Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 119 of 310
Found at i:38174482 original size:15 final size:16
Alignment explanation
Indices: 38174442--38174483 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
38174432 AAACTTAAAA
38174442 CAAAATATTTT-TTAT
1 CAAAATATTTTATTAT
*
38174457 AAAAATA-TTTATT-T
1 CAAAATATTTTATTAT
38174471 CAAAATATTTTAT
1 CAAAATATTTTAT
38174484 GGACATTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
CAAAATATTTTATTAT
Found at i:38175760 original size:592 final size:588
Alignment explanation
Indices: 38173693--38176491 Score: 3214
Period size: 592 Copynumber: 4.7 Consensus size: 588
38173683 AAGATAATTT
* * * **
38173693 TTTTCAAATATTCTAAGGTAGGTTAAAAAGGTAGTCCAATAGAGGTATAGCGGTAGCGAACTAGC
1 TTTTCTAATATTCTAAGATAGGTTAAAAA-GTAGTCCAGTAGAGGTATAGCGACAGCGAA-TAGC
* * * * * * *
38173758 GATACT-AACATCTTGAAATTGTAAAACACCTTATTATTTTTTAACTACAGTATCATTATAAGGT
64 GGTAGTGAA-ATCTTGAAATTGTAAAACACCTCACTCTTTTTTACCTACAGTATCATTACAAGGT
* * ** *
38173822 GTTATCAGAGCACTTTTAAATTTAAGACGAAATATTTCTTTTATAAAAATATTTA-TTTCGCAAT
128 GTTATCGGAGCACTTTTAAACTTAAGAAAAAATATTTCTTTTATAAAAATATTTATTTTC-AAAT
* *
38173886 ATTTTATGGACATTATCAAATCATAAAACAAATATTTAGAACTCTTTATCTTAACTCAAAGTTAT
192 ATTTTATGGACATTATCAAATCATAAAACGAATATTTAAAACTCTTTA-CTTAACTCAAAGTTAT
* ** * * *
38173951 ACGAAGTATTCAAAGCTCCTTTATTTAACTCAATATTATATAGGTAGAGAAAAATAAAAGTTATG
256 ACGAAGTATTTAAAGCTCCTTTATTTAACTCAAGGTTATACAAGTAGAGAAAAATAAAAGTTTTG
*
38174016 CTAAGAATTAAAACTTAAATAACCTAAATAAAATTATAGAAATAAGATAGAATCAATTTGGAGAC
321 CTAAGAATTAAAACTTAAATAACCTAAATAAAATTATAGATATAAGATAGAATCAATTTGGAGAC
* * **
38174081 TTTAAAATCATATTAAAATCATTTAAAAACATTTTTC-AGATGATCAGAGATGTCTGAA-GTTGA
386 TTTAAAATCATATTAAAACCATTTAAAATCATTTTTCAAG-TGATTGGAGATGTCT-AAGGTTGA
** *
38174144 GTATGAACTTTTGCGAGCTCAAAACGACCAAAACAACGCAGGAGCTTTTGTCCAGGGGATAGGTA
449 GTATGAACTTCGGCGAGCTCAAAACAACCAAAACAACGCAGGAGC-TTTGTCCAGGGGATAGGTA
* *
38174209 TTGATATTTATTTTTGTTCTATTTTT-GAAGATTTTGAGCCTTGATGAAGCACCCTAAGCTGCAA
513 TTGATATTTATTTTTGTTCT-TTTTTGGAAGATTTTGAGCCTT-ACGAAGCACCCTAAGCTGCCA
38174273 CGTGAGATAAAAA
576 CGTGAGATAAAAA
* * * ** * *
38174286 TTTTCTAATATTTTAAGATAGGTTAAAAAGCTGGTCCTGTAGAGACATAGCGACAGTGGAATAAC
1 TTTTCTAATATTCTAAGATAGGTTAAAAAG-TAGTCCAGTAGAGGTATAGCGACAG-CGAATAGC
* * **
38174351 GGTAGTGGAATCTTGAAATCGTAAAACACCTCACT-TCTTTTTACCTGTAGTATCATTACAAGGT
64 GGTAGTGAAATCTTGAAATTGTAAAACACCTCACTCT-TTTTTACCTACAGTATCATTACAAGGT
*
38174415 GTTATCAGG-GTACTTTTAAACTTAA-AACAAAATA-TT-TTTTATAAAAATATTTA-TTTCAAA
128 GTTATC-GGAGCACTTTTAAACTTAAGAA-AAAATATTTCTTTTATAAAAATATTTATTTTC-AA
*
38174475 ATATTTTATGGACATTATCAAATCATAAAACGAATATTTAAAACTCTGTAAC-T-ACTCAAAGTT
190 ATATTTTATGGACATTATCAAATCATAAAACGAATATTTAAAACTCT-TTACTTAACTCAAAGTT
* * ** * ** ** *
38174538 ATACTAAGTATTTAAAGTTCCTTTGCTTAACTCAGGGTTATATGAGTTTAGAAAAATAAAAGTTC
254 ATACGAAGTATTTAAAGCTCCTTTATTTAACTCAAGGTTATACAAGTAGAGAAAAATAAAAGTTT
* * * * * *
38174603 TACTAAGAACTAAAACTTAATTAACCTCAATAAAATTATAGATCTAAGATAGAATAAATTTGGAG
319 TGCTAAGAATTAAAACTTAAATAACCTAAATAAAATTATAGATATAAGATAGAATCAATTTGGAG
* * * *
38174668 ACTTTAAAATCATATTAAGACCATTTAAAATAATTTTT-AAGGTGATTGTAGGTGTCTAAGGTTG
384 ACTTTAAAATCATATTAAAACCATTTAAAATCATTTTTCAA-GTGATTGGAGATGTCTAAGGTTG
* * * * * * * *
38174732 AGCATGAATTTCAGCTAGCTAAAAACAACCAAAACAATGTAGGAGCTTTGTCCAGGAGATAGGTA
448 AGTATGAACTTCGGCGAGCTCAAAACAACCAAAACAACGCAGGAGCTTTGTCCAGGGGATAGGTA
* * * * * *
38174797 TTGTTATTTATTTATTTTTATTCTTTTTTGGAAGATTTTGAGACACATA-GAAGTA-CTTTA-TT
513 TTG--A--TATTTATTTTTGTTCTTTTTTGGAAGATTTTGAG-C-CTTACGAAGCACCCTAAGCT
*
38174859 TCCACGTGAGATAAAAA
572 GCCACGTGAGATAAAAA
* * * * * *
38174876 ATTTCTAATATTCTAAAATAGGTAAAAAAAAAGTAATGGTCCAGTAGAGATATACCGACAGCAAA
1 TTTTCTAATATTCTAAGATAGGT---TAAAAAGT-A--GTCCAGTAGAGGTATAGCGACAGC-GA
* **
38174941 ATAACAATAGTGAAATCTTGAAATTGTAAAACACCTCACTC-TTTTTACCTACAGTATCATTACA
59 ATAGCGGTAGTGAAATCTTGAAATTGTAAAACACCTCACTCTTTTTTACCTACAGTATCATTACA
* * *
38175005 AGGTGTTATCGGAGCACATTTAAACATAAGACCAAAAT-TTTCTTTTATAAAAATATTTA-TTTC
124 AGGTGTTATCGGAGCACTTTTAAACTTAAGA-AAAAATATTTCTTTTATAAAAATATTTATTTTC
* * *
38175068 ACAATTTTTTATGGACATTATCACATCATAAAACGAATATTTAAAACTCTTCAACTTAACTCAAA
188 A-AATATTTTATGGACATTATCAAATCATAAAACGAATATTTAAAACTCTT-TACTTAACTCAAA
* * * * * *
38175133 GTTATACGGAGTATTTGAAGCTCATTTACTTAACTCAAGGTTATACAAGTAGAGAAAGATAAATG
251 GTTATACGAAGTATTTAAAGCTCCTTTATTTAACTCAAGGTTATACAAGTAGAGAAAAATAAAAG
* * * * *
38175198 TTTTGCTAAGAATTAAAACTTAAATAACCAAAATCAAATTATAGATATGAGATGGAATTAATTTA
316 TTTTGCTAAGAATTAAAACTTAAATAACCTAAATAAAATTATAGATATAAGATAGAATCAATTT-
* * *
38175263 GG-TACTTTAAAATCATATTAAAACCATTTAAAATCAGTTTTCAAGTGATTGGAAGA-ATCTAAG
380 GGAGACTTTAAAATCATATTAAAACCATTTAAAATCATTTTTCAAGTGATTGG-AGATGTCTAAG
* *
38175326 GTTGAGTATGAACTTCGGCGAGCTCAAAACAACCAAAACAACGCATGAGCTTTGTCTAGGGGATA
444 GTTGAGTATGAACTTCGGCGAGCTCAAAACAACCAAAACAACGCAGGAGCTTTGTCCAGGGGATA
* * * ** * *
38175391 TGTATTGATATTAATTTTTGTTCTTTCTTGGAATCTTTTCAGCCGTTACGAAGCACCATAAGCTG
509 GGTATTGATATTTATTTTTGTTCTTTTTTGGAAGATTTTGAGCC-TTACGAAGCACCCTAAGCTG
****
38175456 CCACGTGAGATATTTT
573 CCACGTGAGATAAAAA
* * * * *
38175472 TTTTCAAATATTCTGAGATAGGTTTAAAAAGTAGCCCAGTAGAGGTATAGCGGCAGCGAACTAGG
1 TTTTCTAATATTCTAAGATAGG-TTAAAAAGTAGTCCAGTAGAGGTATAGCGACAGCGAA-TAGC
* ** * *
38175537 GGTACTGCCATCTTGAAATTGTAAAACACCTTACTCTTTTTTACCTACAGTGTCATTACAAGGTG
64 GGTAGTGAAATCTTGAAATTGTAAAACACCTCACTCTTTTTTACCTACAGTATCATTACAAGGTG
* *
38175602 TTATCGGAGCACTTTTAAACTTAAGAAAAAATATTTCCTTTATAAAAATATTTATTTTGAAATAT
129 TTATCGGAGCACTTTTAAACTTAAGAAAAAATATTTCTTTTATAAAAATATTTATTTTCAAATAT
* * * *
38175667 TTTATGGACATTATCAAATCATAAAACAAATATTGAAAACTTTTTATTTTAACTCAAAGTTATAC
194 TTTATGGACATTATCAAATCATAAAACGAATATTTAAAACTCTTTA-CTTAACTCAAAGTTATAC
* * * *
38175732 AAAGTATTTAAAGCTCCTTTATTTAACTC-AGGATTATACACGTAAAGAAAGATAAAAGTTTTGC
258 GAAGTATTTAAAGCTCCTTTATTTAACTCAAGG-TTATACAAGTAGAGAAAAATAAAAGTTTTGC
* * * *
38175796 TAAGAATTGAAACTTAAATAACCTAAATAGAATTATAGAAATAAGATAGAACCAATTTGGAGACT
322 TAAGAATTAAAACTTAAATAACCTAAATAAAATTATAGATATAAGATAGAATCAATTTGGAGACT
* * * *
38175861 TTAAAATCATATTAAAACCATTTAAAAACATTTTT-AGGTGATCT-GAGATGTTTGAGGTTGAGT
387 TTAAAATCATATTAAAACCATTTAAAATCATTTTTCAAGTGAT-TGGAGATGTCTAAGGTTGAGT
* * * * *
38175924 ATGAACTTCGGTGAGCTCAAAACAACCAAAATAGCGTAGGAGCTTTATCCAGGGGATAGGTATTG
451 ATGAACTTCGGCGAGCTCAAAACAACCAAAACAACGCAGGAGCTTTGTCCAGGGGATAGGTATTG
** * * *
38175989 ATATTTATTTTTGTTCCTTTTTTTTAAAGATTTTGAGTCGC-GACAAAGCACCCTAAGCTACCAC
516 ATATTTATTTTTGTT-C-TTTTTTGGAAGATTTTGAG-C-CTTACGAAGCACCCTAAGCTGCCAC
38176053 GTGAGATAAAAA
577 GTGAGATAAAAA
* * * ** * *
38176065 TTTTCTAATATTCTAAGATAGGTTAAAAACTGGTCCAGTAGAGGCATAATGACAGCGGAT-GTGG
1 TTTTCTAATATTCTAAGATAGGTTAAAAAGTAGTCCAGTAGAGGTATAGCGACAGCGAATAGCGG
* * * * *
38176129 TAGTGGAATCTTGAAATTGTAAAACAACTAACTCCTTTTTACCTTACAGTATCATTATAAGGTGT
66 TAGTGAAATCTTGAAATTGTAAAACACCTCACTCTTTTTTACC-TACAGTATCATTACAAGGTGT
* * **
38176194 TATCAGAGTACTTTTAAACTTAAGATGAAAT-TTTCTTTTATAAAAATATTTA-TTTCACAATAT
130 TATCGGAGCACTTTTAAACTTAAGAAAAAATATTTCTTTTATAAAAATATTTATTTTCA-AATAT
** *
38176257 TTTATGGACATTATCAAATCATAAAGTGAATATTTAAAACTCTTTAGC-T-ACTAAAAGTTATAC
194 TTTATGGACATTATCAAATCATAAAACGAATATTTAAAACTCTTTA-CTTAACTCAAAGTTATAC
* * * * *
38176320 TG-AGTATTTAAAGCTCCTTTGTTTAACTCAGGGTTATACGAGTTGAGACAAATAAAAGTTTTGC
258 -GAAGTATTTAAAGCTCCTTTATTTAACTCAAGGTTATACAAGTAGAGAAAAATAAAAGTTTTGC
* *
38176384 TAAGAATTAGAACTTAAATAACCTAAATAAAATTATAGATCTAAGATAGAATCAATTTGGAGACT
322 TAAGAATTAAAACTTAAATAACCTAAATAAAATTATAGATATAAGATAGAATCAATTTGGAGACT
*
38176449 TTAAAATCATATTAAAACCATTTAAAATCATTTTTCAGGTGAT
387 TTAAAATCATATTAAAACCATTTAAAATCATTTTTCAAGTGAT
38176492 CGTAGGTGTT
Statistics
Matches: 1861, Mismatches: 285, Indels: 124
0.82 0.13 0.05
Matches are distributed among these distances:
588 180 0.10
589 221 0.12
590 150 0.08
591 275 0.15
592 341 0.18
593 200 0.11
594 92 0.05
595 71 0.04
596 102 0.05
597 2 0.00
598 221 0.12
599 6 0.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (588 bp):
TTTTCTAATATTCTAAGATAGGTTAAAAAGTAGTCCAGTAGAGGTATAGCGACAGCGAATAGCGG
TAGTGAAATCTTGAAATTGTAAAACACCTCACTCTTTTTTACCTACAGTATCATTACAAGGTGTT
ATCGGAGCACTTTTAAACTTAAGAAAAAATATTTCTTTTATAAAAATATTTATTTTCAAATATTT
TATGGACATTATCAAATCATAAAACGAATATTTAAAACTCTTTACTTAACTCAAAGTTATACGAA
GTATTTAAAGCTCCTTTATTTAACTCAAGGTTATACAAGTAGAGAAAAATAAAAGTTTTGCTAAG
AATTAAAACTTAAATAACCTAAATAAAATTATAGATATAAGATAGAATCAATTTGGAGACTTTAA
AATCATATTAAAACCATTTAAAATCATTTTTCAAGTGATTGGAGATGTCTAAGGTTGAGTATGAA
CTTCGGCGAGCTCAAAACAACCAAAACAACGCAGGAGCTTTGTCCAGGGGATAGGTATTGATATT
TATTTTTGTTCTTTTTTGGAAGATTTTGAGCCTTACGAAGCACCCTAAGCTGCCACGTGAGATAA
AAA
Found at i:38176475 original size:10 final size:10
Alignment explanation
Indices: 38176448--38176481 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
38176438 ATTTGGAGAC
38176448 TTTAAAATCA
1 TTTAAAATCA
*
38176458 TATTAAAACCA
1 T-TTAAAATCA
38176469 TTTAAAATCA
1 TTTAAAATCA
38176479 TTT
1 TTT
38176482 TTCAGGTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (10 bp):
TTTAAAATCA
Found at i:38179641 original size:35 final size:36
Alignment explanation
Indices: 38179595--38179679 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 36
38179585 ATCGAGCTAT
* *
38179595 ATGAACCTTGTATAATCGGCCATATGTGATGATATA
1 ATGAACTTTGTATAATCGGCCATATGTGAGGATATA
* * **
38179631 TTGAA-TTTGTATATTCGGTTATATGTGAGGATATA
1 ATGAACTTTGTATAATCGGCCATATGTGAGGATATA
*
38179666 ATGAACTTGGTATA
1 ATGAACTTTGTATA
38179680 TCCGGTCATA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 29 0.73
36 11 0.28
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (36 bp):
ATGAACTTTGTATAATCGGCCATATGTGAGGATATA
Found at i:38187317 original size:35 final size:36
Alignment explanation
Indices: 38187271--38187355 Score: 118
Period size: 35 Copynumber: 2.4 Consensus size: 36
38187261 ATCGAGCTAT
*
38187271 ATGAACCTTGTATAATCGGCCATATGTGATGATATA
1 ATGAACTTTGTATAATCGGCCATATGTGATGATATA
* * *
38187307 TTGAA-TTTGTATATTCTGCCATATGTGATGATATA
1 ATGAACTTTGTATAATCGGCCATATGTGATGATATA
*
38187342 ATGAACTTGGTATA
1 ATGAACTTTGTATA
38187356 TCCGGTCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 31 0.74
36 11 0.26
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.39
Consensus pattern (36 bp):
ATGAACTTTGTATAATCGGCCATATGTGATGATATA
Found at i:38187366 original size:36 final size:35
Alignment explanation
Indices: 38187287--38187366 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
38187277 CTTGTATAAT
* * *
38187287 CGGCCATATGTGATGATATATTGAATTTGTATATT
1 CGGCCATATGTGATGATATAATGAATTGGTATATC
*
38187322 CTGCCATATGTGATGATATAATGAACTTGGTATATC
1 CGGCCATATGTGATGATATAATGAA-TTGGTATATC
*
38187358 CGGTCATAT
1 CGGCCATAT
38187367 AGGTAAGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
35 23 0.61
36 15 0.39
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (35 bp):
CGGCCATATGTGATGATATAATGAATTGGTATATC
Found at i:38187602 original size:55 final size:55
Alignment explanation
Indices: 38187518--38187622 Score: 201
Period size: 55 Copynumber: 1.9 Consensus size: 55
38187508 GATTGTATAT
*
38187518 ATGTGTGAAAGTATATTTTTAATTTATAATGATATTTGGCTTTGAAAGTGGATAG
1 ATGTGTGAAAGTATATTTTTAATTTATAATGATATTTGACTTTGAAAGTGGATAG
38187573 ATGTGTGAAAGTATATTTTTAATTTATAATGATATTTGACTTTGAAAGTG
1 ATGTGTGAAAGTATATTTTTAATTTATAATGATATTTGACTTTGAAAGTG
38187623 ATATGAAAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (55 bp):
ATGTGTGAAAGTATATTTTTAATTTATAATGATATTTGACTTTGAAAGTGGATAG
Found at i:38188886 original size:48 final size:50
Alignment explanation
Indices: 38188768--38189100 Score: 273
Period size: 48 Copynumber: 6.9 Consensus size: 50
38188758 GTGTTACAGG
* * * *
38188768 CGATGCCAAGTCCCAAACATGGTCTTACACTGGCTCTCATATATC--GGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAAGGC
* * * *
38188816 ACTGATGCCATGTTCCAAACATGGTGTTACACTAGC-CT-ACATATCGAGGC
1 -C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAAGGC
**
38188866 CGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATTTAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAAGGC
* * * * * *
38188914 TGATGCCATGTCCCAGTCATGGTCTTACTCTGGCTCT--CATATAAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAAGGC
* * * *
38188962 CGATGCCATGTTCC-GAACATGGTTTTACACT-G-GCTCACATATCGAGGC
1 CGATGCCATGTCCCAG-ACATGGTCTTACACTAGCTCTCACATATCAAGGC
* * * * **
38189010 CAATGCTATGTCCCAGACATTGTCTTACACTAGCTCT--CATATAAATCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAAGGC
* * *
38189058 CGATGCCATGTTCCAAACATGGTCTTACACT-G-GCTCACATATC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC
38189101 CCTAGTATCA
Statistics
Matches: 227, Mismatches: 43, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
46 4 0.02
47 5 0.02
48 176 0.78
49 6 0.03
50 36 0.16
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAAGGC
Found at i:38189035 original size:144 final size:145
Alignment explanation
Indices: 38188765--38189099 Score: 442
Period size: 144 Copynumber: 2.3 Consensus size: 145
38188755 GGGGTGTTAC
* **
38188765 AGGCGATGCCAAGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGCACTGATGCCATGTT
1 AGGCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAAGGCACTGATGCCATGTT
*
38188830 CCAAACATGGTGTTACACTAGCCTACATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACA
66 CCAAACATGGTGTTACACTAGCCTACATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACA
**
38188895 CTAGCTCACATATTT
131 CTAGCTCACATATAA
** * *
38188910 AGGCTGATGCCATGTCCCAGTCATGGTCTTACTCTGGCTCTCATATAAATGC-C-GATGCCATGT
1 AGGC-GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAAGGCACTGATGCCATGT
* * * * *
38188973 TCCGAACATGGTTTTACACT-GGCTCACATATCGAGGCCAATGCTATGTCCCAGACATTGTCTTA
65 TCCAAACATGGTGTTACACTAGCCT-ACATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTA
*
38189037 CACTAGCTCTCATATAA
129 CACTAGCTCACATATAA
** * *
38189054 ATCCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT
1 A-GGCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT
38189100 CCCTAGTATC
Statistics
Matches: 164, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
143 3 0.02
144 115 0.70
145 6 0.04
146 40 0.24
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (145 bp):
AGGCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAAGGCACTGATGCCATGTT
CCAAACATGGTGTTACACTAGCCTACATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACA
CTAGCTCACATATAA
Found at i:38189100 original size:96 final size:96
Alignment explanation
Indices: 38188768--38189100 Score: 398
Period size: 96 Copynumber: 3.4 Consensus size: 96
38188758 GTGTTACAGG
* * * * *
38188768 CGATGCCAAGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGCACTGATGCCATGTTCCA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCTAGGC-C-GATGCCATGTCCCA
* * ** *
38188833 AACATGGTGTTACACTAGC-CTACATATCGAGGC
64 GACATGGTCTTACACTAGCTCT-CATATAAATGC
* * * * *
38188866 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTTAGGCTGATGCCATGTCCCAGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCTAGGCCGATGCCATGTCCCAGA
* *
38188931 CATGGTCTTACTCTGGCTCTCATATAAATGC
66 CATGGTCTTACACTAGCTCTCATATAAATGC
* * * * * *
38188962 CGATGCCATGTTCCGAACATGGTTTTACACTGGCTCACATATCGAGGCCAATGCTATGTCCCAGA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCTAGGCCGATGCCATGTCCCAGA
* *
38189027 CATTGTCTTACACTAGCTCTCATATAAATCC
66 CATGGTCTTACACTAGCTCTCATATAAATGC
*
38189058 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC
38189101 CCTAGTATCA
Statistics
Matches: 201, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
96 157 0.78
97 2 0.01
98 42 0.21
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCTAGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCATATAAATGC
Found at i:38197101 original size:21 final size:20
Alignment explanation
Indices: 38197071--38197113 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38197061 TAATATTGGT
* *
38197071 AAGTGGATTAGAAAATAAAAG
1 AAGTGAATTA-AAAAGAAAAG
38197092 AAGTGAATTAAAAAGAAAAG
1 AAGTGAATTAAAAAGAAAAG
38197112 AA
1 AA
38197114 AGGATGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (20 bp):
AAGTGAATTAAAAAGAAAAG
Found at i:38197886 original size:13 final size:13
Alignment explanation
Indices: 38197868--38197892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38197858 TAATGGTATA
38197868 TTGAATCCATGAC
1 TTGAATCCATGAC
38197881 TTGAATCCATGA
1 TTGAATCCATGA
38197893 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:38198472 original size:27 final size:27
Alignment explanation
Indices: 38198441--38198618 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38198431 TAAATTGTAC
38198441 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38198468 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38198494 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38198522 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38198550 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38198577 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38198604 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38198619 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38198555 original size:82 final size:81
Alignment explanation
Indices: 38198442--38198597 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38198432 AAATTGTACA
* *
38198442 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38198506 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38198523 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38198588 TGCGAGTTGA
65 TGCGAATTGA
38198598 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38198609 original size:82 final size:81
Alignment explanation
Indices: 38198438--38198618 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38198428 GATTAAATTG
* *
38198438 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38198503 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38198519 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38198583 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38198601 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38198619 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38198629 original size:27 final size:27
Alignment explanation
Indices: 38198523--38198629 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
38198513 TGACCATGCG
* * * *
38198523 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
38198551 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
38198578 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
38198605 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
38198630 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:38205246 original size:50 final size:51
Alignment explanation
Indices: 38205158--38205280 Score: 187
Period size: 50 Copynumber: 2.5 Consensus size: 51
38205148 GGAAAATGAT
* *
38205158 GAAGAAAAAAAAAG-AGAAAAAGTTCTCATGTTGTTGAACTTGGCCGAATA
1 GAAGAAAGAAAAAGAAGGAAAAGTTCTCATGTTGTTGAACTTGGCCGAATA
* *
38205208 GAAGAAAGAAAAAGAAGGGAAAGTTCTCATGTTG-TGAACTTTGCCGAATA
1 GAAGAAAGAAAAAGAAGGAAAAGTTCTCATGTTGTTGAACTTGGCCGAATA
*
38205258 GAAGAAAGAAAAAGAAGGTAAAG
1 GAAGAAAGAAAAAGAAGGAAAAG
38205281 AGCTTGGAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
50 50 0.75
51 17 0.25
ACGTcount: A:0.48, C:0.08, G:0.25, T:0.19
Consensus pattern (51 bp):
GAAGAAAGAAAAAGAAGGAAAAGTTCTCATGTTGTTGAACTTGGCCGAATA
Found at i:38206468 original size:123 final size:123
Alignment explanation
Indices: 38206249--38206495 Score: 485
Period size: 123 Copynumber: 2.0 Consensus size: 123
38206239 AAATATACGG
38206249 TGATATAATGATTCTACTTGAATTATATGTTGAGTTAATTAGTCTATACGTATGATGGGTAGCCG
1 TGATATAATGATTCTACTTGAATTATATGTTGAGTTAATTAGTCTATACGTATGATGGGTAGCCG
38206314 TATGTGCATAGAGATCATGTCACAAAGCAAACCAAATCATGCTGTTTGTATGTGGCTA
66 TATGTGCATAGAGATCATGTCACAAAGCAAACCAAATCATGCTGTTTGTATGTGGCTA
*
38206372 TGATATAATGATTCTACTTGAATTATATGTTGAGTTAATTAGTCTATACGTATGATGGGTAGTCG
1 TGATATAATGATTCTACTTGAATTATATGTTGAGTTAATTAGTCTATACGTATGATGGGTAGCCG
38206437 TATGTGCATAGAGATCATGTCACAAAGCAAACCAAATCATGCTGTTTGTATGTGGCTA
66 TATGTGCATAGAGATCATGTCACAAAGCAAACCAAATCATGCTGTTTGTATGTGGCTA
38206495 T
1 T
38206496 TGAGCTGAAA
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (123 bp):
TGATATAATGATTCTACTTGAATTATATGTTGAGTTAATTAGTCTATACGTATGATGGGTAGCCG
TATGTGCATAGAGATCATGTCACAAAGCAAACCAAATCATGCTGTTTGTATGTGGCTA
Found at i:38206669 original size:40 final size:40
Alignment explanation
Indices: 38206611--38206826 Score: 278
Period size: 40 Copynumber: 5.4 Consensus size: 40
38206601 GATGATAACG
* * *
38206611 GGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
38206651 GGACTAAGTCCTGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
38206691 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
38206731 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
38206771 GGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
38206811 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
38206827 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 143 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:38212942 original size:9 final size:9
Alignment explanation
Indices: 38212928--38213071 Score: 59
Period size: 9 Copynumber: 16.0 Consensus size: 9
38212918 TAACTATAAT
38212928 TAAGTTATG
1 TAAGTTATG
38212937 TAAGTTATG
1 TAAGTTATG
* * *
38212946 ATATGATATA
1 -TAAGTTATG
*
38212956 T-ATTTATG
1 TAAGTTATG
38212964 T-A-TTATG
1 TAAGTTATG
*
38212971 TAAGCTATG
1 TAAGTTATG
*
38212980 TAAATTATG
1 TAAGTTATG
*
38212989 TGAGTTATCCG
1 TAAGTTAT--G
38213000 -AA-TTATG
1 TAAGTTATG
*
38213007 TAAATTATG
1 TAAGTTATG
*
38213016 TAAGATATGATA
1 TAAG-T-T-ATG
*
38213028 TATATTTATG
1 TA-AGTTATG
*
38213038 T-A-TAATG
1 TAAGTTATG
38213045 TAAGTTATG
1 TAAGTTATG
*
38213054 TAAATTATG
1 TAAGTTATG
*
38213063 TAAGATATG
1 TAAGTTATG
38213072 ATATCTATCT
Statistics
Matches: 100, Mismatches: 22, Indels: 26
0.68 0.15 0.18
Matches are distributed among these distances:
7 12 0.12
8 10 0.10
9 58 0.58
10 11 0.11
11 3 0.03
12 5 0.05
13 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:38213065 original size:18 final size:18
Alignment explanation
Indices: 38212965--38213071 Score: 74
Period size: 18 Copynumber: 5.8 Consensus size: 18
38212955 ATATTTATGT
*
38212965 ATTATGTAAGCTATGTAA
1 ATTATGTAAGTTATGTAA
* ***
38212983 ATTATGTGAGTTATCCGA
1 ATTATGTAAGTTATGTAA
*
38213001 ATTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
* *
38213019 GATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
*
38213039 ATAATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
38213057 ATTATGTAAGATATG
1 ATTATGTAAGTTATG
38213072 ATATCTATCT
Statistics
Matches: 66, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
16 7 0.11
17 4 0.06
18 39 0.59
19 4 0.06
20 1 0.02
21 4 0.06
22 7 0.11
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:38213307 original size:17 final size:17
Alignment explanation
Indices: 38213285--38213333 Score: 84
Period size: 16 Copynumber: 3.0 Consensus size: 17
38213275 GAGATTATGG
38213285 AAAATCACATGGAAAAA
1 AAAATCACATGGAAAAA
38213302 AAAATCACATGG-AAAA
1 AAAATCACATGGAAAAA
38213318 AAAATCACAT-GAAAAA
1 AAAATCACATGGAAAAA
38213334 TAATCTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.03
16 18 0.58
17 12 0.39
ACGTcount: A:0.65, C:0.12, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAATCACATGGAAAAA
Found at i:38216672 original size:47 final size:47
Alignment explanation
Indices: 38216621--38217610 Score: 1901
Period size: 47 Copynumber: 21.1 Consensus size: 47
38216611 TTCCACGTTT
**
38216621 ATCACATT-AGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGA-CCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
38216668 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38216715 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38216762 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38216809 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38216856 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38216903 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38216950 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38216997 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217044 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217091 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217138 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217185 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217232 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217279 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217326 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217373 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217420 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217467 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217514 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * **
38217561 ATCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACATTC
1 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
38217608 ATC
1 ATC
38217611 TCATAAAATC
Statistics
Matches: 934, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
47 934 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:38221071 original size:40 final size:40
Alignment explanation
Indices: 38221013--38221090 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
38221003 TTTAGTGGCG
* *
38221013 TTTTACAAAAGCATCGCTAAATCTCAATCTTTTGCGGCAT
1 TTTTACAAAAGCACCGCTAAATCTCAATCTTTAGCGGCAT
* * *
38221053 TTTTACAAAAGCGCCGCTAATTCTCTATCTTTAGCGGC
1 TTTTACAAAAGCACCGCTAAATCTCAATCTTTAGCGGC
38221091 GTTGCCTCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (40 bp):
TTTTACAAAAGCACCGCTAAATCTCAATCTTTAGCGGCAT
Found at i:38221308 original size:15 final size:15
Alignment explanation
Indices: 38221267--38221317 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
38221257 TTTTAAAAAA
*
38221267 ATTTAATTATATTGAAT
1 ATTTAA-TAT-TTAAAT
* *
38221284 AATTATTATTTAAAT
1 ATTTAATATTTAAAT
38221299 ATTTAATATTTAAAT
1 ATTTAATATTTAAAT
38221314 -TTTA
1 ATTTA
38221318 GGTAAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 4 0.14
15 18 0.62
16 3 0.10
17 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTAATATTTAAAT
Found at i:38222237 original size:38 final size:40
Alignment explanation
Indices: 38222165--38222253 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 40
38222155 ACAAACCCGG
*
38222165 CCTATACCATAAACTTAACATATATACTATACCATTCAAC
1 CCTAAACCATAAACTTAACATATATACTATACCATTCAAC
* * * *
38222205 CTTAAACCATAAACTTAA-A-ATATATTCTACCATTGAAC
1 CCTAAACCATAAACTTAACATATATACTATACCATTCAAC
38222243 CCTAAACCATA
1 CCTAAACCATA
38222254 GGCCTTAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 26 0.60
39 1 0.02
40 16 0.37
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (40 bp):
CCTAAACCATAAACTTAACATATATACTATACCATTCAAC
Found at i:38222468 original size:21 final size:22
Alignment explanation
Indices: 38222450--38222490 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38222440 ATGTTTTAGA
*
38222450 ATTTAAGGTTT-AGGGTTTAAT
1 ATTTAAGATTTAAGGGTTTAAT
*
38222471 GTTTAAGATTTAAGGGTTTA
1 ATTTAAGATTTAAGGGTTTA
38222491 CAAAAAGCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (22 bp):
ATTTAAGATTTAAGGGTTTAAT
Found at i:38226735 original size:41 final size:41
Alignment explanation
Indices: 38226669--38227084 Score: 475
Period size: 41 Copynumber: 10.2 Consensus size: 41
38226659 CGTTTAGACA
** * *
38226669 AAAAACGTGGCTATTGATCAG-TTTTAGTGGCGTTTAGACC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
* * * * ** *
38226709 AAAAACGCC-ATAGTTGCTCAATTTTTAGTGGTGTTTTAAG-T
1 AAAAACGCCGCTA-TTGATCAGTTTTTAGTGGCG-TTTGGGCC
* * *
38226750 AAAAACGCCGCTATTGATAAG-TTTTAATGGCGTTTGGACC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
* * * *
38226790 AAAAACGCTGCTATTGCTCAGTTTTTAATGGTGTTTGGGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
* *
38226831 AAAAATGCCGCTATTGATCAGGTTTTTAGTGGTGTTT-GGCC
1 AAAAACGCCGCTATTGATCA-GTTTTTAGTGGCGTTTGGGCC
* * *
38226872 AAAAACGCCGCTATTCATAAGTTTTTAGTGGCGCTTGGGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
** * *
38226913 AAAAACGCTTCAATTGATTAGTTTTTAGTGGCGTTT-GGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
*
38226953 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
** *
38226994 AAAAACGCTTCTATTGATCAGTTTTTAGTGGCATTTGGGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
*
38227035 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
38227076 AAAAACGCC
1 AAAAACGCC
38227085 ACTGTAACAC
Statistics
Matches: 315, Mismatches: 52, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
39 5 0.02
40 90 0.29
41 199 0.63
42 21 0.07
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (41 bp):
AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGGCC
Found at i:38226756 original size:81 final size:80
Alignment explanation
Indices: 38226669--38227071 Score: 219
Period size: 81 Copynumber: 5.0 Consensus size: 80
38226659 CGTTTAGACA
** * *
38226669 AAAAACGTGGCTATTGATCAGTTTTAGTGGCGTTTAGACCAAAAACGC-CATAGTTGCTCAATTT
1 AAAAACGCCGCTATTGATAAGTTTTAATGGCGTTTAGACCAAAAACGCGC-TA-TTGCTCAATTT
*
38226733 TTAGTGGTGTTTTAAGT
64 TTAATGGTGTTTTAAGT
* *
38226750 AAAAACGCCGCTATTGATAAGTTTTAATGGCGTTTGGACCAAAAACGCTGCTATTGCTCAGTTTT
1 AAAAACGCCGCTATTGATAAGTTTTAATGGCGTTTAGACCAAAAACGC-GCTATTGCTCAATTTT
** *
38226815 TAATGGTG-TTTGGGCC
65 TAATGGTGTTTTAAG-T
* * * * *
38226831 AAAAATGCCGCTATTGATCAGGTTTTTAGTGGTGTTT-GGCCAAAAACGCCGCTATT-CAT-AAG
1 AAAAACGCCGCTATTGAT-AAG-TTTTAATGGCGTTTAGACCAAAAACG-CGCTATTGC-TCAA-
* * * ** *
38226893 TTTTTAGTGGCG-CTTGGGCC
61 TTTTTAATGGTGTTTTAAG-T
** * * * * * *
38226913 AAAAACGCTTCAATTGATTAGTTTTTAGTGGCGTTT-GGCCAAAAACGCCGCTATTGATCAGTTT
1 AAAAACGCCGCTATTGATAAG-TTTTAATGGCGTTTAGACCAAAAACG-CGCTATTGCTCAATTT
* * **
38226977 TTAGTGGCG-TTTGGGCT
64 TTAATGGTGTTTTAAG-T
** * * * * * * *
38226994 AAAAACGCTTCTATTGATCAGTTTTTAGTGGCATTTGGGCCAAAAACGCCGCTATTGATCAGTTT
1 AAAAACGCCGCTATTGATAAG-TTTTAATGGCGTTTAGACCAAAAACG-CGCTATTGCTCAATTT
* *
38227059 TTAGTGGCGTTTT
64 TTAATGGTGTTTT
38227072 GGCCAAAAAC
Statistics
Matches: 277, Mismatches: 33, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
80 4 0.01
81 166 0.60
82 90 0.32
83 17 0.06
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (80 bp):
AAAAACGCCGCTATTGATAAGTTTTAATGGCGTTTAGACCAAAAACGCGCTATTGCTCAATTTTT
AATGGTGTTTTAAGT
Found at i:38226882 original size:122 final size:122
Alignment explanation
Indices: 38226669--38227084 Score: 493
Period size: 122 Copynumber: 3.4 Consensus size: 122
38226659 CGTTTAGACA
* * * *
38226669 AAAAACG-TGGCTATTGATCAG-TTTTAGTGGCGTTTAGACCAAAAACGCC-ATAGTTGCTCAAT
1 AAAAACGCT-GCTATTGATCAGTTTTTAGTGGCGTTT-GGCCAAAAACGCCGCTA-TTGATCAGT
* ** * * *
38226731 TTTTAGTGGTGTTTTAAG-TAAAAACGCCGCTATTGATAAG-TTTTAATGGCGTTTGGACC
63 TTTTAGTGGCG-TTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCC
* * * *
38226790 AAAAACGCTGCTATTGCTCAGTTTTTAATGGTGTTTGGGCCAAAAATGCCGCTATTGATCAGGTT
1 AAAAACGCTGCTATTGATCAGTTTTTAGTGGCGTTT-GGCCAAAAACGCCGCTATTGATCA-GTT
* * *
38226855 TTTAGTGGTGTTT-GGCCAAAAACGCCGCTATTCATAAGTTTTTAGTGGCGCTTGGGCC
64 TTTAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCC
* * *
38226913 AAAAACGCTTCAATTGATTAGTTTTTAGTGGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTT
1 AAAAACGCTGCTATTGATCAGTTTTTAGTGGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTT
* ** * *
38226978 TAGTGGCGTTTGGGCTAAAAACGCTTCTATTGATCAGTTTTTAGTGGCATTTGGGCC
66 TAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCC
*
38227035 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGCCAAAAACGCC
1 AAAAACGCTGCTATTGATCAGTTTTTAGTGGCG-TTTGGCCAAAAACGCC
38227085 ACTGTAACAC
Statistics
Matches: 253, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
121 34 0.13
122 143 0.57
123 76 0.30
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (122 bp):
AAAAACGCTGCTATTGATCAGTTTTTAGTGGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTT
TAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCC
Found at i:38228511 original size:93 final size:93
Alignment explanation
Indices: 38228402--38228570 Score: 248
Period size: 93 Copynumber: 1.8 Consensus size: 93
38228392 CCCATAAGCG
* * * ** * * *
38228402 AACTCGGACTCAACTCAATGAGATCGGGTGTTCTCATCCATAAGTGAACTCGAACTTAACTTAAC
1 AACTCAGACTCAACTCAACGAGATCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
38228467 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
* *
38228495 AACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAT
1 AACTCAGACTCAACTCAACGAGATCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
38228560 GAGTTCGGATG
66 GAGTTCGGATG
38228571 TTCGCATCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGATCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:38228613 original size:46 final size:46
Alignment explanation
Indices: 38228393--38228616 Score: 218
Period size: 46 Copynumber: 4.8 Consensus size: 46
38228383 TGTAACCCGC
* * * * *
38228393 CCATAAGCGAACTCGGACTCAACTCAATGAGATCGGGTGTTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * * * *
38228439 CCATAAGTGAACTCGAACTTAACTTAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * ** * * *
38228485 ACATTTCA-CAAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
38228532 CCATAAGTGAACTCGAACTCAACTCAATGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
38228578 CCATAAGTGAACTCGGACTCAACTCAACGATTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
38228617 CCCAAATATC
Statistics
Matches: 137, Mismatches: 36, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
45 2 0.01
46 105 0.77
47 28 0.20
48 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:38230386 original size:41 final size:42
Alignment explanation
Indices: 38230310--38230459 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 42
38230300 TCTCAGACGT
* * * *
38230310 GGTCTTACACATAATCACATATCAATGCCGCTGTCCTAGACAG
1 GGTCTTACAC-GAATCACATATCGATGCCGATGTCCCAGACAG
* * *
38230353 GGTCTTACACGAATCAAATAT-GATGCCGATGTCCCAAACAT
1 GGTCTTACACGAATCACATATCGATGCCGATGTCCCAGACAG
* *
38230394 GGTCTTACACGTAATCACATATCGATGCCTACGTCCCAGAC-G
1 GGTCTTACACG-AATCACATATCGATGCCGATGTCCCAGACAG
*
38230436 TGGTCTTACACGAGAACACATATC
1 -GGTCTTACACGA-ATCACATATC
38230460 AAAAATCCTA
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 26 0.29
42 19 0.21
43 45 0.50
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAATCACATATCGATGCCGATGTCCCAGACAG
Found at i:38231015 original size:25 final size:29
Alignment explanation
Indices: 38230950--38231016 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
38230940 TATTCATACA
38230950 AGTCCATACATTTCATTTATTTCACATTTT
1 AGTCCATA-ATTTCATTTATTTCACATTTT
* *
38230980 AGTCCCTTAATTT-ATTTTTTTCA-A-TTT
1 AGT-CCATAATTTCATTTATTTCACATTTT
38231007 AGTCC-TAATT
1 AGTCCATAATT
38231017 ATTCAAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 6 0.18
28 1 0.03
29 9 0.26
30 7 0.21
31 4 0.12
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.52
Consensus pattern (29 bp):
AGTCCATAATTTCATTTATTTCACATTTT
Found at i:38231747 original size:211 final size:211
Alignment explanation
Indices: 38231383--38231804 Score: 711
Period size: 211 Copynumber: 2.0 Consensus size: 211
38231373 TTTTTGGTCG
* *
38231383 GGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTTGCAGGGGTCGACTACACTGACCTTT
1 GGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTTACAGGGATCGACTACACTGACCTTT
* * * *
38231448 GCGCATTACGACTTGGATATCTCCCTGCACGGGGCTTCAATACTGATGTCGTTTGTTTCTATGAA
66 GCCCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGATGTCATTTGTTTCTATGAA
*
38231513 AACTAGACTCAGAGAGGAATCTGTACATATATGGTACGACCCCTAATTATCTCTGGTTAATTTGT
131 AACTAGACTCAGAGAGGAATCTGTACATATATGGTACGACCCCTAATTATCTCTGGTTAATTTAT
38231578 AATGAATTTCCAAAGT
196 AATGAATTTCCAAAGT
*
38231594 GGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACACTGACCTTT
1 GGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTTACAGGGATCGACTACACTGACCTTT
* * *
38231659 TCCCATTACGACTTGGATATCTCTCTGCACAGAGCTTCAATACTGAT-TCCATTTGTTTCTATGG
66 GCCCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGATGT-CATTTGTTTCTATGA
*
38231723 AAACTAGACTCAGATAGGAATCTGTACATATATGGTACGACCCCTAATTATCTCTGGTTAATTTA
130 AAACTAGACTCAGAGAGGAATCTGTACATATATGGTACGACCCCTAATTATCTCTGGTTAATTTA
*
38231788 TATTGAATTTCCAAAGT
195 TAATGAATTTCCAAAGT
38231805 CGGAGCAGGG
Statistics
Matches: 197, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
210 1 0.01
211 196 0.99
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (211 bp):
GGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTTACAGGGATCGACTACACTGACCTTT
GCCCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGATGTCATTTGTTTCTATGAA
AACTAGACTCAGAGAGGAATCTGTACATATATGGTACGACCCCTAATTATCTCTGGTTAATTTAT
AATGAATTTCCAAAGT
Found at i:38232753 original size:27 final size:27
Alignment explanation
Indices: 38232723--38232900 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
38232713 ATATTGAGTC
* *
38232723 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
38232750 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38232777 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
38232805 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
38232832 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
38232859 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
38232886 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38232901 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38235011 original size:55 final size:55
Alignment explanation
Indices: 38234927--38235035 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
38234917 TAAATAGTGA
*
38234927 ATAAATTATGTAATCGAACCTTGATGAATCTACTTTCATATGAAAGTAACAAAAC
1 ATAAATTATGTAATCGAACCTTGATGAATCTACCTTCATATGAAAGTAACAAAAC
38234982 ATAAATTATGTAATCGAACCTTGATGAATCTACCTTCATATGAAAGTAACAAAA
1 ATAAATTATGTAATCGAACCTTGATGAATCTACCTTCATATGAAAGTAACAAAA
38235036 TTATCATATG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (55 bp):
ATAAATTATGTAATCGAACCTTGATGAATCTACCTTCATATGAAAGTAACAAAAC
Found at i:38235684 original size:61 final size:62
Alignment explanation
Indices: 38235567--38235711 Score: 184
Period size: 61 Copynumber: 2.3 Consensus size: 62
38235557 ACAATAGGAC
* * * * * * *
38235567 TACCAGTCCAAGCTAAATCTTGTCTTCAATATATATGTATACTCATTAGAGGTTAGTCAGGGT
1 TACCAGTCCAGGCTAAATCCTATCTCCAATATATA-GTATACTCAATAGAGCTTAGTCAAGGT
*
38235630 TACCAATCCAGGCTAAATCCTATCTCCAATATATA-TATACTCAATAGAGCTTAGTCAAGGT
1 TACCAGTCCAGGCTAAATCCTATCTCCAATATATAGTATACTCAATAGAGCTTAGTCAAGGT
* *
38235691 TACCAGTTCAGGATAAATCCT
1 TACCAGTCCAGGCTAAATCCT
38235712 TTTTATGACA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
61 41 0.58
63 30 0.42
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (62 bp):
TACCAGTCCAGGCTAAATCCTATCTCCAATATATAGTATACTCAATAGAGCTTAGTCAAGGT
Found at i:38236707 original size:15 final size:15
Alignment explanation
Indices: 38236681--38236736 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
38236671 CAAGGAAACC
38236681 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
38236696 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
38236711 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
38236726 GAATAAAGAAA
1 GAATAAAGAAA
38236737 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:38239545 original size:47 final size:47
Alignment explanation
Indices: 38239482--38240781 Score: 1854
Period size: 47 Copynumber: 27.6 Consensus size: 47
38239472 CCCTTCGGGA
* * *
38239482 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
38239529 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* * *
38239576 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
38239623 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38239670 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38239717 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38239764 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38239811 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38239858 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38239905 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38239952 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38239999 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240046 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240093 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240140 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240187 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240234 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240281 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240328 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240375 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240422 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
38240469 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240516 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
38240563 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
38240610 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
38240657 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
38240706 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
38240755 CTTATCACATATATACACT-TTCACATT
1 CTTATCACATATATACA-TGTTCACATT
38240782 TATTCAAATA
Statistics
Matches: 1117, Mismatches: 132, Indels: 8
0.89 0.11 0.01
Matches are distributed among these distances:
46 1 0.00
47 1024 0.92
49 91 0.08
50 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:38239646 original size:94 final size:94
Alignment explanation
Indices: 38239503--38240781 Score: 2215
Period size: 94 Copynumber: 13.6 Consensus size: 94
38239493 TATACACTTC
* * * *
38239503 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCACATTGG
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCA-TGTTCACATTCATCACATTGG
* * * **
38239567 CCATTCGGCCTTATCTCATATATGCATGTT
65 CCATTCAGCCTTATCACACATACACATGTT
* * * * **
38239597 CACATTCATCACATTGGCCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
*
38239662 CATTCGGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
38239691 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
38239756 CATTCAGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
38239785 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
38239850 CATTCAGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
38239879 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
38239944 CATTCAGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
38239973 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
38240038 CATTCAGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
38240067 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
38240132 CATTCAGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
38240161 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
38240226 CATTCAGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
38240255 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
38240320 CATTCAGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
38240349 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
38240414 CATTCAGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
38240443 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
*
38240508 CATTCGGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
38240537 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
38240602 CATTCAGCCTTATCACACATACACATGTT
66 CATTCAGCCTTATCACACATACACATGTT
* * *
38240631 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TTCACATTCATCACATT
1 CACATTCATCACATTGGTCATTCGGCCTTATCTC--ATATATGCA-TGTTCACATTCATCACATT
* * *
38240695 GGCCATTCGGCCTTATCACATATATATACACT-TT
63 GGCCATTCAGCCTTATCAC--ACATACACA-TGTT
* * * *
38240729 CACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACT-TTCACATT
1 CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCA-TGTTCACATT
38240782 TATTCAAATA
Statistics
Matches: 1154, Mismatches: 24, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
93 1 0.00
94 1047 0.91
96 62 0.05
97 1 0.00
98 42 0.04
99 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (94 bp):
CACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGC
CATTCAGCCTTATCACACATACACATGTT
Found at i:38244562 original size:46 final size:46
Alignment explanation
Indices: 38244490--38244662 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
38244480 GTAACCGCCC
38244490 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
* *
38244536 ATAAATGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATCT
* * * ** * *
38244586 CT---CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
*
38244629 ATAAGTGAACTAGGACTCAACTCAACGAGCTCGG
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
38244663 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
46 58 0.56
47 26 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
Found at i:38244655 original size:93 final size:93
Alignment explanation
Indices: 38244496--38244666 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
38244486 GCCCATAAGT
** * * *
38244496 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCTATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTAGGACTCAACTCAA
38244561 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
38244589 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTAGGACTCAACTCAA
38244654 CGAGCTCGGATGC
66 CGAGCTCGGATGC
38244667 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTAGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:38246604 original size:15 final size:15
Alignment explanation
Indices: 38246580--38246642 Score: 83
Period size: 15 Copynumber: 4.2 Consensus size: 15
38246570 AGGAAACCGA
38246580 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
38246595 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
38246609 AATAAAGAAATCCAAA
1 -ATAAAGAAATCCAAG
*
38246625 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
38246640 ATA
1 ATA
38246643 GGATACTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 2 0.05
15 38 0.93
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.13, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:38249668 original size:46 final size:46
Alignment explanation
Indices: 38249601--38249769 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
38249591 AACCCGCCCC
* *
38249601 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCA
* * * *
38249647 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTT-G-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--AGGCATTCGCATCCA
* * *
38249693 TTTCA-CGAACTCGGACTTAACTCAACGAGTTC-GGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CATTCGCATCCA
38249740 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
38249770 TGGATGCTCA
Statistics
Matches: 100, Mismatches: 15, Indels: 16
0.76 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 5 0.05
46 58 0.58
47 29 0.29
48 7 0.07
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCA
Found at i:38249765 original size:93 final size:93
Alignment explanation
Indices: 38249606--38249776 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
38249596 GCCCCTAAGT
*
38249606 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38249671 CGAGTTCGGATGCCTTGTTACATTTCAC
66 CGAGTTCGGATGCCTTGTTACATTTCAC
* *
38249699 GAACTCGGACTTAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
38249763 ACGAGTTTGGATGC
65 ACGAGTTCGGATGC
38249777 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTTGTTACATTTCAC
Found at i:38252203 original size:32 final size:33
Alignment explanation
Indices: 38252167--38252252 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 33
38252157 ATCGGGCCTA
*
38252167 AGCCC-ATTCAGATAACAGTGATACTGGGCCAG
1 AGCCCTATTCAGATAACAGTGAAACTGGGCCAG
* * * **
38252199 AGCCCTTTTCAGATTACA-TTAAACTGGGCCTT
1 AGCCCTATTCAGATAACAGTGAAACTGGGCCAG
38252231 AGCCCCTTATTCAGATAACAGT
1 AG-CCC-TATTCAGATAACAGT
38252253 ATGGCCCATG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
32 17 0.40
33 13 0.31
34 11 0.26
35 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (33 bp):
AGCCCTATTCAGATAACAGTGAAACTGGGCCAG
Found at i:38252592 original size:26 final size:26
Alignment explanation
Indices: 38252563--38252615 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
38252553 TCAAACATGC
*
38252563 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAAGGGT
* *
38252589 ATTTCGGTACTTTATCTCCTAAGGGT
1 ATTTAGGTAATTTATCTCCTAAGGGT
38252615 A
1 A
38252616 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAAGGGT
Found at i:38253895 original size:24 final size:23
Alignment explanation
Indices: 38253868--38253991 Score: 149
Period size: 24 Copynumber: 5.2 Consensus size: 23
38253858 CAACTCCTGC
38253868 TCCTTGATCAGCTCCTAAATCTTT
1 TCCTT-ATCAGCTCCTAAATCTTT
*
38253892 TCCTTTATCAGCTCCTAAATCCTT
1 TCC-TTATCAGCTCCTAAATCTTT
*
38253916 TCCTTTATCAGCTCCTAAATCCTCT
1 TCC-TTATCAGCTCCTAAAT-CTTT
* *
38253941 CCCTTATCAGCTCCTAAATCCTCT
1 TCCTTATCAGCTCCTAAAT-CTTT
* *
38253965 CCCTTATCAGCTCCTAAATCTTC
1 TCCTTATCAGCTCCTAAATCTTT
38253988 TCCT
1 TCCT
38253992 AATAGCCTTT
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 5 0.05
24 80 0.88
25 6 0.07
ACGTcount: A:0.20, C:0.36, G:0.05, T:0.39
Consensus pattern (23 bp):
TCCTTATCAGCTCCTAAATCTTT
Found at i:38253934 original size:48 final size:48
Alignment explanation
Indices: 38253862--38253991 Score: 197
Period size: 48 Copynumber: 2.7 Consensus size: 48
38253852 GCCAGCCAAC
* *
38253862 TCCTGCTCCTTGATCAGCTCCTAAATCTTTTCCTTTATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAATCTTCTCCTTTATCAGCTCCTAAA
* * *
38253911 TCCTTTCCTTTATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAATCTTCTCCTTTATCAGCTCCTAAA
*
38253959 TCCTCTCCCTTATCAGCTCCTAAATCTTCTCCT
1 TCCTCTCCTTTATCAGCTCCTAAATCTTCTCCT
38253992 AATAGCCTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
48 68 0.94
49 4 0.06
ACGTcount: A:0.19, C:0.37, G:0.05, T:0.38
Consensus pattern (48 bp):
TCCTCTCCTTTATCAGCTCCTAAATCTTCTCCTTTATCAGCTCCTAAA
Found at i:38255643 original size:40 final size:40
Alignment explanation
Indices: 38255588--38255811 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
38255578 TATTCGGATG
*
38255588 ATATCCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
38255628 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
38255671 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
38255711 ATATCCGGGCTAAATCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
38255751 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
38255791 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
38255812 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 110 0.68
41 1 0.01
43 37 0.23
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:38255731 original size:83 final size:80
Alignment explanation
Indices: 38255592--38255811 Score: 300
Period size: 83 Copynumber: 2.7 Consensus size: 80
38255582 CGGATGATAT
* * **
38255592 CCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTCA
38255657 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* *
38255675 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACTATATCCGGGCTAAATCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTCA
*
38255740 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
38255755 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAATCCCGAAG
38255812 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 17 0.14
80 46 0.37
83 62 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:38260848 original size:22 final size:23
Alignment explanation
Indices: 38260820--38260865 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
38260810 AGGGTATCTA
38260820 AAAATCAAATC-TCTAAGATTAC
1 AAAATCAAATCTTCTAAGATTAC
*
38260842 AAAATCATATCTTCTAAGATTAC
1 AAAATCAAATCTTCTAAGATTAC
38260865 A
1 A
38260866 TATCATATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATCAAATCTTCTAAGATTAC
Found at i:38260869 original size:17 final size:17
Alignment explanation
Indices: 38260847--38260897 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
38260837 ATTACAAAAT
38260847 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
38260864 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
38260883 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
38260898 CATGTGTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:38260870 original size:22 final size:23
Alignment explanation
Indices: 38260820--38260875 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
38260810 AGGGTATCTA
*
38260820 AAAATCAAATC-TCTAAGATTAC
1 AAAATCATATCTTCTAAGATTAC
38260842 AAAATCATATCTTCTAAGATTAC
1 AAAATCATATCTTCTAAGATTAC
*
38260865 -ATATCATATCT
1 AAAATCATATCT
38260876 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (23 bp):
AAAATCATATCTTCTAAGATTAC
Found at i:38260878 original size:19 final size:20
Alignment explanation
Indices: 38260831--38260888 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
38260821 AAATCAAATC
*
38260831 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
38260854 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
38260873 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
38260889 TTCGAAGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:38266006 original size:17 final size:17
Alignment explanation
Indices: 38265984--38266028 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
38265974 ATTACAAAAT
38265984 CATATCTTCTAAAATTA
1 CATATCTTCTAAAATTA
* *
38266001 CATATCATATCTAATATTG
1 CATATC-T-TCTAAAATTA
38266020 CATATCTTC
1 CATATCTTC
38266029 GAAGATCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 8 0.33
18 2 0.08
19 14 0.58
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (17 bp):
CATATCTTCTAAAATTA
Found at i:38281489 original size:33 final size:33
Alignment explanation
Indices: 38281442--38281508 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
38281432 GAATATGTGC
*
38281442 TTGATCAATGAAGGAATTGTTGAAGAACATAGG
1 TTGATCAATAAAGGAATTGTTGAAGAACATAGG
38281475 TTGATCAATAAAGGAATTGTTGAAGAACATAGG
1 TTGATCAATAAAGGAATTGTTGAAGAACATAGG
38281508 T
1 T
38281509 GAACTTGGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.28
Consensus pattern (33 bp):
TTGATCAATAAAGGAATTGTTGAAGAACATAGG
Found at i:38282142 original size:27 final size:26
Alignment explanation
Indices: 38282111--38282288 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
38282101 TAAATTGTAC
38282111 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
38282138 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
38282164 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
38282192 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
38282220 AGCACTAAGTGTGCGATTTGATTAAGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
38282247 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
38282274 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38282289 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:38282227 original size:82 final size:81
Alignment explanation
Indices: 38282112--38282267 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
38282102 AAATTGTACA
* * *
38282112 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATAAG-TGGCACTAAGTG
38282176 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38282193 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTAAGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATAAGTGGCACTAAGTG
*
38282258 TGCGAGTTGA
65 TGCGAATTGA
38282268 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATAAGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38282279 original size:82 final size:81
Alignment explanation
Indices: 38282108--38282288 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
38282098 GATTAAATTG
* * *
38282108 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATAAGATGCACTAA
38282173 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38282189 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTAAG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATAAGAT-GCACT
* **
38282253 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38282271 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38282289 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATAAGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38289124 original size:167 final size:166
Alignment explanation
Indices: 38288848--38289181 Score: 650
Period size: 167 Copynumber: 2.0 Consensus size: 166
38288838 GGAAAAAAAA
38288848 ATAACATGGTCTCACCCCCCCTTGTTGCCGTGAATTGAAGAAAGAAAAAAAAAGAGTTCATTCTT
1 ATAACATGGTCTCACCCCCCCTTGTTGCCGTGAATTGAAGAAAGAAAAAAAAAGAGTTCATTCTT
38288913 GAACATCCTTGGCCGAATAGAGGAAAGAAAGGAAGGGAAAAAAGGCTTGAGAAAATCGGCTATGG
66 GAACATCCTTGGCCGAATAGAGGAAAGAAAGGAAGGGAAAAAAGGCTTGAGAAAATCGGCTATGG
38288978 TGGTTGCTAGACTAAGGTATGTTGATGTTGTCTTTG
131 TGGTTGCTAGACTAAGGTATGTTGATGTTGTCTTTG
38289014 ATAACATGGTCTCACCCCCCCTTGTTGCCGTGAATTGAAGAAAGAAAAAAAAAAGAGTTCATTCT
1 ATAACATGGTCTCACCCCCCCTTGTTGCCGTGAATTGAAGAAAG-AAAAAAAAAGAGTTCATTCT
*
38289079 TGAACATCCTTGGCCGAATAGAGGAAAGAAAGGAAGGGGAAAAAGGCTTGAGAAAATCGGCTATG
65 TGAACATCCTTGGCCGAATAGAGGAAAGAAAGGAAGGGAAAAAAGGCTTGAGAAAATCGGCTATG
38289144 GTGGTTGCTAGACTAAGGTATGTTGATGTTGTCTTTG
130 GTGGTTGCTAGACTAAGGTATGTTGATGTTGTCTTTG
38289181 A
1 A
38289182 GATGCATGCA
Statistics
Matches: 166, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
166 44 0.27
167 122 0.73
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (166 bp):
ATAACATGGTCTCACCCCCCCTTGTTGCCGTGAATTGAAGAAAGAAAAAAAAAGAGTTCATTCTT
GAACATCCTTGGCCGAATAGAGGAAAGAAAGGAAGGGAAAAAAGGCTTGAGAAAATCGGCTATGG
TGGTTGCTAGACTAAGGTATGTTGATGTTGTCTTTG
Found at i:38290299 original size:27 final size:26
Alignment explanation
Indices: 38290268--38290445 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
38290258 TAAATTGTAC
38290268 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
38290295 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
38290321 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
38290349 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
38290377 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
38290404 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
38290431 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38290446 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:38290384 original size:82 final size:81
Alignment explanation
Indices: 38290269--38290424 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
38290259 AAATTGTACA
* * *
38290269 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
38290333 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38290350 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
38290415 TGCGAGTTGA
65 TGCGAATTGA
38290425 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38290436 original size:82 final size:81
Alignment explanation
Indices: 38290265--38290445 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
38290255 GATTAAATTG
* * *
38290265 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38290330 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38290346 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38290410 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38290428 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38290446 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38291627 original size:150 final size:150
Alignment explanation
Indices: 38291356--38291655 Score: 555
Period size: 150 Copynumber: 2.0 Consensus size: 150
38291346 TCTGGATTCC
38291356 CTGCTCCGAATTTGGAAATTCAGTATAAATTAACCAGAGATAATTAGGGGTCGTACCATATATGT
1 CTGCTCCGAATTTGGAAATTCAGTATAAATTAACCAGAGATAATTAGGGGTCGTACCATATATGT
38291421 GCAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAACGGCAACAGTATTGAAGCCCCGTGCAG
66 GCAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAACGGCAACAGTATTGAAGCCCCGTGCAG
38291486 GGAGATATCCCAGTCATAAT
131 GGAGATATCCCAGTCATAAT
* * *
38291506 CTGCTCCGACTTTGGAAATTCATTATAAATTAACTAGAGATAATTAGGGGTCGTACCATATATGT
1 CTGCTCCGAATTTGGAAATTCAGTATAAATTAACCAGAGATAATTAGGGGTCGTACCATATATGT
*
38291571 GCAGATTCCTCTCTGAGTCTAGTTTTCATAGAAATAAACGGCAACAGTATTGAAGCCCCGTGCAG
66 GCAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAACGGCAACAGTATTGAAGCCCCGTGCAG
*
38291636 GGAGATATCCCAGTCGTAAT
131 GGAGATATCCCAGTCATAAT
38291656 GGGCAAAGGT
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 145 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (150 bp):
CTGCTCCGAATTTGGAAATTCAGTATAAATTAACCAGAGATAATTAGGGGTCGTACCATATATGT
GCAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAACGGCAACAGTATTGAAGCCCCGTGCAG
GGAGATATCCCAGTCATAAT
Found at i:38292009 original size:83 final size:83
Alignment explanation
Indices: 38291870--38292028 Score: 300
Period size: 83 Copynumber: 1.9 Consensus size: 83
38291860 TCTGGAAAAT
*
38291870 AAATTTTGTAAGGGGTTAAAGCCAGTTAACACCTCGTGTTCGACTCCGGTGTCGGTTTCGGGTTC
1 AAATTTTATAAGGGGTTAAAGCCAGTTAACACCTCGTGTTCGACTCCGGTGTCGGTTTCGGGTTC
38291935 GGGGTGTTACAGATTTTG
66 GGGGTGTTACAGATTTTG
*
38291953 AAATTTTATAAGGGGTTAAAGTCAGTTAACACCTCGTGTTCGACTCCGGTGTCGGTTTCGGGTTC
1 AAATTTTATAAGGGGTTAAAGCCAGTTAACACCTCGTGTTCGACTCCGGTGTCGGTTTCGGGTTC
38292018 GGGGTGTTACA
66 GGGGTGTTACA
38292029 TTTTATTGGT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (83 bp):
AAATTTTATAAGGGGTTAAAGCCAGTTAACACCTCGTGTTCGACTCCGGTGTCGGTTTCGGGTTC
GGGGTGTTACAGATTTTG
Found at i:38296563 original size:56 final size:56
Alignment explanation
Indices: 38296494--38296601 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 56
38296484 CTGAACGAGT
* * *
38296494 TGGTCCAGTTGCATATAGGTTGCTTTTACCCCCTGAACTTGAAAGGATTCACAACG
1 TGGTCCAGTTGCATATAGATTGATTTTACCCCCTGAACTTGAAAAGATTCACAACG
* *
38296550 TGGTCCGGTTGCATATAGATTGATTTTGCCCCCTGAACTTGAAAAGATTCAC
1 TGGTCCAGTTGCATATAGATTGATTTTACCCCCTGAACTTGAAAAGATTCAC
38296602 GATGTCTTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (56 bp):
TGGTCCAGTTGCATATAGATTGATTTTACCCCCTGAACTTGAAAAGATTCACAACG
Found at i:38297829 original size:49 final size:49
Alignment explanation
Indices: 38297757--38297857 Score: 175
Period size: 49 Copynumber: 2.1 Consensus size: 49
38297747 GATGGAGAAG
* *
38297757 AATCGGCTAGCAAGTTGTGTGCTAAGGCCGAATATAATTTTTGTATATT
1 AATCGGCTAGCAAGTTGTGTGCTAAGGCCGAATATAACTTTTGCATATT
*
38297806 AATCGGCTAGCAAGTTGTGTGCTAAGGCCGAATATAACTTTTGCATGTT
1 AATCGGCTAGCAAGTTGTGTGCTAAGGCCGAATATAACTTTTGCATATT
38297855 AAT
1 AAT
38297858 GAGCAATGCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (49 bp):
AATCGGCTAGCAAGTTGTGTGCTAAGGCCGAATATAACTTTTGCATATT
Found at i:38298264 original size:56 final size:56
Alignment explanation
Indices: 38298178--38298291 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
38298168 ATGTGACTTT
38298178 AATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCTCTTTTCGATGCTCA
1 AATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCTCTTTTCGATGCTCA
38298234 AATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCTCTTTTCGATGCTCA
1 AATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCTCTTTTCGATGCTCA
38298290 AA
1 AA
38298292 AGATTAAATC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.39
Consensus pattern (56 bp):
AATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCTCTTTTCGATGCTCA
Found at i:38298742 original size:79 final size:81
Alignment explanation
Indices: 38298607--38298790 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
38298597 TGAATGATGT
* *
38298607 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
*
38298671 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * * **
38298687 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAAT
*
38298749 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
38298766 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38298791 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATAA
Found at i:38298797 original size:40 final size:40
Alignment explanation
Indices: 38298606--38298790 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
38298596 TTGAATGATG
* * * *
38298606 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38298646 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38298686 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38298725 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38298766 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38298791 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38298812 original size:79 final size:79
Alignment explanation
Indices: 38298659--38298813 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
38298649 GGACTAAGAT
* ** **
38298659 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
38298724 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
38298738 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
38298801 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
38298814 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:38299574 original size:52 final size:52
Alignment explanation
Indices: 38299507--38299610 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
38299497 TCATGGAAAC
* *
38299507 TATGAAATAGGTAAAGTCTACCTTAAAGGCAGATGCAGATAGCAGCAGTGAT
1 TATGAAATAGGTAAAGTCTACCCTAAAGGCAGATGCAGACAGCAGCAGTGAT
* * * * *
38299559 TATGTAATAGGTAAAGTTTACCCTAAAGGCTGATGCTGGCAGCAGCAGTGAT
1 TATGAAATAGGTAAAGTCTACCCTAAAGGCAGATGCAGACAGCAGCAGTGAT
38299611 GTGGATGTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (52 bp):
TATGAAATAGGTAAAGTCTACCCTAAAGGCAGATGCAGACAGCAGCAGTGAT
Found at i:38299997 original size:51 final size:51
Alignment explanation
Indices: 38299917--38300016 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
38299907 TCTGTGCAGG
*
38299917 GAGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCGATCCCTGTAGA
1 GAGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCGACCCCTGTAGA
*
38299968 GAGATATCCAAGTCGTAATG-GGAAGAGGTCAGTGTAGTCGACCCCTGTA
1 GAGATATCCAAGTCGTAATGCGCAA-AGGTCAGTGTAGTCGACCCCTGTA
38300017 ACATGGGAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 3 0.07
51 43 0.93
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (51 bp):
GAGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCGACCCCTGTAGA
Found at i:38300339 original size:57 final size:57
Alignment explanation
Indices: 38300251--38300364 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
38300241 AACCCCTCGT
38300251 GTCCGACTCCAGCGACGGACTTGGGTACGAGGTGTTACAATTTGATTGGTATCAGAG
1 GTCCGACTCCAGCGACGGACTTGGGTACGAGGTGTTACAATTTGATTGGTATCAGAG
38300308 GTCCGACTCCAGCGACGGACTTGGGTACGAGGTGTTACAATTTGATTGGTATCAGAG
1 GTCCGACTCCAGCGACGGACTTGGGTACGAGGTGTTACAATTTGATTGGTATCAGAG
38300365 CTACGGTTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (57 bp):
GTCCGACTCCAGCGACGGACTTGGGTACGAGGTGTTACAATTTGATTGGTATCAGAG
Found at i:38306818 original size:27 final size:27
Alignment explanation
Indices: 38306787--38306964 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38306777 TAAATTGTAC
38306787 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38306814 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38306840 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38306868 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38306896 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38306923 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38306950 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38306965 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38306901 original size:82 final size:81
Alignment explanation
Indices: 38306788--38306943 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38306778 AAATTGTACA
* *
38306788 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38306852 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38306869 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38306934 TGCGAGTTGA
65 TGCGAATTGA
38306944 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38306955 original size:82 final size:81
Alignment explanation
Indices: 38306784--38306964 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38306774 GATTAAATTG
* *
38306784 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38306849 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38306865 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38306929 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38306947 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38306965 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38309711 original size:42 final size:42
Alignment explanation
Indices: 38309560--38309719 Score: 196
Period size: 42 Copynumber: 3.8 Consensus size: 42
38309550 CATACAATGT
* * *
38309560 CATATCCCAGATATGGTCTTACATGAAATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGC
* * * * **
38309602 CAATAGCCCAGCTACGGTCTTACACAAAGTCTCGCATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGC
38309645 CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGC
* *
38309687 CATATCCTAGATATGCTCTTACACGTAA-TCTCA
1 CATATCCCAGATATGGTCTTACACG-AAGTCTCA
38309720 GTAACCCTAA
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 64 0.63
43 37 0.37
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGC
Found at i:38311441 original size:10 final size:10
Alignment explanation
Indices: 38311428--38311473 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
38311418 CTGTGACTAA
*
38311428 ATGTGATTGT
1 ATGTGATTAT
*
38311438 ATGTAATTAT
1 ATGTGATTAT
*
38311448 ATGTGCTTAT
1 ATGTGATTAT
38311458 ATGTGATTGAT
1 ATGTGATT-AT
38311469 ATGTG
1 ATGTG
38311474 TCGGAATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (10 bp):
ATGTGATTAT
Found at i:38312228 original size:22 final size:20
Alignment explanation
Indices: 38312211--38312248 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38312201 CAATACCACT
38312211 TAAAGGAAATATCGATACCA
1 TAAAGGAAATATCGATACCA
* *
38312231 TAGAGGCAATATCGATAC
1 TAAAGGAAATATCGATAC
38312249 ATACGTAACA
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:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (20 bp):
TAAAGGAAATATCGATACCA
Found at i:38321624 original size:3 final size:3
Alignment explanation
Indices: 38321583--38321615 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
38321573 AACTTACCGG
*
38321583 CCA CCA CCA CCA CCA CCA CCA CCA TCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
38321616 AAACCACCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.64, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:38326654 original size:16 final size:16
Alignment explanation
Indices: 38326617--38326658 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38326607 TTAATCATAT
*
38326617 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
38326633 TT-AAATATATTATAA
1 TTAAAATATATTATAA
38326648 TTAAAATATAT
1 TTAAAATATAT
38326659 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:38326665 original size:14 final size:15
Alignment explanation
Indices: 38326626--38326667 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38326616 TTTAAACATA
*
38326626 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38326641 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
38326655 A-TATAATTTAATA
1 ATTATAATTAAATA
38326668 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:38330375 original size:93 final size:93
Alignment explanation
Indices: 38330245--38330414 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
38330235 CCCATAAGCG
*
38330245 AACTCGGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
38330310 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
* * * *
38330338 AACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
38330403 GAGTTCGGATGC
66 GAGTTCGGATGC
38330415 TCAATCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:38330409 original size:46 final size:46
Alignment explanation
Indices: 38330236--38330411 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
38330226 TGTAACCCGC
* * * * *
38330236 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
38330282 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
38330332 CTCA-CA---AACTCGGACTCAACTCAATGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
38330375 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38330412 TGCTCAATCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 8 0.07
44 1 0.01
46 61 0.56
47 27 0.25
49 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:38336881 original size:15 final size:16
Alignment explanation
Indices: 38336852--38336881 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38336842 CAAACATACT
38336852 TTAACACATTATCAAA
1 TTAACACATTATCAAA
38336868 TTAACACA-TATCAA
1 TTAACACATTATCAA
38336882 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:38338542 original size:25 final size:24
Alignment explanation
Indices: 38338493--38338554 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
38338483 TTCGGGCTAT
* *
38338493 ATAAT-GGGAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCAAAAGAACC
*
38338516 ATAATCGGGAAGTTCACAAAGAACC
1 ATAATCGGGAAGCTCA-AAAGAACC
38338541 AT-ATCGGGAAGCTC
1 ATAATCGGGAAGCTC
38338555 CGGATAGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.15
24 20 0.61
25 8 0.24
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (24 bp):
ATAATCGGGAAGCTCAAAAGAACC
Found at i:38338659 original size:25 final size:26
Alignment explanation
Indices: 38338594--38338660 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
38338584 AGCACTATTA
**
38338594 GGAAGCTCACAAAGAGCCAATTAACG
1 GGAAGCTCATGAAGAGCCAATTAACG
*
38338620 GGAAGCTCATGAAGAGCC-TTTAATCG
1 GGAAGCTCATGAAGAGCCAATTAA-CG
*
38338646 GGATGCTCAT-AAGAG
1 GGAAGCTCATGAAGAG
38338661 TTAAGGTGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 9 0.25
26 27 0.75
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (26 bp):
GGAAGCTCATGAAGAGCCAATTAACG
Found at i:38343992 original size:92 final size:93
Alignment explanation
Indices: 38343773--38344039 Score: 240
Period size: 94 Copynumber: 2.9 Consensus size: 93
38343763 TGTGTGAGCT
* * *** * * * *
38343773 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-AGAGCTAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGACGTA-AGCCAATATAAGACCATGTCTG
*
38343837 GGACATGGCATCGGCATTGAGACGAGTGTT
65 GGACATGGCATCGGCATTGAGAC-AGTGTC
* *
38343867 AGTGTAAGACATGTTTGGGACATGCATCTGCCTCGGGACGTAAGCCAATATAAGA-CATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGACGTAAGCCAATATAAGACCATGTCTGG
*
38343931 GACAT-GCATCGGC-TATGAGA-TGTGTC
66 GACATGGCATCGGCAT-TGAGACAGTGTC
* * * * *
38343957 GGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATG-ATAGCCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCG-GGACGTA-AGCCAATATAAGACCATGT
* * *
38344021 TTGGGATATGGCATGGGCA
62 CTGGGACATGGCATCGGCA
38344040 CTTTACCCAT
Statistics
Matches: 142, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
90 12 0.08
91 14 0.10
92 25 0.18
93 28 0.20
94 55 0.39
95 8 0.06
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGACGTAAGCCAATATAAGACCATGTCTGG
GACATGGCATCGGCATTGAGACAGTGTC
Found at i:38347563 original size:39 final size:39
Alignment explanation
Indices: 38347416--38347556 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
38347406 ATGATGTCCA
* ** *
38347416 GGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGGCCAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA-CCG
*
38347456 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA-CCG
*
38347496 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACCG
*
38347535 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
38347557 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
39 23 0.26
40 54 0.61
41 11 0.12
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCG
Found at i:38347587 original size:39 final size:39
Alignment explanation
Indices: 38347465--38347589 Score: 144
Period size: 39 Copynumber: 3.2 Consensus size: 39
38347455 GGACTAAGAT
*
38347465 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCC-GGTTAAGTC
* * * *
38347505 CCGAAGGCATTTGTGCGAGTTACTATAACGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGTTAAGTC
** * *
38347544 CCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATT
1 CCGAAGGCATTTGTGCGAGTTA-CTATATCCGGTTAAGTC
38347583 CCGAAGG
1 CCGAAGG
38347590 TACATGATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
38 2 0.03
39 42 0.59
40 27 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGTTAAGTC
Found at i:38351138 original size:40 final size:41
Alignment explanation
Indices: 38351108--38351292 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
38351098 GCTACTCGTT
*
38351108 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* *
38351148 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* *
38351188 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * *
38351227 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
38351268 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38351293 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 77 0.61
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:38351226 original size:79 final size:82
Alignment explanation
Indices: 38351108--38351292 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
38351098 GCTACTCGTT
* * *
38351108 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
38351171 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
38351188 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
38351251 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
38351268 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38351293 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:38360764 original size:24 final size:25
Alignment explanation
Indices: 38360711--38360767 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
38360701 GTTGTGAATT
* *
38360711 AGTATGCTCTCACGAGCTATAAATC
1 AGTAAGCTCTCACGAGCTAGAAATC
* *
38360736 GGTAAGCTCTCACGAGCT-GCAATC
1 AGTAAGCTCTCACGAGCTAGAAATC
38360760 AGTAAGCT
1 AGTAAGCT
38360768 TATACGAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (25 bp):
AGTAAGCTCTCACGAGCTAGAAATC
Found at i:38363194 original size:13 final size:13
Alignment explanation
Indices: 38363176--38363203 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38363166 ACAAAATTGG
38363176 AAAGATGAAAAAT
1 AAAGATGAAAAAT
38363189 AAAGATGAAAAAT
1 AAAGATGAAAAAT
38363202 AA
1 AA
38363204 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:38366238 original size:29 final size:28
Alignment explanation
Indices: 38366197--38366252 Score: 103
Period size: 29 Copynumber: 2.0 Consensus size: 28
38366187 TATCAGAAGT
38366197 ACTGATTTCATGGCCCGAAGCCAAATCA
1 ACTGATTTCATGGCCCGAAGCCAAATCA
38366225 ACTGATATTCATGGCCCGAAGCCAAATC
1 ACTGAT-TTCATGGCCCGAAGCCAAATC
38366253 GGTATAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (28 bp):
ACTGATTTCATGGCCCGAAGCCAAATCA
Found at i:38370363 original size:13 final size:13
Alignment explanation
Indices: 38370347--38370371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38370337 TTAATGAAAT
38370347 TTTCATGAAATCA
1 TTTCATGAAATCA
38370360 TTTCATGAAATC
1 TTTCATGAAATC
38370372 GTAGACCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TTTCATGAAATCA
Found at i:38370881 original size:54 final size:54
Alignment explanation
Indices: 38370685--38370898 Score: 252
Period size: 54 Copynumber: 4.0 Consensus size: 54
38370675 TTTCCTTTTT
* * * * *
38370685 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * **
38370738 GAACTCACCAATTCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
38370792 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
38370847 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
38370899 CCAAATTCCA
Statistics
Matches: 138, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.01
53 43 0.31
54 47 0.34
55 44 0.32
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:38370987 original size:47 final size:46
Alignment explanation
Indices: 38370871--38371121 Score: 202
Period size: 47 Copynumber: 5.4 Consensus size: 46
38370861 CATGCCTTGG
* ** * * *
38370871 CATGGTCTTACATGATATCCTTACCTTACCAAATTCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCGAATGCCATG-TCCTAA
* *
38370918 CATGGTCTTATATGGTATCCTTGTCTTACCGAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCGAATGCCATG-TCCTAA
** ** *
38370965 CATGGTCTTACATGGTATCCTTGTCTTAGTGACAATGCCACATCCTGA
1 CATGGTCTTACATGGTATCCTTGTCTTACCG--AATGCCATGTCCTAA
** * * * * *
38371013 TGTGGTCTTACATGG-AGTCCTTAATCAATGCCG-ATGCCATGTCTTGA
1 CATGGTCTTACATGGTA-TCCTT-GTC-TTACCGAATGCCATGTCCTAA
* * * *
38371060 CATCGTCTTACATGGGATCCTTGCCTTACC-AATGCCATGTCTTAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCGAATGCCATGTCCTAA
38371105 CATGGTCTTACATGGTA
1 CATGGTCTTACATGGTA
38371122 ACATGGTCTT
Statistics
Matches: 164, Mismatches: 33, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
45 31 0.19
46 1 0.01
47 98 0.60
48 23 0.14
49 9 0.05
50 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (46 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCGAATGCCATGTCCTAA
Found at i:38371117 original size:10 final size:10
Alignment explanation
Indices: 38371098--38371138 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
38371088 CCAATGCCAT
38371098 GTCTTAACATG
1 GTCTT-ACATG
38371109 GTCTTACATG
1 GTCTTACATG
*
38371119 G--TAACATG
1 GTCTTACATG
38371127 GTCTTACATG
1 GTCTTACATG
38371137 GT
1 GT
38371139 ATCCTTAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.27
10 14 0.54
11 5 0.19
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (10 bp):
GTCTTACATG
Found at i:38371125 original size:18 final size:18
Alignment explanation
Indices: 38371102--38371139 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
38371092 TGCCATGTCT
38371102 TAACATGGTCTTACATGG
1 TAACATGGTCTTACATGG
38371120 TAACATGGTCTTACATGG
1 TAACATGGTCTTACATGG
38371138 TA
1 TA
38371140 TCCTTAACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (18 bp):
TAACATGGTCTTACATGG
Found at i:38371133 original size:45 final size:45
Alignment explanation
Indices: 38371046--38371133 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
38371036 ATCAATGCCG
* * * *
38371046 ATGCCATGTCTTGACATCGTCTTACATGGGATCCTTGCCTTACCA
1 ATGCCATGTCTTAACATCGTCTTACATGGGAACATGGCCTTACCA
* * *
38371091 ATGCCATGTCTTAACATGGTCTTACATGGTAACATGGTCTTAC
1 ATGCCATGTCTTAACATCGTCTTACATGGGAACATGGCCTTAC
38371134 ATGGTATCCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (45 bp):
ATGCCATGTCTTAACATCGTCTTACATGGGAACATGGCCTTACCA
Found at i:38375016 original size:48 final size:48
Alignment explanation
Indices: 38374955--38375087 Score: 158
Period size: 48 Copynumber: 2.8 Consensus size: 48
38374945 TGATTAACGA
* *
38374955 GATCCCGTGTAAGACCATGTTTGGGACATGGCATCGACATCGATATGC
1 GATCTCGTGTAAGACCATGTTTGGGACATGGCATCGACATCGATAAGC
* * ** * * * *
38375003 GATCTCGTGTAAGATCATATCAGGGATATGGCTTCGGCATCGATAAGT
1 GATCTCGTGTAAGACCATGTTTGGGACATGGCATCGACATCGATAAGC
* *
38375051 GATTTCGTATAAGACCATGTTTGGGACATGGCATCGA
1 GATCTCGTGTAAGACCATGTTTGGGACATGGCATCGA
38375088 TATGAGGTCC
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
GATCTCGTGTAAGACCATGTTTGGGACATGGCATCGACATCGATAAGC
Found at i:38376951 original size:48 final size:48
Alignment explanation
Indices: 38376894--38377030 Score: 175
Period size: 48 Copynumber: 2.9 Consensus size: 48
38376884 ATCGATATGT
* * *
38376894 GATCTCATGTAATACCATATCTAGGACATGGCATTGGCATCAATCTAC
1 GATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCAATATAC
* * * * **
38376942 GATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGATATGT
1 GATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCAATATAC
* *
38376990 GATCCCATGTAAGACCATATCCAGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATC
38377031 CTACTATGTG
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCAATATAC
Found at i:38376966 original size:91 final size:93
Alignment explanation
Indices: 38376860--38377030 Score: 233
Period size: 96 Copynumber: 1.8 Consensus size: 93
38376850 TAATTTCGTA
* * *
38376860 TAAGACCATAGCTGGG-CTAT-C-GGCATCGATATGTGATCTCATGTAATACCATATCTAGGACA
1 TAAGACCATAGCTGGGAC-ATGCTGGCATCGATATGTGATCCCATGTAAGACCATATCCAGGACA
38376922 TGGCATTGGCATCAATCTACGATCCCATG
65 TGGCATTGGCATCAATCTACGATCCCATG
38376951 TAAGACCAT-GTCTGGGACATGGCGTTGGCATCGATATGTGATCCCATGTAAGACCATATCCAGG
1 TAAGACCATAG-CTGGGACAT-GC--TGGCATCGATATGTGATCCCATGTAAGACCATATCCAGG
*
38377015 ATATGGCATTGGCATC
62 ACATGGCATTGGCATC
38377031 CTACTATGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
90 1 0.01
91 16 0.23
92 1 0.01
93 1 0.01
96 50 0.72
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (93 bp):
TAAGACCATAGCTGGGACATGCTGGCATCGATATGTGATCCCATGTAAGACCATATCCAGGACAT
GGCATTGGCATCAATCTACGATCCCATG
Found at i:38381842 original size:40 final size:40
Alignment explanation
Indices: 38381764--38381987 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
38381754 ACCCAAGTAT
* *
38381764 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
38381803 CTTCGGGTCTTAGCCTGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
38381843 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
38381883 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
38381926 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
38381966 CCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
38381988 CATCCGAATA
Statistics
Matches: 163, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 114 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:38381949 original size:83 final size:80
Alignment explanation
Indices: 38381764--38381987 Score: 292
Period size: 83 Copynumber: 2.8 Consensus size: 80
38381754 ACCCAAGTAT
* * * *
38381764 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCTGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
38381827 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
*
38381843 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
38381907 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
38381926 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
38381988 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
79 13 0.10
80 48 0.38
81 1 0.01
83 66 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:38389978 original size:40 final size:40
Alignment explanation
Indices: 38389900--38390123 Score: 276
Period size: 40 Copynumber: 5.5 Consensus size: 40
38389890 ACCCAAGTAT
* *
38389900 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
38389939 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
38389979 CTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
38390019 CTTCGGGACTTAGCCCGGGA-ATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCC-GGATATAGTC-ACTA---GCACAAATGC
* *
38390062 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
38390102 CCTCGAGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
38390124 CATCCAAATA
Statistics
Matches: 162, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 12 0.07
40 110 0.68
41 4 0.02
42 3 0.02
43 33 0.20
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:38390084 original size:83 final size:81
Alignment explanation
Indices: 38389900--38390123 Score: 271
Period size: 83 Copynumber: 2.8 Consensus size: 81
38389890 ACCCAAGTAT
* * *
38389900 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCC-GGATATA
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGGATATA
**
38389962 GTCACTAGCATGAATGC
65 GTCACTAGCACAAATGC
*
38389979 CTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGA-ATAG
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGATATAG
38390043 -CAACTACTCGCACAAATGC
66 TC-ACTA---GCACAAATGC
* * * *
38390062 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGAGACTTAGCCC-GGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGATAT
38390124 CATCCAAATA
Statistics
Matches: 126, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
79 12 0.10
80 46 0.37
81 4 0.03
82 3 0.02
83 61 0.48
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGATATAG
TCACTAGCACAAATGC
Found at i:38391741 original size:79 final size:78
Alignment explanation
Indices: 38391639--38391861 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
38391629 GCTCCTCGTT
* *
38391639 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
38391704 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
38391719 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
38391783 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
38391797 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
38391860 GA
63 GA
38391862 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:38391756 original size:39 final size:40
Alignment explanation
Indices: 38391639--38391861 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
38391629 GCTCCTCGTT
* *
38391639 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
38391679 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
38391719 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
38391758 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
38391797 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
38391838 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38391862 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:38399660 original size:40 final size:40
Alignment explanation
Indices: 38399616--38399877 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
38399606 GCTCCTCGTT
* *
38399616 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
38399656 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38399696 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38399735 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38399774 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
38399813 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
38399854 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38399878 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:38407997 original size:26 final size:26
Alignment explanation
Indices: 38407961--38408012 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
38407951 AATACTAAGT
38407961 GCAGGCTACTATACGTACCCGATAGC
1 GCAGGCTACTATACGTACCCGATAGC
*
38407987 GCAGGCTACTATGCGTACCCGATAGC
1 GCAGGCTACTATACGTACCCGATAGC
38408013 TTCGATCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (26 bp):
GCAGGCTACTATACGTACCCGATAGC
Found at i:38417964 original size:22 final size:22
Alignment explanation
Indices: 38417936--38417979 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
38417926 TTTTGAACCA
38417936 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
* *
38417958 TTACCATTTCTTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
38417980 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.36, G:0.02, T:0.36
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:38419013 original size:23 final size:21
Alignment explanation
Indices: 38418961--38419013 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
38418951 TCCACGTCTT
* *
38418961 TTTCTTTTGTTTCTTTTTCTA
1 TTTCTTTTCTTTCTTTTTCGA
*
38418982 ATTCATTTTCTCTTCTTTCTTCGA
1 TTTC-TTTTCT-TTCTTT-TTCGA
38419006 TTTCTTTT
1 TTTCTTTT
38419014 TCACTCTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 5 0.20
23 10 0.40
24 7 0.28
ACGTcount: A:0.08, C:0.19, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTCTTTTCTTTCTTTTTCGA
Found at i:38419301 original size:82 final size:82
Alignment explanation
Indices: 38419202--38419365 Score: 292
Period size: 82 Copynumber: 2.0 Consensus size: 82
38419192 TGACCTTTCG
* * *
38419202 ATCTAGTTGCCATGGTTCTCCTAGCAACAAATGGCAGGCTTGAATAGGTACTACGTCGCACACGA
1 ATCTAGTTGCCACGGTTCTCCTAGCAACAAATGGCAGGCTTGAATAGGCACTACGTCGCACACAA
38419267 CTTCGTCTTGATACTTA
66 CTTCGTCTTGATACTTA
*
38419284 ATCTAGTTGCCACGGTTCTCCTAGCAACAAATGGCAGGCTTGAATAGGCATTACGTCGCACACAA
1 ATCTAGTTGCCACGGTTCTCCTAGCAACAAATGGCAGGCTTGAATAGGCACTACGTCGCACACAA
38419349 CTTCGTCTTGATACTTA
66 CTTCGTCTTGATACTTA
38419366 CCGATAGAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCTAGTTGCCACGGTTCTCCTAGCAACAAATGGCAGGCTTGAATAGGCACTACGTCGCACACAA
CTTCGTCTTGATACTTA
Found at i:38427715 original size:21 final size:22
Alignment explanation
Indices: 38427689--38427732 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
38427679 AAACGAGCTC
38427689 GTTGAGCTAAGTTGAG-TTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
* *
38427710 GTTGAGCTGATTTGAGCTTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
38427732 G
1 G
38427733 GAGTATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34
Consensus pattern (22 bp):
GTTGAGCTAAGTTGAGCTTGAA
Found at i:38436263 original size:10 final size:10
Alignment explanation
Indices: 38436250--38436287 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
38436240 TTGTAGCTAA
38436250 ATTGAGCTCG
1 ATTGAGCTCG
38436260 ATTGAGCT-G
1 ATTGAGCTCG
38436269 ACTTGAGCTCG
1 A-TTGAGCTCG
*
38436280 AGTGAGCT
1 ATTGAGCT
38436288 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Done.