAAGGACCC
Found at i:18323480 original size:429 final size:425
Alignment explanation
Indices: 18322789--18323958 Score: 1324
Period size: 429 Copynumber: 2.7 Consensus size: 425
18322779 TGAGGAATTG
* * ** * * *
18322789 AAGTTATGAAAGAAC-CGTAAATGTTTGACAAGTTCAAAAGTTCGTCTAAGAACTAAGAGAG-AA
1 AAGTTATAAAAGAACTCATAAACCTTTGACAAATT-GAAAGTTCGTCCAAGAAC-AAGAGAGAAA
* * *
18322852 CAATTCTCACGTAAATAAGTTTTT-ATTTAAAGACCAAAAGTTTTTTGAAAAAATGACAAACTAT
64 CAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAAGTTGTTT-ACAAAATGACAAACAAT
* * * * * * * *
18322916 TTAGACCTAATGATGCAATTTCCCAAGCTTGAAATGTTTGGAAAATTGCTCAAAGGAATGGGTCG
128 TTA-ACCAAATGATGCGATTTCCTAAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATCA
* * * * * * *
18322981 TCTTTAAATACTTAAAGGACCCAAGTTATAAAAGTACTCATAAAAGTTTTGACTAGTTCATAAG-
192 TC-TTGAATACTTCAAGGAACCAAGTTATAAAAGAACTCATTAAAG-TTTGACAAGTTCAAAAGT
* *
18323045 TTGTCCAAGAACCAAAAGAGAAATAATTCTCACATAAATAAG-TTTTAATTCAAAGACCAAAGTT
255 TTGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAGTT
* * * * * ** *
18323109 GTTTACAAAATGACAAATAATTTCACGAAATGATGCAATTTCTCGAGCATGGAATGTTT-GGAAA
320 GTATACAAAAAGACAAATAATTTCACCAAATGATACAA-TTCTCAAGCACAGAAT-TTTCGAAAA
* * * * *
18323173 ATTGGTCGAAGGAATGGATCGTCATGAATAC-CTTAAGGAATCA
383 AATAGTCAAAGGAATGGATCGTCATAAATACTCTTAA-GAACCA
* * *
18323216 AAGTTATAAAAAGAACTCATTAACCTTTGATAAGTTTTG-AAGTTCGTCCAAGAACAAGAGAGAA
1 AAGTTAT-AAAAGAACTCATAAACCTTTGACAA--ATTGAAAGTTCGTCCAAGAACAAGAGAGAA
*
18323280 ACAATTCTCACGTAAATAAGTTTTTTTAATTTAAAGA-CAAAAGGTTGTTTACAAAATAACAAAC
63 ACAATTCTCACGTAAATAAG--TTTTTAATTTAAAGACCAAAA-GTTGTTTACAAAATGACAAAC
* * * * * *
18323344 AATTTAACCAAATGATACGATTTCCTAAGGATGGAATGTTCGG-AAATAGGTCGAAGGAATAGAT
125 AATTTAACCAAATGATGCGATTTCCTAAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGAT
***
18323408 CATCTTGAATACTTCAAGGAACCGAAGTTATAAAAGAACTCATTAAAGTTTGACAAGTTTGGAAG
190 CATCTTGAATACTTCAAGGAACC-AAGTTATAAAAGAACTCATTAAAGTTTGACAAGTTCAAAAG
* * *
18323473 TTTGTCCAAGAACCAAGAGAGAAACAATTCTCACATGAATAAGTTTTTAGTTCATAGACCAATAG
254 TTTGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAA-AG
* * * *
18323538 TTGTATACAAAAAGACAAATAGTTTGACCAAATGATACGATTCTTAAGCACAGAATTTTCGAAAA
318 TTGTATACAAAAAGACAAATAATTTCACCAAATGATACAATTCTCAAGCACAGAATTTTCGAAAA
* * * *
18323603 AATAGTTAAAGGAATGGATCGTCCTAAATACTCTTAAGAGCCG
383 AATAGTCAAAGGAATGGATCGTCATAAATACTCTTAAGAACCA
* ** * *
18323646 AAGTTATAATAGAACTCATAAATGTTTGACAAATTGAAAGTTCGTCCAAGAACCAGAGAAAAACA
1 AAGTTATAAAAGAACTCATAAACCTTTGACAAATTGAAAGTTCGTCCAAGAACAAGAGAGAAACA
* * * * *
18323711 ATTCTCACGTAAATAACTTTTTAATTCAAAGACCAAAAGTTGTTTACTAAATGAC-AA-AATCTG
66 ATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTTA
* * *
18323774 ACCAAATGATGTGATTTCCTGAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATTATCTT
131 ACCAAATGATGCGATTTCCTAAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATCATCTT
* * * **
18323839 GAATACTCTC-AGGAACCAAGTTGTAAAAGAACTC-GTAATGTTTGACAAGTTCAAAAGTTAATC
196 GAATACT-TCAAGGAACCAAGTTATAAAAGAACTCATTAAAGTTTGACAAGTTCAAAAGTTTGTC
* *
18323902 CAAGAACCAAGAGAGAAACAATTCACACGTAAATAAGTTTTTAATTCAAAGACCAAA
260 CAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAA
18323959 TGATATGATT
Statistics
Matches: 626, Mismatches: 98, Indels: 43
0.82 0.13 0.06
Matches are distributed among these distances:
422 1 0.00
423 73 0.12
424 52 0.08
425 39 0.06
426 31 0.05
427 15 0.02
428 85 0.14
429 150 0.24
430 96 0.15
431 69 0.11
432 15 0.02
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (425 bp):
AAGTTATAAAAGAACTCATAAACCTTTGACAAATTGAAAGTTCGTCCAAGAACAAGAGAGAAACA
ATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTTA
ACCAAATGATGCGATTTCCTAAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATCATCTT
GAATACTTCAAGGAACCAAGTTATAAAAGAACTCATTAAAGTTTGACAAGTTCAAAAGTTTGTCC
AAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAGTTGTATAC
AAAAAGACAAATAATTTCACCAAATGATACAATTCTCAAGCACAGAATTTTCGAAAAAATAGTCA
AAGGAATGGATCGTCATAAATACTCTTAAGAACCA
Found at i:18324118 original size:179 final size:177
Alignment explanation
Indices: 18323773--18324135 Score: 484
Period size: 179 Copynumber: 2.0 Consensus size: 177
18323763 GACAAAATCT
* * ** * *
18323773 GACCAAATGATGTGATTTCCTGAGCATGGAATGTTTGGAAAATTGGTCAAAGGAATGGATTATCT
1 GACCAAATGATATGATTTCCTAAGCACAGAATGTTTCGAAAATTGGTCAAAGGAATGGATCATCT
*
18323838 TGAATACTCTCAGGAACCAAGTTGTAAAAGAACTCGTAATGTTTGACAAGTTCAAAAGTTAATCC
66 TGAATACTCTCAGGAACCAAGTTATAAAAGAACTCGTAATGTTTGACAAGTTCAAAAGTTAATCC
18323903 AAGAACCAAGAGAGAAACAATTCACACGTAAATAAGTTTTTAATTCAAA
131 AAGAACCAAGAGAGAAACAATTCACACGTAAATAAGTTTTT--TTCAAA
* *
18323952 GACCAAATGATATGATTT-CTCAAGCACAGAATG-TTCGAAATATTGGT-GAAGGAATGGATCGT
1 GACCAAATGATATGATTTCCT-AAGCACAGAATGTTTCGAAA-ATTGGTCAAAGGAATGGATCAT
* *
18324014 CTTGAATACTCTTA-GAACCGAAGTTATAAAAAGAACTCGTACATGTTTGACAAGTTCGAAAGTT
64 CTTGAATACTCTCAGGAACC-AAGTTAT-AAAAGAACTCGTA-ATGTTTGACAAGTTCAAAAGTT
** * * *
18324078 CGTCCAAGAACCAAGAGGGAAATAATTCTCACGT-AATAAGTTTTTTTCAAA
126 AATCCAAGAACCAAGAGAGAAACAATTCACACGTAAATAAGTTTTTTTCAAA
18324129 GACCAAA
1 GACCAAA
18324136 ACTTGTTTAC
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
177 18 0.11
178 39 0.24
179 56 0.34
180 50 0.31
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (177 bp):
GACCAAATGATATGATTTCCTAAGCACAGAATGTTTCGAAAATTGGTCAAAGGAATGGATCATCT
TGAATACTCTCAGGAACCAAGTTATAAAAGAACTCGTAATGTTTGACAAGTTCAAAAGTTAATCC
AAGAACCAAGAGAGAAACAATTCACACGTAAATAAGTTTTTTTCAAA
Found at i:18330595 original size:21 final size:21
Alignment explanation
Indices: 18330548--18330595 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
18330538 CTCGGCAGGG
18330548 TCCTTCTCTTCATTCTCATCT
1 TCCTTCTCTTCATTCTCATCT
* *
18330569 TTCTTCTCTTC-TTCTTCATGT
1 TCCTTCTCTTCATTC-TCATCT
18330590 TCCTTC
1 TCCTTC
18330596 AGCTAATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.06, C:0.35, G:0.02, T:0.56
Consensus pattern (21 bp):
TCCTTCTCTTCATTCTCATCT
Found at i:18341020 original size:23 final size:23
Alignment explanation
Indices: 18340986--18341204 Score: 261
Period size: 23 Copynumber: 9.7 Consensus size: 23
18340976 TTTCACAATT
*
18340986 TCACATTAATATTTAATCATAAA
1 TCACATTAATATTTAAGCATAAA
* *
18341009 TCATATTAATATTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
18341032 TCA-ATTAATATTTAAGAAAAAA
1 TCACATTAATATTTAAGCATAAA
18341054 TCACATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
* *
18341077 TCACATTAATATTTGAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
18341100 TCATATCAATATTTAAG----AA
1 TCACATTAATATTTAAGCATAAA
* *
18341119 TCATATTAATAGTTAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
*
18341142 TCACATTAATATTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
18341165 TCACATTATTATTTAATCATAAA
1 TCACATTAATATTTAAGCATAAA
18341188 TC-CTATTAATATTTAAG
1 TCAC-ATTAATATTTAAG
18341205 TATAGATATA
Statistics
Matches: 168, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
19 17 0.10
22 21 0.12
23 130 0.77
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (23 bp):
TCACATTAATATTTAAGCATAAA
Found at i:18341122 original size:19 final size:19
Alignment explanation
Indices: 18341098--18341135 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18341088 TTTGAGCACA
*
18341098 AATCATATCAATATTTAAG
1 AATCATATCAATAGTTAAG
*
18341117 AATCATATTAATAGTTAAG
1 AATCATATCAATAGTTAAG
18341136 CATAAATCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (19 bp):
AATCATATCAATAGTTAAG
Found at i:18341159 original size:88 final size:88
Alignment explanation
Indices: 18340986--18341204 Score: 305
Period size: 88 Copynumber: 2.5 Consensus size: 88
18340976 TTTCACAATT
*
18340986 TCACATTAATATTTAATCATAAATCATATTAATATTTAAGCACAAATCAATTAATATTTAAGAAA
1 TCACATTAATATTTAATCATAAATCATATTAATATTTAAG---AAATCAATTAATAGTTAAGAAA
*
18341051 AAATCACATTAATATTTAAGCATAAA
63 AAATCACATTAATATTTAAGCACAAA
* * * * * *
18341077 TCACATTAATATTTGAGCACAAATCATATCAATATTTAAG-AATCATATTAATAGTTAAGCATAA
1 TCACATTAATATTTAATCATAAATCATATTAATATTTAAGAAATCA-ATTAATAGTTAAGAAAAA
18341141 ATCACATTAATATTTAAGCACAAA
65 ATCACATTAATATTTAAGCACAAA
* *
18341165 TCACATTATTATTTAATCATAAATCCTATTAATATTTAAG
1 TCACATTAATATTTAATCATAAATCATATTAATATTTAAG
18341205 TATAGATATA
Statistics
Matches: 113, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
87 5 0.04
88 72 0.64
91 36 0.32
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (88 bp):
TCACATTAATATTTAATCATAAATCATATTAATATTTAAGAAATCAATTAATAGTTAAGAAAAAA
TCACATTAATATTTAAGCACAAA
Found at i:18341178 original size:65 final size:65
Alignment explanation
Indices: 18340986--18341180 Score: 275
Period size: 65 Copynumber: 2.9 Consensus size: 65
18340976 TTTCACAATT
* *
18340986 TCACATTAATATTTAATCATAAATCATATTAATATTTAAGCACAAATCAATTAATATTTAAGAAA
1 TCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCAATTAATATTTAAG---
18341051 AAA
63 AAA
* *
18341054 TCACATTAATATTTAAGCATAAATCACATTAATATTTGAGCACAAATCATATCAATATTTAAG-A
1 TCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCA-ATTAATATTTAAGAA
18341118 A
65 A
* * *
18341119 TCATATTAATAGTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATTATTATTTAA
1 TCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCA-ATTAATATTTAA
18341181 TCATAAATCC
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
65 58 0.50
68 46 0.40
69 12 0.10
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (65 bp):
TCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCAATTAATATTTAAGAAA
Found at i:18342772 original size:23 final size:23
Alignment explanation
Indices: 18342742--18342992 Score: 313
Period size: 23 Copynumber: 10.9 Consensus size: 23
18342732 AAAAACCAAG
*
18342742 TCACATTAATATTTAATCATAAA
1 TCACATTAATATTTAAGCATAAA
* *
18342765 TCATATTAATATTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
18342788 TCACATTAATATTTAAACACAAA
1 TCACATTAATATTTAAGCATAAA
*
18342811 TTACATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
* *
18342834 TAACATTAATATTTAAGAATAAA
1 TCACATTAATATTTAAGCATAAA
* *
18342857 TCACATTAATATTTGAGCACAAA
1 TCACATTAATATTTAAGCATAAA
** * *
18342880 TCTTATTAATTTTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
18342903 TCATATTAATATTCAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
*
18342926 TCACATTAATACTTAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
* * *
18342949 TCAAATTATTATTTAATCATAAA
1 TCACATTAATATTTAAGCATAAA
*
18342972 TCATATTAATATTTAAGCATA
1 TCACATTAATATTTAAGCATA
18342993 GATATAAGAA
Statistics
Matches: 196, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 196 1.00
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (23 bp):
TCACATTAATATTTAAGCATAAA
Found at i:18344381 original size:23 final size:23
Alignment explanation
Indices: 18344354--18344602 Score: 320
Period size: 23 Copynumber: 10.8 Consensus size: 23
18344344 TTTCACAATT
18344354 TCACATTAATATTTAAGCACAAA
1 TCACATTAATATTTAAGCACAAA
*
18344377 TCACATTAATATTTAAGCAAAAA
1 TCACATTAATATTTAAGCACAAA
* *
18344400 TCAAATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCACAAA
* *
18344423 TAACATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCACAAA
*
18344446 TCACATTAATATTTGAGCACAAA
1 TCACATTAATATTTAAGCACAAA
* *
18344469 TCATATTATTATTTAAGCACAAA
1 TCACATTAATATTTAAGCACAAA
* * *
18344492 TCATATTACTATTTGAGCACAAA
1 TCACATTAATATTTAAGCACAAA
* *
18344515 TCATATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCACAAA
*
18344538 TCACATTAATACTTAAGCACAAA
1 TCACATTAATATTTAAGCACAAA
* * **
18344561 TCACATTATTATTTAATCGTAAA
1 TCACATTAATATTTAAGCACAAA
18344584 TC-CTATTAATATTTAAGCA
1 TCAC-ATTAATATTTAAGCA
18344603 TAGATATAAT
Statistics
Matches: 198, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
22 1 0.01
23 197 0.99
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (23 bp):
TCACATTAATATTTAAGCACAAA
Found at i:18352224 original size:23 final size:23
Alignment explanation
Indices: 18352194--18352433 Score: 269
Period size: 23 Copynumber: 10.7 Consensus size: 23
18352184 CAATTTCGCG
* *
18352194 TTAATATTTAATCATAAATCATA
1 TTAATATTTAAGCATAAATCACA
*
18352217 TTAATATTTAAGCACAAATCACA
1 TTAATATTTAAGCATAAATCACA
* *
18352240 TTAATATTTAAGCAAAAATGACA
1 TTAATATTTAAGCATAAATCACA
*
18352263 TTAATATTTAAGCATAAATAACA
1 TTAATATTTAAGCATAAATCACA
*
18352286 TTAATATTTAAGCATAAATTACA
1 TTAATATTTAAGCATAAATCACA
* * *
18352309 TTAATATTTGAGCACAAATCATA
1 TTAATATTTAAGCATAAATCACA
* *
18352332 TTAATATTTAAGCACAAATCATA
1 TTAATATTTAAGCATAAATCACA
18352355 TTAATATTTAAGCAT---T---A
1 TTAATATTTAAGCATAAATCACA
* *
18352372 TTAATACTTAAGCACAAATCACA
1 TTAATATTTAAGCATAAATCACA
* * *
18352395 TTATTATTTAATCGTAAATC-CTA
1 TTAATATTTAAGCATAAATCAC-A
18352418 TTAATATTTAAGCATA
1 TTAATATTTAAGCATA
18352434 GATATAAGAA
Statistics
Matches: 186, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
17 14 0.08
20 2 0.01
22 1 0.01
23 169 0.91
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (23 bp):
TTAATATTTAAGCATAAATCACA
Found at i:18352373 original size:17 final size:17
Alignment explanation
Indices: 18352353--18352385 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18352343 GCACAAATCA
*
18352353 TATTAATATTTAAGCAT
1 TATTAATACTTAAGCAT
18352370 TATTAATACTTAAGCA
1 TATTAATACTTAAGCA
18352386 CAAATCACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (17 bp):
TATTAATACTTAAGCAT
Found at i:18356356 original size:23 final size:23
Alignment explanation
Indices: 18356322--18356572 Score: 326
Period size: 23 Copynumber: 10.9 Consensus size: 23
18356312 TTTCACAATT
*
18356322 TCACATTAATATTTAATCATAAA
1 TCACATTAATATTTAAGCATAAA
* * *
18356345 TCATATTAATATTTAAACACAAA
1 TCACATTAATATTTAAGCATAAA
* *
18356368 TCATATTAATATTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
18356391 TCACATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
*
18356414 TAACATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
* * *
18356437 TAACATTAATATTTGAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
18356460 TCATATTAATATTTACGC-TCAAA
1 TCACATTAATATTTAAGCAT-AAA
*
18356483 TCATATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
*
18356506 TCACATTAATATTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
18356529 TCACATTATTATTTAATCATAAA
1 TCACATTAATATTTAAGCATAAA
18356552 TC-CTATTAATATTTAAGCATA
1 TCAC-ATTAATATTTAAGCATA
18356573 GATATAAGAA
Statistics
Matches: 203, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
22 1 0.00
23 201 0.99
24 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.37
Consensus pattern (23 bp):
TCACATTAATATTTAAGCATAAA
Found at i:18356403 original size:69 final size:69
Alignment explanation
Indices: 18356322--18356572 Score: 369
Period size: 69 Copynumber: 3.6 Consensus size: 69
18356312 TTTCACAATT
* * * *
18356322 TCACATTAATATTTAATCATAAATCATATTAATATTTAAACACAAATCATATTAATATTTAAGCA
1 TCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCATAAATCACATTAATATTTAAGCA
18356387 CAAA
66 CAAA
* * * *
18356391 TCACATTAATATTTAAGCATAAATAACATTAATATTTAAGCATAAATAACATTAATATTTGAGCA
1 TCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCATAAATCACATTAATATTTAAGCA
18356456 CAAA
66 CAAA
* *
18356460 TCATATTAATATTTACGC-TCAAATCATATTAATATTTAAGCATAAATCACATTAATATTTAAGC
1 TCACATTAATATTTAAGCAT-AAATCATATTAATATTTAAGCATAAATCACATTAATATTTAAGC
18356524 ACAAA
65 ACAAA
* * *
18356529 TCACATTATTATTTAATCATAAATCCTATTAATATTTAAGCATA
1 TCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCATA
18356573 GATATAAGAA
Statistics
Matches: 161, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
68 1 0.01
69 159 0.99
70 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.37
Consensus pattern (69 bp):
TCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCATAAATCACATTAATATTTAAGCA
CAAA
Found at i:18366842 original size:13 final size:12
Alignment explanation
Indices: 18366823--18366852 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
18366813 TGTCATTGCA
18366823 ATTTTTACTTTT
1 ATTTTTACTTTT
18366835 ACTTTTTACTTTT
1 A-TTTTTACTTTT
18366848 ATTTT
1 ATTTT
18366853 CATTTGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTTTACTTTT
Found at i:18370528 original size:17 final size:17
Alignment explanation
Indices: 18370506--18370539 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18370496 TTGACGCTAC
* *
18370506 AAAAGAAGTTGGATCTG
1 AAAAGAAATGGGATCTG
18370523 AAAAGAAATGGGATCTG
1 AAAAGAAATGGGATCTG
18370540 CAATTCTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.06, G:0.29, T:0.21
Consensus pattern (17 bp):
AAAAGAAATGGGATCTG
Found at i:18374250 original size:11 final size:11
Alignment explanation
Indices: 18374236--18374309 Score: 51
Period size: 11 Copynumber: 6.4 Consensus size: 11
18374226 GTGAGAATGG
18374236 AAAAGAAAAGA
1 AAAAGAAAAGA
*
18374247 AAAAAAAAAGGA
1 AAAAGAAAA-GA
*
18374259 AAAATG-ATAGA
1 AAAA-GAAAAGA
*
18374270 AAAGAGCAAAGA
1 AAA-AGAAAAGA
**
18374282 AAGTGAAAAGA
1 AAAAGAAAAGA
18374293 AAGAGAGAAAAGA
1 AA-A-AGAAAAGA
18374306 AAAA
1 AAAA
18374310 AGATAAAAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
11 23 0.48
12 16 0.33
13 9 0.19
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.04
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:18382899 original size:73 final size:73
Alignment explanation
Indices: 18382738--18382959 Score: 346
Period size: 73 Copynumber: 3.1 Consensus size: 73
18382728 AGGAGATCCA
* * * * *
18382738 AAGAACAAATGAATTTAAGAATTATTGATTGTATGGTATGAGTAT----GAATACAAT-GTTTTC
1 AAGAACGAATGAATTTAAGAATGATTAATTGTATGGTATGAGTATAAACGAA-AAAATGGTTGT-
18382798 CAAATTGGAC
64 CAAATTGGAC
18382808 AAGAACGAATGAATTTAAGAATGATTAATTGTATGGTATGAGTATAAACGAAAAAATGGTTGTCA
1 AAGAACGAATGAATTTAAGAATGATTAATTGTATGGTATGAGTATAAACGAAAAAATGGTTGTCA
18382873 AATTGGAC
66 AATTGGAC
18382881 AAGAACGAATGAATTTAAGAATGATTAATTGTATGGTATGAGTATAAACGAAAAAATGGTTGTCA
1 AAGAACGAATGAATTTAAGAATGATTAATTGTATGGTATGAGTATAAACGAAAAAATGGTTGTCA
18382946 AATTGGAC
66 AATTGGAC
18382954 AAGAAC
1 AAGAAC
18382960 AAAAGAACGA
Statistics
Matches: 142, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
70 42 0.30
73 93 0.65
74 7 0.05
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (73 bp):
AAGAACGAATGAATTTAAGAATGATTAATTGTATGGTATGAGTATAAACGAAAAAATGGTTGTCA
AATTGGAC
Found at i:18392361 original size:80 final size:79
Alignment explanation
Indices: 18392272--18392430 Score: 264
Period size: 80 Copynumber: 2.0 Consensus size: 79
18392262 AGGAGAAATG
* * *
18392272 CCATGCCTTTTCAGCTACATCAGATCCTAATGAAGAGACATGACTCATTGGCTTTCCGACAAGAG
1 CCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCGACAAGAG
18392337 TTAAAAACGAAATTA
66 TT-AAAACGAAATTA
*
18392352 CCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCTACAAGAG
1 CCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCGACAAGAG
*
18392417 TTAAAATGAAATTA
66 TTAAAACGAAATTA
18392431 GTGCTTATAT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 11 0.15
80 63 0.85
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (79 bp):
CCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCGACAAGAG
TTAAAACGAAATTA
Found at i:18398493 original size:32 final size:32
Alignment explanation
Indices: 18398457--18398551 Score: 163
Period size: 32 Copynumber: 3.0 Consensus size: 32
18398447 GCCATCCATA
* *
18398457 CATGTACCTGAAATATATTAATCAGCTAATTG
1 CATGTACCTGAAACACATTAATCAGCTAATTG
18398489 CATGTACCTGAAACACATTAATCAGCTAATTG
1 CATGTACCTGAAACACATTAATCAGCTAATTG
*
18398521 CATGTACATGAAACACATTAATCAGCTAATT
1 CATGTACCTGAAACACATTAATCAGCTAATT
18398552 AATTTCGGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (32 bp):
CATGTACCTGAAACACATTAATCAGCTAATTG
Found at i:18398640 original size:39 final size:39
Alignment explanation
Indices: 18398597--18398695 Score: 180
Period size: 39 Copynumber: 2.5 Consensus size: 39
18398587 TTAATTTGTC
* *
18398597 TCAAACTTAGACACATTAAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAAAAACTATTAAATATGTA
18398636 TCAAACTAAGACACATTAAAAAAAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAAAAACTATTAAATATGTA
18398675 TCAAACTAAGACACATTAAAA
1 TCAAACTAAGACACATTAAAA
18398696 CCCTATTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (39 bp):
TCAAACTAAGACACATTAAAAAAAACTATTAAATATGTA
Found at i:18406021 original size:80 final size:79
Alignment explanation
Indices: 18405924--18406080 Score: 242
Period size: 80 Copynumber: 2.0 Consensus size: 79
18405914 GGAGAAATGT
* * * * *
18405924 CATGCCTTTTCAGCTACATCAGATCCTAATGAAGAGACATGACTCATTGGGTTTCCTACAATAGT
1 CATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGATTCCCTACAAGAGT
18405989 TAAAAATGAAATTTC
66 T-AAAATGAAATTTC
* *
18406004 CATGTCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTTATTAGATTCCCTACAAGAGT
1 CATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGATTCCCTACAAGAGT
18406069 TAAAATGAAATT
66 TAAAATGAAATT
18406081 AGTACTTGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 11 0.16
80 59 0.84
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (79 bp):
CATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGATTCCCTACAAGAGT
TAAAATGAAATTTC
Found at i:18410648 original size:16 final size:17
Alignment explanation
Indices: 18410627--18410661 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18410617 GGAAGATATG
18410627 AATTTTAGGC-TACATA
1 AATTTTAGGCTTACATA
*
18410643 AATTTTATGCTTACATA
1 AATTTTAGGCTTACATA
18410660 AA
1 AA
18410662 GGCCTAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (17 bp):
AATTTTAGGCTTACATA
Found at i:18420433 original size:48 final size:48
Alignment explanation
Indices: 18420372--18420491 Score: 206
Period size: 48 Copynumber: 2.5 Consensus size: 48
18420362 ATTTAACAAA
*
18420372 GCATTTAACAAACAAAACAGTTAATAATGCAGATTACTAAACAAAGAT
1 GCATTTAACAAACAAAACACTTAATAATGCAGATTACTAAACAAAGAT
* *
18420420 GCATTTAACAAACAAAACACTTAATGATGCAGATTATTAAACAAAGAT
1 GCATTTAACAAACAAAACACTTAATAATGCAGATTACTAAACAAAGAT
18420468 GCATTTAACAAA-AAAACACTTAAT
1 GCATTTAACAAACAAAACACTTAAT
18420492 GAAGCATAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
47 12 0.17
48 57 0.83
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (48 bp):
GCATTTAACAAACAAAACACTTAATAATGCAGATTACTAAACAAAGAT
Found at i:18427027 original size:48 final size:48
Alignment explanation
Indices: 18426961--18427082 Score: 183
Period size: 48 Copynumber: 2.5 Consensus size: 48
18426951 TTAAGTGTTT
* * *
18426961 TTTTTTTTGTTAAATGCATCTTTGTTTAAG-AATCTACATCATTAAGTG
1 TTTTGTTTGTTAAATGCATCTTTGTTT-AGTAATCTACATCATTAACTA
* *
18427009 TTTTGTTTGTTAAATGCATTTTTGTTTAGTAATCTACATTATTAACTA
1 TTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTACATCATTAACTA
18427057 TTTTGTTTGTTAAATGCATCTTTGTT
1 TTTTGTTTGTTAAATGCATCTTTGTT
18427083 AAATGCCTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
47 2 0.03
48 65 0.97
ACGTcount: A:0.25, C:0.09, G:0.12, T:0.54
Consensus pattern (48 bp):
TTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTACATCATTAACTA
Found at i:18427097 original size:48 final size:47
Alignment explanation
Indices: 18426961--18427097 Score: 129
Period size: 48 Copynumber: 2.9 Consensus size: 47
18426951 TTAAGTGTTT
* * * *
18426961 TTTTTTTTGTTAAATGCATCTTTGTTTAAGAAT-C-TACATCATTAAGTG
1 TTTTGTTTGTTAAATGCATCTTTG-TT-A-AATGCTTACATTATTAACTA
*
18427009 TTTTGTTTGTTAAATGCATTTTTGTTTAGTAAT-C-TACATTATTAACTA
1 TTTTGTTTGTTAAATGCATCTTTG-TTA--AATGCTTACATTATTAACTA
*
18427057 TTTTGTTTGTTAAATGCATCTTTGTTAAATGCCTTGCATTA
1 TTTTGTTTGTTAAATGCATCTTTGTTAAATG-CTTACATTA
18427098 ATGCATCAGC
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
45 3 0.04
47 5 0.06
48 69 0.90
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (47 bp):
TTTTGTTTGTTAAATGCATCTTTGTTAAATGCTTACATTATTAACTA
Found at i:18427640 original size:82 final size:78
Alignment explanation
Indices: 18427524--18427681 Score: 244
Period size: 82 Copynumber: 2.0 Consensus size: 78
18427514 TCATTAAGGA
* * *
18427524 GAAATGCCATGCCTTTTCAGCTACATCAGATCCTAATGAAGAGACATGACTCATTGGCTTTCCTA
1 GAAATGCCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCAATAGC-TTCCTA
18427589 CAAGAGTTAAAAAC
65 CAAGAGTTAAAAAC
*
18427603 GAAATTGCCATGCCTTTTTTTAACTACATCAGATCCTAATGAAGAGACATGACTCAATAGCTTCC
1 GAAA-TGCCATGCC--TTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCAATAGCTTCC
18427668 TACAAGAGTTAAAA
63 TACAAGAGTTAAAA
18427682 TGAAATTAGT
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
79 4 0.06
80 9 0.12
81 18 0.25
82 41 0.57
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (78 bp):
GAAATGCCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCAATAGCTTCCTAC
AAGAGTTAAAAAC
Found at i:18433737 original size:50 final size:50
Alignment explanation
Indices: 18433651--18433781 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
18433641 TGCATGACTT
*
18433651 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGAT-AG
1 GATTT-ATGATGCAAA-TTTAACTAACATGGAAGTTACATAATGCATG-TCAG
* * * *
18433703 GATTTATGATGCATATTTAACTAACATGTAAGTTACTTAATGCATGTCAT
1 GATTTATGATGCAAATTTAACTAACATGGAAGTTACATAATGCATGTCAG
* *
18433753 TATTTATGATGCAAACTTAACTAATCATG
1 GATTTATGATGCAAATTTAACTAA-CATG
18433782 AGAGTTAATG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
49 1 0.01
50 50 0.72
51 13 0.19
52 5 0.07
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (50 bp):
GATTTATGATGCAAATTTAACTAACATGGAAGTTACATAATGCATGTCAG
Found at i:18434014 original size:17 final size:17
Alignment explanation
Indices: 18433983--18434015 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18433973 CAAACACTTA
18433983 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
18434000 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
18434016 AGTTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:18451641 original size:5 final size:5
Alignment explanation
Indices: 18451594--18451694 Score: 109
Period size: 5 Copynumber: 20.6 Consensus size: 5
18451584 ATATATATAT
* * * * *
18451594 TTTTC ATTTC ATTTC ATTTC TTTTC GTTTC TTTT- TTTT- GTTTC TTTTCC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT-C
* *
18451643 TTTT- TTTTC TCTTC CTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
18451692 TTT
1 TTT
18451695 CAAACAATAA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
4 11 0.13
5 67 0.81
6 5 0.06
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:18452359 original size:74 final size:74
Alignment explanation
Indices: 18452224--18452373 Score: 219
Period size: 74 Copynumber: 2.0 Consensus size: 74
18452214 CTTTACAAAA
* ** *
18452224 TGAAAGTGAACAGCCATCATTCATCATTCATAAATGAATGTGTTGATTCATTTAAAAACTCTTGA
1 TGAAAGTGAACAACCATCATTCATCATTCATAAATGAATGTGTCCATTCACTTAAAAACTCTTGA
18452289 ATAAAACAT
66 ATAAAACAT
* * *
18452298 TGAATGTGAACAACCATCATTCATCATTCATAAATGAATGTGTCCATTCACTTGAAGACTCTTGA
1 TGAAAGTGAACAACCATCATTCATCATTCATAAATGAATGTGTCCATTCACTTAAAAACTCTTGA
* *
18452363 ATGATACAT
66 ATAAAACAT
18452372 TG
1 TG
18452374 TTCCCTCCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (74 bp):
TGAAAGTGAACAACCATCATTCATCATTCATAAATGAATGTGTCCATTCACTTAAAAACTCTTGA
ATAAAACAT
Found at i:18480874 original size:127 final size:127
Alignment explanation
Indices: 18480648--18480899 Score: 468
Period size: 127 Copynumber: 2.0 Consensus size: 127
18480638 AAGGTTAAAT
18480648 CCCAACTTAGTAAAGAATTTGAGATGAAAGATTTGGGAGCAGCAAAGAAGATGCTTGGGATAGAG
1 CCCAACTTAGTAAAGAATTTGAGATGAAAGATTTGGGAGCAGCAAAGAAGATGCTTGGGATAGAG
* *
18480713 ATTCTTAGAGATGGAAAGGCATGTAAGTTGTACCTAAGTCAGAAATGGTACATTGAGAAAAG
66 ATTCTTAGAGATAGAAAGGCATGTAAGTTGTACCTAAGTCAGAAAGGGTACATTGAGAAAAG
* *
18480775 CCCAACTTAGTGAAGAATTTGAGATGAAAGATTTGGGAGCAGCAAAGAAGATGCTTGGGATGGAG
1 CCCAACTTAGTAAAGAATTTGAGATGAAAGATTTGGGAGCAGCAAAGAAGATGCTTGGGATAGAG
18480840 ATTCTTAGAGATAGAAAGGCATGTAAGTTGTACCTAAGTCAGAAAGGGTACATTGAGAAA
66 ATTCTTAGAGATAGAAAGGCATGTAAGTTGTACCTAAGTCAGAAAGGGTACATTGAGAAA
18480900 GTTCTTTGCA
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 121 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.23
Consensus pattern (127 bp):
CCCAACTTAGTAAAGAATTTGAGATGAAAGATTTGGGAGCAGCAAAGAAGATGCTTGGGATAGAG
ATTCTTAGAGATAGAAAGGCATGTAAGTTGTACCTAAGTCAGAAAGGGTACATTGAGAAAAG
Found at i:18481737 original size:17 final size:17
Alignment explanation
Indices: 18481709--18481755 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
18481699 TGTGGAAGAG
18481709 GTAGAGAA--CTTGTTC
1 GTAGAGAATTCTTGTTC
* *
18481724 GTTGAGAGTTCTTGTTC
1 GTAGAGAATTCTTGTTC
18481741 GTAGAGAATTCTTGT
1 GTAGAGAATTCTTGT
18481756 CAAGGTGGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 6 0.23
17 20 0.77
ACGTcount: A:0.21, C:0.11, G:0.28, T:0.40
Consensus pattern (17 bp):
GTAGAGAATTCTTGTTC
Found at i:18490414 original size:24 final size:23
Alignment explanation
Indices: 18490382--18490436 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
18490372 TGTATGGGTA
*
18490382 TCTTCTTGTTTTTCTTTTTCTTTT
1 TCTTCTTGTTTTTC-ATTTCTTTT
18490406 TCTTCTTGTTTTTCATTTCTTTT
1 TCTTCTTGTTTTTCATTTCTTTT
*
18490429 TCCTCTTG
1 TCTTCTTG
18490437 AGAACTCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.73
Consensus pattern (23 bp):
TCTTCTTGTTTTTCATTTCTTTT
Found at i:18512878 original size:13 final size:13
Alignment explanation
Indices: 18512845--18512878 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
18512835 TTTCTTTCAC
*
18512845 AACAAGAAACAAA
1 AACAAGAAAAAAA
18512858 AACAAAGAAAAAAA
1 AAC-AAGAAAAAAA
18512872 AACAAGA
1 AACAAGA
18512879 GGCCTTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.79, C:0.12, G:0.09, T:0.00
Consensus pattern (13 bp):
AACAAGAAAAAAA
Found at i:18519236 original size:32 final size:32
Alignment explanation
Indices: 18519195--18519259 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
18519185 TTTTAGAAGA
* * *
18519195 TGATTAATACAAATCCTTGAAGAAAATAGGAT
1 TGATAAATACAAACCCTTAAAGAAAATAGGAT
*
18519227 TGATAAATACAAACCCTTAAAGAAATTAGGAT
1 TGATAAATACAAACCCTTAAAGAAAATAGGAT
18519259 T
1 T
18519260 TATTAGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.28
Consensus pattern (32 bp):
TGATAAATACAAACCCTTAAAGAAAATAGGAT
Found at i:18521307 original size:22 final size:22
Alignment explanation
Indices: 18521268--18521313 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
18521258 TAGAGTCCAT
* *
18521268 AGAGAATGTCAATGCTAGGGAC
1 AGAGAATGTCAATACTAGAGAC
*
18521290 AGAGAATGTCAGTACTAGAGAC
1 AGAGAATGTCAATACTAGAGAC
18521312 AG
1 AG
18521314 TAAAGTCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.13, G:0.30, T:0.17
Consensus pattern (22 bp):
AGAGAATGTCAATACTAGAGAC
Found at i:18521477 original size:17 final size:17
Alignment explanation
Indices: 18521443--18521491 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
18521433 TGCTTCTAAG
* * *
18521443 AAGTACTTTCAGATAAA
1 AAGTATTTTTAGACAAA
18521460 AAGTATTTTTAGACAAA
1 AAGTATTTTTAGACAAA
*
18521477 AA-TATTTTTAAACAA
1 AAGTATTTTTAGACAA
18521492 GCTATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (17 bp):
AAGTATTTTTAGACAAA
Found at i:18521482 original size:16 final size:17
Alignment explanation
Indices: 18521457--18521491 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18521447 ACTTTCAGAT
*
18521457 AAAAAGTATTTTTAGAC
1 AAAAAGTATTTTTAAAC
18521474 AAAAA-TATTTTTAAAC
1 AAAAAGTATTTTTAAAC
18521490 AA
1 AA
18521492 GCTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
AAAAAGTATTTTTAAAC
Found at i:18526206 original size:293 final size:293
Alignment explanation
Indices: 18525679--18526260 Score: 1110
Period size: 293 Copynumber: 2.0 Consensus size: 293
18525669 GGTTAAAAGC
*
18525679 GTTAGACTGCTTGGAGACCAATTCAGTGATAGTTGGGTGGTTGAGAAGGTCATAACCACACTTTC
1 GTTAGACTGCTTGGAGACCAATTCAGTGATAGTTGGGTAGTTGAGAAGGTCATAACCACACTTTC
* *
18525744 AGAAGAGTATGAGTCAAAGATTTCCTCCCTTGAAGACTCAAGGGACCTGTCAACAATCTCACTAC
66 AGAAGAGTATGAGTCAAAGATTTCCTCCCTTAAAGACTCAAGGGACCTATCAACAATCTCACTAC
18525809 CAGAGTTGATCAATGTGTTGTATGCTCAAGAACAAAGGAGAGCATCAAGACAAGAGGAGCGTGCT
131 CAGAGTTGATCAATGTGTTGTATGCTCAAGAACAAAGGAGAGCATCAAGACAAGAGGAGCGTGCT
18525874 GAGGGAGCCTTTAAATCAAGAGGTAAAGAAGGCTCGAGCTCCACAAACAATGAAGGAAATCTAAA
196 GAGGGAGCCTTTAAATCAAGAGGTAAAGAAGGCTCGAGCTCCACAAACAATGAAGGAAATCTAAA
18525939 TACCAAAGAGCGCACAACCATGTCTCTTGAAGG
261 TACCAAAGAGCGCACAACCATGTCTCTTGAAGG
*
18525972 GTTAGACTGCTTGGAGACCAATTCAGTGATAGTTGGGTAGTTGCGAAGGTCATAACCACACTTTC
1 GTTAGACTGCTTGGAGACCAATTCAGTGATAGTTGGGTAGTTGAGAAGGTCATAACCACACTTTC
*
18526037 AGAAGGGTATGAGTCAAAGATTTCCTCCCTTAAAGACTCAAGGGACCTATCAACAATCTCACTAC
66 AGAAGAGTATGAGTCAAAGATTTCCTCCCTTAAAGACTCAAGGGACCTATCAACAATCTCACTAC
*
18526102 TAGAGTTGATCAATGTGTTGTATGCTCAAGAACAAAGGAGAGCATCAAGACAAGAGGAGCGTGCT
131 CAGAGTTGATCAATGTGTTGTATGCTCAAGAACAAAGGAGAGCATCAAGACAAGAGGAGCGTGCT
18526167 GAGGGAGCCTTTAAATCAAGAGGTAAAGAAGGCTCGAGCTCCACAAACAATGAAGGAAATCTAAA
196 GAGGGAGCCTTTAAATCAAGAGGTAAAGAAGGCTCGAGCTCCACAAACAATGAAGGAAATCTAAA
18526232 TACCAAAGAGCGCACAACCATGTCTCTTG
261 TACCAAAGAGCGCACAACCATGTCTCTTG
18526261 CCCGTGTGTG
Statistics
Matches: 283, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
293 283 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (293 bp):
GTTAGACTGCTTGGAGACCAATTCAGTGATAGTTGGGTAGTTGAGAAGGTCATAACCACACTTTC
AGAAGAGTATGAGTCAAAGATTTCCTCCCTTAAAGACTCAAGGGACCTATCAACAATCTCACTAC
CAGAGTTGATCAATGTGTTGTATGCTCAAGAACAAAGGAGAGCATCAAGACAAGAGGAGCGTGCT
GAGGGAGCCTTTAAATCAAGAGGTAAAGAAGGCTCGAGCTCCACAAACAATGAAGGAAATCTAAA
TACCAAAGAGCGCACAACCATGTCTCTTGAAGG
Found at i:18526641 original size:18 final size:18
Alignment explanation
Indices: 18526618--18526653 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18526608 TGGTACCAAA
18526618 ACCATTCCACATATCATG
1 ACCATTCCACATATCATG
18526636 ACCATTCCACATATCATG
1 ACCATTCCACATATCATG
18526654 CTAACTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.06, T:0.28
Consensus pattern (18 bp):
ACCATTCCACATATCATG
Found at i:18527971 original size:2 final size:2
Alignment explanation
Indices: 18527964--18527992 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18527954 AATTAACATA
18527964 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18527993 ATAAAAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18528780 original size:16 final size:17
Alignment explanation
Indices: 18528761--18528800 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
18528751 TTATTAATAA
18528761 TTAAAAATTATAAT-TT
1 TTAAAAATTATAATCTT
* *
18528777 TTAACATTTATAATCTT
1 TTAAAAATTATAATCTT
18528794 TTAAAAA
1 TTAAAAA
18528801 GGCACAAACC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAAATTATAATCTT
Found at i:18532151 original size:16 final size:16
Alignment explanation
Indices: 18532130--18532195 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 16
18532120 TCTAAATATT
18532130 CAGGCTATGTGCCTAG
1 CAGGCTATGTGCCTAG
* *
18532146 CAGGCTTTGTGCCGGTGTATC
1 CAGGCTATGTGCC----TA-G
18532167 CAGGCTATGTGCCTAG
1 CAGGCTATGTGCCTAG
* *
18532183 TAGGCTTTGTGCC
1 CAGGCTATGTGCC
18532196 GGTGTATTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 23 0.59
17 2 0.05
20 2 0.05
21 12 0.31
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (16 bp):
CAGGCTATGTGCCTAG
Found at i:18532172 original size:21 final size:20
Alignment explanation
Indices: 18532146--18532216 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
18532136 ATGTGCCTAG
*
18532146 CAGGCTTTGTGCCGGTGTAT
1 CAGGCTATGTGCCGGTGTAT
18532166 CCAGGCTATGTGCC----TAGT
1 -CAGGCTATGTGCCGGTGTA-T
*
18532184 -AGGCTTTGTGCCGGTGTATT
1 CAGGCTATGTGCCGGTGTA-T
18532204 CAGGCTATGTGCC
1 CAGGCTATGTGCC
18532217 TAGTAGGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
16 11 0.28
17 2 0.05
18 1 0.03
20 3 0.08
21 23 0.57
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (20 bp):
CAGGCTATGTGCCGGTGTAT
Found at i:18532180 original size:37 final size:37
Alignment explanation
Indices: 18532126--18532382 Score: 363
Period size: 37 Copynumber: 6.9 Consensus size: 37
18532116 TCCATCTAAA
*
18532126 TATTCAGGCTATGTGCCTAGCAGGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
*
18532163 TATCCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
18532200 TATTCAGGCTATGTGCCTAGTAGGTTTTGTGCCAGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
18532237 TATTCAGGCTATGTGCTTAGTAGGCTTTATGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * * *
18532274 TATTTAGGCTATGTGCCTAGAAGTCTTTGTACCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * *
18532311 TATTTAGGCCATGTGCTTAGTAGGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
18532348 TATTC-GAGCTATGTGCCTTGTAGGCTTTATGCCGG
1 TATTCAG-GCTATGTGCCTAGTAGGCTTTGTGCCGG
18532383 AGAATCAAGA
Statistics
Matches: 194, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
36 1 0.01
37 193 0.99
ACGTcount: A:0.15, C:0.18, G:0.30, T:0.36
Consensus pattern (37 bp):
TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
Found at i:18533601 original size:37 final size:37
Alignment explanation
Indices: 18533560--18533848 Score: 391
Period size: 37 Copynumber: 7.8 Consensus size: 37
18533550 TGCATCTAAA
* * *
18533560 TATTCAGGCTATGTGCATAGCAGACTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
*
18533597 TATTCAAGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
18533634 TATTCAGGCTATATGCCTAGTAGGCTTTGTGCCTGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * *
18533671 TGTTCAAGCTATGTGCCTAGTATGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * * *
18533708 TATTCATGCTATGTACGTAGTAGGCTTTGTGTCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * *
18533745 TATTCAGGCTATGTGCTTAGAAGTCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
*
18533782 TATTCAGGCTATGTGCCTAGTAGGCTTTGTCCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
18533819 TATTC-GAGCTATTTGCCTAGTAAGCTTTGT
1 TATTCAG-GCTATGTGCCTAGTAGGCTTTGT
18533849 TCCGATGAAT
Statistics
Matches: 221, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
36 1 0.00
37 220 1.00
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.37
Consensus pattern (37 bp):
TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
Found at i:18535074 original size:20 final size:20
Alignment explanation
Indices: 18535051--18535095 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
18535041 AGGGGTACAA
*
18535051 ATACCTTGT-TTTAGGTATCG
1 ATACCTTATATTTA-GTATCG
18535071 ATACCTTATAATTTAGTATCG
1 ATACCTTAT-ATTTAGTATCG
18535092 ATAC
1 ATAC
18535096 TTGCCCCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 10 0.45
22 4 0.18
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
ATACCTTATATTTAGTATCG
Found at i:18545329 original size:22 final size:22
Alignment explanation
Indices: 18545304--18545345 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18545294 TAATACTAAT
*
18545304 TGATGAAATTAGAGACGAATCA
1 TGATGAAATTAAAGACGAATCA
*
18545326 TGATGAAATTAAAGATGAAT
1 TGATGAAATTAAAGACGAAT
18545346 AATCTAACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (22 bp):
TGATGAAATTAAAGACGAATCA
Found at i:18546747 original size:22 final size:22
Alignment explanation
Indices: 18546722--18546765 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18546712 GCTCTGATAC
*
18546722 CATGATAAAATTAGAGATGAAT
1 CATGATAAAATTAAAGATGAAT
* *
18546744 CATGATGAAATTAAATATGAAT
1 CATGATAAAATTAAAGATGAAT
18546766 ACTCTAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.30
Consensus pattern (22 bp):
CATGATAAAATTAAAGATGAAT
Found at i:18548985 original size:3 final size:3
Alignment explanation
Indices: 18548977--18549011 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18548967 TACGCTCACA
18548977 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18549012 GCAATAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18554420 original size:15 final size:16
Alignment explanation
Indices: 18554402--18554456 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 16
18554392 TACTTTGATA
18554402 AATTTTAATTA-TTTT
1 AATTTTAATTACTTTT
* *
18554417 AATTTGATTTACTTTT
1 AATTTTAATTACTTTT
*
18554433 AATTTTTA-TACTTTT
1 AATTTTAATTACTTTT
18554448 AAATTTTAA
1 -AATTTTAA
18554457 AATTTCAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 16 0.50
16 16 0.50
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
AATTTTAATTACTTTT
Found at i:18557460 original size:17 final size:17
Alignment explanation
Indices: 18557438--18557483 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
18557428 AATTAGAAGG
*
18557438 ACCAAATGAGTAAATTA
1 ACCAAAGGAGTAAATTA
18557455 ACCAAAGGAGTAAATTA
1 ACCAAAGGAGTAAATTA
18557472 ACCAAAGGAGTA
1 ACCAAAGGAGTA
18557484 TTAGTAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.17
Consensus pattern (17 bp):
ACCAAAGGAGTAAATTA
Found at i:18567734 original size:663 final size:663
Alignment explanation
Indices: 18566468--18567759 Score: 2413
Period size: 663 Copynumber: 1.9 Consensus size: 663
18566458 GAGCATTAAA
*
18566468 GAGTAAACTATGAGCAGGCGGTCCATCACCAAGCTTTTTAAGAGCTAATATTGCTGCACGGAGTT
1 GAGTAAACTATGAGCAGGCGGTCCATCACCAAGCTTTTTAAGAGCTAATATTACTGCACGGAGTT
*
18566533 CAACACCACGTGTAGAAGGTTGACAAGCAGCTTCAGCAAGCTGTTCAGACAACCTTTACTTCCGC
66 CAACACCACGTGTAGAAGGTTGACAAGCAGCTTCAGCAAACTGTTCAGACAACCTTTACTTCCGC
* * *
18566598 TCTACAATAGCAGTTTGTAAATATGTAAGTGCTGCAGGACTCAATGAATTTGTTTCCTTTGCTTC
131 TCTACAATAGCAGTCTATAAATATGTAAGTGCTACAGGACTCAATGAATTTGTTTCCTTTGCTTC
*
18566663 AGCAACTGCCTGCTCTCATTCATCAATGGCTGCTAAAGCTTCAACTATTCTCTTCTTAGTTAACA
196 AGCAACTGCCTGCTCTCATTCATCAATGGCTGCTAAAGCTTCAACTATTCTCTTCTTAGCTAACA
18566728 AAACATCCAGGTGATCAGAGAATTATGTTGACCATTTCTCGAGATTTGAAGGTTCTCTATCTTCA
261 AAACATCCAGGTGATCAGAGAATTATGTTGACCATTTCTCGAGATTTGAAGGTTCTCTATCTTCA
* *
18566793 ATATTTAACAAACCATTAGCATTAGGACCTTTAGAAACTTTAGTAGATAATGAATCTATATGAAC
326 ATATTTAACAAACCATTAGCATTAGGACCTTCAGAAACTTTAGGAGATAATGAATCTATATGAAC
*
18566858 TCCCTCAGCCAAACCATAAATTAATGTTGCTTGTGTTGAAAGCAAATTTCTTATTGATGAAAGCT
391 CCCCTCAGCCAAACCATAAATTAATGTTGCTTGTGTTGAAAGCAAATTTCTTATTGATGAAAGCT
18566923 CACCTTCTAAATCGGATATCTCCTTAGATGTGCTACAAGAAAGAAGCCCAAATGTCTTAAAGTTT
456 CACCTTCTAAATCGGATATCTCCTTAGATGTGCTACAAGAAAGAAGCCCAAATGTCTTAAAGTTT
*
18566988 CACACCTGTACAGATTCCATGGAACTAACCATATTACTTGTCTTTATTAATAATTAATATTGAAA
521 CACACCTGTACAGATTCCATGGAACTAACCACATTACTTGTCTTTATTAATAATTAATATTGAAA
18567053 ATAAATATCCAATTCACATTAATTCAAAGAGAGAGAGAGAGAGAAACTAGTTATAGAAGGTTGAC
586 ATAAATATCCAATTCACATTAATTCAAAGAGAGAGAGAGAGAGAAACTAGTTATAGAAGGTTGAC
18567118 AAGCAGCTTCACG
651 AAGCAGCTTCACG
* *
18567131 GAGTAAACTATGAGCAGGCGGTCCATCACCAAGCTTTTTAAGAGCTAGTATTACTGCATGGAGTT
1 GAGTAAACTATGAGCAGGCGGTCCATCACCAAGCTTTTTAAGAGCTAATATTACTGCACGGAGTT
18567196 CAACACCACGTGTAGAAGGTTGACAAGCAGCTTCAGCAAACTGTTCAGACAACCTTTACTTCCGC
66 CAACACCACGTGTAGAAGGTTGACAAGCAGCTTCAGCAAACTGTTCAGACAACCTTTACTTCCGC
*
18567261 TCTACAATAGCAGTCTATAAATATGTAAGTGCTACAGGACTCAATGAATTTGTTTCCTTTGCTTT
131 TCTACAATAGCAGTCTATAAATATGTAAGTGCTACAGGACTCAATGAATTTGTTTCCTTTGCTTC
*
18567326 AGCAACTGCCTGCTCTCATTCATCAATGGCTGCTAGAGCTTCAACTATTCTCTTCTTAGCTAACA
196 AGCAACTGCCTGCTCTCATTCATCAATGGCTGCTAAAGCTTCAACTATTCTCTTCTTAGCTAACA
*
18567391 AAACATCCAGGTGATCAGAGAATTCTGTTGACCATTTCTCGAGATTTGAAGGTTCTCTATCTTCA
261 AAACATCCAGGTGATCAGAGAATTATGTTGACCATTTCTCGAGATTTGAAGGTTCTCTATCTTCA
*
18567456 ATATTTAACAAACCATTAGCATTAGGACCTTCAGAAACTTTGGGAGATAATGAATCTATATGAAC
326 ATATTTAACAAACCATTAGCATTAGGACCTTCAGAAACTTTAGGAGATAATGAATCTATATGAAC
18567521 CCCCTCAGCCAAACCATAAATTAATGTTGCTTGTGTTGAAAGCAAATTTCTTATTGATGAAAGCT
391 CCCCTCAGCCAAACCATAAATTAATGTTGCTTGTGTTGAAAGCAAATTTCTTATTGATGAAAGCT
*
18567586 CTCCTTCTAAATCGGATATCTCCTTAGATGTGCTACAAGAAAGAAGCCCAAATGTCTTAAAGTTT
456 CACCTTCTAAATCGGATATCTCCTTAGATGTGCTACAAGAAAGAAGCCCAAATGTCTTAAAGTTT
* *
18567651 CACACCTGTATAGGTTCCATGGAACTAACCACATTACTTGTCTTTATTAATAATTAATATTGAAA
521 CACACCTGTACAGATTCCATGGAACTAACCACATTACTTGTCTTTATTAATAATTAATATTGAAA
18567716 ATAAATATCCAATTCACATTAATTCAAAGAGAGAGAGAGAGAGA
586 ATAAATATCCAATTCACATTAATTCAAAGAGAGAGAGAGAGAGA
18567760 GAGAAACTAG
Statistics
Matches: 610, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
663 610 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (663 bp):
GAGTAAACTATGAGCAGGCGGTCCATCACCAAGCTTTTTAAGAGCTAATATTACTGCACGGAGTT
CAACACCACGTGTAGAAGGTTGACAAGCAGCTTCAGCAAACTGTTCAGACAACCTTTACTTCCGC
TCTACAATAGCAGTCTATAAATATGTAAGTGCTACAGGACTCAATGAATTTGTTTCCTTTGCTTC
AGCAACTGCCTGCTCTCATTCATCAATGGCTGCTAAAGCTTCAACTATTCTCTTCTTAGCTAACA
AAACATCCAGGTGATCAGAGAATTATGTTGACCATTTCTCGAGATTTGAAGGTTCTCTATCTTCA
ATATTTAACAAACCATTAGCATTAGGACCTTCAGAAACTTTAGGAGATAATGAATCTATATGAAC
CCCCTCAGCCAAACCATAAATTAATGTTGCTTGTGTTGAAAGCAAATTTCTTATTGATGAAAGCT
CACCTTCTAAATCGGATATCTCCTTAGATGTGCTACAAGAAAGAAGCCCAAATGTCTTAAAGTTT
CACACCTGTACAGATTCCATGGAACTAACCACATTACTTGTCTTTATTAATAATTAATATTGAAA
ATAAATATCCAATTCACATTAATTCAAAGAGAGAGAGAGAGAGAAACTAGTTATAGAAGGTTGAC
AAGCAGCTTCACG
Found at i:18570670 original size:58 final size:58
Alignment explanation
Indices: 18570504--18570675 Score: 254
Period size: 63 Copynumber: 2.9 Consensus size: 58
18570494 CTATATCCAT
* *
18570504 TATTATTATTATTATTTATTTATTATTTTTATGAATATAAATAAATAAATATAAAATAA
1 TATTAATATTTTTATTTATTTATTA-TTTTATGAATATAAATAAATAAATATAAAATAA
*
18570563 TATTAATATTTTTTTACTATTTATTTATTATTGTATGAATATAAATAAATAAATATAAAATAA
1 TATTAATA---TTTT--TATTTATTTATTATTTTATGAATATAAATAAATAAATATAAAATAA
*
18570626 TATTAATATTTTTATTTATTTATTATTTTATGAATATAGATAAATAAATA
1 TATTAATATTTTTATTTATTTATTATTTTATGAATATAAATAAATAAATA
18570676 AATAACAAAC
Statistics
Matches: 103, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
58 36 0.35
59 7 0.07
60 4 0.04
62 3 0.03
63 40 0.39
64 13 0.13
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (58 bp):
TATTAATATTTTTATTTATTTATTATTTTATGAATATAAATAAATAAATATAAAATAA
Found at i:18573122 original size:24 final size:24
Alignment explanation
Indices: 18573090--18573151 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
18573080 TCTTGCATAT
*
18573090 GCATTCATGCATTCATAAAATTTC
1 GCATCCATGCATTCATAAAATTTC
* *
18573114 GCATCCATGCATTCATAAAGTTTT
1 GCATCCATGCATTCATAAAATTTC
18573138 GCATCGCATGCATT
1 GCATC-CATGCATT
18573152 AAAAGTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 26 0.76
25 8 0.24
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (24 bp):
GCATCCATGCATTCATAAAATTTC
Found at i:18578010 original size:50 final size:50
Alignment explanation
Indices: 18577951--18578061 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 50
18577941 TGAAGCCACG
* * *
18577951 ATGGCGAATCTCATAT-ACCTAAATCTGTAGAGGGGCAGATTAAAGTCGCA
1 ATGGTGAATCTCAT-TCACCTAAAGCTATAGAGGGGCAGATTAAAGTCGCA
* * *
18578001 ATGGTGAATCCCATTCACCTAAAGCTATAGAGGGGCATATTGAAGTCGCA
1 ATGGTGAATCTCATTCACCTAAAGCTATAGAGGGGCAGATTAAAGTCGCA
18578051 A-GGATGAATCT
1 ATGG-TGAATCT
18578062 TATACTCCTG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 3 0.06
50 49 0.94
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (50 bp):
ATGGTGAATCTCATTCACCTAAAGCTATAGAGGGGCAGATTAAAGTCGCA
Found at i:18578187 original size:40 final size:41
Alignment explanation
Indices: 18578086--18578412 Score: 220
Period size: 40 Copynumber: 8.2 Consensus size: 41
18578076 TGAAATAGGC
* * * *
18578086 AGATTGAAGACCATGC-AATCTCTTACCTAGACCA-GAAAGGC
1 AGATTGAAGACCAT-CTGATCTCTTACCTCGACCATG-AGGGT
*
18578127 AGATTGAAGACCATCCGATCTCTTACCTCGACCATG-GGGT
1 AGATTGAAGACCATCTGATCTCTTACCTCGACCATGAGGGT
* * * *
18578167 AGATCGAAGACCATCTGATCTTTTACCCCGACTA-GAGGGT
1 AGATTGAAGACCATCTGATCTCTTACCTCGACCATGAGGGT
*
18578207 AGATTGAAGACCAT-TGGATCTCTTACCTCGACCATGA-GGC
1 AGATTGAAGACCATCT-GATCTCTTACCTCGACCATGAGGGT
* ** * * *
18578247 AGATTGAAG-CAATCCAATCTTTTACC-CTAAC-TAGAGGG-
1 AGATTGAAGACCATCTGATCTCTTACCTCGACCAT-GAGGGT
* * *
18578285 CGAATTGAAGACCATTTGATCTCTTACC-CTGACCATG-GGTT
1 AG-ATTGAAGACCATCTGATCTCTTACCTC-GACCATGAGGGT
* * * * * *
18578326 AGATTGAAG-CAATCTAATCTTTTGCC-CTAACCA-GAGGGC
1 AGATTGAAGACCATCTGATCTCTTACCTC-GACCATGAGGGT
* *
18578365 ATATTGAAGACCAT-TCGATCTCTTACCTCGACCATG-GGGC
1 AGATTGAAGACCATCT-GATCTCTTACCTCGACCATGAGGGT
18578405 AGATTGAA
1 AGATTGAA
18578413 ACAATTCAAT
Statistics
Matches: 223, Mismatches: 45, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
37 1 0.00
38 7 0.03
39 52 0.23
40 123 0.55
41 38 0.17
42 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
AGATTGAAGACCATCTGATCTCTTACCTCGACCATGAGGGT
Found at i:18578292 original size:39 final size:39
Alignment explanation
Indices: 18578244--18578432 Score: 120
Period size: 39 Copynumber: 4.8 Consensus size: 39
18578234 TCGACCATGA
* *
18578244 GGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAG
1 GGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGAG
* * * * *
18578283 GGC-GAATTGAAGACCATTTGATCTCTTACCCTGACCATG-G
1 GGCAG-ATTGAAG-CAATCTAATCTTTTACCCTAACCA-GAG
** *
18578323 GTTAGATTGAAGCAATCTAATCTTTTGCCCTAACCAGAG
1 GGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGAG
* * * * *
18578362 GGCATATTGAAGACCAT-TCGATCTCTTA-CCTCGACCATG-G
1 GGCAGATTGAAG-CAATCT-AATCTTTTACCCT-AACCA-GAG
*
18578402 GGCAGATTGAAACAAT-TCAATCTTTTACCCT
1 GGCAGATTGAAGCAATCT-AATCTTTTACCCT
18578433 TAAAACAATA
Statistics
Matches: 112, Mismatches: 28, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
38 2 0.02
39 54 0.48
40 53 0.47
41 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (39 bp):
GGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGAG
Found at i:18578300 original size:79 final size:79
Alignment explanation
Indices: 18578083--18578432 Score: 400
Period size: 79 Copynumber: 4.4 Consensus size: 79
18578073 AATTGAAATA
* * * * * *
18578083 GGCAGATTGAAGACCATGCAATCTCTTA-CCTAGACCAGAAAGGCAGATTGAAGACCATCCGATC
1 GGCAGATTGAAG-CAATCCAATCTTTTACCCTA-ACTAG-AGGGCAGATTGAAGACCATTCGATC
18578147 TCTTACCTCGACCATGG
63 TCTTACCTCGACCATGG
* * * ** ** * *
18578164 GGTAGATCGAAGACCATCTGATCTTTTACCCCGACTAGAGGGTAGATTGAAGACCATTGGATCTC
1 GGCAGATTGAAG-CAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCGATCTC
*
18578229 TTACCTCGACCATGA
65 TTACCTCGACCATGG
*
18578244 GGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGC-GAATTGAAGACCATTTGATCTC
1 GGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAG-ATTGAAGACCATTCGATCTC
18578308 TTACC-CTGACCATGG
65 TTACCTC-GACCATGG
** * * * *
18578323 GTTAGATTGAAGCAATCTAATCTTTTGCCCTAACCAGAGGGCATATTGAAGACCATTCGATCTCT
1 GGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCGATCTCT
18578388 TACCTCGACCATGG
66 TACCTCGACCATGG
* *
18578402 GGCAGATTGAAACAATTCAATCTTTTACCCT
1 GGCAGATTGAAGCAATCCAATCTTTTACCCT
18578433 TAAAACAATA
Statistics
Matches: 227, Mismatches: 37, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
78 2 0.01
79 149 0.66
80 48 0.21
81 26 0.11
82 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (79 bp):
GGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCGATCTCT
TACCTCGACCATGG
Found at i:18578391 original size:158 final size:159
Alignment explanation
Indices: 18578129--18578432 Score: 441
Period size: 158 Copynumber: 1.9 Consensus size: 159
18578119 AGAAAGGCAG
* *
18578129 ATTGAAGACCATCCGATCTCTTACCTCGACCATGGGGTAGATCGAAGACCATCTGATCTTTTACC
1 ATTGAAGACCATCCGATCTCTTACCTCGACCATGGGGTAGATCGAAGACAATCTAATCTTTTACC
* * * * *
18578194 CCGACTAGAGGGTAGATTGAAGACCATTGGATCTCTTACCTCGACCATGAGGCAGATTGAAGCAA
66 CCAACCAGAGGGCAGATTGAAGACCATTCGATCTCTTACCTCGACCATGAGGCAGATTGAAACAA
18578259 TCCAATCTTTTACCCTAACTAGAGGGCGA
131 TCCAATCTTTTACCCTAACTAGAGGGCGA
** * * *
18578288 ATTGAAGACCATTTGATCTCTTACC-CTGACCATGGGTTAGATTGAAG-CAATCTAATCTTTTGC
1 ATTGAAGACCATCCGATCTCTTACCTC-GACCATGGGGTAGATCGAAGACAATCTAATCTTTTAC
* * *
18578351 CCTAACCAGAGGGCATATTGAAGACCATTCGATCTCTTACCTCGACCATGGGGCAGATTGAAACA
65 CCCAACCAGAGGGCAGATTGAAGACCATTCGATCTCTTACCTCGACCATGAGGCAGATTGAAACA
*
18578416 ATTCAATCTTTTACCCT
130 ATCCAATCTTTTACCCT
18578433 TAAAACAATA
Statistics
Matches: 128, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
158 87 0.68
159 41 0.32
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (159 bp):
ATTGAAGACCATCCGATCTCTTACCTCGACCATGGGGTAGATCGAAGACAATCTAATCTTTTACC
CCAACCAGAGGGCAGATTGAAGACCATTCGATCTCTTACCTCGACCATGAGGCAGATTGAAACAA
TCCAATCTTTTACCCTAACTAGAGGGCGA
Found at i:18580935 original size:58 final size:58
Alignment explanation
Indices: 18580866--18580985 Score: 188
Period size: 58 Copynumber: 2.1 Consensus size: 58
18580856 AAAAGGAATT
**
18580866 GTTTATGAGTGTTATTTGGGAATAAAATTATATTT-AGGTTTAAAAATATTTGGGTTTA
1 GTTTATGAGTGTTATTTAAGAATAAAATTATATTTGA-GTTTAAAAATATTTGGGTTTA
* *
18580924 GTTTATGAGTGTTTTTTAAGAATGAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
1 GTTTATGAGTGTTATTTAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
18580982 GTTT
1 GTTT
18580986 GTTGATGGGC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
58 56 0.98
59 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (58 bp):
GTTTATGAGTGTTATTTAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
Found at i:18581926 original size:14 final size:14
Alignment explanation
Indices: 18581904--18581940 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
18581894 CTAATTTTTA
*
18581904 TTTAGTTTTTTTATT
1 TTTA-TTTTTTTAGT
18581919 TTTATTTTTTTAGT
1 TTTATTTTTTTAGT
18581933 TTTATTTT
1 TTTATTTT
18581941 GATTTTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (14 bp):
TTTATTTTTTTAGT
Found at i:18582296 original size:17 final size:18
Alignment explanation
Indices: 18582276--18582325 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
18582266 CCAAAAAACT
18582276 ATAAAAAATAAAAA-TAA
1 ATAAAAAATAAAAATTAA
*
18582293 ATAAAAAATATTAAAATTTA
1 ATAAAAAATA--AAAATTAA
18582313 ATAAAAATATAAA
1 ATAAAAA-ATAAA
18582326 TTTATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 10 0.36
19 6 0.21
20 9 0.32
21 3 0.11
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAAATAAAAATTAA
Found at i:18582328 original size:17 final size:19
Alignment explanation
Indices: 18582296--18582337 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
18582286 AAAATAAATA
18582296 AAAAATATTAAAATTTAAT
1 AAAAATATTAAAATTTAAT
*
18582315 AAAAATA-T-AAATTTATT
1 AAAAATATTAAAATTTAAT
18582332 AAAAAT
1 AAAAAT
18582338 TAGAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 1 0.05
19 7 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATATTAAAATTTAAT
Found at i:18582344 original size:17 final size:16
Alignment explanation
Indices: 18582282--18582377 Score: 56
Period size: 17 Copynumber: 5.7 Consensus size: 16
18582272 AACTATAAAA
18582282 AATAAAAA-TAAA--T
1 AATAAAAATTAAATTT
18582295 AA-AAAATATTAAAATTT
1 AATAAAA-ATT-AAATTT
18582312 AATAAAAATATAAATTT
1 AATAAAAAT-TAAATTT
*
18582329 ATTAAAAATTAGAATTTTT
1 AATAAAAATTA-AA--TTT
*
18582348 TATAAAAATTGTAAACTTT
1 AATAAAAA-T-TAAA-TTT
*
18582367 TATAAAAATTA
1 AATAAAAATTA
18582378 TAAAAAAAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
12 4 0.06
13 3 0.04
14 1 0.01
15 3 0.04
16 2 0.03
17 23 0.34
18 6 0.09
19 20 0.30
20 3 0.04
21 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (16 bp):
AATAAAAATTAAATTT
Found at i:18582355 original size:19 final size:20
Alignment explanation
Indices: 18582293--18582381 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 20
18582283 ATAAAAATAA
* * * *
18582293 ATAAAAAATATTAAAATTTA
1 ATAAAAATTAGTAAACTTTT
18582313 ATAAAAA-TA-TAAA--TTT
1 ATAAAAATTAGTAAACTTTT
**
18582329 ATTAAAAATTAG-AATTTTTT
1 A-TAAAAATTAGTAAACTTTT
18582349 ATAAAAATT-GTAAACTTTT
1 ATAAAAATTAGTAAACTTTT
18582368 ATAAAAATTA-TAAA
1 ATAAAAATTAGTAAA
18582382 AAAAATTATA
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
16 3 0.05
17 6 0.10
18 9 0.16
19 29 0.50
20 11 0.19
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.39
Consensus pattern (20 bp):
ATAAAAATTAGTAAACTTTT
Found at i:18582387 original size:12 final size:12
Alignment explanation
Indices: 18582370--18582394 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18582360 AAACTTTTAT
18582370 AAAAATTATAAA
1 AAAAATTATAAA
18582382 AAAAATTATAAA
1 AAAAATTATAAA
18582394 A
1 A
18582395 TGTATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:18582392 original size:21 final size:21
Alignment explanation
Indices: 18582366--18582405 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
18582356 TTGTAAACTT
18582366 TTATAAAAAT-TATAAAAAAAA
1 TTAT-AAAATGTATAAAAAAAA
18582387 TTATAAAATGTATAAAAAA
1 TTATAAAATGTATAAAAAA
18582406 GTCATTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (21 bp):
TTATAAAATGTATAAAAAAAA
Found at i:18582715 original size:30 final size:29
Alignment explanation
Indices: 18582681--18582756 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
18582671 TTTTTTTATA
*
18582681 ATTTTTTCTAATTTTTAATAAAATTTAAAT
1 ATTTTTTATAATTTTTAATAAAATTT-AAT
* * *
18582711 ATTTTGTATAGTTTTTTACTAAAATTTAAT
1 ATTTTTTATA-ATTTTTAATAAAATTTAAT
*
18582741 AATTTTTATAATTTTT
1 ATTTTTTATAATTTTT
18582757 TATTATTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 5 0.13
30 19 0.50
31 14 0.37
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
ATTTTTTATAATTTTTAATAAAATTTAAT
Found at i:18582758 original size:30 final size:30
Alignment explanation
Indices: 18582678--18582758 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
18582668 TGGTTTTTTT
*
18582678 ATAATTTTTTCTAA-TTTTTAATAAAATTTA
1 ATAA-TTTTTATAATTTTTTAATAAAATTTA
* *
18582708 A-ATATTTTGTATAGTTTTTTACTAAAATTTA
1 ATA-ATTTT-TATAATTTTTTAATAAAATTTA
18582739 ATAATTTTTATAATTTTTTA
1 ATAATTTTTATAATTTTTTA
18582759 TTATTTTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
29 5 0.12
30 16 0.37
31 21 0.49
32 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (30 bp):
ATAATTTTTATAATTTTTTAATAAAATTTA
Found at i:18582766 original size:11 final size:10
Alignment explanation
Indices: 18582565--18582767 Score: 77
Period size: 10 Copynumber: 20.7 Consensus size: 10
18582555 TTAGTACAAT
18582565 ATTTTTTATA
1 ATTTTTTATA
*
18582575 ATTTTTTTTA
1 ATTTTTTATA
** *
18582585 CAAATTTTGT-
1 -ATTTTTTATA
*
18582595 ATTTCTTTA-G
1 ATTT-TTTATA
18582605 ATTTTTTATA
1 ATTTTTTATA
*
18582615 ATTTTCTTATG
1 ATTTT-TTATA
*
18582626 A--CTTTATA
1 ATTTTTTATA
**
18582634 AAATTTTAT-
1 ATTTTTTATA
18582643 ATTTTTT-T-
1 ATTTTTTATA
*
18582651 ATATTTTATA
1 ATTTTTTATA
*
18582661 A-TTTTTATGG
1 ATTTTTTAT-A
*
18582671 TTTTTTTATA
1 ATTTTTTATA
*
18582681 ATTTTTTCTA
1 ATTTTTTATA
*
18582691 ATTTTTAATA
1 ATTTTTTATA
**
18582701 A-AATTTA-A
1 ATTTTTTATA
18582709 ATATTTTGTATA
1 AT-TTTT-TATA
*
18582721 GTTTTTTACTA
1 ATTTTTTA-TA
** *
18582732 AAATTTAATA
1 ATTTTTTATA
18582742 A-TTTTTATA
1 ATTTTTTATA
*
18582751 ATTTTTTATT
1 ATTTTTTATA
18582761 ATTTTTT
1 ATTTTTT
18582768 GTCACATGTC
Statistics
Matches: 140, Mismatches: 36, Indels: 34
0.67 0.17 0.16
Matches are distributed among these distances:
8 14 0.10
9 29 0.21
10 65 0.46
11 30 0.21
12 2 0.01
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:18583281 original size:26 final size:26
Alignment explanation
Indices: 18583245--18583298 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
18583235 AGTAAATGAA
* *
18583245 TTTATTTATTTTTCTCAGATTGACAC
1 TTTAGTTATTTATCTCAGATTGACAC
* *
18583271 TTTAGTTATTTATCTTAGATTGATAC
1 TTTAGTTATTTATCTCAGATTGACAC
18583297 TT
1 TT
18583299 AATTTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (26 bp):
TTTAGTTATTTATCTCAGATTGACAC
Found at i:18589873 original size:12 final size:12
Alignment explanation
Indices: 18589856--18589881 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18589846 CATTTTATTT
18589856 AAAAAATTGAAA
1 AAAAAATTGAAA
18589868 AAAAAATTGAAA
1 AAAAAATTGAAA
18589880 AA
1 AA
18589882 GAAGAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAAAATTGAAA
Found at i:18594561 original size:23 final size:23
Alignment explanation
Indices: 18594535--18594609 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
18594525 ACAAATCCTT
18594535 TAAAATAGTAGCAAAACTAATAA
1 TAAAATAGTAGCAAAACTAATAA
** *
18594558 TAAAATAAG-AGTTATAC-AAT-A
1 TAAAAT-AGTAGCAAAACTAATAA
* *
18594579 TCCAAATAATAGCAAAACTAATAA
1 T-AAAATAGTAGCAAAACTAATAA
18594603 TAAAATA
1 TAAAATA
18594610 AGAGTTATAC
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
21 3 0.08
22 12 0.32
23 19 0.50
24 4 0.11
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (23 bp):
TAAAATAGTAGCAAAACTAATAA
Found at i:18594585 original size:22 final size:22
Alignment explanation
Indices: 18594560--18594674 Score: 72
Period size: 22 Copynumber: 5.1 Consensus size: 22
18594550 ACTAATAATA
18594560 AAATAAGAGTTATACAATATCC
1 AAATAAGAGTTATACAATATCC
* ** * *
18594582 AAATAATAGCAAAACTAATAAT-A
1 AAATAAGAGTTATAC-AAT-ATCC
18594605 AAATAAGAGTTATACAATATCC
1 AAATAAGAGTTATACAATATCC
* * ** * *
18594627 AAACAATAGCAAAACTAATAAT-A
1 AAATAAGAGTTATAC-AAT-ATCC
*
18594650 AAATAACAGTTATACAATATCC
1 AAATAAGAGTTATACAATATCC
18594672 AAA
1 AAA
18594675 CAATAATAAC
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
21 4 0.06
22 30 0.46
23 27 0.42
24 4 0.06
ACGTcount: A:0.57, C:0.13, G:0.06, T:0.23
Consensus pattern (22 bp):
AAATAAGAGTTATACAATATCC
Found at i:18594592 original size:45 final size:45
Alignment explanation
Indices: 18594543--18594679 Score: 256
Period size: 45 Copynumber: 3.0 Consensus size: 45
18594533 TTTAAAATAG
*
18594543 TAGCAAAACTAATAATAAAATAAGAGTTATACAATATCCAAATAA
1 TAGCAAAACTAATAATAAAATAAGAGTTATACAATATCCAAACAA
18594588 TAGCAAAACTAATAATAAAATAAGAGTTATACAATATCCAAACAA
1 TAGCAAAACTAATAATAAAATAAGAGTTATACAATATCCAAACAA
*
18594633 TAGCAAAACTAATAATAAAATAACAGTTATACAATATCCAAACAA
1 TAGCAAAACTAATAATAAAATAAGAGTTATACAATATCCAAACAA
18594678 TA
1 TA
18594680 ATAACAAAGT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 90 1.00
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.23
Consensus pattern (45 bp):
TAGCAAAACTAATAATAAAATAAGAGTTATACAATATCCAAACAA
Found at i:18594734 original size:21 final size:21
Alignment explanation
Indices: 18594708--18594749 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18594698 TATAACAGCA
* *
18594708 AAACAACATCAAAATGACAAT
1 AAACAACAACAAAATAACAAT
18594729 AAACAACAACAAAATAACAAT
1 AAACAACAACAAAATAACAAT
18594750 GAAAAAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.19, G:0.02, T:0.12
Consensus pattern (21 bp):
AAACAACAACAAAATAACAAT
Found at i:18598655 original size:28 final size:27
Alignment explanation
Indices: 18598632--18598682 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18598622 ACTTTTGGAT
18598632 ACCCG-GGGGCAAAATGGTAATTTTGG
1 ACCCGCGGGGCAAAATGGTAATTTTGG
* *
18598658 ACTCGCGGGGCAAAATGGTGATTTT
1 ACCCGCGGGGCAAAATGGTAATTTT
18598683 CGGTGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.25
Consensus pattern (27 bp):
ACCCGCGGGGCAAAATGGTAATTTTGG
Found at i:18598796 original size:59 final size:59
Alignment explanation
Indices: 18598664--18598920 Score: 363
Period size: 59 Copynumber: 4.4 Consensus size: 59
18598654 TTGGACTCGC
* * * * * * *
18598664 GGGGCAAAATGGTGATTTTCGGTGAAATCGGGGTC-AAAAGGGAATTTTGGAAAATTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCG
* * * * *
18598722 AGGGTAAAATAGTAATTTTTGGTGAAATCGAGGTCAAAAATGAAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCG
* *
18598781 GGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTGAAAAATGGAATTTTAGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCG
* *
18598840 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTATAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCG
18598899 GGGGTAAAATGGTAATTTTTGG
1 GGGGTAAAATGGTAATTTTTGG
18598921 ACCATCCAGG
Statistics
Matches: 178, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 29 0.16
59 149 0.84
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.31
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCG
Found at i:18598915 original size:29 final size:30
Alignment explanation
Indices: 18598765--18598917 Score: 142
Period size: 29 Copynumber: 5.2 Consensus size: 30
18598755 TCAAAAATGA
*
18598765 AATTTTG-GAAAGTTCGGGGGTAAAATGGT
1 AATTTTGATAAAGTTCGGGGGTAAAATGGT
* * *
18598794 AATTTTTGGTAAA-ATCGGGGTGAAAAATGG-
1 AA-TTTTGATAAAGTTCGGGG-GTAAAATGGT
*
18598824 AATTTT-AGAAAGTTCGGGGGTAAAATGGT
1 AATTTTGATAAAGTTCGGGGGTAAAATGGT
* *
18598853 AATTTTTGGTGAAA--TCGGGGTTAAAAATGG-
1 AA-TTTTGAT-AAAGTTCGGGGGT-AAAATGGT
18598883 AATTTT-ATAAAGTTCGGGGGTAAAATGGT
1 AATTTTGATAAAGTTCGGGGGTAAAATGGT
18598912 AATTTT
1 AATTTT
18598918 TGGACCATCC
Statistics
Matches: 100, Mismatches: 12, Indels: 24
0.74 0.09 0.18
Matches are distributed among these distances:
27 3 0.03
28 19 0.19
29 31 0.31
30 26 0.26
31 18 0.18
32 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.33
Consensus pattern (30 bp):
AATTTTGATAAAGTTCGGGGGTAAAATGGT
Found at i:18599258 original size:32 final size:34
Alignment explanation
Indices: 18599195--18599269 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 34
18599185 TTATCGAGCA
* * *
18599195 AAATTGCAAATAATTAAAAAATGCAGAAAGGACT
1 AAATTGCAAACAAATAAAAAATGCAGAAAGGACC
* *
18599229 AAATTG-AAACAAATAAAAAATTC-GGAAGGACC
1 AAATTGCAAACAAATAAAAAATGCAGAAAGGACC
18599261 AAA-TGCAAA
1 AAATTGCAAA
18599270 AATAAACCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 2 0.06
32 13 0.37
33 14 0.40
34 6 0.17
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (34 bp):
AAATTGCAAACAAATAAAAAATGCAGAAAGGACC
Found at i:18600015 original size:3 final size:3
Alignment explanation
Indices: 18600007--18600058 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
18599997 TAATGCTGTA
18600007 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18600055 ATT A
1 ATT A
18600059 ATGTCATTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18600794 original size:17 final size:18
Alignment explanation
Indices: 18600772--18600816 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
18600762 TTTATATGAG
18600772 TAAATTTAAA-TTTAAAA
1 TAAATTTAAATTTTAAAA
18600789 TAAATTTAAATTTTAAAA
1 TAAATTTAAATTTTAAAA
18600807 TAAATTTAAA
1 TAAATTTAAA
18600817 ACCCATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATTTAAATTTTAAAA
Found at i:18600803 original size:7 final size:6
Alignment explanation
Indices: 18600740--18600816 Score: 52
Period size: 6 Copynumber: 12.8 Consensus size: 6
18600730 TTAAATTTGA
* * * *
18600740 TTAAAC TTAAAT TTAAA- GTAAAT TTATAT GAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
* *
18600788 ATAAAT TTAAATT TTAAA- ATAAAT TTAAA
1 TTAAAT TTAAA-T TTAAAT TTAAAT TTAAA
18600817 ACCCATTTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
5 12 0.22
6 32 0.59
7 6 0.11
8 4 0.07
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:18600812 original size:12 final size:11
Alignment explanation
Indices: 18600778--18600817 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
18600768 TGAGTAAATT
18600778 TAAATTTAAAA
1 TAAATTTAAAA
18600789 TAAATTT-AAA
1 TAAATTTAAAA
18600799 T---TTTAAAA
1 TAAATTTAAAA
18600807 TAAATTTAAAA
1 TAAATTTAAAA
18600818 CCCATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
7 3 0.12
8 4 0.16
10 4 0.16
11 14 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:18602106 original size:59 final size:59
Alignment explanation
Indices: 18601995--18602105 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 59
18601985 TTAATATAAC
*
18601995 ATTTGGTACATGAACTTGACACTTTTTTTCTAATTTGGTACTTAAACTTTTTTGACCCA
1 ATTTGGTACATGAACTTGACACTTTTTTTCTAATTTGGTACCTAAACTTTTTTGACCCA
* * *
18602054 ATTTGGTACCTGAATTTGACAC-TTTTTTCTAATTTGGTACCTAAGCTTTTTT
1 ATTTGGTACATGAACTTGACACTTTTTTTCTAATTTGGTACCTAAACTTTTTT
18602106 TTAAGATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
58 28 0.58
59 20 0.42
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (59 bp):
ATTTGGTACATGAACTTGACACTTTTTTTCTAATTTGGTACCTAAACTTTTTTGACCCA
Found at i:18602946 original size:8 final size:8
Alignment explanation
Indices: 18602928--18602966 Score: 69
Period size: 8 Copynumber: 4.8 Consensus size: 8
18602918 AAGTATACTT
18602928 CTACTATTA
1 CTAC-ATTA
18602937 CTACATTA
1 CTACATTA
18602945 CTACATTA
1 CTACATTA
18602953 CTACATTA
1 CTACATTA
18602961 CTACAT
1 CTACAT
18602967 GACTTCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 26 0.87
9 4 0.13
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (8 bp):
CTACATTA
Found at i:18604406 original size:20 final size:20
Alignment explanation
Indices: 18604378--18604415 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18604368 TAAATAATAT
18604378 TCAAGTTTTAAATTTTAAGA
1 TCAAGTTTTAAATTTTAAGA
* *
18604398 TCAATTTTTAATTTTTAA
1 TCAAGTTTTAAATTTTAA
18604416 TTATTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
TCAAGTTTTAAATTTTAAGA
Found at i:18605560 original size:35 final size:35
Alignment explanation
Indices: 18605516--18605587 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
18605506 AAATTCATTC
18605516 TTCCAATATGATCATATTTTATATCATGGTAACCA
1 TTCCAATATGATCATATTTTATATCATGGTAACCA
* *
18605551 TTCCTATATGATCCTATTTTATATCATGGTAACCA
1 TTCCAATATGATCATATTTTATATCATGGTAACCA
18605586 TT
1 TT
18605588 ACATATTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (35 bp):
TTCCAATATGATCATATTTTATATCATGGTAACCA
Found at i:18620727 original size:15 final size:15
Alignment explanation
Indices: 18620707--18620736 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18620697 TTGAATAGGT
18620707 CATCTACGTCAATTC
1 CATCTACGTCAATTC
18620722 CATCTACGTCAATTC
1 CATCTACGTCAATTC
18620737 TGTCAGACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.07, T:0.33
Consensus pattern (15 bp):
CATCTACGTCAATTC
Found at i:18621193 original size:27 final size:28
Alignment explanation
Indices: 18621100--18621248 Score: 169
Period size: 28 Copynumber: 5.4 Consensus size: 28
18621090 TCACATGAAG
*
18621100 GCCTTTGTGGCTGATTATGTTAAAGGAA
1 GCCTTTGTGGCTAATTATGTTAAAGGAA
** * *
18621128 GTTTTTGTGGCCAATTTTGTTAAAGGAA
1 GCCTTTGTGGCTAATTATGTTAAAGGAA
* *
18621156 GCCTTTATGGCTAATTCTGTTAAA-GAA
1 GCCTTTGTGGCTAATTATGTTAAAGGAA
*
18621183 GCCTTTGTGGCTAATTCTGTTAAAGG-A
1 GCCTTTGTGGCTAATTATGTTAAAGGAA
* * *
18621210 G-CTTTCATGACTAATTATGTTAAAGGAT
1 GCCTTT-GTGGCTAATTATGTTAAAGGAA
18621238 GCCTTTGTGGC
1 GCCTTTGTGGC
18621249 GAATGTAAAG
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.04
27 45 0.45
28 47 0.47
29 4 0.04
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (28 bp):
GCCTTTGTGGCTAATTATGTTAAAGGAA
Found at i:18621242 original size:55 final size:56
Alignment explanation
Indices: 18621113--18621248 Score: 179
Period size: 55 Copynumber: 2.5 Consensus size: 56
18621103 TTTGTGGCTG
** * *
18621113 ATTATGTTAAAGGAAGTTTTTGTGGCCAATTTTGTTAAAGGAAGCCTTTATGGCTA
1 ATTATGTTAAAGGAAGCCTTTGTGGCCAATTCTGTTAAAGGAAGCCTTTATGACTA
* *
18621169 ATTCTGTTAAA-GAAGCCTTTGTGGCTAATTCTGTTAAAGG-AG-CTTTCATGACTA
1 ATTATGTTAAAGGAAGCCTTTGTGGCCAATTCTGTTAAAGGAAGCCTTT-ATGACTA
*
18621223 ATTATGTTAAAGGATGCCTTTGTGGC
1 ATTATGTTAAAGGAAGCCTTTGTGGC
18621249 GAATGTAAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.06
54 18 0.26
55 38 0.54
56 10 0.14
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (56 bp):
ATTATGTTAAAGGAAGCCTTTGTGGCCAATTCTGTTAAAGGAAGCCTTTATGACTA
Found at i:18624766 original size:158 final size:157
Alignment explanation
Indices: 18624478--18624939 Score: 681
Period size: 158 Copynumber: 2.9 Consensus size: 157
18624468 TTACAGTTCC
* * * * * *
18624478 GGGTGCTGGTCTTGGATGTCCTACCTATGGTTGAGGTCTTGCATTTGTTGCGGATTCTCTACAGC
1 GGGTGTTGGTCTTAGATGTCCTA-CGATGGCTGAGGTCCTGCATTTGTTGCGGATTCTCCACAGC
* * ** *
18624543 TCGTGTGAGTAGCAACGTGTAGCCTAACATCCCAACCCACAACTCGTGTGAGCAGACCCATTTCA
65 TCGTGTGAGCAGCATCGTGTAGCCTAACATTTCAACCCACAGCTCGTGTGAGCAGACCCATTTCA
*
18624608 CAGCTCGTGTGAGCATTATAGGTTATAT
130 CAGCTCGTGTGAGCATTACAGGTTATAT
18624636 GGGTGTTGGTCTTAGATGTCCTATCGATGGCTGAGGTCCTGCATTTGTTGCGGATTCTCCACAGC
1 GGGTGTTGGTCTTAGATGTCCTA-CGATGGCTGAGGTCCTGCATTTGTTGCGGATTCTCCACAGC
* *
18624701 TCGTGTGAGCAGCATCGTGTAGCCTAACATTTCGACCCATAGCTCGTGTGAGCAGACCCATTTCA
65 TCGTGTGAGCAGCATCGTGTAGCCTAACATTTCAACCCACAGCTCGTGTGAGCAGACCCATTTCA
* *
18624766 CAGCTCATGTGAGCGTTACAGGTTATAT
130 CAGCTCGTGTGAGCATTACAGGTTATAT
** * * *
18624794 AAGTGTTGGTCTTAGATGTCCTACTGATGGCCGTGGTCCTGCATTTGTTACGGATTCTCCACAGC
1 GGGTGTTGGTCTTAGATGTCCTAC-GATGGCTGAGGTCCTGCATTTGTTGCGGATTCTCCACAGC
* *
18624859 TCGTGTGAGCAGCATCGTGTAGCCTAACATTTCAACCCACAGCTTGTGTGAGCAGGCCCATTTCA
65 TCGTGTGAGCAGCATCGTGTAGCCTAACATTTCAACCCACAGCTCGTGTGAGCAGACCCATTTCA
*
18624924 CAGCTTGTGTGAGCAT
130 CAGCTCGTGTGAGCAT
18624940 AAATGGTTAC
Statistics
Matches: 274, Mismatches: 29, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
157 1 0.00
158 273 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (157 bp):
GGGTGTTGGTCTTAGATGTCCTACGATGGCTGAGGTCCTGCATTTGTTGCGGATTCTCCACAGCT
CGTGTGAGCAGCATCGTGTAGCCTAACATTTCAACCCACAGCTCGTGTGAGCAGACCCATTTCAC
AGCTCGTGTGAGCATTACAGGTTATAT
Found at i:18629439 original size:8 final size:8
Alignment explanation
Indices: 18629420--18629457 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
18629410 TTAATTTTTA
18629420 AAAAATTT
1 AAAAATTT
18629428 -AAAATTT
1 AAAAATTT
18629435 AAAAATTT
1 AAAAATTT
18629443 AAAAAAATTT
1 --AAAAATTT
18629453 AAAAA
1 AAAAA
18629458 ATTCTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 7 0.26
8 12 0.44
10 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAAATTT
Found at i:18629465 original size:10 final size:9
Alignment explanation
Indices: 18629416--18629466 Score: 63
Period size: 10 Copynumber: 5.8 Consensus size: 9
18629406 TTAATTAATT
18629416 TTTAAAAAA
1 TTTAAAAAA
18629425 TTT--AAAA
1 TTTAAAAAA
18629432 TTT-AAAAA
1 TTTAAAAAA
18629440 TTTAAAAAAA
1 TTT-AAAAAA
18629450 TTTAAAAAA
1 TTTAAAAAA
18629459 TTCTAAAA
1 TT-TAAAA
18629467 TTATTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.18
8 7 0.18
9 11 0.29
10 13 0.34
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:18630043 original size:175 final size:179
Alignment explanation
Indices: 18629733--18630073 Score: 462
Period size: 175 Copynumber: 1.9 Consensus size: 179
18629723 TCAATTGAAC
* * ** *
18629733 ACTTGAACTGTTAAAGTACATAAAAAAGACTCTCAATTTTTTTTAAAAACAACAATTAAGCCTCT
1 ACTTGAACTGTCAAAGTACATAAAAAAGACCCTCAAACTTTTTCAAAAACAACAATTAAGCCTCT
* *
18629798 ACTCTCTTTTTTTTGCACTCAATCGGGTCATTGAGCTGCCAAAATGCAACAAAAAAGCCCTCAAA
66 ACTCTCTTTTTTTTGCACTCAATCGGATCATTGAACTGCCAAAATGCAACAAAAAAGCCCTCAAA
*
18629863 C-TTTTTTAAAAAAGCAATTAAGC-CCTTGCTTTTTTTTACTCAACTGAGT
131 CTTTTTTTAAAAAA-CAATTAAGCTCC-TGATTTTTTTTACTCAACTGAGT
* *
18629912 ACTTGAACTGTCAAAGTACATAAAAAAGGCCCTTAAACTTTTTCAAAAACAACAATTAAG-C-CT
1 ACTTGAACTGTCAAAGTACATAAAAAAGACCCTCAAACTTTTTCAAAAACAACAATTAAGCCTCT
* * * * *
18629975 A-TGT-TTTTTTTTGCACTCAATCGGAT-ACTTGAACTGTCAAAATGCATCAAAAAAGCCCTTAG
66 ACTCTCTTTTTTTTGCACTCAATCGGATCA-TTGAACTGCCAAAATGCAACAAAAAAGCCCTCAA
*
18630037 ACTTTTTTTAAAAAATAATTAAGCTCCTGATTTTTTT
130 ACTTTTTTTAAAAAACAATTAAGCTCCTGATTTTTTT
18630074 GCATTCAATT
Statistics
Matches: 143, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
174 1 0.01
175 69 0.48
176 16 0.11
177 3 0.02
178 1 0.01
179 53 0.37
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (179 bp):
ACTTGAACTGTCAAAGTACATAAAAAAGACCCTCAAACTTTTTCAAAAACAACAATTAAGCCTCT
ACTCTCTTTTTTTTGCACTCAATCGGATCATTGAACTGCCAAAATGCAACAAAAAAGCCCTCAAA
CTTTTTTTAAAAAACAATTAAGCTCCTGATTTTTTTTACTCAACTGAGT
Found at i:18630242 original size:29 final size:27
Alignment explanation
Indices: 18630209--18630294 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 27
18630199 TTGTAAAATT
18630209 TTATAAAAATCGTAAGAAAATTATAAAA
1 TTATAAAAAT-GTAAGAAAATTATAAAA
* * *
18630237 TATATAGAAATATAAAAAAATTTATAAAA
1 T-TATAAAAATGTAAGAAAA-TTATAAAA
* **
18630266 TTGTATTAAGTTGTAAGAAAATTATAAAA
1 -T-TATAAAAATGTAAGAAAATTATAAAA
18630295 AATGTAAAGA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 8 0.18
29 24 0.53
30 13 0.29
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (27 bp):
TTATAAAAATGTAAGAAAATTATAAAA
Found at i:18630544 original size:9 final size:9
Alignment explanation
Indices: 18630518--18630665 Score: 64
Period size: 9 Copynumber: 15.4 Consensus size: 9
18630508 TTTTGATGCA
18630518 TTTTATAATT
1 TTTTATAA-T
18630528 TGTTTATAAT
1 T-TTTATAAT
*
18630538 TTTTATAAAA
1 TTTTAT-AAT
* *
18630548 GTTTAAAATT
1 TTTTATAA-T
*
18630558 TTTTATATT
1 TTTTATAAT
*
18630567 TTTTACAAT
1 TTTTATAAT
*
18630576 TTTTATAAAAG
1 TTTTAT--AAT
** * *
18630587 AATTCTATT
1 TTTTATAAT
*
18630596 TTTTAATAAA
1 TTTT-ATAAT
18630606 TTTTAT-AT
1 TTTTATAAT
*
18630614 TTTTACTAAAA
1 TTTTA-T-AAT
*
18630625 TTTAATAAT
1 TTTTATAAT
18630634 TTTTATAAT
1 TTTTATAAT
*
18630643 TTTTACTGAT
1 TTTTA-TAAT
*
18630653 TTTTATAGT
1 TTTTATAAT
18630662 TTTT
1 TTTT
18630666 TCCACATGTC
Statistics
Matches: 99, Mismatches: 29, Indels: 21
0.66 0.19 0.14
Matches are distributed among these distances:
8 6 0.06
9 47 0.47
10 29 0.29
11 17 0.17
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:18630551 original size:19 final size:19
Alignment explanation
Indices: 18630529--18630641 Score: 72
Period size: 19 Copynumber: 5.9 Consensus size: 19
18630519 TTTATAATTT
18630529 GTTTATAATTTTTATAAAA
1 GTTTATAATTTTTATAAAA
* **
18630548 GTTTAAAATTTTT-TATATT
1 GTTTATAATTTTTATA-AAA
* *
18630567 TTTTACAATTTTTATAAAA
1 GTTTATAATTTTTATAAAA
* * *
18630586 GAATTCTATTTTTTA-ATAAA
1 G-TTTATAATTTTTATA-AAA
*
18630606 TTTTAT-ATTTTTACTAAAA
1 GTTTATAATTTTTA-TAAAA
18630625 -TTTAATAATTTTTATAA
1 GTTT-ATAATTTTTATAA
18630642 TTTTTACTGA
Statistics
Matches: 70, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
18 11 0.16
19 37 0.53
20 22 0.31
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
GTTTATAATTTTTATAAAA
Found at i:18630577 original size:38 final size:38
Alignment explanation
Indices: 18630518--18630659 Score: 121
Period size: 38 Copynumber: 3.7 Consensus size: 38
18630508 TTTTGATGCA
*
18630518 TTTTATAATTTGTTTATAATTTTTATAAAAGTTTAAAATT
1 TTTTATAA-TT-TTTACAATTTTTATAAAAGTTTAAAATT
* * **
18630558 TTTTATATTTTTTACAATTTTTATAAAAGAATT-CTATT
1 TTTTATAATTTTTACAATTTTTATAAAAG-TTTAAAATT
* *
18630596 TTTTAATAAATTTTA-TATTTTTACTAAAA-TTTAATAA-T
1 TTTT-ATAATTTTTACAATTTTTA-TAAAAGTTTAA-AATT
*
18630634 TTTTATAATTTTTACTGATTTTTATA
1 TTTTATAATTTTTAC-AATTTTTATA
18630660 GTTTTTTCCA
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
37 11 0.13
38 39 0.48
39 25 0.30
40 7 0.09
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (38 bp):
TTTTATAATTTTTACAATTTTTATAAAAGTTTAAAATT
Found at i:18630638 original size:10 final size:10
Alignment explanation
Indices: 18630595--18630657 Score: 51
Period size: 10 Copynumber: 6.6 Consensus size: 10
18630585 AGAATTCTAT
18630595 TTTTTAATAA
1 TTTTTAATAA
*
18630605 ATTTT-AT-A
1 TTTTTAATAA
*
18630613 TTTTTACTAA
1 TTTTTAATAA
**
18630623 AATTTAATAA
1 TTTTTAATAA
18630633 TTTTT-ATAA
1 TTTTTAATAA
* *
18630642 TTTTTACTGA
1 TTTTTAATAA
18630652 TTTTTA
1 TTTTTA
18630658 TAGTTTTTTC
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
8 5 0.12
9 12 0.30
10 23 0.57
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:18630647 original size:19 final size:18
Alignment explanation
Indices: 18630595--18630659 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
18630585 AGAATTCTAT
18630595 TTTTTAATAAATTTT-ATA
1 TTTTT-ATAAATTTTAATA
*
18630613 TTTTTACTAAAATTTAATAA
1 TTTTTA-TAAATTTTAAT-A
* *
18630633 TTTTTATAATTTTTACTGA
1 TTTTTATAAATTTTAAT-A
18630652 TTTTTATA
1 TTTTTATA
18630660 GTTTTTTCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 12 0.31
19 19 0.49
20 7 0.18
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTATAAATTTTAATA
Found at i:18631453 original size:32 final size:32
Alignment explanation
Indices: 18631412--18631472 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
18631402 AAACTGTTAT
*
18631412 TTTTTTTACTATTTTCTTGTTGTTTTTTCTTC
1 TTTTTTTACTATTTTCTTGTTGTCTTTTCTTC
18631444 TTTTTTTACTATTTTCTTGTTGTCTTTTC
1 TTTTTTTACTATTTTCTTGTTGTCTTTTC
18631473 ACAATTTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.74
Consensus pattern (32 bp):
TTTTTTTACTATTTTCTTGTTGTCTTTTCTTC
Found at i:18637995 original size:18 final size:19
Alignment explanation
Indices: 18637974--18638022 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
18637964 CGTTTTGTTT
*
18637974 TTTGCTGGTTTTTTCT-TC
1 TTTGCTGGTTTTTCCTATC
18637992 TTTGCTGGTTTTTCCTATC
1 TTTGCTGGTTTTTCCTATC
*
18638011 TTTGCTAGTTTT
1 TTTGCTGGTTTT
18638023 CTTTAATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.04, C:0.16, G:0.16, T:0.63
Consensus pattern (19 bp):
TTTGCTGGTTTTTCCTATC
Found at i:18638509 original size:201 final size:202
Alignment explanation
Indices: 18638164--18638567 Score: 666
Period size: 201 Copynumber: 2.0 Consensus size: 202
18638154 TGGAGTAATA
* * * *
18638164 ATTCCAACAGTTTAGGACAATCCTTCAACGGTTTTAAGATTAACCACAAGGATGTAATGCCCCAC
1 ATTCCAACAATTAAGGACAATCCTCCAACGGTCTTAAGATTAACCACAAGGATGTAATGCCCCAC
* *
18638229 CTTAGCTATACTATTAAGTGTAAAAGCTGTTAGAATTGTGTGATGCGAATTCTTATAAAAGAAAA
66 CTTAGCTATACTATTAAGTGCAAAAGCTGTTAGAATTGTGTGAGGCGAATTCTTATAAAAGAAAA
* *
18638294 ATACAGTGGCAAAATTAA-GGGTCTGTGTGGGGTATAAAACAACACTTCATTGATTTTACATTGA
131 ATACAGTGGCAAAATTAAGGGGTCTATGTGGGGTATAAAACAACACTTCATTGATTTCACATTGA
18638358 TTAAAAT
196 TTAAAAT
*
18638365 ATTCCAACAATTAAGGACAATTCTCCAACGGTCTTAAGATTAACCACAAGGATGTAATGCCCCAC
1 ATTCCAACAATTAAGGACAATCCTCCAACGGTCTTAAGATTAACCACAAGGATGTAATGCCCCAC
* *
18638430 CTTAGCTATACTATTAAGTGCAAAAGCTGTTAGAATTGTGTGAGGTGAATTCTTATTAAAGAAAA
66 CTTAGCTATACTATTAAGTGCAAAAGCTGTTAGAATTGTGTGAGGCGAATTCTTATAAAAGAAAA
* * *
18638495 ATACAGTGGCAAAATTAAGGGGTTTATGTGGGGTATAGAACTACACTTCATTGATTTCACATTGA
131 ATACAGTGGCAAAATTAAGGGGTCTATGTGGGGTATAAAACAACACTTCATTGATTTCACATTGA
*
18638560 TTAGAAT
196 TTAAAAT
18638567 A
1 A
18638568 AGATTTTTCA
Statistics
Matches: 187, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
201 139 0.74
202 48 0.26
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (202 bp):
ATTCCAACAATTAAGGACAATCCTCCAACGGTCTTAAGATTAACCACAAGGATGTAATGCCCCAC
CTTAGCTATACTATTAAGTGCAAAAGCTGTTAGAATTGTGTGAGGCGAATTCTTATAAAAGAAAA
ATACAGTGGCAAAATTAAGGGGTCTATGTGGGGTATAAAACAACACTTCATTGATTTCACATTGA
TTAAAAT
Found at i:18639780 original size:17 final size:17
Alignment explanation
Indices: 18639729--18639780 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
18639719 AATTAAATGT
*
18639729 CCAAGTCCAAATTACAGAC
1 CCAAGCCCAAATTAC--AC
*
18639748 CCAATACCCAAA-TACAC
1 CCAA-GCCCAAATTACAC
18639765 CCAAGCCCAAATTACA
1 CCAAGCCCAAATTACA
18639781 AAACTACCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 6 0.21
17 10 0.36
19 7 0.25
20 5 0.18
ACGTcount: A:0.44, C:0.37, G:0.06, T:0.13
Consensus pattern (17 bp):
CCAAGCCCAAATTACAC
Found at i:18639874 original size:14 final size:14
Alignment explanation
Indices: 18639855--18639881 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18639845 AACCGCCATC
18639855 GCCACGTCAGCACT
1 GCCACGTCAGCACT
18639869 GCCACGTCAGCAC
1 GCCACGTCAGCAC
18639882 CACGTCACCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.44, G:0.22, T:0.11
Consensus pattern (14 bp):
GCCACGTCAGCACT
Found at i:18653701 original size:195 final size:196
Alignment explanation
Indices: 18653369--18653789 Score: 623
Period size: 195 Copynumber: 2.2 Consensus size: 196
18653359 TGAAGACACA
* * **
18653369 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAATACCACGAAGATAACGGAGGGAAAGGTTTAA
1 AAGGGAAAGATTTAAGCCGCAACGGTGAATCCAAAACCACGAAGATAACAAAGGGAAAGGTTTAA
* *
18653434 GTCGCAACGATGAACCTTGTACTTCAGAAAATGAAGGGAAAGATTTAAGCCGCAACGACGAATCT
66 GTCGCAACGATAAACCTTGTACCTCAGAAAATGAAGGGAAAGATTTAAGCCGCAACGACGAATCT
* *
18653499 AGTACCACGAAGATGCAAATGAAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCA-AAAAAT
131 AGTACCACGAAGATACAAAGGAAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAAAAT
18653563 G
196 G
* * *
18653564 AAGGGAAAGATTTAAGCAGCAACGGTGAATCCAAAACCACGAAGAT-GCAAAGGGAATGGTTTAA
1 AAGGGAAAGATTTAAGCCGCAACGGTGAATCCAAAACCACGAAGATAACAAAGGGAAAGGTTTAA
* * *
18653628 GTCGCAACGGTAAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATC
66 GTCGCAACGATAAACCTTGTACCTCAGAA-AATGAAGGGAAAGATTTAAGCCGCAACGACGAATC
* * * * *
18653693 TAGTACCACGAAGATACAAAGGAAAAGGTTTAAGTCGCAACGGTGAACCTTGTACCTCAGAGACA
130 TAGTACCACGAAGATACAAAGGAAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAAAA
18653758 TG
195 TG
*
18653760 AAGGGAAAAATTTCAA-CCGCAACGGTGAAT
1 AAGGGAAAGATTT-AAGCCGCAACGGTGAAT
18653790 TTAGTATCAT
Statistics
Matches: 202, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
194 40 0.20
195 130 0.64
196 30 0.15
197 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.17
Consensus pattern (196 bp):
AAGGGAAAGATTTAAGCCGCAACGGTGAATCCAAAACCACGAAGATAACAAAGGGAAAGGTTTAA
GTCGCAACGATAAACCTTGTACCTCAGAAAATGAAGGGAAAGATTTAAGCCGCAACGACGAATCT
AGTACCACGAAGATACAAAGGAAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAAAAT
G
Done.