Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold17
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: 1562583
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 255143 characters in sequence are not A, C, G, or T
File 3 of 9
Found at i:222972 original size:13 final size:13
Alignment explanation
Indices: 222954--222979 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
222944 ACATACAAGA
222954 TGTATCGATACAT
1 TGTATCGATACAT
222967 TGTATCGATACAT
1 TGTATCGATACAT
222980 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:222995 original size:33 final size:32
Alignment explanation
Indices: 222934--223001 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
222924 CCTTAACTGT
*
222934 TTGTATTGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
222966 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
222999 TTG
1 TTG
223002 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 17 0.52
34 3 0.09
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:228785 original size:90 final size:89
Alignment explanation
Indices: 228632--228803 Score: 238
Period size: 90 Copynumber: 1.9 Consensus size: 89
228622 ATTGTGAAAA
* * * **
228632 CCACACATTCCTAATCATCTTTATCTTATCCAACCGGTAGATGATATTGATGCATCACAAAGCCT
1 CCACACATTCCTAATCATCATTACCTTACCCAACCACTAGATGATATTGATGCATCACAAAGCCT
*
228697 AATTTCCTTAGGGTAAGGGTGCAGC
66 AATATCCTT-GGGTAAGGGTGCAGC
* *
228722 CCACACATTCCTAATCAT-ATTCCCTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCC
1 CCACACATTCCTAATCATCATTACCTT-ACCCAACCACTAGATGATATTGATGCATCACAAAGCC
*
228786 TGATATCCTTGGGTAAGG
65 TAATATCCTTGGGTAAGG
228804 ATATCCCGAC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
89 13 0.18
90 59 0.82
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (89 bp):
CCACACATTCCTAATCATCATTACCTTACCCAACCACTAGATGATATTGATGCATCACAAAGCCT
AATATCCTTGGGTAAGGGTGCAGC
Found at i:228836 original size:90 final size:91
Alignment explanation
Indices: 228669--228871 Score: 227
Period size: 91 Copynumber: 2.2 Consensus size: 91
228659 ATCCAACCGG
* * * * *
228669 TAGATGATATTGATGCATCACAAAGCCTAATTTCCTTAGGGTAAGGGTGCAGCCCACACATTCCT
1 TAGATGGTATTGATGCATCACAAAGCCTAATATCCTTAGGGTAAGGATCCAGACCACACATTCCT
228734 AATCATATTCCC-TTCAC-CCAACCAC
66 AATCATATTCCCTTTCACTCC-ACCAC
* * *
228759 TAGATGGTATTGATGCATCACAAAGCCTGATATCCTT-GGGTAAGGATATCCCGACCACTCATT-
1 TAGATGGTATTGATGCATCACAAAGCCTAATATCCTTAGGGTAAGG--ATCCAGACCACACATTC
*
228822 CTCAATCATA-TCCCTTTCTCTCCACCAC
64 CT-AATCATATTCCCTTTCACTCCACCAC
* * *
228850 TAGATAGTACTAATGCATCACA
1 TAGATGGTATTGATGCATCACA
228872 TGACTACAAG
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
89 8 0.08
90 40 0.42
91 46 0.48
92 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (91 bp):
TAGATGGTATTGATGCATCACAAAGCCTAATATCCTTAGGGTAAGGATCCAGACCACACATTCCT
AATCATATTCCCTTTCACTCCACCAC
Found at i:229257 original size:42 final size:44
Alignment explanation
Indices: 228983--230567 Score: 1020
Period size: 43 Copynumber: 37.3 Consensus size: 44
228973 GTCTCACTCC
* * * * * *
228983 AGAC-TTCTTTATCATTTGTCTGCCCATTGA-TTCAAACTTGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * *
229025 AGACTTT-TTTGATCTTTTATCTCCCCATC-AGCTCAGAC-CTGAG
1 AGACTTTCTTT-ATCTTTTGTCTGCCCGTCGAGCTCAGACTC-GAG
* * *
229068 AGACTTTCTTTATCTTTTATCTGCTCATCG-GCTCAGACTCGA-
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * * *
229110 AGGACTTTTTTTATCTTTTTTCTGCCTGTC-AGTTCAGAGTCGAG
1 A-GACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * * * * * *
229154 AGATTTTCTTTATCTTTTGTCTACACATCGA-CGCAGACCCTAA
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* *
229197 AGACTTTCTTTATCTTTTATCTGCCCGTCGACCT-AGACTCGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * *
229240 AGA-TTTCTTTATTTTTTATCAGCCCCTCG-GCTCAGAC-CTGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTC-GAG
* * * * * * *
229282 AGA-TTTTTTTATTTTTTATCTACCAGTCGA-CTCAGACTTGGG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * *** * *
229324 AGACTTTCTTTATCTTTTATCCGTTTGTC-AGCTCAAACTTGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * *
229367 AGAC-TTCTTTATCCTTTGTCTACCAGTCGA-CTCAGACTCGGG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * *
229409 AAACTTTTTTTATCTTTTGTCTGCCCGTCG-GCTCAAAC-CTGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTC-GAG
* *
229452 AGAC-TTCTTTATCTTTTGTCTACCCGTCGA-CTCAGAC-CCAGG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGA-G
** *
229494 AGAC-TTCTTTATCTTTTGTCTGCTTGTC-AGCTCAGACTTGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * *
229536 AGACTTTCTTTATCTTTTTTTTTGCCCGTC-AGCTCAGACTCGGG
1 AGACTTTCTTTATC-TTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * *
229580 AGACTTTCTCTATCTTTTGTCTACCCGTC-AGCTCAGACCCGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * * *
229623 ATACTTTCTTTATCCTTTGTCTACTCGTCG-GCTCAGACACGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * * *
229666 AGAC-TTCTTTATCCTGTGTCTGCCCATCGA-CTCAAACCCG-G
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * * * *
229707 AAGAC-TCCTCTATCTTTTGTATGCCCGTTG-GCTCAGACCCGAA
1 -AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* *
229750 AGAC-TTCTCTATCTTTTGTCTGCCCGTCGA-CTCAGAC-CTGGG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTC-GAG
* * *
229792 AGACTTTCTTTATCCTTTGTCTGCCCGTCG-GCTCAAAACTAG-G
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTC-AGACTCGAG
* ** * *
229835 AGACTTTCTTTATCTTTTGTTTGCTAGTCGA-CTCAGACCCAAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * * * * *
229878 ACACTTTCTGTATCCTTTGTTTGCCCCTTG-GCTCAGACTAGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* *
229921 AGACTTT-TTTATCATTTGTCTGCCCATCG-GCTCAGACTCGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* *
229963 AGACTTTCTTTATCCTTTGTCTGCCCGTCG-GCTCAGAACTAG-G
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAG-ACTCGAG
* * ** * *
230006 AGACTTTCTTTATCTTTTATTTGCTAGTCGA-CTCAGACCCAAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * * *
230049 AGACTTTCTGTATCCTTTGTTTGCCC-TCG-GCTCAGATTAGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * *
230091 AGACTTT-TTTATCATTTGTCTGCCCATCG-GCTCAGACCCGAA
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * * *
230133 AGACTTTC-TTATCCTTTGTCTGCCCGT-TAACTCAGACCCAAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * * *
230175 AGA-TTTTTTTATCCTTTGTCTGCCTGTCG-GCTCAGACCCAAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
*** * * *
230217 AGACTTTCTTTATCTTTTGTCTGCTTTTC-AGCTCAGGC-CAAA
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * *
230259 AGAC-TTCTTTATCCTTTGTCTGCCCGTTGA-CTCAGGC-CTG-G
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTC-GAG
* * * * * * *
230300 GGAC-TTCTTTATCCTTTGTCTGTCTGTTG-GCTCA-AGCCCGGG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGA-CTCGAG
* ** * *
230342 AGAC-TTCTTTTATCCTTTGTCTGCTTGTC-AACTCAGACCCGAG
1 AGACTTTC-TTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * *
230385 AGAC-TTCTTTATCTTTTTTCTGCTCGTC-AGCTTC-TAC-C-AGG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGC-TCAGACTCGA-G
* *
230426 AAGA-TTTCTTTTATCTTTTATCCGCCCGTCG-GCTCAGAC-CTGAG
1 -AGACTTTC-TTTATCTTTTGTCTGCCCGTCGAGCTCAGACTC-GAG
* * * *
230470 AGACTTTCGTTATCTTTT-TTTGCTCGTC-AGCTCAGACCCGAG
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
* * * *
230512 TGACTTTTTTTATCTTTTGTCTACCCGTC-AGCTCAAACTCG-G
1 AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
230554 AAGAC-TTCTTTATC
1 -AGACTTTCTTTATC
230568 CTTCATCTAT
Statistics
Matches: 1231, Mismatches: 235, Indels: 154
0.76 0.15 0.10
Matches are distributed among these distances:
40 1 0.00
41 86 0.07
42 501 0.41
43 585 0.48
44 57 0.05
45 1 0.00
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (44 bp):
AGACTTTCTTTATCTTTTGTCTGCCCGTCGAGCTCAGACTCGAG
Found at i:229781 original size:383 final size:381
Alignment explanation
Indices: 229367--230238 Score: 993
Period size: 383 Copynumber: 2.3 Consensus size: 381
229357 CAAACTTGAG
* * * * *
229367 AGACTTCTTTATCCTTTGTCTACCAGTCGACTCAGACTCGGGAAACTTTTTTTATCTTTTGTCTG
1 AGACTTCTCTATCCTTTGTCTGCCCGTCGACTCAGAC-CGGGAGACTTTTTTTATCCTTTGTCTG
* * *
229432 CCCGTCGGCTCAAACCTGAGAGAC-TTCTTTATCTTTTGTCTACCCGTCGACTCAGACCCAGGAG
65 CCCGTCGGCTCAAACCT-AGAGACTTTCTTTATCTTTTGTCTACCAGTCGACTCAGACCCAAGAC
* * *** * * * *
229496 AC-TTCTTTATCTTTTGTCTGCTTGTCAGCTCAGACTTGAGAGACTTTCTTTATCTTTTTTTTTG
129 ACTTTCTGTATCCTTTGTCTGCCCCTCAGCTCAGACTAGAGAGACTTT-TTTATC-ATTTGTCTG
* * * *
229560 CCCGTCAGCTCAGACTCGGGAGACTTTCTCTATCTTTTGTCTACCCGTCAGCTCAGACCCGA-GA
192 CCCATCAGCTCAGACTCGAGAGACTTTCTCTATCCTTTGTCTACCCGTCAGCTCAGA-ACGAGGA
* * * * * *
229624 TACTTTCTTTATCCTTTGTCTACTCGTCGGCTCAGACACGAGAGAC-TTCTTTATCCTGTGTCTG
256 GACTTTCTTTATCCTTTATCTACTAGTCGACTCAGACACAAGAGACTTTCTGTATCCTGTGTCTG
* * * *
229688 CCCATCGACTCAAACCCG-GAAGACTCCTCTATCTTTTGTATGCCCGTTGGCTCAGACCCGAA
321 CCC-TCGACTCAAACCAGAG-AGACTCCTCTATCATTTGTATGCCCATCGGCTCAGACCCGAA
* *
229750 AGACTTCTCTATCTTTTGTCTGCCCGTCGACTCAGACCTGGGAGACTTTCTTTATCCTTTGTCTG
1 AGACTTCTCTATCCTTTGTCTGCCCGTCGACTCAGACC-GGGAGACTTTTTTTATCCTTTGTCTG
* * * *
229815 CCCGTCGGCTCAAAACTAGGAGACTTTCTTTATCTTTTGTTTGCTAGTCGACTCAGACCCAAGAC
65 CCCGTCGGCTCAAACCTA-GAGACTTTCTTTATCTTTTGTCTACCAGTCGACTCAGACCCAAGAC
* **
229880 ACTTTCTGTATCCTTTGTTTGCCCCTTGGCTCAGACTAGAGAGACTTTTTTATCATTTGTCTGCC
129 ACTTTCTGTATCCTTTGTCTGCCCCTCAGCTCAGACTAGAGAGACTTTTTTATCATTTGTCTGCC
* * * * *
229945 CATCGGCTCAGACTCGAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGAACTAGGAGAC
194 CATCAGCTCAGACTCGAGAGACTTTCTCTATCCTTTGTCTACCCGTCAGCTCAGAACGAGGAGAC
* * * * * *
230010 TTTCTTTATCTTTTATTTGCTAGTCGACTCAGACCCAAGAGACTTTCTGTATCCTTTGTTTGCCC
259 TTTCTTTATCCTTTATCTACTAGTCGACTCAGACACAAGAGACTTTCTGTATCCTGTGTCTGCCC
* * ** ** * *
230075 TCGGCTCAGATTAGAGAGACTTTTTTATCATTTGTCTGCCCATCGGCTCAGACCCGAA
324 TCGACTCAAACCAGAGAGACTCCTCTATCATTTGTATGCCCATCGGCTCAGACCCGAA
** **
230133 AGACTT-TCTTATCCTTTGTCTGCCCGTTAACTCAGACCCAAGAGA-TTTTTTTATCCTTTGTCT
1 AGACTTCTC-TATCCTTTGTCTGCCCGTCGACTCAGA-CCGGGAGACTTTTTTTATCCTTTGTCT
* * *
230196 GCCTGTCGGCTCAGACCCAAGAGACTTTCTTTATCTTTTGTCT
64 GCCCGTCGGCTCA-AACCTAGAGACTTTCTTTATCTTTTGTCT
230239 GCTTTTCAGC
Statistics
Matches: 409, Mismatches: 70, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
382 57 0.14
383 253 0.62
384 63 0.15
385 36 0.09
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (381 bp):
AGACTTCTCTATCCTTTGTCTGCCCGTCGACTCAGACCGGGAGACTTTTTTTATCCTTTGTCTGC
CCGTCGGCTCAAACCTAGAGACTTTCTTTATCTTTTGTCTACCAGTCGACTCAGACCCAAGACAC
TTTCTGTATCCTTTGTCTGCCCCTCAGCTCAGACTAGAGAGACTTTTTTATCATTTGTCTGCCCA
TCAGCTCAGACTCGAGAGACTTTCTCTATCCTTTGTCTACCCGTCAGCTCAGAACGAGGAGACTT
TCTTTATCCTTTATCTACTAGTCGACTCAGACACAAGAGACTTTCTGTATCCTGTGTCTGCCCTC
GACTCAAACCAGAGAGACTCCTCTATCATTTGTATGCCCATCGGCTCAGACCCGAA
Found at i:230546 original size:85 final size:86
Alignment explanation
Indices: 229022--230570 Score: 1085
Period size: 85 Copynumber: 18.2 Consensus size: 86
229012 ATTCAAACTT
* * * * * *
229022 GAGAGACTTT-TTTGATCTTTTATCTCCCCATCAGCTCAGACCTGAGAGACTTTCTTTATCTTTT
1 GAGAGACTTTCTTT-ATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTT
* * * *
229086 ATCTGCTCATCGGCTCAGACTC
65 GTCTGCCCGTCGGCTCAGACCC
* * * * * * ** *
229108 GA-AGGACTTTTTTTATCTTTTTTCTGCCTGTCAGTTCAGAGTCGAGAGATTTTCTTTATCTTTT
1 GAGA-GACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTT
* * * * *
229172 GTCTACACATCGACGCAGACCC
65 GTCTGCCCGTCGGCTCAGACCC
* * * * * * *
229194 TAAAGACTTTCTTTATCTTTTATCTGCCCGTCGAC-CTAGACTCGAGAGA-TTTCTTTATTTTTT
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTC-AGACCCGAGAGACTTTCTTTATCTTTT
* * * *
229257 ATCAGCCCCTCGGCTCAGACCT
65 GTCTGCCCGTCGGCTCAGACCC
* ** * * * * ** * *
229279 GAGAGA-TTTTTTTATTTTTTATCTACCAGTCGACTCAGACTTGGGAGACTTTCTTTATCTTTTA
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTTG
* *** * * **
229343 TCCGTTTGTCAGCTCAAACTT
66 TCTGCCCGTCGGCTCAGACCC
* * * * * * *
229364 GAGAGAC-TTCTTTATCCTTTGTCTACCAGTCGACTCAGACTCGGGAAACTTTTTTTATCTTTTG
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTTG
* *
229428 TCTGCCCGTCGGCTCAAACCT
66 TCTGCCCGTCGGCTCAGACCC
* * *
229449 GAGAGAC-TTCTTTATCTTTTGTCTACCCGTCGACTCAGACCC-AGGAGAC-TTCTTTATCTTTT
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGA-GAGACTTTCTTTATCTTTT
** * **
229511 GTCTGCTTGTCAGCTCAGACTT
65 GTCTGCCCGTCGGCTCAGACCC
* * * * * * *
229533 GAGAGACTTTCTTTATCTTTTTTTTTGCCCGTCAGCTCAGACTCGGGAGACTTTCTCTATCTTTT
1 GAGAGACTTTCTTTATC-CTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTT
* *
229598 GTCTACCCGTCAGCTCAGACCC
65 GTCTGCCCGTCGGCTCAGACCC
* * * * * *
229620 GAGATACTTTCTTTATCCTTTGTCTACTCGTCGGCTCAGACACGAGAGAC-TTCTTTATCCTGTG
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTTG
* * *
229684 TCTGCCCATCGACTCAAACCC
66 TCTGCCCGTCGGCTCAGACCC
* * * * * * *
229705 G-GAAGAC-TCCTCTATCTTTTGTATGCCCGTTGGCTCAGACCCGAAAGAC-TTCTCTATCTTTT
1 GAG-AGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTT
* *
229767 GTCTGCCCGTCGACTCAGACCT
65 GTCTGCCCGTCGGCTCAGACCC
* ** *
229789 GGGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCA-AAACTAGGAGACTTTCTTTATCTTTT
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGA-GAGACTTTCTTTATCTTTT
* ** *
229853 GTTTGCTAGTCGACTCAGACCC
65 GTCTGCCCGTCGGCTCAGACCC
* * * * * * ** *
229875 AAGACACTTTCTGTATCCTTTGTTTGCCCCTTGGCTCAGACTAGAGAGACTTT-TTTATCATTTG
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTTG
* *
229939 TCTGCCCATCGGCTCAGACTC
66 TCTGCCCGTCGGCTCAGACCC
* *
229960 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGA-ACTAGGAGACTTTCTTTATCTTTT
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGA-GAGACTTTCTTTATCTTTT
* * ** *
230024 ATTTGCTAGTCGACTCAGACCC
65 GTCTGCCCGTCGGCTCAGACCC
* * * *** *
230046 AAGAGACTTTCTGTATCCTTTGTTTGCCC-TCGGCTCAGATTAGAGAGACTTT-TTTATCATTTG
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTTG
*
230109 TCTGCCCATCGGCTCAGACCC
66 TCTGCCCGTCGGCTCAGACCC
* *** * * *
230130 GAAAGACTTTC-TTATCCTTTGTCTGCCCGTTAACTCAGACCCAAGAGA-TTTTTTTATCCTTTG
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTTG
*
230193 TCTGCCTGTCGGCTCAGACCC
66 TCTGCCCGTCGGCTCAGACCC
* * *** * * * * *
230214 AAGAGACTTTCTTTATCTTTTGTCTGCTTTTCAGCTCAG-GCCAAAAGAC-TTCTTTATCCTTTG
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTTG
* * * *
230277 TCTGCCCGTTGACTCAGGCCT
66 TCTGCCCGTCGGCTCAGACCC
* * * * * *
230298 G-GGGAC-TTCTTTATCCTTTGTCTGTCTGTTGGCTCA-AGCCCGGGAGAC-TTCTTTTATCCTT
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGA-CCCGAGAGACTTTC-TTTATCTTT
** **
230359 TGTCTGCTTGTCAACTCAGACCC
64 TGTCTGCCCGTCGGCTCAGACCC
* * * * * *
230382 GAGAGAC-TTCTTTATCTTTTTTCTGCTCGTCAGCTTC-TACCAG-GAAGA-TTTCTTTTATCTT
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGC-TCAGACCCGAG-AGACTTTC-TTTATCTT
* * *
230443 TTATCCGCCCGTCGGCTCAGACCT
63 TTGTCTGCCCGTCGGCTCAGACCC
* * * * * * *
230467 GAGAGACTTTCGTTAT-CTTTTTTTGCTCGTCAGCTCAGACCCGAGTGACTTTTTTTATCTTTTG
1 GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTTG
* * * *
230531 TCTACCCGTCAGCTCAAACTC
66 TCTGCCCGTCGGCTCAGACCC
230552 G-GAAGAC-TTCTTTATCCTT
1 GAG-AGACTTTCTTTATCCTT
230571 CATCTATTTG
Statistics
Matches: 1162, Mismatches: 262, Indels: 79
0.77 0.17 0.05
Matches are distributed among these distances:
82 24 0.02
83 31 0.03
84 300 0.26
85 470 0.40
86 286 0.25
87 51 0.04
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (86 bp):
GAGAGACTTTCTTTATCCTTTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCTTTATCTTTTG
TCTGCCCGTCGGCTCAGACCC
Found at i:231651 original size:166 final size:166
Alignment explanation
Indices: 231431--231947 Score: 444
Period size: 166 Copynumber: 3.1 Consensus size: 166
231421 AAAACTCTTA
* *** * * * * *
231431 AAATATTATCATTTAATTTCCATCAAATCA-ATTTCAAAAAATTCATTCATTTTCATTCA-TTTT
1 AAATATTATTATTTAATTAATATTAAATCAGTTTTC-AAAAATTAATTTATTTTCA-TAAGTTTT
** * * * *
231494 TCTTTTTTTCCTTAAAATTCCCCATGTTTCTCAAATACTAAA-TTTTCTTCTTCAT-AATTTTTT
64 TAATTTTTTCCTTAAAATT-CCCATGTTTCTAAAAT-CTAAAGTTTTCTACTCCATCAA-TGTTT
231557 TC-GAAAGA-TTTTCAACGATTTTTAATTTTTAAAATTCATC
126 TCGGAAAGATTTTTC-ACGATTTTTAATTTTTAAAATTCATC
* *
231597 AAATATTGTTATTTAATTAATATTAAATCAGTTTTCAAAAATTAATTTATTTTCATGAGTTTTTG
1 AAATATTATTATTTAATTAATATTAAATCAGTTTTCAAAAATTAATTTATTTTCATAAGTTTTT-
* * * * * *
231662 AATTTTTTCCTTTAAATTTCCTTGTTTTTAAAATGTAAAGTTTTCTACTCCGTCAATGTTTTCGG
65 AATTTTTTCCTTAAAATTCCCATGTTTCTAAAATCTAAAGTTTTCTACTCCATCAATGTTTTCGG
** ** * *
231727 CGAGATTTTTCTTGGTTTTTAATTTTTAAAATTTATC
130 AAAGATTTTTCACGATTTTTAATTTTTAAAATTCATC
* *
231764 AAATATTATTATTTAATTCATATTAAATCAGTTTGT-AAAAATTAATTTATTTTCATAAGTTTTA
1 AAATATTATTATTTAATTAATATTAAATCAGTTT-TCAAAAATTAATTTATTTTCATAAGTTTTT
* * ** * *
231828 AATTTTTTCCTTAAAATTTTCCTAT-TTT-TGAAAAAC-GGAGTTTTCTACTCCATTAATATTTT
65 AATTTTTTCCTTAAAA--TTCCCATGTTTCT-AAAATCTAAAGTTTTCTACTCCATCAATGTTTT
* * * **
231890 CGGGAGGATTTTTCTCTG-TTTAAAATTTTTAAAATTCATC
127 CGGAAAGATTTTTCAC-GATTTTTAATTTTTAAAATTCATC
* * *
231930 TAATATTGTTATTAAATT
1 AAATATTATTATTTAATT
231948 TTCATTAAAT
Statistics
Matches: 286, Mismatches: 53, Indels: 24
0.79 0.15 0.07
Matches are distributed among these distances:
165 6 0.02
166 157 0.55
167 113 0.40
168 10 0.03
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.50
Consensus pattern (166 bp):
AAATATTATTATTTAATTAATATTAAATCAGTTTTCAAAAATTAATTTATTTTCATAAGTTTTTA
ATTTTTTCCTTAAAATTCCCATGTTTCTAAAATCTAAAGTTTTCTACTCCATCAATGTTTTCGGA
AAGATTTTTCACGATTTTTAATTTTTAAAATTCATC
Found at i:231748 original size:167 final size:166
Alignment explanation
Indices: 231575--231947 Score: 497
Period size: 166 Copynumber: 2.2 Consensus size: 166
231565 TTTTCAACGA
231575 TTTTTAATTTTTAAAATTCATCAAATATTGTTATTTAATTAATATTAAATCAGTTT-TCAAAAAT
1 TTTTTAATTTTTAAAATTCATCAAATATTGTTATTTAATTAATATTAAATCAGTTTGT-AAAAAT
* * * * *
231639 TAATTTATTTTCATGAGTTTTTGAATTTTTTCCTTTAAA-TTTCCT-TGTTTT-TAAAATGTAAA
65 TAATTTATTTTCATAAG-TTTTAAATTTTTTCCTTAAAATTTTCCTAT-TTTTGAAAAACG--AA
* *
231701 GTTTTCTACTCCGTCAATGTTTTCGGCGA-GATTTTTCT-TGG
126 GTTTTCTACTCCATCAATATTTTCGG-GAGGATTTTTCTCT-G
* * *
231742 TTTTTAATTTTTAAAATTTATCAAATATTATTATTTAATTCATATTAAATCAGTTTGTAAAAATT
1 TTTTTAATTTTTAAAATTCATCAAATATTGTTATTTAATTAATATTAAATCAGTTTGTAAAAATT
*
231807 AATTTATTTTCATAAGTTTTAAATTTTTTCCTTAAAATTTTCCTATTTTTGAAAAACGGAGTTTT
66 AATTTATTTTCATAAGTTTTAAATTTTTTCCTTAAAATTTTCCTATTTTTGAAAAACGAAGTTTT
*
231872 CTACTCCATTAATATTTTCGGGAGGATTTTTCTCTG
131 CTACTCCATCAATATTTTCGGGAGGATTTTTCTCTG
** * *
231908 TTTAAAATTTTTAAAATTCATCTAATATTGTTATTAAATT
1 TTTTTAATTTTTAAAATTCATCAAATATTGTTATTTAATT
231948 TTCATTAAAT
Statistics
Matches: 182, Mismatches: 18, Indels: 13
0.85 0.08 0.06
Matches are distributed among these distances:
165 2 0.01
166 87 0.48
167 86 0.47
168 7 0.04
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.51
Consensus pattern (166 bp):
TTTTTAATTTTTAAAATTCATCAAATATTGTTATTTAATTAATATTAAATCAGTTTGTAAAAATT
AATTTATTTTCATAAGTTTTAAATTTTTTCCTTAAAATTTTCCTATTTTTGAAAAACGAAGTTTT
CTACTCCATCAATATTTTCGGGAGGATTTTTCTCTG
Found at i:232633 original size:13 final size:13
Alignment explanation
Indices: 232615--232642 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
232605 TTATCTTGTT
232615 TAAGATGTTTGGA
1 TAAGATGTTTGGA
232628 TAAGATGTTTGGA
1 TAAGATGTTTGGA
232641 TA
1 TA
232643 TATGATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (13 bp):
TAAGATGTTTGGA
Found at i:237856 original size:18 final size:19
Alignment explanation
Indices: 237828--237870 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
237818 ATCAACAATC
*
237828 ATAATAAATATAAT-ATAA
1 ATAAAAAATATAATCATAA
*
237846 TTAAAAAATATAATCATAA
1 ATAAAAAATATAATCATAA
237865 ATAAAA
1 ATAAAA
237871 TTTAAATCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAAAATATAATCATAA
Found at i:239295 original size:13 final size:14
Alignment explanation
Indices: 239272--239301 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
239262 AAATATTAAT
239272 ATTTATTTTTTTAG
1 ATTTATTTTTTTAG
239286 ATTT-TTTTTTTAG
1 ATTTATTTTTTTAG
239299 ATT
1 ATT
239302 ACATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (14 bp):
ATTTATTTTTTTAG
Found at i:239954 original size:2 final size:2
Alignment explanation
Indices: 239942--239995 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
239932 CTTGGAAGAA
* * * *
239942 AT AT A- AT AT AT AT AT AT AT AC AT AT AT AC AT AT AT AC AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
239983 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
239996 AGCAATCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:239968 original size:16 final size:16
Alignment explanation
Indices: 239942--239993 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
239932 CTTGGAAGAA
239942 ATATA-ATATATATAT
1 ATATACATATATATAT
*
239957 ATATACATATATACAT
1 ATATACATATATATAT
*
239973 ATATACACATATATAT
1 ATATACATATATATAT
239989 ATATA
1 ATATA
239994 TAAGCAATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 5 0.15
16 28 0.85
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATACATATATATAT
Found at i:239974 original size:18 final size:18
Alignment explanation
Indices: 239947--239995 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
239937 AAGAAATATA
*
239947 ATATATATATATATACAT
1 ATATATATATATACACAT
*
239965 ATATACATATATACACAT
1 ATATATATATATACACAT
239983 ATATATATATATA
1 ATATATATATATA
239996 AGCAATCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATATATATATACACAT
Found at i:244121 original size:2 final size:2
Alignment explanation
Indices: 244114--244142 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
244104 TTTCAGAAAA
244114 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
244143 AGGGGGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:247723 original size:8 final size:8
Alignment explanation
Indices: 247710--247753 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
247700 ATAAAAAAAC
247710 AATATTTT
1 AATATTTT
247718 AATATTTT
1 AATATTTT
247726 --TATTATT
1 AATATT-TT
247733 AA-A-TTT
1 AATATTTT
247739 AATATTTT
1 AATATTTT
247747 AATATTT
1 AATATTT
247754 ATCTTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
6 8 0.26
7 4 0.13
8 19 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
AATATTTT
Found at i:247743 original size:29 final size:30
Alignment explanation
Indices: 247710--247770 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
247700 ATAAAAAAAC
247710 AATATTTTAATATTT-T-TATTATTAAATTT
1 AATATTTTAATATTTATCT-TTATTAAATTT
*
247739 AATATTTTAATATTTATCTTTTTTAAATTT
1 AATATTTTAATATTTATCTTTATTAAATTT
247769 AA
1 AA
247771 CAAATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 15 0.52
30 13 0.45
31 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (30 bp):
AATATTTTAATATTTATCTTTATTAAATTT
Found at i:247744 original size:15 final size:15
Alignment explanation
Indices: 247710--247754 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
247700 ATAAAAAAAC
247710 AATATTTTAATATTT
1 AATATTTTAATATTT
*
247725 -TTATTATTAA-ATTT
1 AATATT-TTAATATTT
247739 AATATTTTAATATTT
1 AATATTTTAATATTT
247754 A
1 A
247755 TCTTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATATTTTAATATTT
Found at i:248036 original size:23 final size:21
Alignment explanation
Indices: 248009--248054 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
247999 CACAATTTTA
248009 AAATTTAAAAATATTAAAATATT
1 AAATTTAAAAATA-TAAAA-ATT
*
248032 AAATTTAATAATATAAAAATT
1 AAATTTAAAAATATAAAAATT
248053 AA
1 AA
248055 CATATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 5 0.23
23 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTAAAAATATAAAAATT
Found at i:248488 original size:2 final size:2
Alignment explanation
Indices: 248481--248505 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
248471 TAATTATAAT
248481 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
248506 TGTGTTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:248881 original size:6 final size:6
Alignment explanation
Indices: 248870--248904 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
248860 CATAACCCCC
248870 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTC
248905 CTTCAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (6 bp):
TCCTCT
Found at i:255624 original size:293 final size:293
Alignment explanation
Indices: 255097--255653 Score: 1026
Period size: 293 Copynumber: 1.9 Consensus size: 293
255087 CTCAATTTGC
255097 ATATCAATGCATTACTTGATAGTTAATGTGTTCAATAATTCTAGCCACCCATTAACAAACATCTT
1 ATATCAATGCATTACTTGATAGTTAATGTGTTCAATAATTCTAGCCACCCATTAACAAACATCTT
255162 AGAGATTAACATCCACTAACAGAGATGATATATAAAGTCCAGGTCCCCAGAAAAAAATTTCCGTA
66 AGAGATTAACATCCACTAACAGAGATGATATATAAAGTCCAGGTCCCCAGAAAAAAATTTCCGTA
* *
255227 TAAGTTCCATATAAAACAAATATCAAGCGAGGAATTAGCAAATATTAGAAATTGCAACAAGGATG
131 TAAGTTCCATATAAAACAAATATCAAGCGAGGAATTAGCAAAAATTAGAAATTGCAACAAGGATA
*
255292 GAATAGTGACCATGCTTAAACCAATGGATAATTAAGGACCATCTGCATAAGAGGGAAAAACAGGA
196 GAATAGTGACCATGCTTAAACCAATGGACAATTAAGGACCATCTGCATAAGAGGGAAAAACAGGA
255357 AAAAAATTTCCGTATAAGTTCCATATAGAACAA
261 AAAAAATTTCCGTATAAGTTCCATATAGAACAA
255390 ATATCAATGCATTACTTGATAGTTAATGTGTTCAATAATTCTAGCCACCCATTAACAAACATCTT
1 ATATCAATGCATTACTTGATAGTTAATGTGTTCAATAATTCTAGCCACCCATTAACAAACATCTT
*
255455 AGAGATTAACATCCATTAACAGAGATGATATATAAAGTCCAGGTCCCCAGAAAAAAATTTCCGTA
66 AGAGATTAACATCCACTAACAGAGATGATATATAAAGTCCAGGTCCCCAGAAAAAAATTTCCGTA
* * *
255520 TAAGTTCTATATAGAACAAATATCAAGCGTGGAATTAGCAAAAATTAGAAATTGC-ACAAAGGAT
131 TAAGTTCCATATAAAACAAATATCAAGCGAGGAATTAGCAAAAATTAGAAATTGCAAC-AAGGAT
*
255584 AGAATAGTGACCATGCTTAAACCAATGGACACTTAAGGACCATCTGCATAAGAGGGAAAAACAGG
195 AGAATAGTGACCATGCTTAAACCAATGGACAATTAAGGACCATCTGCATAAGAGGGAAAAACAGG
255649 AAAAA
260 AAAAA
255654 CAGGGTCCTT
Statistics
Matches: 255, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
292 2 0.01
293 253 0.99
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.25
Consensus pattern (293 bp):
ATATCAATGCATTACTTGATAGTTAATGTGTTCAATAATTCTAGCCACCCATTAACAAACATCTT
AGAGATTAACATCCACTAACAGAGATGATATATAAAGTCCAGGTCCCCAGAAAAAAATTTCCGTA
TAAGTTCCATATAAAACAAATATCAAGCGAGGAATTAGCAAAAATTAGAAATTGCAACAAGGATA
GAATAGTGACCATGCTTAAACCAATGGACAATTAAGGACCATCTGCATAAGAGGGAAAAACAGGA
AAAAAATTTCCGTATAAGTTCCATATAGAACAA
Found at i:256827 original size:4 final size:4
Alignment explanation
Indices: 256818--256867 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
256808 GAAGAATGCA
* * * * *
256818 ATAT ATAT ATAT ACAT ACAT ACAT ACAT ATAC ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
256866 AT
1 AT
256868 CATCAATGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (4 bp):
ATAT
Found at i:256829 original size:6 final size:6
Alignment explanation
Indices: 256818--256867 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
256808 GAAGAATGCA
* * * * *
256818 ATATAT ATATAT ACATAC ATACAT ACATAT ACATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
256866 AT
1 AT
256868 CATCAATGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (6 bp):
ATATAT
Found at i:257037 original size:2 final size:2
Alignment explanation
Indices: 257032--257062 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
257022 ATAAAAGAGA
257032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
257063 GCATCCCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:257434 original size:16 final size:16
Alignment explanation
Indices: 257413--257444 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
257403 GAAACTAGAG
257413 TAACCATTCAAAGGCC
1 TAACCATTCAAAGGCC
257429 TAACCATTCAAAGGCC
1 TAACCATTCAAAGGCC
257445 AGATGATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.19
Consensus pattern (16 bp):
TAACCATTCAAAGGCC
Found at i:261448 original size:29 final size:29
Alignment explanation
Indices: 261416--261473 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
261406 AAAAGAAATT
*
261416 AAAAAAATCCATCCAAATAAATGATGCTA
1 AAAAAAATCCAGCCAAATAAATGATGCTA
*
261445 AAAAAATTCCAGCCAAATAAATGATGCTA
1 AAAAAAATCCAGCCAAATAAATGATGCTA
261474 TCAAATCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.53, C:0.17, G:0.09, T:0.21
Consensus pattern (29 bp):
AAAAAAATCCAGCCAAATAAATGATGCTA
Found at i:266490 original size:13 final size:13
Alignment explanation
Indices: 266472--266497 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
266462 ACATTTTGGG
266472 ATGTATCGATACA
1 ATGTATCGATACA
266485 ATGTATCGATACA
1 ATGTATCGATACA
266498 TAATGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:266492 original size:33 final size:32
Alignment explanation
Indices: 266450--266517 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
266440 CGTTACAAGC
**
266450 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATAATGGG-TGTATCGATA
*
266483 CAATGTATCGATACATAATGTGTGTATCGATA
1 CAATGTATCGATACATAATGGGTGTATCGATA
266515 CAA
1 CAA
266518 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (32 bp):
CAATGTATCGATACATAATGGGTGTATCGATA
Found at i:267206 original size:23 final size:23
Alignment explanation
Indices: 267173--267221 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 23
267163 TCATTTTTCT
267173 TTTCTCTCCCCCTTAATCAAAA-AA
1 TTTCTCT-CCCCTTAAT-AAAATAA
267197 TTTCT-TCCCCTTAATAAAATAA
1 TTTCTCTCCCCTTAATAAAATAA
267219 TTT
1 TTT
267222 AACAATTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.17
22 14 0.58
23 1 0.04
24 5 0.21
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTCTCTCCCCTTAATAAAATAA
Found at i:269295 original size:8 final size:8
Alignment explanation
Indices: 269282--269306 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
269272 AACATCATTC
269282 ATCACAAA
1 ATCACAAA
269290 ATCACAAA
1 ATCACAAA
269298 ATCACAAA
1 ATCACAAA
269306 A
1 A
269307 ATTAATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (8 bp):
ATCACAAA
Found at i:275321 original size:21 final size:21
Alignment explanation
Indices: 275295--275349 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
275285 CCAATGACCT
*
275295 GTATCGATACATTCTTAATAA
1 GTATCGATACATTCTTAACAA
275316 GTATCGATACATTCTTAACAA
1 GTATCGATACATTCTTAACAA
275337 GTATCGATACATT
1 GTATCGATACATT
275350 TGGTCATGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (21 bp):
GTATCGATACATTCTTAACAA
Found at i:275373 original size:13 final size:13
Alignment explanation
Indices: 275355--275385 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
275345 ACATTTGGTC
275355 ATGTATCGATACA
1 ATGTATCGATACA
*
275368 ATGTATCGATACT
1 ATGTATCGATACA
275381 ATGTA
1 ATGTA
275386 ATATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:278842 original size:28 final size:28
Alignment explanation
Indices: 278807--279253 Score: 416
Period size: 28 Copynumber: 15.8 Consensus size: 28
278797 CGACCTTTTC
*
278807 CAAAGCCCACATGTTAGTGGCATCCTTT
1 CAAAGCCCACAAGTTAGTGGCATCCTTT
* * *
278835 CAAAGCCCACATGTCAATGGCATCCTTT
1 CAAAGCCCACAAGTTAGTGGCATCCTTT
*
278863 CAAAGCCCACATGTCTA-TGGCATCCTTT
1 CAAAGCCCACAAGT-TAGTGGCATCCTTT
* *
278891 CAAAGCCTACATGTCTA-TGGCATCCTTT
1 CAAAGCCCACAAGT-TAGTGGCATCCTTT
* *
278919 CAAAGCCCACATGTCAGTGGCA-CCTTTT
1 CAAAGCCCACAAGTTAGTGGCATCC-TTT
* *
278947 CAAAGTCCACAAGTTAGTGGAATCCTTT
1 CAAAGCCCACAAGTTAGTGGCATCCTTT
* * *
278975 CAAAGCCCACAAGTCAATGGAATCCTTT
1 CAAAGCCCACAAGTTAGTGGCATCCTTT
* * *
279003 CAAAGCCAACATGTTAGTGGCATCTTTT
1 CAAAGCCCACAAGTTAGTGGCATCCTTT
* * *
279031 CAAAGCCCACAAGTCAATGGCACCCTTT
1 CAAAGCCCACAAGTTAGTGGCATCCTTT
* * * *
279059 -TAAGCCCACACAAGTCAGTGGTACCCTTT
1 CAAAG-CC-CACAAGTTAGTGGCATCCTTT
* *
279088 CGAAGCCCACAAGTTAGTGGCACCCTTT
1 CAAAGCCCACAAGTTAGTGGCATCCTTT
* * *
279116 CGAAGCCCACAAGTCAGTGGCATACTTT
1 CAAAGCCCACAAGTTAGTGGCATCCTTT
** * *
279144 TGAAGCCTACAAGTTAGTGGCACCCTTT
1 CAAAGCCCACAAGTTAGTGGCATCCTTT
* * * *
279172 CAAAACCTACAAATCAGTGGCATCCTTT
1 CAAAGCCCACAAGTTAGTGGCATCCTTT
* * *
279200 TAAAGCCCACAAGTTAGTAGCAACCTTCT
1 CAAAGCCCACAAGTTAGTGGCATCCTT-T
*
279229 CTAAAGCTCACACAAGTTGGTGGCA
1 C-AAAGC-C-CACAAGTTAGTGGCA
279254 ACCCTTCTAA
Statistics
Matches: 353, Mismatches: 55, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
27 6 0.02
28 300 0.85
29 25 0.07
30 8 0.02
31 1 0.00
32 13 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
CAAAGCCCACAAGTTAGTGGCATCCTTT
Found at i:279976 original size:20 final size:20
Alignment explanation
Indices: 279951--280065 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
279941 TTTTCTCCAG
279951 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
279971 ATGTATCGATACATTATGTC-
1 ATGTATCGATACATT-TTTCA
* * ** *
279991 TTTTA-C-CCAGATTTTTCA
1 ATGTATCGATACATTTTTCA
* *** *
280009 ATGTATCAATACATGAATGA
1 ATGTATCGATACATTTTTCA
*
280029 ATGTATCGATACAATTTTCA
1 ATGTATCGATACATTTTTCA
280049 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
280066 GTCTTTTTAC
Statistics
Matches: 68, Mismatches: 23, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
17 3 0.04
18 7 0.10
19 2 0.03
20 53 0.78
21 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:281012 original size:20 final size:21
Alignment explanation
Indices: 280973--281012 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
280963 TAGCCTTTGA
* *
280973 CCATGCATTTTTTACTATGTT
1 CCATGAATTTTTAACTATGTT
280994 CCATGAATTTTTAAC-ATGT
1 CCATGAATTTTTAACTATGT
281013 CTAGCATCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
CCATGAATTTTTAACTATGTT
Found at i:283818 original size:13 final size:13
Alignment explanation
Indices: 283800--283825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
283790 CAATTTTTTG
283800 TGTATCGATACAT
1 TGTATCGATACAT
283813 TGTATCGATACAT
1 TGTATCGATACAT
283826 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:286631 original size:22 final size:22
Alignment explanation
Indices: 286605--286649 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
286595 CGAAATTGTT
286605 AAATTATTTGATTAAGGGGGAG
1 AAATTATTTGATTAAGGGGGAG
*
286627 AAATTTTTTGATTAAGGGGGAG
1 AAATTATTTGATTAAGGGGGAG
286649 A
1 A
286650 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (22 bp):
AAATTATTTGATTAAGGGGGAG
Found at i:287347 original size:13 final size:13
Alignment explanation
Indices: 287329--287354 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
287319 ACACCCAATA
287329 TGTATCGATACAT
1 TGTATCGATACAT
287342 TGTATCGATACAT
1 TGTATCGATACAT
287355 CCAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:287350 original size:32 final size:33
Alignment explanation
Indices: 287309--287371 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
287299 CCTTAACTGT
* *
287309 TTGTATCGATACA-CCCAATATGTATCGATACA
1 TTGTATCGATACATCCAAAAATGTATCGATACA
287341 TTGTATCGATACATCCAAAAATGTATCGATA
1 TTGTATCGATACATCCAAAAATGTATCGATA
287372 GATTAGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATCCAAAAATGTATCGATACA
Found at i:293215 original size:8 final size:8
Alignment explanation
Indices: 293202--293227 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
293192 ATTTGATTAA
293202 ATTTTGTG
1 ATTTTGTG
293210 ATTTTGTG
1 ATTTTGTG
293218 ATTTTGTG
1 ATTTTGTG
293226 AT
1 AT
293228 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:293608 original size:20 final size:20
Alignment explanation
Indices: 293573--293613 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
293563 CAAATTTCTT
293573 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
293595 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
293614 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:293907 original size:20 final size:21
Alignment explanation
Indices: 293875--293926 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
293865 CCCCTAGGCA
*
293875 GCACCCACCAGGTCGCGACC-G
1 GCACCC-CCAGGTCGCAACCAG
293896 GCACCCCCAGGTCGCAACCAG
1 GCACCCCCAGGTCGCAACCAG
293917 GCAGCCCCCA
1 GCA-CCCCCA
293927 CACTAGCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.21, C:0.50, G:0.25, T:0.04
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCAG
Found at i:295303 original size:22 final size:22
Alignment explanation
Indices: 295277--295321 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
295267 CGAAATTGTT
295277 AAATTATTTGATTAAGGGGGAG
1 AAATTATTTGATTAAGGGGGAG
*
295299 AAATTTTTTGATTAAGGGGGAG
1 AAATTATTTGATTAAGGGGGAG
295321 A
1 A
295322 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (22 bp):
AAATTATTTGATTAAGGGGGAG
Found at i:295895 original size:13 final size:13
Alignment explanation
Indices: 295877--295901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
295867 AAATTGCACA
295877 GTATCGATACATT
1 GTATCGATACATT
295890 GTATCGATACAT
1 GTATCGATACAT
295902 GACCAACTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:296045 original size:33 final size:32
Alignment explanation
Indices: 295982--296048 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
295972 CCTTAACTGT
* * * *
295982 TTGTATCGTTACACCCAATATGTATTGATACA
1 TTGTATCGATACACCAAAAATGTATCGATACA
296014 TTGTATCGATACATCCAAAAATGTATCGATACA
1 TTGTATCGATACA-CCAAAAATGTATCGATACA
296047 TT
1 TT
296049 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACACCAAAAATGTATCGATACA
Found at i:296942 original size:13 final size:13
Alignment explanation
Indices: 296924--296949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
296914 TACAGCAAGT
296924 ATGTATCGATACA
1 ATGTATCGATACA
296937 ATGTATCGATACA
1 ATGTATCGATACA
296950 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:299139 original size:21 final size:21
Alignment explanation
Indices: 299106--299150 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
299096 TTGCAAGTTG
*
299106 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
299128 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
299148 AAA
1 AAA
299151 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:300948 original size:15 final size:15
Alignment explanation
Indices: 300928--300958 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
300918 TAAAAATGTC
*
300928 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
300943 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
300958 C
1 C
300959 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:303055 original size:13 final size:13
Alignment explanation
Indices: 303037--303062 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
303027 ACATTTTTCT
303037 TTGTATCGATACA
1 TTGTATCGATACA
303050 TTGTATCGATACA
1 TTGTATCGATACA
303063 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:303226 original size:20 final size:20
Alignment explanation
Indices: 303183--303228 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
303173 AAATCTTTTG
303183 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
303204 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
303224 CAAAA
1 CAAAA
303229 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:305619 original size:13 final size:13
Alignment explanation
Indices: 305601--305626 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
305591 TACAGCAAGT
305601 ATGTATCGATACA
1 ATGTATCGATACA
305614 ATGTATCGATACA
1 ATGTATCGATACA
305627 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:418925 original size:17 final size:18
Alignment explanation
Indices: 418885--418925 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
418875 TTTTAAATTA
418885 TATAATTTATATTATCTT
1 TATAATTTATATTATCTT
418903 TA-AATTTATA-TAT-TT
1 TATAATTTATATTATCTT
418918 GTATAATT
1 -TATAATT
418926 AATTTCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.10
16 5 0.24
17 12 0.57
18 2 0.10
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATAATTTATATTATCTT
Found at i:421418 original size:13 final size:12
Alignment explanation
Indices: 421400--421461 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 12
421390 AACTATCATA
421400 TTAATATTAATTT
1 TTAATATT-ATTT
421413 TTAATATTA-TT
1 TTAATATTATTT
421424 TT-ATATT-TTAT
1 TTAATATTATT-T
*
421435 ATTATATTTTATTT
1 -TTA-ATATTATTT
421449 TT-ATATTATTT
1 TTAATATTATTT
421460 TT
1 TT
421462 GTGCGTGCGG
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
10 6 0.15
11 15 0.37
12 3 0.07
13 10 0.24
14 5 0.12
15 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTAATATTATTT
Found at i:421430 original size:7 final size:7
Alignment explanation
Indices: 421420--421455 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
421410 TTTTTAATAT
421420 TATTTTA
1 TATTTTA
421427 TATTTTA
1 TATTTTA
421434 TA--TTA
1 TATTTTA
421439 TATTTTA
1 TATTTTA
421446 T-TTTTA
1 TATTTTA
421452 TATT
1 TATT
421456 ATTTTTGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.19
6 6 0.23
7 15 0.58
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTTA
Found at i:421434 original size:12 final size:12
Alignment explanation
Indices: 421419--421460 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
421409 ATTTTTAATA
421419 TTATTTTATATT
1 TTATTTTATATT
*
421431 TTATATTATATT
1 TTATTTTATATT
*
421443 TTATTTT-TATA
1 TTATTTTATATT
421454 TTATTTT
1 TTATTTT
421461 TGTGCGTGCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTATTTTATATT
Found at i:425046 original size:14 final size:15
Alignment explanation
Indices: 425025--425054 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
425015 ACGGGTACTT
*
425025 ATTTTTTTTAAAAAA
1 ATTTTTTTGAAAAAA
425040 ATTTTTTTGAAAAAA
1 ATTTTTTTGAAAAAA
425055 GAGTTGGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTTTTTGAAAAAA
Found at i:427509 original size:20 final size:20
Alignment explanation
Indices: 427486--427537 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
427476 CAAAGCAAAT
*
427486 TGTATCGATACATATAGGAA
1 TGTATCGATACATATACGAA
* * **
427506 TGTATCCATACATTTACTTA
1 TGTATCGATACATATACGAA
427526 TGTATCGATACA
1 TGTATCGATACA
427538 ATTCTTTTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATATACGAA
Found at i:427612 original size:21 final size:21
Alignment explanation
Indices: 427565--427620 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
427555 TTGACATGGT
*
427565 CTTGTATCGATACATTTGAGA
1 CTTGTATCGATACATTTCAGA
* *
427586 CATGTATCGATACA-TTCACTA
1 CTTGTATCGATACATTTCA-GA
427607 CTTGTATCGATACA
1 CTTGTATCGATACA
427621 AATAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (21 bp):
CTTGTATCGATACATTTCAGA
Found at i:428277 original size:63 final size:63
Alignment explanation
Indices: 428200--428321 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 63
428190 CCAGCTTGTG
* * ** * * *
428200 TGGGCTTAGACTCGGGTGTCGCTAGTTTATGCGAGCTTTGACTTAGGTGCCGCCAACTTCGTT
1 TGGGCTTAGACTCGGGTGCCGCCAACTTATGCGAGCTTTAACTCAAGTGCCGCCAACTTCGTT
* *
428263 TGGGCTTAGACTCGGGTGCCGCCAACTTGTGCGAGCTTTAACTCAAGTGTCGCCAACTT
1 TGGGCTTAGACTCGGGTGCCGCCAACTTATGCGAGCTTTAACTCAAGTGCCGCCAACTT
428322 ATGCGAGCTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 50 1.00
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.30
Consensus pattern (63 bp):
TGGGCTTAGACTCGGGTGCCGCCAACTTATGCGAGCTTTAACTCAAGTGCCGCCAACTTCGTT
Found at i:428465 original size:31 final size:31
Alignment explanation
Indices: 428427--428546 Score: 105
Period size: 31 Copynumber: 3.7 Consensus size: 31
428417 TTGACTCGAA
*
428427 CTTAGGTGCCACCAGTTTGTGTGGGCTTTGG
1 CTTAGGTGCCACCAGCTTGTGTGGGCTTTGG
* * *
428458 CTTAGGTGTCACCAGCTTGTGCGAGCTTTGACTCAG
1 CTTAGGTGCCACCAGCTTGTGTGGGCTTTG-----G
* *
428494 ACTTAGGTGCCACCAGCTTGTGTAGGCTTTGA
1 -CTTAGGTGCCACCAGCTTGTGTGGGCTTTGG
* * *
428526 CTCAGGTGCCGCCAACTTGTG
1 CTTAGGTGCCACCAGCTTGTG
428547 CATGGCTTTG
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
31 44 0.62
36 1 0.01
37 26 0.37
ACGTcount: A:0.15, C:0.24, G:0.30, T:0.31
Consensus pattern (31 bp):
CTTAGGTGCCACCAGCTTGTGTGGGCTTTGG
Found at i:428508 original size:37 final size:37
Alignment explanation
Indices: 428458--428530 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
428448 TGGGCTTTGG
*
428458 CTTAGGTGTCACCAGCTTGTGCGA-GCTTTGACTCAGA
1 CTTAGGTGCCACCAGCTTGTG-GAGGCTTTGACTCAGA
*
428495 CTTAGGTGCCACCAGCTTGTGTAGGCTTTGACTCAG
1 CTTAGGTGCCACCAGCTTGTGGAGGCTTTGACTCAG
428531 GTGCCGCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (37 bp):
CTTAGGTGCCACCAGCTTGTGGAGGCTTTGACTCAGA
Found at i:428533 original size:68 final size:68
Alignment explanation
Indices: 428417--428547 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 68
428407 TAATTTGGAC
* * * * * *
428417 TTGACTCGAACTTAGGTGCCACCAGTTTGTGTGGGCTTTGGCTTAGGTGTCACCAGCTTGTGCGA
1 TTGACTCGAACTTAGGTGCCACCAGCTTGTGTAGGCTTTGACTCAGGTGCCACCAACTTGTGCGA
428482 GCT
66 GCT
*
428485 TTGACTC-AGACTTAGGTGCCACCAGCTTGTGTAGGCTTTGACTCAGGTGCCGCCAACTTGTGC
1 TTGACTCGA-ACTTAGGTGCCACCAGCTTGTGTAGGCTTTGACTCAGGTGCCACCAACTTGTGC
428548 ATGGCTTTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 1 0.02
68 54 0.98
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (68 bp):
TTGACTCGAACTTAGGTGCCACCAGCTTGTGTAGGCTTTGACTCAGGTGCCACCAACTTGTGCGA
GCT
Found at i:428566 original size:32 final size:31
Alignment explanation
Indices: 428493--428559 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
428483 CTTTGACTCA
* * *
428493 GACTTAGGTGCCACCAGCTTGTGTAGGCTTT
1 GACTCAGGTGCCACCAACTTGTGCAGGCTTT
*
428524 GACTCAGGTGCCGCCAACTTGTGCATGGCTTT
1 GACTCAGGTGCCACCAACTTGTGCA-GGCTTT
428556 GACT
1 GACT
428560 AGGGTGCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.30
Consensus pattern (31 bp):
GACTCAGGTGCCACCAACTTGTGCAGGCTTT
Found at i:428920 original size:40 final size:40
Alignment explanation
Indices: 428855--428948 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
428845 CTTGCTTCTT
428855 GAAGA-CAAAGGAAATGAAAGAAAGCATGTCCTGCTCCTC
1 GAAGACCAAAGGAAATGAAAGAAAGCATGTCCTGCTCCTC
* *
428894 -AAGGACCAAAAGAAATGAAAGAAAGCATGTCCTGCTCTTC
1 GAA-GACCAAAGGAAATGAAAGAAAGCATGTCCTGCTCCTC
428934 GAAGACCAAAGGAAA
1 GAAGACCAAAGGAAA
428949 AATATGTATC
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.04
39 2 0.04
40 43 0.88
41 2 0.04
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (40 bp):
GAAGACCAAAGGAAATGAAAGAAAGCATGTCCTGCTCCTC
Found at i:429148 original size:268 final size:268
Alignment explanation
Indices: 428729--429407 Score: 737
Period size: 268 Copynumber: 2.5 Consensus size: 268
428719 ATGCGTTTTG
* * *
428729 CTCCTTGAGGACAAAGAGAAAAGAAGTGTGTCTTACGCTTTGAGGACAAAGGAAAAAAGGA-AAT
1 CTCCTTGAGGACAAAG-GAAAAGAAGTGTGTCTTACTC-TTCAGGATAAAGG-AAAAAGGAGAAT
* * * * * * *
428793 -AAAGTGGGTCTTGCTCATTGAAGACAAAGGAAAAAGG-AAAAAAGGAATACGTCTTGCTTCTTG
63 GAAA-TAGGTCTTGCTCCTTGAGGACAAAGGAAAAAGGAAAAAAAAGAATGCGTCTTACTCCTTG
* * *
428856 AAGACAAA-GGAAATGAAAGAAAGCATGTCCTGCTCCTCAAGGACCAAAAGAAATGAAAGAAAGC
127 AGGACAAAGGGAAAAGAAAGAAAGCATGTCCTGCTCCTCAAGGACCAAAAGAAAAGAAAGAAAGC
* *
428920 ATGTCCTGCT-CTTCGAA-GACCAAAGGAAAAATATGTATCCTGCTTATTGAGGACA-ATAAAAA
192 ATGTCCTGCTCCTT--AAGGACCAAAGGAAAAATATGTATCCTGCTCATTAAGGACAGA-AAAAA
*
428982 ATGAAGTGGGTCCTA
254 ATGAAATGGGTCCTA
* * *
428997 CTCCTTGAGGATAAAGGAAAAAAAGTGTATCTTACTCTTCATGGATAAAGGAAAAAGGAGAATGA
1 CTCCTTGAGGACAAAGGAAAAGAAGTGTGTCTTACTCTTCA-GGATAAAGGAAAAAGGAGAATGA
* * * * *
429062 AATAGGTTTTGCTCCTTGAGGACATA-GCAAAAGGAAAAAAAAGAATGGGTTTTACTCCTTGAGG
65 AATAGGTCTTGCTCCTTGAGGACAAAGGAAAAAGGAAAAAAAAGAATGCGTCTTACTCCTTGAGG
* * * ** ** *
429126 ACAAAGGGAAAAGAAGGAAAGCATGTCTTGCTCTTTGAGGACCAAGGGAAAAGAAGGAAAGCATG
130 ACAAAGGGAAAAGAAAGAAAGCATGTCCTGCTCCTCAAGGACCAAAAGAAAAGAAAGAAAGCATG
* * * *
429191 TTCTGCTCCTTAAGGACCAAAGGAAAAATGTGTGTCTTGCTCATTAAGGACAGAAAAAAATGAAA
195 TCCTGCTCCTTAAGGACCAAAGGAAAAATATGTATCCTGCTCATTAAGGACAGAAAAAAATGAAA
429256 TGGGTCCTA
260 TGGGTCCTA
* * * *** * * * *
429265 CTCCTTAAAGACAAAGGAAAAGGAGCACGCCCTCCTCTTCAAGGATAAAGGAAAAATGAGAATGA
1 CTCCTTGAGGACAAAGGAAAAGAAGTGTGTCTTACTCTTC-AGGATAAAGGAAAAAGGAGAATGA
* * * * *
429330 AATAAGTCTTGCTCCTTGAGGACAAAGGAAAAAGGAGAAACAA-AATGTGTCCTACTCCTTGAGG
65 AATAGGTCTTGCTCCTTGAGGACAAAGGAAAAAGGAAAAAAAAGAATGCGTCTTACTCCTTGAGG
* *
429394 ATAAAGGAAAAAGA
130 ACAAAGGGAAAAGA
429408 GAAAAAAATG
Statistics
Matches: 341, Mismatches: 60, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
266 18 0.05
267 77 0.23
268 228 0.67
269 18 0.05
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (268 bp):
CTCCTTGAGGACAAAGGAAAAGAAGTGTGTCTTACTCTTCAGGATAAAGGAAAAAGGAGAATGAA
ATAGGTCTTGCTCCTTGAGGACAAAGGAAAAAGGAAAAAAAAGAATGCGTCTTACTCCTTGAGGA
CAAAGGGAAAAGAAAGAAAGCATGTCCTGCTCCTCAAGGACCAAAAGAAAAGAAAGAAAGCATGT
CCTGCTCCTTAAGGACCAAAGGAAAAATATGTATCCTGCTCATTAAGGACAGAAAAAAATGAAAT
GGGTCCTA
Found at i:429173 original size:40 final size:40
Alignment explanation
Indices: 429116--429217 Score: 152
Period size: 40 Copynumber: 2.5 Consensus size: 40
429106 ATGGGTTTTA
*
429116 CTCCTTGAGGACAAAGGGAAAAGAAGGAAAGCATG-TCTTG
1 CTCCTTGAGGACCAAGGGAAAAGAAGGAAAGCATGTTC-TG
*
429156 CTCTTTGAGGACCAAGGGAAAAGAAGGAAAGCATGTTCTG
1 CTCCTTGAGGACCAAGGGAAAAGAAGGAAAGCATGTTCTG
* *
429196 CTCCTTAAGGACCAAAGGAAAA
1 CTCCTTGAGGACCAAGGGAAAA
429218 ATGTGTGTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 54 0.96
41 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (40 bp):
CTCCTTGAGGACCAAGGGAAAAGAAGGAAAGCATGTTCTG
Found at i:429358 original size:42 final size:41
Alignment explanation
Indices: 429306--429441 Score: 137
Period size: 43 Copynumber: 3.2 Consensus size: 41
429296 CTCCTCTTCA
** * *
429306 AGGATAAAGGAAAAATGAGAATGAAATAAGTCTTGCTCCTTG
1 AGGATAAAGGAAAAA-GAGAACAAAATAAGTCCTACTCCTTG
* **
429348 AGGACAAAGGAAAAAGGAGAAACAAAATGTGTCCTACTCCTTG
1 AGGATAAAGGAAAAA-GAG-AACAAAATAAGTCCTACTCCTTG
* ** *
429391 AGGATAAAGGAAAAAGAGAAAAAAATGTGTCCTACTCTTTG
1 AGGATAAAGGAAAAAGAGAACAAAATAAGTCCTACTCCTTG
*
429432 AGGACAAAGG
1 AGGATAAAGG
429442 GTGTTGAGTT
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
41 30 0.37
42 20 0.25
43 31 0.38
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (41 bp):
AGGATAAAGGAAAAAGAGAACAAAATAAGTCCTACTCCTTG
Found at i:429433 original size:41 final size:42
Alignment explanation
Indices: 429341--429441 Score: 168
Period size: 41 Copynumber: 2.4 Consensus size: 42
429331 ATAAGTCTTG
429341 CTCCTTGAGGACAAAGGAAAAAGGAGAAACAAAATGTGTCCTA
1 CTCCTTGAGGACAAAGGAAAAAGGAGAAA-AAAATGTGTCCTA
*
429384 CTCCTTGAGGATAAAGGAAAAA-GAGAAAAAAATGTGTCCTA
1 CTCCTTGAGGACAAAGGAAAAAGGAGAAAAAAATGTGTCCTA
*
429425 CTCTTTGAGGACAAAGG
1 CTCCTTGAGGACAAAGG
429442 GTGTTGAGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 28 0.51
42 6 0.11
43 21 0.38
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (42 bp):
CTCCTTGAGGACAAAGGAAAAAGGAGAAAAAAATGTGTCCTA
Found at i:433691 original size:20 final size:20
Alignment explanation
Indices: 433668--433740 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
433658 ACAATTCAAA
433668 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
433688 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
433709 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
433729 GTATCGATACAT
1 GTATCGATACAT
433741 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:433712 original size:21 final size:21
Alignment explanation
Indices: 433686--433761 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
433676 ACATGTTGCA
433686 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
433707 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
433727 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
433748 TTGTATCGATACAT
1 ATGTATCGATACAT
433762 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:433719 original size:41 final size:41
Alignment explanation
Indices: 433668--433761 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
433658 ACAATTCAAA
*
433668 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
433709 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
433750 GTATCGATACAT
1 GTATCGATACAT
433762 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:433818 original size:13 final size:13
Alignment explanation
Indices: 433800--433825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
433790 TACAGCAAGT
433800 ATGTATCGATACA
1 ATGTATCGATACA
433813 ATGTATCGATACA
1 ATGTATCGATACA
433826 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:437907 original size:15 final size:15
Alignment explanation
Indices: 437887--437917 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
437877 TAAAAATGTC
*
437887 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
437902 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
437917 C
1 C
437918 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:440004 original size:20 final size:20
Alignment explanation
Indices: 439925--440004 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
439915 AATGTCCAAA
*
439925 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
439945 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
439970 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
439990 TTGTATCGATACATT
1 ATGTATCGATACATT
440005 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:440008 original size:13 final size:13
Alignment explanation
Indices: 439990--440028 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
439980 ACATTTTTCT
439990 TTGTATCGATACA
1 TTGTATCGATACA
440003 TTGTATCGATACA
1 TTGTATCGATACA
*
440016 CTGTATCGATACA
1 TTGTATCGATACA
440029 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:442494 original size:20 final size:20
Alignment explanation
Indices: 442471--442543 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
442461 ACAATTCAAA
442471 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
442491 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
442512 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
442532 GTATCGATACAT
1 GTATCGATACAT
442544 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:442515 original size:21 final size:21
Alignment explanation
Indices: 442489--442564 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
442479 ACATGTTGCA
442489 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
442510 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
442530 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
442551 TTGTATCGATACAT
1 ATGTATCGATACAT
442565 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:442522 original size:41 final size:41
Alignment explanation
Indices: 442471--442564 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
442461 ACAATTCAAA
*
442471 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
442512 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
442553 GTATCGATACAT
1 GTATCGATACAT
442565 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:442621 original size:13 final size:13
Alignment explanation
Indices: 442603--442628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
442593 TACAGCAAGT
442603 ATGTATCGATACA
1 ATGTATCGATACA
442616 ATGTATCGATACA
1 ATGTATCGATACA
442629 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:459794 original size:20 final size:20
Alignment explanation
Indices: 459766--459839 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
459756 GTAAAATGAT
459766 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* * *
459786 AGAACGTATTGATACATTCA
1 AGAATGTATCGATACATTGA
* *
459806 TA-CATGTATCGATACGTTGA
1 -AGAATGTATCGATACATTGA
*
459826 AAAATGTATCGATA
1 AGAATGTATCGATA
459840 AATCTAGGTA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:459882 original size:48 final size:48
Alignment explanation
Indices: 459828--459921 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
459818 TACGTTGAAA
459828 AATGTATCGATAAATCTAGGTAAAAGATAGAATGTATCCATACATTTT
1 AATGTATCGATAAATCTAGGTAAAAGATAGAATGTATCCATACATTTT
* * **
459876 AATGTATCGATACATCTGGGTAAAAGATAGAATGTATTGATACATT
1 AATGTATCGATAAATCTAGGTAAAAGATAGAATGTATCCATACATT
459922 GAAAAACGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (48 bp):
AATGTATCGATAAATCTAGGTAAAAGATAGAATGTATCCATACATTTT
Found at i:461102 original size:56 final size:56
Alignment explanation
Indices: 460903--461109 Score: 236
Period size: 56 Copynumber: 3.6 Consensus size: 56
460893 CCAGCGACAT
* * * * **
460903 TGGG-TTTAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTG
1 TGGGCTTTAAAAGGG-TGCCACTAAC-T-TGTGGGC-TTCGA-AAGGGTGCCACTGACTTG
* *** * * *
460963 TGGGCTTTAAAAGGATGCCACTGGTTTATGAGTTTCGAAAGGGTGCCACTGACTTG
1 TGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTCGAAAGGGTGCCACTGACTTG
*
461019 TGGGCTTCAAAAGGGTGCCACTAACTTGTGGGCTTCGAAAGGGTGCCACTGACTTG
1 TGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTCGAAAGGGTGCCACTGACTTG
461075 TGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTT
1 TGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTT
461110 TGATAGAGGT
Statistics
Matches: 124, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
56 97 0.78
57 4 0.03
58 4 0.03
59 1 0.01
60 10 0.08
61 8 0.06
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (56 bp):
TGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTCGAAAGGGTGCCACTGACTTG
Found at i:461110 original size:28 final size:28
Alignment explanation
Indices: 460903--461110 Score: 204
Period size: 28 Copynumber: 7.3 Consensus size: 28
460893 CCAGCGACAT
* *
460903 TGGG-TTTAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAAAAGGG-TGCCACTAAC-T-TG
* *
460933 TGGGCTTTAGAGAAGGTTGCCACCAACTTG
1 TGGGCTTTA-A-AAGGGTGCCACTAACTTG
* *** *
460963 TGGGCTTTAAAAGGATGCCACTGGTTTA
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
* * *
460991 TGAG-TTTCGAAAGGGTGCCACTGACTTG
1 TGGGCTTT-AAAAGGGTGCCACTAACTTG
*
461019 TGGGCTTCAAAAGGGTGCCACTAACTTG
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
** *
461047 TGGGCTTCGAAAGGGTGCCACTGACTTG
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
461075 TGGGCTTTAAAAGGGTGCCACTAACTTG
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
461103 TGGGCTTT
1 TGGGCTTT
461111 GATAGAGGTT
Statistics
Matches: 150, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
27 3 0.02
28 110 0.73
29 3 0.02
30 15 0.10
31 5 0.03
32 10 0.07
33 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
TGGGCTTTAAAAGGGTGCCACTAACTTG
Found at i:461455 original size:19 final size:18
Alignment explanation
Indices: 461404--461493 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
461394 TTGAATTCCA
461404 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
* *
461421 ATTCAGTAAATGTATCGATAC
1 A-TAAGT--TTGTATCGATAC
461442 ATAAGTGTTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
461461 --AA---TGTATCGATAC
1 ATAAGTTTGTATCGATAC
461474 ATAAGTTTTGTATCGATAC
1 ATAAG-TTTGTATCGATAC
461493 A
1 A
461494 ATGTATTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 3 0.05
18 2 0.03
19 24 0.41
20 4 0.07
21 12 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:461468 original size:13 final size:13
Alignment explanation
Indices: 461450--461474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
461440 ACATAAGTGT
461450 TGTATCGATACAA
1 TGTATCGATACAA
461463 TGTATCGATACA
1 TGTATCGATACA
461475 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:461470 original size:32 final size:32
Alignment explanation
Indices: 461429--461499 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
461419 ACATTCAGTA
461429 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
461461 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
461493 AATGTAT
1 AATGTAT
461500 TGCTAGGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:463954 original size:51 final size:50
Alignment explanation
Indices: 463888--464072 Score: 228
Period size: 51 Copynumber: 3.6 Consensus size: 50
463878 TTAAGTTTCT
* * *
463888 CAATTGTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAATAT
1 CAATT-TTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACAC
* *
463939 TAATTTCTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATTT-TCACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACAC
* *
463990 CAATTTTC-CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCAC---AATCGGGGATACTCCAACCCCGGTTTTATTTCC-AAAACAC
*
464043 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAA-TTTTCACAATCGGGGATACTCCAACC
464073 TCGTTATTTC
Statistics
Matches: 116, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
49 1 0.01
50 3 0.03
51 49 0.42
52 47 0.41
53 10 0.09
54 5 0.04
55 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (50 bp):
CAATTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACAC
Found at i:464091 original size:28 final size:28
Alignment explanation
Indices: 464055--464159 Score: 120
Period size: 28 Copynumber: 3.8 Consensus size: 28
464045 ATTTTTCACA
* * **
464055 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
464083 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
***
464111 CGAGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
***
464139 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
464160 GCTTTATTTC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:464206 original size:79 final size:79
Alignment explanation
Indices: 464115--464347 Score: 263
Period size: 79 Copynumber: 2.9 Consensus size: 79
464105 TACCTCCGAG
** **
464115 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATTG
*
464180 ATTTCTCATAATTA
66 ATTTCTCATAACTA
** * * *
464194 GGGATACTCCAACCCTATTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATCATC
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAAT-ATT
* * *
464258 GATTTTTCACAACTG
65 GATTTCTCATAACTA
* * * *
464273 GGGATACTCCAACCCCGTTATTTTCAAGGGGACACTCCAACCCC-ATTATTATCTCCAAAATATT
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT-TTATTTCCAAAATATT
*
464337 AAATTTCTCAT
65 -GATTTCTCAT
464348 CGAGACACAT
Statistics
Matches: 125, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
78 6 0.05
79 109 0.87
80 10 0.08
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.31
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATATTG
ATTTCTCATAACTA
Found at i:465378 original size:28 final size:28
Alignment explanation
Indices: 465306--465527 Score: 264
Period size: 28 Copynumber: 7.9 Consensus size: 28
465296 GTTAAAGGGG
* *
465306 TGCCACTGACTTGTGGGCTTTGAGAAAGA
1 TGCCACTGACTTATGGGCTTTGA-AAGGA
* * * * *
465335 TGCCATTAACTCATGGGCTTTGAAAAGT
1 TGCCACTGACTTATGGGCTTTGAAAGGA
**
465363 TGCCACTGACTTATGGGCACTGAAAGGA
1 TGCCACTGACTTATGGGCTTTGAAAGGA
** *
465391 TGCCACTGAGATGTGGGCTTTGAAAGGA
1 TGCCACTGACTTATGGGCTTTGAAAGGA
* *
465419 TGCCATTGACTCATGGGCTTTGAAAGGA
1 TGCCACTGACTTATGGGCTTTGAAAGGA
*
465447 TGCCACTGACATATGGGCTTTGAAAGGA
1 TGCCACTGACTTATGGGCTTTGAAAGGA
*
465475 TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTATGGGCTTTGAAAGGA
* * *
465503 TGCCATTGACTTGTTGGCTTTGAAA
1 TGCCACTGACTTATGGGCTTTGAAA
465528 AGGGTCGTAT
Statistics
Matches: 164, Mismatches: 29, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
28 145 0.88
29 19 0.12
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTATGGGCTTTGAAAGGA
Found at i:465432 original size:84 final size:84
Alignment explanation
Indices: 465306--465529 Score: 331
Period size: 84 Copynumber: 2.7 Consensus size: 84
465296 GTTAAAGGGG
* * *
465306 TGCCACTGACTTGTGGGCTTTGAGAAAGATGCCATTAACTCATGGGCTTTGAAAAGTTGCCACTG
1 TGCCACTGACTTGTGGGCTTTGA-AAGGATGCCATTGACTCATGGGCTTTGAAAAGATGCCACTG
*
465371 ACTTATGGGCACTGAAAGGA
65 ACATATGGGCACTGAAAGGA
** *
465391 TGCCACTGAGATGTGGGCTTTGAAAGGATGCCATTGACTCATGGGCTTTGAAAGGATGCCACTGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTGACTCATGGGCTTTGAAAAGATGCCACTGA
**
465456 CATATGGGCTTTGAAAGGA
66 CATATGGGCACTGAAAGGA
** *
465475 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTTGGCTTTGAAAAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTGACTCATGGGCTTTGAAAAG
465530 GGTCGTATTG
Statistics
Matches: 124, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
84 103 0.83
85 21 0.17
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (84 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTGACTCATGGGCTTTGAAAAGATGCCACTGA
CATATGGGCACTGAAAGGA
Found at i:466833 original size:16 final size:15
Alignment explanation
Indices: 466812--466847 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
466802 TGGACCCTTC
466812 TTTTTTTGTTTGTCT
1 TTTTTTTGTTTGTCT
466827 ATTTTTTTGTTTGTCT
1 -TTTTTTTGTTTGTCT
466843 TTTTT
1 TTTTT
466848 GGTACGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.03, C:0.06, G:0.11, T:0.81
Consensus pattern (15 bp):
TTTTTTTGTTTGTCT
Found at i:471810 original size:20 final size:20
Alignment explanation
Indices: 471785--471861 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
471775 GCAAAAAGAC
471785 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
471805 AGAATGTATCGATACATTTGT
1 AGAATGTATCGATACA-TTGA
*
471826 A-CATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
471845 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
471862 CTGGGTACTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.08
20 43 0.84
21 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:478985 original size:41 final size:42
Alignment explanation
Indices: 478935--479297 Score: 299
Period size: 41 Copynumber: 8.4 Consensus size: 42
478925 ACCCTTTAAA
* *
478935 GACAAAGGAAAAAGGAAATTAGA-TGTGTCCTGCTTTTTGAG
1 GACAAAGGAAAAAGGAAATTAAAGTGTGTCCTGCTCTTTGAG
* * *
478976 GATAAAGGAAAAAGGAGAA-TAAAGTGCGTCCTGCTCCTTGAG
1 GACAAAGGAAAAAGGA-AATTAAAGTGTGTCCTGCTCTTTGAG
* * *
479018 AAATAGAAGGGAAAAAAAGGAAA-TGAAGTGTGTCCTGCTCTTTGAG
1 -GACA-AA-GG--AAAAAGGAAATTAAAGTGTGTCCTGCTCTTTGAG
*
479064 GACAAAGGAAAAAGGAAATTAAA-TGTGTCCTGCTTTTTGAG
1 GACAAAGGAAAAAGGAAATTAAAGTGTGTCCTGCTCTTTGAG
* * *
479105 GACAAAGGAAAAAGAAAAATAAAGTGCGTCCTGCTCTTTGAG
1 GACAAAGGAAAAAGGAAATTAAAGTGTGTCCTGCTCTTTGAG
* * **
479147 AACTAAAAAGGAAAAGAAGGAAA-TGAAGTGCATCCTGCTCTTTGAG
1 GAC---AAAGG-AAA-AAGGAAATTAAAGTGTGTCCTGCTCTTTGAG
* ** ** *
479193 GACAAAGGAAAAAAGAAAAAAAAG-GCATCTTGCTCTTTGAG
1 GACAAAGGAAAAAGGAAATTAAAGTGTGTCCTGCTCTTTGAG
* * *
479234 GACAAAAGGGAAAAGAAAGAAATGAAA-TGTGTCCCGCTCTTTGAG
1 GAC-AAA-GG-AAA-AAGGAAATTAAAGTGTGTCCTGCTCTTTGAG
*
479279 GACAAAGGAGAGAAGGAAA
1 GACAAAGGA-AAAAGGAAA
479298 AGACGTCCTA
Statistics
Matches: 267, Mismatches: 34, Indels: 41
0.78 0.10 0.12
Matches are distributed among these distances:
41 91 0.34
42 54 0.20
43 15 0.06
44 10 0.04
45 35 0.13
46 48 0.18
47 14 0.05
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (42 bp):
GACAAAGGAAAAAGGAAATTAAAGTGTGTCCTGCTCTTTGAG
Found at i:479079 original size:129 final size:129
Alignment explanation
Indices: 478917--479251 Score: 445
Period size: 129 Copynumber: 2.6 Consensus size: 129
478907 AGAAGAAAAA
* * * * * *
478917 TGCATCCTACCCTTTAAAGACAAAGGAAAAAGGAAATTAGATGTGTCCTGCTTTTTGAGGATAAA
1 TGCATCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTGTCCTGCTTTTTGAGGACAAA
* * * *
478982 GGAAAAAGGAGAATAAAGTGCGTCCTGCTCCTTGAGAAATAGAAGGGAAAAAAAGGAAATGAAG
66 GGAAAAAGAAAAATAAAGTGCGTCCTGCTCCTTGAGAAATAAAAAGGAAAAAAAGGAAATGAAG
**
479046 TGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTGTCCTGCTTTTTGAGGACAAA
1 TGCATCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTGTCCTGCTTTTTGAGGACAAA
* * *
479111 GGAAAAAGAAAAATAAAGTGCGTCCTGCTCTTTGAGAACTAAAAAGGAAAAGAAGGAAATGAAG
66 GGAAAAAGAAAAATAAAGTGCGTCCTGCTCCTTGAGAAATAAAAAGGAAAAAAAGGAAATGAAG
* ** * ** * *
479175 TGCATCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAGGCATCTTGCTCTTTGAGGACAAA
1 TGCATCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTGTCCTGCTTTTTGAGGAC-AA
*
479240 AGGGAAAAGAAA
65 AGGAAAAAGAAA
479252 GAAATGAAAT
Statistics
Matches: 179, Mismatches: 26, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
129 166 0.93
130 13 0.07
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (129 bp):
TGCATCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTGTCCTGCTTTTTGAGGACAAA
GGAAAAAGAAAAATAAAGTGCGTCCTGCTCCTTGAGAAATAAAAAGGAAAAAAAGGAAATGAAG
Found at i:479123 original size:88 final size:87
Alignment explanation
Indices: 478961--479287 Score: 305
Period size: 88 Copynumber: 3.8 Consensus size: 87
478951 AATTAGATGT
* * * * *
478961 GTCCTGCTTTTTGAGGA-TAAAGG-AAA-AAGGAGAAT-AAAGTGCGTCCTGCTCCTTGAGAAAT
1 GTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGA-AATGAAA-TGCGTCCTGCTCTTTGAG-GAC
* ** *
479022 AGAAGGGAAAAAAAGGAAATGAAGTGT
63 A-AAGGAAAAAAAAAAAAAT-AAGTGC
* * *
479049 GTCCTGCTCTTTGAGGAC-AAAGG-AAA-AAGGAAATTAAATGTGTCCTGCTTTTTGAGGACAAA
1 GTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAA
* *
479111 GGAAAAAGAAAAATA-AAGTGC
66 GGAAAAAAAAAAAAATAAGTGC
* * *
479132 GTCCTGCTCTTTGAGAACTAAAAAGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACA
1 GTCCTGCTCTTTGAGGAC--AAAAGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACA
*
479197 AAGGAAAAAAGAAAAAA-AAG-GC
64 AAGGAAAAAAAAAAAAATAAGTGC
* * * * *
479219 ATCTTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAATGTGTCCCGCTCTTTGAGGACAA
1 GTCCTGCTCTTTGAGGACAAAA-GGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAA
479284 AGGA
65 AGGA
479288 GAGAAGGAAA
Statistics
Matches: 202, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
83 22 0.11
85 16 0.08
86 48 0.24
87 38 0.19
88 78 0.39
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.21
Consensus pattern (87 bp):
GTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAA
GGAAAAAAAAAAAAATAAGTGC
Found at i:479273 original size:86 final size:87
Alignment explanation
Indices: 479050--479287 Score: 317
Period size: 86 Copynumber: 2.8 Consensus size: 87
479040 ATGAAGTGTG
* *
479050 TCCTGCTCTTTGAGGAC-AAAGG-AAA-AAGGAAATTAAATGTGTCCTGCTTTTTGAGGACAAAG
1 TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAG
*
479112 G-AAAAAGAAAAATAAAGTGCG
66 GAAAAAAGAAAAATAAAGTGCA
* * **
479133 TCCTGCTCTTTGAGAACTAAAAAGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAA
1 TCCTGCTCTTTGAGGAC--AAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAA
479198 AGGAAAAAAGAAAAA-AAAG-GCA
64 AGGAAAAAAGAAAAATAAAGTGCA
* * *
479220 TCTTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAATGTGTCCCGCTCTTTGAGGACAAA
1 TCCTGCTCTTTGAGGACAAAA-GGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAA
479285 GGA
65 GGA
479288 GAGAAGGAAA
Statistics
Matches: 134, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
83 16 0.12
85 4 0.03
86 46 0.34
87 20 0.15
88 37 0.28
89 11 0.08
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (87 bp):
TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAG
GAAAAAAGAAAAATAAAGTGCA
Found at i:479286 original size:129 final size:127
Alignment explanation
Indices: 478962--479297 Score: 365
Period size: 129 Copynumber: 2.6 Consensus size: 127
478952 ATTAGATGTG
* * * * * *
478962 TCCTGCTTTTTGAGGATAAAGGAAAAAGGAGAATAAAGTGCGTCCTGCTCCTTGAGAA-ATAGAA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGAAAAATAAAGTGCGTCCCGCTCTTTGAGAACA-A-AA
* ** * ** * **
479026 GGGAAAAAAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTG
64 -GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAGGCA
* *
479091 TCCTGCTTTTTGAGGACAAAGGAAAAAGAAAAATAAAGTGCGTCCTGCTCTTTGAGAACTAAAAA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGAAAAATAAAGTGCGTCCCGCTCTTTGAGAAC--AAAA
479156 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAGGCA
64 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAGGCA
* * * *
479220 TCTTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAA-TGTGTCCCGCTCTTTGAGGAC-A
1 TCCTGCTCTTTGAGGAC-AAAGGAAAAAG-AA-AAAT-AAAGTGCGTCCCGCTCTTTGAGAACAA
*
479283 AAGG-AGAGAAGGAAA
62 AAGGAAAAGAAGGAAA
479298 AGACGTCCTA
Statistics
Matches: 180, Mismatches: 20, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
128 10 0.06
129 129 0.72
130 12 0.07
131 3 0.02
132 23 0.13
133 3 0.02
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (127 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAGAAAAATAAAGTGCGTCCCGCTCTTTGAGAACAAAAGG
AAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAGGCA
Found at i:479436 original size:122 final size:122
Alignment explanation
Indices: 479291--480543 Score: 1625
Period size: 122 Copynumber: 10.3 Consensus size: 122
479281 CAAAGGAGAG
* * * *
479291 AAGGAAAAGACGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAA-TTCATGTGGGTTTTGAAAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTT-GTGTGGGCTTT-AAAA
* *
479355 -GAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGCA
64 GGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AA
* * * * *
479414 AA-GAAAAAGCATCCTACTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * * * *
479478 AGAAGGGGTCCTGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAG
66 AAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
479535 AAGGAGAAA-GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAG
1 AAGGA-AAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
479599 GAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGTCTTTAA
65 GAAAAGGCGTCCTACTCTTTGAGGACTAAAAA-GTGCCACCAACTTGTGTGGGCTTTAA
*
479658 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
479723 GAAAAGGCATCCTACTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
65 GAAAAGGCGTCCTACTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
479782 AAGGAAAAGGCATCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAAAAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* ** *
479847 GAAAAGACGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGTTTTGAA
65 GAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AA
* * *
479906 AA-GAAAAGGCATCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
* * * ** *
479969 GAAAAAGCATCCTACTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAA
65 GAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * * *
480027 AAGGAGAAGGGGTCCTGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGG
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * *
480092 AGAAA-ACATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAA
66 A-AAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
480149 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAATTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
480214 GAAAAGGCGTCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAA
65 GAAAAGGCGTCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * *
480273 AAAGAAAAGACGTCCTACTCTTTGAAGACT-GAAGGTACCACCAACTTGTGTGGGCTTTAAAAGG
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
480337 AAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
66 AAAAGGCGTCCTACTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
480395 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
480460 GAAAAGGCGTCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGACTTT--
65 GAAAAGGCGTCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
480517 ---G-AAAGGCGTCCTACTCTTTGAGAACTA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTA
480544 AAGGGTGAAA
Statistics
Matches: 1008, Mismatches: 102, Indels: 45
0.87 0.09 0.04
Matches are distributed among these distances:
118 24 0.02
119 1 0.00
121 13 0.01
122 481 0.48
123 176 0.17
124 308 0.31
125 5 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (122 bp):
AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
AAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:479649 original size:62 final size:61
Alignment explanation
Indices: 479291--480545 Score: 1593
Period size: 62 Copynumber: 20.5 Consensus size: 61
479281 CAAAGGAGAG
* * *
479291 AAGGAAAAGACGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAA-TTCATGTGGGTTTTGAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTT-GTGTGGGCTTT-AA
* *
479353 AA-GAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGCA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AA
* * * ** *
479414 AA-GAAAAAGCATCCTACTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * * *
479474 AAGGAGAAGGGGTCCTGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAG
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
479535 AAGGAGAAA-GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGA-AAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
479596 GAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGTCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAA-GTGCCACCAACTTGTGTGGGCTTTAA
* *
479658 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
479720 AAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
479782 AAGGAAAAGGCATCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * ** *
479844 AAAGAAAAGACGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGTTTTGAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AA
* * * *
479906 AA-GAAAAGGCATCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AA
* * * ** *
479967 AA-GAAAAAGCATCCTACTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
480027 AAGGAGAAGGGGTCCTGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * *
480088 AAGGAGAAA-ACATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGA-AAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
480149 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAATTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
480211 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
480273 AAAGAAAAGACGTCCTACTCTTTGAAGACT-GAAGGTACCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
480333 AAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
480395 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
480457 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGACTTT--
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
480517 ---G-AAAGGCGTCCTACTCTTTGAGAACTAAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAA
480546 GGGTGAAAGG
Statistics
Matches: 1053, Mismatches: 123, Indels: 41
0.87 0.10 0.03
Matches are distributed among these distances:
55 1 0.00
56 24 0.02
57 1 0.00
60 63 0.06
61 474 0.45
62 486 0.46
63 4 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (61 bp):
AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:480222 original size:553 final size:551
Alignment explanation
Indices: 479294--480521 Score: 2127
Period size: 553 Copynumber: 2.2 Consensus size: 551
479284 AGGAGAGAAG
*
479294 GAAAAGACGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAATTCATGTGGGTTTTGAAAAGAAA
1 GAAAAGACGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGTTTTGAAAAGAAA
*
479359 AGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGC
66 AGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGC
479424 ATCCTACTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGGGTCC
131 ATCCTACTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGGGTCC
* *
479489 TGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAGAAGGAGAAAGCATCCTGCT
196 TGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAAAACATCCTGCT
*
479554 CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAAGGCGTCCTACTCTTT
261 CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTT
* *
479619 GAGGACTAAAAAGGTGCCACCAACTTGTGTGGTCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAG
326 GAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAG
* * * *
479684 GACTAGCAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGAC
391 GACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAAAAAGAAAAGACATCCTACTCTTTGAAGAC
* *
479749 TAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAG
456 T--AAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAA
*
479814 CAAAGTGCCACCAACTTGTGTGGGCTCTAAAAA
519 AAAAGTGCCACCAACTTGTGTGGGCTCTAAAAA
479847 GAAAAGACGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGTTTTGAAAAGAAA
1 GAAAAGACGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGTTTTGAAAAGAAA
*
479912 AGGCATCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGC
66 AGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGC
479977 ATCCTACTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGGGTCC
131 ATCCTACTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGGGTCC
480042 TGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAAAACATCCTGCT
196 TGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAAAACATCCTGCT
480107 CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTT
261 CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTT
*
480172 GAGGACTAAAAAATTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAG
326 GAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAG
*
480237 GACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAAAAAGAAAAGACGTCCTACTCTTTGAAGAC
391 GACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAAAAAGAAAAGACATCCTACTCTTTGAAGAC
* *
480302 TGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAA
456 TAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAA
* *
480367 AAGTGCCACCAACTTGTGTGGGCTTTAAAAG
521 AAGTGCCACCAACTTGTGTGGGCTCTAAAAA
* * * ** *
480398 GAAAAGGCGTCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA
1 GAAAAGACGTCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTCATGTGGGTTTTGAAAA-GA
* * *
480462 AAAGGCGTCCTGCTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGACTTTG-AAAG
64 AAAGGCGTCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTGCAAAG
480522 GCGTCCTACT
Statistics
Matches: 641, Mismatches: 31, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
551 118 0.18
552 55 0.09
553 468 0.73
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (551 bp):
GAAAAGACGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGTTTTGAAAAGAAA
AGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGC
ATCCTACTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGGGTCC
TGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAAAACATCCTGCT
CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTT
GAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAG
GACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAAAAAGAAAAGACATCCTACTCTTTGAAGAC
TAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAA
AAGTGCCACCAACTTGTGTGGGCTCTAAAAA
Found at i:482198 original size:13 final size:13
Alignment explanation
Indices: 482180--482204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
482170 ATAATGCATA
482180 GTATCGATACATT
1 GTATCGATACATT
482193 GTATCGATACAT
1 GTATCGATACAT
482205 GACCACTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:482311 original size:13 final size:13
Alignment explanation
Indices: 482293--482318 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
482283 ACATACAAGA
482293 TGTATCGATACAT
1 TGTATCGATACAT
482306 TGTATCGATACAT
1 TGTATCGATACAT
482319 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:482334 original size:33 final size:32
Alignment explanation
Indices: 482273--482340 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
482263 CCTTAGCTGT
482273 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
482305 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
482338 TTG
1 TTG
482341 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:487395 original size:52 final size:52
Alignment explanation
Indices: 487247--487375 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
487237 CGAAATATGA
487247 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* * * * * *
487299 AAATTTGCCTGTATGTATCGATACATTTTATAATGTATCGATACATCTGGGT
1 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
487351 AAATTTTCCTGCATGTATCGATACA
1 AAATTTACCTGCATGTATCGATACA
487376 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:487402 original size:13 final size:13
Alignment explanation
Indices: 487384--487408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
487374 CAAAGATCAG
487384 TGTATCGATACAA
1 TGTATCGATACAA
487397 TGTATCGATACA
1 TGTATCGATACA
487409 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:487491 original size:13 final size:13
Alignment explanation
Indices: 487473--487497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
487463 CAAAAAAATA
487473 TGTATCGATACAT
1 TGTATCGATACAT
487486 TGTATCGATACA
1 TGTATCGATACA
487498 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:487493 original size:33 final size:33
Alignment explanation
Indices: 487451--487517 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
487441 AGTAGCTTAA
487451 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
487484 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
487517 A
1 A
487518 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:489948 original size:52 final size:52
Alignment explanation
Indices: 489870--489998 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
489860 CGAAATATGA
489870 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
489922 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
489974 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
489999 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:490009 original size:52 final size:51
Alignment explanation
Indices: 489870--490018 Score: 237
Period size: 52 Copynumber: 2.9 Consensus size: 51
489860 CGAAATATGA
489870 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
489922 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
489974 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
490019 ATGTATCGAT
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
51 2 0.02
52 90 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:490025 original size:13 final size:13
Alignment explanation
Indices: 490007--490031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
489997 CAAAGATCAG
490007 TGTATCGATACAA
1 TGTATCGATACAA
490020 TGTATCGATACA
1 TGTATCGATACA
490032 TTTGGGTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:490110 original size:32 final size:33
Alignment explanation
Indices: 490069--490137 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
490059 GGCAGTAGCT
490069 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
490101 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
490134 TACA
1 TACA
490138 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:490111 original size:13 final size:13
Alignment explanation
Indices: 490093--490117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
490083 ACAAAACTTA
490093 TGTATCGATACAT
1 TGTATCGATACAT
490106 TGTATCGATACA
1 TGTATCGATACA
490118 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:498073 original size:79 final size:79
Alignment explanation
Indices: 497936--498085 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
497926 TAGGGATAGC
* * **
497936 AACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTCTGAAAATAAAATTAGGGTTGGAGT
1 AACGAGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTCTGAAAATAAAACCAGGGTTGGAGT
498001 ATCCCCTCAAAAAT
66 ATCCCCTCAAAAAT
* **
498015 AACGAGGTTGGAGTATCCCCGATTGTGAAAAATCGATGCTT-T-AGAAATAAGGCCAGGGTTGGA
1 AACGAGGTTGGAGTATCCCCGATTATGAAAAATCGATG-TTCTGA-AAATAAAACCAGGGTTGGA
498078 GTATCCCC
64 GTATCCCC
498086 GATTATGAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.02
79 59 0.95
80 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (79 bp):
AACGAGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTCTGAAAATAAAACCAGGGTTGGAGT
ATCCCCTCAAAAAT
Found at i:498084 original size:51 final size:50
Alignment explanation
Indices: 498020--498148 Score: 163
Period size: 51 Copynumber: 2.6 Consensus size: 50
498010 AAAATAACGA
* **
498020 GGTTGGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAAACC-G
* * *
498071 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCG
1 GGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAAACCG
*
498121 GAGTTGGAGTATCCCC--TGATGAAAAATC
1 G-GTTGGAGTATCCCCGATTATGAAAAATC
498149 TAGAAATTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 10 0.14
50 2 0.03
51 57 0.83
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAAACCG
Found at i:502240 original size:52 final size:52
Alignment explanation
Indices: 502162--502310 Score: 246
Period size: 52 Copynumber: 2.9 Consensus size: 52
502152 CGAAATATGA
502162 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
502214 AAATTGGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
**
502266 AAATTTGCCTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
502311 ATGTATCGAT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:502317 original size:13 final size:13
Alignment explanation
Indices: 502299--502323 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
502289 CAAAAATCAG
502299 TGTATCGATACAA
1 TGTATCGATACAA
502312 TGTATCGATACA
1 TGTATCGATACA
502324 TTTGGGTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:502403 original size:13 final size:13
Alignment explanation
Indices: 502385--502409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
502375 ACAAAACTTA
502385 TGTATCGATACAT
1 TGTATCGATACAT
502398 TGTATCGATACA
1 TGTATCGATACA
502410 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.