Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009577.1 Hibiscus syriacus cultivar Beakdansim tig00116945_pilon, whole genome shotgun sequence
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: 348734
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 2 of 2
Found at i:228930 original size:84 final size:83
Alignment explanation
Indices: 228758--229287 Score: 454
Period size: 80 Copynumber: 6.4 Consensus size: 83
228748 TTTAAGATAA
* *
228758 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
*
228823 CTTAGCTCCAAGGCACAT
66 CTCAGCTCCAAGGCACAT
* * * * * *
228841 CATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAAACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTAC
*
228906 GCTCAGCTCTAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * * * *
228925 TATTTGTAGTATAGCTTAAGTCGAGAATGGTTATCTG-C--CAAAGA-CTATCGAGTTCGATTAC
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAGACCT-TCGAGTTCGACTAC
* * * *
228986 ACTCAACTTCGAGGGCACAT
65 GCTCAGC-TCCAAGGCACAT
* * * ** * *
229006 CATTTACAGTATAACTCAAGG-GTAGAAGGGTTATTTGTGACCAAAAGACCTTCGAGTTTGACTA
1 CATTTGCAGCATAACTCAAGGCG-AGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTA
*
229070 CGCTCAGCTCCAAGGCATAT
64 CGCTCAGCTCCAAGGCACAT
* * * ** *
229090 CATTTGGAACATAACTTAAATCGAGAAGGGTTA--T--CAACCAAAGACCTCCGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTAC
*
229151 GCTCGGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * * ** * *
229170 TATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C--CAAAGGCCCCCGAGTTCGATTACA
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
*
229232 CTCAGCTCCGAGGGCACAT
66 CTCAGCTCC-AAGGCACAT
* * *
229251 CATTTACAGCATAACTCAAGGCTAGAAGAGTTATCTG
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTG
229288 TCAATAAAAG
Statistics
Matches: 360, Mismatches: 72, Indels: 32
0.78 0.16 0.07
Matches are distributed among these distances:
79 2 0.01
80 115 0.32
81 78 0.22
82 2 0.01
83 39 0.11
84 99 0.28
85 23 0.06
86 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (83 bp):
CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACAT
Found at i:229071 original size:165 final size:165
Alignment explanation
Indices: 228834--229210 Score: 398
Period size: 165 Copynumber: 2.3 Consensus size: 165
228824 TTAGCTCCAA
* * *
228834 GGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAAACCTTTGAGTT
1 GGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATTTGCCAACAAAAAACCTTCGAGTT
* * * ** * * * **
228899 CGACTACGCTCAGCTCTAAGGCACATTATTTGTAGTATAGCTTAAGTCGAGAATGGTTATCTGCC
66 CGACTACGCTCAGCTCCAAGGCACATCATTTGGAACATAACTTAAATCGAGAAGGGTTATCAACC
228964 AAAGACTATCGAGTTCGATTACACTCAACTTCGAG
131 AAAGACTATCGAGTTCGATTACACTCAACTTCGAG
** ** ** * *
228999 GGCACATCATTTACAGTATAACTCAAGGGTAGAAGGGTTATTTGTGACCAAAAGACCTTCGAGTT
1 GGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATTTGCCAACAAAAAACCTTCGAGTT
* *
229064 TGACTACGCTCAGCTCCAAGGCATATCATTTGGAACATAACTTAAATCGAGAAGGGTTATCAACC
66 CGACTACGCTCAGCTCCAAGGCACATCATTTGGAACATAACTTAAATCGAGAAGGGTTATCAACC
* * * ** * *
229129 AAAGACCT-CCGAGTTCGACTACGCTCGGC-TCCAA
131 AAAGA-CTATCGAGTTCGATTACACTCAACTTCGAG
* * * * * * *
229163 GGCACATTATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAA
1 GGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATTTGCCAA
229211 AGGCCCCCGA
Statistics
Matches: 170, Mismatches: 41, Indels: 3
0.79 0.19 0.01
Matches are distributed among these distances:
164 40 0.24
165 128 0.75
166 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (165 bp):
GGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATTTGCCAACAAAAAACCTTCGAGTT
CGACTACGCTCAGCTCCAAGGCACATCATTTGGAACATAACTTAAATCGAGAAGGGTTATCAACC
AAAGACTATCGAGTTCGATTACACTCAACTTCGAG
Found at i:229205 original size:245 final size:247
Alignment explanation
Indices: 228758--229284 Score: 713
Period size: 245 Copynumber: 2.1 Consensus size: 247
228748 TTTAAGATAA
*
228758 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTA-TCTACCAACAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATTCTACCAACAAAGACCTTCGAGTTCGACTAC
* * *
228822 GCTTAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAA
66 GCTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAAGCAAGAAGGGTTA-TT-CCAACAAAA
** * ** *
228887 AACCTTTGAGTTCGACTACGCTCAGCTCTAAGGCACATTATTTGTAGTATAGCTTAAGTCGAGAA
129 AACCTCCGAGTTCGACTACGCTCAGCTCCAAGGCACATTATTTACAGCATAGCTTAAGTCGAGAA
* * * *
228952 TGGTTATCTGCCAAAGACTATCGAGTTCGATTACACTCAACTTCGAGGGCACAT
194 GGGTTATCTGCCAAAGACCACCGAGTTCGATTACACTCAACTCCGAGGGCACAT
* * * *
229006 CATTTACAGTATAACTCAAGGGTAGAAGGGTTATTTGTGACC-A-AAAGACCTTCGAGTTTGACT
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTA-TTCT-ACCAACAAAGACCTTCGAGTTCGACT
* * * * * *
229069 ACGCTCAGCTCCAAGGCATATCATTTGGAACATAACTTAAATCGAGAAGGGTTA-T-CAACCAAA
64 ACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAAGCAAGAAGGGTTATTCCAACAAAA
* *
229132 GACCTCCGAGTTCGACTACGCTCGGCTCCAAGGCACATTATTTACAGCATAGCTTAAGTCGAGAA
129 AACCTCCGAGTTCGACTACGCTCAGCTCCAAGGCACATTATTTACAGCATAGCTTAAGTCGAGAA
* * *
229197 GGGTTATCTGCCAAAGGCCCCCGAGTTCGATTACACTCAGCTCCGAGGGCACAT
194 GGGTTATCTGCCAAAGACCACCGAGTTCGATTACACTCAACTCCGAGGGCACAT
*
229251 CATTTACAGCATAACTCAAGGCTAGAAGAGTTAT
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTAT
229285 CTGTCAATAA
Statistics
Matches: 244, Mismatches: 32, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
244 1 0.00
245 141 0.58
247 1 0.00
248 30 0.12
249 65 0.27
250 3 0.01
251 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (247 bp):
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATTCTACCAACAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAAGCAAGAAGGGTTATTCCAACAAAAAA
CCTCCGAGTTCGACTACGCTCAGCTCCAAGGCACATTATTTACAGCATAGCTTAAGTCGAGAAGG
GTTATCTGCCAAAGACCACCGAGTTCGATTACACTCAACTCCGAGGGCACAT
Found at i:229370 original size:37 final size:37
Alignment explanation
Indices: 229329--229424 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
229319 AAACAAGAGG
*
229329 TTGTCTCGCTTGAGACTAATTT-ACTCAAAACAAAATT
1 TTGTCTCTCTTGAGAC-AATTTCACTCAAAACAAAATT
* * ** *
229366 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTT
1 TTGTCTCTCTTGAGACAATTTCACTCAAAACAAAATT
*
229403 TTGTCTCTCTTGAGACAGTTTC
1 TTGTCTCTCTTGAGACAATTTC
229425 TTTTGAAACA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 4 0.08
37 48 0.92
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAATTTCACTCAAAACAAAATT
Found at i:229431 original size:37 final size:37
Alignment explanation
Indices: 229356--229434 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
229346 AATTTACTCA
229356 AAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* **
229393 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTG
1 AAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
229430 AAACA
1 AAACA
229435 CAATCTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (37 bp):
AAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:230917 original size:32 final size:32
Alignment explanation
Indices: 230876--230946 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
230866 AACTAACCCT
230876 TTTACTTTTTTATT-TTATTCATT-TTATTTTGTG
1 TTTA-TTTTTTATTATTATT-ATTATTATTTT-TG
*
230909 TTTATTTTTTATTATTATTTTTATTATTTTTG
1 TTTATTTTTTATTATTATTATTATTATTTTTG
230941 TTTATT
1 TTTATT
230947 ATCTTTTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
32 19 0.54
33 16 0.46
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.76
Consensus pattern (32 bp):
TTTATTTTTTATTATTATTATTATTATTTTTG
Found at i:230926 original size:13 final size:13
Alignment explanation
Indices: 230910--230948 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
230900 TATTTTGTGT
230910 TTATTTTTTATTA
1 TTATTTTTTATTA
230923 TTA-TTTTTATTA
1 TTATTTTTTATTA
230935 TT-TTTGTTTATTA
1 TTATTT-TTTATTA
230948 T
1 T
230949 CTTTTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTATTTTTTATTA
Found at i:230938 original size:22 final size:23
Alignment explanation
Indices: 230910--230953 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
230900 TATTTTGTGT
230910 TTATTTTT-TATTATTAT-TTTTA
1 TTATTTTTGT-TTATTATCTTTTA
230932 TTATTTTTGTTTATTATCTTTT
1 TTATTTTTGTTTATTATCTTTT
230954 TTCACTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (23 bp):
TTATTTTTGTTTATTATCTTTTA
Found at i:238009 original size:23 final size:18
Alignment explanation
Indices: 237951--237998 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
237941 AAACTAGGTG
*
237951 ATTTTAACAAAACATTTT
1 ATTTTAATAAAACATTTT
237969 ATTTTAATAAAACATTTT
1 ATTTTAATAAAACATTTT
237987 ATTTTAATAAAA
1 ATTTTAATAAAA
237999 TATCGAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAATAAAACATTTT
Found at i:240684 original size:44 final size:44
Alignment explanation
Indices: 240636--242661 Score: 464
Period size: 44 Copynumber: 46.0 Consensus size: 44
240626 GTTGATCTAC
* * *
240636 CTCCTTCTGTGATAGAATCGAGCTAAAAGTTAACGATGATCCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * *** * *
240680 CTCCTTTTGCGATGGATTTGAGCGAAAA--TAAAAAT-ATCGATC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCA-A
* ** * * *
240722 CTCCTTCTGTGATGGAAATTGA---AAATATGTCGATGCTGATCTAC
1 CTCCTTCTGTGATGG-AATCGAGCGAAA-A-GTTAACGCTGATCCAA
* * * * *
240766 CTCATTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATTCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * * * * *
240810 CTCATTCTGCGATGGATTTGAGCGAAAA-TAAAAATGTTGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGT--TAACGCTGATCCAA
* * * ** * * * *
240855 CTCCTTCTGTGATGGAAATCGAACGATATGTCGATGATGATCTAC
1 CTCCTTCTGTGATGG-AATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * *
240900 CTTCTTCTGTGAT-AAATCGAGCTAAAAGTTGACGCTGAACCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * ** * *
240943 CTCCTTCTGCGATGGATTTGAGCGAAGATA-AAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAA-A-AGTTAACGCT-GATCCAA
* * * * ** * *
240988 CTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTGAT-CTA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * *
241031 CATCCTTCTATGATAGAATCGAGCAAAAAGTTAACGCTGATCCAA
1 C-TCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * ** * * *
241076 CTCCTTCTGCGATGGATTTGAGCGAAGATA-AAAATG-TCAATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAA-A-AGTTAACGCT-GATCCAA
* * ** * * ** * * *
241121 CTCATTCTGTGATGAAATCGAATGAGATGTCGATGCTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * *
241165 CTCCTTCTGTGATAGAAACGAGCTAAAAGTTGACGCTCATCCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * ** * *
241209 CTCCTTCTGCGATAGATTTGAGCGAAGATA-AAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAA-A-AGTTAACGCT-GATCCAA
* ** * *** * * *
241254 CTCCTTCTGTGACGGAATCGAATGAAATGTTGGTGTTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * ** * *
241298 CTCTTTCTATGATAAAATCGAGCAAAAAGTTGACGCTGATCCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
** * * ** * *
241342 CTCCTTCTGCAATGGATTTGAGCGAAGATA-AAAATG-TCGATCCAT
1 CTCCTTCTGTGATGGAATCGAGCGAA-A-AGTTAACGCT-GATCCAA
* * * * * * * * *
241387 CTCCTTCTGTGATGGAAATCGAACGATATGTCAATGTTGGTCTAC
1 CTCCTTCTGTGATGG-AATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * * *
241432 CTCCTTATGTGATAGAATCGAGCTAAAAGTTGACGTTGATCAAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
** * * * ** * *
241476 CTATTTCTGCGATGGATTTGAGCGAAGATA-AAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAA-A-AGTTAACGCT-GATCCAA
* * * ** * * *
241521 CTCCTTCTGTGATGAAATCGAACGAAATGTCGATGCTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * * * *
241565 CTCATTCTGTGATAGAAACGAGCAAAAAGTTGATGCTGATCTAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * ** * *
241609 CTCCTTATGCGATGGATTTGAGCGAAATA-AAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAAA-AGTTAACGCT-GATCCAA
* * ** * * * * * * *
241653 CTCCTTCTGTTATGAAATCGAATGAGATGTTGATGTTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * * *
241697 CTCCTTCTATGATAGAATCGAGCAAAAAATTGATGCTGATCCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * ** * *
241741 CTCCTTCTGTGATGGATTTGAGCGAAATA-AAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAAA-AGTTAACGCT-GATCCAA
* * * * * * * *
241785 CTCTTTCTGTGATGGAATCGAACGAGATGTTGATGCTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * *
241829 CTCCTTCTATGATAGAATCGAGC-AAAAATTAACGCTGATCCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * ** * *
241872 CTCCTTCTGCGATGGATTTGAGCGAAATA-AAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAAA-AGTTAACGCT-GATCCAA
* * * * ** * * *
241916 CTCCTTCTGTGATGGAATAGAACGAGATGTCGATGCTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* ** * * * * *
241960 CTCCTTCTATGATAAAATCTAGCAAAAAATTGACGCTAATCCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * ** * *
242004 CTCCTTATGCGATGGATTTGAGCGAAATA-AAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAAA-AGTTAACGCT-GATCCAA
* * ** * * * * * * *
242048 CTCCTTCTGTTATGAAATCGAATGAGATGTTGATGTTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * *
242092 CTCCTTCTATGATAGAATCGAGCAAAAAATTGACGCTGATCCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * ** * *
242136 CTCCTTCTGTGATGGATTTGAGCGAAATA-AAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAAA-AGTTAACGCT-GATCCAA
* * * * * * *
242180 CTCCTTCTGTGATGGAATCGAACGAGATG-TGATGCTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * *
242223 CTCCTTCTATGATGGAATCGAGCAAAAACTTGACGCTGATCCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * ** * *
242267 CTCCTTCTGCGATGGATTTGAGCTAAATA-AAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAAA-AGTTAACGCT-GATCCAA
* * * ** * * *
242311 CTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* *
242355 CT-CTTCTGTGATAGAATCGAGC-AAAAATTAACGCTGATCCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * * *
242397 CTCCTTCTGCGATGGATTTGAGC-AAAA-TAAAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGT--TAACGCT-GATCCAA
* * * * ** * * *
242441 CTTCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * *
242485 CTCCTTCTGTGATAGAATCGAGCAAAAAATTGACGCTGGTCCAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* ** * ** * *
242529 CTCTTTCTACGATGGATTTC-AGCGAAATA-AAAATG-TCGATCCAC
1 CTCCTTCTGTGATGGA-ATCGAGCGAAA-AGTTAACGCT-GATCCAA
* * * ** * * *
242573 CTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTAC
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
* * * * *
242617 CT-CTTCTGTGATAGAATCGAGCAAAAAATTGACGCTGATCAAA
1 CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
242660 CT
1 CT
242662 TCTTATGCGA
Statistics
Matches: 1387, Mismatches: 513, Indels: 165
0.67 0.25 0.08
Matches are distributed among these distances:
40 3 0.00
41 5 0.00
42 33 0.02
43 187 0.13
44 907 0.65
45 226 0.16
46 25 0.02
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCTTCTGTGATGGAATCGAGCGAAAAGTTAACGCTGATCCAA
Found at i:240985 original size:263 final size:264
Alignment explanation
Indices: 240518--242780 Score: 3119
Period size: 263 Copynumber: 8.6 Consensus size: 264
240508 ATATGTGATT
* *
240518 AATCGAGCAAGAAGTTGACGCTGATCCAACTCCTTCTGCGAT-GATTTGAGTGAAAATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATG
* * ** * *
240582 TTGATCCACCTCTTTCTGTGATGGAAATCGAACGCTATATCGATGTTGATCTACCTCCTTCTGTG
66 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
* * *
240647 ATAGAATCGAGCTAAAAGTTAACGATGATCCAACTCCTTTTGCGATGGATTTGAGCGAAAATAAA
131 ATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG-AAATAAA
* * * * * *
240712 AATATCGAT-CCTCCTTCTGTGATGGAAATTGAA-AATATGTCGATGCTGATCTACCTCATTCTG
195 AATGTCGATCCCTCCTTCTGTGATGG-AATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTA
240775 TGATAG
259 TGATAG
* * *
240781 AATCGAGCTAAAAGTTGACGCTGATTCAACTCATTCTGCGATGGATTTGAGCGAAAATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATG
* * * *
240846 TTGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGATGATCTACCTTCTTCTGTG
66 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
*
240911 ATA-AATCGAGCTAAAAGTTGACGCTGAACCAACTCCTTCTGCGATGGATTTGAGCGAAGATAAA
131 ATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA-ATAAA
* *
240975 AATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACATCCTTCT
195 AATGTCGAT-C-CCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCT
241040 ATGATAG
258 ATGATAG
* *
241047 AATCGAGCAAAAAGTTAACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAGATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATG
* * *
241112 TCAATCCACCTCATTCTGTGAT-GAAATCGAATGAGATGTCGATGCTGATCTACCTCCTTCTGTG
66 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
* * *
241176 ATAGAAACGAGCTAAAAGTTGACGCTCATCCAACTCCTTCTGCGATAGATTTGAGCGAAGATAAA
131 ATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA-ATAAA
* * * * * * *
241241 AATGTCGATCCACCTCCTTCTGTGACGGAATCGAATGAAATGTTGGTGTTGATCTACCTCTTTCT
195 AATGTCGAT-C-CCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCT
*
241306 ATGATAA
258 ATGATAG
* *
241313 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAGCGAAGATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATG
* * * * * *
241378 TCGATCCATCTCCTTCTGTGATGGAAATCGAACGATATGTCAATGTTGGTCTACCTCCTTATGTG
66 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
* * **
241443 ATAGAATCGAGCTAAAAGTTGACGTTGATCAAACTATTTCTGCGATGGATTTGAGCGAAGATAAA
131 ATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA-ATAAA
* * *
241508 AATGTCGATCCACCTCCTTCTGTGATGAAATCGAACGAAATGTCGATGCTGATCTACCTCATTCT
195 AATGTCGAT-C-CCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCT
*
241573 GTGATAG
258 ATGATAG
* * * *
241580 AAACGAGCAAAAAGTTGATGCTGATCTAACTCCTTATGCGATGGATTTGAGCG-AAATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATG
* * * * *
241644 TCGATCCACCTCCTTCTGTTAT-GAAATCGAATGAGATGTTGATGTTGATCTACCTCCTTCTATG
66 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
* * * *
241708 ATAGAATCGAGCAAAAAATTGATGCTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAATAAAA
131 ATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAA
* *
241773 ATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTTGATGCTGATCTACCTCCTTCTA
196 ATGTCGAT-C-CCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTA
241838 TGATAG
259 TGATAG
*
241844 AATCGAGCAAAAA-TTAACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG-AAATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATG
* *
241907 TCGATCCACCTCCTTCTGTGATGG-AATAGAACGAGATGTCGATGCTGATCTACCTCCTTCTATG
66 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
* * * * * *
241971 ATAAAATCTAGCAAAAAATTGACGCTAATCCAACTCCTTATGCGATGGATTTGAGCGAAATAAAA
131 ATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAA
* * * * *
242036 ATGTCGATCCACCTCCTTCTGTTATGAAATCGAATGAGATGTTGATGTTGATCTACCTCCTTCTA
196 ATGTCGAT-C-CCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTA
242101 TGATAG
259 TGATAG
* *
242107 AATCGAGCAAAAAATTGACGCTGATCCAACTCCTTCTGTGATGGATTTGAGCG-AAATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATG
*
242171 TCGATCCACCTCCTTCTGTGATGG-AATCGAACGAGATGT-GATGCTGATCTACCTCCTTCTATG
66 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
* * * *
242234 ATGGAATCGAGCAAAAACTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCTAAATAAAA
131 ATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAA
*
242299 ATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCT-CTTCTG
196 ATGTCGAT-C-CCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTA
242363 TGATAG
259 TGATAG
*
242369 AATCGAGCAAAAA-TTAACGCTGATCCAACTCCTTCTGCGATGGATTTGAGC-AAAATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATG
*
242432 TCGATCCACCTTCTTCTGTGATGG-AATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
66 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
* * * * * *
242496 ATAGAATCGAGCAAAAAATTGACGCTGGTCCAACTCTTTCTACGATGGATTTCAGCGAAATAAAA
131 ATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAA
*
242561 ATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCT-CTTCTG
196 ATGTCGAT-C-CCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTA
242625 TGATAG
259 TGATAG
* * * * ** *
242631 AATCGAGCAAAAAATTGACGCTGATCAAACTTCTTATGCGATATATTTGAGCG-AAATAAAAATA
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATG
* * * * * ** *
242695 TCGATCAACCTCCTTCTGTGATGG-AATCGAACAAGACGTCGGTGTTGATCTATATCTTTCTGTG
66 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
242759 ATAGAATCGAG-TAAAAAGTTGA
131 ATAGAATCGAGCT-AAAAGTTGA
242781 TGTATCTCTT
Statistics
Matches: 1815, Mismatches: 170, Indels: 30
0.90 0.08 0.01
Matches are distributed among these distances:
261 85 0.05
262 190 0.10
263 592 0.33
264 254 0.14
265 133 0.07
266 356 0.20
267 205 0.11
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (264 bp):
AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATG
TCGATCCACCTCCTTCTGTGATGGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
ATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAA
ATGTCGATCCCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTATG
ATAG
Found at i:241710 original size:132 final size:132
Alignment explanation
Indices: 240518--242780 Score: 3243
Period size: 132 Copynumber: 17.1 Consensus size: 132
240508 ATATGTGATT
* *
240518 AATCGAGCAAGAAGTTGACGCTGATCCAACTCCTTCTGCGAT-GATTTGAGTGAAAATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG-AAATAAAAATG
* * ** * *
240582 TTGATCCACCTCTTTCTGTGATGGAAATCGAACGCTATATCGATGTTGATCTACCTCCTTCTGTG
65 TCGATCCACCTCCTTCTGTGATGG-AATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
240647 ATAG
129 ATAG
* * * * *
240651 AATCGAGCTAAAAGTTAACGATGATCCAACTCCTTTTGCGATGGATTTGAGCGAAAATAAAAATA
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG-AAATAAAAATG
* * * *
240716 TCGAT---CCTCCTTCTGTGATGGAAATTGAA-AATATGTCGATGCTGATCTACCTCATTCTGTG
65 TCGATCCACCTCCTTCTGTGATGG-AATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
240777 ATAG
129 ATAG
* * *
240781 AATCGAGCTAAAAGTTGACGCTGATTCAACTCATTCTGCGATGGATTTGAGCGAAAATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG-AAATAAAAATG
* * * *
240846 TTGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGATGATCTACCTTCTTCTGTG
65 TCGATCCACCTCCTTCTGTGATGG-AATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
240911 ATA-
129 ATAG
* *
240914 AATCGAGCTAAAAGTTGACGCTGAACCAACTCCTTCTGCGATGGATTTGAGCGAAGATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA-ATAAAAATG
* * *
240979 TCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACATCCTTCTATGA
65 TCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGA
241044 TAG
130 TAG
*
241047 AATCGAGCAAAAAGTTAACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAGATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA-ATAAAAATG
* * * *
241112 TCAATCCACCTCATTCTGTGATGAAATCGAATGAGATGTCGATGCTGATCTACCTCCTTCTGTGA
65 TCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGA
241177 TAG
130 TAG
* * * *
241180 AAACGAGCTAAAAGTTGACGCTCATCCAACTCCTTCTGCGATAGATTTGAGCGAAGATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA-ATAAAAATG
* * * * * * * *
241245 TCGATCCACCTCCTTCTGTGACGGAATCGAATGAAATGTTGGTGTTGATCTACCTCTTTCTATGA
65 TCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGA
*
241310 TAA
130 TAG
*
241313 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAGCGAAGATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA-ATAAAAATG
* * * * * *
241378 TCGATCCATCTCCTTCTGTGATGGAAATCGAACGATATGTCAATGTTGGTCTACCTCCTTATGTG
65 TCGATCCACCTCCTTCTGTGATGG-AATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTG
241443 ATAG
129 ATAG
* * * **
241447 AATCGAGCTAAAAGTTGACGTTGATCAAACTATTTCTGCGATGGATTTGAGCGAAGATAAAAATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA-ATAAAAATG
* * *
241512 TCGATCCACCTCCTTCTGTGATGAAATCGAACGAAATGTCGATGCTGATCTACCTCATTCTGTGA
65 TCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGA
241577 TAG
130 TAG
* * * *
241580 AAACGAGCAAAAAGTTGATGCTGATCTAACTCCTTATGCGATGGATTTGAGCGAAATAAAAATGT
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
* * * * * *
241645 CGATCCACCTCCTTCTGTTATGAAATCGAATGAGATGTTGATGTTGATCTACCTCCTTCTATGAT
66 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
241710 AG
131 AG
* * *
241712 AATCGAGCAAAAAATTGATGCTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAATAAAAATGT
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
* * *
241777 CGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTTGATGCTGATCTACCTCCTTCTATGAT
66 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
241842 AG
131 AG
*
241844 AATCGAGCAAAAA-TTAACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
* *
241908 CGATCCACCTCCTTCTGTGATGGAATAGAACGAGATGTCGATGCTGATCTACCTCCTTCTATGAT
66 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
*
241973 AA
131 AG
* * * *
241975 AATCTAGCAAAAAATTGACGCTAATCCAACTCCTTATGCGATGGATTTGAGCGAAATAAAAATGT
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
* * * * * *
242040 CGATCCACCTCCTTCTGTTATGAAATCGAATGAGATGTTGATGTTGATCTACCTCCTTCTATGAT
66 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
242105 AG
131 AG
* *
242107 AATCGAGCAAAAAATTGACGCTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAATAAAAATGT
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
*
242172 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGT-GATGCTGATCTACCTCCTTCTATGAT
66 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
*
242236 GG
131 AG
* *
242238 AATCGAGCAAAAACTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCTAAATAAAAATGT
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
242303 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCT-CTTCTGTGAT
66 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
242367 AG
131 AG
* *
242369 AATCGAGCAAAAA-TTAACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAATAAAAATGT
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
*
242433 CGATCCACCTTCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
66 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
242498 AG
131 AG
* * * * *
242500 AATCGAGCAAAAAATTGACGCTGGTCCAACTCTTTCTACGATGGATTTCAGCGAAATAAAAATGT
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
242565 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCT-CTTCTGTGAT
66 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
242629 AG
131 AG
* * * * ** *
242631 AATCGAGCAAAAAATTGACGCTGATCAAACTTCTTATGCGATATATTTGAGCGAAATAAAAATAT
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
* * * * * ** *
242696 CGATCAACCTCCTTCTGTGATGGAATCGAACAAGACGTCGGTGTTGATCTATATCTTTCTGTGAT
66 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
242761 AG
131 AG
*
242763 AATCGAGTAAAAAGTTGA
1 AATCGAGCAAAAAGTTGA
242781 TGTATCTCTT
Statistics
Matches: 1936, Mismatches: 181, Indels: 27
0.90 0.08 0.01
Matches are distributed among these distances:
130 196 0.10
131 433 0.22
132 589 0.30
133 548 0.28
134 170 0.09
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (132 bp):
AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGT
CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGAT
AG
Found at i:243183 original size:36 final size:36
Alignment explanation
Indices: 243131--243213 Score: 148
Period size: 36 Copynumber: 2.3 Consensus size: 36
243121 AGGGAAAATT
*
243131 GTCTCAAGTGAGATGAAATTGGTTTTAAGAAAAACC
1 GTCTCAAGTGAAATGAAATTGGTTTTAAGAAAAACC
243167 GTCTCAAGTGAAATGAAATTGGTTTTAAGAAAAACC
1 GTCTCAAGTGAAATGAAATTGGTTTTAAGAAAAACC
*
243203 ATCTCAAGTGA
1 GTCTCAAGTGA
243214 GATACATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (36 bp):
GTCTCAAGTGAAATGAAATTGGTTTTAAGAAAAACC
Found at i:243280 original size:36 final size:36
Alignment explanation
Indices: 243227--243585 Score: 287
Period size: 36 Copynumber: 10.1 Consensus size: 36
243217 ACATTTCTTC
*
243227 TTTCAAGGGAAACTGTCTTAAGAGAGACAAAATTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
* * * *
243263 TTTCAAGGAAAATTGTCTCAAGAGAGACAAAACTCG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
*
243299 TTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
**
243335 TTTCAAGGGAAA-TGGTCTC-A-A-AG---ATTTTTG
1 TTTCAAGGGAAACT-GTCTCAAGAGAGACAAAATTTG
* *
243365 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
* * **
243401 TTTCAAGAGAAACATAT-TC-A-A-AG---ATTTTGTG
1 TTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAATT-TG
* * *
243432 TTTCAAGAGAAATTGTCTCAAGCGAGACAAAATTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
* * *
243468 TTTCAAGGGAAACTATCTTAAGCGAGACAAAATCTTATG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAA--TT-TG
* * * *
243507 TTTCGAGAGAAACTATCTCAAGCGAGACAAAATCTTCTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAA--TT-TG
* * *
243546 TTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT-TTG
243583 TTT
1 TTT
243586 TAAGAAAAAT
Statistics
Matches: 268, Mismatches: 34, Indels: 41
0.78 0.10 0.12
Matches are distributed among these distances:
30 26 0.10
31 18 0.07
32 1 0.00
33 6 0.02
34 3 0.01
35 3 0.01
36 129 0.48
37 11 0.04
38 3 0.01
39 68 0.25
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
Found at i:243381 original size:66 final size:65
Alignment explanation
Indices: 243227--243475 Score: 275
Period size: 66 Copynumber: 3.7 Consensus size: 65
243217 ACATTTCTTC
* *
243227 TTTCAAGGGAAACTGTCTTAAGAGAGACAAAATTTGTTTCAAGGAAAATTGTCTCAAGAGAGACA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAA-TGTCTC-A-A-AG---
*** *
243292 AAACTCG
59 ATTTTTG
* * *
243299 TTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATTTGTTTCAAGGGAAATGGTCTCAAAGATTTTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAAT-GTCTCAAAGATTTTT
243364 G
65 G
* *
243365 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACATAT-TCAAAGATTTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAG-GAAA-ATGTCTCAAAGATTTT
243429 GTG
64 -TG
* *
243432 TTTCAAGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTCAAGG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGG
243476 GAAACTATCT
Statistics
Matches: 159, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
66 55 0.35
67 47 0.30
68 2 0.01
69 2 0.01
70 1 0.01
71 2 0.01
72 50 0.31
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (65 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAATGTCTCAAAGATTTTTG
Found at i:243504 original size:17 final size:17
Alignment explanation
Indices: 243482--243542 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 17
243472 AAGGGAAACT
243482 ATCTTAAGCGAGACAAA
1 ATCTTAAGCGAGACAAA
* *
243499 ATCTTATGTTTCGAGAGAAA
1 ATCTTAAG---CGAGACAAA
*
243519 CTATCTCAAGCGAGACAAA
1 --ATCTTAAGCGAGACAAA
243538 ATCTT
1 ATCTT
243543 CTGTTTCGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 11 0.33
19 8 0.24
20 8 0.24
22 6 0.18
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (17 bp):
ATCTTAAGCGAGACAAA
Found at i:243520 original size:39 final size:38
Alignment explanation
Indices: 243430--243653 Score: 228
Period size: 39 Copynumber: 5.9 Consensus size: 38
243420 AAAGATTTTG
* *
243430 TGTTTCAAGAGAAATTGTCTCAAGCGAGACAAAA--TT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATCTT
* *
243466 TGTTTCAAGGGAAACTATCTTAAGCGAGACAAAATCTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATCTT
*
243504 ATGTTTCGAGAGAAACTATCTCAAGCGAGACAAAATCTT
1 -TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATCTT
* *
243543 CTGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATC-T
1 -TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATCTT
* * * *
243581 TGTTTTAAGA-AAAATAATCTCAAGTGAGA-TAAATCCTT
1 TGTTTCAAGAGAAACT-ATCTCAAGCGAGACAAAAT-CTT
**
243619 CATATTCAATGAG--ACTATCTCAAGCGAGACAAAAT
1 TGT-TTCAA-GAGAAACTATCTCAAGCGAGACAAAAT
243654 TTGTTTGGAA
Statistics
Matches: 157, Mismatches: 21, Indels: 17
0.81 0.11 0.09
Matches are distributed among these distances:
36 38 0.24
37 20 0.13
38 17 0.11
39 80 0.51
40 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (38 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATCTT
Found at i:243576 original size:78 final size:75
Alignment explanation
Indices: 243430--243653 Score: 233
Period size: 75 Copynumber: 2.9 Consensus size: 75
243420 AAAGATTTTG
* * *
243430 TGTTTCAAGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACTATCTTAAGCGAGA
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGCGAGA
243495 CAAAATCTTA
66 CAAAATCTTA
* *
243505 TGTTTCGAGAGAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCG
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAA--TT-TGTTTCAAGGGAAACTATCTCAAGCG
243570 AGACAAAATC-T-
63 AGACAAAATCTTA
* * * * * * *
243581 TGTTTTAAGA-AAAATAATCTCAAGTGAGA-TAAATCCTTCATATTCAA-TGAGACTATCTCAAG
1 TGTTTCAAGAGAAACT-ATCTCAAGCGAGACAAAAT--TT-GT-TTCAAGGGAAACTATCTCAAG
243643 CGAGACAAAAT
61 CGAGACAAAAT
243654 TTGTTTGGAA
Statistics
Matches: 127, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
73 1 0.01
74 1 0.01
75 64 0.50
76 24 0.19
77 3 0.02
78 34 0.27
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (75 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGCGAGA
CAAAATCTTA
Found at i:248301 original size:18 final size:18
Alignment explanation
Indices: 248278--248325 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
248268 AAACTAGGTG
248278 ATTTTAATAAAACATTTT
1 ATTTTAATAAAACATTTT
248296 ATTTTAATAAAACATTTT
1 ATTTTAATAAAACATTTT
248314 ATTTTAATAAAA
1 ATTTTAATAAAA
248326 TACCGAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTTTAATAAAACATTTT
Found at i:251756 original size:21 final size:21
Alignment explanation
Indices: 251732--251778 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
251722 GCTTCGGAAT
*
251732 TTTTCATGGGATGCAACTAGC
1 TTTTCATGGGATGCAACCAGC
* *
251753 TTTTCCTGGGATGTAACCAGC
1 TTTTCATGGGATGCAACCAGC
251774 TTTTC
1 TTTTC
251779 TTATGAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (21 bp):
TTTTCATGGGATGCAACCAGC
Found at i:257796 original size:48 final size:47
Alignment explanation
Indices: 257725--257870 Score: 159
Period size: 49 Copynumber: 3.0 Consensus size: 47
257715 GTGACAGTAA
257725 GTGATTGTGACTGAGAGACAGTATGCGATTGCATGCCGGACTAGAGAT
1 GTGATTGTGACTGAGAGACAGTATG-GATTGCATGCCGGACTAGAGAT
* *
257773 GTGATTGTGGCTGAGAGACAGTATAGGATTGCATGTCGGGA-TCAGAGAT
1 GTGATTGTGACTGAGAGACAGTAT-GGATTGCATG-CCGGACT-AGAGAT
* * * * * *
257822 GTGATTGTAAATGATAGACGGTGTGGGATTGCATGCCGGGACTATAGAT
1 GTGATTGTGACTGAGAGACAGTAT-GGATTGCATGCC-GGACTAGAGAT
257871 TGGGATTTTC
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
48 34 0.41
49 47 0.57
50 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.35, T:0.27
Consensus pattern (47 bp):
GTGATTGTGACTGAGAGACAGTATGGATTGCATGCCGGACTAGAGAT
Found at i:258209 original size:20 final size:21
Alignment explanation
Indices: 258170--258213 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
258160 CGCAACGCGA
258170 TTCGCTACGCGTATTTTTATT
1 TTCGCTACGCGTATTTTTATT
258191 TTCGCTACGCGTA-TTTTATT
1 TTCGCTACGCGTATTTTTATT
258211 TTC
1 TTC
258214 AAATTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.52
Consensus pattern (21 bp):
TTCGCTACGCGTATTTTTATT
Found at i:258583 original size:33 final size:33
Alignment explanation
Indices: 258544--258612 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
258534 TTCACTTAGA
258544 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
258577 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
258610 TTT
1 TTT
258613 AAGTAGTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.10, C:0.23, G:0.17, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:258718 original size:21 final size:20
Alignment explanation
Indices: 258692--258763 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
258682 TGCAGAAGAG
258692 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* *
258713 TCGCAACGTGAAAATGACTATA
1 TCGCAACGAGAAAATGA--AAA
*
258735 T-GCAACGAGAAAA-AAAAA
1 TCGCAACGAGAAAATGAAAA
*
258753 TCGCAATGAGA
1 TCGCAACGAGA
258764 GAATCGCAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.07
19 8 0.19
20 7 0.17
21 21 0.50
22 3 0.07
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.15
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:258786 original size:32 final size:31
Alignment explanation
Indices: 258750--258810 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 31
258740 CGAGAAAAAA
*
258750 AAATCGCAATGAGAGAATCGCAACGCGAAATG
1 AAATCGCAACGAGAGAATCGC-ACGCGAAATG
258782 AAATCGCAACGAGAGAATCGCACGCGAAA
1 AAATCGCAACGAGAGAATCGCACGCGAAA
258811 CCAAAATCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 8 0.29
32 20 0.71
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (31 bp):
AAATCGCAACGAGAGAATCGCACGCGAAATG
Found at i:258802 original size:14 final size:14
Alignment explanation
Indices: 258751--258803 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
258741 GAGAAAAAAA
*
258751 AATCGCAATGAGAG
1 AATCGCAACGAGAG
*
258765 AATCGCAACGCGAAATG
1 AATCGCAA--CGAGA-G
258782 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
258797 AATCGCA
1 AATCGCA
258804 CGCGAAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 15 0.47
15 1 0.03
16 7 0.22
17 1 0.03
18 8 0.25
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:258818 original size:32 final size:32
Alignment explanation
Indices: 258749--258821 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
258739 ACGAGAAAAA
* *
258749 AAAATCGCAATGAGAGAATCGCAACGCGAAAT
1 AAAATCGCAACGAGAGAATCGCAACGCGAAAC
*
258781 GAAATCGCAACGAGAGAATCGC-ACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAA-C
258813 AAAATCGCA
1 AAAATCGCA
258822 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 8 0.22
32 28 0.78
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.10
Consensus pattern (32 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAAC
Found at i:258839 original size:19 final size:19
Alignment explanation
Indices: 258817--258930 Score: 103
Period size: 19 Copynumber: 6.1 Consensus size: 19
258807 GAAACCAAAA
*
258817 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
258836 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
258855 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
258869 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
258889 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
258909 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
258929 TC
1 TC
258931 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
14 10 0.12
16 3 0.04
17 3 0.04
19 31 0.39
20 19 0.24
21 14 0.17
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:258892 original size:21 final size:21
Alignment explanation
Indices: 258866--258930 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
258856 CGCGTTGCGA
258866 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
258887 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
258907 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
258928 TTC
1 TTC
258931 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:259024 original size:21 final size:21
Alignment explanation
Indices: 258981--259030 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
258971 AATAAACTAT
** *
258981 TTGAAGAGGTCACTGTCATCA
1 TTGAAGAGGTCACTCCCACCA
*
259002 TTGAAGAGGTCCCTCCCACCA
1 TTGAAGAGGTCACTCCCACCA
*
259023 TTCAAGAG
1 TTGAAGAG
259031 CCCGATTCAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (21 bp):
TTGAAGAGGTCACTCCCACCA
Found at i:260451 original size:14 final size:14
Alignment explanation
Indices: 260432--260467 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
260422 ATTGTTTAAT
260432 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
260446 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
260460 TGATTTGT
1 TGATTTGT
260468 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:260582 original size:19 final size:19
Alignment explanation
Indices: 260558--260698 Score: 176
Period size: 19 Copynumber: 7.8 Consensus size: 19
260548 GCATTATGTT
260558 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
260577 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
260594 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
260610 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
260629 GGAAATGAAAATCGCAA--C
1 -GAAATGAAAATCGCAATGC
*
260647 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
260663 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
260682 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
260699 CGAGAGAATC
Statistics
Matches: 106, Mismatches: 4, Indels: 23
0.80 0.03 0.17
Matches are distributed among these distances:
14 20 0.19
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 42 0.40
20 32 0.30
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:260608 original size:33 final size:34
Alignment explanation
Indices: 260566--260717 Score: 145
Period size: 33 Copynumber: 4.4 Consensus size: 34
260556 TTGAAATGAA
260566 AATCGCAATGCGAAATGAAAATCGCAA-CGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAGAG
260599 AATCGCAATGCGAAATGAAAATCGCAATGCG-GA-
1 AATCGCAATGCGAAATGAAAATCGCAA-GCGAGAG
* * * *
260632 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA-GCG--A-GAG
260671 AATCGCAATGCGGAAATGAAAATCGCAA-CGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAAGCGAGAG
260705 AATCGCAATGCGA
1 AATCGCAATGCGA
260718 TTTCATTTCG
Statistics
Matches: 99, Mismatches: 7, Indels: 26
0.75 0.05 0.20
Matches are distributed among these distances:
32 7 0.07
33 36 0.36
34 27 0.27
35 3 0.03
37 2 0.02
38 2 0.02
39 14 0.14
40 3 0.03
41 5 0.05
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAAGCGAGAG
Found at i:260649 original size:53 final size:53
Alignment explanation
Indices: 260558--260717 Score: 313
Period size: 53 Copynumber: 3.0 Consensus size: 53
260548 GCATTATGTT
260558 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
260610 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
260663 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
260716 GA
1 GA
260718 TTTCATTTCG
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 19 0.18
53 88 0.82
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (53 bp):
GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:260742 original size:19 final size:19
Alignment explanation
Indices: 260707--260966 Score: 301
Period size: 19 Copynumber: 14.7 Consensus size: 19
260697 AACGAGAGAA
*
260707 TCGCAATGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
260725 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
260744 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
260761 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
260778 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
260797 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
260813 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
260830 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
260849 TCGCATTGTGA--TTC-TC
1 TCGCATTGCGATTTTCATT
260865 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
260882 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
260901 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
260920 TCCGCATTGCGATTTTC--T
1 T-CGCATTGCGATTTTCATT
*
260938 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
260954 TCGCATTGCGATT
1 TCGCATTGCGATT
260967 CTCTCGTTGC
Statistics
Matches: 208, Mismatches: 11, Indels: 45
0.79 0.04 0.17
Matches are distributed among these distances:
14 27 0.13
16 22 0.11
17 21 0.10
18 15 0.07
19 98 0.47
20 25 0.12
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:260805 original size:52 final size:52
Alignment explanation
Indices: 260713--260980 Score: 404
Period size: 52 Copynumber: 5.1 Consensus size: 52
260703 AGAATCGCAA
260713 TGCGA-TTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
260765 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
260817 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGTGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
260869 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
*
260927 TGCGATTTTC--TT-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
260974 TGCGATT
1 TGCGATT
260981 GTAATTTCCG
Statistics
Matches: 204, Mismatches: 5, Indels: 19
0.89 0.02 0.08
Matches are distributed among these distances:
47 8 0.04
49 2 0.01
50 2 0.01
51 3 0.01
52 117 0.57
53 51 0.25
54 3 0.01
55 3 0.01
56 4 0.02
58 11 0.05
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:260841 original size:71 final size:69
Alignment explanation
Indices: 260728--260966 Score: 256
Period size: 71 Copynumber: 3.4 Consensus size: 69
260718 TTTCATTTCG
* *
260728 CATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCG
1 CATTGCGATTTGCATTT-CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
260788 ATTTT
65 ATTTT
* * *
260793 CATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTG
1 CATTGCG-ATTTGC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTG
*
260857 TGATTCTCT
63 CGATT-T-T
* *
260866 CGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCG
1 CATTGCGATTTGCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCG
260931 ATTTT
65 ATTTT
* * *
260936 CTTGTTGGGATTTTCATTTCGCATTGCGATT
1 C--ATTGCGATTTGCATTTCGCATTGCGATT
260967 CTCTCGTTGC
Statistics
Matches: 147, Mismatches: 13, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
65 9 0.06
66 12 0.08
67 1 0.01
68 3 0.02
69 4 0.03
70 2 0.01
71 64 0.44
72 43 0.29
73 9 0.06
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (69 bp):
CATTGCGATTTGCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA
TTTT
Found at i:260988 original size:33 final size:33
Alignment explanation
Indices: 260730--260980 Score: 247
Period size: 33 Copynumber: 7.2 Consensus size: 33
260720 TCATTTCGCA
260730 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
260764 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
260800 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
*
260835 TTGCGATTTTCATTTCGCATTGTGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
260868 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* *
260904 CATTGCGATTTTCATTTCCGCATTGCGATTTTCTTG
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
260940 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
260973 TTGCGATT
1 TTGCGATT
260981 GTAATTTCCG
Statistics
Matches: 178, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
31 8 0.04
32 5 0.03
33 68 0.38
34 29 0.16
35 8 0.04
36 11 0.06
37 4 0.02
38 23 0.13
39 13 0.07
40 9 0.05
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:261726 original size:20 final size:20
Alignment explanation
Indices: 261698--261926 Score: 253
Period size: 20 Copynumber: 11.4 Consensus size: 20
261688 AAATTTCAGT
* * *
261698 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
261718 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
261738 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
261758 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
261778 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
261798 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
261818 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
261838 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
261858 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
261878 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
261898 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
261918 GTTGCGATT
1 GTTGCGATT
261927 ATGGAAAATC
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 184 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:261944 original size:21 final size:20
Alignment explanation
Indices: 261920--261967 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
261910 ATATTCGCGT
261920 TGCGATTATGGAAAATCGCAA
1 TGCGATTAT-GAAAATCGCAA
* *
261941 TGCGAATATGAAAATCGCAT
1 TGCGATTATGAAAATCGCAA
261961 TGCGATT
1 TGCGATT
261968 GTCAAGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (20 bp):
TGCGATTATGAAAATCGCAA
Found at i:262555 original size:27 final size:27
Alignment explanation
Indices: 262517--262570 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
262507 CCAACGATCA
262517 AATTTATTAAGTGTGGGGTTTCATAAT
1 AATTTATTAAGTGTGGGGTTTCATAAT
262544 AATTTATTAAGTGTGGGGTTTCATAAT
1 AATTTATTAAGTGTGGGGTTTCATAAT
262571 GTTACCCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (27 bp):
AATTTATTAAGTGTGGGGTTTCATAAT
Found at i:262779 original size:26 final size:26
Alignment explanation
Indices: 262724--262786 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
262714 TAAAAGTGTT
* *
262724 ATTATTTTAATAATTATTAAAATTAC
1 ATTATATTAATAATTATTAAAATTAA
*
262750 ATTATATTAATAATTTTTTAAAA-TAA
1 ATTATATTAATAA-TTATTAAAATTAA
262776 ATTATAGTTAA
1 ATTATA-TTAA
262787 GCATAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.62
27 12 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTATATTAATAATTATTAAAATTAA
Found at i:264065 original size:26 final size:25
Alignment explanation
Indices: 264035--264091 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
264025 ATAAAAGTGT
*
264035 TATTATTTTAATAATTATTAAAATTA
1 TATTATATTAAT-ATTATTAAAATTA
*
264061 TATTATATTAATATTTTTAAAA-TA
1 TATTATATTAATATTATTAAAATTA
*
264085 AATTATA
1 TATTATA
264092 GTTATGAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.29
25 9 0.32
26 11 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTATATTAATATTATTAAAATTA
Found at i:265272 original size:21 final size:20
Alignment explanation
Indices: 265242--265280 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
265232 CTCAATGATT
* *
265242 AATTAGTTTTTTTATAAAAAC
1 AATTAATTTTATTA-AAAAAC
265263 AATTAATTTTATTAAAAA
1 AATTAATTTTATTAAAAA
265281 TAATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
AATTAATTTTATTAAAAAAC
Found at i:266397 original size:19 final size:19
Alignment explanation
Indices: 266369--266408 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
266359 ATTAGTATAT
*
266369 TAATAGAATCTCTT-TAAAA
1 TAATAAAATCT-TTCTAAAA
266388 TAATAAAATCTTTCTAAAA
1 TAATAAAATCTTTCTAAAA
266407 TA
1 TA
266409 TTCAAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (19 bp):
TAATAAAATCTTTCTAAAA
Found at i:266616 original size:49 final size:49
Alignment explanation
Indices: 266553--266699 Score: 213
Period size: 49 Copynumber: 3.0 Consensus size: 49
266543 GTGACAGTAA
* **
266553 GTGATTGTTACTGAGAGACAATATGGGATTGCATGCCGGGACTAGAGAT
1 GTGATTGTAACTGAGAGACGGTATGGGATTGCATGCCGGGACTAGAGAT
** *
266602 GTGATTGTGGCTGAGAGACGGTATGGGATTGCATGTCGGGACTAGAGAT
1 GTGATTGTAACTGAGAGACGGTATGGGATTGCATGCCGGGACTAGAGAT
* * *
266651 GTGATTGTAAATGATAGACGGTGTGGGATTGCATGCCGGGACTAGAGAT
1 GTGATTGTAACTGAGAGACGGTATGGGATTGCATGCCGGGACTAGAGAT
266700 TGGGATTTTC
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 87 1.00
ACGTcount: A:0.26, C:0.11, G:0.37, T:0.27
Consensus pattern (49 bp):
GTGATTGTAACTGAGAGACGGTATGGGATTGCATGCCGGGACTAGAGAT
Found at i:267199 original size:27 final size:27
Alignment explanation
Indices: 267161--267214 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
267151 CTAATGGGCA
267161 AATTTATTAAGTGTGGGGTTTCATAAT
1 AATTTATTAAGTGTGGGGTTTCATAAT
267188 AATTTATTAAGTGTGGGGTTTCATAAT
1 AATTTATTAAGTGTGGGGTTTCATAAT
267215 GTTACCCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (27 bp):
AATTTATTAAGTGTGGGGTTTCATAAT
Found at i:280417 original size:12 final size:10
Alignment explanation
Indices: 280402--280468 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 10
280392 AAAGAAGAAG
280402 AAAAATAAGTGA
1 AAAAATAA-T-A
280414 AAAAATAA-A
1 AAAAATAATA
280423 AAAAATAAT-
1 AAAAATAATA
280432 AAAAA-AATA
1 AAAAATAATA
*
280441 AAAAATGAATGG
1 AAAAAT-AAT-A
280453 AAAAA-AATGA
1 AAAAATAAT-A
280463 AAAAAT
1 AAAAAT
280469 GAGGGTTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
8 3 0.06
9 19 0.40
10 9 0.19
11 3 0.06
12 13 0.28
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (10 bp):
AAAAATAATA
Found at i:280436 original size:20 final size:21
Alignment explanation
Indices: 280402--280445 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
280392 AAAGAAGAAG
*
280402 AAAAATAAGTGAAAAAATAAA
1 AAAAATAAGTAAAAAAATAAA
280423 AAAAATAA-TAAAAAAATAAA
1 AAAAATAAGTAAAAAAATAAA
280443 AAA
1 AAA
280446 TGAATGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAAATAAGTAAAAAAATAAA
Found at i:281537 original size:55 final size:55
Alignment explanation
Indices: 281452--282200 Score: 1058
Period size: 55 Copynumber: 13.7 Consensus size: 55
281442 AGGTTCCCCA
* * * *
281452 CGATCGTTGAAGATTGTTCAAGTCTCATACTCTCTGAAGGAATAGGGGGCGGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
281507 CGATCGTTGAAGATTGTTCAAGTCTTATACTCTTTGAAGAAATAGGGGG-AGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * * *
281561 CGATAGTTGAAGATTGTTCGAGTCTTATACTGTCTGAGGAAATAGGGGGCGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
281616 CGATCGTTGAAGATTTTTCAAGTCTCATACTCTCTGAAGAAATAGGGGGCGGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
281671 CGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * * ** *
281726 TGATAGTTGAATATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGTGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
281781 CGATTGCTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGAGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
281836 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
281891 CGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
281946 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
281999 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGACGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
282054 CGATTGATGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAATGGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
282107 TGATCATTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
282162 CGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
282201 GACTATGGAG
Statistics
Matches: 617, Mismatches: 72, Indels: 10
0.88 0.10 0.01
Matches are distributed among these distances:
53 94 0.15
54 52 0.08
55 471 0.76
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (55 bp):
CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:285082 original size:26 final size:26
Alignment explanation
Indices: 285027--285089 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
285017 TAAAAGTGTT
* *
285027 ATTATTTTAATAATTATTAAAATTAC
1 ATTATATTAATAATTATTAAAATTAA
*
285053 ATTATATTAATAATTTTTTAAAA-TAA
1 ATTATATTAATAA-TTATTAAAATTAA
285079 ATTATAGTTAA
1 ATTATA-TTAA
285090 GCATAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.62
27 12 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTATATTAATAATTATTAAAATTAA
Found at i:290740 original size:21 final size:21
Alignment explanation
Indices: 290710--290769 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
290700 ATAGATACAA
*
290710 TCATAAAGACAAGAAGACCAT
1 TCATAAAGACATGAAGACCAT
* *
290731 TCATAGAGACATGAAGACCCT
1 TCATAAAGACATGAAGACCAT
290752 TCATAAAGACATGAAGAC
1 TCATAAAGACATGAAGAC
290770 TACATCACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.17
Consensus pattern (21 bp):
TCATAAAGACATGAAGACCAT
Found at i:291948 original size:23 final size:23
Alignment explanation
Indices: 291922--291966 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
291912 CACCACAGCT
*
291922 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
291945 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
291967 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:292109 original size:25 final size:25
Alignment explanation
Indices: 292081--292149 Score: 138
Period size: 25 Copynumber: 2.8 Consensus size: 25
292071 TATATATATA
292081 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
292106 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
292131 TCCCGAAGGACCGCGTAGA
1 TCCCGAAGGACCGCGTAGA
292150 CCCTCTACTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.17
Consensus pattern (25 bp):
TCCCGAAGGACCGCGTAGAATATTG
Found at i:293803 original size:64 final size:63
Alignment explanation
Indices: 293705--293865 Score: 173
Period size: 64 Copynumber: 2.5 Consensus size: 63
293695 TAATGAAGGT
* * * * *
293705 ATGCATCGATGCACTACACCATGCATCGATGCATATATTCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAAT--
*
293768 AG
62 AC
*
293770 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATAC
* *
293834 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
293866 CCTTAAATAA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
63 1 0.01
64 55 0.66
65 24 0.29
66 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATAC
Found at i:296818 original size:25 final size:25
Alignment explanation
Indices: 296781--296840 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
296771 CATCATGAGG
* * *
296781 AGAAAGAAGAGAAATGTAGAAAGAGA
1 AGAAAGAAAAGAAAAGAAGAAAGA-A
296807 AG-AAGAAAAGAAAAGAAGAAAGAA
1 AGAAAGAAAAGAAAAGAAGAAAGAA
296831 AGAAAGAAAA
1 AGAAAGAAAA
296841 AATTGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.10
25 25 0.83
26 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (25 bp):
AGAAAGAAAAGAAAAGAAGAAAGAA
Found at i:296825 original size:16 final size:17
Alignment explanation
Indices: 296798--296837 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
296788 AGAGAAATGT
296798 AGAAAGAGAAG-AAGAAA
1 AGAAAGAGAAGAAAG-AA
296815 AGAAA-AGAAGAAAGAA
1 AGAAAGAGAAGAAAGAA
296831 AGAAAGA
1 AGAAAGA
296838 AAAAATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AGAAAGAGAAGAAAGAA
Found at i:299097 original size:34 final size:34
Alignment explanation
Indices: 299020--299400 Score: 492
Period size: 34 Copynumber: 10.9 Consensus size: 34
299010 AGCAAAGTCA
* * *
299020 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-ACC
* *
299055 ATCTTAAGCCTTCACATAAGTGTAGTGAAGCACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
* *
299089 ATCTTAAGCCTTCACAGAGGAGCAGTGAAGCAAACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC--ACC
* * *
299125 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-ACC
299160 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
* *
299194 ATCTTAAGCCTTCACAGAGGAGTAGTGAAGTAAACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAG--CACC
* * *
299230 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-ACC
*
299265 ATCTTAAGTCTTCACAGAAGAGTAGTGAAGCACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
* *
299299 ATCTTAAGCCTTCATAGAGGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC--ACC
* *
299335 ATCTTAAGCCTTCAAAGAGGAGTAGTGAAGCACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
*
299369 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCA
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCA
299401 AATCCATCCA
Statistics
Matches: 304, Mismatches: 35, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
34 122 0.40
35 89 0.29
36 93 0.31
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (34 bp):
ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
Found at i:299147 original size:105 final size:105
Alignment explanation
Indices: 299020--299400 Score: 649
Period size: 105 Copynumber: 3.6 Consensus size: 105
299010 AGCAAAGTCA
* *
299020 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACATAAGTGTAGTGAAG
1 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
*
299085 CACCATCTTAAGCCTTCACAGAGGAGCAGTGAAGCAAACC
66 CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
299125 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
*
299190 CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGTAAACC
66 CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
*
299230 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGTCTTCACAGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
*
299295 CACCATCTTAAGCCTTCATAGAGGAGTAGTGAAGCAAACC
66 CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
** * *
299335 ATCTTAAGCCTTCA-AAGAGGAGTAGTGAAGC-ACCATCTTAAGCCTTCACTGAAGAGTAGTGAA
1 ATCTTAAGCCTTCACCGGA-GAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAA
299398 GCA
65 GCA
299401 AATCCATCCA
Statistics
Matches: 263, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
104 34 0.13
105 229 0.87
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (105 bp):
ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
Found at i:299599 original size:42 final size:41
Alignment explanation
Indices: 299533--299623 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 41
299523 AAGTCCTTTG
* * * *
299533 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTC
1 GGGCCATCAGTAAGCCTTTAGAGCAAGATG-ATAAATCCTTC
* * *
299575 GGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTC
1 GGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAATCCTTC
299616 GGGCCATC
1 GGGCCATC
299624 CATGAAACCT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 16 0.39
42 25 0.61
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
GGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAATCCTTC
Found at i:299753 original size:20 final size:20
Alignment explanation
Indices: 299728--299843 Score: 63
Period size: 20 Copynumber: 5.7 Consensus size: 20
299718 TCACAATTTA
299728 TAAGTCCTTCGGGCCATCTG
1 TAAGTCCTTCGGGCCATCTG
* * *
299748 TAAGTCTTTCGAG-CATGATG
1 TAAGTCCTTCGGGCCAT-CTG
* *
299768 CTTAAATCCTTCGGGTCATCTG
1 --TAAGTCCTTCGGGCCATCTG
* * * * **
299790 TAAGTCTTTAGAGCAAGATG
1 TAAGTCCTTCGGGCCATCTG
**
299810 ATAAGTCCTTCGGGCCATCCA
1 -TAAGTCCTTCGGGCCATCTG
*
299831 TAAGACCTTCGGG
1 TAAGTCCTTCGGG
299844 TAGGATGTTT
Statistics
Matches: 67, Mismatches: 24, Indels: 10
0.66 0.24 0.10
Matches are distributed among these distances:
19 3 0.04
20 37 0.55
21 12 0.18
22 12 0.18
23 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (20 bp):
TAAGTCCTTCGGGCCATCTG
Found at i:299791 original size:42 final size:41
Alignment explanation
Indices: 299727--299828 Score: 141
Period size: 42 Copynumber: 2.5 Consensus size: 41
299717 TTCACAATTT
* * *
299727 ATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG
* *
299768 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG
*
299810 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
299829 CATAAGACCT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 16 0.31
42 36 0.69
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG
Found at i:300019 original size:42 final size:41
Alignment explanation
Indices: 299950--300043 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 41
299940 TCATAAGTCC
* * * *
299950 TTCGGGCCATATGTAAGTCTTTTGAGCATGATGTTTAAATCA
1 TTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG-ATAAATCA
* *
299992 TTCGGGTCATCTGTAA-TCCTTTAGAGCAAGATGATAAGTCA
1 TTCGGGCCATCTGTAAGT-CTTTAGAGCAAGATGATAAATCA
300033 TTCGGGCCATC
1 TTCGGGCCATC
300044 CATAAGACCT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 17 0.39
42 27 0.61
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (41 bp):
TTCGGGCCATCTGTAAGTCTTTAGAGCAAGATGATAAATCA
Found at i:300222 original size:42 final size:41
Alignment explanation
Indices: 300158--300259 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 41
300148 TTCACAATTT
* * *
300158 ATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG
* **
300199 CTTAAATCCTTCGGGTTATCTGTAAGTCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG
*
300241 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
300260 CATAAGACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 15 0.30
42 35 0.70
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATG
Found at i:300420 original size:214 final size:214
Alignment explanation
Indices: 299404--300714 Score: 2000
Period size: 214 Copynumber: 6.1 Consensus size: 214
299394 TGAAGCAAAT
* * *
299404 CCATCCATAAGACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAAAATTATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
* * * * *
299469 GAAGATGAAACTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTTGG
66 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCC-TTCG
*
299534 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
130 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC
299599 AAGATGATAAGTCCTTCGGG
195 AAGATGATAAGTCCTTCGGG
* *
299619 CCATCCATGAA-ACCTTCGGGTAGGATGTTTTCACATGAAATTGAAAATGAAAAA--A-----T-
1 CCATCCAT-AAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTA
* * *
299675 -GATGATGGAATTTTTAAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
65 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCG
* *
299739 GGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC
130 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC
299804 AAGATGATAAGTCCTTCGGG
195 AAGATGATAAGTCCTTCGGG
*
299824 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATAAAAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAAT-GAAAAATGATGTTTTA
* *
299889 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCC-CAATTCATAAGTCCTTC
65 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAA-TTCCACAATTTATAAGTCCTTC
* *
299953 GGGCCAT-ATGTAAGTCTTTTGAGCATGATGTTTAAATCATTCGGGTCATCTGTAA-TCCTTTAG
129 GGGCCATCA-GTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGT-CTTTAG
*
300016 AGCAAGATGATAAGTCATTCGGG
192 AGCAAGATGATAAGTCCTTCGGG
* *
300039 CCATCCATAAGACCTTCGGGTAGGATGTTCTCAAATGAATTTGACAATGAAAAAAATGATGTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATG--AAAAATGATGTTTT
*
300104 AAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTC
64 AAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTC
* * *
300169 GGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTTATCTGTAAGTCTTTAGAG
129 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAG
300234 CAAGATGATAAGTCCTTCGGG
194 CAAGATGATAAGTCCTTCGGG
* *
300255 CCATCCATAAGACCTTCAGGTAGGATGTTTTCAAATTAATTTGAAAATGAAAAATGATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
* *
300320 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTATAAGTCCTTCGA
66 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCGG
* *
300385 GCCATCAATAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
*
300450 AGATGATAAGTCCTTTGGG
196 AGATGATAAGTCCTTCGGG
*
300469 ACATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
* * * * *
300534 GAAGATGGAAATTTTGTAAACGAAGAATGCGATTTTCAAAATCCCATAATTTATAAGCCCTTCGG
66 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCGG
* * * *
300599 GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCAGTAAATATTTCGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
* * *
300664 TGATGCTTAAATCCTTCGGG
196 AGATG-ATAAGTCCTTCGGG
* *
300684 TCATCCATAAGACCTTCGGGCAGGATGTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTT
300715 TCACTAGGAT
Statistics
Matches: 1006, Mismatches: 69, Indels: 42
0.90 0.06 0.04
Matches are distributed among these distances:
204 2 0.00
205 128 0.13
206 60 0.06
208 2 0.00
213 2 0.00
214 342 0.34
215 270 0.27
216 199 0.20
217 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (214 bp):
CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTCCACAATTTATAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
AGATGATAAGTCCTTCGGG
Found at i:300651 original size:42 final size:42
Alignment explanation
Indices: 300592--300688 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
300582 ATTTATAAGC
* * * *
300592 CCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAAT
1 CCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAAT
300634 CCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAAT
1 CCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAAT
300676 CCTTCGGGTCATC
1 CCTTCGGGTCATC
300689 CATAAGACCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (42 bp):
CCTTCGGGTCATCAGTAAATATTTCGAGCATGATGCTTAAAT
Found at i:300681 original size:22 final size:21
Alignment explanation
Indices: 300614--300681 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
300604 CAGTAAGTCT
300614 TTCGAGCATGATGTTTAAATCC
1 TTCGAGCATGATG-TTAAATCC
* * **
300636 TTCGGGTCATCA-G-TAAATAT
1 TTCGAG-CATGATGTTAAATCC
300656 TTCGAGCATGATGCTTAAATCC
1 TTCGAGCATGATG-TTAAATCC
300678 TTCG
1 TTCG
300682 GGTCATCCAT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 4 0.12
20 11 0.32
22 15 0.44
23 4 0.12
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (21 bp):
TTCGAGCATGATGTTAAATCC
Found at i:300691 original size:645 final size:634
Alignment explanation
Indices: 299404--300712 Score: 2011
Period size: 645 Copynumber: 2.0 Consensus size: 634
299394 TGAAGCAAAT
* * * *
299404 CCATCCATAAGACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAAAATTATGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTCTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
* *
299469 GAAGATGAAACTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTTGG
66 GAAGATGAAACTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTTCG
*
299534 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
* *
299599 AAGATGATAAGTCCTTCGGGCCATCCATGAAACCTTCGGGTAGGATGTTTTCACATGAAATTGAA
196 AAGATGATAAGTCCTTCGGGCCATCCATGAAACCTTCAGGTAGGATGTTTTCAAATGAAATTGAA
* **
299664 AATGAAAAAATGATGATGGAATTTTTAAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTAT
261 AATGAAAAAATGAAGATGGAATTTTTAAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTAT
* **
299729 AAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
326 AAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
* *
299794 TCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAA
391 CCTTTAGAGCAAGATGATAAGTCCTTCGGGACATCCATAAGACCTTCGGGTAGGATGTTTTCAAA
299859 TGAATTTGAAAATAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATT
456 TGAATTTGAAAATAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATT
* *
299924 TTCAAAATTTCCCAATTCATAAGTCCTTCGGGCCATATGTAAGTCTTTTGAGCATGATGTTTAAA
521 TTCAAAA-TTCCCAATTCATAAGCCCTTCGGGCCATATGTAAGTCTTTCGAGCATGATGTTTAAA
* * *
299989 TCATTCGGGTCATCTGTAATCCTTTAGAGCAAGATGATAAGTCATTCGGG
585 TCATTCGGGTCATCAGTAATCATTTAGAGCAAGATGATAAATCATTCGGG
*
300039 CCATCCATAAGACCTTCGGGTAGGATGTTCTCAAATGAATTTGACAATGAAAAAAATGATGTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTCTCAAATGAATTTGAAAATG--AAAAATGATGTTTT
* *
300104 AAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCC-TT
64 AAGAAGATGAAACTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTT
* * *
300168 CGGGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTTATCTGTAAGTCTTTAGA
129 CGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGA
* *
300233 GCAAGATGATAAGTCCTTCGGGCCATCCAT-AAGACCTTCAGGTAGGATGTTTTCAAATTAATTT
194 GCAAGATGATAAGTCCTTCGGGCCATCCATGAA-ACCTTCAGGTAGGATGTTTTCAAATGAAATT
*
300297 GAAAATGAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAAT
258 GAAAATGAAAAA--A-----T--GAAGATGGAATTTTTAAAAACGAAGAATGCGATTTTCAAAAT
*
300362 CCCACAATTTATAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCATGATGTTTAAATCCTTCGG
314 CCCACAATTTATAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGG
*
300427 GTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTTGGGACATCCATAAGACCTTCGGGTAG
379 GTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGACATCCATAAGACCTTCGGGTAG
* *
300492 GATGTTTTCAAATGAATTTGAAAAT-GAAAAATGATGTTTTAAGAAGATGGAAA-TTTTGTAAAC
444 GATGTTTTCAAATGAATTTGAAAATAAAAAAATGATGTTTTAAGAAGAT-GAAATTTTTGAAAAC
*
300555 GAAGAATGCGATTTTCAAAA-TCCCATAATTTATAAGCCCTTCGGGCCATCA-GTAAGTCTTTCG
508 GAAGAATGCGATTTTCAAAATTCCC--AATTCATAAGCCCTTCGGGCCAT-ATGTAAGTCTTTCG
* * * * *
300618 AGCATGATGTTTAAATCCTTCGGGTCATCAGTAAAT-ATTTCGAGCATGATGCTTAAATCCTTCG
570 AGCATGATGTTTAAATCATTCGGGTCATCAGT-AATCATTTAGAGCAAGATG-ATAAATCATTCG
300682 GG
633 GG
* *
300684 TCATCCATAAGACCTTCGGGCAGGATGTT
1 CCATCCATAAGACCTTCGGGTAGGATGTT
300713 TTTCACTAGG
Statistics
Matches: 613, Mismatches: 43, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
635 47 0.08
636 131 0.21
637 72 0.12
638 1 0.00
642 4 0.01
643 1 0.00
644 125 0.20
645 232 0.38
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (634 bp):
CCATCCATAAGACCTTCGGGTAGGATGTTCTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
GAAGATGAAACTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTTCG
GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
AAGATGATAAGTCCTTCGGGCCATCCATGAAACCTTCAGGTAGGATGTTTTCAAATGAAATTGAA
AATGAAAAAATGAAGATGGAATTTTTAAAAACGAAGAATGCGATTTTCAAAATCCCACAATTTAT
AAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
CCTTTAGAGCAAGATGATAAGTCCTTCGGGACATCCATAAGACCTTCGGGTAGGATGTTTTCAAA
TGAATTTGAAAATAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATT
TTCAAAATTCCCAATTCATAAGCCCTTCGGGCCATATGTAAGTCTTTCGAGCATGATGTTTAAAT
CATTCGGGTCATCAGTAATCATTTAGAGCAAGATGATAAATCATTCGGG
Found at i:307789 original size:21 final size:20
Alignment explanation
Indices: 307765--307875 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 20
307755 ACCAAGGACA
307765 AGAAGAGCATTCATCAAGACG
1 AGAAGA-CATTCATCAAGACG
*
307786 AGAATGTCATTCATCAAGACG
1 AGAA-GACATTCATCAAGACG
*
307807 AGAATACTATTCATCAAGACG
1 AGAAGAC-ATTCATCAAGACG
*
307828 AGAAGACCTTTCAT-AACGACG
1 AGAAGA-CATTCATCAA-GACG
* * * *
307849 AGAAGACCTTCGTAAAGATG
1 AGAAGACATTCATCAAGACG
307869 AGAAGAC
1 AGAAGAC
307876 CACATCACAT
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
20 18 0.23
21 57 0.74
22 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (20 bp):
AGAAGACATTCATCAAGACG
Found at i:310473 original size:5 final size:5
Alignment explanation
Indices: 310463--310498 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
310453 TAGAAAGAGA
310463 AAAAG AAAAG AAAAG AAGAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG -A-AAAG AAAAG AAAAG AAAA
310499 AATTGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.79
6 2 0.07
7 4 0.14
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:310474 original size:17 final size:16
Alignment explanation
Indices: 310454--310499 Score: 74
Period size: 17 Copynumber: 2.8 Consensus size: 16
310444 AGAGAAGTGT
310454 AGAAAGAGAAAAAGAAA
1 AGAAA-AGAAAAAGAAA
310471 AGAAAAGAAGAAAGAAA
1 AGAAAAGAA-AAAGAAA
310488 AGAAAAGAAAAA
1 AGAAAAGAAAAA
310500 ATTGAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAAAAGAAA
Found at i:310484 original size:12 final size:12
Alignment explanation
Indices: 310454--310491 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
310444 AGAGAAGTGT
310454 AGAAAGAGAAA-A
1 AGAAAGA-AAAGA
310466 AGAAAAGAAAAGA
1 AG-AAAGAAAAGA
310479 AGAAAGAAAAGA
1 AGAAAGAAAAGA
310491 A
1 A
310492 AAGAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAGA
Found at i:312752 original size:36 final size:36
Alignment explanation
Indices: 312587--312785 Score: 238
Period size: 36 Copynumber: 5.5 Consensus size: 36
312577 GATTGGAGAA
*
312587 AAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
*
312623 AAACCATCTGAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * *
312659 AATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * * *
312695 AAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * * *
312731 AAAGCATCTTAAGTCTTCACC-AAAAAGTAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAA-TAGTGAAGC
* *
312767 AGATCCATTTTAAGCCTTC
1 A-AACCATCTTAAGCCTTC
312786 TCAGAAGAGT
Statistics
Matches: 141, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
35 2 0.01
36 126 0.89
37 13 0.09
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (36 bp):
AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
Found at i:313235 original size:51 final size:51
Alignment explanation
Indices: 313168--314696 Score: 989
Period size: 51 Copynumber: 28.8 Consensus size: 51
313158 AAGATTATTT
* * * *
313168 GAGTTCCATACCCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * ** * * *
313219 GAGTTCCATACTCCCTAGAGAAAGAATGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
313270 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * *
313321 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACTCGTTTGAAGA-GATGTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-TC
* * * * *
313373 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
1 -GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
313425 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
313476 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-TC
* * * * *
313528 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
1 -GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
313580 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * **
313631 GAGTTCCATACTCCTTAAAGAAAGAATGAGCGAACCCAG-TTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC-GTTTGAAGATGTTC
*
313682 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG-A-AGATGTTC
* *
313733 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTAAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
313784 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCATTTTCAGAAGATTGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC-GTTT--GAAGA-TGTTC
* ** * ** *
313839 GAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGATCTTC
1 GAGTTCTATACTCCCTAAAGAAAGAG-GGAGCGAACCCGT---TTGAAGATGTTC
* * * * * * *
313894 GAGTTCTATACTTCCTGAAGAAAGAGAGATCGAGCACGTTTTCAGAAGATCATTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTT--GAAGAT-GTTC
* * * * * * *
313949 AAGTTCTTTACTTCCTGAAAGAAAGAGGGAGTGAGCCCATTTGTAAAAGATTATTC
1 GAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTG---AAGA-TGTTC
* * *
314005 GAGTTCTATACTCCCTAAAGAAAGAGGAAGCGAACCCATTTTTAGAAGATTTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC--GTTT-GAAGATGTTC
* * * *
314059 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCATTTTCAGAAGATCATTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC-GTTT--GAAGAT-GTTC
* * * *
314114 GAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTC
1 GAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTT---GAAGA-TGTTC
* * ** *
314170 GAGTTCTATACTCCTTAAAGAAA-A---AGGGAATTCGTTTACAGAAGATTATTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT---GAAGA-TGTTC
* * **
314221 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGT---TTGAAGATGTTC
* * * * * *
314275 GAGTTCCATAATCCCTAGAGAAATAGGGAG-TAGACCCGATTGTTGAAGTTTGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGA-ACCCG--T-TTGAAG-ATGTTC
* * * *
314330 GAG-TCTTATACTCTCTGAAAG-AATAGGGAGC-AGACACGATTGTTGAAGATTATTC
1 GAGTTC-TATACTCCCT-AAAGAAAGAGGGAGCGA-ACCCG--T-TTGAAGA-TGTTC
* * * * *
314385 GAG-TCTCATACTCTCTGAAAG-AATAGGGAG-TAGACACGATTGTTGAAGATTATTC
1 GAGTTCT-ATACTCCCT-AAAGAAAGAGGGAGCGA-ACCCG--T-TTGAAGA-TGTTC
* * * *
314440 GAG-TCTCATACTCTCTGAAAG-AATAGGGAG-TAGACACGATTGTTGAAGATTGTTC
1 GAGTTCT-ATACTCCCT-AAAGAAAGAGGGAGCGA-ACCCG--T-TTGAAGA-TGTTC
* * * * * * *
314495 GAG-TCTCATACTCTCTGAAGGAATAGGGAGC-ATACACGTTTTCAAAAGATTTTC
1 GAGTTCT-ATACTCCCTAAAGAAAGAGGGAGCGA-ACCCG-TTT--GAAGATGTTC
** * *
314549 GAGTTCTATACTCCCTGGAGAAAGAGGGAACGAACCCAATTGTTGAAGATTGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC--GT-TTGAAGA-TGTTC
* * * * * * *
314604 GAG-TCTCATACTCTCTGAAGGAATAAGGAGC-AGACACGTTTTCAGAAGATTTTC
1 GAGTTCT-ATACTCCCTAAAGAAAGAGGGAGCGA-ACCCG-TTT--GAAGATGTTC
* *
314658 AAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGT
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGT
314697 AGGCAAAAGA
Statistics
Matches: 1236, Mismatches: 170, Indels: 142
0.80 0.11 0.09
Matches are distributed among these distances:
49 2 0.00
50 4 0.00
51 470 0.38
52 12 0.01
53 97 0.08
54 179 0.14
55 366 0.30
56 100 0.08
57 5 0.00
58 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (51 bp):
GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
Found at i:313448 original size:155 final size:156
Alignment explanation
Indices: 313168--314155 Score: 1133
Period size: 155 Copynumber: 6.3 Consensus size: 156
313158 AAGATTATTT
* * * *
313168 GAGTTCCATACCCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-A-AGATGTC-CGAGTTCCATAC
1 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTCGAGTTCCATAC
**
313230 TCCCTAGAGAAAGAATGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
66 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
313295 AGGAGCGAACCCGTTTAAAGATGTTC
131 AGGAGCGAACCCGTTTAAAGATGTTC
*
313321 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACTCGTTTGAAGAGATGTCT-GAGTTCCATAC
1 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTCGAGTTCCATAC
313385 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
66 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
313450 AGGAGCGAACCCGTTTAAAGATGTTC
131 AGGAGCGAACCCGTTTAAAGATGTTC
313476 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCT-GAGTTCCATAC
1 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTCGAGTTCCATAC
313540 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
66 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
313605 AGGAGCGAACCCGTTTAAAGATGTTC
131 AGGAGCGAACCCGTTTAAAGATGTTC
* *
313631 GAGTTCCATACTCCTTAAAGAAAGAATGAGCGAACCCAG-TTG-A-AGATGT-TCGAGTTCTATA
1 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGAGATGTCTCGAGTTCCATA
* *
313692 CTCCCTAGAGAAAGAGGGAGCGAACCC--GTGAAGAGATGTTCGAGTTCTATACTCCCTAAAGAA
65 CTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATG--CGAGTTCTATACTCCTTAAAGAA
* *
313755 AGAGGGAGCGAACCCATTTAAAGATGTTC
128 AGAAGGAGCGAACCCGTTTAAAGATGTTC
* * ** *
313784 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCATTTTCAGAAGATTGT-TCGAGTTCTAT
1 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGA-TGTCTCGAGTTCCAT
* * * * * * *
313848 ACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGATCTTCGAGTTCTATACTTCC-TGA
64 ACTCCCTAGAGAAAGAG-GGAGCGAACCCGT--G-TGAAGATATGCGAGTTCTATAC-TCCTTAA
* * * *
313912 AGAAAG-AGAGATCGAGCACGTTTTCAGAAGATCATTC
124 AGAAAGAAG-GAGCGAACCCG-TTT-A-AAGAT-GTTC
* ** * * * * * * * *
313949 AAGTTCTTTACTTCCTGAAAGAAAGAGGGAGTGAGCCCATTTGTAAAAGAT-TATTCGAGTTCTA
1 GAGTTCCATAC-TCCTTAAAGAAAGAAGGAGCGAACCCGTTTG-AAGAGATGT-CTCGAGTTCCA
* * * * * * * *
314013 TACTCCCTAAAGAAAGAGGAAGCGAACCCATTTTTAGAAGATTTTCGAGTTCTATACTCCCTGAA
63 TACTCCCTAGAGAAAGAGGGAGCGAACCC--GTGT-GAAGATATGCGAGTTCTATACTCCTTAAA
* * * *
314078 GAAAGAGGGAGCGAGCCCATTTTCAGAAGATCATTC
125 GAAAGAAGGAGCGAACCC-GTTT-A-AAGAT-GTTC
* * * *
314114 GAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTT
1 GAGTTCCATAC-TCCTTAAAGAAAGAAGGAGCGAACCCGTTT
314156 CCAAAAGATT
Statistics
Matches: 743, Mismatches: 58, Indels: 56
0.87 0.07 0.07
Matches are distributed among these distances:
151 10 0.01
152 1 0.00
153 165 0.22
154 3 0.00
155 300 0.40
156 4 0.01
157 29 0.04
158 10 0.01
160 1 0.00
161 27 0.04
162 7 0.01
163 7 0.01
164 9 0.01
165 113 0.15
166 55 0.07
167 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (156 bp):
GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTCGAGTTCCATAC
TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
AGGAGCGAACCCGTTTAAAGATGTTC
Found at i:314468 original size:165 final size:163
Alignment explanation
Indices: 314044--314641 Score: 462
Period size: 164 Copynumber: 3.7 Consensus size: 163
314034 GCGAACCCAT
* * * *
314044 TTTTAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGC-CCATT-TTCAGAAG
1 TTTTAAAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACACAATTGTT--GAAG
* * * * * * **** *
314107 ATCATTCGAGT-TCTATACT-TCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTC
64 ATTATTCGAGTCTC-ATACTCT-CTGAAAG-AATAGGGAGTAGACACGATTGTTGAAGATTGTTC
* * * **
314170 GAGT-TCTATACTC-CTTAAAGAAAAAGG-G-A-ATTCG
126 GAGTCTC-ATACTCTCTGAAAGAATAGGGAGCAGACACG
* ** * **
314204 -TTTACAGAAGATTATTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAAC-CTGTAAGAAG
1 TTTTA-A-AAGATT-TTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAACGAACACAAT-TGTTG
* * * * * *
314266 AAGA-TGTTCGAGT-TCCATAATCCCT-AGAGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGT
61 AAGATTATTCGAGTCT-CATACTCTCTGAAAG-AATAGGGAGTAGACACGATTGTTGAAGATTGT
*
314328 TCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACG
124 TCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACACG
* * * *
314368 ATTGTT-GAAGATTATTCGAG-TCTCATACTCTCTGAA-AGAATAGGG-A-GTAGACACGATTGT
1 -TT-TTAAAAGATT-TTCGAGTTCT-ATACTCCCTGAAGA-AAGAGGGAACG-A-ACACAATTGT
314428 TGAAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACACGATTGTTGAAGATTGT
59 TGAAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACACGATTGTTGAAGATTGT
* *
314493 TCGAGTCTCATACTCTCTGAAGGAATAGGGAGCATACACG
124 TCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACACG
* *
314533 TTTTCAAAAGATTTTCGAGTTCTATACTCCCTGGAGAAAGAGGGAACGAACCCAATTGTTGAAGA
1 TTTT-AAAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACACAATTGTTGAAGA
* * * *
314598 TTGTTCGAGTCTCATACTCTCTGAAGGAATAAGGAGCAGACACG
65 TTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACACG
314642 TTTTCAGAAG
Statistics
Matches: 351, Mismatches: 56, Indels: 58
0.75 0.12 0.12
Matches are distributed among these distances:
159 4 0.01
160 38 0.11
161 33 0.09
162 45 0.13
163 8 0.02
164 117 0.33
165 98 0.28
166 6 0.02
167 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (163 bp):
TTTTAAAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACACAATTGTTGAAGAT
TATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTC
TCATACTCTCTGAAAGAATAGGGAGCAGACACG
Found at i:314652 original size:55 final size:55
Alignment explanation
Indices: 314296--314688 Score: 435
Period size: 55 Copynumber: 7.2 Consensus size: 55
314286 TCCCTAGAGA
* * * * *
314296 AATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAG
1 AATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
* *
314351 AATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAAG
1 AATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
* * *
314406 AATAGGGAGTAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAAG
1 AATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
*
314461 AATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
1 AATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
* * * * *
314516 AATAGGGAGCATACACG-TT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGGAGA
1 AATAGGGAGCAGACACGATTGTT--GAAGATTGTTCGAGTCTC-ATACTCTCTGAAGG
* * * *
314570 AAGAGGGAAC-GAACCCAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
1 AATAGGGAGCAG-ACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
* * * *
314625 AATAAGGAGCAGACACG-TT-TTCAGAAGATT-TTCAAGT-TCTATACTCCCTGAAGA
1 AATAGGGAGCAGACACGATTGTT--GAAGATTGTTCGAGTCTC-ATACTCTCTGAAGG
*
314679 AAGAGGGAGC
1 AATAGGGAGC
314689 GAACCCGTAG
Statistics
Matches: 293, Mismatches: 33, Indels: 25
0.83 0.09 0.07
Matches are distributed among these distances:
53 8 0.03
54 65 0.22
55 215 0.73
56 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (55 bp):
AATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
Found at i:314707 original size:109 final size:109
Alignment explanation
Indices: 313157--314742 Score: 618
Period size: 110 Copynumber: 14.9 Consensus size: 109
313147 TGAAGCAAAT
* * *
313157 GAAGATTATTTGAGTTCCATACCCCCT-AGAGAAAGAGGGAGCGAACCCGT-T-T-GAAGA-TGT
1 GAAGATTATTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTATGTAGAAGATTGT
* * * * ** * *
313217 CCGAGTTCCATACTCCCT-AGAGAAAGAATGAGC-GAACCCG-TGT--
65 TCGAGTT-CATACTCTCTGA-AGGAATAGGGAGCAG-ACACGTTTTCA
* * * *
313260 GAAGA-TATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT-T-TA-AAGA-TGTT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGTAGAAGATTGTT
* * *
313320 CGAGTTCCATACTC-CTTAAAGAA-AGAAGGAGC-GAACTCG-TTT--
66 CGAGTT-CATACTCTCTGAAGGAATAG--GGAGCAG-ACACGTTTTCA
* *
313362 GAAGA-GATGTCTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCG--TGT-GAAGATA
1 GAAGATTAT-TC-GAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTATGTAGAAGAT-
* * *
313422 TG--CGAGTTCTATACTC-CTTAAAGAA-AGAAGGAGC-GAACCCG-TTT-A
62 TGTTCGAGTTC-ATACTCTCTGAAGGAATAG--GGAGCAG-ACACGTTTTCA
* * * * * * *
313467 -AAGA-TGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGA-TG-T
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGTAGAAGATTGTT
* * * * *
313527 CTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGC-GAACCCG-TGT--
66 C-GAGTT-CATACTCTCTGA-AGGAATAGGGAGCAG-ACACGTTTTCA
* * * *
313570 GAAGA-TATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT-T-TA-AAGA-TGTT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGTAGAAGATTGTT
* * * *
313630 CGAGTTCCATACTC-CTTAAAGAA-AGAATGAGC-GAACCCAG--TT--
66 CGAGTT-CATACTCTCTGAAGGAATAG--GGAGCAG-ACAC-GTTTTCA
* *
313672 GAAGA-TGTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCG--TGAAG-AGA-TGT
1 GAAGATTATTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTATGTAGAAGATTGT
* * * * **
313731 TCGAGTTCTATACTCCCTAAAGAAAGAGGGAGC-GA-ACCCATTT-A
65 TCGAGTTC-ATACTCTCTGAAGGAATAGGGAGCAGACA-CGTTTTCA
* * * * * *
313775 -AAGA-TGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCAT-TTTCAGAAGATTGT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGT-AGAAGATTGT
* * * * * ****
313837 TCGAGTTCTATACT-TCCTGGAGAAAGAGCGAAGC-GAACCCGTAAGAA
65 TCGAGTTC-ATACTCT-CTGAAGGAATAG-GGAGCAG-ACACGTTTTCA
* * * * * * * **
313884 GAAGA-TCTTCGAGTTCTATACTTCCTGAAGAAAGAGAGATCGAGCACGT-TTTCAGAAGATCAT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGT-AGAAGATTGT
* * * * * * *
313947 TCAAGTTCTTTACT-TCCTGAAAGAAAGAGGGAG-TGAGCCCATTTGT-A
65 TCGAGTTC-ATACTCT-CTG-AAGGAATAGGGAGCAGA-CACGTTT-TCA
* * * * * *
313994 AAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGAAGCGAACCCATTTTTAGAAGATT-TT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGTAGAAGATTGTT
* * * * *
314058 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGC-GAGCCCATTTTCA
66 CGAGTTC-ATACTCTCTGAAGGAATAGGGAGCAGA-CACGTTTTCA
* * * * ** * *
314103 GAAGATCATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTAT
1 GAAGATTATTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTATGTAGAAGATTGT
* * * * ** *
314168 TCGAGTTCTATACTC-CTTAAAGAAAAAGG-G-A-ATTCGTTTACA
65 TCGAGTTC-ATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCA
* * *
314210 GAAGATTATTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCTGTAAGAAGAAGA-TGT
1 GAAGATTATTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTATGTAGAAGATTGT
* * * * *
314273 TCGAGTTCCATAATCCCT-AGAGAAATAGGGAGTAGACCCGATTGTT--
65 TCGAGTT-CATACTCTCTGA-AGGAATAGGGAGCAGACACG-TT-TTCA
* * * * * *
314319 GAAGTTTGTTCGAG-TCTTATACTCTCTGAA-AGAATAGGGAGC-AGACACG-ATTGTTGAAGAT
1 GAAGATTATTCGAGTTC-TATACTCCCTGAAGA-AAGAGGGAGCGA-ACCCGTA-TGTAGAAGAT
* * *
314380 TATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACACGATTGTT--
62 TGTTCGAGT-TCATACTCTCTGAAGGAATAGGGAGCAGACACG-TT-TTCA
* * * * *
314429 GAAGATTATTCGAG-TCTCATACTCTCTGAA-AGAATAGGGAG-TAGACACG-ATTGTTGAAGAT
1 GAAGATTATTCGAGTTCT-ATACTCCCTGAAGA-AAGAGGGAGCGA-ACCCGTA-TGTAGAAGAT
*
314490 TGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCATACACGTTTTCA
62 TGTTCGAGT-TCATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCA
* * * * *
314539 AAAGATT-TTCGAGTTCTATACTCCCTGGAGAAAGAGGGAACGAACCC-AATTGTTGAAGATTGT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTA-TGTAGAAGATTGT
*
314602 TCGAGTCTCATACTCTCTGAAGGAATAAGGAGCAGACACGTTTTCA
65 TCGAGT-TCATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCA
* * * * *
314648 GAAGATT-TTCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTAGGCAAAAGATTGTA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGTAGAAGATTGTT
314712 CGAGTTTC-TACTC-CATGAAGGAATAGGGAGC
66 CGAG-TTCATACTCTC-TGAAGGAATAGGGAGC
314743 GAACCTGTTG
Statistics
Matches: 1218, Mismatches: 173, Indels: 179
0.78 0.11 0.11
Matches are distributed among these distances:
100 3 0.00
101 15 0.01
102 257 0.21
103 26 0.02
104 162 0.13
105 26 0.02
106 64 0.05
107 38 0.03
108 32 0.03
109 240 0.20
110 283 0.23
111 69 0.06
112 3 0.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (109 bp):
GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTATGTAGAAGATTGTT
CGAGTTCATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCA
Found at i:314761 original size:54 final size:52
Alignment explanation
Indices: 314319--314762 Score: 199
Period size: 55 Copynumber: 8.1 Consensus size: 52
314309 CCCGATTGTT
* * * *
314319 GAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGC-AGACACGATTGT-T
1 GAAGATTGTTCGAGT-TTCTACTC-CTGAAGGAATAGGGAGCGA-AC-CG-TTGTCA
* * * * *
314374 GAAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAG-TAGACACGATTGT-T
1 GAAGATTGTTCGAGTTTC-TACTC-CTGAAGGAATAGGGAGCGA-AC-CG-TTGTCA
* * * * *
314429 GAAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAG-TAGACACGATTGT-T
1 GAAGATTGTTCGAGTTTC-TACTC-CTGAAGGAATAGGGAGCGA-AC-CG-TTGTCA
* *
314484 GAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGC-ATACACGTTTTCA
1 GAAGATTGTTCGAGTTTC-TACTC-CTGAAGGAATAGGGAGCGA-AC-CGTTGTCA
* * * * * * * *
314539 AAAGATT-TTCGAGTTCTATACTCCCTGGAGAAAGAGGGAACGAACCCAATTGT-T
1 GAAGATTGTTCGAGTT-TCTACT-CCTGAAGGAATAGGGAGCGAA-CC-GTTGTCA
* * *
314593 GAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAAGGAGC-AGACACGTTTTCA
1 GAAGATTGTTCGAGTTTC-TACTC-CTGAAGGAATAGGGAGCGA-AC-CGTTGTCA
* * * * * *
314648 GAAGATT-TTCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTAGGCA
1 GAAGATTGTTCGAGTT-TCTACT-CCTGAAGGAATAGGGAGCGAA-CCGTTGTCA
* * *
314702 AAAGATTGTACGAGTTTCTACTCCATGAAGGAATAGGGAGCGAACCTGTTGTCT
1 GAAGATTGTTCGAGTTTCTACTCC-TGAAGGAATAGGGAGCGAACC-GTTGTCA
314756 GAAGATT
1 GAAGATT
314763 TTTCAAGTCT
Statistics
Matches: 318, Mismatches: 49, Indels: 45
0.77 0.12 0.11
Matches are distributed among these distances:
53 4 0.01
54 111 0.35
55 203 0.64
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (52 bp):
GAAGATTGTTCGAGTTTCTACTCCTGAAGGAATAGGGAGCGAACCGTTGTCA
Found at i:314770 original size:109 final size:109
Alignment explanation
Indices: 313995--314742 Score: 368
Period size: 109 Copynumber: 6.9 Consensus size: 109
313985 CCATTTGTAA
* * * *** *
313995 AAGATTATTCGAGTTCTATACTCCCTAAAGAAAGA-GGAAGCGAACCCATTTTTAGAAGATT-TT
1 AAGATT-TTCAAGTTCTATACTCCCTGAAGAAAGAGGGAA-CGAACCCAATGGCAAAAGATTGTT
* * * * *
314058 CGAGT-TCTATACTCCCTGAAGAAAGAGGGAGC-GAGCCCATTTTCAG
64 CGAGTCTC-ATACTCTCTGAAGGAATAGGGAGCAGA-CACGTTTTCAG
* * * * * ** ** *
314104 AAGATCATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATT
1 AAGAT-TTTCAAGTTCTATACTCCCTG-AAGAAAGAGGGAACGAACCCAATGGCAAAAGATTGTT
* * * * ** *
314169 CGAGT-TCTATACTC-CTTAAAGAAAAAGG-G-A-ATTCGTTTACAG
64 CGAGTCTC-ATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCAG
* * *
314211 AAGATTATTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCTGTAA--G-AAGAAGA-T
1 AAGATT-TTCAAGTTCTATACTCCCTGA-AGAAAGAGGGAACGAACC--CAATGGCAA-AAGATT
* * * * *
314271 GTTCGAGT-TCCATAATCCCT-AGAGAAATAGGGAGTAGACCCGATTGTT--G
61 GTTCGAGTCT-CATACTCTCTGA-AGGAATAGGGAGCAGACACG-TT-TTCAG
* * * * * * * * *** *
314320 AAGTTTGTTCGAG-TCTTATACTCTCTGAA-AGAATAGGGAGC-AGACACGATTGTTGAAGATTA
1 AAGATT-TTCAAGTTC-TATACTCCCTGAAGA-AAGAGGGAACGA-ACCCAATGGCAAAAGATTG
* *
314382 TTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACACGATTGTT--G
62 TTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACG-TT-TTCAG
* * * * * * ***
314430 AAGATTATTCGAG-TCTCATACTCTCTGAA-AGAATAGGG-A-GTAGACACGATTGTTGAAGATT
1 AAGATT-TTCAAGTTCT-ATACTCCCTGAAGA-AAGAGGGAACG-A-ACCCAATGGCAAAAGATT
* *
314491 GTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCATACACGTTTTCAA
61 GTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCAG
* * * ***
314540 AAGATTTTCGAGTTCTATACTCCCTGGAGAAAGAGGGAACGAACCCAATTGTTGAAGATTGTTCG
1 AAGATTTTCAAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACCCAATGGCAAAAGATTGTTCG
*
314605 AGTCTCATACTCTCTGAAGGAATAAGGAGCAGACACGTTTTCAG
66 AGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCAG
* * *
314649 AAGATTTTCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCC-GTAGGCAAAAGATTGTAC
1 AAGATTTTCAAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACCCAAT-GGCAAAAGATTGTTC
*
314713 GAGTTTC-TACTC-CATGAAGGAATAGGGAGC
65 GAGTCTCATACTCTC-TGAAGGAATAGGGAGC
314743 GAACCTGTTG
Statistics
Matches: 524, Mismatches: 76, Indels: 79
0.77 0.11 0.12
Matches are distributed among these distances:
105 18 0.03
106 30 0.06
107 33 0.06
108 29 0.06
109 211 0.40
110 180 0.34
111 23 0.04
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (109 bp):
AAGATTTTCAAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACCCAATGGCAAAAGATTGTTCG
AGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCAG
Found at i:324448 original size:53 final size:53
Alignment explanation
Indices: 324344--324491 Score: 224
Period size: 53 Copynumber: 2.8 Consensus size: 53
324334 CAGGTTCGCT
* * * *
324344 CCCTATTTCTCCAGAGAGTATAAGACTCGAACAATCTTCAACTATCGTGTCTTCC
1 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACGATCGTGTCTGCC
* *
324399 CCCTATATCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGTGTCTGCC
324452 CCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAAC
1 CCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAAC
324492 AAATGGGTTC
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 61 0.71
54 1 0.01
55 24 0.28
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (53 bp):
CCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGTGTCTGCC
Found at i:324525 original size:53 final size:52
Alignment explanation
Indices: 324336--324514 Score: 193
Period size: 53 Copynumber: 3.3 Consensus size: 52
324326 TCTAAAAACA
* * *
324336 GGTTCGCTCCCTATTTCTCCAGAGAGTATAAGACTCGAACAATCTTCAACTATCG
1 GGTTCGCTCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACAAT-G
* * *
324391 TGTCTTC-C-CCCTATATCTTCAGAGAGTATAAGACCCACAATCTTCAACGAT-
1 -G-GTTCGCTCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACAATG
*
324442 CGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACAAATG
1 GGT-TC-GCTCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAAC-AATG
*
324497 GGTTCACTCCCTATTTCT
1 GGTTCGCTCCCTATTTCT
324515 CTAGGGAGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
52 1 0.01
53 65 0.62
54 5 0.05
55 26 0.25
56 2 0.02
57 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (52 bp):
GGTTCGCTCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACAATG
Found at i:324673 original size:51 final size:51
Alignment explanation
Indices: 324491--325253 Score: 868
Period size: 51 Copynumber: 14.8 Consensus size: 51
324481 CAATCTTCAA
* * * * * *
324491 CAAATGGGTTCACTCCCTATTTCTCTAGGGAGTATGGAACTCAGACATATTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTC-GA-ACA-TCTT
** * *
324545 CAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACA--TCTT
* * * *
324598 CAAACGGGTTCGCTCATTCCTTCTTTAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* *
324649 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * *
324700 CAAATGGGTTTGCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACA--TCTT
* *
324753 C--ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
** *
324802 CAATTGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * * * * *
324853 TAAACGGGTTCGCTCCTTCTTTCTTTAAGGATTATAGAACTCGCATATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * *
324904 CACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-AGACATCTATT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGA-ACATC--TT
* *
324957 CAAACGGGCTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * * * * * *
325008 TAAACGGTTTCGCTCCTTCTTTCTTTAAGGATTATAGAACTCGCATATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * *
325059 CATACGGGTTCGCTCCTTCCTTCTCTAGGGAGTATGGAACTC-AGACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGA-ACATCTT
* * * * * *
325110 TAAACGGGTTCGCTCATTCTTTCTTTAAGGAGTATAGAACTCGCATATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * * * *
325161 CACACGGGTTCGCTTCTTCCTTCTCTAGGGAGTATGGAACTCGGACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * *
325212 CAAACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTC
325254 AAATAATCTT
Statistics
Matches: 608, Mismatches: 90, Indels: 25
0.84 0.12 0.03
Matches are distributed among these distances:
49 5 0.01
51 467 0.77
52 2 0.00
53 96 0.16
54 38 0.06
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (51 bp):
CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
Found at i:325211 original size:359 final size:362
Alignment explanation
Indices: 324497--325254 Score: 1035
Period size: 359 Copynumber: 2.1 Consensus size: 362
324487 TCAACAAATG
* * * *
324497 GGTTCACTCCCTATTTCTCTAGGGAGTATGGAACTCAGACATATTCTTCAAACGGGTTCGCTCCC
1 GGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCAGACATATTCTTCAAACGGGTTCGCTCCC
* *
324562 CCTTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCATTCCTTCTTTAAG
66 CCTTTCTCTAGGGAGTATAGAACTCGAACATCTATTCAAACGGGCTCGCTCATTCCTTCTTTAAG
324627 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
131 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
* * * * *
324692 AACATCTTCAAATGGGTTTGCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACATCTCTTCACG
196 AACATCTTCAAACGGGTTCGCTCCCTCCTTCTCTAGGGAGTATGGAACTCGAACATCTCTTAACG
* * * * *
324757 GGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAATTGGGTTCGCTCCTTCT
261 GGTTCGCTCACTCTTTCTCTAAGGAGTATAGAACTCGAACATCTTCAATCGGGTTCGCTCCTTCC
* * *
324822 TTCTTTAAGGAGTATGGAACTCGAACATCTTTAAACG
326 TTCTCTAAGGAGTATGGAACTCGAACATCTTCAAACA
* * * *
324859 GGTTCGCTCCTTCTTTCTTTAAGGATTATAGAACTC-G-CATA-TCTTCACACGGGTTCGCTCCC
1 GGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCAGACATATTCTTCAAACGGGTTCGCTCCC
* * * *
324921 TCTTTCTCTAGGGAGTATGGAACTC-AGACATCTATTCAAACGGGCTCGCTCCTTCTTTCTTTAA
66 CCTTTCTCTAGGGAGTATAGAACTCGA-ACATCTATTCAAACGGGCTCGCTCATTCCTTCTTTAA
* * * *
324985 GGAGTATGGAACTCGAACATCTTTAAACGGTTTCGCTCCTTCTTTCTTTAAGGATTATAGAACTC
130 GGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTC
* * * *
325050 GCATATCTTCATACGGGTTCGCTCCTTCCTTCTCTAGGGAGTATGGAACTC-AGACATCT-TTAA
195 GAACATCTTCAAACGGGTTCGCTCCCTCCTTCTCTAGGGAGTATGGAACTCGA-ACATCTCTT-A
* * * * *
325113 ACGGGTTCGCTCATTCTTTCTTTAAGGAGTATAGAACTCGCATATCTTCACA-CGGGTTCGCTTC
258 ACGGGTTCGCTCACTCTTTCTCTAAGGAGTATAGAACTCGAACATCTTCA-ATCGGGTTCGCTCC
* *
325177 TTCCTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAACA
322 TTCCTTCTCTAAGGAGTATGGAACTCGAACATCTTCAAACA
* *
325218 GGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCA
1 GGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCA
325255 AATAATCTTC
Statistics
Matches: 344, Mismatches: 47, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
358 4 0.01
359 305 0.89
360 5 0.01
361 1 0.00
362 29 0.08
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (362 bp):
GGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCAGACATATTCTTCAAACGGGTTCGCTCCC
CCTTTCTCTAGGGAGTATAGAACTCGAACATCTATTCAAACGGGCTCGCTCATTCCTTCTTTAAG
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
AACATCTTCAAACGGGTTCGCTCCCTCCTTCTCTAGGGAGTATGGAACTCGAACATCTCTTAACG
GGTTCGCTCACTCTTTCTCTAAGGAGTATAGAACTCGAACATCTTCAATCGGGTTCGCTCCTTCC
TTCTCTAAGGAGTATGGAACTCGAACATCTTCAAACA
Found at i:325693 original size:36 final size:36
Alignment explanation
Indices: 325635--325824 Score: 229
Period size: 36 Copynumber: 5.2 Consensus size: 36
325625 ACTCTTCTGA
* * **
325635 GAAGGCTTAAAATGGATATGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
325672 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
325708 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * * *
325744 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
325780 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
325816 GAAGGCTTA
1 GAAGGCTTA
325825 GGATTGACTT
Statistics
Matches: 134, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
35 1 0.01
36 120 0.90
37 13 0.10
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:330598 original size:21 final size:21
Alignment explanation
Indices: 330574--330671 Score: 110
Period size: 21 Copynumber: 4.7 Consensus size: 21
330564 ATGTGATGTA
*
330574 GTCTTCAT-GTCTTTATGAAGG
1 GTCTTC-TCGTCTTTATGAACG
* *
330595 GTCTTC-CTGTCTCTATGAATG
1 GTCTTCTC-GTCTTTATGAACG
* * *
330616 GACTTCTCATCTTTTTGAACG
1 GTCTTCTCGTCTTTATGAACG
330637 GTCTTCTCGTCTTTATGAACG
1 GTCTTCTCGTCTTTATGAACG
330658 GTCTTCTCGTCTTT
1 GTCTTCTCGTCTTT
330672 GGTACGACTA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
21 63 0.98
22 1 0.02
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.45
Consensus pattern (21 bp):
GTCTTCTCGTCTTTATGAACG
Found at i:336017 original size:27 final size:27
Alignment explanation
Indices: 335979--336032 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
335969 TCAACGGTCA
335979 AATTTATTAAGTGTGGGGTTTCATAAT
1 AATTTATTAAGTGTGGGGTTTCATAAT
336006 AATTTATTAAGTGTGGGGTTTCATAAT
1 AATTTATTAAGTGTGGGGTTTCATAAT
336033 GTTACCCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (27 bp):
AATTTATTAAGTGTGGGGTTTCATAAT
Found at i:336241 original size:26 final size:26
Alignment explanation
Indices: 336186--336248 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
336176 TAAAAGTGTT
* *
336186 ATTATTTTAATAATTATTAAAATTAC
1 ATTATATTAATAATTATTAAAATTAA
*
336212 ATTATATTAATAATTTTTTAAAA-TAA
1 ATTATATTAATAA-TTATTAAAATTAA
336238 ATTATAGTTAA
1 ATTATA-TTAA
336249 GCATAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.62
27 12 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTATATTAATAATTATTAAAATTAA
Found at i:336940 original size:5 final size:5
Alignment explanation
Indices: 336900--336939 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
336890 CGTTAAGAAT
*
336900 TCGAG TCGAG CTCGAG TCGAG TCGAG TCGAG TCGAT TCGA
1 TCGAG TCGAG -TCGAG TCGAG TCGAG TCGAG TCGAG TCGA
336940 TCCGAGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.23
Consensus pattern (5 bp):
TCGAG
Found at i:337552 original size:26 final size:26
Alignment explanation
Indices: 337522--337579 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
337512 ATAAAAGTGT
*
337522 TATTATTTTAATAATTATTAAAATTA
1 TATTATATTAATAATTATTAAAATTA
* *
337548 TATTATATTAATATTTTTTAAAA-TA
1 TATTATATTAATAATTATTAAAATTA
*
337573 AATTATA
1 TATTATA
337580 GTTATGAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TATTATATTAATAATTATTAAAATTA
Found at i:341165 original size:52 final size:51
Alignment explanation
Indices: 341100--341687 Score: 373
Period size: 52 Copynumber: 11.3 Consensus size: 51
341090 CATGAGTAGA
* * *
341100 AACTCGTACAATCTTTTGCTACGGTTCGCTCCCTCTTCCTTCAGGGAGTATAG
1 AACTCGAAC-ATCTTTT-CAACGGTTCGCTCCCTCTTCCTTCAAGGAGTATAG
* * * * * *
341153 AACTTGAAAATCTTCTGCAACGGTTCTCTCCCTCTTTCTTCAGGGAGTATAG
1 AACTCGAACATCTT-TTCAACGGTTCGCTCCCTCTTCCTTCAAGGAGTATAG
* * *
341205 AACTCGAAAATCTTTTAAAAAAC-GTGTCTGCTCCCTATTCCTTC-AGAGAGTATAG
1 AACTCGAACATCTTTT---CAACGGT-TC-GCTCCCTCTTCCTTCAAG-GAGTATAG
* * *
341260 AACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTT-CTTTAAGGAGTATAG
1 AACTCGAACATCTTTTC-AAC-GGTTCGCTCCCTCTTCCTTCAAGGAGTATAG
* * * *
341312 AACTCGAACATC--TTCAAAGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAG
1 AACTCGAACATCTTTTC-AACGGTTCGCTCCCTCTTCCTTCAAGGAGTATAG
* *
341362 AACTCGAACATC--TTCAACTGGGTTCGCTCCCTTCTTTCTTTAAGGAGTATAG
1 AACTCGAACATCTTTTCAAC--GGTTCGCTCCC-TCTTCCTTCAAGGAGTATAG
* * * *
341414 AACTCGAACATC--TTCGACTGGGTTCGCTCCCTTTTACTTCATGGAGTATAG
1 AACTCGAACATCTTTTCAAC--GGTTCGCTCCCTCTTCCTTCAAGGAGTATAG
* * * * * *
341465 AACTCAAAAATCTTCTTCTTACGGGTTCGCTCCTTC-TCTCTTTAAAGAGTATAG
1 AACTCGAACATCTT-TTC-AAC-GGTTCGCTCCCTCTTC-CTTCAAGGAGTATAG
* * *
341519 AACTCGAACATC--TTCAAACGGGTTCGCTCCTTCTTTCATT-AAGGAGTATGG
1 AACTCGAACATCTTTTC-AAC-GGTTCGCTCCCTC-TTCCTTCAAGGAGTATAG
* * * * *
341570 AACTCGGATATC--TTCACACGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGG
1 AACTCGAACATCTTTTCA-AC-GGTTCGCTCCCTCTTCCTTC-AAGGAGTATAG
* * * * * *
341621 AACT-TAGACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGAATAG
1 AACTCGA-ACATCTTTTC-AAC-GGTTCGCTCCCTCTTCCTTCAAGGAGTATAG
*
341674 AACTCGAATATCTT
1 AACTCGAACATCTT
341688 CAACAATCGT
Statistics
Matches: 443, Mismatches: 61, Indels: 62
0.78 0.11 0.11
Matches are distributed among these distances:
49 18 0.04
50 39 0.09
51 111 0.25
52 125 0.28
53 64 0.14
54 48 0.11
55 38 0.09
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (51 bp):
AACTCGAACATCTTTTCAACGGTTCGCTCCCTCTTCCTTCAAGGAGTATAG
Found at i:341247 original size:107 final size:107
Alignment explanation
Indices: 341127--341532 Score: 297
Period size: 107 Copynumber: 3.9 Consensus size: 107
341117 GCTACGGTTC
* * * *
341127 GCTCCCTCTTCCTTCAGGGAGTATAGAACTTGAAAATCTTCTGC-AAC-GGTTCTCTCCCTCTTT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAATC-TCTGCAAACGGGTTCGCTCCCTC-TT
*
341190 CTTCAGGGAGTATAGAACTCGAAAATCTTTTAAAAAACGTGTCT
64 CTTCAAGGAGTATAGAACTCGAAAATCTTTTAAAAAACGTGTCT
* * *
341234 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTCT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTCTGCAAACGGGTTCGCTCCCTCTTCT
* * * **
341299 TTAAGGAGTATAGAACTCGAACATC--TT-CAAAGGGT-TC-
66 TCAAGGAGTATAGAACTCGAAAATCTTTTAAAAAACGTGTCT
* * *
341336 GCTCCTTCT-TTCTTTAAG-GAGTATAGAACTCGAACATCT-T-C-AACTGGGTTCGCTCCCTTC
1 GCTCC--CTATTCCTTCAGAGAGTATAGAACTCGAAAATCTCTGCAAAC-GGGTTCGCTCCC-TC
* * ** ****
341396 TTTCTTTAAGGAGTATAGAACTCGAACATC--TTCGACTGGGT-TC-
62 -TTCTTCAAGGAGTATAGAACTCGAAAATCTTTTAAAAAACGTGTCT
* * * * ** *
341439 GCTCCCTTTTACTTCATG-GAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCTTCTC
1 GCTCCCTATTCCTTCA-GAGAGTATAGAACTCGAAAATC-TCTGCAAACGGGTTCGCTCCCTCT-
* * *
341503 TCTTTAAAGAGTATAGAACTCGAACATCTT
63 TCTTCAAGGAGTATAGAACTCGAAAATCTT
341533 CAAACGGGTT
Statistics
Matches: 255, Mismatches: 27, Indels: 34
0.81 0.09 0.11
Matches are distributed among these distances:
99 3 0.01
100 12 0.05
101 5 0.02
102 62 0.24
103 40 0.16
104 9 0.04
105 32 0.13
106 16 0.06
107 65 0.25
108 11 0.04
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (107 bp):
GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTCTGCAAACGGGTTCGCTCCCTCTTCT
TCAAGGAGTATAGAACTCGAAAATCTTTTAAAAAACGTGTCT
Found at i:341551 original size:51 final size:51
Alignment explanation
Indices: 341122--341690 Score: 537
Period size: 51 Copynumber: 10.9 Consensus size: 51
341112 CTTTTGCTAC
* * * * * * *
341122 GGTTCGCTCCCTCTTCCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAAC-
1 GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTC--AAACG
* * * * * *
341174 GGTTCTCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTTTAAAAAACG
1 GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATC--TT--CAAACG
* * *
341229 TG-TCTGCTCC--CTATTCCTTCAGAGAGTATAGAACTCGAACATCTCTTCAAACG
1 GGTTC-GCTCCTTCT-TTCTTTAAG-GAGTATAGAACTCGAACA--TCTTCAAACG
341282 GGTTCGCTCCTTC-TTCTTTAAGGAGTATAGAACTCGAACATCTTCAAA-G
1 GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACG
341331 GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTC-AACTG
1 GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAAC-G
*
341382 GGTTCGCTCCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTC-GACTG
1 GGTTCGCT-CCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAAC-G
* * * * * **
341434 GGTTCGCTCCCTT-TTACTTCATGGAGTATAGAACTCAAAAATCTTCTTCTTACG
1 GGTTCGCT-CCTTCTTTCTTTAAGGAGTATAGAACTC--GAA-CATCTTCAAACG
* *
341488 GGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACG
1 GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACG
* * * * *
341539 GGTTCGCTCCTTCTTTCATTAAGGAGTATGGAACTCGGATATCTTCACACG
1 GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACG
* * * * *
341590 GGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTTCAAACG
1 GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGA-ACA--TCTTCAAACG
* *
341643 GGTTCGCTCCTTCTTTCTTTAAGGAGAATAGAACTCGAATATCTTCAA
1 GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAA
341691 CAATCGTGTC
Statistics
Matches: 437, Mismatches: 54, Indels: 53
0.80 0.10 0.10
Matches are distributed among these distances:
49 16 0.04
50 40 0.09
51 122 0.28
52 115 0.26
53 67 0.15
54 48 0.11
55 27 0.06
57 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (51 bp):
GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAACG
Found at i:341818 original size:53 final size:54
Alignment explanation
Indices: 341683--341911 Score: 277
Period size: 53 Copynumber: 4.3 Consensus size: 54
341673 GAACTCGAAT
* * * * * *
341683 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGA-A
1 ATCTTCATCAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCCACA
* * * * *
341736 TGATCTTCAACGATTGTGTCGGCCCCCTATATCTTCAGAGAGTATAAGAC-CCACA
1 --ATCTTCATCAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCCACA
341791 ATCTTCATCAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-CCACA
1 ATCTTCATCAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCCACA
* * *
341844 ATCTTCATCAATTGCGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACA
1 ATCTTCATCAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTC-CACA
341899 ATCTTCAT-AATTG
1 ATCTTCATCAATTG
341912 TGGGAAATCT
Statistics
Matches: 156, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
53 94 0.60
54 8 0.05
55 54 0.35
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (54 bp):
ATCTTCATCAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCCACA
Done.