Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 70 of 226
Found at i:22455337 original size:24 final size:24
Alignment explanation
Indices: 22455310--22455360 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
22455300 AAAATTATAA
22455310 TGGATTGAACCTTGAAGATTACAG
1 TGGATTGAACCTTGAAGATTACAG
22455334 TGGATTGAACCTTGAAGATTACAG
1 TGGATTGAACCTTGAAGATTACAG
22455358 TGG
1 TGG
22455361 GGGCAATCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (24 bp):
TGGATTGAACCTTGAAGATTACAG
Found at i:22455710 original size:45 final size:45
Alignment explanation
Indices: 22455655--22456072 Score: 552
Period size: 45 Copynumber: 9.3 Consensus size: 45
22455645 GCAGCAATAG
* * * * *
22455655 AGTAGGTCGAAGATAACAGATCTTGTCTTCCTGTCTTGACAGTGA
1 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
* *
22455700 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTATGTTGGCAGCGA
1 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
* * * *
22455745 AATAGATCGAATATAGTAGGTCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
*
22455790 AGTAGA-CTGAAGATAGCAGATCTTGTCTTTCTGTATTGGCAGCGA
1 AGTAGATC-GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
* * * * **
22455835 AGTAGATCGAAGATAGCATATCTTATCTTCCAGTATTGACAGTAA
1 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
* * *
22455880 AGTAGACCGAAGATAGCAGATATTGTCTTCCTGTATTGGTAGCGA
1 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
* * * *
22455925 AGTAGATCGAAGATAACAGGTCTTATCTTCCTGTATTGGCAGTGA
1 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
* *
22455970 AGTAGA-CTGAAGATAGCAGATCTTGTCTTCCTGTATTAGTAGCGA
1 AGTAGATC-GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
*
22456015 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAA
1 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
22456060 AGTAGATCGAAGA
1 AGTAGATCGAAGA
22456073 CACTAGCCTC
Statistics
Matches: 320, Mismatches: 49, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
44 2 0.01
45 316 0.99
46 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
Found at i:22456200 original size:50 final size:48
Alignment explanation
Indices: 22456125--22456431 Score: 250
Period size: 51 Copynumber: 6.5 Consensus size: 48
22456115 ATAGCGAATA
*
22456125 TTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTATAAATACAGATC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT--ATACAGATC
* *
22456175 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATAATAGATA
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT--AT-ACAGATC
*
22456226 TTATCCCTCTGAAGTTGCAGTAGAGCAGA-T----C-ATAT-CA-AGTC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATATACAGA-TC
* * * * *
22456267 TTATCT-TCCTAAAGTTGCAGTGGAGTAGGTTAAAG-T-TACA-AG-TC
1 TTATCTCT-CTGAAGTTGCAGTAGAGCAGATTAAAGCTATATACAGATC
* * * * * * *
22456311 TTATCTCCCTGAAGCTGCAGTGGAGCAGACTGAAG--ATA-GCAAATC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATATACAGATC
* *
22456356 TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAATAACAAATC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT--AT-ACAGATC
22456407 TTATCTCTCTGAAGTTGCAGTAGAG
1 TTATCTCTCTGAAGTTGCAGTAGAG
22456432 TAGACCATAT
Statistics
Matches: 208, Mismatches: 28, Indels: 41
0.75 0.10 0.15
Matches are distributed among these distances:
40 2 0.01
41 24 0.12
42 1 0.00
43 2 0.01
44 32 0.15
45 36 0.17
46 1 0.00
47 2 0.01
49 1 0.00
50 43 0.21
51 64 0.31
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (48 bp):
TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATATACAGATC
Found at i:22456368 original size:45 final size:45
Alignment explanation
Indices: 22456265--22456738 Score: 327
Period size: 44 Copynumber: 10.6 Consensus size: 45
22456255 TCATATCAAG
* * * * * * *
22456265 TCTTATCTTCCTAAAGTTGCAGTGGAGTAGGTTAAAG-TTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAA
* * *
22456309 TCTTATCTCCCTGAAGCTGCAGTGGAGCAGACTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAA
* * * *
22456354 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAATAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGATAACAAA
* * ** *
22456405 TCTTATCTCTCTGAAGTTGCAGT--AG-AG-TAGACCATATCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAA
* * ** * * **
22456446 CCTTATCCCCCTGAAGTTGCAACGGGGCAGGTTGAA-ATTGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAA
* * * * *
22456490 CCTTATCTCCATAAAGTTGCAGTGGAGCAGGTTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAA
* * * * * *
22456535 CCTTATCACCTTGAAGTTACAGTGGAGCAGGTTGAAGAT-ACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAA
* * *
22456579 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAA
* * ** * *
22456624 CCTTATTTCCCTGAAGTTGCAGTGGAATAGGTTGAAGA-AACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAA
** * * * *
22456668 TCTTATCTCCCTGAAGTTATAGTGAAGCAGATTGAAG-TTACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAA
* **
22456712 TCCTATCTCTATGAAGTTGCAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
22456739 TGAATTAAAA
Statistics
Matches: 343, Mismatches: 73, Indels: 28
0.77 0.16 0.06
Matches are distributed among these distances:
41 25 0.07
42 1 0.00
43 1 0.00
44 163 0.48
45 115 0.34
47 1 0.00
48 3 0.01
49 2 0.01
50 1 0.00
51 31 0.09
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAA
Found at i:22456383 original size:89 final size:88
Alignment explanation
Indices: 22456278--22456739 Score: 346
Period size: 89 Copynumber: 5.2 Consensus size: 88
22456268 TATCTTCCTA
*
22456278 AAGTTGCAGTGGAGTAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGCTGCAGTGGAGCAGACTG
1 AAGTTGCAGTGGAGTAGGTTAAAGTTACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
*
22456343 AAGATAGCAAATCTTATCTCTCTG
65 AAGATAGCAAACCTTATCTCTCTG
* * * *
22456367 AAGTTGCAGTAGAGTAGATTAAAGCTATAAATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAG
1 AAGTTGCAGTGGAGTAGGTTAAAG---T---T-AC-AATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
22456432 TAGAC----CATATCAAACCTTATCCCCCTG
58 CAGACTGAAGATAGCAAACCTTATCTCTCTG
** * * * * * * **
22456459 AAGTTGCAACGGGGCAGGTTGAAA-TTGCAAACCTTATCTCCATAAAGTTGCAGTGGAGCAGGTT
1 AAGTTGCAGTGGAGTAGGTT-AAAGTTAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
*
22456523 GAAGATAGCAAACCTTATCAC-CTTG
64 GAAGATAGCAAACCTTATCTCTC-TG
* * * * *
22456548 AAGTTACAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTG
1 AAGTTGCAGTGGAGTAGGTTAAAGTTA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
* * * *
22456613 AAGATAACCAACCTTATTTCCCTG
65 AAGATAGCAAACCTTATCTCTCTG
* * ** ** * *
22456637 AAGTTGCAGTGGAATAGGTTGAAGAAACCAATCTTATCTCCCTGAAGTTATAGTGAAGCAGATTG
1 AAGTTGCAGTGGAGTAGGTTAAAGTTA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
* ** *
22456702 AAGTTA-CTAGTCC-TATCTCTATG
65 AAGATAGC-AAACCTTATCTCTCTG
22456725 AAGTTGCAGTGGAGT
1 AAGTTGCAGTGGAGT
22456740 GAATTAAAAT
Statistics
Matches: 292, Mismatches: 63, Indels: 37
0.74 0.16 0.09
Matches are distributed among these distances:
85 28 0.10
86 1 0.00
88 25 0.09
89 168 0.58
90 2 0.01
92 32 0.11
93 3 0.01
95 1 0.00
96 30 0.10
97 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (88 bp):
AAGTTGCAGTGGAGTAGGTTAAAGTTACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
AGATAGCAAACCTTATCTCTCTG
Found at i:22456497 original size:181 final size:181
Alignment explanation
Indices: 22456172--22456564 Score: 502
Period size: 181 Copynumber: 2.2 Consensus size: 181
22456162 ATAAATACAG
* *
22456172 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATAATAGATATTATCCCTCTG
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATAACAAATATTATCCCTCTG
* ** ** ** *
22456237 AAGTTGCAGTAGAGCAGATCATATCAAGTCTTATCTTCCTAAAGTTGCAGTGGAGTAGGTTAAAG
66 AAGTTGCAGTAGAGCAGACCATATCAAACCTTATCCCCCTAAAGTTGCAACGGAGCAGGTTAAAG
** * *
22456302 TTACAAGTCTTATCTCCCTGAAGCTGCAGTGGAGCAGACTGAAGATAGCAA
131 TTACAAACCTTATCTCCATAAAGCTGCAGTGGAGCAGACTGAAGATAGCAA
* * *
22456353 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAATAACAAATCTTATCTCTCTG
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATAACAAATATTATCCCTCTG
* * *
22456418 AAGTTGCAGTAGAGTAGACCATATCAAACCTTATCCCCCTGAAGTTGCAACGGGGCAGGTTGAAA
66 AAGTTGCAGTAGAGCAGACCATATCAAACCTTATCCCCCTAAAGTTGCAACGGAGCAGGTT-AAA
* * **
22456483 -TTGCAAACCTTATCTCCATAAAGTTGCAGTGGAGCAGGTTGAAGATAGCAA
130 GTTACAAACCTTATCTCCATAAAGCTGCAGTGGAGCAGACTGAAGATAGCAA
* * * *
22456534 ACCTTATCAC-CTTGAAGTTACAGTGGAGCAG
1 ATCTTATCTCTC-TGAAGTTGCAGTAGAGCAG
22456565 GTTGAAGATA
Statistics
Matches: 181, Mismatches: 29, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
180 1 0.01
181 177 0.98
182 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (181 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATAACAAATATTATCCCTCTG
AAGTTGCAGTAGAGCAGACCATATCAAACCTTATCCCCCTAAAGTTGCAACGGAGCAGGTTAAAG
TTACAAACCTTATCTCCATAAAGCTGCAGTGGAGCAGACTGAAGATAGCAA
Found at i:22456920 original size:100 final size:100
Alignment explanation
Indices: 22456747--22456947 Score: 375
Period size: 100 Copynumber: 2.0 Consensus size: 100
22456737 AGTGAATTAA
*
22456747 AATGATGGATATTATTTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGACTTTATGCAGTAAAG
1 AATGATAGATATTATTTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGACTTTATGCAGTAAAG
*
22456812 CGAGTTGAAGCTACAAGTCTTATCTCACTGAGGTT
66 CGAGTTGAAGCTACAAGTCTTATCTCACTAAGGTT
*
22456847 AATGATAGATCTTATTTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGACTTTATGCAGTAAAG
1 AATGATAGATATTATTTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGACTTTATGCAGTAAAG
22456912 CGAGTTGAAGCTACAAGTCTTATCTCACTAAGGTT
66 CGAGTTGAAGCTACAAGTCTTATCTCACTAAGGTT
22456947 A
1 A
22456948 CAGTAGAGTA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (100 bp):
AATGATAGATATTATTTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGACTTTATGCAGTAAAG
CGAGTTGAAGCTACAAGTCTTATCTCACTAAGGTT
Found at i:22457008 original size:45 final size:44
Alignment explanation
Indices: 22456924--22457265 Score: 319
Period size: 44 Copynumber: 7.7 Consensus size: 44
22456914 AGTTGAAGCT
* * * * **
22456924 ACAAGTCTTATCTCACT-AAGGTTACAGTAGAGTAGACTGACCATA
1 ACAA-TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACTGAAGATA
*
22456969 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCATACTGAAGATA
1 ACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
* * * *
22457014 GCAAACCTTATCTCCCTGAAGTTACAGTGGAGCACG-TTGAAGATA
1 AC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTGAAGATA
* * * *
22457059 CCAATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
1 ACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
** * *
22457103 TTAATCTTATCTCCCAGAAGTTGCAATGGAGCAGACTGAAGATA
1 ACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * **
22457147 ACCAACCTTATTTTCCTGAAGTTACAGTGGAGCAGGTTGAAGATA
1 A-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
* * * *
22457192 CCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA
1 ACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
** * *
22457236 TTAATCCTATCTCCCTGAAGTTGCAATGGA
1 ACAATCTTATCTCCCTGAAGTTGCAGTGGA
22457266 ACGGATTAAA
Statistics
Matches: 245, Mismatches: 47, Indels: 11
0.81 0.16 0.04
Matches are distributed among these distances:
43 1 0.00
44 134 0.55
45 106 0.43
46 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
ACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
Found at i:22457070 original size:89 final size:88
Alignment explanation
Indices: 22456916--22457265 Score: 344
Period size: 89 Copynumber: 3.9 Consensus size: 88
22456906 GTAAAGCGAG
* * * * * * * ** *
22456916 TTGAAGCTACAAGTCTTATCTCACT-AAGGTTACAGTAGAGTAGACTGACCATAACAAGTCTTAT
1 TTGAAGATACAAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGATACCAA-TCTTAT
*
22456980 CTCCCTGAAGTTGCAGTGGAGCATA
64 CTCCCTGAAGTTGCAGTGGAGCAGA
* * * *
22457005 CTGAAGATAGCAAACCTTATCTCCCTGAAGTTACAGTGGAGCACG-TTGAAGATACCAATATTAT
1 TTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATACCAATCTTAT
22457069 CTCCCTGAAGTTGCAGTGGAGCAGA
64 CTCCCTGAAGTTGCAGTGGAGCAGA
* ** * * * * *
22457094 TTGAAGCTATTAATCTTATCTCCCAGAAGTTGCAATGGAGCAGACTGAAGATAACCAACCTTATT
1 TTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACCAATCTTATC
* * *
22457159 TTCCTGAAGTTACAGTGGAGCAGG
65 TCCCTGAAGTTGCAGTGGAGCAGA
* * * ** *
22457183 TTGAAGATACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCT
1 TTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAATCTTATCT
*
22457248 CCCTGAAGTTGCAATGGA
66 CCCTGAAGTTGCAGTGGA
22457266 ACGGATTAAA
Statistics
Matches: 212, Mismatches: 44, Indels: 11
0.79 0.16 0.04
Matches are distributed among these distances:
87 1 0.00
88 57 0.27
89 117 0.55
90 34 0.16
91 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (88 bp):
TTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAATCTTATCT
CCCTGAAGTTGCAGTGGAGCAGA
Found at i:22457086 original size:44 final size:44
Alignment explanation
Indices: 22456974--22457265 Score: 343
Period size: 44 Copynumber: 6.6 Consensus size: 44
22456964 CCATAACAAG
* * *
22456974 TCTTATCTCCCTGAAGTTGCAGTGGAGCATACTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CCAA
* *
22457019 CCTTATCTCCCTGAAGTTACAGTGGAGCACG-TTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATACCAA
* * **
22457063 TATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * *
22457107 TCTTATCTCCCAGAAGTTGCAATGGAGCAGACTGAAGATAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACCAA
* * * * *
22457152 CCTTATTTTCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * **
22457196 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTATTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* *
22457240 TCCTATCTCCCTGAAGTTGCAATGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
22457266 ACGGATTAAA
Statistics
Matches: 206, Mismatches: 38, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
43 1 0.00
44 136 0.66
45 69 0.33
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
Found at i:22457154 original size:133 final size:133
Alignment explanation
Indices: 22456974--22457265 Score: 485
Period size: 133 Copynumber: 2.2 Consensus size: 133
22456964 CCATAACAAG
* * *
22456974 TCTTATCTCCCTGAAGTTGCAGTGGAGCATACTGAAGATAGCAAACCTTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAACAAACCTTATCTCCCTGAAGTTAC
*
22457039 AGTGGAGCACGTTGAAGATACCAATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAT
66 AGTGGAGCACGTTGAAGATACCAATATTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAT
22457104 TAA
131 TAA
* * * *
22457107 TCTTATCTCCCAGAAGTTGCAATGGAGCAGACTGAAGATAACCAACCTTATTTTCCTGAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAACAAACCTTATCTCCCTGAAGTTAC
* *
22457172 AGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAT
66 AGTGGAGCACGTTGAAGATACCAATATTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAT
22457237 TAA
131 TAA
*
22457240 TCCTATCTCCCTGAAGTTGCAATGGA
1 TCTTATCTCCCTGAAGTTGCAATGGA
22457266 ACGGATTAAA
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 147 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAACAAACCTTATCTCCCTGAAGTTAC
AGTGGAGCACGTTGAAGATACCAATATTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAT
TAA
Found at i:22458580 original size:15 final size:15
Alignment explanation
Indices: 22458553--22458590 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
22458543 GTTATTAGGC
*
22458553 TTATTATTATTATGA
1 TTATTATTATTATCA
22458568 TTATTATTATTATCA
1 TTATTATTATTATCA
*
22458583 TTAATATT
1 TTATTATT
22458591 TTCGTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (15 bp):
TTATTATTATTATCA
Found at i:22460328 original size:3 final size:3
Alignment explanation
Indices: 22460320--22460346 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22460310 TTTTAAAGCA
22460320 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
22460347 AGGGAGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22460696 original size:3 final size:3
Alignment explanation
Indices: 22460688--22460720 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22460678 TGGATTTCTC
22460688 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
22460721 TATTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CCT
Found at i:22462695 original size:47 final size:47
Alignment explanation
Indices: 22462617--22463023 Score: 661
Period size: 47 Copynumber: 8.6 Consensus size: 47
22462607 CCCTTCGGGA
* * * * * *
22462617 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22462664 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22462711 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22462758 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22462805 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22462854 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22462901 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22462950 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22462997 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
22463024 TATTCAAATA
Statistics
Matches: 336, Mismatches: 20, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
47 246 0.73
49 90 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22462855 original size:96 final size:96
Alignment explanation
Indices: 22462617--22463023 Score: 700
Period size: 96 Copynumber: 4.3 Consensus size: 96
22462607 CCCTTCGGGA
* * * * *
22462617 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
22462680 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
22462711 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
22462774 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
22462805 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
22462870 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
22462901 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
22462966 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
22462997 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
22463024 TATTCAAATA
Statistics
Matches: 298, Mismatches: 11, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
93 1 0.00
94 110 0.37
96 187 0.63
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22462873 original size:143 final size:141
Alignment explanation
Indices: 22462617--22463023 Score: 679
Period size: 143 Copynumber: 2.9 Consensus size: 141
22462607 CCCTTCGGGA
* * * * * *
22462617 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
22462682 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
22462747 GGCTATTAGGC
131 GGCCATTAGGC
* *
22462758 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
* *
22462823 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
22462888 TCGGCCATTAGGC
129 TCGGCCATTAGGC
22462901 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
22462966 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
22463024 TATTCAAATA
Statistics
Matches: 247, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
141 47 0.19
143 155 0.63
145 45 0.18
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:22471766 original size:21 final size:22
Alignment explanation
Indices: 22471729--22471771 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22471719 CCTTATATAA
22471729 TTTTCTTCACATAAAAT-TTAC
1 TTTTCTTCACATAAAATGTTAC
22471750 TTTTCATTCACAT-AAATGTTAC
1 TTTTC-TTCACATAAAATGTTAC
22471772 GCCATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTTCTTCACATAAAATGTTAC
Found at i:22472773 original size:22 final size:23
Alignment explanation
Indices: 22472734--22472778 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
22472724 TGAATAGTGT
* *
22472734 AAGAATATATATATATAT-TATA
1 AAGAATATATAAACATATATATA
*
22472756 AAGAATGTATAAACATATATATA
1 AAGAATATATAAACATATATATA
22472779 GATTATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (23 bp):
AAGAATATATAAACATATATATA
Found at i:22472966 original size:3 final size:3
Alignment explanation
Indices: 22472958--22473083 Score: 114
Period size: 3 Copynumber: 40.3 Consensus size: 3
22472948 ATATGCAAGT
*
22472958 ATA ATA ATA ATAA ATA AT- ATA ATA ATTA TTA AT- ATGA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA ATA AT-A ATA ATA ATA
*
22473004 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACAA ATA ATGCA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA AT--A ATA
* * *
22473052 ATA ATG ATGCA ATA ACA ATA TTA ATA A-A ATA A
1 ATA ATA AT--A ATA ATA ATA ATA ATA ATA ATA A
22473084 ACTAAAAAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
2 6 0.06
3 82 0.80
4 9 0.09
5 5 0.05
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22474492 original size:50 final size:51
Alignment explanation
Indices: 22474435--22474909 Score: 254
Period size: 50 Copynumber: 9.5 Consensus size: 51
22474425 GCTAAGGAAG
* * *
22474435 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAAC
1 TAAGATCCGCCGTCGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAAC
* ** ** ** * * * *
22474486 T-AGATCCGCCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGAG-AAG
1 TAAGATCCGCCGTCGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAAC
* * * * * *
22474535 TAAGATCTGACGTTGTGGCTTCAATC-TTTTAATTACAATGTCGAGGAAAC
1 TAAGATCCGCCGTCGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAAC
* * * * ** ** * ** * * *
22474585 -CAGATCCACCATCGTAGCTTCAATCTGCTCCACTGTACCGCCAGGG-AAG
1 TAAGATCCGCCGTCGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAAC
* * * *
22474634 TAAGATCCGCTGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAAC
1 TAAGATCCGCCGTCGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAAC
* * * * ** ** * *
22474685 -CAGATCTGCCGTCGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAA-
1 TAAGATCCGCCGTCGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAAC
* ** * * *
22474734 TAAGATCCGCCTTTAT-GCTTCAATATTTTTAATTGTAATGTCGGGGAAAC
1 TAAGATCCGCCGTCGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAAC
* * ** * * * *
22474784 -AAGATCCGCCGTCGTAGCTTCAATCTGTTCT-ACTGCACCGCCAGAG-AAG
1 TAAGATCCGCCGTCGTGGCTTCAATCT-TTTTAACTGCAATGTCGGGGAAAC
* *
22474833 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATGTTGGGGAAA-
1 TAAGATCCGCCGTCGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAAC
* **
22474883 TCAGATCCGCCGTCGTGATTTCAATCT
1 TAAGATCCGCCGTCGTGGCTTCAATCT
22474910 GTTCCTCTAC
Statistics
Matches: 290, Mismatches: 122, Indels: 25
0.66 0.28 0.06
Matches are distributed among these distances:
49 71 0.24
50 211 0.73
51 8 0.03
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (51 bp):
TAAGATCCGCCGTCGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAAC
Found at i:22474526 original size:100 final size:99
Alignment explanation
Indices: 22474403--22474962 Score: 694
Period size: 100 Copynumber: 5.6 Consensus size: 99
22474393 GCCATCATGA
* * *
22474403 CTTCAATCTATTTCACTACACCGCTAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
1 CTTCAATCTGTTCCACTGCACCGC-AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
*
22474468 TTGTAATGTCGGGGAAACTAGATCCGCCGTCGTAG
65 TTGTAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* * * *
22474503 CTTCAATCTGCTCCACTGCACCGCCAGAGAAGTAAGATCTGACGTTGTGGCTTCAATC-TTTTAA
1 CTTCAATCTGTTCCACTGCACCGCAAG-GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
** * * *
22474567 TTACAATGTCGAGGAAACCAGATCCACCATCGTAG
65 TTGTAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* * * *
22474602 CTTCAATCTGCTCCACTGTACCGCCAGGGAAGTAAGATCCGCTGTTGTGGCTTCAATCTTTTTAA
1 CTTCAATCTGTTCCACTGCACCG-CAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
*
22474667 TTGTAATGTCGGGGAAACCAGATCTGCCGTCGTAG
65 TTGTAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* * * * * *
22474702 CTTCAATCTATTCCACTGCACCGCCAGGGAAATAAGATCCGCCTTTAT-GCTTCAATATTTTTAA
1 CTTCAATCTGTTCCACTGCACCG-CAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
*
22474766 TTGTAATGTCGGGGAAACAAGATCCGCCGTCGTAG
65 TTGTAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* *
22474801 CTTCAATCTGTTCTACTGCACCGCCAGAGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
1 CTTCAATCTGTTCCACTGCACCGCAAG-GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
* * * *
22474866 CTGCAATGTTGGGGAAATCAGATCCGCCGTCGT-G
65 TTGTAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* * * * * * *
22474900 ATTTCAATCTGTTCCTCTACACCGCTAGGGAAGTAAGATTCACCGTTGTCGCTTCAATCTTTT
1 -CTTCAATCTGTTCCACTGCACCGC-AAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTT
22474963 CCACTATAAT
Statistics
Matches: 396, Mismatches: 57, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
98 2 0.01
99 173 0.44
100 220 0.56
101 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (99 bp):
CTTCAATCTGTTCCACTGCACCGCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
TGTAATGTCGGGGAAACCAGATCCGCCGTCGTAG
Found at i:22474766 original size:199 final size:199
Alignment explanation
Indices: 22474416--22474962 Score: 722
Period size: 199 Copynumber: 2.7 Consensus size: 199
22474406 CAATCTATTT
* * *
22474416 CACTACACCGCTAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGG
1 CACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGG
* * * *
22474481 GAAACTAGATCCGCCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGAGAAGTAAGATCTGAC
66 GAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATCCGAC
* *
22474546 GTTGTGGCTTCAATCTTTTAATTACAATGTCGAGGAAACCAGATCCACCATCGTAGCTTCAATCT
131 GTTATGGCTTCAATCTTTTAATTACAATGTCGAGGAAACAAGATCCACCATCGTAGCTTCAATCT
22474611 GCTC
196 GCTC
* *
22474615 CACTGTACCGCCAGGGAAGTAAGATCCGCTGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGG
1 CACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGG
* * * *
22474680 GAAACCAGATCTGCCGTCGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAATAAGATCCGCC
66 GAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATCCGAC
* * ** * * *
22474745 TTTAT-GCTTCAATATTTTTAATTGTAATGTCGGGGAAACAAGATCCGCCGTCGTAGCTTCAATC
131 GTTATGGCTTCAAT-CTTTTAATTACAATGTCGAGGAAACAAGATCCACCATCGTAGCTTCAATC
*
22474809 TGTTC
195 TGCTC
* * * * *
22474814 TACTGCACCGCCAGAGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATGTTGGG
1 CACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGG
* * * * * *
22474879 GAAATCAGATCCGCCGTCGT-GATTTCAATCTGTTCCTCTACACCGCTAGGGAAGTAAGATTC-A
66 GAAACCAGATCCGCCGTCGTAG-CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATCCGA
* *
22474942 CCGTTGTCGCTTCAATCTTTT
130 -CGTTATGGCTTCAATCTTTT
22474963 CCACTATAAT
Statistics
Matches: 301, Mismatches: 43, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
198 9 0.03
199 284 0.94
200 8 0.03
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (199 bp):
CACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGG
GAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATCCGAC
GTTATGGCTTCAATCTTTTAATTACAATGTCGAGGAAACAAGATCCACCATCGTAGCTTCAATCT
GCTC
Found at i:22474881 original size:149 final size:149
Alignment explanation
Indices: 22474430--22474893 Score: 403
Period size: 149 Copynumber: 3.1 Consensus size: 149
22474420 ACACCGCTAA
* * * *
22474430 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAACTAGATCCGC
1 GGAAATAAGATCCGCCTTTAT-GCTTCAATCTTTTTAATTGTAATGTCGGGGAAACAAGATCCGC
* * *
22474495 CGTCGTAGCTTCAATCTGCTCCACTGCACCGCCAGAGAAGTAAGATCTGACGTTGTGGCTTCAAT
65 CGTCGTAGCTTCAATCTGTTCTACTGCACCGCCAGAGAAGTAAGATCTGCCGTTGTGGCTTCAAT
* * *
22474560 C-TTTTAATTACAATGTCGA
130 CTTTTTAACTGCAATGTCGG
** * * ** ** * ** * * **
22474579 GGAAACCAGATCCACCATCGTA-GCTTCAATCTGCTCCACTGTACCGCCAGGGAAGTAAGATCCG
1 GGAAATAAGATCCGCC-T-TTATGCTTCAATCTTTTTAATTGTAATGTCGGGGAAACAAGATCCG
* * * * * * ** * * * *** * *
22474643 CTGTTGTGGCTTCAATCT-TTTTAATTGTAATGTCGGGGAAACCAGATCTGCCGTCGTAGCTTCA
64 CCGTCGTAGCTTCAATCTGTTCT-ACTGCACCGCCAGAGAAGTAAGATCTGCCGTTGTGGCTTCA
* ** ** * *
22474707 ATCTATTCCACTGCACCGCCAG
128 ATCTTTTTAACTGCAATGTCGG
*
22474729 GGAAATAAGATCCGCCTTTATGCTTCAATATTTTTAATTGTAATGTCGGGGAAACAAGATCCGCC
1 GGAAATAAGATCCGCCTTTATGCTTCAATCTTTTTAATTGTAATGTCGGGGAAACAAGATCCGCC
*
22474794 GTCGTAGCTTCAATCTGTTCTACTGCACCGCCAGAGAAGTAAGATCCGCCGTTGTGGCTTCAATC
66 GTCGTAGCTTCAATCTGTTCTACTGCACCGCCAGAGAAGTAAGATCTGCCGTTGTGGCTTCAATC
*
22474859 TTTTTAACTGCAATGTTGG
131 TTTTTAACTGCAATGTCGG
*
22474878 GGAAATCAGATCCGCC
1 GGAAATAAGATCCGCC
22474894 GTCGTGATTT
Statistics
Matches: 219, Mismatches: 90, Indels: 12
0.68 0.28 0.04
Matches are distributed among these distances:
148 3 0.01
149 191 0.87
150 24 0.11
151 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (149 bp):
GGAAATAAGATCCGCCTTTATGCTTCAATCTTTTTAATTGTAATGTCGGGGAAACAAGATCCGCC
GTCGTAGCTTCAATCTGTTCTACTGCACCGCCAGAGAAGTAAGATCTGCCGTTGTGGCTTCAATC
TTTTTAACTGCAATGTCGG
Found at i:22475936 original size:23 final size:23
Alignment explanation
Indices: 22475906--22475951 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22475896 TCCAAAAAGA
22475906 AAGTCTTAATTTAGACTCTTTCT
1 AAGTCTTAATTTAGACTCTTTCT
22475929 AAGTCTTAATTTAGACTCTTTCT
1 AAGTCTTAATTTAGACTCTTTCT
22475952 TATCAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (23 bp):
AAGTCTTAATTTAGACTCTTTCT
Found at i:22476608 original size:14 final size:13
Alignment explanation
Indices: 22476591--22476660 Score: 59
Period size: 15 Copynumber: 4.8 Consensus size: 13
22476581 TTTTCATCAT
22476591 TTTTATTTTTTCGA
1 TTTTATTTTTT-GA
22476605 TTTTGATTTTTTGA
1 TTTT-ATTTTTTGA
22476619 TTTTGATTTTTTCTGA
1 TTTT-A-TTTTT-TGA
*
22476635 TTTTTTATTTTTTTA
1 --TTTTATTTTTTGA
*
22476650 TTTTGTTTTTT
1 TTTTATTTTTT
22476661 TTTTCAGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
13 10 0.20
14 12 0.24
15 14 0.29
16 8 0.16
17 1 0.02
18 4 0.08
ACGTcount: A:0.11, C:0.03, G:0.09, T:0.77
Consensus pattern (13 bp):
TTTTATTTTTTGA
Found at i:22476630 original size:8 final size:8
Alignment explanation
Indices: 22476605--22476653 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
22476595 ATTTTTTCGA
22476605 TTTTGATT
1 TTTTGATT
22476613 TTTTGA--
1 TTTTGATT
22476619 TTTTGATTT
1 TTTTGA-TT
22476628 TTTCTGATT
1 TTT-TGATT
22476637 TTTT-ATT
1 TTTTGATT
*
22476644 TTTTTATT
1 TTTTGATT
22476652 TT
1 TT
22476654 GTTTTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.17
7 7 0.19
8 12 0.33
9 8 0.22
10 3 0.08
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (8 bp):
TTTTGATT
Found at i:22476662 original size:14 final size:14
Alignment explanation
Indices: 22476591--22476661 Score: 70
Period size: 14 Copynumber: 4.9 Consensus size: 14
22476581 TTTTCATCAT
* *
22476591 TTTTATTTTTTCGA
1 TTTTGTTTTTTTGA
*
22476605 TTTTGATTTTTTGA
1 TTTTGTTTTTTTGA
22476619 TTTTGATTTTTTCTGA
1 TTTTG-TTTTTT-TGA
* *
22476635 TTTTTTATTTTTTTA
1 TTTTGT-TTTTTTGA
22476650 TTTTGTTTTTTT
1 TTTTGTTTTTTT
22476662 TTTCAGATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
14 22 0.47
15 13 0.28
16 12 0.26
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.77
Consensus pattern (14 bp):
TTTTGTTTTTTTGA
Found at i:22476664 original size:16 final size:16
Alignment explanation
Indices: 22476611--22476663 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
22476601 TCGATTTTGA
*
22476611 TTTTTTGATTTTGATT
1 TTTTTTGATTTTGTTT
*
22476627 TTTTCTGATTTT-TTAT
1 TTTTTTGATTTTGTT-T
22476643 TTTTTT-ATTTTGTTT
1 TTTTTTGATTTTGTTT
22476658 TTTTTT
1 TTTTTT
22476664 TCAGATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 13 0.41
16 19 0.59
ACGTcount: A:0.09, C:0.02, G:0.08, T:0.81
Consensus pattern (16 bp):
TTTTTTGATTTTGTTT
Found at i:22481578 original size:3 final size:3
Alignment explanation
Indices: 22481570--22481641 Score: 58
Period size: 3 Copynumber: 23.3 Consensus size: 3
22481560 ATATGCAAGT
* *
22481570 ATA ATA ATAA ATA AT- ATA ATA ATA ATTC GTA ATA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* *
22481616 ATGCA ATA ACA ATA TTA ATA A-A ATA A
1 AT--A ATA ATA ATA ATA ATA ATA ATA A
22481642 ACTAAAAAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
2 4 0.07
3 44 0.80
4 4 0.07
5 3 0.05
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22481588 original size:12 final size:11
Alignment explanation
Indices: 22481573--22481640 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
22481563 TGCAAGTATA
22481573 ATAATAAATAAT
1 ATAAT-AATAAT
22481585 ATAATAATAAT
1 ATAATAATAAT
**
22481596 -TCGTAATAAT
1 ATAATAATAAT
22481606 AATAATAATAAT
1 -ATAATAATAAT
** *
22481618 GCAATAACAAT
1 ATAATAATAAT
22481629 ATTAATAA-AAT
1 A-TAATAATAAT
22481640 A
1 A
22481641 AACTAAAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
10 8 0.18
11 18 0.41
12 18 0.41
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.32
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:22481629 original size:20 final size:22
Alignment explanation
Indices: 22481585--22481636 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
22481575 AATAAATAAT
* *
22481585 ATAATAATAATTCGTAATAATA
1 ATAATAATAATTCGCAATAACA
22481607 ATAATAATAA-T-GCAATAACA
1 ATAATAATAATTCGCAATAACA
*
22481627 ATATTAATAA
1 ATAATAATAA
22481637 AATAAACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 16 0.59
21 1 0.04
22 10 0.37
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (22 bp):
ATAATAATAATTCGCAATAACA
Found at i:22483854 original size:24 final size:24
Alignment explanation
Indices: 22483827--22483873 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
22483817 TATATGTGTA
22483827 TTTTATTATTGGGATCGAATTATG
1 TTTTATTATTGGGATCGAATTATG
*
22483851 TTTTATTATTGGGATCGAGTTAT
1 TTTTATTATTGGGATCGAATTAT
22483874 TATTGGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.04, G:0.21, T:0.51
Consensus pattern (24 bp):
TTTTATTATTGGGATCGAATTATG
Found at i:22486809 original size:17 final size:17
Alignment explanation
Indices: 22486789--22486824 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22486779 CATTGTAACT
22486789 TATTTAAGATTGGTTCA
1 TATTTAAGATTGGTTCA
22486806 TATTTAAGATTGGTTCA
1 TATTTAAGATTGGTTCA
22486823 TA
1 TA
22486825 CTTTTGTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.47
Consensus pattern (17 bp):
TATTTAAGATTGGTTCA
Found at i:22488195 original size:29 final size:29
Alignment explanation
Indices: 22488153--22488210 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
22488143 ATCCCAAAAG
22488153 TTAGTTTTTTCAAAAAGGGGAACATTTGT
1 TTAGTTTTTTCAAAAAGGGGAACATTTGT
*
22488182 TTAGTTTTTTCAAAAGGGGGAACATTTGT
1 TTAGTTTTTTCAAAAAGGGGAACATTTGT
22488211 GGGAAGGGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (29 bp):
TTAGTTTTTTCAAAAAGGGGAACATTTGT
Found at i:22495930 original size:22 final size:22
Alignment explanation
Indices: 22495905--22495947 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22495895 TATCCAAACA
22495905 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
* * *
22495927 ATAATAGCGAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
22495948 AACAACATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.14, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:22497190 original size:17 final size:16
Alignment explanation
Indices: 22497168--22497207 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
22497158 AAGCTTCAGG
22497168 TTAATAAT-ATGTATAT
1 TTAATAATAATGTA-AT
22497184 ATTAATAATAATGTAAT
1 -TTAATAATAATGTAAT
22497201 TTAATAA
1 TTAATAA
22497208 CATAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 10 0.45
18 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
TTAATAATAATGTAAT
Found at i:22497417 original size:3 final size:3
Alignment explanation
Indices: 22497411--22497437 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22497401 TAATTGAAAA
22497411 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
22497438 TTAAAGGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:22497866 original size:19 final size:18
Alignment explanation
Indices: 22497842--22497892 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
22497832 ATTTTTGTTA
22497842 AAAATTTGAATATATATTT
1 AAAATTTGAA-ATATATTT
**
22497861 AAAA-TTGCAACCATATTT
1 AAAATTTG-AAATATATTT
22497879 AAAATTTGAAATAT
1 AAAATTTGAAATAT
22497893 TAAAATATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
AAAATTTGAAATATATTT
Found at i:22498191 original size:23 final size:24
Alignment explanation
Indices: 22498145--22498188 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22498135 TTCAATATTC
*
22498145 AAATTTAAACATTAACAGATTTCA
1 AAATTTAAACATTAACAAATTTCA
22498169 AAATTTAAA-ATTAA-AAATTT
1 AAATTTAAACATTAACAAATTT
22498189 TCAGTACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATTTAAACATTAACAAATTTCA
Found at i:22502818 original size:14 final size:15
Alignment explanation
Indices: 22502790--22502822 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
22502780 ATGTTTTTTG
22502790 AATTATTATTTAAAT
1 AATTATTATTTAAAT
22502805 AATTATTA-TTAAAT
1 AATTATTATTTAAAT
22502819 AATT
1 AATT
22502823 GAAGTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTATTATTTAAAT
Found at i:22502996 original size:13 final size:13
Alignment explanation
Indices: 22502980--22503004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22502970 TTAATTTAGC
22502980 TAATTTAATTGAT
1 TAATTTAATTGAT
22502993 TAATTTAATTGA
1 TAATTTAATTGA
22503005 ATATATAATA
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TAATTTAATTGAT
Found at i:22504969 original size:23 final size:22
Alignment explanation
Indices: 22504927--22504979 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
22504917 TAGTTCTCTA
*
22504927 TTTAAATTTTTGCTTCTTTATT
1 TTTAAATTTGTGCTTCTTTATT
* *
22504949 CTTTAAATTTGTGTTTTTTTATT
1 -TTTAAATTTGTGCTTCTTTATT
22504972 TATTAAAT
1 T-TTAAAT
22504980 CACCCAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (22 bp):
TTTAAATTTGTGCTTCTTTATT
Found at i:22505191 original size:18 final size:18
Alignment explanation
Indices: 22505139--22505191 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
22505129 TAAAATCATT
* *
22505139 AAAATTATTAAAAGTTAT
1 AAAATTATTAAATGTTAA
*
22505157 AAAATTA-TAAATTTTAA
1 AAAATTATTAAATGTTAA
*
22505174 AAAATAATTAAATGTTAA
1 AAAATTATTAAATGTTAA
22505192 TGTGTCATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
AAAATTATTAAATGTTAA
Found at i:22505878 original size:3 final size:3
Alignment explanation
Indices: 22505870--22505906 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
22505860 TATCCTGCGC
*
22505870 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22505907 TAAACCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22512230 original size:22 final size:21
Alignment explanation
Indices: 22512198--22512244 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
22512188 TATTGATAAA
*
22512198 TTGATGAATTAGGCTT-GAAT
1 TTGATGAATTAAGCTTAGAAT
*
22512218 TTGATAGATATTAAGCTTAGATT
1 TTGAT-GA-ATTAAGCTTAGAAT
22512241 TTGA
1 TTGA
22512245 AAAGGACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 2 0.09
22 8 0.36
23 7 0.32
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (21 bp):
TTGATGAATTAAGCTTAGAAT
Found at i:22513288 original size:204 final size:204
Alignment explanation
Indices: 22512938--22513345 Score: 726
Period size: 204 Copynumber: 2.0 Consensus size: 204
22512928 GACCGAACAC
*
22512938 AGGGTATGACAAATAAATGTAAATGATTATAGGATATGGATATGCAAACAAGAGTAGTTATAAGT
1 AGGGTATGACAAATAAATGTAAATGATTATAGGATATGGATATGCAAACAAGAGTAGTTACAAGT
* *
22513003 ATGATAAAGAAAATATAAATATTTATGCCCATATGAACTTAGTAAAAGGTTAGGATACGATTGAC
66 ATGATAAAGAAAATATAAATATTTATGCCCATATGAACTTAGTAAAAGGTTAGAATACAATTGAC
* *
22513068 ATGCTAATAGGGTTATATGTGCGCTTATATGAGATATGTGATTGCACGAAGATTATTACATGTTA
131 ATGCTAATAAGGTTATATGTGCGCTTATATGAGATATGTGATTGCACGAAGATTATTACAGGTTA
*
22513133 TATCGGGAT
196 TATCAGGAT
*
22513142 AGGGTATGACAAATAAATGTAAATGATTATAGGATATGGATATGCGAACAAGAGTAGTTACAAGT
1 AGGGTATGACAAATAAATGTAAATGATTATAGGATATGGATATGCAAACAAGAGTAGTTACAAGT
*
22513207 ATGATAAAGAAAATATGAATATTTATGCCCATATGAACTTAGTAAAAGGTTAGAATACAATTGAC
66 ATGATAAAGAAAATATAAATATTTATGCCCATATGAACTTAGTAAAAGGTTAGAATACAATTGAC
**
22513272 ATGCTAATAAGGTTATATGTGCGCTTATATGAGATATGTGATTTTACGAAGATTATTACAGGTTA
131 ATGCTAATAAGGTTATATGTGCGCTTATATGAGATATGTGATTGCACGAAGATTATTACAGGTTA
22513337 TATCAGGAT
196 TATCAGGAT
22513346 CCAGCATCTA
Statistics
Matches: 194, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
204 194 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (204 bp):
AGGGTATGACAAATAAATGTAAATGATTATAGGATATGGATATGCAAACAAGAGTAGTTACAAGT
ATGATAAAGAAAATATAAATATTTATGCCCATATGAACTTAGTAAAAGGTTAGAATACAATTGAC
ATGCTAATAAGGTTATATGTGCGCTTATATGAGATATGTGATTGCACGAAGATTATTACAGGTTA
TATCAGGAT
Found at i:22525304 original size:16 final size:16
Alignment explanation
Indices: 22525283--22525315 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22525273 ATTTTTTGTG
22525283 TTAAATAAATTGTGTT
1 TTAAATAAATTGTGTT
22525299 TTAAATAAATTGTGTT
1 TTAAATAAATTGTGTT
22525315 T
1 T
22525316 ATGTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (16 bp):
TTAAATAAATTGTGTT
Found at i:22526407 original size:20 final size:20
Alignment explanation
Indices: 22526381--22526497 Score: 78
Period size: 20 Copynumber: 5.8 Consensus size: 20
22526371 CTTGTATGAG
22526381 TTTGCACTTTAGTGCCTCTGA
1 TTTGCACTTTAGTGCCTCT-A
* * *
22526402 -TTGCACATCAATGCCTCTA
1 TTTGCACTTTAGTGCCTCTA
* **
22526421 TTTGGACTTCGGTGCCTCTA
1 TTTGCACTTTAGTGCCTCTA
* *
22526441 TTTGCACTTTGGTGCTTCTGA
1 TTTGCACTTTAGTGCCTCT-A
*
22526462 -TTGCACATTT-GTGCCTTTA
1 TTTGCAC-TTTAGTGCCTCTA
* **
22526481 TCTAAACTTTAGTGCCT
1 TTTGCACTTTAGTGCCT
22526498 TTGTTACGCA
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
19 5 0.07
20 67 0.88
21 4 0.05
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (20 bp):
TTTGCACTTTAGTGCCTCTA
Found at i:22526496 original size:60 final size:60
Alignment explanation
Indices: 22526381--22526497 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 60
22526371 CTTGTATGAG
* ** *
22526381 TTTGCACTTTAGTGCCTCTGATTGCACATCAATGCCTCTATTTGGACTTCGGTGCCTCTA
1 TTTGCACTTTAGTGCCTCTGATTGCACATCAATGCCTCTATCTAAACTTCAGTGCCTCTA
* * *** * *
22526441 TTTGCACTTTGGTGCTTCTGATTGCACATTTGTGCCTTTATCTAAACTTTAGTGCCT
1 TTTGCACTTTAGTGCCTCTGATTGCACATCAATGCCTCTATCTAAACTTCAGTGCCT
22526498 TTGTTACGCA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (60 bp):
TTTGCACTTTAGTGCCTCTGATTGCACATCAATGCCTCTATCTAAACTTCAGTGCCTCTA
Found at i:22529392 original size:13 final size:13
Alignment explanation
Indices: 22529366--22529408 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
22529356 GTAATCTGTT
22529366 AAATGTGTAAATG
1 AAATGTGTAAATG
22529379 AAATG-GTAAGATG
1 AAATGTGTAA-ATG
*
22529392 AAATGTTTAAATG
1 AAATGTGTAAATG
22529405 AAAT
1 AAAT
22529409 TGCTATACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 4 0.15
13 20 0.74
14 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (13 bp):
AAATGTGTAAATG
Found at i:22529628 original size:18 final size:18
Alignment explanation
Indices: 22529605--22529643 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
22529595 TCATGTATAT
22529605 GTTTGTTAATATGATAAA
1 GTTTGTTAATATGATAAA
22529623 GTTTGTTAATATGATAAA
1 GTTTGTTAATATGATAAA
22529641 GTT
1 GTT
22529644 ACATGTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (18 bp):
GTTTGTTAATATGATAAA
Found at i:22531245 original size:15 final size:15
Alignment explanation
Indices: 22531225--22531255 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22531215 CAAGAATAAG
22531225 AAAAACTCGTTCATT
1 AAAAACTCGTTCATT
22531240 AAAAACTCGTTCATT
1 AAAAACTCGTTCATT
22531255 A
1 A
22531256 GTGCACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (15 bp):
AAAAACTCGTTCATT
Found at i:22532066 original size:12 final size:12
Alignment explanation
Indices: 22532049--22532074 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22532039 GAGCAGAATG
22532049 AAAAAATCATGA
1 AAAAAATCATGA
22532061 AAAAAATCATGA
1 AAAAAATCATGA
22532073 AA
1 AA
22532075 CTGCCTTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAAAATCATGA
Found at i:22540192 original size:21 final size:22
Alignment explanation
Indices: 22540163--22540223 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
22540153 TACATAGCTA
* * *
22540163 GAAAATGAAATGAAATTAGATT
1 GAAATTGAAATGAAATAAGAAT
22540185 G-AATTGAAATGAAATAAGAAT
1 GAAATTGAAATGAAATAAGAAT
*
22540206 GACAATTGATATGAAATA
1 GA-AATTGAAATGAAATA
22540224 GTATAGAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 18 0.55
22 1 0.03
23 14 0.42
ACGTcount: A:0.54, C:0.02, G:0.18, T:0.26
Consensus pattern (22 bp):
GAAATTGAAATGAAATAAGAAT
Found at i:22559575 original size:12 final size:12
Alignment explanation
Indices: 22559546--22559575 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22559536 ACCACGTAGG
22559546 TTTTTTGTTTTT
1 TTTTTTGTTTTT
*
22559558 TGTTTTGTTTTT
1 TTTTTTGTTTTT
22559570 TTTTTT
1 TTTTTT
22559576 TGTTAACCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:22561517 original size:15 final size:15
Alignment explanation
Indices: 22561497--22561550 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
22561487 ATATTAAAAA
22561497 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
22561512 ATATTTATAATTATAAT
1 ATATTTATTA-T-TAAT
*
22561529 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
22561546 ATATT
1 ATATT
22561551 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:22561535 original size:34 final size:31
Alignment explanation
Indices: 22561483--22561556 Score: 103
Period size: 34 Copynumber: 2.3 Consensus size: 31
22561473 ATATTTTAAA
*
22561483 ATTTATATTAAAAAATATTTATTATTAATAT
1 ATTTATATTAAAAAATATTTATTATTAAAAT
22561514 ATTTATAATTATAATAAATATTTATTATTAAAAT
1 ATTTAT-ATTA-AA-AAATATTTATTATTAAAAT
*
22561548 ATTAATATT
1 ATTTATATT
22561557 GAATATTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 6 0.16
32 4 0.11
33 5 0.13
34 23 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
ATTTATATTAAAAAATATTTATTATTAAAAT
Found at i:22561536 original size:19 final size:19
Alignment explanation
Indices: 22561479--22561548 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 19
22561469 TGACATATTT
22561479 TAAA-ATTTA-TATTA-AA
1 TAAATATTTATTATTATAA
22561495 -AAATATTTATTA-T-TAA
1 TAAATATTTATTATTATAA
*
22561511 T--ATATTTATAATTATAA
1 TAAATATTTATTATTATAA
*
22561528 TAAATATTTATTATTAAAA
1 TAAATATTTATTATTATAA
22561547 TA
1 TA
22561549 TTAATATTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
15 12 0.28
16 9 0.21
17 6 0.14
19 16 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAATATTTATTATTATAA
Found at i:22563803 original size:2 final size:2
Alignment explanation
Indices: 22563798--22563826 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22563788 TACACACACA
22563798 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
22563827 ATATATAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:22567184 original size:2 final size:2
Alignment explanation
Indices: 22567177--22567227 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
22567167 GAAAGACACC
22567177 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22567219 CT CT CT CT C
1 CT CT CT CT C
22567228 ATGGGCATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:22568027 original size:2 final size:2
Alignment explanation
Indices: 22567953--22568007 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
22567943 CAGCTTTAAT
22567953 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22567995 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
22568008 TTCTTACCTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:22569678 original size:30 final size:32
Alignment explanation
Indices: 22569626--22569684 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
22569616 AATTAGACAC
22569626 TTTTAAGAAGTTAATGATCAAATTCAACTATT
1 TTTTAAGAAGTTAATGATCAAATTCAACTATT
* *
22569658 TTTTAA-AAGTTTATG-TCAAATTTAACT
1 TTTTAAGAAGTTAATGATCAAATTCAACT
22569685 CTAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 8 0.32
32 6 0.24
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (32 bp):
TTTTAAGAAGTTAATGATCAAATTCAACTATT
Found at i:22576279 original size:16 final size:16
Alignment explanation
Indices: 22576258--22576296 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
22576248 AAAATAAAAT
22576258 AAAATTACATTATATA
1 AAAATTACATTATATA
22576274 AAAATTACATTATATA
1 AAAATTACATTATATA
22576290 AAAATTA
1 AAAATTA
22576297 AATGAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:22576299 original size:21 final size:19
Alignment explanation
Indices: 22576251--22576292 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 19
22576241 AAAATAAAAA
22576251 ATAAAATAAAATTACATTAT
1 ATAAAAT-AAATTACATTAT
22576271 AT--AA-AAATTACATTAT
1 ATAAAATAAATTACATTAT
22576287 ATAAAA
1 ATAAAA
22576293 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
16 14 0.70
18 4 0.20
20 2 0.10
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAATAAATTACATTAT
Found at i:22576601 original size:55 final size:55
Alignment explanation
Indices: 22576541--22576651 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 55
22576531 TTATTTAAAC
* * *
22576541 AAAAAATATTTTT-AATATAAAAAATTGATTTGCACCTGTTAGATAGGCGGGATTA
1 AAAAAATATTTTTCAATAT-AAAAATTGATTCGCACCTGTCAGATAGGCGCGATTA
* **
22576596 AAAAAATATTTTTCAATATAAAAATTTATTCGCGTCTGTCAGATAGGCGCGATTA
1 AAAAAATATTTTTCAATATAAAAATTGATTCGCACCTGTCAGATAGGCGCGATTA
22576651 A
1 A
22576652 TTTTTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
55 44 0.90
56 5 0.10
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (55 bp):
AAAAAATATTTTTCAATATAAAAATTGATTCGCACCTGTCAGATAGGCGCGATTA
Found at i:22577458 original size:14 final size:14
Alignment explanation
Indices: 22577435--22577468 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
22577425 TGGTATGAGT
22577435 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
22577448 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
22577462 TTATAGG
1 TTATAGG
22577469 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:22578053 original size:20 final size:21
Alignment explanation
Indices: 22578015--22578054 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22578005 TTACCTTTTT
22578015 TTTCTTCTCTTCTTCTTCTCC
1 TTTCTTCTCTTCTTCTTCTCC
* *
22578036 TTTC-TCTCTTTTTTTTCTC
1 TTTCTTCTCTTCTTCTTCTC
22578055 TCTACCGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTCTTCTCTTCTTCTTCTCC
Found at i:22597326 original size:31 final size:31
Alignment explanation
Indices: 22597266--22597326 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
22597256 ATAATTATTG
* * *
22597266 AACTATTTGAAAGTTTTCATTTAAGTCATTA
1 AACTATTTAAAAGTTTTCATTCAACTCATTA
22597297 AACTATTTAAAAGTTCTT-ATTCAACTCATT
1 AACTATTTAAAAGTT-TTCATTCAACTCATT
22597327 GAGTTGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (31 bp):
AACTATTTAAAAGTTTTCATTCAACTCATTA
Found at i:22599011 original size:23 final size:23
Alignment explanation
Indices: 22598981--22599028 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
22598971 AAATGTTATA
22598981 ATTTTTTTTATTTACCAAAAAAT
1 ATTTTTTTTATTTACCAAAAAAT
*
22599004 ATTTTTTTTATTTACCAAAATAT
1 ATTTTTTTTATTTACCAAAAAAT
22599027 AT
1 AT
22599029 CAAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTTTTTTTATTTACCAAAAAAT
Found at i:22599166 original size:27 final size:27
Alignment explanation
Indices: 22599093--22599150 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
22599083 CCTTGGTCAC
*
22599093 GCCAAAGCCATTGGCGGCACCAAAGGT
1 GCCAAAACCATTGGCGGCACCAAAGGT
*
22599120 GCCAAAACCATTGGCGGCACCAATGGT
1 GCCAAAACCATTGGCGGCACCAAAGGT
22599147 GCCA
1 GCCA
22599151 TATTGATTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.31, G:0.28, T:0.12
Consensus pattern (27 bp):
GCCAAAACCATTGGCGGCACCAAAGGT
Found at i:22599338 original size:19 final size:21
Alignment explanation
Indices: 22599300--22599338 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
22599290 AATAATTGAT
*
22599300 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
22599321 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
22599339 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:22599411 original size:3 final size:3
Alignment explanation
Indices: 22599405--22599442 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
22599395 ATTATTATTA
*
22599405 TTG TTG TTG TTG TTG TTT TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
22599443 AGTATTAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (3 bp):
TTG
Found at i:22603296 original size:22 final size:22
Alignment explanation
Indices: 22603270--22603332 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
22603260 CCTTCCTTCC
22603270 CTCTTCTTCTTCTTTTTTTTTT
1 CTCTTCTTCTTCTTTTTTTTTT
* *
22603292 CTCTTCTCCTT-TCCTTTTTTTT
1 CTCTTCTTCTTCT-TTTTTTTTT
22603314 C-CTTCTTTCTTTCTTTTTT
1 CTCTTC-TTC-TTCTTTTTT
22603333 CTTCTCCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 5 0.15
22 21 0.64
23 6 0.18
24 1 0.03
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
CTCTTCTTCTTCTTTTTTTTTT
Found at i:22603306 original size:40 final size:38
Alignment explanation
Indices: 22603249--22603444 Score: 180
Period size: 40 Copynumber: 5.2 Consensus size: 38
22603239 TTACCTTTTT
*
22603249 TTTCTTTTTTTC-C-T-TCC-TTCC-CTCTTCTTCTTC
1 TTTCTTTTTTTCTCTTCTCCTTTCCTTTCTTCTTCTTC
*
22603282 TTT-TTTTTTTCTCTTCTCCTTTCCTTT-TTTTTCCTTC
1 TTTCTTTTTTTCTCTTCTCCTTTCCTTTCTTCTT-CTTC
*
22603319 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTTC
1 TTTCTTT-TTTTCTCTTCTCCTTTCC-TTTCTTCTTC-TTC
22603360 TTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTT-
1 TTTCTTTTTTTCTCTTCTCCTTTCC-TTTC-TT-CTTCTTC
* *
22603400 GTTCTTTCTTTC-C-TCTCC-TTCCTTTCTTTCTTTCTTTC
1 TTTCTTTTTTTCTCTTCTCCTTTCCTTTC-TTC-TTC-TTC
22603438 TTTCTTT
1 TTTCTTT
22603445 CCCTCTCCTT
Statistics
Matches: 139, Mismatches: 8, Indels: 27
0.80 0.05 0.16
Matches are distributed among these distances:
32 8 0.06
33 4 0.03
34 1 0.01
35 4 0.03
36 18 0.13
37 14 0.10
38 14 0.10
39 18 0.13
40 36 0.26
41 18 0.13
42 4 0.03
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.69
Consensus pattern (38 bp):
TTTCTTTTTTTCTCTTCTCCTTTCCTTTCTTCTTCTTC
Found at i:22603311 original size:21 final size:21
Alignment explanation
Indices: 22603285--22603398 Score: 118
Period size: 21 Copynumber: 5.7 Consensus size: 21
22603275 CTTCTTCTTT
22603285 TTTTTTTCTCTTCTCCTTTCC
1 TTTTTTTCTCTTCTCCTTTCC
*
22603306 TTTTTTT-TC--CTTCTTT-C
1 TTTTTTTCTCTTCTCCTTTCC
*
22603323 TTTCTTTTTTCTTCTCCTTTCC
1 TTT-TTTTCTCTTCTCCTTTCC
*
22603345 TTTTCTTCTTCTT-T-CTTT-C
1 TTTTTTTC-TCTTCTCCTTTCC
22603364 TTTTTTTCTCTTCTCCTTTCC
1 TTTTTTTCTCTTCTCCTTTCC
22603385 TTTTCTTTC-CTTCT
1 TTTT-TTTCTCTTCT
22603399 TGTTCTTTCT
Statistics
Matches: 78, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.05
18 14 0.18
19 11 0.14
20 10 0.13
21 27 0.35
22 12 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTTTCTCTTCTCCTTTCC
Found at i:22603323 original size:4 final size:4
Alignment explanation
Indices: 22603311--22603445 Score: 89
Period size: 4 Copynumber: 32.0 Consensus size: 4
22603301 TTTCCTTTTT
*
22603311 TTTC CTTC TTTC TTTC TTT- TTTC TTCTCC TTTCC TTT- TCTTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC TTTC
* * *
22603356 TTTC TTTC TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC TTGTTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC -T-TTC
* *
22603404 TTTC TTTCC TCTCC TTCC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
22603446 CCTCTCCTTC
Statistics
Matches: 107, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
3 9 0.08
4 71 0.66
5 17 0.16
6 10 0.09
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:22603377 original size:58 final size:60
Alignment explanation
Indices: 22603296--22603444 Score: 145
Period size: 58 Copynumber: 2.5 Consensus size: 60
22603286 TTTTTTCTCT
22603296 TCTCCTTTCCTTTTTTT-TCCTTCTTTCTTTCTTTTTTCTTCTCCTTTCCTT-TTC-TTC-TT-C
1 TCTCC-TTCCTTTTTTTCT-CTTCTTTCTTTCTTTTTTCTT-TCC-TT-CTTGTTCTTTCTTTCC
* * * *
22603356 T-TTCTTTCTTTTTTTCTCTTC-TCCTTTC-CTTTTCTTTCCTTCTTGTTCTTTCTTTCC
1 TCTCCTTCCTTTTTTTCTCTTCTTTCTTTCTTTTTTCTTTCCTTCTTGTTCTTTCTTTCC
*
22603413 TCTCCTTCCTTTCTTTCT-TTCTTTCTTTCTTT
1 TCTCCTTCCTTTTTTTCTCTTCTTTCTTTCTTT
22603445 CCCTCTCCTT
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
53 3 0.04
54 5 0.07
55 6 0.08
56 9 0.12
57 11 0.15
58 33 0.46
59 4 0.06
60 1 0.01
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (60 bp):
TCTCCTTCCTTTTTTTCTCTTCTTTCTTTCTTTTTTCTTTCCTTCTTGTTCTTTCTTTCC
Found at i:22603391 original size:16 final size:15
Alignment explanation
Indices: 22603293--22603440 Score: 59
Period size: 14 Copynumber: 11.0 Consensus size: 15
22603283 TTTTTTTTTC
22603293 TCTTCTCCTTTCCTTT
1 TCTTCTCCTTT-CTTT
*
22603309 T-TTTTCC-TTC-TT
1 TCTTCTCCTTTCTTT
22603321 TCTT-T-C-TT-TTT
1 TCTTCTCCTTTCTTT
22603332 TCTTCTCCTTTCCTTT
1 TCTTCTCCTTT-CTTT
*
22603348 TCTTCTTCTTTC-TT
1 TCTTCTCCTTTCTTT
*
22603362 TC-T-T--TTT-TTC
1 TCTTCTCCTTTCTTT
22603372 TCTTCTCCTTTCCTTT
1 TCTTCTCCTTT-CTTT
22603388 TCTT-TCC-TTCTTGT
1 TCTTCTCCTTTCTT-T
* *
22603402 TCTT-T-CTTTCCTC
1 TCTTCTCCTTTCTTT
*
22603415 TCCT-TCCTTTC-TT
1 TCTTCTCCTTTCTTT
22603428 TCTT-T-CTTTCTTT
1 TCTTCTCCTTTCTTT
22603441 CTTTCCCTCT
Statistics
Matches: 105, Mismatches: 9, Indels: 39
0.69 0.06 0.25
Matches are distributed among these distances:
10 6 0.06
11 10 0.10
12 12 0.11
13 20 0.19
14 28 0.27
15 9 0.09
16 20 0.19
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (15 bp):
TCTTCTCCTTTCTTT
Found at i:22603523 original size:27 final size:27
Alignment explanation
Indices: 22603492--22603559 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
22603482 TTTTATGCAC
* * *
22603492 TGGTGCTGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGCATGGGCACCAT
*
22603519 TGGTGCCGCCAATGGCATGGGCACCTT
1 TGGTGCCGCCAATGGCATGGGCACCAT
22603546 TGGTGCCGCCAATG
1 TGGTGCCGCCAATG
22603560 CCATTGGCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATGGGCACCAT
Found at i:22610536 original size:29 final size:30
Alignment explanation
Indices: 22610456--22610537 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
22610446 GATTAAATCA
*
22610456 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATATATTTGAACC
* * * *
22610486 ACAACTAGAGTTTCACGTATATATTTGCACC
1 A-AATTAAAGTTTCAAGTATATATTTGAACC
*
22610517 AAATTAAAG-TTCATGTATATA
1 AAATTAAAGTTTCAAGTATATA
22610538 ATTGTACATT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
29 11 0.26
30 7 0.16
31 25 0.58
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATATTTGAACC
Found at i:22612123 original size:26 final size:27
Alignment explanation
Indices: 22612092--22612152 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
22612082 TTAGCTCTTA
22612092 TGAGCTTCCCGATT-ATAGGCTCTTCG
1 TGAGCTTCCCGATTAATAGGCTCTTCG
* *
22612118 TGAGCTT-CCTATTAATTGGCTCTTCG
1 TGAGCTTCCCGATTAATAGGCTCTTCG
22612144 TGAGCTTCC
1 TGAGCTTCC
22612153 TGATATGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 5 0.16
26 25 0.81
27 1 0.03
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (27 bp):
TGAGCTTCCCGATTAATAGGCTCTTCG
Found at i:22614052 original size:21 final size:21
Alignment explanation
Indices: 22614023--22614069 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
22614013 CCCATATATT
*
22614023 TAATGTAAACATACTTTT-TCA
1 TAATATAAACAT-CTTTTCTCA
*
22614044 TAATATAAACATGTTTTCTCA
1 TAATATAAACATCTTTTCTCA
22614065 TAATA
1 TAATA
22614070 CAATTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (21 bp):
TAATATAAACATCTTTTCTCA
Found at i:22615923 original size:98 final size:98
Alignment explanation
Indices: 22615749--22615945 Score: 315
Period size: 98 Copynumber: 2.0 Consensus size: 98
22615739 GTACAATAAA
* *
22615749 ACTTTAAAAGAACATCCACTAATCCAAGATTTAAGAAATCACAGCCAATACGTTAGTGCACGATT
1 ACTTTAAAAGAACATCCACTAATCCAAGATTTAAGAAATCACAGCCAATACGTTAGGGCACAATT
*
22615814 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
* *
22615847 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCATA-CACAATACGTTAGGGCACAAT
1 ACTTTAAAAGAACATCCACTAATCCAAGATTTAAGAAATCACAGC-CAATACGTTAGGGCACAAT
* *
22615911 TCCTTTAAAATCCCAAACTCGGAATATTTTCTTT
65 TCCTCTAAAATCCCAAACTCGGAATATTTCCTTT
22615945 A
1 A
22615946 TTATTTTTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
97 1 0.01
98 90 0.99
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTAATCCAAGATTTAAGAAATCACAGCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:22617296 original size:19 final size:19
Alignment explanation
Indices: 22617256--22617311 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
22617246 AATCATATAT
22617256 TCTAAGATTGCATATTTCATA
1 TCTAAGATTGCATA--TCATA
**
22617277 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
22617296 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22617312 CTCAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 19 0.61
21 12 0.39
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22617627 original size:44 final size:44
Alignment explanation
Indices: 22617525--22618372 Score: 454
Period size: 44 Copynumber: 19.6 Consensus size: 44
22617515 CTTCAATCTA
*
22617525 CTCCACTGCAACTTCAGG-GAGATAAGACTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-CTTCTT-AGTCTG
22617570 C-CTCACTGCAACTTCAGGAG-GATAAGACTTGCTTCCTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-CTTAGTCTG
* * * *
22617614 CTCCACTGCAACTTCAGG-GAGATAAGACTAGATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTCTTAGTCTG
* * * *
22617655 CT-CTCTGCAACTTCA-GAGAGATAAGATCTATGATT-TTAATCCG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTCTTAGTCTG
* * * *
22617698 CTCTACTGCAACTTCAGG-GAGATAGGATTATCGGC-T-TTATTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACT-T--GCTTCTTAGTCTG
*
22617742 CTCCACTGCAACTTCAGG-GAGATAAGATTTGTCATT-TTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-C-TTCTT-AGTCTG
* * *
22617787 CTTCATTGTAACTTCAGGAG-GATAAGACTTGCTTACTTAGTCTTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTT-CTTAGTC-TG
* * * * * * *
22617832 -TCTACCGCAACTTTAGG-GAGATAAGACTAGATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTCTTAGTCTG
* * * ** * *
22617872 CT-CTCTGTAACTTCA-AAGAGATAAGATCTGTAATT-TTAATCCG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTCTTAGTCTG
* * * ** *
22617915 CTCCACTACAACTTCAGG-GAGATAGGA-TTACCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTT-GCTTC-TTAGTCTG
* * * *
22617959 CTCTATTGCAACTTCAGGA-AGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-CTTCTT-AGTCTG
*
22618004 C-CTCACTGTAACTTCAGGAG-GATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-CTTAGTCTG
* * * *
22618048 CTCCACTGCAACTTCAGG-GAGATAAGACTAGATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTCTTAGTCTG
* * ** * *
22618089 CT-CTCTGTAACTTCA-GAGAGATAAGATCTGTAATT-TTAATCCG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTCTTAGTCTG
* * ** *
22618132 CTCCACTGTAACTTCAGG-GAGATAGGA-TTGTCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-CTTC-TTAGTCTG
* *
22618176 CTCCACTGCAACTTCAGGA-AGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-CTTCTT-AGTCTG
* * *
22618221 C-CTCACTGTAACTTTAGAAG-GATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-CTTAGTCTG
* * * * *
22618265 CTCCACTGCAACTTCAAG-GAGATAAGACTAGATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTCTTAGTCTG
* * * *
22618306 CT-CTCTGCAACTTCA-GAGAGATAAGATCTGTGATT-TTAATCCG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTCTTAGTCTG
22618349 CTCCACTGCAACTTCAGG-GAGATA
1 CTCCACTGCAACTTCAGGAGAGATA
22618373 GGATTGTCGA
Statistics
Matches: 623, Mismatches: 112, Indels: 137
0.71 0.13 0.16
Matches are distributed among these distances:
39 3 0.00
40 81 0.13
41 32 0.05
42 21 0.03
43 34 0.05
44 306 0.49
45 144 0.23
46 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTCTTAGTCTG
Found at i:22617858 original size:217 final size:217
Alignment explanation
Indices: 22617514--22618394 Score: 1449
Period size: 217 Copynumber: 4.1 Consensus size: 217
22617504 AGGAATTAGT
* * * * *
22617514 GCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
*
22617579 AACTTCAGGAGGATAAGACTTGCTTCCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA
* * *
22617644 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCTACTGCAA
131 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
22617709 CTTCAGGGAGATAGGATTATCG
196 CTTCAGGGAGATAGGATTATCG
* * * * * *
22617731 GCTTTATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATTTTCAGTCTGCTTCATTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* * *
22617796 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTG-TCTACCGCAACTTTAGGGAGATAAGACT
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTC-TGCTCCACTGCAACTTCAGGGAGATAAGACT
* * *
22617860 AGATGCGATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTGTAATTTTAATCCGCTCCACTACA
130 AGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
*
22617925 ACTTCAGGGAGATAGGATTACCG
195 ACTTCAGGGAGATAGGATTATCG
* *
22617948 GCTTTAATCTGCTCTATTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
22618013 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA
* *
22618078 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGTAA
131 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
*
22618143 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTATCG
22618165 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* * *
22618230 AACTTTAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA
*
22618295 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
*
22618360 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTATCG
*
22618382 ACTTTAATCTGCT
1 GCTTTAATCTGCT
22618395 TCCCACTATC
Statistics
Matches: 617, Mismatches: 45, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
216 2 0.00
217 613 0.99
218 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA
GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAGGATTATCG
Found at i:22618459 original size:44 final size:44
Alignment explanation
Indices: 22618364--22618991 Score: 145
Period size: 44 Copynumber: 14.3 Consensus size: 44
22618354 CTGCAACTTC
* * *
22618364 AGGGAGATAGGA-TTGTCGACTTTAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAAGATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* * *
22618407 -GGAAAGATATGATTTGTCGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * * * *
22618451 AGGGAGATAAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTC
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * * * *
22618495 AGGGAAACAGGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATA-AGATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* *
22618539 -GGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * * * ** * *
22618583 AGGGAGAGAAGATCT-ACAATTTTCAACCTTCTCTGCTGCTGCTC
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * *
22618627 AGGGAGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* * * *
22618671 -GGAAATATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * * * *
22618715 AGGGAGATAAGATCT-ACAATTTTCAACCTTCT-CAGCTGCTGCTC
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCA-CTACTGCTT
* * * * *
22618759 AGGGAGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
** * *
22618803 AGAAAGATAAGATTCG-CTGTCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * * * * **
22618847 AGGGAGATAAGATCT-ACAATCTTCAACCTTCTCCGCTGCTGCAC
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * *
22618891 AGGGAGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* * * * * *
22618935 -GGAAAGATAAGATTCGCCGTCTTCGATCTGCTTCACTACTGTTT
1 AGG-GAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
22618979 AGGGAGATAAGAT
1 AGGGAGATAAGAT
22618992 CTACAATTTC
Statistics
Matches: 392, Mismatches: 147, Indels: 91
0.62 0.23 0.14
Matches are distributed among these distances:
42 31 0.08
43 46 0.12
44 276 0.70
45 24 0.06
46 13 0.03
47 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (44 bp):
AGGGAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
Found at i:22618547 original size:132 final size:132
Alignment explanation
Indices: 22618387--22619002 Score: 1056
Period size: 132 Copynumber: 4.7 Consensus size: 132
22618377 TGTCGACTTT
* *
22618387 AATCTGCTTCCCACTATCTTGGAAAGATATGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
* * *
22618452 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAAACAGGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
22618517 TA
131 TA
*
22618519 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
* * *
22618584 GGGAGAGAAGATCTACAATTTTCAACCTTCTCTGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
22618649 TA
131 TA
*
22618651 AATCTGCTTCCCACTATCTTGGAAATATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
* *
22618716 GGGAGATAAGATCTACAATTTTCAACCTTCTCAGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
22618781 TA
131 TA
*
22618783 AATCTGCTTCCCACTATCTTAGAAAGATAAGATTCG-CTGTCTTCGATCTGCTCCACTACTGCTT
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTC-GTCTTCGATCTGCTCCACTACTGCTT
*
22618847 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCACAGGGAGACAAGGCTTGGTGGC
65 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
22618912 TTA
130 TTA
* * *
22618915 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTTCACTACTGTTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
22618980 GGGAGATAAGATCTACAAT-TTCA
66 GGGAGATAAGATCTACAATCTTCA
22619003 CTGATTTGTT
Statistics
Matches: 463, Mismatches: 19, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
131 5 0.01
132 457 0.99
133 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
TA
Found at i:22624525 original size:98 final size:98
Alignment explanation
Indices: 22624344--22624540 Score: 322
Period size: 98 Copynumber: 2.0 Consensus size: 98
22624334 GTACAATAAA
* *
22624344 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
* * *
22624409 CCTCTAGAATCCCGAACTCGGAATATTTCCTTT
66 CCTATAAAATCCCAAACTCGGAATATTTCCTTT
*
22624442 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
* *
22624507 CTTATAAAATCTCAAACTCGGAATATTTCCTTT
66 CCTATAAAATCCCAAACTCGGAATATTTCCTTT
22624540 A
1 A
22624541 TTATTTTTTA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
CCTATAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:22625210 original size:24 final size:23
Alignment explanation
Indices: 22625167--22625211 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
22625157 ATATATATAT
22625167 GAAAATATTCATTTTAAAAAAAG
1 GAAAATATTCATTTTAAAAAAAG
* *
22625190 GAAAATATTCGTTTTTAAAAAA
1 GAAAATATTCATTTTAAAAAAA
22625212 TATATATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.33
Consensus pattern (23 bp):
GAAAATATTCATTTTAAAAAAAG
Found at i:22625806 original size:19 final size:19
Alignment explanation
Indices: 22625782--22625894 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
22625772 AATGATATAT
22625782 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
22625801 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
22625820 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
22625839 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
22625860 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
22625879 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22625895 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22625869 original size:40 final size:40
Alignment explanation
Indices: 22625782--22625893 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
22625772 AATGATATAT
*
22625782 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
22625820 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
22625860 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
22625894 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:22625875 original size:59 final size:57
Alignment explanation
Indices: 22625782--22625894 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 57
22625772 AATGATATAT
* *
22625782 TCTAAGATTGCATATCATATCTAAGATTATATATCATCTCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
** *
22625839 TCTAAGATTGCATATATCATATCTTGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATC
22625895 CTCAAAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
57 11 0.22
59 38 0.78
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (57 bp):
TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:22629063 original size:45 final size:41
Alignment explanation
Indices: 22628971--22629102 Score: 122
Period size: 45 Copynumber: 3.0 Consensus size: 41
22628961 ACAGATACAT
*
22628971 GGTGGATCAGCACATAGC-ACCACCCTTATAGTCAATGATACTC
1 GGTGGATCAGCACATAGCAACCA-CCTTATAATCAATG-TAC-C
22629014 GGTGGATTCAGCACATAGCAACCACCTTCATAATCAATAGTACC
1 GGTGGA-TCAGCACATAGCAACCACCTT-ATAATCAAT-GTACC
* * * *
22629058 AGGTGGAATCAACACACAACAACCACATTTATAATCAATGGTACC
1 -GGTGG-ATCAGCACATAGCAACCAC-CTTATAATCAAT-GTACC
22629103 CGGTACACGT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
43 6 0.08
44 17 0.22
45 49 0.64
46 4 0.05
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (41 bp):
GGTGGATCAGCACATAGCAACCACCTTATAATCAATGTACC
Found at i:22629338 original size:17 final size:18
Alignment explanation
Indices: 22629309--22629342 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22629299 TCAATTTAGT
22629309 CCAAAAATCACATTTTTG
1 CCAAAAATCACATTTTTG
22629327 CCAAAAAT-ACATTTTT
1 CCAAAAATCACATTTTT
22629343 CCCCTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (18 bp):
CCAAAAATCACATTTTTG
Found at i:22643552 original size:20 final size:21
Alignment explanation
Indices: 22643507--22643552 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
22643497 GCTCATCTGG
* *
22643507 TTTTGCTGCTGCTCCCTCCCT
1 TTTTCCTGCTGCTCCCGCCCT
*
22643528 GTTTCCTGCTGC-CCCGCCCT
1 TTTTCCTGCTGCTCCCGCCCT
22643548 TTTTC
1 TTTTC
22643553 TAATAGTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.00, C:0.43, G:0.15, T:0.41
Consensus pattern (21 bp):
TTTTCCTGCTGCTCCCGCCCT
Found at i:22648969 original size:26 final size:28
Alignment explanation
Indices: 22648936--22648993 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
22648926 TAATTTAGAG
*
22648936 ATCACTTA-AACAAAAA-AAAATTAAAT
1 ATCACTTATAACAAAAATAAAAATAAAT
*
22648962 ATCACTTATAACAAAAATAAAAATAAGT
1 ATCACTTATAACAAAAATAAAAATAAAT
22648990 ATCA
1 ATCA
22648994 AAATATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.29
27 8 0.29
28 12 0.43
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (28 bp):
ATCACTTATAACAAAAATAAAAATAAAT
Found at i:22649124 original size:21 final size:21
Alignment explanation
Indices: 22649098--22649140 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
22649088 TTGAAGAAGA
*
22649098 AAGTTTAACCCACCAACTGGC
1 AAGTTTAACCCACCAACCGGC
22649119 AAGTTTAACCCACCAACCGGC
1 AAGTTTAACCCACCAACCGGC
22649140 A
1 A
22649141 TAAGCACACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.35, G:0.14, T:0.16
Consensus pattern (21 bp):
AAGTTTAACCCACCAACCGGC
Found at i:22650226 original size:41 final size:41
Alignment explanation
Indices: 22650181--22650354 Score: 233
Period size: 41 Copynumber: 4.2 Consensus size: 41
22650171 CTTATAGACT
* ** *
22650181 TATAGTCTAATTCCGTTCACCGGCACTTAGCCTGCTAGG-CC
1 TATAGTCTGATTCAATTCACCGGCACTTAGCCTGCT-GGACG
* * *
22650222 TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTGGACA
1 TATAGTCTGATTCAATTCACCGGCACTTAGCCTGCTGGACG
* *
22650263 TATAATCCGATTCAATTCACCGGCACTTAGCCTGCTGGACG
1 TATAGTCTGATTCAATTCACCGGCACTTAGCCTGCTGGACG
* *
22650304 TATAGTCCGATTCAATTCACCGGCACTTAGCCTGCTAGACG
1 TATAGTCTGATTCAATTCACCGGCACTTAGCCTGCTGGACG
22650345 TATAGTCTGA
1 TATAGTCTGA
22650355 ACAATTTCAC
Statistics
Matches: 120, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 2 0.02
41 118 0.98
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
TATAGTCTGATTCAATTCACCGGCACTTAGCCTGCTGGACG
Found at i:22651920 original size:11 final size:11
Alignment explanation
Indices: 22651904--22651995 Score: 67
Period size: 11 Copynumber: 8.9 Consensus size: 11
22651894 TAAAAAAATT
22651904 TATTTTAAAAA
1 TATTTTAAAAA
22651915 TATTTT--AAA
1 TATTTTAAAAA
*
22651924 -A-TTAAAAAA
1 TATTTTAAAAA
22651933 GTATTTTAAAAA
1 -TATTTTAAAAA
22651945 TATTTT--AAA
1 TATTTTAAAAA
22651954 -A--TTAAAAA
1 TATTTTAAAAA
*
22651962 AATTTTAAAAAA
1 TATTTT-AAAAA
*
22651974 GTATTTTAAAAG
1 -TATTTTAAAAA
22651986 TATTTTAAAA
1 TATTTTAAAA
22651996 TTAAAAAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 5 0.08
9 10 0.15
11 25 0.38
12 16 0.25
13 5 0.08
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:22651938 original size:30 final size:29
Alignment explanation
Indices: 22651882--22651984 Score: 136
Period size: 30 Copynumber: 3.3 Consensus size: 29
22651872 ACCAAAATTT
22651882 TATTTTAAAAATTAAAAAAATTTATTTTAAAAA
1 TATTTT-AAAATT-AAAAAA--TATTTTAAAAA
22651915 TATTTTAAAATTAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAA-TATTTTAAAAA
22651945 TATTTTAAAATTAAAAAA-ATTTTAAAAAA
1 TATTTTAAAATTAAAAAATATTTT-AAAAA
22651974 GTATTTTAAAA
1 -TATTTTAAAA
22651985 GTATTTTAAA
Statistics
Matches: 67, Mismatches: 1, Indels: 7
0.89 0.01 0.09
Matches are distributed among these distances:
28 5 0.07
29 5 0.07
30 39 0.58
31 6 0.09
32 6 0.09
33 6 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
TATTTTAAAATTAAAAAATATTTTAAAAA
Found at i:22651954 original size:41 final size:41
Alignment explanation
Indices: 22651921--22652003 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
22651911 AAAATATTTT
22651921 AAAA-TTAAAAAAGTATTTTAAAAATATTTT-AAAATTAAA
1 AAAATTTAAAAAAGTATTTTAAAAATATTTTAAAAATTAAA
*
22651960 AAAATTTTAAAAAAGTATTTTAAAAGTATTTT-AAAATTAAA
1 AAAA-TTTAAAAAAGTATTTTAAAAATATTTTAAAAATTAAA
22652001 AAA
1 AAA
22652004 TAAAAAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 4 0.10
41 37 0.90
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (41 bp):
AAAATTTAAAAAAGTATTTTAAAAATATTTTAAAAATTAAA
Found at i:22652935 original size:17 final size:17
Alignment explanation
Indices: 22652892--22652925 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22652882 AGAAGACAAC
22652892 ATGGAAGTTGATCAAAT
1 ATGGAAGTTGATCAAAT
22652909 ATGGAAGTTGATCAAAT
1 ATGGAAGTTGATCAAAT
22652926 TATTAAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
ATGGAAGTTGATCAAAT
Found at i:22652987 original size:10 final size:10
Alignment explanation
Indices: 22652965--22652998 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22652955 TCGGCTATTT
22652965 TACAAAAATAA
1 TACAAAAA-AA
22652976 TACAAAAAAA
1 TACAAAAAAA
*
22652986 TAAAAAAAAA
1 TACAAAAAAA
22652996 TAC
1 TAC
22652999 CTAAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (10 bp):
TACAAAAAAA
Found at i:22653406 original size:154 final size:152
Alignment explanation
Indices: 22653127--22653641 Score: 658
Period size: 154 Copynumber: 3.3 Consensus size: 152
22653117 CAATTGTTCG
* * **
22653127 TATTTCGACCCTTTGTTCGTATTTTTT-TTCGGATTTTATTA-TTTTAAAAAATATAATATTTTC
1 TATTTCGACCATTTGTTCGTATTTTTTCCT-GGATTTTATTACTTCAAAAAAATATAATATTTTC
*
22653190 TAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTCATTTAGTATGTTTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTCATTAAGTATGTTTTT
22653255 TAAATAAATTTAAAAAAAACCCT
130 TAAATAAATTTAAAAAAAACCCT
* * *
22653278 TATTTCGGCCCTTTGTTCGTATTTTTTCCTGGATTTTATTACATTCAATAAAAATATATTATTTT
1 TATTTCGACCATTTGTTCGTATTTTTTCCTGGATTTTATTAC-TTCAA-AAAAATATAATATTTT
* * * * * *
22653343 CGT-ATTTTATTATTTTACATTGTTTTAGTACATTATGTTTGAAATGTATTAACTAATTTTGTTT
64 C-TAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTCATTAAGTATGTTT
*
22653407 TTTAAATAAATTTAGTAAAAAACCCT
128 TTTAAATAAATTTA-AAAAAAACCCT
* * ** * *
22653433 TATTTTGACCATTTGTTCGTATTTTTTCCTTAGATTTTATTACTTTTAAAAAATATACTATTTTT
1 TATTTCGACCATTTGTTCGTATTTTTTCC-TGGATTTTATTACTTCAAAAAAATATAATATTTTC
* * * *
22653498 TAATTTTATTATTTTACATTATTTTAGTACATTACAATTGAAATGTATTCATTCAGTGTGTTTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTCATTAAGTATGTTTTT
*
22653563 TAAATAAATTAAAAAAAAACCCCT
130 TAAATAAATTTAAAAAAAA-CCCT
* * *
22653587 TATTTCGGCCATTTGTTCATATTTTTTCCCCGGATTTTATTACTTGCAATAAAAA
1 TATTTCGACCATTTGTTCGTATTTTTT-CCTGGATTTTATTACTT-CAA-AAAAA
22653642 ACACACTAAA
Statistics
Matches: 313, Mismatches: 39, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
151 37 0.12
152 1 0.00
153 10 0.03
154 205 0.65
155 43 0.14
156 17 0.05
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (152 bp):
TATTTCGACCATTTGTTCGTATTTTTTCCTGGATTTTATTACTTCAAAAAAATATAATATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTCATTAAGTATGTTTTTT
AAATAAATTTAAAAAAAACCCT
Found at i:22662949 original size:29 final size:30
Alignment explanation
Indices: 22662874--22662962 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 30
22662864 TTAATTAATT
*
22662874 TTTTAA-AATTTAAAATTATTAAAAATATAA
1 TTTTAATATTTTAAAATT-TTAAAAATATAA
*
22662904 TTTTAATGATTTT--AATTTTAAAAA-ATAG
1 TTTTAAT-ATTTTAAAATTTTAAAAATATAA
22662932 TTTT-ATATTTTTAAAATTTTAAAAAT-TAA
1 TTTTAATA-TTTTAAAATTTTAAAAATATAA
22662961 TT
1 TT
22662963 AAATGATGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
26 1 0.02
27 6 0.12
28 7 0.14
29 22 0.44
30 10 0.20
32 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
TTTTAATATTTTAAAATTTTAAAAATATAA
Found at i:22680270 original size:22 final size:22
Alignment explanation
Indices: 22680245--22680289 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22680235 ATAAATAATT
*
22680245 ATAAAACAATAATATATGATAA
1 ATAAAACAATAATAAATGATAA
* * *
22680267 ATAATATAATAATAAATGTTAA
1 ATAAAACAATAATAAATGATAA
22680289 A
1 A
22680290 ATATGCTCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (22 bp):
ATAAAACAATAATAAATGATAA
Found at i:22680679 original size:9 final size:8
Alignment explanation
Indices: 22680645--22680680 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
22680635 TAATTTTTTT
22680645 AAAATTTA
1 AAAATTTA
22680653 AAAATTTA
1 AAAATTTA
22680661 AAAATTTA
1 AAAATTTA
22680669 AAAATTATA
1 AAAATT-TA
22680678 AAA
1 AAA
22680681 GTTATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.81
9 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATTTA
Found at i:22680685 original size:9 final size:9
Alignment explanation
Indices: 22680645--22680685 Score: 52
Period size: 8 Copynumber: 4.9 Consensus size: 9
22680635 TAATTTTTTT
22680645 AAAATT-TA
1 AAAATTATA
22680653 AAAATT-TA
1 AAAATTATA
22680661 AAAATT-TA
1 AAAATTATA
22680669 AAAATTATA
1 AAAATTATA
*
22680678 AAAGTTAT
1 AAAATTAT
22680686 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 22 0.71
9 9 0.29
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (9 bp):
AAAATTATA
Found at i:22680693 original size:22 final size:20
Alignment explanation
Indices: 22680665--22680705 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
22680655 AATTTAAAAA
22680665 TTTAAAAATTATAAAAGTTATT
1 TTTAAAAATTA-AAAA-TTATT
22680687 TTTAAAAATTAAAAATTAT
1 TTTAAAAATTAAAAATTAT
22680706 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAAAATTAAAAATTATT
Found at i:22680720 original size:8 final size:9
Alignment explanation
Indices: 22680705--22680729 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22680695 TTAAAAATTA
22680705 TAATTTTTT
1 TAATTTTTT
22680714 TAATTTTTT
1 TAATTTTTT
22680723 TAATTTT
1 TAATTTT
22680730 AAAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TAATTTTTT
Found at i:22693360 original size:17 final size:18
Alignment explanation
Indices: 22693323--22693360 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
22693313 GATTGAGAGT
* *
22693323 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
22693341 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
22693358 GAA
1 GAA
22693361 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:22696823 original size:6 final size:6
Alignment explanation
Indices: 22696812--22696847 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
22696802 TTTATGTGTC
* *
22696812 TATGTG TATGTG TATGTG TATGTG CATGTG CATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
22696848 CATTTATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.06, G:0.33, T:0.44
Consensus pattern (6 bp):
TATGTG
Found at i:22709591 original size:13 final size:14
Alignment explanation
Indices: 22709575--22709604 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
22709565 ATTTATAAAC
22709575 AATATTATG-ATAT
1 AATATTATGTATAT
22709588 AATATTATGTATAT
1 AATATTATGTATAT
22709602 AAT
1 AAT
22709605 CCCTTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (14 bp):
AATATTATGTATAT
Found at i:22712450 original size:4 final size:4
Alignment explanation
Indices: 22712434--22712505 Score: 126
Period size: 4 Copynumber: 17.8 Consensus size: 4
22712424 GTAAGGGCAG
*
22712434 CATA CATTA CATA CATA CATA CATA CATA CATA CATA CATG CATA CATA
1 CATA CA-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
22712483 CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CAT
22712506 TCACATATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
4 61 0.94
5 4 0.06
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:22713082 original size:6 final size:6
Alignment explanation
Indices: 22713064--22713110 Score: 76
Period size: 6 Copynumber: 7.7 Consensus size: 6
22713054 TATCAATCTT
*
22713064 TGATTC ATGATTC TGATTC TGATTC TGATTC TGGTTC TGATTC TGAT
1 TGATTC -TGATTC TGATTC TGATTC TGATTC TGATTC TGATTC TGAT
22713111 ATGTTTGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 32 0.84
7 6 0.16
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:22715902 original size:27 final size:27
Alignment explanation
Indices: 22715872--22715944 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 27
22715862 TGTCTTGAAT
22715872 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
22715899 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
22715931 TTGTTGGATATTGA
1 TTGTTAGATATTGA
22715945 AATGATTGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 14 0.35
32 26 0.65
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:22715924 original size:32 final size:32
Alignment explanation
Indices: 22715885--22715945 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
22715875 TTAGATATTG
22715885 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
22715917 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
22715946 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:22717175 original size:20 final size:20
Alignment explanation
Indices: 22717150--22717187 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
22717140 ACAATTTAAA
22717150 ATATAAATTTATTAATATGT
1 ATATAAATTTATTAATATGT
22717170 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
22717188 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATAAATTTATTAATATGT
Done.