Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold108
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: 1249174
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.18
Warning! 531763 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:309002 original size:13 final size:13
Alignment explanation
Indices: 308984--309010 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
308974 ACATTATGCT
308984 TTGTATCGATACA
1 TTGTATCGATACA
308997 TTGTATCGATACA
1 TTGTATCGATACA
309010 T
1 T
309011 GGATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:309021 original size:20 final size:21
Alignment explanation
Indices: 308991--309031 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
308981 GCTTTGTATC
308991 GATACATTGTATCGATACATG
1 GATACATTGTATCGATACATG
309012 GATA-ATTGTATCGATACATG
1 GATACATTGTATCGATACATG
309032 AGATTGGCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (21 bp):
GATACATTGTATCGATACATG
Found at i:311157 original size:49 final size:49
Alignment explanation
Indices: 311036--312722 Score: 1497
Period size: 49 Copynumber: 34.6 Consensus size: 49
311026 TGAAGAAAAA
** * * * * *
311036 TGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTA--AA-GATGAAGG
* * * *
311088 TGCCAATATGCTAATTCAAGGCCAACGATATCGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * * *
311137 TGCGAATGTACTGATTCAAGGCCAACGACATTGGTCTTAAAGAT-AACGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAA-GG
* * * * *
311186 TGCCAATATGCTGATTCAAGGCCAGCGATACCAGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* ** * * *
311235 TGCCAATGTGCTAATTCAAGGTTAGCGACATTGGACTTAAAAATGGTTATGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGG
* *
311287 TGCCAATGTGCTGATTCAAGGCCAGCGACA-CTAGTCTTAAAGAT-AACGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATC-GGACTTAAAGATGAA-GG
* * * * *
311336 TGCCAATATGCTGATTCAAGGCCAGTGATACCGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * *
311385 TGCCAATGTGCTGATTCAAGGTCAGTGACATTGGACTTAAAAATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGG
* *
311437 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
*
311486 TGCCAATGTGCTGATTCAAGGCCAGCGACA-CTGGTCTTAAAGAT-AACGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATC-GGACTTAAAGATGAA-GG
* * * *
311535 TGCCAATATGTTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * *
311584 TGCCAATGTGCTGATTCAA-GTCAGCGACATTGGACTAAAAAATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGG
* * * *
311635 TGCCAATGTGTTGATTCAAGGCCAACAACAT-TGATCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGA-CTTAAAGATGAAGG
* * * * *
311684 TGCCAATATGCTGATTCAAGGTCAGCGATATTGGGC-T-----T----G
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * *
311723 TGCCAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* *
311772 TGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAA-ATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGG
* *
311823 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * *
311872 TGCCAATGTGCTGATTCAAGGCCAACGACA-CTGGTCTTAAAGGT-AACGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATC-GGACTTAAAGATGAA-GG
* * * * *
311921 TGCCAATATGCTGATTCAAGGCCAGTGATACCGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * *
311970 TGCCAATGTGCTGATTCAAGGTCAGTGACATTGGACTTAAAAATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGG
* *
312022 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
*
312071 TGCCAATGTGCTGATTCAAGGCCAGCGACA-CTGGTCTTAAAGAT-AACGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATC-GGACTTAAAGATGAA-GG
* * * *
312120 TGCCAATATGTTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * *
312169 TGCCAATGTGCTGATTCAA-GTCAGCGACATTGGACTAAAAAATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGG
* * * *
312220 TGCCAATGTGTTGATTCAAGGCCAACAACAT-TGATCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGA-CTTAAAGATGAAGG
* * * * *
312269 TGCCAATATGCTGATTCAAGGTCAGCGATATTGGGC-T-----T----G
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * *
312308 TGCCAATATGCTTATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * *
312357 TGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGG
* *
312409 TGCCAATGTGCTGATTCAAGGCCAAG-GATATC-GATCTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCC-AGCGACATCGGA-CTTAAAGATGAAGG
* * * *
312458 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * *
312497 TGCCAATATGCTGATTCAAGACCAGCGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * * *
312545 TGCCAATATGCTGATTCGAGGCTAGCGATATTGGACTTAAAGGTGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * *
312594 TGTCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * *
312643 TGTCAATATGCTGATTCAAGGCCAGCGATATTGGATTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* *
312692 TGCCAATGTGCTAATTCAAGGCCGGCGACAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACAT
312723 TGGGCTCGTG
Statistics
Matches: 1343, Mismatches: 211, Indels: 165
0.78 0.12 0.10
Matches are distributed among these distances:
39 98 0.07
40 3 0.00
43 3 0.00
45 2 0.00
48 95 0.07
49 803 0.60
50 23 0.02
51 94 0.07
52 220 0.16
53 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
Found at i:311377 original size:199 final size:196
Alignment explanation
Indices: 311036--312719 Score: 1940
Period size: 199 Copynumber: 8.6 Consensus size: 196
311026 TGAAGAAAAA
** * * * * * *
311036 TGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATGAAGGTGCCAATATGCTG
* * * * * * * *
311101 ATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCGAATGTACTGATTCAAGGCCAACGAC
63 ATTCAAGGCCAGCGACAT-GGTCTTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
** * * * * *** *
311166 ATTGGTCTTAAAGAT-AACGATGCCAATATGCTGATTCAAGGCCAGCGATACCAGACTTAAAGAT
126 ACCGGACTTAAAGATGAA-GATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAAT
*
311230 -G-AAGA
190 GGTAAGG
* ** * * * *
311235 TGCCAATGTGCTAATTCAAGGTTAGCGACATTGGACTTAAAAATGGTTATGGTGCCAATGTGCTG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTG
* *
311300 ATTCAAGGCCAGCGACACTAGTCTTAAAGATAACGGTGCCAATATGCTGATTCAAGGCCAGTGAT
63 ATTCAAGGCCAGCGACA-TGGTCTTAAAGATAA-GGTGCCAATATGCTGATTCAAGGCCAGCGAT
*
311365 ACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGTGACATTGGACTTAAAAATG
126 ACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATG
311430 GTTAAGG
191 G-TAAGG
* * *
311437 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* *
311502 CAAGGCCAGCGACACTGGTCTTAAAGATAACGGTGCCAATATGTTGATTCAAGGCCAGCGATATC
66 CAAGGCCAGCGACA-TGGTCTTAAAGATAA-GGTGCCAATATGCTGATTCAAGGCCAGCGATACC
*
311567 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA-GTCAGCGACATTGGACTAAAAAATGGTT
129 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGG-T
311631 AAGG
193 AAGG
* *
311635 TGCCAATGTGTTGATTCAAGGCCAACAACATT-GATCTTAAAGATGAAGGTGCCAATATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGA-CTTAAAGATGAAGGTGCCAATATGCTGAT
* * *
311699 TCAAGGTCAGCGATATTGGGC-T-----T---GTGCCAATATGCTGATTCAAGGCCAGCGATACC
65 TCAAGGCCAGCGACA-TGGTCTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATACC
311755 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTT-AAAATGGTT
129 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGG-T
311819 AAGG
193 AAGG
* * *
311823 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* * *
311888 CAAGGCCAACGACACTGGTCTTAAAGGTAACGGTGCCAATATGCTGATTCAAGGCCAGTGATACC
66 CAAGGCCAGCGACA-TGGTCTTAAAGATAA-GGTGCCAATATGCTGATTCAAGGCCAGCGATACC
*
311953 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGTGACATTGGACTTAAAAATGGTT
129 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGG-T
312018 AAGG
193 AAGG
* * *
312022 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* *
312087 CAAGGCCAGCGACACTGGTCTTAAAGATAACGGTGCCAATATGTTGATTCAAGGCCAGCGATATC
66 CAAGGCCAGCGACA-TGGTCTTAAAGATAA-GGTGCCAATATGCTGATTCAAGGCCAGCGATACC
*
312152 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA-GTCAGCGACATTGGACTAAAAAATGGTT
129 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGG-T
312216 AAGG
193 AAGG
* *
312220 TGCCAATGTGTTGATTCAAGGCCAACAACATT-GATCTTAAAGATGAAGGTGCCAATATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGA-CTTAAAGATGAAGGTGCCAATATGCTGAT
* * * *
312284 TCAAGGTCAGCGATATTGGGC-T-----T---GTGCCAATATGCTTATTCAAGGCCAGCGATACC
65 TCAAGGCCAGCGACA-TGGTCTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATACC
312340 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGGTT
129 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGG-T
312405 AAGG
193 AAGG
* * * *
312409 TGCCAATGTGCTGATTCAAGGCCAAGGATA-TCGATCTTAAAGATGAAGATGCCAATATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGA-CTTAAAGATGAAGGTGCCAATATGCTGAT
* * * * **
312473 TCAAGGCCAGCGATATTGGGC-T-----T---GTGCCAATATGCTGATTCAAGACCAGCGACATT
65 TCAAGGCCAGCGACA-TGGTCTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATACC
* * * * * *
312529 GGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCGAGG-CTAGCGATATTGGACTT--AAA-GGT
129 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTC-AGCGACATTGGACTTAAAAATGGT
312589 GAAGG
193 -AAGG
* * * * *
312594 TGTCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGTCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* * * *
312659 CAAGGCCAGCGATATTGGAT-TTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCCGGCGA
66 CAAGGCCAGCGACA-TGG-TCTTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGA
312720 CATTGGGCTC
Statistics
Matches: 1321, Mismatches: 124, Indels: 84
0.86 0.08 0.05
Matches are distributed among these distances:
184 1 0.00
185 77 0.06
186 6 0.00
187 1 0.00
188 256 0.19
189 167 0.13
191 1 0.00
192 2 0.00
194 1 0.00
195 25 0.02
196 1 0.00
197 6 0.00
198 296 0.22
199 436 0.33
200 4 0.00
201 1 0.00
202 40 0.03
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (196 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
CAAGGCCAGCGACATGGTCTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATACCGG
ACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGGTAAG
G
Found at i:311813 original size:387 final size:386
Alignment explanation
Indices: 311036--312719 Score: 2017
Period size: 387 Copynumber: 4.3 Consensus size: 386
311026 TGAAGAAAAA
** * * * * * * *
311036 TGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTA--AA-GATGAAGGTGCCAATATGCTG
* * * * * * *
311101 ATTCAAGGCCAACGATA-TCGGACTTAAAGATGAAGGTGCGAATGTACTGATTCAAGGCCAACGA
63 ATTCAAGGCCAGCGACACT-GGTCTTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGA
* ** * * * * *** *
311165 CATTGGTCTTAAAGAT-AACGATGCCAATATGCTGATTCAAGGCCAGCGATACCAGACTTAAAGA
126 TACCGGACTTAAAGATGAA-GATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAA
* * ** * * * *
311229 T-G--AAGATGCCAATGTGCTAATTCAAGGTTAGCGACATTGGA-CTTAAAAATGGTTATGGTGC
190 TGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACA-TCGATCTTAAAGAT-G--AAGGTGC
* ** * *
311290 CAATGTGCTGATTCAAGGCCAGCGACACTAGTCTTAAAGATAACGGTGCCAATATGCTGATTCAA
251 CAATATGCTGATTCAAGGCCAGCG--A-TA---TT-GGGCT---TGTGCCAATATGCTGATTCAA
* *
311355 GGCCAGTGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGTGACATTGGA
306 GGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGA
311420 CTTAAAAATGGTTAAGG
371 CTT-AAAATGGTTAAGG
*
311437 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
* *
311502 CAAGGCCAGCGACACTGGTCTTAAAGATAACGGTGCCAATATGTTGATTCAAGGCCAGCGATATC
66 CAAGGCCAGCGACACTGGTCTTAAAGATAA-GGTGCCAATATGCTGATTCAAGGCCAGCGATACC
*
311567 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA-GTCAGCGACATTGGACTAAAAAATGGTT
130 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGGTT
* * *
311631 AAGGTGCCAATGTGTTGATTCAAGGCCAACAACATTGATCTTAAAGATGAAGGTGCCAATATGCT
195 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTGCCAATATGCT
*
311696 GATTCAAGGTCAGCGATATTGGGCTTGTGCCAATATGCTGATTCAAGGCCAGCGATACCGGACTT
260 GATTCAAGGCCAGCGATATTGGGCTTGTGCCAATATGCTGATTCAAGGCCAGCGATACCGGACTT
311761 AAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAATGGTTAAGG
325 AAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAATGGTTAAGG
*
311823 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
* * *
311888 CAAGGCCAACGACACTGGTCTTAAAGGTAACGGTGCCAATATGCTGATTCAAGGCCAGTGATACC
66 CAAGGCCAGCGACACTGGTCTTAAAGATAA-GGTGCCAATATGCTGATTCAAGGCCAGCGATACC
*
311953 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGTGACATTGGACTTAAAAATGGTT
130 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGGTT
* *
312018 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCT
195 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTGCCAATATGCT
* * * *
312083 GATTCAAGGCCAGCGACACTGGTCTTAAAGATAACGGTGCCAATATGTTGATTCAAGGCCAGCGA
260 GATTCAAGGCCAGCGATATTGGGC-T-----T----GTGCCAATATGCTGATTCAAGGCCAGCGA
* *
312148 TATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA-GTCAGCGACATTGGACTAAAAAAT
315 TACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACT-TAAAAT
312212 GGTTAAGG
379 GGTTAAGG
* * * *
312220 TGCCAATGTGTTGATTCAAGGCCAACAACATTGATCTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
* * * * *
312285 CAAGGTCAGCGATATTGGGC-T-----T---GTGCCAATATGCTTATTCAAGGCCAGCGATACCG
66 CAAGGCCAGCGACACTGGTCTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATACCG
312341 GACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGGTTA
131 GACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGGTTA
* * *
312406 AGGTGCCAATGTGCTGATTCAAGGCCAAGGATATCGATCTTAAAGATGAAGATGCCAATATGCTG
196 AGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTGCCAATATGCTG
* * ** *
312471 ATTCAAGGCCAGCGATATTGGGCTTGTGCCAATATGCTGATTCAAGACCAGCGACATTGGTCTTA
261 ATTCAAGGCCAGCGATATTGGGCTTGTGCCAATATGCTGATTCAAGGCCAGCGATACCGGACTTA
* * * * * *
312536 AAGA-CAAGGTGCCAATATGCTGATTCGAGG-CTAGCGATATTGGACTT-AAA-GGTGAAGG
326 AAGATGAAGATGCCAATGTGCTGATTCAAGGTC-AGCGACATTGGACTTAAAATGGTTAAGG
* * * * *
312594 TGTCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGTCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
* * * * *
312659 CAAGGCCAGCGATATTGGAT-TTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCCGGCGA
66 CAAGGCCAGCGACACTGG-TCTTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGA
312720 CATTGGGCTC
Statistics
Matches: 1142, Mismatches: 109, Indels: 81
0.86 0.08 0.06
Matches are distributed among these distances:
374 84 0.07
375 4 0.00
376 21 0.02
377 53 0.05
380 1 0.00
381 1 0.00
384 26 0.02
386 175 0.15
387 368 0.32
388 1 0.00
390 2 0.00
391 3 0.00
393 1 0.00
394 2 0.00
395 1 0.00
396 18 0.02
397 202 0.18
398 101 0.09
399 9 0.01
400 35 0.03
401 34 0.03
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (386 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
CAAGGCCAGCGACACTGGTCTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATACCG
GACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGGTTA
AGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGGCTTGTGCCAATATGCTGATTCAAGGCCAGCGATACCGGACTTA
AAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAATGGTTAAGG
Found at i:312395 original size:585 final size:584
Alignment explanation
Indices: 311147--312719 Score: 2403
Period size: 585 Copynumber: 2.7 Consensus size: 584
311137 TGCGAATGTA
* * ** * * *
311147 CTGATTCAAGGCCAACGACATTGGTCTTAAAGAT-AACGATGCCAATATGCTGATTCAAGGCCAG
1 CTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAA-GATGCCAATGTGCTGATTCAAGGTCAG
* *** * * ** * * *
311211 CGATACCAGACTTAAAGAT-G--AAGATGCCAATGTGCTAATTCAAGGTTAGCGACATTGGACTT
65 CGACATTGGACTTAAA-ATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTT
* * *
311273 AAAAATGGTTATGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTAGTCTTAAAGATAACGGTG
129 AAAGAT-G--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAAG-TAACGGTG
311338 CCAATATGCTGATTCAAGGCCAGTGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCA
190 CCAATATGCTGATTCAAGGCCAGTGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCA
311403 AGGTCAGTGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACAT
255 AGGTCAGTGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACAT
311468 CGGTCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAAGATAAC
320 CGGTCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAAGATAAC
311533 GGTGCCAATATGTTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGA
385 GGTGCCAATATGTTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGA
311598 TTCAAGTCAGCGACATTGGACTAAAAAATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAACAA
450 TTCAAGTCAGCGACATTGGACTAAAAAATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAACAA
311663 CATTGATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGGCTTGTGCCA
515 CATTGATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGGCTTGTGCCA
311728 ATATG
580 ATATG
311733 CTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGC
1 CTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGC
311798 GACATTGGACTTAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAA
66 GACATTGGACTTAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAA
*
311863 AGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACACTGGTCTTAAAGGTAACGGTGCCAAT
131 AGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAA-GTAACGGTGCCAAT
311928 ATGCTGATTCAAGGCCAGTGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTC
195 ATGCTGATTCAAGGCCAGTGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTC
311993 AGTGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTC
260 AGTGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTC
312058 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAAGATAACGGTGC
325 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAAGATAACGGTGC
312123 CAATATGTTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
390 CAATATGTTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
312188 GTCAGCGACATTGGACTAAAAAATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAACAACATTG
455 GTCAGCGACATTGGACTAAAAAATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAACAACATTG
312253 ATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGGCTTGTGCCAATATG
520 ATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGGCTTGTGCCAATATG
*
312318 CTTATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGC
1 CTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGC
* * *
312383 GACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAAGGATATCGATCTTA
66 GACATTGGACTT-AAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTA
* * * * *
312448 AAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T----T----GTGCCAAT
130 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAAGTAACGGTGCCAAT
* * * ** * * * * *
312504 ATGCTGATTCAAGACCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCGAGG-C
195 ATGCTGATTCAAGGCCAGTGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTC
* * * * * * *
312567 TAGCGATATTGGACTT--AAA-GGTGAAGGTGTCAATGTGTTGATTCAAGGCCAGCGACATTGGT
260 -AGTGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGT
* * * *
312629 CTTAAAGATGAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGAT-TTAAAGATGAA-GG
324 CTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGG-TCTTAAAGAT-AACGG
* * * *
312692 TGCCAATGTGCTAATTCAAGGCCGGCGA
387 TGCCAATATGTTGATTCAAGGCCAGCGA
312720 CATTGGGCTC
Statistics
Matches: 921, Mismatches: 57, Indels: 32
0.91 0.06 0.03
Matches are distributed among these distances:
572 116 0.13
573 6 0.01
574 1 0.00
575 35 0.04
576 38 0.04
580 1 0.00
585 524 0.57
586 157 0.17
587 3 0.00
588 40 0.04
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (584 bp):
CTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCAGC
GACATTGGACTTAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAA
AGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAAGTAACGGTGCCAATA
TGCTGATTCAAGGCCAGTGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCA
GTGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCT
TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAAGATAACGGTGCC
AATATGTTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAG
TCAGCGACATTGGACTAAAAAATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAACAACATTGA
TCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGGCTTGTGCCAATATG
Found at i:312451 original size:189 final size:189
Alignment explanation
Indices: 312119--312676 Score: 826
Period size: 189 Copynumber: 3.0 Consensus size: 189
312109 AAAGATAACG
312119 GTGCCAATATG-TTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGA
1 GTGCCAATATGCTT-ATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGA
* **
312183 TTCAA-GTCAGCGACATTGGACTAAAAAATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAACA
65 TTCAAGGTCAGCGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAAGG
*
312247 ACATTGATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGGCTT
130 ACATTGATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
312307 GTGCCAATATGCTTATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGAT
1 GTGCCAATATGCTTATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGAT
*
312372 TCAAGGTCAGCGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAAGGA
66 TCAAGGTCAGCGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAAGGA
* * *
312437 TATCGATCTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
131 CATTGATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * * * * *
312496 GTGCCAATATGCTGATTCAAGACCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTTATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGAT
* * * *
312560 TCGAGG-CTAGCGATATTGGACTT--AAA-GGTGAAGGTGTCAATGTGTTGATTCAAGGCC-AGC
66 TCAAGGTC-AGCGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAAG-
* *
312620 GACATTGGTCTTAAAGATGAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGG
129 GACATTGATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
312677 ATTTAAAGAT
Statistics
Matches: 338, Mismatches: 28, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
184 2 0.01
185 80 0.24
186 3 0.01
187 1 0.00
188 101 0.30
189 151 0.45
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (189 bp):
GTGCCAATATGCTTATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGAT
TCAAGGTCAGCGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAAGGA
CATTGATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:312609 original size:136 final size:138
Alignment explanation
Indices: 312357--312627 Score: 334
Period size: 136 Copynumber: 2.0 Consensus size: 138
312347 AAGATGAAGA
* ** ** *
312357 TGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTG
1 TGCCAATATGCTGATTCAAGACCAGCGACATTGGACTT-AAAA-GGACAAGGTGCCAATATGCTG
*
312422 ATTCAAGGCCAAGGATATCGATCTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGAT
64 ATTCAAGGCCAAGGATATCGATCTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGAC
312487 ATTGGGCTTG
129 ATTGGGCTTG
*
312497 TGCCAATATGCTGATTCAAGACCAGCGACATTGGTCTT-AAA-GACAAGGTGCCAATATGCTGAT
1 TGCCAATATGCTGATTCAAGACCAGCGACATTGGACTTAAAAGGACAAGGTGCCAATATGCTGAT
* * * * * * * *
312560 TCGAGG-CTAGCGATATTGGA-CTTAAAGGTGAAGGTGTCAATGTGTTGATTCAAGGCCAGCGAC
66 TCAAGGCCAAG-GATA-TCGATCTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGAC
312623 ATTGG
129 ATTGG
312628 TCTTAAAGAT
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
135 3 0.03
136 70 0.62
137 3 0.03
138 3 0.03
140 34 0.30
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (138 bp):
TGCCAATATGCTGATTCAAGACCAGCGACATTGGACTTAAAAGGACAAGGTGCCAATATGCTGAT
TCAAGGCCAAGGATATCGATCTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGACAT
TGGGCTTG
Found at i:312813 original size:86 final size:87
Alignment explanation
Indices: 312646--312814 Score: 207
Period size: 88 Copynumber: 1.9 Consensus size: 87
312636 ATGAAGGTGT
* * *
312646 CAATATGCTGATTCAAGGCCAGCGATATTGGATTTAAAGATGAAGGTGCCAATGTGCTAATTCAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGATTTAAAGAAGAA-GTGCCAATGTGCTAATACAA
*
312711 GGCCGGCGACATTGGGCTCGTGC
65 GGCCAGCGACATTGGGCTCGTGC
* * * * *
312734 CAATGTGCTGATTTAGGGCTAGCGACATTGG-TCTTAAAGAAGAA-TGCCAATGTGCTGATACAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGAT-TTAAAGAAGAAGTGCCAATGTGCTAATACAA
* *
312797 GGCTAGCGATATTGGGCT
65 GGCCAGCGACATTGGGCT
312815 TAAAGGTGCC
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 32 0.46
87 1 0.01
88 36 0.52
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (87 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGATTTAAAGAAGAAGTGCCAATGTGCTAATACAAG
GCCAGCGACATTGGGCTCGTGC
Found at i:312859 original size:34 final size:33
Alignment explanation
Indices: 312816--313003 Score: 218
Period size: 34 Copynumber: 5.6 Consensus size: 33
312806 TATTGGGCTT
*
312816 AAAGGTGCCACGGAGTTGTGGACTT-ATAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
312848 AAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* *
312884 AAAGGTGCCACGGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
312916 AATGGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
312950 AAAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
312983 AAAGATGCCACGGACTTGTGG
1 AAAGGTGCCACGGAGTTGTGG
313004 GCTTTTGAAG
Statistics
Matches: 131, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
32 23 0.18
33 38 0.29
34 59 0.45
35 4 0.03
36 7 0.05
ACGTcount: A:0.35, C:0.13, G:0.34, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:312961 original size:66 final size:67
Alignment explanation
Indices: 312820--313008 Score: 222
Period size: 66 Copynumber: 2.8 Consensus size: 67
312810 GGGCTTAAAG
* * * *
312820 GTGCCACGGAGTTGTGGACTTATAGGAA-AAAGGGATGCCACGGAGGTGTGGGC-TTAAAAGGGA
1 GTGCCACGGAGTTGTGGACTTA-A-AAAGAAAAGG-TGCCACGGAGTTGTGGGCTTTAAAAGAGA
*
312883 AAAAG
63 AAAAA
* * *
312888 GTGCCACGGAGTCGTGGACTTAAAAAGAAATGGTGCCACAGAGTTGTGGGCTTTAAAA-AGAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAGAAAA
312952 AA
66 AA
* * *
312954 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGACTTGTGGGCTTT
1 GTGCCACGGAGTTGTGGACTTAAAAAG-AAAAGGTGCCACGGAGTTGTGGGCTTT
313009 TGAAGGTTGC
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
66 49 0.47
67 35 0.33
68 21 0.20
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (67 bp):
GTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAGAAAA
AA
Found at i:313089 original size:29 final size:29
Alignment explanation
Indices: 312980--313239 Score: 303
Period size: 29 Copynumber: 9.0 Consensus size: 29
312970 GACTTAAAAG
*
312980 GAAAAAGATGCCACGGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* *
313010 G--AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* * *
313038 G--AAGGTTGCCATTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* *
313065 GAAAAAGATGCCACTGACCTATGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
*
313095 GAGAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* * *
313124 GAAAAAAATGCCACTAACCTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* *
313153 GGAAAAGATGCCACTAACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
*
313182 GAAAAAGATGCCACTGACCTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* * *
313211 GGAAAAGAAGCCACTAACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
313240 TGAAGGGTGA
Statistics
Matches: 201, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
27 4 0.02
28 47 0.23
29 123 0.61
30 27 0.13
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (29 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTT
Found at i:313193 original size:58 final size:58
Alignment explanation
Indices: 312982--313239 Score: 342
Period size: 58 Copynumber: 4.5 Consensus size: 58
312972 CTTAAAAGGA
* * * * *
312982 AAAAGATGCCACGGACTTGTGGGCTTTTG--AAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAAAGATGCCACTGACTTGTGGGC-TTTGAAAAAGATGCCACTGACCTGTGGGCTTTGG
* * * * *
313039 -AAGGTTGCCATTGACTTGTGGGCTTTGAAAAAGATGCCACTGACCTATGGGCTTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACCTGTGGGCTTTGG
* *
313096 AGAAAGATGCCACTGACTTGTGGGCTTTGAAAAAAATGCCACTAACCTGTGGGCTTTGG
1 A-AAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACCTGTGGGCTTTGG
*
313155 AAAAGATGCCACTAACTTGTGGGCTTTGAAAAAGATGCCACTGACCTGTGGGCTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACCTGTGGGCTTTGG
* *
313213 AAAAGAAGCCACTAACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
313240 TGAAGGGTGA
Statistics
Matches: 178, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
55 4 0.02
56 19 0.11
57 24 0.13
58 80 0.45
59 51 0.29
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (58 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACCTGTGGGCTTTGG
Found at i:314696 original size:10 final size:10
Alignment explanation
Indices: 314674--314746 Score: 53
Period size: 10 Copynumber: 7.4 Consensus size: 10
314664 ATATGGACCC
314674 TTTTTGTTGTT
1 TTTTTGTT-TT
314685 TTTTTG--TT
1 TTTTTGTTTT
314693 TTTTT-TTTT
1 TTTTTGTTTT
***
314702 GGATTGTTTT
1 TTTTTGTTTT
*
314712 TTTTTGTTTG
1 TTTTTGTTTT
314722 TTTTTGTTTGT
1 TTTTTGTTT-T
* *
314733 TTGTTCTTTT
1 TTTTTGTTTT
314743 TTTT
1 TTTT
314747 GTCTCTCTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
8 7 0.15
9 4 0.09
10 23 0.49
11 13 0.28
ACGTcount: A:0.01, C:0.01, G:0.15, T:0.82
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:314708 original size:25 final size:25
Alignment explanation
Indices: 314680--314727 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
314670 ACCCTTTTTG
*
314680 TTGTTTTTTTGTT-TTTTTTTTTGGA
1 TTGTTTTTTT-TTGTTTGTTTTTGGA
314705 TTGTTTTTTTTTGTTTGTTTTTG
1 TTGTTTTTTTTTGTTTGTTTTTG
314728 TTTGTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.81
Consensus pattern (25 bp):
TTGTTTTTTTTTGTTTGTTTTTGGA
Found at i:314711 original size:14 final size:13
Alignment explanation
Indices: 314674--314748 Score: 77
Period size: 14 Copynumber: 5.8 Consensus size: 13
314664 ATATGGACCC
314674 TTTTTG-TTG-TT
1 TTTTTGTTTGTTT
314685 TTTTTGTTT-TTT
1 TTTTTGTTTGTTT
*
314697 TTTTTGGATTGTTTT
1 TTTTT-GTTTG-TTT
314712 TTTTTGTTTGTTT
1 TTTTTGTTTGTTT
*
314725 TTGTTTGTTTGTTC
1 TT-TTTGTTTGTTT
314739 TTTTT-TTTGT
1 TTTTTGTTTGT
314749 CTCTCTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
11 6 0.11
12 14 0.25
13 11 0.20
14 16 0.29
15 8 0.15
ACGTcount: A:0.01, C:0.01, G:0.16, T:0.81
Consensus pattern (13 bp):
TTTTTGTTTGTTT
Found at i:328720 original size:19 final size:20
Alignment explanation
Indices: 328696--328748 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
328686 AGCGATACAT
328696 TGTATCGATACAATACT-TA
1 TGTATCGATACAATACTGTA
* *
328715 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-ATACTGTA
328736 TGTATCGATACAA
1 TGTATCGATACAA
328749 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTGTA
Found at i:333633 original size:13 final size:13
Alignment explanation
Indices: 333615--333640 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
333605 CAATTTTTGG
333615 TGTATCGATACAT
1 TGTATCGATACAT
333628 TGTATCGATACAT
1 TGTATCGATACAT
333641 ACTTGGTGTA
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:333652 original size:32 final size:33
Alignment explanation
Indices: 333595--333658 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
333585 TACAAGCCAA
**
333595 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
333628 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
333659 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:333665 original size:19 final size:18
Alignment explanation
Indices: 333595--333665 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
333585 TACAAGCCAA
333595 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
333615 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
333628 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
333647 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
333666 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:333724 original size:20 final size:21
Alignment explanation
Indices: 333679--333731 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
333669 CTGCCAAGAA
* **
333679 ATGTATCGATACATCTTCTTC
1 ATGTATCGATACATCTGCAAC
333700 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTGCAAC
333720 ATGTATCGATAC
1 ATGTATCGATAC
333732 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACATCTGCAAC
Found at i:335009 original size:52 final size:52
Alignment explanation
Indices: 334932--335062 Score: 165
Period size: 52 Copynumber: 2.5 Consensus size: 52
334922 TAATATGTTA
* ** *
334932 ATTCAA-GCCAGCGATATTGGGCTTAAAGATGGGAAGAATGTCAATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTTAAAGATAAGAAGAATGCCAATGTGCTG
* * * *
334983 ATTCACGGCCAGCGACATTAGACTTAAAGATAAGAAGACTGCCAATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTTAAAGATAAGAAGAATGCCAATGTGCTG
* *
335035 ATTCAAGACTAGCGACATTGGGCTTAAA
1 ATTCAAGGCCAGCGACATTGGGCTTAAA
335063 AATGCCAATA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
51 5 0.08
52 61 0.92
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (52 bp):
ATTCAAGGCCAGCGACATTGGGCTTAAAGATAAGAAGAATGCCAATGTGCTG
Found at i:335189 original size:52 final size:52
Alignment explanation
Indices: 335104--335436 Score: 324
Period size: 52 Copynumber: 6.8 Consensus size: 52
335094 ATCGAACATG
* *
335104 AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGGTA
1 AAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTA
* *
335156 AAGGTACCAATATGCTAATTCAAGGTCAGCGACATTGGACTTAAAGATGGTA
1 AAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTA
* * *
335208 AAGGTGCCAATATGATGATTCAAGGCCAGCGATATTGGACTT-AA-A-GGT-
1 AAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTA
* * * *
335256 ---G--CCAATGTGCTGATTCAAGGCCAGCGGCATTGGACTTAAGGGTGGTA
1 AAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTA
* * * *
335303 AAGGTGCTAATATGCTGATTCAAGGCCAACGATATTGGAC-------T--TA
1 AAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTA
* * * **
335346 AAGCTACTAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACA
1 AAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTA
* * * *
335398 AAGGCACCAATATGCTGATTCAAAGCCAGCAATATTGGA
1 AAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGGA
335437 TTTTAAGGTG
Statistics
Matches: 230, Mismatches: 33, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
43 69 0.30
44 1 0.00
45 2 0.01
46 3 0.01
49 3 0.01
50 3 0.01
51 2 0.01
52 147 0.64
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (52 bp):
AAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTA
Found at i:335270 original size:43 final size:43
Alignment explanation
Indices: 335206--335526 Score: 264
Period size: 43 Copynumber: 7.0 Consensus size: 43
335196 TTAAAGATGG
*
335206 TAAAGGTGCCAATATGATGATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* **
335249 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGGCATTGGACTTAAGGGT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-------T
* *
335299 GGTAAAGGTGCTAATATGCTGATTCAAGGCCAACGATATTGGACT
1 --TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* * * * *
335344 TAAAGCTACTAATATGCTAATTCAAGGCCAGCGACATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* * * *
335387 TAAAGATGACAAAGGCACCAATATGCTGATTCAAAGCCAGCAATATTGGATT
1 TAAAG--G-----TG--CCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* * * * *
335439 TTAAGGTGCCAATGTGTTGATTCAAGGTCAGCAATATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* * * *
335482 TTAAGGTGCCAATGTGTTGATTCAAGGCCAGCGATATTGGGCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
335525 TA
1 TA
335527 GAAGAAGGTG
Statistics
Matches: 226, Mismatches: 34, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
43 152 0.67
45 2 0.01
50 2 0.01
52 70 0.31
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
Found at i:335276 original size:190 final size:187
Alignment explanation
Indices: 334973--335531 Score: 558
Period size: 190 Copynumber: 2.9 Consensus size: 187
334963 GGAAGAATGT
* * * * * *
334973 CAATGTGCTGATTCACGGCCAGCGACATTAGACTTAAAGAT-AAGAAGACTGCCAATGTGCTGAT
1 CAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-AAG-GTGCCAATATGCTGAT
* * * * ** * * * *
335037 TCAAGACTAGCGACATTGGGCTTAAAAATGCCAATATGCTGATTCAAGGCCAGTGATATCGAACA
64 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACA
* *
335102 TGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGGTAAAGGTAC
129 TGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT--TAAAGCTAC
* * *
335163 CAATATGCTAATTCAAGGTCAGCGACATTGGACTTAAAGATGGTAAAGGTGCCAATATGATGATT
1 CAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGAT-GAAAAGGTGCCAATATGCTGATT
**
335228 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGGCATTGGACTT
65 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC--
*
335293 AAGGGTGGTAAAGGTGCTAATATGCTGATTCAAGGCCAACGATATTGGAC-------TTAAAGCT
128 -A---T-G--AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATTAAAGCT
335351 AC
186 AC
* **
335353 TAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATT
1 CAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AAAGGTGCCAATATGCTGATT
* * * * * * * *
335418 CAAAGCCAGCAATATTGGATTTTAAGGTGCCAATGTGTTGATTCAAGGTCAGCAATATTGGACTT
65 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACAT
* * * * *
335483 TAAGGTGCCAATGTGTTGATTCAAGGCCAGCGATATTGGGCTTAGAAGA
130 GAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA-AAGA
335532 AGGTGCCACC
Statistics
Matches: 303, Mismatches: 46, Indels: 41
0.78 0.12 0.11
Matches are distributed among these distances:
181 35 0.12
184 1 0.00
189 1 0.00
190 220 0.73
191 3 0.01
192 2 0.01
193 1 0.00
196 1 0.00
197 1 0.00
199 38 0.13
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (187 bp):
CAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACATG
AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATTAAAGCTAC
Found at i:335287 original size:147 final size:147
Alignment explanation
Indices: 335065--335348 Score: 415
Period size: 147 Copynumber: 1.9 Consensus size: 147
335055 GGCTTAAAAA
* * *
335065 TGCCAATATGCTGATTCAAGGCCAGTGATATCGAACATGAAGGTGCCAATATGCTGATTCAAGGC
1 TGCCAATATGATGATTCAAGGCCAGCGATATCGAACATAAAGGTGCCAATATGCTGATTCAAGGC
* *
335130 CAACGACATTGGACTTAAAGATGGTAAAGGTACCAATATGCTAATTCAAGGTCAGCGACATTGGA
66 CAACGACATTGGACTTAAAGATGGTAAAGGTACCAATATGCTAATTCAAGGCCAACGACATTGGA
335195 CTTAAAGATGGTAAAGG
131 CTTAAAGATGGTAAAGG
* * * *
335212 TGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGATGATTCAAGGCCAGCGATATCGAACATAAAGGTGCCAATATGCTGATTCAAGGC
* * * * * * * *
335277 CAGCGGCATTGGACTTAAGGGTGGTAAAGGTGCTAATATGCTGATTCAAGGCCAACGATATTGGA
66 CAACGACATTGGACTTAAAGATGGTAAAGGTACCAATATGCTAATTCAAGGCCAACGACATTGGA
335342 CTTAAAG
131 CTTAAAG
335349 CTACTAATAT
Statistics
Matches: 120, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
147 120 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (147 bp):
TGCCAATATGATGATTCAAGGCCAGCGATATCGAACATAAAGGTGCCAATATGCTGATTCAAGGC
CAACGACATTGGACTTAAAGATGGTAAAGGTACCAATATGCTAATTCAAGGCCAACGACATTGGA
CTTAAAGATGGTAAAGG
Found at i:335322 original size:95 final size:95
Alignment explanation
Indices: 335154--335482 Score: 415
Period size: 95 Copynumber: 3.5 Consensus size: 95
335144 TTAAAGATGG
*
335154 TAAAGGTACCAATATGCTAATTCAAGGTCAGCGACATTGGACTTAAAGATGGTAAAGGTGCCAAT
1 TAAAGGTACCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAAGGTGCCAAT
*
335219 ATGATGATTCAAGGCCAGCGATATTGGACT
66 ATGCTGATTCAAGGCCAGCGATATTGGACT
* * * * * * *
335249 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGGCATTGGACTTAAGGGTGGTAAAGGTGCTAAT
1 TAAAGGTACCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAAGGTGCCAAT
*
335314 ATGCTGATTCAAGGCCAACGATATTGGACT
66 ATGCTGATTCAAGGCCAGCGATATTGGACT
* * ** **
335344 TAAAGCTACTAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCACCAAT
1 TAAAGGTACCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAAGGTGCCAAT
* * *
335409 ATGCTGATTCAAAGCCAGCAATATTGGATT
66 ATGCTGATTCAAGGCCAGCGATATTGGACT
* * * * * * * *
335439 TTAAGGTGCCAATGTGTTGATTCAAGGTCAGCAATATTGGACTT
1 TAAAGGTACCAATATGCTAATTCAAGGCCAGCGACATTGGACTT
335483 TAAGGTGCCA
Statistics
Matches: 197, Mismatches: 37, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
95 197 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (95 bp):
TAAAGGTACCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAAGGTGCCAAT
ATGCTGATTCAAGGCCAGCGATATTGGACT
Found at i:335451 original size:21 final size:20
Alignment explanation
Indices: 335427--335494 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
335417 TCAAAGCCAG
335427 CAATATTGGATTTTAAGGTGC
1 CAATATTGGA-TTTAAGGTGC
* * *
335448 CAATGTGTTGATTCAAGGT-C
1 CAATAT-TGGATTTAAGGTGC
335468 AGCAATATTGGACTTTAAGGTGC
1 --CAATATTGGA-TTTAAGGTGC
335491 CAAT
1 CAAT
335495 GTGTTGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
20 1 0.03
21 19 0.53
22 15 0.42
23 1 0.03
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (20 bp):
CAATATTGGATTTAAGGTGC
Found at i:335460 original size:22 final size:22
Alignment explanation
Indices: 335435--335503 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
335425 AGCAATATTG
335435 GATTTTAAGGTGCCAATGTGTT
1 GATTTTAAGGTGCCAATGTGTT
* * *
335457 GA-TTCAAGGT-CAGCAATAT-TG
1 GATTTTAAGGTGC--CAATGTGTT
*
335478 GACTTTAAGGTGCCAATGTGTT
1 GATTTTAAGGTGCCAATGTGTT
335500 GATT
1 GATT
335504 CAAGGCCAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
20 1 0.03
21 15 0.43
22 18 0.51
23 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (22 bp):
GATTTTAAGGTGCCAATGTGTT
Found at i:335508 original size:21 final size:21
Alignment explanation
Indices: 335441--335508 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
335431 ATTGGATTTT
335441 AAGGTGCCAATGTGTTGATTC
1 AAGGTGCCAATGTGTTGATTC
* * *
335462 AAGGT-CAGCAATAT-TGGACTTT
1 AAGGTGC--CAATGTGTTGA-TTC
335484 AAGGTGCCAATGTGTTGATTC
1 AAGGTGCCAATGTGTTGATTC
335505 AAGG
1 AAGG
335509 CCAGCGATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
20 1 0.03
21 19 0.53
22 15 0.42
23 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (21 bp):
AAGGTGCCAATGTGTTGATTC
Found at i:335604 original size:32 final size:32
Alignment explanation
Indices: 335519--335748 Score: 213
Period size: 32 Copynumber: 7.2 Consensus size: 32
335509 CCAGCGATAT
*
335519 TGGGCTTAGAAGAA-GG-TGCCACCAACTTGTG
1 TGGGCTT-TAAGAAGGGTTGCCACCAACTTGTG
* ** *
335550 -GGGCTTTTAA-AAAGGTCACCACCGACTTGTG
1 TGGGC-TTTAAGAAGGGTTGCCACCAACTTGTG
335581 TGGGCTTTAAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAAGAAGGGTTGCCACCAACTTGTG
* * *
335613 TGGGATTT-TGAAAGGGTTGCCACTAACTTGTG
1 TGGGCTTTAAG-AAGGGTTGCCACCAACTTGTG
335645 TGGGCTTTAAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAAGAAGGGTTGCCACCAACTTGTG
* * **
335677 TAGGCTTTGAAG-GGGGTTGCCATAAACTTGTG
1 TGGGCTTT-AAGAAGGGTTGCCACCAACTTGTG
** * *
335709 TTCGCTTTTGAA-AAGGATTGCCACTAACTTGTG
1 TGGGC-TTT-AAGAAGGGTTGCCACCAACTTGTG
335742 TGGGCTT
1 TGGGCTT
335749 CGAAGGGGGT
Statistics
Matches: 163, Mismatches: 26, Indels: 19
0.78 0.12 0.09
Matches are distributed among these distances:
29 2 0.01
30 8 0.05
31 20 0.12
32 104 0.64
33 29 0.18
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAAGAAGGGTTGCCACCAACTTGTG
Found at i:335698 original size:96 final size:96
Alignment explanation
Indices: 335535--335748 Score: 263
Period size: 96 Copynumber: 2.2 Consensus size: 96
335525 TAGAAGAAGG
* * *
335535 TGCCACCAACTTGTG-GGGCTTTTAAAAAGGTCACCACCGACTTGTGTGGGCTTTAAGAAGGGTT
1 TGCCACTAACTTGTGTGGGC-TTTAAAAAGGTCACCACCAACTTGTGTAGGCTTTAAGAAGGGTT
* * *
335599 GCCACCAACTTGTGTGGGATTTTG-AAAGGGT
65 GCCACAAACTTGTGTGCGATTTTGAAAAGGAT
* ** *
335630 TGCCACTAACTTGTGTGGGCTTTAAGAAGGGTTGCCACCAACTTGTGTAGGCTTTGAAG-GGGGT
1 TGCCACTAACTTGTGTGGGCTTTAA-AAAGGTCACCACCAACTTGTGTAGGCTTT-AAGAAGGGT
* * *
335694 TGCCATAAACTTGTGTTCGCTTTTGAAAAGGAT
64 TGCCACAAACTTGTGTGCGATTTTGAAAAGGAT
335727 TGCCACTAACTTGTGTGGGCTT
1 TGCCACTAACTTGTGTGGGCTT
335749 CGAAGGGGGT
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
95 19 0.19
96 52 0.51
97 31 0.30
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (96 bp):
TGCCACTAACTTGTGTGGGCTTTAAAAAGGTCACCACCAACTTGTGTAGGCTTTAAGAAGGGTTG
CCACAAACTTGTGTGCGATTTTGAAAAGGAT
Found at i:335754 original size:65 final size:64
Alignment explanation
Indices: 335574--335764 Score: 244
Period size: 64 Copynumber: 3.0 Consensus size: 64
335564 GTCACCACCG
* * *
335574 ACTTGTGTGGGCTTTAAGAAGGGTTGCCACCAACTTGTGTGGGATTTTGAA-AGGGTTGCCACTA
1 ACTTGTGTGCGCTTTAAGAAGGGTTGCCACCAACTTGTGTGGG-CTTTGAAGGGGGTTGCCACTA
* *
335638 ACTTGTGTGGGCTTTAAGAAGGGTTGCCACCAACTTGTGTAGGCTTTGAAGGGGGTTGCCA-TAA
1 ACTTGTGTGCGCTTTAAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGGGGGTTGCCACT-A
* * * *
335702 ACTTGTGTTCGCTTTTGAA-AAGGATTGCCACTAACTTGTGTGGGCTTCGAAGGGGGTTGCCAC
1 ACTTGTGTGCGC-TTT-AAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGGGGGTTGCCAC
335765 AGAGTTGTGG
Statistics
Matches: 113, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
63 7 0.06
64 62 0.55
65 42 0.37
66 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (64 bp):
ACTTGTGTGCGCTTTAAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGGGGGTTGCCACTA
Found at i:335834 original size:32 final size:32
Alignment explanation
Indices: 335759--336221 Score: 163
Period size: 32 Copynumber: 14.7 Consensus size: 32
335749 CGAAGGGGGT
* * ** *
335759 TGCCACAGAGTTGTGGGCTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTTAAGGAA-AAGA
*
335792 TGCCATGGAGTTGTGGACTTTTAAGGAAAAGA
1 TGCCACGGAGTTGTGGACTTTTAAGGAAAAGA
* * * *
335824 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAATCA
1 TGCCACGGAGTTGTGGACTTT--TAAGGAAAA-GA
* * *
335859 TGCCACGGAGTTGTAGAC-TTAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTTAAGGAA-AAGA
* * * *
335891 TGCCATGGAGTTATGGGC--TT----AAAAGG
1 TGCCACGGAGTTGTGGACTTTTAAGGAAAAGA
* ** *
335917 TGCCACAGAGTTGTGGACTTAAAAAGAAAAGA
1 TGCCACGGAGTTGTGGACTTTTAAGGAAAAGA
** ** *
335949 TGCCGTGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTTAAGGAA-AAGA
* *
335982 TGCCACGGAGTTATGGA--TTT-A--AAAAGG
1 TGCCACGGAGTTGTGGACTTTTAAGGAAAAGA
** ** * **
336009 TGAGACAAAGTTATGGACTTAAAAGGAAAAGA
1 TGCCACGGAGTTGTGGACTTTTAAGGAAAAGA
*
336041 TGCCACGGAGTTGT-GAGCTTTTAAGAAAAAGGA
1 TGCCACGGAGTTGTGGA-CTTTTAAGGAAAA-GA
* * * *
336074 TACCACTGAGTAGTGG--TCTT--GGAAAAGGGA
1 TGCCACGGAGTTGTGGACTTTTAAGGAAAA--GA
* * * ** *
336104 TGCCACTGAGTCGTGGTCTTAGAAGAAAAAAGA
1 TGCCACGGAGTTGTGGACTTTTAAG-GAAAAGA
* * ** *
336137 TGCCACTGAGTCGTGGACTTGGAAGAAAAAGGA
1 TGCCACGGAGTTGTGGACTTTTAAGGAAAA-GA
* * * * *
336170 TTCCACTGAGTAGTGGA-TTTTTAGG-AAAGG
1 TGCCACGGAGTTGTGGACTTTTAAGGAAAAGA
* *
336200 TGCCACGGAGTCGTGGGCTTTT
1 TGCCACGGAGTTGTGGACTTTT
336222 CGAAAAAGGA
Statistics
Matches: 326, Mismatches: 77, Indels: 56
0.71 0.17 0.12
Matches are distributed among these distances:
26 18 0.06
27 19 0.06
28 2 0.01
29 6 0.02
30 33 0.10
31 14 0.04
32 105 0.32
33 97 0.30
34 11 0.03
35 21 0.06
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (32 bp):
TGCCACGGAGTTGTGGACTTTTAAGGAAAAGA
Found at i:335878 original size:67 final size:66
Alignment explanation
Indices: 335759--335993 Score: 172
Period size: 58 Copynumber: 3.7 Consensus size: 66
335749 CGAAGGGGGT
* * ** * * *
335759 TGCCACAGAGTTGTGGGC-TTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTTTAAGGAA-AA
1 TGCCACGGAGTTGTGGGCTTTAAAAGGAAAAACATGCCACGGAGTTGTAGAC-TTAAAGGAACAA
335822 GA
65 GA
335824 TGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAATCATGCCACGGAGTTGTAGACTTAAAGGAACA
1 TGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAA-CATGCCACGGAGTTGTAGACTTAAAGGAACA
*
335888 AGG
64 AGA
* * * * *
335891 TGCCATGGAGTTATGGGC-TTAAAAGG-------TGCCACAGAGTTGTGGACTTAAAAAGAA-AA
1 TGCCACGGAGTTGTGGGCTTTAAAAGGAAAAACATGCCACGGAGTTGTAGACTT-AAAGGAACAA
335947 GA
65 GA
** * * **
335949 TGCCGTGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTT
1 TGCCACGGAGTTGTGGGCTTTAAAAGGAAAAACATGCCACGGAGTT
335994 ATGGATTTAA
Statistics
Matches: 139, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
58 44 0.32
59 6 0.04
65 32 0.23
66 18 0.13
67 39 0.28
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (66 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGGAAAAACATGCCACGGAGTTGTAGACTTAAAGGAACAAG
A
Found at i:335927 original size:26 final size:26
Alignment explanation
Indices: 335887--335940 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
335877 TTAAAGGAAC
** *
335887 AAGGTGCCATGGAGTTATGGGCTTAA
1 AAGGTGCCACAGAGTTATGGACTTAA
*
335913 AAGGTGCCACAGAGTTGTGGACTTAA
1 AAGGTGCCACAGAGTTATGGACTTAA
335939 AA
1 AA
335941 AGAAAAGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.24
Consensus pattern (26 bp):
AAGGTGCCACAGAGTTATGGACTTAA
Found at i:336004 original size:33 final size:32
Alignment explanation
Indices: 335759--336007 Score: 179
Period size: 32 Copynumber: 7.8 Consensus size: 32
335749 CGAAGGGGGT
* * *
335759 TGCCACAGAGTTGTGGGCTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAA-AAGG
* ** * *
335792 TGCCATGGAGTTGTGGACTTTTAAGGAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAGG
* * **
335824 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAATCA
1 TGCCACGGAGTTGTGGAC-TTAAAAAG-AAAA-GG
* *
335859 TGCCACGGAGTTGTAGACTT-AAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAA-AAGG
* * *
335891 TGCCATGGAGTTATGGGCTT------AAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAGG
* *
335917 TGCCACAGAGTTGTGGACTTAAAAAGAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAGG
** *
335949 TGCCGTGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAA-AAGG
* *
335982 TGCCACGGAGTTATGGATTTAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAAG
336008 GTGAGACAAA
Statistics
Matches: 169, Mismatches: 36, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
26 20 0.12
27 2 0.01
32 66 0.39
33 58 0.34
34 6 0.04
35 17 0.10
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (32 bp):
TGCCACGGAGTTGTGGACTTAAAAAGAAAAGG
Found at i:336054 original size:92 final size:92
Alignment explanation
Indices: 335759--336055 Score: 337
Period size: 92 Copynumber: 3.2 Consensus size: 92
335749 CGAAGGGGGT
* * * *
335759 TGCCACAGAGTTGTGGGCTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTTTAAGGAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTATGGA--TTT-A--AAAAGG
* * * *
335824 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAATCA
61 TGCCACAGAGTTGTGGAC-TT-AAAAGGAAAA-GA
* **
335859 TGCCACGGAGTTGTAGACTT-AAAGGAACAAGGTGCCATGGAGTTATGGGCTT-AAAAGGTGCCA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTATGGATTTAAAAAGGTGCCA
*
335922 CAGAGTTGTGGACTTAAAAAGAAAAGA
66 CAGAGTTGTGGACTTAAAAGGAAAAGA
** * **
335949 TGCCGTGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGATTTAAAAAGGTGAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTATGGATTTAAAAAGGTGCCA
* *
336014 CAAAGTTATGGACTTAAAAGGAAAAGA
66 CAGAGTTGTGGACTTAAAAGGAAAAGA
336041 TGCCACGGAGTTGTG
1 TGCCACGGAGTTGTG
336056 AGCTTTTAAG
Statistics
Matches: 170, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
90 18 0.11
91 37 0.22
92 48 0.28
93 21 0.12
97 2 0.01
99 27 0.16
100 17 0.10
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.22
Consensus pattern (92 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTATGGATTTAAAAAGGTGCCA
CAGAGTTGTGGACTTAAAAGGAAAAGA
Found at i:336139 original size:33 final size:32
Alignment explanation
Indices: 336063--336185 Score: 151
Period size: 33 Copynumber: 3.8 Consensus size: 32
336053 GTGAGCTTTT
*
336063 AAGAAAAAGGATACCACTGAGTAGTGGTCTTG
1 AAGAAAAAGGATGCCACTGAGTAGTGGTCTTG
* *
336095 --GAAAAGGGATGCCACTGAGTCGTGGTCTTAG
1 AAGAAAAAGGATGCCACTGAGTAGTGGTCTT-G
* * *
336126 AAGAAAAAAGATGCCACTGAGTCGTGGACTTGG
1 AAGAAAAAGGATGCCACTGAGTAGTGGTCTT-G
*
336159 AAGAAAAAGGATTCCACTGAGTAGTGG
1 AAGAAAAAGGATGCCACTGAGTAGTGG
336186 ATTTTTAGGA
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
30 26 0.33
31 1 0.01
33 51 0.65
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (32 bp):
AAGAAAAAGGATGCCACTGAGTAGTGGTCTTG
Found at i:336204 original size:96 final size:96
Alignment explanation
Indices: 336035--336215 Score: 235
Period size: 96 Copynumber: 1.9 Consensus size: 96
336025 ACTTAAAAGG
* **
336035 AAAAGATGCCACGGAGTTGTGAGCTTTTAAGAAAAAGGATACCACTGAGTAGTGGTCTTGGAAAA
1 AAAAGATGCCACGGAGTCGTGAGCTTGGAAGAAAAAGGATACCACTGAGTAGTGGTCTTGGAAAA
*
336100 GGGATGCCACTGAGTCGTGGTCTTAGAAGAA
66 GGGATGCCACGGAGTCGTGGTCTTAGAAGAA
* * *
336131 AAAAGATGCCACTGAGTCGTG-GACTTGGAAGAAAAAGGATTCCACTGAGTAGTGGATTTTTAGG
1 AAAAGATGCCACGGAGTCGTGAG-CTTGGAAGAAAAAGGATACCACTGAGTAGTGG--TCTT-GG
336195 -AAA-GG-TGCCACGGAGTCGTGG
62 AAAAGGGATGCCACGGAGTCGTGG
336216 GCTTTTCGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
95 1 0.01
96 63 0.85
97 2 0.03
98 6 0.08
99 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.23
Consensus pattern (96 bp):
AAAAGATGCCACGGAGTCGTGAGCTTGGAAGAAAAAGGATACCACTGAGTAGTGGTCTTGGAAAA
GGGATGCCACGGAGTCGTGGTCTTAGAAGAA
Found at i:346420 original size:39 final size:39
Alignment explanation
Indices: 346366--346456 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
346356 GGTGAAGGTT
*
346366 GATTTC-TCTAAATGGAAATAAGCACCCTTGA-ATCCCTA
1 GATTTCTTCAAAATGGAAATAAGCACCCTTGAGA-CCCTA
*
346404 GATTTCTTCAAAATGGAAATAGGCACCCTTGAGACCCTA
1 GATTTCTTCAAAATGGAAATAAGCACCCTTGAGACCCTA
*
346443 GATTTCTCCAAAAT
1 GATTTCTTCAAAAT
346457 AATTTTTGCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
38 6 0.12
39 41 0.85
40 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (39 bp):
GATTTCTTCAAAATGGAAATAAGCACCCTTGAGACCCTA
Found at i:346884 original size:22 final size:23
Alignment explanation
Indices: 346840--346884 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
346830 TCATTCCTCA
* *
346840 TCTTTTTCATTATTTTCATTTTTC
1 TCTTTTTCA-TATTTACACTTTTC
346864 TCTTTTTC-TATTTACACTTTT
1 TCTTTTTCATATTTACACTTTT
346885 TATTTCATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
24 8 0.42
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (23 bp):
TCTTTTTCATATTTACACTTTTC
Found at i:350815 original size:156 final size:155
Alignment explanation
Indices: 350305--351392 Score: 733
Period size: 156 Copynumber: 7.0 Consensus size: 155
350295 ATTTTAAGAA
* * * * * * *
350305 AAATTATAAAAATGCCCTTA-GCGGATACCTTCGATGTAAAAGTAT-CCTGACAGCCCTAAAAGA
1 AAATTACAAAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTATCCCGGAC--CCCTAAAGGA
* * * * ** * **
350368 CTTAAAAAGACTCATTAAA-GGGATGAATCTATCCTAAATGCCCATTTTCGACATAAAAGTGGAC
64 CTTAAAAAGACT-A-GAAATGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGAC
** ** * * * *
350432 CTAAG-GACGACCTAGGAGT-TAGTTCTAAA
127 C-CGGTGATAACCTAAGACTCGA-TTCTAAG
* * * * * *
350461 AAATTACTAAAATACCCCTA-CAGGTATACCTTCAACGTAAAAGTATTCCGGCAACCCTAAAGGA
1 AAATTACAAAAATGCCCCTATGA-GTATACCTTCGACGTAAAAGTATCCCGG-ACCCCTAAAGGA
* * * * *
350525 CTTAAAAAGACTAGAAATGGTGATCAACCTATCCTAAATGCCTATCTTCGGCATAAAAGCAGACT
64 CTTAAAAAGACTAGAAAT-GTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACC
* * * *
350590 CGCTGAAAACCTAGGACTCGGTTCTGAA-
128 CGGTGATAACCTAAGACTCGATTCT-AAG
* * * * *
350618 AAATCACAAAAATGCCCCTA-GGGGATACCTTCGACATAAAAGTATCCCAGTACCCCTAAAGGAC
1 AAATTACAAAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTATCCC-GGACCCCTAAAGGAC
* * * * * *
350682 TTAAAAAGATTTGAAATGTGATGAACCTACCCTAACTACCCACCTTTGGCATAAAAGCACACCCG
65 TTAAAAAGACTAGAAATGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCG
* * * *
350747 GTGACAACCTAAGAGTTGGTTCTAAG
130 GTGATAACCTAAGACTCGATTCTAAG
* *
350773 AAATTAAAAAAAGGCCCCTATGAGTATACCTTCGACGTAAAAGTA-CCTC-GACAACCCTAAAGG
1 AAATTACAAAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTATCC-CGGAC--CCCTAAAGG
* * * *
350836 ACTTAAAAAGA-TAGAAGATGGGATAAACCTATCCTAAATGCCCACCTTCAGCATAAAAG-AGGA
63 ACTTAAAAAGACTAGAA-ATGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCA-GA
* *
350899 CCCGGTGATAACCTAGGACTCGATT-TTAG
126 CCCGGTGATAACCTAAGACTCGATTCTAAG
* ** * *
350928 AAAATTACAAAAATGTCTTTATGAGTATACCTTCGACGTAAAAGTAT-CCTGACAACCTTAAAGG
1 -AAATTACAAAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTATCCCGGAC--CCCTAAAGG
* * * *
350992 ACTTAAAAAGACTAGAGAATG-GATGAACCTATCTTAAATACCCACTTTCGGTATAAAAGCGGAC
63 ACTTAAAAAGACTAGA-AATGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGAC
* ** * *
351056 TCGGTGATAACCTAAGACTTTACTCTAAA
127 CCGGTGATAACCTAAGACTCGATTCTAAG
* * * * * * *
351085 AAATTACGAAAATGCCCTTAAGAG-ATACCTTCGATGTGAGAGTATCTCGGTACCCCTAAAGGAC
1 AAATTACAAAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTATCCCGG-ACCCCTAAAGGAC
* * * * * *
351149 TTAAAAAGGACTATAGAA-GGGGTGAACCTATCCTAAATACCCACCTACGGCATGAAAGCGGACC
65 TTAAAAA-GACTAGA-AATGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACC
* * * * * *
351213 TGGTGACAACCTAGGATATAGCTT-TGAA-
128 CGGTGATAACCTAAGA-CTCGATTCT-AAG
** * * * * * * * * *
351241 AAATTATGAAAATACCCCTAGGGGAATACTTTCGACGTGAAAGTATCCCGTTACCCCTGAATGAC
1 AAATTACAAAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTATCCCG-GACCCCTAAAGGAC
* ** * * * * *
351306 TTAAAAAAGGATTTTAAAAGGGATGAACCTATCCTAAAT-GCCATCTTCGGCATAAAAG-TGAAC
65 TT-AAAAA-GACTAGAAATGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAG-AC
*
351369 CCGGTGATAACTTAAGACTCGATT
127 CCGGTGATAACCTAAGACTCGATT
351393 TTGAAAAATT
Statistics
Matches: 746, Mismatches: 152, Indels: 68
0.77 0.16 0.07
Matches are distributed among these distances:
154 4 0.01
155 124 0.17
156 389 0.52
157 192 0.26
158 36 0.05
159 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (155 bp):
AAATTACAAAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTATCCCGGACCCCTAAAGGACT
TAAAAAGACTAGAAATGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGG
TGATAACCTAAGACTCGATTCTAAG
Found at i:351220 original size:468 final size:469
Alignment explanation
Indices: 350484--351408 Score: 1041
Period size: 468 Copynumber: 2.0 Consensus size: 469
350474 ACCCCTACAG
*
350484 GTATACCTTCAACGTAAAAGTATTCCGGCAACCCTAAAGGACTTAAAAAGACTAGAAATGGTGAT
1 GTATACCTTCAACGTAAAAGTATTCCGACAACCCTAAAGGACTTAAAAAGACTAGAAATGGTGAT
* * * **
350549 CAACCTATCCTAAATGCCTATCTTCGGCATAAAAGCAGACTCGCTGAAAACCTAGGACTCGGTTC
66 CAACCTATCCTAAATACCCATCTTCGGCATAAAAGCAGACTCGCTGAAAACCTAAGACTCGACTC
* * *
350614 TGAAAAATCACAAAAATGCCCCTAGGGGATACCTTCGACATAAAAGTATCCCAGTACCCCTAAAG
131 TAAAAAATCACAAAAATGCCCCTAAGAGATACCTTCGACATAAAAGTATCCCAGTACCCCTAAAG
* * * **
350679 GACTTAAAAAGATTTGAAATGTGATGAACCTACCCTAACTACCCACCTTTGGCATAAAAGCACAC
196 GACTTAAAAAGATTAGAAATGGGATGAACCTACCCTAAATACCCACCTACGGCATAAAAGCACAC
* * * *
350744 CCGGTGACAACCTAAGAGT-T-GGTTCT-AAGAAATTAAAAAAAGGCCCCTATGAGTATACCTTC
261 CCGGTGACAACCTAAGA-TATAGCTT-TGAA-AAATTAAAAAAAGACCCCTAGGAGAATACCTTC
*
350806 GACGTAAAAGTA-CCTCGACAACCCTAAAGGACTT-AAAAA-GA-TAGAAGATGGGATAAACCTA
323 GACGTAAAAGTATCC-CGACAACCCTAAAGGACTTAAAAAAGGATTAGAA-AAGGGATAAACCTA
* *
350867 TCCTAAATGCCCACCTTCAGCATAAAAGAGGACCCGGTGATAACCTAGGACTCGATTTT-AGAAA
386 TCCTAAATG-CCACCTTCAGCATAAAAGAGAACCCGGTGATAACCTAAGACTCGATTTTGA-AAA
350931 ATTACAAAAATGTCTTTATGA
449 ATTACAAAAATGTCTTTATGA
* *
350952 GTATACCTTCGACGTAAAAGTA-TCCTGACAACCTTAAAGGACTTAAAAAGACTAGAGAAT-G-G
1 GTATACCTTCAACGTAAAAGTATTCC-GACAACCCTAAAGGACTTAAAAAGACTAGA-AATGGTG
* * * * * * **
351014 ATGAACCTATCTTAAATACCCA-CTTTCGGTATAAAAGCGGACTCGGTGATAACCTAAGACTTTA
64 ATCAACCTATCCTAAATACCCATC-TTCGGCATAAAAGCAGACTCGCTGAAAACCTAAGACTCGA
* * * ** * * * *
351078 CTCTAAAAAATTACGAAAATGCCCTTAAGAGATACCTTCGATGTGAGAGTATCTCGGTACCCCTA
128 CTCTAAAAAATCACAAAAATGCCCCTAAGAGATACCTTCGACATAAAAGTATCCCAGTACCCCTA
* * *
351143 AAGGACTTAAAAAGGACTATAG-AA-GGGGTGAACCTATCCTAAATACCCACCTACGGCATGAAA
193 AAGGACTTAAAAA-GA-T-TAGAAATGGGATGAACCTACCCTAAATACCCACCTACGGCATAAAA
** * * ** * * *
351206 GCGGACCTGGTGACAACCTAGGATATAGCTTTGAAAAATTATGAAAATACCCCTAGGGGAATACT
255 GCACACCCGGTGACAACCTAAGATATAGCTTTGAAAAATTAAAAAAAGACCCCTAGGAGAATACC
* ** * * * ** *
351271 TTCGACGTGAAAGTATCCCGTTACCCCTGAATGACTTAAAAAAGGATTTTAAAAGGGATGAACCT
320 TTCGACGTAAAAGTATCCCGACAACCCTAAAGGACTTAAAAAAGGATTAGAAAAGGGATAAACCT
* * * *
351336 ATCCTAAATGCCATCTTCGGCATAAAAGTGAACCCGGTGATAACTTAAGACTCGATTTTGAAAAA
385 ATCCTAAATGCCACCTTCAGCATAAAAGAGAACCCGGTGATAACCTAAGACTCGATTTTGAAAAA
*
351401 TTAGAAAA
450 TTACAAAA
351409 TGCTCATAAG
Statistics
Matches: 377, Mismatches: 66, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
466 1 0.00
467 120 0.32
468 155 0.41
469 72 0.19
470 26 0.07
471 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (469 bp):
GTATACCTTCAACGTAAAAGTATTCCGACAACCCTAAAGGACTTAAAAAGACTAGAAATGGTGAT
CAACCTATCCTAAATACCCATCTTCGGCATAAAAGCAGACTCGCTGAAAACCTAAGACTCGACTC
TAAAAAATCACAAAAATGCCCCTAAGAGATACCTTCGACATAAAAGTATCCCAGTACCCCTAAAG
GACTTAAAAAGATTAGAAATGGGATGAACCTACCCTAAATACCCACCTACGGCATAAAAGCACAC
CCGGTGACAACCTAAGATATAGCTTTGAAAAATTAAAAAAAGACCCCTAGGAGAATACCTTCGAC
GTAAAAGTATCCCGACAACCCTAAAGGACTTAAAAAAGGATTAGAAAAGGGATAAACCTATCCTA
AATGCCACCTTCAGCATAAAAGAGAACCCGGTGATAACCTAAGACTCGATTTTGAAAAATTACAA
AAATGTCTTTATGA
Found at i:351246 original size:312 final size:307
Alignment explanation
Indices: 350302--351363 Score: 935
Period size: 312 Copynumber: 3.4 Consensus size: 307
350292 CTAATTTTAA
* * * *
350302 GAAAAATTATAAAAATGCCCTTAGCGGATACCTTCGATGTAAAAGTATCCTGACAGCCCTAAAAG
1 GAAAAATTACAAAAATGCCCTTAGAGGATACCTTCGACGTAAAAGTATCCTGACA-CCCTAAAGG
* * * * * * *
350367 ACTTAAAAAGACTCATTAAAGGGATGAATCTATCCTAAATGCCCATTTTCGACATAAAAGTGGAC
65 ACTTAAAAAGACT-A-GAAATGGATGAACCTATCCTAAATACCCACTTTCGGCATAAAAGCGGA-
** * * * * * *
350432 CTAAG-GACGACCTAGGAGTTAGTTCTAAAAAATTACTAAAATACCCCTACAG-GTATACCTTCA
127 CTCGGTGACAACCTAAGATTTA-TTCTAAAAAATTACAAAAATGCCCCTA-AGAGTATACCTTCG
* *
350495 ACGTAAAAGTAT-TCCGGCAACCCTAAAGGACTTAAAAAGACTAGAA-ATGGTGATCAACCTATC
190 ACGTAAAAGTATCT-CGGCAACCCTAAAGGACTTAAAAAGACTA-AAGAAGG-GATAAACCTATC
* * * * *
350558 CTAAATGCCTATCTTCGGCATAAAAGCAGA-CTCGCTGAAAACCTAGGACTCGGTTCT
252 CTAAATGCCCACCTTCGGCATAAAAGCGGACCT-GGTGAAAACCTAGGACTCGATT-T
* * * * *
350615 GAAAAATCACAAAAATGCCCCTAGGGGATACCTTCGACATAAAAGTATCCCAGTAC-CCCTAAAG
1 GAAAAATTACAAAAATGCCCTTAGAGGATACCTTCGACGTAAAAGTAT-CCTG-ACACCCTAAAG
* * * * **
350679 GACTTAAAAAGATTTGAAATGTGATGAACCTACCCTAACTACCCACCTTT-GGCATAAAAGCACA
64 GACTTAAAAAGACTAGAAATG-GATGAACCTATCCTAAATACCCA-CTTTCGGCATAAAAGCGGA
* ** * * * *
350743 CCCGGTGACAACCTAAGAGTTGGTTCTAAGAAATTAAAAAAAGGCCCCTATGAGTATACCTTCGA
127 CTCGGTGACAACCTAAGA-TTTATTCTAAAAAATTACAAAAATGCCCCTAAGAGTATACCTTCGA
* * *
350808 CGTAAAAGTACCTCGACAACCCTAAAGGACTTAAAAAGA-TAGAAGATGGGATAAACCTATCCTA
191 CGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAAGACTA-AAGAAGGGATAAACCTATCCTA
* * * *
350872 AATGCCCACCTTCAGCATAAAAGAGGACCCGGTGATAACCTAGGACTCGATTT
255 AATGCCCACCTTCGGCATAAAAGCGGACCTGGTGAAAACCTAGGACTCGATTT
* * * * *
350925 TAGAAAATTACAAAAATGTCTTTATGAGTATACCTTCGACGTAAAAGTATCCTGACAACCTTAAA
1 GA-AAAATTACAAAAATGCCCTTA-GAGGATACCTTCGACGTAAAAGTATCCTGAC-ACCCTAAA
* *
350990 GGACTTAAAAAGACTAGAGAATGGATGAACCTATCTTAAATACCCACTTTCGGTATAAAAGCGGA
63 GGACTTAAAAAGACTAGA-AATGGATGAACCTATCCTAAATACCCACTTTCGGCATAAAAGCGGA
* * * *
351055 CTCGGTGATAACCTAAGACTTTACTCTAAAAAATTACGAAAATGCCCTTAAGAG-ATACCTTCGA
127 CTCGGTGACAACCTAAGA-TTTATTCTAAAAAATTACAAAAATGCCCCTAAGAGTATACCTTCGA
* * * * * * * *
351119 TGTGAGAGTATCTCGGTACCCCTAAAGGACTTAAAAAGGACTATAGAAGGGGTGAACCTATCCTA
191 CGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAA-GACTAAAGAAGGGATAAACCTATCCTA
* * * * * * *
351184 AATACCCACCTACGGCATGAAAGCGGACCTGGTGACAACCTAGGATATAGCTTT
255 AATGCCCACCTTCGGCATAAAAGCGGACCTGGTGAAAACCTAGGA-CTCGATTT
** * * * * * * *
351238 GAAAAATTATGAAAATACCCCTAGGGGAATACTTTCGACGTGAAAGTATCCCGTTAC-CCCTGAA
1 GAAAAATTACAAAAATGCCCTTAGAGG-ATACCTTCGACGTAAAAGTAT-CC-TGACACCCTAAA
* * * *
351302 TGACTTAAAAAAGGATTTTA-AAAGGGATGAACCTATCCTAAAT-GCCA-TCTTCGGCATAAAAG
63 GGACTT-AAAAA-GA--CTAGAAATGGATGAACCTATCCTAAATACCCACT-TTCGGCATAAAAG
351364 TGAACCCGGT
Statistics
Matches: 603, Mismatches: 119, Indels: 54
0.78 0.15 0.07
Matches are distributed among these distances:
310 4 0.01
311 133 0.22
312 332 0.55
313 101 0.17
314 28 0.05
315 3 0.00
316 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (307 bp):
GAAAAATTACAAAAATGCCCTTAGAGGATACCTTCGACGTAAAAGTATCCTGACACCCTAAAGGA
CTTAAAAAGACTAGAAATGGATGAACCTATCCTAAATACCCACTTTCGGCATAAAAGCGGACTCG
GTGACAACCTAAGATTTATTCTAAAAAATTACAAAAATGCCCCTAAGAGTATACCTTCGACGTAA
AAGTATCTCGGCAACCCTAAAGGACTTAAAAAGACTAAAGAAGGGATAAACCTATCCTAAATGCC
CACCTTCGGCATAAAAGCGGACCTGGTGAAAACCTAGGACTCGATTT
Found at i:353106 original size:17 final size:16
Alignment explanation
Indices: 353074--353108 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
353064 AAAAATATTT
*
353074 TCTTTTCTTTTTCTTC
1 TCTTTTCTTCTTCTTC
353090 TCTTTTCCTTCTTCTTC
1 TCTTTT-CTTCTTCTTC
353107 TC
1 TC
353109 GTGAATTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TCTTTTCTTCTTCTTC
Found at i:353500 original size:21 final size:21
Alignment explanation
Indices: 353474--353513 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
353464 TCTTTCTTCA
*
353474 GCTGCTGCAGTTTCTGTTGCT
1 GCTGCTGCAGTTGCTGTTGCT
*
353495 GCTGCTGGAGTTGCTGTTG
1 GCTGCTGCAGTTGCTGTTG
353514 GTGTTCGCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.20, G:0.35, T:0.40
Consensus pattern (21 bp):
GCTGCTGCAGTTGCTGTTGCT
Found at i:354069 original size:15 final size:15
Alignment explanation
Indices: 354036--354079 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
354026 TTTTCTTATC
* *
354036 TTTCTTTGTT-TTGT
1 TTTCTTTTTTATTTT
354050 TTTCTTTTTTATTTT
1 TTTCTTTTTTATTTT
*
354065 TTTCTTTTTAATTTT
1 TTTCTTTTTTATTTT
354080 ATTTTCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTTATTTT
Found at i:354389 original size:15 final size:16
Alignment explanation
Indices: 354371--354400 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
354361 TATCACAAGT
354371 AAAAAAATAA-AAATC
1 AAAAAAATAAGAAATC
354386 AAAAAAATAAGAAAT
1 AAAAAAATAAGAAAT
354401 AAATTTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAATAAGAAATC
Found at i:355802 original size:16 final size:16
Alignment explanation
Indices: 355789--355842 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 16
355779 TTAAAAAAAC
355789 AAAAAGAAAAAAAATA
1 AAAAAGAAAAAAAATA
*
355805 TAAAAG--AAAAAATA
1 AAAAAGAAAAAAAATA
*
355819 AAAAATAAAAAAATATA
1 AAAAAGAAAAAAA-ATA
*
355836 TAAAAGA
1 AAAAAGA
355843 TGTGCATGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
14 12 0.40
16 10 0.33
17 8 0.27
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (16 bp):
AAAAAGAAAAAAAATA
Found at i:355814 original size:21 final size:21
Alignment explanation
Indices: 355782--355830 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
355772 ATCTTGTTTA
* *
355782 AAAAAACAAAAAGAAAAAAAAT
1 AAAAAAGAAAAA-ATAAAAAAT
*
355804 ATAAAAGAAAAAATAAAAAAT
1 AAAAAAGAAAAAATAAAAAAT
355825 AAAAAA
1 AAAAAA
355831 ATATATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.86, C:0.02, G:0.04, T:0.08
Consensus pattern (21 bp):
AAAAAAGAAAAAATAAAAAAT
Found at i:356661 original size:25 final size:24
Alignment explanation
Indices: 356620--356666 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
356610 TAATATATTC
*
356620 TTTCTATTATTAGTTTTTGTTATAT
1 TTTCTATTATTA-CTTTTGTTATAT
356645 TTTCTATCT-TTACTTTTGTTAT
1 TTTCTAT-TATTACTTTTGTTAT
356667 TTATGTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 10 0.50
26 1 0.05
ACGTcount: A:0.17, C:0.09, G:0.06, T:0.68
Consensus pattern (24 bp):
TTTCTATTATTACTTTTGTTATAT
Found at i:362483 original size:16 final size:16
Alignment explanation
Indices: 362462--362495 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
362452 CTAATATATA
362462 TTATAAAGTTAGAGAT
1 TTATAAAGTTAGAGAT
362478 TTATAAAGTTAGAGAT
1 TTATAAAGTTAGAGAT
362494 TT
1 TT
362496 TCAAACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (16 bp):
TTATAAAGTTAGAGAT
Found at i:365711 original size:2 final size:2
Alignment explanation
Indices: 365704--365750 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
365694 ATGACATTAG
**
365704 AT AT AT AT AT AT AT AT AT AT GC AT AT AT AT A- AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
365744 AT AT AT A
1 AT AT AT A
365751 ATACAAAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:366360 original size:65 final size:66
Alignment explanation
Indices: 366291--366553 Score: 232
Period size: 65 Copynumber: 4.0 Consensus size: 66
366281 GGAAAATATG
* *
366291 AGTTCAACTTAAATAG-AAAAATACCTAGACGCAATCCCTAGGCTCAACTCATTTGGAAAAAGAA
1 AGTTCAACTTAAATAGAAAAAATACCTAGACGCAATCCCTAGGCTTAACTCATTTGAAAAAAGAA
366355 A
66 A
* * * * *
366356 AGTTCAACTTAAA-A-AAAAAAGACCTAGATAGCAATCCCTAGGCTTGAAC-CATTAGGAAATA-
1 AGTTCAACTTAAATAGAAAAAATACCTAGA-CGCAATCCCTAGGCTT-AACTCATTTGAAAAAAG
*
366417 ATA
64 AAA
** * * * *
366420 AGTTTGACTTAAATAGAAAAAAATACCTAGACG-ATAACCTTTAAGCTTGACTCATTTAGAAAAA
1 AGTTCAACTTAAATAG-AAAAAATACCTAGACGCA-ATCC-CTAGGCTTAACTCATTT-GAAAAA
*
366484 AGACA
62 AGAAA
* ** * * *
366489 GGTTTGACTTAAAGAGAAAAAAAACTTAGACGACAATCCCTAGGCTTAACTCATTTGAAAAAAGA
1 AGTTCAACTTAAATAGAAAAAATACCTAGACG-CAATCCCTAGGCTTAACTCATTTGAAAAAAGA
366554 TGAGTTTGAC
Statistics
Matches: 159, Mismatches: 26, Indels: 24
0.76 0.12 0.11
Matches are distributed among these distances:
64 26 0.16
65 39 0.25
66 9 0.06
67 32 0.20
68 33 0.21
69 19 0.12
70 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (66 bp):
AGTTCAACTTAAATAGAAAAAATACCTAGACGCAATCCCTAGGCTTAACTCATTTGAAAAAAGAA
A
Found at i:366565 original size:67 final size:67
Alignment explanation
Indices: 366297--366568 Score: 263
Period size: 67 Copynumber: 4.1 Consensus size: 67
366287 TATGAGTTCA
* * * *
366297 ACTTAAATAG-AAAAATACCTAGACG-CAATCCCTAGGCTCAACTCATTTGGAAAAAGAAAAGTT
1 ACTTAAATAGAAAAAAAACCTAGACGACAATCCCTAGGCTTAACTCATTTGAAAAAAGATAAGTT
**
366360 CA
66 TG
* * * * *
366362 ACTTAAA-A-AAAAAAGACCTAGA-TAGCAATCCCTAGGCTTGAAC-CATTAGGAAATA-ATAAG
1 ACTTAAATAGAAAAAAAACCTAGACGA-CAATCCCTAGGCTT-AACTCATTTGAAAAAAGATAAG
366422 TTTG
64 TTTG
* * * * * *
366426 ACTTAAATAGAAAAAAATACCTAGACGATAA-CCTTTAAGCTTGACTCATTTAGAAAAAAGACAG
1 ACTTAAATAGAAAAAAA-ACCTAGACGACAATCC-CTAGGCTTAACTCATTT-GAAAAAAGATAA
366490 GTTTG
63 GTTTG
* * *
366495 ACTTAAAGAGAAAAAAAACTTAGACGACAATCCCTAGGCTTAACTCATTTGAAAAAAGATGAGTT
1 ACTTAAATAGAAAAAAAACCTAGACGACAATCCCTAGGCTTAACTCATTTGAAAAAAGATAAGTT
366560 TG
66 TG
366562 ACTTAAA
1 ACTTAAA
366569 AGGAAAGCAT
Statistics
Matches: 166, Mismatches: 28, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
64 26 0.16
65 31 0.19
66 13 0.08
67 40 0.24
68 31 0.19
69 25 0.15
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (67 bp):
ACTTAAATAGAAAAAAAACCTAGACGACAATCCCTAGGCTTAACTCATTTGAAAAAAGATAAGTT
TG
Found at i:369232 original size:20 final size:21
Alignment explanation
Indices: 369190--369241 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
369180 TTCTACAATT
*
369190 TGTATCGATACACCAAGTTAA
1 TGTATCGATACACCAAGTGAA
*
369211 TGTATCGATACA-TAAGTGAA
1 TGTATCGATACACCAAGTGAA
369231 TGTATCGATAC
1 TGTATCGATAC
369242 TGGACCTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (21 bp):
TGTATCGATACACCAAGTGAA
Found at i:369323 original size:21 final size:20
Alignment explanation
Indices: 369299--369357 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
369289 TATATAAGTG
369299 AATGTATCAATACATTCTTGC
1 AATGTATCAATACATTCTT-C
* * *
369320 AATGTATCGATGCATTATTC
1 AATGTATCAATACATTCTTC
*
369340 ATTGTATCAATACATTCT
1 AATGTATCAATACATTCT
369358 AGGTTTTTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (20 bp):
AATGTATCAATACATTCTTC
Found at i:370262 original size:20 final size:22
Alignment explanation
Indices: 370232--370276 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
370222 CTTGATGCCA
370232 TTTGTGCCCATGTT-CATACAT
1 TTTGTGCCCATGTTCCATACAT
*
370253 TTTGTG-CCATGTTCCATGCAT
1 TTTGTGCCCATGTTCCATACAT
370274 TTT
1 TTT
370277 AACATGTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.47
Consensus pattern (22 bp):
TTTGTGCCCATGTTCCATACAT
Found at i:372702 original size:51 final size:51
Alignment explanation
Indices: 372589--372706 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
372579 TGAAATAACA
* *
372589 AGGTTAGAGTATCCCCGATTGTAAAAAATTGATGTTCTGGAAATAAAATCG
1 AGGTTAGAGTATCCCCGATTATAAAAAATTGATGTTCTAGAAATAAAATCG
* * * ** *
372640 AAGCTAAAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATC-
1 AGGTTAGAGTATCCCCGATTATAAAAAATTGATGTTCTAGAAATAAAATCG
*
372690 AGGGTTGGAGTATCCCC
1 A-GGTTAGAGTATCCCC
372707 TTCGAAAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (51 bp):
AGGTTAGAGTATCCCCGATTATAAAAAATTGATGTTCTAGAAATAAAATCG
Found at i:372778 original size:79 final size:80
Alignment explanation
Indices: 372647--372943 Score: 331
Period size: 79 Copynumber: 3.8 Consensus size: 80
372637 TCGAAGCTAA
*
372647 AGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTTCGA
1 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTTCGA
* *
372712 AAA-AACGGGGTTAG
66 AAATAACAGGGTTGG
* * * *
372726 AGTATTCCCGATTATAAAAAATT-AGTGTTTT-GAAAATAAAATCGGGGTTGGAGTAT-TCCTTC
1 AGTATCCCCGATTATGAAAAATTGA-TGTTTTAG-AAATAAAATCAGGGTTGGAGTATCCCCTTC
*
372788 AAAAATAACAGGGTTGG
64 GAAAATAACAGGGTTGG
* * * ** *
372805 AGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAAT-AAGGCTAGGGTTGGAGTATCCCCGT-G
1 AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATC-AGGGTTGGAGTATCCCCTTCG
372868 AAAATAACAGGGTTGG
65 AAAATAACAGGGTTGG
* * * *
372884 AGTATCCCCGATTGTGAGAAATTGGTGTTTT-GAAAATAAAATC-GGAGTTAGAGTATCCCC
1 AGTATCCCCGATTATGAAAAATTGATGTTTTAG-AAATAAAATCAGG-GTTGGAGTATCCCC
372944 GATTGTGAAA
Statistics
Matches: 182, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
78 17 0.09
79 157 0.86
80 8 0.04
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (80 bp):
AGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTTCGA
AAATAACAGGGTTGG
Found at i:372812 original size:158 final size:158
Alignment explanation
Indices: 372647--372939 Score: 410
Period size: 158 Copynumber: 1.9 Consensus size: 158
372637 TCGAAGCTAA
* * * * *
372647 AGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAA-ATCAGGGTTGGAGTATCCCCTTCG
1 AGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAAGCT-AGGGTTGGAGTATCCCCGT-G
* * *
372711 AAAA-AACGGGGTTAGAGTATTCCCGATTATAAAAAATTAGTGTTTTGAAAATAAAATCGGGGTT
64 AAAATAACAGGGTTAGAGTATCCCCGATTATAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTT
*
372775 GGAGTATTCCTTCAAAAATAACAGGGTTGG
129 AGAGTATTCCTTCAAAAATAACAGGGTTGG
* *
372805 AGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCTAGGGTTGGAGTATCCCCGTGAA
1 AGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAAGCTAGGGTTGGAGTATCCCCGTGAA
* * * * *
372870 AATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGAAAATAAAATCGGAGTTAG
66 AATAACAGGGTTAGAGTATCCCCGATTATAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTAG
372935 AGTAT
131 AGTAT
372940 CCCCGATTGT
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
157 5 0.04
158 111 0.95
159 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (158 bp):
AGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAAGCTAGGGTTGGAGTATCCCCGTGAA
AATAACAGGGTTAGAGTATCCCCGATTATAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTAG
AGTATTCCTTCAAAAATAACAGGGTTGG
Found at i:372942 original size:51 final size:51
Alignment explanation
Indices: 372883--372991 Score: 166
Period size: 51 Copynumber: 2.1 Consensus size: 51
372873 AACAGGGTTG
* *
372883 GAGTATCCCCGATTGTGAGAAATTGGTGTTTT-GAAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGTGAAAAATTGGTATTTTAG-AAATAAAATCGGAGTTA
* *
372934 GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGAGTTA
372985 GAGTATC
1 GAGTATC
372992 TCCTCGAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 52 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGAGTTA
Found at i:373075 original size:109 final size:107
Alignment explanation
Indices: 372934--373210 Score: 299
Period size: 109 Copynumber: 2.6 Consensus size: 107
372924 ATCGGAGTTA
* * *** *
372934 GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCTCCTCGA
1 GAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGA
* **
372999 AAATAACAGGATT-GAAGTATCTC-CGATGACATAACGGGGTTG
66 AAATAACAGGATTAG-AGTATC-CACGATGAAATAACAAGGTTG
* * * **
373041 GGGTA-CCCTCGATTATGAAAAAAATCAATATTTTAGATATAAAGCCGGGGTTGGAGTATCCCCT
1 GAGTATCCC-CAATTATG--AAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
* *
373105 CGGAAATAACAGGGTTAGAGTATCCACGATGAAATAACAAGGTTG
63 CGAAAATAACAGGATTAGAGTATCCACGATGAAATAACAAGGTTG
* * * * *
373150 GAGTATTCCCAATTGTGAAAAATCGATATTTTAGAAATAAAATCGGAGTTAGAGTATCCCC
1 GAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
373211 GATTGCGGTA
Statistics
Matches: 140, Mismatches: 24, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
106 3 0.02
107 49 0.35
108 1 0.01
109 84 0.60
110 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (107 bp):
GAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGA
AAATAACAGGATTAGAGTATCCACGATGAAATAACAAGGTTG
Found at i:373289 original size:51 final size:50
Alignment explanation
Indices: 373146--373310 Score: 179
Period size: 51 Copynumber: 3.2 Consensus size: 50
373136 AAATAACAAG
* * * *
373146 GTTGGAGTATTCCCAATTGTGAAAAATCGATATTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATCGAT-GTTTAGAAATAAAATCGGA
* * **
373197 GTTAGAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATCGATG-TTTAGAAATAAAATCGGA
* * * *
373248 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTAGGAAATGAAACTGGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATCGATGTTTA-GAAAT-AAAATCGGA
373300 -TTGGAGTATCC
1 GTTGGAGTATCC
373311 TCGAGATGAA
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
50 4 0.04
51 85 0.89
52 7 0.07
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGAGAAAAATCGATGTTTAGAAATAAAATCGGA
Found at i:375700 original size:20 final size:20
Alignment explanation
Indices: 375675--375728 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
375665 GTATCGATAT
* *
375675 AATGTATCGATATAATG-AGC
1 AATGTATCGATACAATGCA-A
375695 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
375715 AATGTATCGATACA
1 AATGTATCGATACA
375729 TCTGGGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:375710 original size:13 final size:13
Alignment explanation
Indices: 375662--375691 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
375652 GTAAATCTAG
375662 AATGTATCGATAT
1 AATGTATCGATAT
375675 AATGTATCGATAT
1 AATGTATCGATAT
375688 AATG
1 AATG
375692 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:375750 original size:82 final size:80
Alignment explanation
Indices: 375613--375771 Score: 237
Period size: 82 Copynumber: 2.0 Consensus size: 80
375603 AAAATGCCTG
* * * * *
375613 AATGTATCGATACATTGTAAAATGTATCGATACATCTAGGTAAATCTAGAATGTATCGATATAAT
1 AATGTATCGATACAATGCAAAATGTATCGATACATCTAGGTAAACCCAGAATGTATCGATACAA-
*
375678 GTATCGATATAATGAGC
65 -TATCGATACAATGAGC
*
375695 AATGTATCGATACAATGCAAAATGTATCGATACATCTGGGTAAACCCAGAATGTATCGATACAAT
1 AATGTATCGATACAATGCAAAATGTATCGATACATCTAGGTAAACCCAGAATGTATCGATACAAT
375760 ATCGATACAATG
66 ATCGATACAATG
375772 TATCGATACA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
80 12 0.17
82 58 0.83
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (80 bp):
AATGTATCGATACAATGCAAAATGTATCGATACATCTAGGTAAACCCAGAATGTATCGATACAAT
ATCGATACAATGAGC
Found at i:375764 original size:11 final size:12
Alignment explanation
Indices: 375747--375782 Score: 56
Period size: 11 Copynumber: 3.0 Consensus size: 12
375737 AACCCAGAAT
375747 GTATCGATACAA
1 GTATCGATACAA
375759 -TATCGATACAA
1 GTATCGATACAA
375770 TGTATCGATACAA
1 -GTATCGATACAA
375783 AAATTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (12 bp):
GTATCGATACAA
Found at i:375777 original size:13 final size:13
Alignment explanation
Indices: 375744--375782 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
375734 GTAAACCCAG
375744 AATGTATCGATAC
1 AATGTATCGATAC
375757 AA--TATCGATAC
1 AATGTATCGATAC
375768 AATGTATCGATAC
1 AATGTATCGATAC
375781 AA
1 AA
375783 AAATTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.46
13 13 0.54
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:377411 original size:21 final size:21
Alignment explanation
Indices: 377364--377403 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
377354 CTACTGCCAA
377364 GGAAATGTATCGATACATTAC
1 GGAAATGTATCGATACATTAC
**
377385 TCAAATGTATCGATACATT
1 GGAAATGTATCGATACATT
377404 TGGGAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
GGAAATGTATCGATACATTAC
Found at i:377465 original size:53 final size:53
Alignment explanation
Indices: 377366--377467 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
377356 ACTGCCAAGG
** *
377366 AAATGTATCGATACATTACTCAAATGTATCGATACATTTGGGAAATTTTACCC
1 AAATGTATCGATACATTACTCAAATGTATCGATACATCAGGCAAATTTTACCC
* *
377419 AAATGTATCGATACATTATTC-ATTGTATCGATACATGCAGGCAAATTTT
1 AAATGTATCGATACATTACTCAAATGTATCGATACAT-CAGGCAAATTTT
377468 CATATTTCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 14 0.33
53 29 0.67
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (53 bp):
AAATGTATCGATACATTACTCAAATGTATCGATACATCAGGCAAATTTTACCC
Found at i:385530 original size:16 final size:17
Alignment explanation
Indices: 385505--385542 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
385495 TTGTGCTGTA
* *
385505 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
385521 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
385538 ATCAT
1 ATCAT
385543 TATTTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:385687 original size:31 final size:30
Alignment explanation
Indices: 385647--385813 Score: 203
Period size: 31 Copynumber: 5.5 Consensus size: 30
385637 ATACCATCTT
* *
385647 AAAGTCCACGACTCAGGGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
* *
385678 AAAGCCCACGACTCAGTGGCAT-TTTGTCCC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
*
385708 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTC-TC
385739 AAAGTCCACGACTCAGTGGCATCTCTTTC-C
1 AAAGTCCACGACTCAGTGGCATCT-TTTCTC
*
385769 AAAGTCCACGACTCAGTGTCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTC-TC
* *
385800 AAAGCCCACAACTC
1 AAAGTCCACGACTC
385814 CGTGACACCT
Statistics
Matches: 120, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
29 6 0.05
30 52 0.43
31 58 0.48
32 4 0.03
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTC
Found at i:385717 original size:30 final size:30
Alignment explanation
Indices: 385647--385796 Score: 187
Period size: 30 Copynumber: 4.9 Consensus size: 30
385637 ATACCATCTT
* * *
385647 AAAGTCCACGACTCAGGGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCCC
*
385678 AAAGCCCACGACTCAGTGGCAT-TTTGTCCC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCCC
* *
385708 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTC-CC
385739 AAAGTCCACGACTCAGTGGCATCTCTTT-CC
1 AAAGTCCACGACTCAGTGGCATCT-TTTCCC
*
385769 AAAGTCCACGACTCAGTGTCATCTTTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTC
385797 TTCAAAGCCC
Statistics
Matches: 105, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
29 5 0.05
30 52 0.50
31 45 0.43
32 3 0.03
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCCC
Found at i:385722 original size:61 final size:61
Alignment explanation
Indices: 385647--385813 Score: 232
Period size: 61 Copynumber: 2.7 Consensus size: 61
385637 ATACCATCTT
* *
385647 AAAGTCCACGACTCAGGGGCAATCTCTTC-TCAAAGCCCACGACTCAGTGGCAT-T-TTGTCCC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTTCAAAGCCCACGACTCAGTGGCATCTCTT-T-CC
* *
385708 AAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGCCCACGACTCAGTGGCATCTCTTTCC
* *
385769 AAAGTCCACGACTCAGTGTCATCTTTTCTTCAAAGCCCACAACTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGCCCACGACTC
385814 CGTGACACCT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
60 6 0.06
61 85 0.89
62 2 0.02
63 2 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGCCCACGACTCAGTGGCATCTCTTTCC
Found at i:385837 original size:34 final size:34
Alignment explanation
Indices: 385797--386073 Score: 243
Period size: 34 Copynumber: 7.8 Consensus size: 34
385787 TCATCTTTTC
*
385797 TTCAAAGCCCACAACTCCGTGACACCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
385831 TTCAAAGCCCACAACTCCTGTGGCACCTTTTTCTTT
1 TTCAAAGCCCACAACTCC-GTGGCACCTTTTTC-TT
* * * * *
385867 TCTCCAAAGTCCATAACTCGGTGACACATTTTTCTT
1 T-T-CAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* * *
385903 TTCAAAGCCCACCACTCTGTGGCACATTTTTCTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTC-TT
* *
385938 TCTCCAAAGCCCATAAATCCGTGGCACCTTTTTCTT
1 T-T-CAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* *
385974 TTTAAAGCCTACAACTCCGTGGCACTCTTTTTCCCTT
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
* * * * *
386011 TT--AAGTCCACAACTCTGTAGCATCTTTCTCCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTT-TTCTT
* *
386044 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
1 TTC-AAAGCCCACAACTCCGTGGC-ACCTT
386074 CAAAAGCCCA
Statistics
Matches: 197, Mismatches: 31, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
33 5 0.03
34 66 0.34
35 41 0.21
36 25 0.13
37 47 0.24
38 13 0.07
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (34 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
Found at i:385904 original size:72 final size:72
Alignment explanation
Indices: 385790--386006 Score: 312
Period size: 71 Copynumber: 3.0 Consensus size: 72
385780 CTCAGTGTCA
* *
385790 TCTTTTCTTCAAAGCCCACAACTCCGTGACACCTTTTTCTTTTCAAAGCCCACAACTCCTGTGGC
1 TCTTTTCTCCAAAGCCCATAACTCCGTGACACCTTTTTCTTTTCAAAGCCCACAACTCCTGTGGC
385855 ACCTTTT
66 ACCTTTT
* * * *
385862 TCTTTTCTCCAAAGTCCATAACTCGGTGACACATTTTTCTTTTCAAAGCCCACCACT-CTGTGGC
1 TCTTTTCTCCAAAGCCCATAACTCCGTGACACCTTTTTCTTTTCAAAGCCCACAACTCCTGTGGC
*
385926 ACATTTT
66 ACCTTTT
* * * *
385933 TCTTTTCTCCAAAGCCCATAAATCCGTGGCACCTTTTTCTTTTTAAAGCCTACAACTCC-GTGGC
1 TCTTTTCTCCAAAGCCCATAACTCCGTGACACCTTTTTCTTTTCAAAGCCCACAACTCCTGTGGC
385997 ACTCTTTT
66 AC-CTTTT
386005 TC
1 TC
386007 CCTTTTAAGT
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
71 69 0.54
72 58 0.46
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (72 bp):
TCTTTTCTCCAAAGCCCATAACTCCGTGACACCTTTTTCTTTTCAAAGCCCACAACTCCTGTGGC
ACCTTTT
Found at i:386165 original size:49 final size:49
Alignment explanation
Indices: 386105--386963 Score: 815
Period size: 49 Copynumber: 17.8 Consensus size: 49
386095 GGCATCTTCT
*
386105 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
* * * *
386154 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC-AC-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
* * *
386197 TTTAAGTCCAATATCGCTTGCCTTGAATTAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
* * * *
386246 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC-AC-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
* * *
386289 TTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
* * * *
386338 TTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGC-AC-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
**
386381 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
* * * * * *
386430 TTTCAGACCAATGTCGCTGGCCTTGAATCAACACATTGGC-AC-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
* * *
386473 TTTAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
* * * * * * *
386522 TTTAAGACCAATGTCGCTAGCCTTGAATCAACACAGTGGC-AC-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
386565 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG---TC
* * * **
386617 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
386667 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG---TC
* * * * **
386719 TTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
*
386769 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG---TC
* * * **
386821 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
* *
386871 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG---TC
** * * *
386923 TTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGC
1 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
386964 ATTCTTTTCA
Statistics
Matches: 660, Mismatches: 104, Indels: 88
0.77 0.12 0.10
Matches are distributed among these distances:
43 178 0.27
44 5 0.01
48 5 0.01
49 300 0.45
50 6 0.01
52 10 0.02
53 156 0.24
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
Found at i:386262 original size:92 final size:92
Alignment explanation
Indices: 386105--386964 Score: 1162
Period size: 92 Copynumber: 9.0 Consensus size: 92
386095 GGCATCTTCT
*
386105 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTTAAGACCAATGTCG
386170 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
386197 TTTAAGTCCAATATCGCTTGCCTTGAATTAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTTAAGACCAATGTCG
386262 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
386289 TTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTTAAGACCAATGTCG
* *
386354 TTGGCCTTGAATCAGCATATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
** *
386381 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTTGTCTTTCAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTTAAGACCAATGTCG
*
386446 CTGGCCTTGAATCAACACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
386473 TTTAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTTAAGACCAATGTCG
* * *
386538 CTAGCCTTGAATCAACACAGTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
*
386565 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG---TC-TTTAAGACCAAT
386630 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
62 GTCGCTGGCCTTGAATCAGCACATTGGCA----C--C
*
386667 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG---TC-TTTAAGACCAAT
*
386732 GTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
62 GTCGCTGGCCTTGAATCAGCACATTGGCA----C--C
* *
386769 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG---TC-TTTAAGACCAAT
386834 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
62 GTCGCTGGCCTTGAATCAGCACATTGGCA----C--C
* * *
386871 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAAACCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG---TCTTTAAGA-CCAAT
*
386936 GTCGTTGGCCTTGAATCAGCACATTGGCA
62 GTCGCTGGCCTTGAATCAGCACATTGGCA
386965 TTCTTTTCAT
Statistics
Matches: 718, Mismatches: 39, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
92 389 0.54
95 2 0.00
96 37 0.05
100 1 0.00
101 5 0.01
102 284 0.40
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:386474 original size:21 final size:21
Alignment explanation
Indices: 386450--386517 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
386440 ATGTCGCTGG
386450 CCTTGAATCAACACATTGGCA
1 CCTTGAATCAACACATTGGCA
* * *
386471 CCTTTAAGTCTAATATCGTTGG--
1 CCTTGAA-TC-AACA-CATTGGCA
* *
386493 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAACACATTGGCA
386514 CCTT
1 CCTT
386518 TGTCTTTAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 12 0.35
22 8 0.24
23 3 0.09
24 5 0.15
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (21 bp):
CCTTGAATCAACACATTGGCA
Found at i:386645 original size:53 final size:51
Alignment explanation
Indices: 386564--387013 Score: 561
Period size: 53 Copynumber: 8.8 Consensus size: 51
386554 ACAGTGGCAC
* *
386564 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTT-TCAT
*
386616 CTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--TTCAT
1 C-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTTCAT
* *
386666 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTT-TCAT
* *
386718 CTTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACC--TTCAT
1 C-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTTCAT
* * *
386768 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTT-TCAT
*
386820 CTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--TTCAT
1 C-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTTCAT
* * * *
386870 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTT-TCAT
** * **
386922 CTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTTTCAT
1 CTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-GCCTTTTCAT
* * * *
386975 CTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTG
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
387014 ACATCCTTTT
Statistics
Matches: 346, Mismatches: 38, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
49 116 0.34
50 15 0.04
51 6 0.02
52 48 0.14
53 157 0.45
54 4 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (51 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTTCAT
Found at i:387815 original size:21 final size:21
Alignment explanation
Indices: 387768--387807 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
387758 CTACTGCCAA
387768 GGAAATGTATCGATACATTAC
1 GGAAATGTATCGATACATTAC
**
387789 TCAAATGTATCGATACATT
1 GGAAATGTATCGATACATT
387808 TGGGAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
GGAAATGTATCGATACATTAC
Found at i:391835 original size:20 final size:20
Alignment explanation
Indices: 391812--391881 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
391802 CATACTCAGA
391812 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
391832 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
* *
391852 TGTATCGATACA-TATTCAT
1 TGTATCGATACATTATGCTT
391871 TGTATCGATAC
1 TGTATCGATAC
391882 TTGGATAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 16 0.33
20 32 0.67
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:391894 original size:39 final size:39
Alignment explanation
Indices: 391812--391903 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 39
391802 CATACTCAGA
* **
391812 TGTATCGATACATTATGCTTTGTATCGATACATTATGCTT
1 TGTATCGATACA-TATGCATTGTATCGATACATTATGAAT
*
391852 TGTATCGATACATATTCATTGTATCGATAC-TTGGAT-AAT
1 TGTATCGATACATATGCATTGTATCGATACATT--ATGAAT
391891 TGTATCGATACAT
1 TGTATCGATACAT
391904 GAAACTGGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.04
39 30 0.65
40 14 0.30
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.42
Consensus pattern (39 bp):
TGTATCGATACATATGCATTGTATCGATACATTATGAAT
Found at i:391971 original size:33 final size:32
Alignment explanation
Indices: 391934--391998 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
391924 TACCACTGTT
391934 TGTATCAATACATG-GCACATTGTATCGATACAA
1 TGTATCAATACATGAG-A-ATTGTATCGATACAA
*
391967 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCAATACATGA-GAATTGTATCGATACA
391999 TTGCTTCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (32 bp):
TGTATCAATACATGAGAATTGTATCGATACAA
Found at i:391972 original size:13 final size:13
Alignment explanation
Indices: 391954--391978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
391944 CATGGCACAT
391954 TGTATCGATACAA
1 TGTATCGATACAA
391967 TGTATCGATACA
1 TGTATCGATACA
391979 TGATGAATTG
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:394331 original size:22 final size:21
Alignment explanation
Indices: 394294--394335 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
394284 CAATTTATAA
*
394294 CTCCCCCTTAATAAAATTTTT
1 CTCCCCCTAAATAAAATTTTT
*
394315 CTCCCCCTAAATAAAAATTTT
1 CTCCCCCTAAATAAAATTTTT
394336 AATGCTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (21 bp):
CTCCCCCTAAATAAAATTTTT
Found at i:394423 original size:64 final size:62
Alignment explanation
Indices: 394325--394455 Score: 228
Period size: 64 Copynumber: 2.1 Consensus size: 62
394315 CTCCCCCTAA
394325 ATAAAAATTTTAATGCTCTCTTTAAACACTAAAAAATTTCTCCCTACTTTTTTGGTTATTTCCC
1 ATAAAAATTTTAATGCTCTCTTTAAACACTAAAAAATTTCTCCC-A-TTTTTTGGTTATTTCCC
*
394389 ATAAAAATTTTAATGCTCTCTTTAAACACTAAAAAATTTCTCCCATTTTTTTGTTATTTCCC
1 ATAAAAATTTTAATGCTCTCTTTAAACACTAAAAAATTTCTCCCATTTTTTGGTTATTTCCC
394451 A-AAAA
1 ATAAAA
394456 TATCTCTCCC
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
61 4 0.06
62 17 0.26
63 1 0.02
64 44 0.67
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (62 bp):
ATAAAAATTTTAATGCTCTCTTTAAACACTAAAAAATTTCTCCCATTTTTTGGTTATTTCCC
Found at i:394870 original size:13 final size:13
Alignment explanation
Indices: 394852--394882 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
394842 GAGCATTATT
394852 AATACAATGTATC
1 AATACAATGTATC
394865 AATACAATGTATC
1 AATACAATGTATC
*
394878 GATAC
1 AATAC
394883 TATGAACACA
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:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (13 bp):
AATACAATGTATC
Found at i:396692 original size:166 final size:164
Alignment explanation
Indices: 396127--397041 Score: 777
Period size: 166 Copynumber: 5.5 Consensus size: 164
396117 AGGGGTTTAA
* * * * *
396127 AATTTTTAAATTTCATCAAGTACTCTCATTTATTTTATATTAAATTAGTTTTTAAAAATTGATTC
1 AATTTTTAAA-TTCATCAAATATTATCATTTA-TTTATATTAAATCAGTTTTTAAAAATTAATTC
* * * ** * *
396192 ATTTTCATGAGTTTTTAAATTTTTTCCTTCAAATTCTCCTTTTTCCAAAATACGTTATTTTTTAC
64 ATTTTCATGAG-TTTTGAATTTTTTCCTTGAAATTCTTCTTTTTCTGAAATACGTTGTTTTCTAC
* *
396257 TTCGTAATTTTTTTCGGGGGGATTTTTCTTGATTTTT
128 TTCGTAAATTTTTTCGAGGGGATTTTTCTTGATTTTT
* * * *
396294 AATTTTTAAATTTTATCAAATATTATCATTTATTTCATATTAAATCACTTTTTAAAAATTAAATA
1 AATTTTTAAA-TTCATCAAATATTATCATTTATTT-ATATTAAATCAGTTTTTAAAAATTAATTC
** * * * * *
396359 ATTTTTGTGAGTTTTTAAAATTTTTTACTTGGAATTCTTCTTTTT-TCGAAATACATTGTTTTTT
64 ATTTTCATGAG-TTTT-GAATTTTTTCCTTGAAATTCTTCTTTTTCT-GAAATACGTTGTTTTCT
* * * ** * *
396423 ACTTCAT-AACTTTTTCAAGGGGATTTTTCAGGGTATTT
126 ACTTCGTAAATTTTTTCGAGGGGATTTTTCTTGATTTTT
*
396461 AATTTTTAAATT--TCAAATATT-GCTATTTATTTCATATTAAATCCA-TTTTTAAAAATTAATT
1 AATTTTTAAATTCATCAAATATTATC-ATTTATTT-ATATTAAAT-CAGTTTTTAAAAATTAATT
* * *
396522 CATTTTCATAAGTTTTGAATTTTTTCCTTGAAATTTTTCTTTTTCTTAAATACGTTGTTTTCTAC
63 CATTTTCATGAGTTTTGAATTTTTTCCTTGAAATTCTTCTTTTTCTGAAATACGTTGTTTTCTAC
396587 TTCGTAAATTTTTTCGAGGGGATTTTTCTTGATTTTT
128 TTCGTAAATTTTTTCGAGGGGATTTTTCTTGATTTTT
* * * *
396624 AATTTTTAAATCTCATAAAATATTATCATTTAGTTTATATTAAATAAGTTTTCAAAAATTCATTC
1 AATTTTTAAAT-TCATCAAATATTATCATTTA-TTTATATTAAATCAGTTTTTAAAAATTAATTC
* * *
396689 ATTTTCATTCA-TTTTGATTTTTTTCCTTGAAATT-TTCCTTTTT-TCGAAATACGATGTTTTCT
64 ATTTTCA-TGAGTTTTGAATTTTTTCCTTGAAATTCTT-CTTTTTCT-GAAATACGTTGTTTTCT
* * * * ** **
396751 GCTCCGTAAATTTTTTCGAAGGTATTTTTCTCAATTTGC
126 ACTTCGTAAATTTTTTCGAGGGGATTTTTCTTGATTTTT
* * * *
396790 AATTTTAAAAATTCATCAAACATCATCATTTGATTCATATTAAATCA-TTTTTAAAAAATTAATT
1 AATTTT-TAAATTCATCAAATATTATCATTT-ATTTATATTAAATCAGTTTTT-AAAAATTAATT
* * ** * * *
396854 CATTCTCATGAGTTTTGGATTTTTTTGTTGAAATTCTT-TTTTTCGAGAAACCAAGTT-TTTT-T
63 CATTTTCATGAGTTTTGAATTTTTTCCTTGAAATTCTTCTTTTTC-TGAAA-TACGTTGTTTTCT
* * **
396916 -CTTCG-ATAATTTTTTCGGGGGGATTTTTCTTGGTTTAA
126 ACTTCGTA-AATTTTTTCGAGGGGATTTTTCTTGATTTTT
* * * * * **** *
396954 AATTTTTAAAACTCATCTAATGTTGTTATTTAGCCCCTATAAAATCAG-TTTTAAAAATTTAATT
1 AATTTTT-AAATTCATCAAATATTATCATTTA-TTTATATTAAATCAGTTTTTAAAAA-TTAATT
* *
397018 TA-TTTCATGAATTTTG-ATTTTTTC
63 CATTTTCATGAGTTTTGAATTTTTTC
397042 GTGTAAATTA
Statistics
Matches: 611, Mismatches: 108, Indels: 63
0.78 0.14 0.08
Matches are distributed among these distances:
162 51 0.08
163 61 0.10
164 121 0.20
165 18 0.03
166 201 0.33
167 115 0.19
168 44 0.07
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.52
Consensus pattern (164 bp):
AATTTTTAAATTCATCAAATATTATCATTTATTTATATTAAATCAGTTTTTAAAAATTAATTCAT
TTTCATGAGTTTTGAATTTTTTCCTTGAAATTCTTCTTTTTCTGAAATACGTTGTTTTCTACTTC
GTAAATTTTTTCGAGGGGATTTTTCTTGATTTTT
Found at i:396929 original size:330 final size:324
Alignment explanation
Indices: 396154--396969 Score: 789
Period size: 330 Copynumber: 2.5 Consensus size: 324
396144 AAGTACTCTC
* * * * * *
396154 ATTTATTTTATATTAAAT-TAGTTTTTAAAAATTGATTCATTTTCATGAGTTTTTAAATTTTTTC
1 ATTTATTTCATATTAAATCCA-TTTTTAAAAATTAATTCATTCTCATAAG-TTTTGAATTTTTTC
* * * *
396218 CTTCAAATTCTCCTTTTTCCA-AAATACGTTATTTTTTACTTCGTAATTTTTTTCGGGGGGATTT
64 CTTGAAATTCTTCTTTTT-CAGAAACAAG-T-TTTTTT-CTTCGTAA-TTTTTTCGGGGGGATTT
* * * * *
396282 TTCTTGATTTTTAATTTTTAAATTTTATCAAATATTATCATTTATTTCATATTAAATCACTTTTT
124 TTCTTGATTTTTAATTTTTAAATCTCATAAAATATTATCATTTATTTCATATTAAATAACTTTTC
* *
396347 AAAAATTAAATAATTTTTGTGAGTTTTTAAAATTTTTTACTTGGAATTCTTCTTTTTTCGAAATA
189 AAAAATTAAATAATTTTTGTCAG-TTTTAAAATTTTTTACTTGAAATTCTTCTTTTTTCGAAATA
* * ** *
396412 CATTGTTTTTTACTTCATAACTTTTTCAAGGGGATTTTTCAGGGTATTTAATTTTTAAATTTCAA
253 CATTGTTTTCTACTCCATAACTTTTTCAAGGGGATTTTTCA-GCAATTTAATTTTAAAATTTCAA
*
396477 ATATTGCT
317 ACATTGCT
*
396485 ATTTATTTCATATTAAATCCATTTTTAAAAATTAATTCATTTTCATAAGTTTTGAATTTTTTCCT
1 ATTTATTTCATATTAAATCCATTTTTAAAAATTAATTCATTCTCATAAGTTTTGAATTTTTTCCT
* ** * * *
396550 TGAAATTTTTCTTTTTCTTAAATACGTTGTTTTCTACTTCGTAAATTTTTTCGAGGGGATTTTTC
66 TGAAATTCTTCTTTTTCAGAAACAAGTT-TTTT-T-CTTCGT-AATTTTTTCGGGGGGATTTTTC
*
396615 TTGATTTTTAATTTTTAAATCTCATAAAATATTATCATTTAGTTT-ATATTAAATAAGTTTTCAA
127 TTGATTTTTAATTTTTAAATCTCATAAAATATTATCATTTA-TTTCATATTAAATAACTTTTCAA
* * * * * *
396679 AAATTCATTCATTTTCAT-TCA-TTTT-GATTTTTTTCCTTGAAATT-TTCCTTTTTTCGAAATA
191 AAATTAAATAATTTT--TGTCAGTTTTAAAATTTTTTACTTGAAATTCTT-CTTTTTTCGAAATA
* * * * *
396740 CGA-TGTTTTCTGCTCCGTAAATTTTTTCGAA-GGTATTTTTC-TCAATTTGCAATTTTAAAAAT
253 C-ATTGTTTTCTACTCCAT-AACTTTTTC-AAGGGGATTTTTCAGCAATTT--AATTTT-AAAAT
396802 TCATCAAACA-T-CAT
312 T--TCAAACATTGC-T
* *
396816 CATTTGA-TTCATATTAAAT-CATTTTTAAAAAATTAATTCATTCTCATGAGTTTTGGATTTTTT
1 -ATTT-ATTTCATATTAAATCCATTTTT-AAAAATTAATTCATTCTCATAAGTTTTGAATTTTTT
**
396879 TGTTGAAATTCTT-TTTTTCGAGAAACCAAGTTTTTTTCTTCGATAATTTTTTCGGGGGGATTTT
63 CCTTGAAATTCTTCTTTTTC-AGAAA-CAAGTTTTTTTCTTCG-TAATTTTTTCGGGGGGATTTT
* ** *
396943 TCTTGGTTTAAAATTTTTAAAACTCAT
125 TCTTGATTTTTAATTTTTAAATCTCAT
396970 CTAATGTTGT
Statistics
Matches: 411, Mismatches: 50, Indels: 49
0.81 0.10 0.10
Matches are distributed among these distances:
327 6 0.01
328 42 0.10
329 34 0.08
330 183 0.45
331 67 0.16
332 74 0.18
333 5 0.01
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (324 bp):
ATTTATTTCATATTAAATCCATTTTTAAAAATTAATTCATTCTCATAAGTTTTGAATTTTTTCCT
TGAAATTCTTCTTTTTCAGAAACAAGTTTTTTTCTTCGTAATTTTTTCGGGGGGATTTTTCTTGA
TTTTTAATTTTTAAATCTCATAAAATATTATCATTTATTTCATATTAAATAACTTTTCAAAAATT
AAATAATTTTTGTCAGTTTTAAAATTTTTTACTTGAAATTCTTCTTTTTTCGAAATACATTGTTT
TCTACTCCATAACTTTTTCAAGGGGATTTTTCAGCAATTTAATTTTAAAATTTCAAACATTGCT
Found at i:398335 original size:129 final size:127
Alignment explanation
Indices: 398188--398426 Score: 311
Period size: 129 Copynumber: 1.9 Consensus size: 127
398178 TTTTTAAGTC
* * * * *
398188 TTTTAGATTCCTATGAGTATCTGTAGGGGTATAAACATATTTCAAAAA-ATTTCATGTCTTTTC-
1 TTTTAGATTCCTACGAGTATCTGCAGGGGTAGAAA-AGATTTCAAAAACATTTCATATCTTTTCG
* *
398251 AGGTATCGATTAAGGTACGAAATGATTTGTTTTCCAAAAATAAATAAATATTAATCGTTTTTATT
65 A-GTATCGATTAAGGTACGAAATAATTT-TTTT-AAAAAATAAATAAATATTAATCGTTTTTATT
398316 T
127 T
* * *
398317 TTTTATATTCCTACGAGTATCTGCAGGGGTAGAAAAGATTTCAAAAACTTTTCGTATCTTTTCGA
1 TTTTAGATTCCTACGAGTATCTGCAGGGGTAGAAAAGATTTCAAAAACATTTCATATCTTTTCGA
* * *
398382 GTTTCTATTAAGGTACGAAATAATTTTTTTAAAAAATAATTAAAT
66 GTATCGATTAAGGTACGAAATAATTTTTTTAAAAAATAAATAAAT
398427 TAATTCTTCT
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
127 13 0.14
128 15 0.16
129 66 0.69
130 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (127 bp):
TTTTAGATTCCTACGAGTATCTGCAGGGGTAGAAAAGATTTCAAAAACATTTCATATCTTTTCGA
GTATCGATTAAGGTACGAAATAATTTTTTTAAAAAATAAATAAATATTAATCGTTTTTATTT
Found at i:405019 original size:24 final size:24
Alignment explanation
Indices: 404991--405036 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
404981 ACAATGTATC
404991 GATACATGAACAATGATGAACAAT
1 GATACATGAACAATGATGAACAAT
* *
405015 GATACATGAATAGTGATGAACA
1 GATACATGAACAATGATGAACA
405037 GTAATGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (24 bp):
GATACATGAACAATGATGAACAAT
Found at i:405137 original size:13 final size:13
Alignment explanation
Indices: 405119--405143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
405109 TACCAAGAAC
405119 ATGTATCGATACA
1 ATGTATCGATACA
405132 ATGTATCGATAC
1 ATGTATCGATAC
405144 TAAGCAATAT
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):
ATGTATCGATACA
Found at i:405141 original size:32 final size:33
Alignment explanation
Indices: 405100--405165 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
405090 ACAATTCATG
*
405100 ATGTATCGATACCAAG-AACATGTATCGATACA
1 ATGTATCGATACCAAGCAACATGCATCGATACA
* *
405132 ATGTATCGATACTAAGCAATATGCATCGATACA
1 ATGTATCGATACCAAGCAACATGCATCGATACA
405165 A
1 A
405166 CTGGGTGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACCAAGCAACATGCATCGATACA
Found at i:407877 original size:20 final size:20
Alignment explanation
Indices: 407852--407991 Score: 83
Period size: 20 Copynumber: 6.9 Consensus size: 20
407842 ATTGGGCACA
* *
407852 ATGTATCGATACATTTTACT
1 ATGTATCGATACAATGTACT
*
407872 ATGTATCGATACAATGTCCT
1 ATGTATCGATACAATGTACT
407892 ATGTATCGATACAAATAGTGA-T
1 ATGTATCGATAC-AAT-GT-ACT
* * * * * *
407914 AAAGTAGCTACTGCCA-GT-TT
1 -ATGTATCGA-TACAATGTACT
*
407934 CATGTATCGATACAAT-TGAGT
1 -ATGTATCGATACAATGT-ACT
*
407955 ATGTATCGATACAATG-AAT
1 ATGTATCGATACAATGTACT
407974 ATGTATCGATACAATGTA
1 ATGTATCGATACAATGTA
407992 TCGATACAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
19 22 0.24
20 52 0.57
21 6 0.07
22 3 0.03
23 7 0.08
24 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTACT
Found at i:407978 original size:19 final size:19
Alignment explanation
Indices: 407935--407989 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 19
407925 TGCCAGTTTC
*
407935 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAA-TGAAT
407955 ATGTATCGATACAATGAAT
1 ATGTATCGATACAATGAAT
407974 ATGTATCGATACAATG
1 ATGTATCGATACAATG
407990 TATCGATACA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 20 0.59
20 14 0.41
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACAATGAAT
Found at i:407992 original size:13 final size:13
Alignment explanation
Indices: 407974--408000 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
407964 TACAATGAAT
407974 ATGTATCGATACA
1 ATGTATCGATACA
407987 ATGTATCGATACA
1 ATGTATCGATACA
408000 A
1 A
408001 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:407996 original size:32 final size:33
Alignment explanation
Indices: 407955--408019 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
407945 ACAATTGAGT
*
407955 ATGTATCGATACAATGAAT-ATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
* *
407987 ATGTATCGATACAAAGCATAATGTATTGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
408020 TTTGGATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:415655 original size:13 final size:13
Alignment explanation
Indices: 415637--415661 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
415627 CATTTTACTA
415637 TGTATCGATACAT
1 TGTATCGATACAT
415650 TGTATCGATACA
1 TGTATCGATACA
415662 ATGTCCCATG
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:415659 original size:33 final size:33
Alignment explanation
Indices: 415617--415681 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
415607 TTAGGCATAA
* * *
415617 TGTATCGATACATTTTACTATGTATCGATACAT
1 TGTATCGATACAATGTACCATGTATCGATACAT
*
415650 TGTATCGATACAATGTCCCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
415682 AATAGTGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:415756 original size:19 final size:19
Alignment explanation
Indices: 415711--415802 Score: 114
Period size: 19 Copynumber: 4.7 Consensus size: 19
415701 CTACCAGTTT
* *
415711 CATGTATTGATACAATTAA
1 CATGTATCGATACAATGAA
*
415730 GTATGTATCGATACAATGAA
1 -CATGTATCGATACAATGAA
415750 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
415769 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
415790 -ATGTATCGATACA
1 CATGTATCGATACA
415803 TTTGGGTGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 34 0.52
20 30 0.46
21 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:415762 original size:39 final size:41
Alignment explanation
Indices: 415711--415822 Score: 124
Period size: 39 Copynumber: 2.8 Consensus size: 41
415701 CTACCAGTTT
* *
415711 CATGTATTGATACAATTAAGTATGTATCGATACAATG-A-A
1 CATGTATCGATACAATTAAGTATGTATCGATACAAAGCATA
* *
415750 CATGTATCGATACAATGAA-CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATTAAGTATGTATCGATACAAAGCATA
* ** *
415790 -ATGTATCGATACATTTGGGTGTGTATCGATACA
1 CATGTATCGATACAATTAAGTATGTATCGATACA
415823 TTTTAGGGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
38 15 0.25
39 32 0.53
40 13 0.22
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
CATGTATCGATACAATTAAGTATGTATCGATACAAAGCATA
Found at i:415886 original size:20 final size:20
Alignment explanation
Indices: 415861--415912 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
415851 ATCGACCTTA
415861 ATGTATCGATACAAATACCT
1 ATGTATCGATACAAATACCT
415881 ATGTATCGATACAAATACCT
1 ATGTATCGATACAAATACCT
415901 ATGTATCGATAC
1 ATGTATCGATAC
415913 TTTGGATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAAATACCT
Found at i:417680 original size:80 final size:79
Alignment explanation
Indices: 417454--417696 Score: 265
Period size: 78 Copynumber: 3.1 Consensus size: 79
417444 AAGGTTAGAG
* * * *
417454 TATCCTCTCGGAGATGAAGGGATTGAAGTATCCCTTA-AGATAAAAAATTCAATATTTTGGAAGT
1 TATCCCCTCGGAGATG-AGGGGTTGGAGTAT-CCTTAGAGATGAAAAATTCAATATTTTGGAAGT
*
417518 AAAAATAGGGTTGGAT
64 AAAAATAGGGTTGGAA
* * * * * * *
417534 TATCCCCTCGAAGAT-AAGGGTTGGAGTATCCTTCGAGATGAAAAATTCAATGTTTTGCATGCAA
1 TATCCCCTCGGAGATGAGGGGTTGGAGTATCCTTAGAGATGAAAAATTCAATATTTTGGAAGTAA
*
417598 AAATAGGGTTGGAC
66 AAATAGGGTTGGAA
* * ** *
417612 TATCCCCTCGGTGATGATGGGGTTGGAGTATCCTTAGAGATGAAGAATTCGGTATTGTGGAAGTA
1 TATCCCCTCGGAGATGA-GGGGTTGGAGTATCCTTAGAGATGAAAAATTCAATATTTTGGAAGT-
*
417677 AAAAATGGGGTTGGAA
64 AAAAATAGGGTTGGAA
417693 TATC
1 TATC
417697 TCTAGAGATG
Statistics
Matches: 133, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
77 4 0.03
78 61 0.46
79 1 0.01
80 49 0.37
81 18 0.14
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (79 bp):
TATCCCCTCGGAGATGAGGGGTTGGAGTATCCTTAGAGATGAAAAATTCAATATTTTGGAAGTAA
AAATAGGGTTGGAA
Found at i:417708 original size:53 final size:52
Alignment explanation
Indices: 417628--417749 Score: 167
Period size: 53 Copynumber: 2.3 Consensus size: 52
417618 CTCGGTGATG
* *
417628 ATGGGGTTGGAGTATCCTTAGAGATGAAGAATTCGGTATTGTG-GAAGTAAAAA
1 ATGGGGTTGGAGTATCCTTAGAGATGAAAAATTCGATATT-TGAGAAGT-AAAA
* *
417681 ATGGGGTTGGAATAT-CTCTAGAGATGAAAAATTCGATGTTTGAGAAGTAAAA
1 ATGGGGTTGGAGTATCCT-TAGAGATGAAAAATTCGATATTTGAGAAGTAAAA
417733 ATGGGGTTGGAGTATCC
1 ATGGGGTTGGAGTATCC
417750 GCTCGAAGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
52 22 0.36
53 39 0.64
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.29
Consensus pattern (52 bp):
ATGGGGTTGGAGTATCCTTAGAGATGAAAAATTCGATATTTGAGAAGTAAAA
Found at i:431740 original size:19 final size:16
Alignment explanation
Indices: 431698--431729 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
431688 TGATCATACC
431698 ACTCAAGGTTTTAACA
1 ACTCAAGGTTTTAACA
431714 ACTCAAGGTTTTAACA
1 ACTCAAGGTTTTAACA
431730 CAAAGTCAAG
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:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
ACTCAAGGTTTTAACA
Found at i:433267 original size:19 final size:21
Alignment explanation
Indices: 433242--433294 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 21
433232 CATTTCAGGC
*
433242 TTGTATCGATATATTA-CTTA
1 TTGTATCGATACATTATCTTA
433262 -TGTATCGATACATTATCTTA
1 TTGTATCGATACATTATCTTA
*
433282 TTGTATAGATACA
1 TTGTATCGATACA
433295 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.48
20 4 0.14
21 11 0.38
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (21 bp):
TTGTATCGATACATTATCTTA
Found at i:433561 original size:52 final size:51
Alignment explanation
Indices: 433478--433647 Score: 151
Period size: 52 Copynumber: 3.3 Consensus size: 51
433468 GTGTCTACAT
* * * * * * *
433478 TCATCTTTAAGTCTGATATCTTTAGCTTTGAATCAGCACAGTGGCACCTTTG
1 TCATCTTTAAGTCCGATAT-TCTGGCCTTGAATCAGTACATTGGCACCTTTA
*
433530 TCATCTTTAAGTCCGATATTGCTGGCCTTGAATCAGTATATTGGCACCTTTA
1 TCATCTTTAAGTCCGATATT-CTGGCCTTGAATCAGTACATTGGCACCTTTA
* * * * * * * ** *
433582 TCATTTTTGAGCCCAATGTCACCGGCCTTGAATCAGTACATTGGCATTTTTT
1 TCATCTTTAAGTCCGATAT-TCTGGCCTTGAATCAGTACATTGGCACCTTTA
433634 TCATCTTTAAGTCC
1 TCATCTTTAAGTCC
433648 AATGTCATTG
Statistics
Matches: 94, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
51 1 0.01
52 93 0.99
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (51 bp):
TCATCTTTAAGTCCGATATTCTGGCCTTGAATCAGTACATTGGCACCTTTA
Found at i:433650 original size:52 final size:52
Alignment explanation
Indices: 433505--433732 Score: 190
Period size: 52 Copynumber: 4.4 Consensus size: 52
433495 ATCTTTAGCT
* * * * **
433505 TTGAATCAGCACAGTGGCACCTTTGTCATCTTTAAGTCCGATATTGCTGGCC
1 TTGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATGTCACTGGCC
* * * * * *
433557 TTGAATCAGTATATTGGCACCTTTATCATTTTTGAGCCCAATGTCACCGGCC
1 TTGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATGTCACTGGCC
* ** * * **
433609 TTGAATCAGTACATTGGCATTTTTTTCATCTTTAAGTCCAATGTCATTGGTT
1 TTGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATGTCACTGGCC
** * * **
433661 TTGAATCAGCACATTACCACTTTTATCAT-TATTAAGTCCAGTGTCAAAGGCC
1 TTGAATCAGCACATTGGCACCTTTATCATCT-TTAAGTCCAATGTCACTGGCC
*
433713 TTGAATCTA-CACATTAGCAC
1 TTGAATC-AGCACATTGGCAC
433733 ATTGCGCAAG
Statistics
Matches: 140, Mismatches: 34, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
51 1 0.01
52 138 0.99
53 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (52 bp):
TTGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATGTCACTGGCC
Found at i:434322 original size:20 final size:20
Alignment explanation
Indices: 434297--434336 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
434287 TGGATACAAC
*
434297 AAGTGAATGTTTCAATACAT
1 AAGTGAATGTATCAATACAT
*
434317 AAGTGAATGTATCGATACAT
1 AAGTGAATGTATCAATACAT
434337 GTTTGAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (20 bp):
AAGTGAATGTATCAATACAT
Found at i:434501 original size:52 final size:52
Alignment explanation
Indices: 434393--434533 Score: 151
Period size: 52 Copynumber: 2.7 Consensus size: 52
434383 TCTAGAAAGA
* * * * *
434393 AAATATATCAATACATTTTTTATTGTATCGATGATATATTCCGGGTTTGATCC
1 AAATGTATCAATACATTTTTCATTGTATCGAT-ACATATTCAGGGTTTGACCC
*
434446 AAATGTATCGATACATTTTTCATTGTATCGATACAT-TT-AGGGTTTTTGACCC
1 AAATGTATCAATACATTTTTCATTGTATCGATACATATTCAGGG--TTTGACCC
* * * *
434498 AAATGTATCAATACATTCTTCAATGCATTGATACAT
1 AAATGTATCAATACATTTTTCATTGTATCGATACAT
434534 CTAGTTAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
50 3 0.04
51 2 0.03
52 41 0.55
53 29 0.39
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (52 bp):
AAATGTATCAATACATTTTTCATTGTATCGATACATATTCAGGGTTTGACCC
Found at i:436057 original size:13 final size:13
Alignment explanation
Indices: 436039--436064 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
436029 TACAGCAAGT
436039 ATGTATCGATACA
1 ATGTATCGATACA
436052 ATGTATCGATACA
1 ATGTATCGATACA
436065 TAAAAAATTG
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:438314 original size:21 final size:21
Alignment explanation
Indices: 438281--438325 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
438271 TTGCAAGTTG
*
438281 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
438303 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
438323 AAA
1 AAA
438326 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:440136 original size:15 final size:15
Alignment explanation
Indices: 440116--440146 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
440106 TAAAAATGTC
*
440116 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
440131 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
440146 C
1 C
440147 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:442245 original size:13 final size:13
Alignment explanation
Indices: 442227--442252 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
442217 ACATTTTTCT
442227 TTGTATCGATACA
1 TTGTATCGATACA
442240 TTGTATCGATACA
1 TTGTATCGATACA
442253 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:444829 original size:13 final size:13
Alignment explanation
Indices: 444811--444836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
444801 TACAGCAAGT
444811 ATGTATCGATACA
1 ATGTATCGATACA
444824 ATGTATCGATACA
1 ATGTATCGATACA
444837 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:446388 original size:104 final size:104
Alignment explanation
Indices: 446208--446413 Score: 333
Period size: 104 Copynumber: 2.0 Consensus size: 104
446198 ATTTTTCATT
* * * *
446208 ACCAAATAAGTCCGAGGTGATTTTTCAAAGTTCAACATGGCCTTTCTCTCGCATGCTTTGCCAAC
1 ACCAAATAAGTCCGAGATGATTTTTCAAAGTTCAACATGACCTTTCTCTCGCATGCTCTACCAAC
446273 AGTGTAATTAATTAGAATTCCAAAATTGATTCCTCCCGA
66 AGTGTAATTAATTAGAATTCCAAAATTGATTCCTCCCGA
* *
446312 ACCAAATGAGTCCGAGATGATTTTTCAAAGTTCAACAT-ACCGTTTCTCTCGCATGCTCTACCTA
1 ACCAAATAAGTCCGAGATGATTTTTCAAAGTTCAACATGACC-TTTCTCTCGCATGCTCTACCAA
*
446376 CAGTGTAATTAATTAGAATTCCAAAATTGATTTCTCCC
65 CAGTGTAATTAATTAGAATTCCAAAATTGATTCCTCCC
446414 AAAAAATGAT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 2 0.02
104 92 0.98
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (104 bp):
ACCAAATAAGTCCGAGATGATTTTTCAAAGTTCAACATGACCTTTCTCTCGCATGCTCTACCAAC
AGTGTAATTAATTAGAATTCCAAAATTGATTCCTCCCGA
Found at i:448694 original size:21 final size:21
Alignment explanation
Indices: 448668--448725 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
448658 ATTTTTGTGT
448668 AAATGTATCGATACATTTAAG
1 AAATGTATCGATACATTTAAG
* *
448689 AAATGTATCAATACATTTGAG
1 AAATGTATCGATACATTTAAG
*
448710 AAACTATATCGATACA
1 AAA-TGTATCGATACA
448726 AAGTCCCAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (21 bp):
AAATGTATCGATACATTTAAG
Done.