Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold195
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: 1914327
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.29
Warning! 179916 characters in sequence are not A, C, G, or T
File 4 of 12
Found at i:505424 original size:29 final size:28
Alignment explanation
Indices: 505380--505703 Score: 363
Period size: 28 Copynumber: 11.5 Consensus size: 28
505370 CCTCACCTTC
*
505380 CAAAGCCCACAAGTCAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCAACTTTT
* *
505408 CAAAAGCCCACAGGTCAGTGGCACCCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-ACTTTT
* *
505438 CAAAGGCCACAAGTCAGTGGCACCTTTT
1 CAAAGCCCACAAGTCAGTGGCAACTTTT
*
505466 CAAAGCCCACAAGTCAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGCAACTTTT
*
505493 CAAAAGCCCACAAGTCAGTGGCATCTTTT
1 C-AAAGCCCACAAGTCAGTGGCAACTTTT
*
505522 CAAAAGCCCACAAGTTAGTGGC-ACATTTT
1 C-AAAGCCCACAAGTCAGTGGCAAC-TTTT
* *
505551 CAAAAGCCCACAAGTTAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCAACTTTT
*
505580 CAAAGCCCACAAGTCAGTGGCAACCTTT
1 CAAAGCCCACAAGTCAGTGGCAACTTTT
* * *
505608 -AAAGCCCACAAGGCAGTGGCATCTCTT
1 CAAAGCCCACAAGTCAGTGGCAACTTTT
* *
505635 CAAAGCCCACAAGGT-AGTGCCAAC-CTT
1 CAAAGCCCACAA-GTCAGTGGCAACTTTT
* *
505662 CAAAGCCCACAAGGCAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGCAACTTTT
*
505689 CAAAAGCACACAAGT
1 C-AAAGCCCACAAGT
505704 TGGTGCAACC
Statistics
Matches: 260, Mismatches: 26, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
26 1 0.00
27 53 0.20
28 105 0.40
29 94 0.36
30 7 0.03
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCAACTTTT
Found at i:505475 original size:28 final size:28
Alignment explanation
Indices: 505380--505688 Score: 371
Period size: 29 Copynumber: 10.9 Consensus size: 28
505370 CCTCACCTTC
*
505380 CAAAGCCCACAAGTCAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCTTTT
*
505408 CAAAAGCCCACAGGTCAGTGGCACCCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-CCTTTT
*
505438 CAAAGGCCACAAGTCAGTGGCACCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCTTTT
505466 CAAAGCCCACAAGTCAGTGGCAACC--TT
1 CAAAGCCCACAAGTCAGTGGC-ACCTTTT
*
505493 CAAAAGCCCACAAGTCAGTGGCATCTTTT
1 C-AAAGCCCACAAGTCAGTGGCACCTTTT
* *
505522 CAAAAGCCCACAAGTTAGTGGCACATTTT
1 C-AAAGCCCACAAGTCAGTGGCACCTTTT
*
505551 CAAAAGCCCACAAGTTAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCACCTTTT
505580 CAAAGCCCACAAGTCAGTGGCAACC-TTT
1 CAAAGCCCACAAGTCAGTGGC-ACCTTTT
* * *
505608 -AAAGCCCACAAGGCAGTGGCATCTCTT
1 CAAAGCCCACAAGTCAGTGGCACCTTTT
*
505635 CAAAGCCCACAAGGT-AGTGCCAACC--TT
1 CAAAGCCCACAA-GTCAGTGGC-ACCTTTT
*
505662 CAAAGCCCACAAGGCAGTGGCAACCTT
1 CAAAGCCCACAAGTCAGTGGC-ACCTT
505689 CAAAAGCACA
Statistics
Matches: 248, Mismatches: 19, Indels: 27
0.84 0.06 0.09
Matches are distributed among these distances:
26 3 0.01
27 49 0.20
28 85 0.34
29 105 0.42
30 6 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCACCTTTT
Found at i:505574 original size:114 final size:113
Alignment explanation
Indices: 505374--505688 Score: 456
Period size: 114 Copynumber: 2.8 Consensus size: 113
505364 GACATTCCTC
* * * *
505374 ACCTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAGGTCAGTGGCACCCTTTTC
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCA-CATTTTC
*
505439 AAAGGCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
505488 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACATTTTCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACATTTTC-
*
505553 AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * **
505602 ACCTT-TAAAGCCCACAAGGCAGTGGCATCTCTTC-AAAGCCCACAAGGTAGTGCCA-ACCTTCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACATTTTCA
*
505664 AAGCCCACAAGGCAGTGGCAACCTT
66 AAGCCCACAAGTCAGTGGC-ACCTT
505689 CAAAAGCACA
Statistics
Matches: 184, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
110 18 0.10
111 9 0.05
112 19 0.10
113 32 0.17
114 106 0.58
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (113 bp):
ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACATTTTCA
AAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:505835 original size:21 final size:21
Alignment explanation
Indices: 505768--505835 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
505758 ATATCGCTTG
*
505768 CCTTGAATAAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* *
505789 CCTTTAAGTC--CA-ATGTTGCTA
1 CCTTGAA-TCAGCATAT-TGGC-A
505810 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCATATTGGCA
505832 CCTT
1 CCTT
505836 CATCTTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.37
22 8 0.23
23 5 0.14
24 2 0.06
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:505863 original size:49 final size:49
Alignment explanation
Indices: 505745--506625 Score: 794
Period size: 49 Copynumber: 18.0 Consensus size: 49
505735 AGTGGCATCT
* * *
505745 TCTTCTAAGTCCAATATCGCTTGCCTTGAATAAGCATATTGGCA----C-
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
505790 -CTTTAAGTCCAATGTTGCTAGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * **
505838 TCTTTATGTCCAATATCACTGGCCTTGAATCAGCATATTGGTGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
* * * * *
505890 TCTTTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTAGCACCTTCG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
505939 CCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACATTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
*
505988 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C-
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
506032 -CTTTAAGTCCAATATTGCTGGCCTTGAATCAGTACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
506080 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
* * * *
506132 TCTTTAAGTCCAATGTCGTTGGCCTTAAATCAGCACATTAGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
506181 CCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
*
506230 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C-
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
506274 -CTTTAAGTCCAATGTTGCTGGCCTTGAATCGGCACATCGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
506322 TCTTTATGTCCAATATTGCTGGCCTTGAATCAACATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
* * *
506374 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * * * **
506423 CCTTTAAATCCAAAATCACTAGCCTTGAATCAGCATATTGGCATATGTAACA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT-T--CA
* ** * * * *
506475 T-TCCTAAACCCAATGTCACTGGCCTTGAATTAGCACATTGGCATTCTTCTCA
1 TCT-TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCA
* * * * * * *
506527 TCTTCAAGTCTAATGTCGCTGACCATGAATCAGCACATTGACATTCTTTACA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA--CCTT-CA
* * *
506579 TCTTTAAGCCCAATATCACTGGTCC-TGAATCAGCATATTGGCACCTT
1 TCTTTAAGTCCAATATCGCTGG-CCTTGAATCAGCACATTGGCACCTT
506626 TATCACTCTT
Statistics
Matches: 687, Mismatches: 113, Indels: 67
0.79 0.13 0.08
Matches are distributed among these distances:
43 111 0.16
44 3 0.00
45 2 0.00
47 3 0.00
49 321 0.47
50 7 0.01
51 5 0.01
52 230 0.33
53 3 0.00
54 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:506175 original size:242 final size:242
Alignment explanation
Indices: 505745--506465 Score: 1190
Period size: 242 Copynumber: 3.0 Consensus size: 242
505735 AGTGGCATCT
* * *
505745 TCTTCTAAGTCCAATATCGCTTGCCTTGAATAAGCATATTGGCACCTTTAAGTCCAATGTTGCTA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTTGCTG
* *
505810 GCCTTGAATCAGCATATTGGCACCTTCATCTTTATGTCCAATATCACTGGCCTTGAATCAGCATA
65 GCCTTGAATCAGCACATTGGCACCTTCATCTTTATGTCCAATATCGCTGGCCTTGAATCAGCATA
* * * *
505875 TTGGTGCCTTTGTCATCTTTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTAGCACCTTCGC
130 TTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCAC
505940 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACATTCA
195 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACATTCA
*
505988 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATTGCTGG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTTGCTGG
* *
506053 CCTTGAATCAGTACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 CCTTGAATCAGCACATTGGCACCTTCATCTTTATGTCCAATATCGCTGGCCTTGAATCAGCATAT
* *
506118 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGTTGGCCTTAAATCAGCACATTAGCACCTTCACC
131 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCACC
*
506183 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCA
196 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACATTCA
506230 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTTGCTGG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTTGCTGG
* * * *
506295 CCTTGAATCGGCACATCGGCACCTTCATCTTTATGTCCAATATTGCTGGCCTTGAATCAACATAT
66 CCTTGAATCAGCACATTGGCACCTTCATCTTTATGTCCAATATCGCTGGCCTTGAATCAGCATAT
*
506360 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTTACC
131 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCACC
* ** ** * *
506425 TTTAAATCCAAAATCACTAGCCTTGAATCAGCATATTGGCA
196 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
506466 TATGTAACAT
Statistics
Matches: 446, Mismatches: 32, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
242 442 0.99
243 4 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (242 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTTGCTGG
CCTTGAATCAGCACATTGGCACCTTCATCTTTATGTCCAATATCGCTGGCCTTGAATCAGCATAT
TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCACC
TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACATTCA
Found at i:506303 original size:43 final size:43
Alignment explanation
Indices: 506231--506369 Score: 143
Period size: 43 Copynumber: 3.1 Consensus size: 43
506221 GCACCTTCAT
* *
506231 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCAC
* * *
506274 CTTTAAGTCCAATGTTGCTGGCCTTGAATCGGCACATCGGCACCTTC
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
506321 ATCTTTATGTCCAATATTGCTGGCCTTGAATCAACATATTGGCGC
1 --CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCAC
506366 CTTT
1 CTTT
506370 GTCATCTTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
43 41 0.53
45 1 0.01
47 1 0.01
49 35 0.45
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (43 bp):
CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:506421 original size:52 final size:51
Alignment explanation
Indices: 506274--506635 Score: 259
Period size: 52 Copynumber: 7.1 Consensus size: 51
506264 ATATTGGCAC
* * *
506274 CTTTAAGTCCAATGTTGCTGGCCTTGAATCGGCACATCGGCACC--TTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCAT
* * * * * *
506323 CTTTATGTCCAATATTGCTGGCCTTGAATCAACATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-TCAT
* *
506375 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC-TTT-AC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCAT
* ** * * * ** **
506424 CTTTAAATCCAAAATCACTAGCCTTGAATCAGCATATTGGCATATGTAACAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTTCAT
* ** * * * *
506476 -TCCTAAACCCAATGTCACTGGCCTTGAATTAGCACATTGGCATTCTTCTCAT
1 CT-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTTTCAT
* * * * * * *
506528 CTTCAAGTCTAATGTCGCTGACCATGAATCAGCACATTGACATTCTTTACAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTTTCAT
* * * *
506580 CTTTAAGCCCAATATCACTGGTCC-TGAATCAGCATATTGGCACCTTTATCACT
1 CTTTAAGTCCAATGTCGCTGG-CCTTGAATCAGCACATTGGCACCTTT-TCA-T
506633 CTT
1 CTT
506636 CTCATCTTCA
Statistics
Matches: 242, Mismatches: 59, Indels: 20
0.75 0.18 0.06
Matches are distributed among these distances:
49 73 0.30
50 1 0.00
51 9 0.04
52 150 0.62
53 9 0.04
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (51 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCAT
Found at i:506464 original size:101 final size:101
Alignment explanation
Indices: 506274--506464 Score: 265
Period size: 101 Copynumber: 1.9 Consensus size: 101
506264 ATATTGGCAC
* * * * ** * *
506274 CTTTAAGTCCAATGTTGCTGGCCTTGAATCGGCACATCGGCACCTTCATCTTTATGTCCAATATT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATCAGCACCTTCACCTTTAAATCCAAAATC
* *
506339 GCTGGCCTTGAATCAACATATTGGCGCCTTTGTCAT
66 ACTAGCCTTGAATCAACATATTGGCGCCTTTGTCAT
* *
506375 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTTACCTTTAAATCCAAAATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATCAGCACCTTCACCTTTAAATCCAAAATC
*
506440 ACTAGCCTTGAATCAGCATATTGGC
66 ACTAGCCTTGAATCAACATATTGGC
506465 ATATGTAACA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 77 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (101 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATCAGCACCTTCACCTTTAAATCCAAAATC
ACTAGCCTTGAATCAACATATTGGCGCCTTTGTCAT
Found at i:507217 original size:19 final size:20
Alignment explanation
Indices: 507169--507221 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
507159 TTTCAACAAT
507169 TTGTATCGATACAAACAGTA
1 TTGTATCGATACAAACAGTA
* * * *
507189 ATGAATCGATACATA-AGTG
1 TTGTATCGATACAAACAGTA
507208 TTGTATCGATACAA
1 TTGTATCGATACAA
507222 TGTATCGATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
TTGTATCGATACAAACAGTA
Found at i:507227 original size:13 final size:13
Alignment explanation
Indices: 507209--507234 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
507199 ACATAAGTGT
507209 TGTATCGATACAA
1 TGTATCGATACAA
507222 TGTATCGATACAA
1 TGTATCGATACAA
507235 AAGCTACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:507306 original size:33 final size:33
Alignment explanation
Indices: 507262--507327 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
507252 GCCAAGGACA
*
507262 TGTATCGATACATT-ATGCAATGTATCGATACAT
1 TGTATCAATACATTGAT-CAATGTATCGATACAT
**
507295 TGTATCAATACATTGATCTTTGTATCGATACAT
1 TGTATCAATACATTGATCAATGTATCGATACAT
507328 GCAGGCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCAATACATTGATCAATGTATCGATACAT
Found at i:516987 original size:22 final size:22
Alignment explanation
Indices: 516940--516987 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
516930 AGTAAAATAG
*
516940 AAAATAACGAACAAATCCACAC
1 AAAATAACGAACAAATACACAC
* *
516962 AAAATAAC-ACACAAATATACAT
1 AAAATAACGA-ACAAATACACAC
516984 AAAA
1 AAAA
516988 AGGATGGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.65, C:0.21, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAATAACGAACAAATACACAC
Found at i:517334 original size:51 final size:51
Alignment explanation
Indices: 517255--517371 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
517245 AAAACAACAT
** * *
517255 GGTTGGAGTATCCCTGATGGCGAGAAATTGATATTTTAGAAATAAAAATGG
1 GGTTGGAGTATCCCCAATGGCGAAAAATTGATATTTTAGAAATAAAAATAG
* *
517306 GGTTGGAGTATCCCCAATGGTGAAAAATTGATATTTTGGAAATAAAAATAG
1 GGTTGGAGTATCCCCAATGGCGAAAAATTGATATTTTAGAAATAAAAATAG
517357 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
517372 TTAGAAATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATGGCGAAAAATTGATATTTTAGAAATAAAAATAG
Found at i:517387 original size:79 final size:78
Alignment explanation
Indices: 517304--517791 Score: 514
Period size: 79 Copynumber: 6.2 Consensus size: 78
517294 AAATAAAAAT
* * *
517304 GGGGTTGGAGTATCCCCAATGGTGAAAAATTGATATTTTGGAAATAAAAATAGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAAT-AAAATAGGGTTGGAGTATC
*
517369 CCCTTAGAAATAAC
65 CCCTCAGAAATAAC
* *
517383 GGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAAT-AGGGTTGGAGTATC
* * *
517448 CCCTCGGAAA-CAT
65 CCCTCAGAAATAAC
* * * *
517461 GGGGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTAAGAAATAAAACCAGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAA-TAGGGTTGGAGTATC
* *
517526 CCCTCGGAAATAAT
65 CCCTCAGAAATAAC
** ** * * * *
517540 AAGGTTGGAGTATCCTTGATAGTGGAAAATCAATATTTTAGAAATAAAA-ACCGAAGTTGGAGTA
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAATA--G-GGTTGGAGTA
**
517604 TCCTTTC-GAAAATAAC
63 TCCCCTCAG-AAATAAC
* * * *
517620 TGGGTTGAAGTATCCCCGATGGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAATAG-GGTTGGAGTATC
* *
517685 TCCTCAAAAATAAC
65 CCCTCAGAAATAAC
* * * * * *
517699 GGGGTTGGAGTATCCCCGATAGTGAAAAAACGGTGTCTTAGAAATAAAATCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAAT-AGGGTTGGAGTATC
* *
517764 TCCTCAGAAATAAT
65 CCCTCAGAAATAAC
*
517778 AGGGTTGGAGTATC
1 GGGGTTGGAGTATC
517792 TCTTGGGAAA
Statistics
Matches: 348, Mismatches: 51, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.00
78 74 0.21
79 210 0.60
80 63 0.18
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAATAGGGTTGGAGTATCC
CCTCAGAAATAAC
Found at i:517413 original size:130 final size:131
Alignment explanation
Indices: 517195--517450 Score: 374
Period size: 130 Copynumber: 2.0 Consensus size: 131
517185 CACTCCCCGA
* * * *
517195 TGAAAAATTTAATATTTTGGATATAAAAACGGGGTTGGAGTATCCCCTCGAAAACAACATGGTTG
1 TGAAAAATTTAATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCTAGAAAACAACAGGGTTG
* *
517260 GAGTATCCCTGATGGCGAGAAATTGATATTTTAGAAATAAAAAT-GGGGTTGGAGTATCCCCAAT
66 GAGTATCCCCGATGGCGAAAAATTGATATTTTAGAAAT-AAAATCGGGGTTGGAGTATCCCCAAT
517324 GG
130 GG
* * * *
517326 TGAAAAA-TTGATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTTAG-AAATAACGGGGTT
1 TGAAAAATTTAATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCC-TAGAAAACAACAGGGTT
*
517389 GGAGTATCCCCGATGGTGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
65 GGAGTATCCCCGATGGCGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
517451 TCGGAAACAT
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
129 5 0.04
130 98 0.88
131 9 0.08
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (131 bp):
TGAAAAATTTAATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCTAGAAAACAACAGGGTTG
GAGTATCCCCGATGGCGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCAATG
G
Found at i:517516 original size:157 final size:158
Alignment explanation
Indices: 517301--517791 Score: 592
Period size: 157 Copynumber: 3.1 Consensus size: 158
517291 TAGAAATAAA
* * * *
517301 AATGGGGTTGGAGTATCCCCAATGGTGAAAAATTGATATTTTGGAAATAAAAATAGGGTTGGAGT
1 AATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAAACAGGGTTGGAGT
* * *
517366 ATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAGAAATAAA
66 ATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATAGTGAAAAATCGATATTTTAGAAATAAA
517431 ATCGGGGTTGGAGTATCCCCTCGGAAA-
131 ATCGGGGTTGGAGTATCCCCTCGGAAAT
* * * * *
517458 CATGGGGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTAAGAAATAAAACCAGGGTTGGAGT
1 AATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAAACAGGGTTGGAGT
* *** ** * *
517523 ATCCCCTCGGAAATAATAAGGTTGGAGTATCCTTGATAGTGGAAAATCAATATTTTAGAAATAAA
66 ATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATAGTGAAAAATCGATATTTTAGAAAT-AA
* ** ** *
517588 AACCGAAGTTGGAGTATCCTTTCGAAAAT
130 AATCGGGGTTGGAGTATCCCCTCGGAAAT
* * *
517617 AACT-GGGTTGAAGTATCCCCGATGGTGAAAAATCAATATTTTAGAAATAAAATC-GAGGTTGGA
1 AA-TGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAAACAG-GGTTGGA
* * * * * *
517680 GTATCTCCTCAAAAATAACGGGGTTGGAGTATCCCCGATAGTGAAAAAACGGTGTCTTAGAAATA
64 GTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATAGTGAAAAATCGATATTTTAGAAATA
* *
517745 AAATCGGGGTTGGAGTATCTCCTCAGAAAT
129 AAATCGGGGTTGGAGTATCCCCTCGGAAAT
*
517775 AATAGGGTTGGAGTATC
1 AATGGGGTTGGAGTATC
517792 TCTTGGGAAA
Statistics
Matches: 273, Mismatches: 56, Indels: 9
0.81 0.17 0.03
Matches are distributed among these distances:
157 108 0.40
158 62 0.23
159 102 0.37
160 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (158 bp):
AATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAAACAGGGTTGGAGT
ATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATAGTGAAAAATCGATATTTTAGAAATAAA
ATCGGGGTTGGAGTATCCCCTCGGAAAT
Found at i:517658 original size:237 final size:238
Alignment explanation
Indices: 517336--517796 Score: 642
Period size: 237 Copynumber: 1.9 Consensus size: 238
517326 TGAAAAATTG
* * * *
517336 ATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCG
1 ATATTTTAGAAATAAAAACAGAGTTGGAGTATCCCCTTAGAAATAACGGGGTTGAAGTATCCCCG
** * ** * *
517401 ATGGTGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAA-CATGGGG
66 ATGGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGGGG
* * *
517465 TTGGAGTATCCCTGATGGTGAAAAATCGATGT-TTAAGAAATAAAACCAGGGTTGGAGTATCCCC
131 TTGGAGTATCCCCGATAGTGAAAAAACGATGTCTT-AGAAATAAAACCAGGGTTGGAGTATCCCC
*
517529 TCGGAAATAATAAGGTTGGAGTATC-CTTGATAGTGGAAAATCA
195 TCAGAAATAATAAGGTTGGAGTATCTCTTGATAGTGGAAAATCA
* * * *
517572 ATATTTTAGAAATAAAAACCGAAGTTGGAGTAT-CCTTTCGAAAATAACTGGGTTGAAGTATCCC
1 ATATTTTAGAAATAAAAACAG-AGTTGGAGTATCCCCTTAG-AAATAACGGGGTTGAAGTATCCC
*
517636 CGATGGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATCTCCTCAAAAATAACGG
64 CGATGGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGG
* * * *
517701 GGTTGGAGTATCCCCGATAGTGAAAAAACGGTGTCTTAGAAATAAAATCGGGGTTGGAGTATCTC
129 GGTTGGAGTATCCCCGATAGTGAAAAAACGATGTCTTAGAAATAAAACCAGGGTTGGAGTATCCC
*
517766 CTCAGAAATAATAGGGTTGGAGTATCTCTTG
194 CTCAGAAATAATAAGGTTGGAGTATCTCTTG
517797 GGAAATAACG
Statistics
Matches: 195, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
236 23 0.12
237 84 0.43
238 82 0.42
239 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (238 bp):
ATATTTTAGAAATAAAAACAGAGTTGGAGTATCCCCTTAGAAATAACGGGGTTGAAGTATCCCCG
ATGGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGGGG
TTGGAGTATCCCCGATAGTGAAAAAACGATGTCTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
CAGAAATAATAAGGTTGGAGTATCTCTTGATAGTGGAAAATCA
Found at i:517776 original size:31 final size:28
Alignment explanation
Indices: 517751--517819 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
517741 AATAAAATCG
517751 GGGTTGGAGTATCTCCTCAGAAATAATA
1 GGGTTGGAGTATCTCCTCAGAAATAATA
* ** *
517779 GGGTTGGAGTATCTCTTGGGAAATAA-C
1 GGGTTGGAGTATCTCCTCAGAAATAATA
517806 GAGGTTGGAGTATC
1 G-GGTTGGAGTATC
517820 CTCAATGGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.29
Consensus pattern (28 bp):
GGGTTGGAGTATCTCCTCAGAAATAATA
Found at i:517785 original size:107 final size:107
Alignment explanation
Indices: 517673--517895 Score: 275
Period size: 107 Copynumber: 2.1 Consensus size: 107
517663 ATAAAATCGA
* * *
517673 GGTTGGAGTATCTCCTCAAAAATAACGGGGTTGGAGTATCCCCGATAGTGAAAAAACGGTGTCTT
1 GGTTGGAGTATCTCCTCAAAAATAACGAGGTTGGAGTATCCCCAATAGTGAAAAAACGGTATCTT
* * * *
517738 AGAAATAAAATCGGGGTTGGAGTATCTCCTCAGAAATAATAG
66 AAAAAAAAAATCGAGGTTGGAGTATCTCCTCAGAAATAACAG
* *** * * * ** *
517780 GGTTGGAGTATCTCTTGGGAAATAACGAGGTTGGAGTATCCTCAATGGTGGAAAATTGGTATTTT
1 GGTTGGAGTATCTCCTCAAAAATAACGAGGTTGGAGTATCCCCAATAGTGAAAAAACGGTATCTT
* *
517845 AAAAAAAAAATCGAGGTTGGAGTATCTCCTTAGAAATAACGG
66 AAAAAAAAAATCGAGGTTGGAGTATCTCCTCAGAAATAACAG
517887 GGTTGGAGT
1 GGTTGGAGT
517896 GTCCCCGATG
Statistics
Matches: 97, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
107 97 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (107 bp):
GGTTGGAGTATCTCCTCAAAAATAACGAGGTTGGAGTATCCCCAATAGTGAAAAAACGGTATCTT
AAAAAAAAAATCGAGGTTGGAGTATCTCCTCAGAAATAACAG
Found at i:517933 original size:79 final size:79
Alignment explanation
Indices: 517780--517933 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 79
517770 GAAATAATAG
* * * *
517780 GGTTGGAGTATCTCTTGGGAAATAACGAGGTTGGAGTATCCTCAATGGTGGAAAATTGGTATTTT
1 GGTTGGAGTATCTCTTGAGAAATAACGAGGTTGGAGTATCCCCAATGGTGGAAAATCGATATTTT
517845 AAAAAAAAAATCGA
66 AAAAAAAAAATCGA
* * *
517859 GGTTGGAGTATCTCCTT-AGAAATAACGGGGTTGGAGTGTCCCCGATGGTGG-AAATCGATATTT
1 GGTTGGAGTATCT-CTTGAGAAATAACGAGGTTGGAGTATCCCCAATGGTGGAAAATCGATATTT
*
517922 TAGAAATAAAAA
65 TA-AAAAAAAAA
517934 CATCAATGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
78 12 0.18
79 50 0.77
80 3 0.05
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (79 bp):
GGTTGGAGTATCTCTTGAGAAATAACGAGGTTGGAGTATCCCCAATGGTGGAAAATCGATATTTT
AAAAAAAAAATCGA
Found at i:520492 original size:6 final size:7
Alignment explanation
Indices: 520475--520500 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
520465 TTGGAAGAAA
520475 AAAAATC
1 AAAAATC
520482 AAAAATC
1 AAAAATC
520489 AAAAATC
1 AAAAATC
520496 AAAAA
1 AAAAA
520501 AAAAATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:520631 original size:13 final size:13
Alignment explanation
Indices: 520613--520637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
520603 GCATAAATGT
520613 TGTATCGATACAA
1 TGTATCGATACAA
520626 TGTATCGATACA
1 TGTATCGATACA
520638 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:520633 original size:32 final size:32
Alignment explanation
Indices: 520592--520664 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
520582 ACATTCAGTA
*
520592 AATGTATCGATGCATAAATGTTGTATCGATAC
1 AATGTATCGATACATAAATGTTGTATCGATAC
* *
520624 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAATGTTGTATCGATAC
520656 AATGTATCG
1 AATGTATCG
520665 CTAGGAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAATGTTGTATCGATAC
Found at i:520734 original size:20 final size:20
Alignment explanation
Indices: 520686--520742 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
520676 CTGCCAAGGA
520686 AATGTATCGATACATCTATTC
1 AATGTATCGATACAT-TATTC
**
520707 TTTGTATCGATACATT-TTAC
1 AATGTATCGATACATTATT-C
520727 AATGTATCGATACATT
1 AATGTATCGATACATT
520743 CAGGCATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 2 0.06
20 16 0.52
21 13 0.42
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:523154 original size:54 final size:51
Alignment explanation
Indices: 523031--523416 Score: 221
Period size: 52 Copynumber: 7.4 Consensus size: 51
523021 CAATTCTCCG
* * *
523031 CAATCGGGGATA-TCCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTA
1 CAATCGGGGATACT-CCAACTCCGATTTTATTTCCAAAACACCAATTTTCTA
*
523082 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATATTTC-A
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCC---AAAACACCAAT-TTTCTA
* * ** ** * * *
523136 CAATCGGGGATACTCCAACCCCG--TTAATCAGCGGGGATACTCCAACCTTGT-TA
1 CAATCGGGGATACTCCAACTCCGATTTTAT-TTC--CAAAACACCAA--TTTTCTA
* * ** * ***
523189 C-CTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCA
1 CAAT-C--GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCT-A
* * * * * * *
523242 TAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAA-TTTTCTA
* * * * *
523294 CAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTCTCCTT
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATT-TTCTA
* *
523346 TAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAATTTTCT-A
* *
523398 CAATCGAGGATACTTCAAC
1 CAATCGGGGATACTCCAAC
523417 CTCGTTATTT
Statistics
Matches: 255, Mismatches: 56, Indels: 47
0.71 0.16 0.13
Matches are distributed among these distances:
51 68 0.27
52 100 0.39
53 24 0.09
54 36 0.14
55 22 0.09
56 1 0.00
57 4 0.02
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCTA
Found at i:523170 original size:27 final size:28
Alignment explanation
Indices: 523140--523213 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
523130 ATTTCACAAT
523140 CGGGGATACTCCAACCCCGTTA-ATCAG
1 CGGGGATACTCCAACCCCGTTACATCAG
** * *
523167 CGGGGATACTCCAACCTTGTTACCTCCG
1 CGGGGATACTCCAACCCCGTTACATCAG
*
523195 AGGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCG
523214 GCTTTATTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.19
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTACATCAG
Found at i:523518 original size:263 final size:262
Alignment explanation
Indices: 523031--523527 Score: 757
Period size: 263 Copynumber: 1.9 Consensus size: 262
523021 CAATTCTCCG
* * * * *
523031 CAATCGGGGATATCCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGATACT
1 CAATCAGGGATATCCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTATAATCGGGGATACT
* *
523096 CCAACTCCGATTTTATTTCCAAAAAAACACCAATATTTCACAATCGGGGATACTCCAACCCCGTT
66 CCAACTCCAATTTTATTTCC-AAAAAACACCAATATTTCACAATCGAGGATACTCCAACCCCGTT
**
523161 AATCAGCGGGGATACTCCAACCTTGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
130 AATCAGCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
*
523226 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTT
195 AAATATTGAATTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTT
523291 CCA
260 CCA
*
523294 CAATCAGGGATA-CTCCAACCCCGATTTTATTTTCAAAACACCAATTCTCCTTTAATCGGGGATA
1 CAATCAGGGATATC-CCAACCCCGATTTTATTTTCAAAACACCAATT-TCCTATAATCGGGGATA
* * *
523358 CTCCAACTCCAATTTTATTTCC-AAAAACACCAATTTTTCACAATCGAGGATACTTCAACCTCGT
64 CTCCAACTCCAATTTTATTTCCAAAAAACACCAATATTTCACAATCGAGGATACTCCAACCCCGT
* * *
523422 TATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAATCCCGGCTTTA-TTC
129 TA-ATCAGCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTC
* *
523486 CAAAAATATTGAATTCTCCTAATTGGGGATACTCCAACCCCG
193 C-AAAATATTGAATTCTCATAATCGGGGATACTCCAACCCCG
523528 TTATTTCGGA
Statistics
Matches: 211, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
262 45 0.21
263 130 0.62
264 36 0.17
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (262 bp):
CAATCAGGGATATCCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTATAATCGGGGATACT
CCAACTCCAATTTTATTTCCAAAAAACACCAATATTTCACAATCGAGGATACTCCAACCCCGTTA
ATCAGCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
AATATTGAATTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTC
CA
Found at i:523582 original size:79 final size:78
Alignment explanation
Indices: 523430--523652 Score: 218
Period size: 79 Copynumber: 2.8 Consensus size: 78
523420 GTTATTTCAT
** *
523430 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAATCCCGGCTTTATTCCAAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGACTTTATTCC-AAAATAT
* *
523495 TGAATTCTC-CTAAT
65 CGAATTCTCAC-AAC
* * * * *
523509 TGGGGATACTCCAACCCCGTTATTTCGGAGGGGATACTCCAATCCCGATTTTTTTCTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGACTTTATTC-CAAAAT-A
*
523573 TCGATTTCTCACAAC
64 TCGAATTCTCACAAC
* * * * * *
523588 CGGGGATACTCCAACCCCGTTATTTTCAAGGAGACACTCCAACCCCG-TTATTATCTCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGACT-TTAT-TCCAAAATA
523652 T
64 T
523653 TAAATTTCTC
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
78 5 0.04
79 106 0.90
80 7 0.06
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGACTTTATTCCAAAATATC
GAATTCTCACAAC
Found at i:532143 original size:12 final size:11
Alignment explanation
Indices: 532126--532160 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
532116 CTTTCTCTTC
*
532126 AAAAAAAAGCA
1 AAAAAAAAACA
532137 AAAAAAAAAC-
1 AAAAAAAAACA
532147 AAAAAAAAACA
1 AAAAAAAAACA
532158 AAA
1 AAA
532161 CAAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.89, C:0.09, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:532154 original size:15 final size:15
Alignment explanation
Indices: 532136--532170 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
532126 AAAAAAAAGC
532136 AAAAAAAAAACAAAA
1 AAAAAAAAAACAAAA
* *
532151 AAAAACAAAACAAAG
1 AAAAAAAAAACAAAA
532166 AAAAA
1 AAAAA
532171 GAGAGAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.89, C:0.09, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAA
Found at i:532170 original size:10 final size:10
Alignment explanation
Indices: 532125--532160 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
532115 ACTTTCTCTT
*
532125 CAAAAAAAAG
1 CAAAAAAAAA
532135 CAAAAAAAAAA
1 C-AAAAAAAAA
532146 CAAAAAAAAA
1 CAAAAAAAAA
532156 CAAAA
1 CAAAA
532161 CAAAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:533251 original size:60 final size:58
Alignment explanation
Indices: 533155--533808 Score: 674
Period size: 55 Copynumber: 11.3 Consensus size: 58
533145 TCCACTTTTT
*
533155 AGTCCTCAAAGAGCAGGATGCCTGTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATG-CT-TT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* *
533215 AGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGATGC--TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * *
533275 TAGTCCCCAAAGTGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTAGTGGCACCTTC
1 -AGTCCTCAAAGAGCAGGATG-C-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * *
533335 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGTCATTTTCC
1 AGTCCTCAAAGAGCAGGATG-CTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
* *
533396 AGCCCTCAAAGAGCAGGATGC---C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
533450 TAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGATGC--TTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
533512 AGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAG--C-CACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGATGC--TTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTC
* * * *
533570 AGTCCCCAAAGAGCAGGA--C--ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
** *
533625 AGTCCTCAAAGAGCAGGA--C-ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
*
533680 AGTCCTCAAAGAGCAGGACGC---C-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * * *
533735 AGTCCTCAAAGAGCAGGACGC---C-TTTCAAAACCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTC
533790 AGTCCTCAAAGAGCAGGAT
1 AGTCCTCAAAGAGCAGGAT
533809 ACACTTTATT
Statistics
Matches: 525, Mismatches: 43, Indels: 57
0.84 0.07 0.09
Matches are distributed among these distances:
52 9 0.02
54 5 0.01
55 228 0.43
56 5 0.01
57 2 0.00
58 35 0.07
59 32 0.06
60 97 0.18
61 107 0.20
62 5 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (58 bp):
AGTCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:533449 original size:28 final size:28
Alignment explanation
Indices: 533363--533449 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
533353 CGCCTTCTCC
*
533363 TTTCAAAGCCCACACAAGTTGGTGTCAT
1 TTTCAAAGCCCACACAAGTTGGTGGCAT
* * * ** *
533391 TTTC-CAGCCCTCAAAGAGCAGGAT-GC-C
1 TTTCAAAGCCCACACA-AGTTGG-TGGCAT
533418 TTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAAAGCCCACACAAGTTGGTGGCAT
533446 TTTC
1 TTTC
533450 TAGTCCTCAA
Statistics
Matches: 41, Mismatches: 13, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
26 1 0.02
27 18 0.44
28 21 0.51
29 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (28 bp):
TTTCAAAGCCCACACAAGTTGGTGGCAT
Found at i:533704 original size:26 final size:26
Alignment explanation
Indices: 533674--533761 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
533664 GTTGGTGGCA
533674 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
533700 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
533729 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
533755 CCTTTCA
1 CCTTTCA
533762 AAACCCACAC
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.38
27 6 0.13
28 6 0.13
29 10 0.22
30 3 0.07
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:534676 original size:19 final size:18
Alignment explanation
Indices: 534625--534714 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
534615 TTGAATTCCA
534625 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
* *
534642 ATTCAGTAAATGTATCGATAC
1 A-TAAGT--TTGTATCGATAC
534663 ATAAGTGTTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
534682 --AA---TGTATCGATAC
1 ATAAGTTTGTATCGATAC
534695 ATAAGTTTTGTATCGATAC
1 ATAAG-TTTGTATCGATAC
534714 A
1 A
534715 ATGTATCGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 3 0.05
18 2 0.03
19 24 0.41
20 4 0.07
21 12 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:534689 original size:13 final size:13
Alignment explanation
Indices: 534671--534695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
534661 ACATAAGTGT
534671 TGTATCGATACAA
1 TGTATCGATACAA
534684 TGTATCGATACA
1 TGTATCGATACA
534696 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:534691 original size:32 final size:32
Alignment explanation
Indices: 534650--534722 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
534640 ACATTCAGTA
534650 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
534682 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
534714 AATGTATCG
1 AATGTATCG
534723 CTAGGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:534784 original size:13 final size:13
Alignment explanation
Indices: 534766--534791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
534756 CATTTTTCTG
534766 TGTATCGATACAT
1 TGTATCGATACAT
534779 TGTATCGATACAT
1 TGTATCGATACAT
534792 CTATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:534803 original size:33 final size:33
Alignment explanation
Indices: 534748--534811 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
534738 CAAAGAAATA
*
534748 TATCGATACATTTTTCTGTGTATCGATACATTG
1 TATCGATACATTTTTCTGTGTATCAATACATTG
534781 TATCGATACATCTATTT-T-TGTATCAATACAT
1 TATCGATACAT-T-TTTCTGTGTATCAATACAT
534812 CTAGGAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 23 0.82
34 2 0.07
35 3 0.11
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (33 bp):
TATCGATACATTTTTCTGTGTATCAATACATTG
Found at i:537275 original size:54 final size:51
Alignment explanation
Indices: 537152--537537 Score: 151
Period size: 52 Copynumber: 7.4 Consensus size: 51
537142 CAATTCTCCG
* * * *
537152 CAATCGGAGATA-TCCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTA
1 CAATCGGGGATACT-CCAACTCCGATTTTATTTTAAAAACACCAATTTTCTA
* **
537203 TAATCAAGGATACTCCAACTCCGATTTTATTTCTAAAAAAACACCAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTT-T--AAAAACACCAATTTTCT-A
* * ***** * * **
537257 CAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA-CCTCGTTA
1 CAATCGGGGATACTCCAACTCCGATT--TTATTTTAAAAACACCAATTTTC--TA
* * ** ** * ***
537310 C-CTCTGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCA
1 CAATC---GGGGATACTCCAACTCCGATTTTATTTTAAAAACACCAATTTTCT-A
* * * * * *
537363 TAATCGGGGATACTCCAACCCCGGTTTTATTACT-AAAACACTAATTTTTCCA
1 CAATCGGGGATACTCCAACTCCGATTTTATT-TTAAAAACACCAA-TTTTCTA
* * * *
537415 CAATCGGGGATACTCCAAC-CCCAGTTTTATTTTCAAAACACCAATTCTCCTT
1 CAATCGGGGATACTCCAACTCCGA-TTTTATTTTAAAAACACCAATT-TTCTA
* * *
537467 TAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTT-TAAAAACACCAATTTTCT-A
* *
537519 CAATCGAGGATACTTCAAC
1 CAATCGGGGATACTCCAAC
537538 CTCGTTATTT
Statistics
Matches: 247, Mismatches: 63, Indels: 49
0.69 0.18 0.14
Matches are distributed among these distances:
51 65 0.26
52 92 0.37
53 25 0.10
54 43 0.17
55 21 0.09
56 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTTAAAAACACCAATTTTCTA
Found at i:537289 original size:27 final size:28
Alignment explanation
Indices: 537259--537334 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
537249 ATTTTTCACA
537259 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTACATC
* *
537286 ATCGGGGATACTCCAACCTCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACATC
*
537314 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
537335 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACATC
Found at i:537385 original size:51 final size:52
Alignment explanation
Indices: 537317--537538 Score: 225
Period size: 52 Copynumber: 4.3 Consensus size: 52
537307 TTACCTCTGA
* * * * *
537317 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCT-CATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCCACAATC
* * *
537368 GGGGATACTCCAACCCCGGTTTTATTACTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCCACAATC
* * * **
537420 GGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAA-TTCTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCC-ACAATC
* ** * *
537472 GGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAATTT-TTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACTAATTTCTCCACAATC
* *
537524 GAGGATACTTCAACC
1 GGGGATACTCCAACC
537539 TCGTTATTTC
Statistics
Matches: 142, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
51 42 0.30
52 86 0.61
53 12 0.08
54 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCCACAATC
Found at i:537700 original size:79 final size:78
Alignment explanation
Indices: 537551--537755 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 78
537541 GTTATTTCAT
* * *
537551 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
537616 TGATTTCTCATAAT
65 CGATTTCTCACAAC
* * * * * * *
537630 TGGGGATACTCCAACCCCATTATTTCGGAGGGGATACTCCAATCCCGATTTTTTTCTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTC-GAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
537694 TCGATTTCTCACAAC
64 TCGATTTCTCACAAC
* * *
537709 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGGACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACCCCG
537756 TTATTATCTC
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
78 5 0.05
79 95 0.91
80 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:542030 original size:20 final size:20
Alignment explanation
Indices: 541962--542060 Score: 101
Period size: 20 Copynumber: 4.8 Consensus size: 20
541952 AAAAACCCAG
* * * *
541962 AATGTATCGATATAATGAGA
1 AATGTATCGATACATTTAGT
541982 AATGTATCGATACAATTGTAAG-
1 AATGTATCGATAC-ATT-T-AGT
* *
542004 CATGTATCAATACATTTAGT
1 AATGTATCGATACATTTAGT
*
542024 AATGTATCGATATATTTAGT
1 AATGTATCGATACATTTAGT
542044 AATGTATCGATACATTT
1 AATGTATCGATACATTT
542061 CCTTGGCAGT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
19 2 0.03
20 46 0.70
21 5 0.08
22 11 0.17
23 2 0.03
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTTAGT
Found at i:543466 original size:17 final size:18
Alignment explanation
Indices: 543446--543479 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
543436 AATGCAAAAT
543446 TAAAAAAAAAA-CTAAAC
1 TAAAAAAAAAACCTAAAC
543463 TAAAAAAAAAACCTAAA
1 TAAAAAAAAAACCTAAA
543480 GTGACTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (18 bp):
TAAAAAAAAAACCTAAAC
Found at i:543604 original size:21 final size:21
Alignment explanation
Indices: 543569--543619 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
543559 TATAAAAAAC
* *
543569 TAAATAAAA-CAAAAAATTAT
1 TAAAAAAAACCAAAAAAATAT
543589 TAAAAAAAACCAAAAAAATAT
1 TAAAAAAAACCAAAAAAATAT
543610 TAAAAAAAAC
1 TAAAAAAAAC
543620 ATATGGCAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAAAAAAACCAAAAAAATAT
Found at i:544222 original size:17 final size:14
Alignment explanation
Indices: 544187--544227 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 14
544177 TATATCTAAA
544187 AATATTTAAATATT
1 AATATTTAAATATT
544201 AATATTTAATATATAT
1 AATATTTAA-ATAT-T
544217 ATATATTTAAA
1 A-ATATTTAAA
544228 AAAAGTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 3 0.12
17 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:550017 original size:2 final size:2
Alignment explanation
Indices: 550010--550039 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
550000 AGGTAAGCAG
550010 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
550040 GCGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:555994 original size:19 final size:18
Alignment explanation
Indices: 555970--556030 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
555960 ACAGTAAATA
555970 TATCGATACATAAGTTTTG
1 TATCGATACATAAG-TTTG
555989 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
*
556002 TATCGATATATAAGTGTTG
1 TATCGATACATAAGT-TTG
556021 TATCGATACA
1 TATCGATACA
556031 ATGTATCGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 10 0.29
15 2 0.06
17 2 0.06
19 20 0.59
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:556015 original size:32 final size:32
Alignment explanation
Indices: 555970--556043 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
555960 ACAGTAAATA
*
555970 TATCGATACATAAGTTTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
556002 TATCGATATATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
556034 TATCGCTACA
1 TATCGATACA
556044 AAGCTACTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:556085 original size:20 final size:20
Alignment explanation
Indices: 556060--556135 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
556050 CTGTCAAGGA
556060 AATGTATCGATACATTACTC
1 AATGTATCGATACATTACTC
556080 AATGTATCGATACATT-CATAC
1 AATGTATCGATACATTAC-T-C
*
556101 AATGTATCGATAAATTGA-TC
1 AATGTATCGATACATT-ACTC
**
556121 TTTGTATCGATACAT
1 AATGTATCGATACAT
556136 CTGGGAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.02
20 30 0.62
21 17 0.35
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTACTC
Found at i:564315 original size:29 final size:31
Alignment explanation
Indices: 564282--564378 Score: 83
Period size: 38 Copynumber: 3.0 Consensus size: 31
564272 TCTTACAACA
564282 CTATC-TTTCA-AGGCTAAG-TAGAAACCTCC
1 CTATCTTTTCACAGGCTAAGATAG-AACCTCC
*
564311 CTATCTTTTCACGGGCTAAGATAGAACCTCTCTCTCC
1 CTATCTTTTCACAGGCTAAGATAGAA-----C-CTCC
*
564348 CTATCTTTTTCAAAGGCTAAGATAGAACCTC
1 CTATC-TTTTCACAGGCTAAGATAGAACCTC
564379 TCAATCACTT
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
29 5 0.09
30 5 0.09
31 9 0.16
32 6 0.11
33 1 0.02
36 1 0.02
37 9 0.16
38 19 0.35
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (31 bp):
CTATCTTTTCACAGGCTAAGATAGAACCTCC
Found at i:564367 original size:38 final size:37
Alignment explanation
Indices: 564307--564380 Score: 121
Period size: 38 Copynumber: 2.0 Consensus size: 37
564297 AAGTAGAAAC
**
564307 CTCCCTATCTTTTCACGGGCTAAGATAGAACCTCTCT
1 CTCCCTATCTTTTCAAAGGCTAAGATAGAACCTCTCT
564344 CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTCCCTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
564381 AATCACTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 9 0.26
38 25 0.74
ACGTcount: A:0.24, C:0.31, G:0.12, T:0.32
Consensus pattern (37 bp):
CTCCCTATCTTTTCAAAGGCTAAGATAGAACCTCTCT
Found at i:565336 original size:32 final size:32
Alignment explanation
Indices: 565295--565379 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
565285 TTTCAACAAT
* *
565295 TTGTATCGATACAATGTATTGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* *
565327 TTGTATCGATATAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
565359 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
565380 CTACGAAGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.39
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:567226 original size:32 final size:32
Alignment explanation
Indices: 567171--567266 Score: 174
Period size: 32 Copynumber: 3.0 Consensus size: 32
567161 TTCAACGATT
567171 TGTATCGATACATAAAGTGTTGTATTGATACAA
1 TGTATCGATACAT-AAGTGTTGTATTGATACAA
567204 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATTGATACAA
*
567236 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATTGATACA
567267 TAAGTTTTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.79
33 13 0.21
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATTGATACAA
Found at i:567232 original size:19 final size:19
Alignment explanation
Indices: 567170--567283 Score: 108
Period size: 19 Copynumber: 6.6 Consensus size: 19
567160 TTTCAACGAT
567170 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
*
567190 TTGTATTGATAC--AA---
1 TTGTATCGATACATAAGTG
567204 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
567222 TTGTATTGATAC--AA---
1 TTGTATCGATACATAAGTG
567236 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
567254 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
567273 TTGTATCGATA
1 TTGTATCGATA
567284 TAATGTAAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
13 20 0.26
15 4 0.05
17 4 0.05
19 38 0.49
20 11 0.14
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:567406 original size:52 final size:52
Alignment explanation
Indices: 567361--567489 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
567351 CACTAATCTT
*
567361 TGTATCGATACATGCAGGCAAATTTGGCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
567413 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
567465 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
567490 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:572580 original size:88 final size:88
Alignment explanation
Indices: 572426--572612 Score: 338
Period size: 88 Copynumber: 2.1 Consensus size: 88
572416 TTCGATGAAT
* * *
572426 ATGGTAAGGTTCGGGTAAATAAAAGATTTGACTGTTTGCCCAACACACACTGTGCACTCACACGT
1 ATGGCAAGGTTCGGGTAAACAAAAGAGTTGACTGTTTGCCCAACACACACTGTGCACTCACACGT
572491 GCATTAGATTCCCGCCAAACTCA
66 GCATTAGATTCCCGCCAAACTCA
572514 ATGGCAAGGTTCGGGTAAACAAAAGAGTTGACTGTTTGCCCAACACACACTGTGCACTCACACGT
1 ATGGCAAGGTTCGGGTAAACAAAAGAGTTGACTGTTTGCCCAACACACACTGTGCACTCACACGT
572579 GCATTAGATTCCCGCCAAACTCA
66 GCATTAGATTCCCGCCAAACTCA
*
572602 ATGGCGAGGTT
1 ATGGCAAGGTT
572613 ACGACCCAAT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 95 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (88 bp):
ATGGCAAGGTTCGGGTAAACAAAAGAGTTGACTGTTTGCCCAACACACACTGTGCACTCACACGT
GCATTAGATTCCCGCCAAACTCA
Found at i:575212 original size:20 final size:20
Alignment explanation
Indices: 575175--575214 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
575165 TTTTCCAAAC
*
575175 AGAAAAAAAAAGAGAGAAAA
1 AGAAAAAAAAAGACAGAAAA
575195 AGAAAAAACAAA-ACAGAAAA
1 AGAAAAAA-AAAGACAGAAAA
575215 TCTCGGTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAAAGACAGAAAA
Found at i:576241 original size:30 final size:30
Alignment explanation
Indices: 576206--576333 Score: 195
Period size: 30 Copynumber: 4.3 Consensus size: 30
576196 TCTTCAAATC
*
576206 TCTCTTTTCAAAGTTCACGACTCAGTGGCA
1 TCTCTTTTCAAAGTCCACGACTCAGTGGCA
*
576236 TCTCTTTTCAAAGTCCACGACTTAGTGGCA
1 TCTCTTTTCAAAGTCCACGACTCAGTGGCA
*
576266 TTTCTTTTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTTTCAAAGTCCACGACTCAGTGGCA
* *
576296 TCTCTTTTGAAAGTCCACGACTTAGTGGCA
1 TCTCTTTTCAAAGTCCACGACTCAGTGGCA
*
576326 CCT-TTTTC
1 TCTCTTTTC
576334 TTTTCAAACC
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
29 4 0.04
30 85 0.96
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (30 bp):
TCTCTTTTCAAAGTCCACGACTCAGTGGCA
Found at i:576301 original size:60 final size:60
Alignment explanation
Indices: 576208--576325 Score: 218
Period size: 60 Copynumber: 2.0 Consensus size: 60
576198 TTCAAATCTC
*
576208 TCTTTTCAAAGTTCACGACTCAGTGGCATCTCTTTTCAAAGTCCACGACTTAGTGGCATT
1 TCTTTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCAAAGTCCACGACTTAGTGGCATT
*
576268 TCTTTTCAAAGTCCACGACTCAGTGGCATCTCTTTTGAAAGTCCACGACTTAGTGGCA
1 TCTTTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCAAAGTCCACGACTTAGTGGCA
576326 CCTTTTTCTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (60 bp):
TCTTTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCAAAGTCCACGACTTAGTGGCATT
Found at i:576440 original size:27 final size:27
Alignment explanation
Indices: 576402--576454 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
576392 ACACCTTGTT
*
576402 CCTTTTAAGTCCATAACTCTATGGCAC
1 CCTTTTAAGTCCACAACTCTATGGCAC
*
576429 CCTTTTAAGTCCACAACTCTGTGGCA
1 CCTTTTAAGTCCACAACTCTATGGCA
576455 TCTTCTCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCTATGGCAC
Found at i:576536 original size:31 final size:27
Alignment explanation
Indices: 576461--576542 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
576451 GGCATCTTCT
* * **
576461 CTTCAAAAGCCCATAAGTCAGTGGCAAC
1 CTTCAAAAGCACACAAGTTGGT-GCAAC
576489 CTTCAAAAGCACACAAGTTGGTGCAACC
1 CTTCAAAAGCACACAAGTTGGTGCAA-C
576517 CTTACAAAAGCCCACACAAGTTGGTG
1 CTT-CAAAAG--CACACAAGTTGGTG
576543 GCATCTTCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 4 0.09
28 22 0.48
29 6 0.13
31 14 0.30
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.18
Consensus pattern (27 bp):
CTTCAAAAGCACACAAGTTGGTGCAAC
Found at i:576947 original size:49 final size:49
Alignment explanation
Indices: 576541--577526 Score: 947
Period size: 49 Copynumber: 20.1 Consensus size: 49
576531 CACAAGTTGG
* * *
576541 TGGCATCTTC-T-TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
576588 TGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
576636 TGGCA----C--CTTTAAGTCCAATGTCACTGGCCTTGAATCAACATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
576679 TGGCACCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTTATTCAGCACAT
1 TGGCA--TCT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
576731 TGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
576774 TGGCACCTT-GTCCTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
576822 TGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
** *
576865 TGGCA-CTTTGTCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
576913 TGGCATCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
576962 TGGCGCCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
1 T-G-G-CATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
577014 TGGCACCTTCATCTTTAAGTCCAATATCACTGGCCTTGAATTAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
577063 TGGCACCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCA---TCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * * *
577115 TGGCACCTTCAACTTGAAGTCCAATATCGCAGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * **
577164 TGGCGCCTTTATCATCTTTAAGTTTAATGTCGCTGGCCTTGAATCAGCACAT
1 T-G-GCATCT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
577216 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGGACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
577265 TGGCACCTTCAACTTGAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
577314 TGGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACAT
1 T-G-GCATCT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
577366 TGGCACCTTCATCTTTAAGTCCAGTATCGCTGTCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * ** * * *
577415 TGGTGCCTTCGTCATCTTTAAAACCCAATTTCGTTGGCCTTGAATCAGTACAT
1 T-G-G-CATCTTCATCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * * *
577468 TGGAATTCTTCTCATCTTCAAGTCTAATGTCGTTGACCGTGAATCAGCACAT
1 TGGCA-TC-T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
577520 TGACATC
1 TGGCATC
577527 CTTTTTTCTC
Statistics
Matches: 771, Mismatches: 124, Indels: 84
0.79 0.13 0.09
Matches are distributed among these distances:
43 112 0.15
45 1 0.00
47 9 0.01
48 113 0.15
49 241 0.31
50 12 0.02
51 16 0.02
52 234 0.30
53 33 0.04
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (49 bp):
TGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:577015 original size:101 final size:100
Alignment explanation
Indices: 576541--577526 Score: 1093
Period size: 101 Copynumber: 10.1 Consensus size: 100
576531 CACAAGTTGG
*
576541 TGGCATCTTC-T-TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG---TCT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCT
*
576601 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
576636 TGGCA----C--CTTTAAGTCCAATGTCACTGGCCTTGAATCAACATATTGGCACCTTTGTCATC
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCATC
* * *
576695 TTTAAGACCAATGTCGCTGGCCTTTATTCAGCACAT
65 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
576731 TGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC--C-
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCT
*
576787 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
576822 TGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCA-CTT-T-GTCT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCT
*
576878 TTAAGTCCAATGTCGTTGGCCTTGAATCAGCACAT
66 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
576913 TGGCATCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATC
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCATC
576978 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
65 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
577014 TGGCACCTTCATCTTTAAGTCCAATATCACTGGCCTTGAATTAGCACATTGGCACCTTCGTCATC
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCATC
577079 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
65 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * * *
577115 TGGCACCTTCAACTTGAAGTCCAATATCGCAGGCCTTGAATCAGCATATTGGCGCCTTTATCATC
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCATC
**
577180 TTTAAGTTTAATGTCGCTGGCCTTGAATCAGCACAT
65 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
577216 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGGACATTGGCACC-T-TCAACT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCT
* * *
577279 TGAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
577314 TGGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACC-T-TCA
1 T-G-GCATCT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCA
* * * *
577377 TCTTTAAGTCCAGTATCGCTGTCCTTGAATCAGCATAT
63 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* * ** * * * * * * *
577415 TGGTGCCTTCGTCATCTTTAAAACCCAATTTCGTTGGCCTTGAATCAGTACATTGGAATTCTTCT
1 T-G-G-CATCTTCATCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTGT
* * * * *
577480 CATCTTCAAGTCTAATGTCGTTGACCGTGAATCAGCACAT
61 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
577520 TGACATC
1 TGGCATC
577527 CTTTTTTCTC
Statistics
Matches: 785, Mismatches: 79, Indels: 47
0.86 0.09 0.05
Matches are distributed among these distances:
89 1 0.00
90 4 0.01
91 158 0.20
92 4 0.01
94 5 0.01
95 89 0.11
97 39 0.05
98 39 0.05
99 2 0.00
100 4 0.01
101 365 0.46
102 38 0.05
103 1 0.00
104 2 0.00
105 34 0.04
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (100 bp):
TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCT
TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:577138 original size:150 final size:147
Alignment explanation
Indices: 576555--577417 Score: 1048
Period size: 150 Copynumber: 5.9 Consensus size: 147
576545 ATCTTCTTCT
* *
576555 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGCTG
* * *
576619 GCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATGTCACTGGCCTTGAATCAACATA
66 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA
* *
576678 TTGGCACCTTTGTCATCTTT
131 TTGGCACC--T-TCAACTTG
* * * * * *
576698 AAGACCAATGTCGCTGGCCTTTATTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGCTG
* * * *
576757 GCCTTGAATCAGCATATTGGCACCTT-GTCCTTAAGACCAATGTCGCTGGCCTTGAATCAGCACA
66 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA
576821 TTGGCACC-T----TT-
131 TTGGCACCTTCAACTTG
* ** *
576832 AAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCA-CTTTGTCTTTAAGTCCAATGTCGTTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGCTG
* * * *
576896 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATA
66 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA
* * *
576961 TTGGCGCCTTCGTCATCTTT
131 TTGGCACC-T--TCAACTTG
* * * *
576981 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCACTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGCTG
*
577046 GCCTTGAATTAGCACATTGGCACCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGC
66 GCCTTGAATCAGCACATTGGCACC-T--TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGC
577111 ACATTGGCACCTTCAACTTG
128 ACATTGGCACCTTCAACTTG
* * **
577131 AAGTCCAATATCGCAGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTTTAAGTTTAATGTCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAATGTCG
*
577196 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGG
63 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGC
577261 ACATTGGCACCTTCAACTTG
128 ACATTGGCACCTTCAACTTG
* *
577281 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAATGTCG
* * *
577346 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAGTATCGCTGTCCTTGAATCAGC
63 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGC
*
577411 ATATTGG
128 ACATTGG
577418 TGCCTTCGTC
Statistics
Matches: 624, Mismatches: 67, Indels: 51
0.84 0.09 0.07
Matches are distributed among these distances:
134 32 0.05
135 2 0.00
138 39 0.06
139 43 0.07
140 39 0.06
143 72 0.12
144 1 0.00
148 2 0.00
149 35 0.06
150 268 0.43
151 1 0.00
152 3 0.00
153 87 0.14
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (147 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGCTG
GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA
TTGGCACCTTCAACTTG
Found at i:578188 original size:21 final size:20
Alignment explanation
Indices: 578158--578196 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
578148 CACATTTTTA
*
578158 TCTAAATGTATCGATACATT
1 TCTAAATGTATCAATACATT
578178 TCTAGAATGTATCAATACA
1 TCTA-AATGTATCAATACA
578197 AGGTCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCAATACATT
Found at i:578274 original size:32 final size:32
Alignment explanation
Indices: 578233--578316 Score: 141
Period size: 32 Copynumber: 2.6 Consensus size: 32
578223 TTTCAACAAT
*
578233 TTGTATCGATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* *
578265 TTGTATCGATACAATGTATCGATACGTAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
578297 TTGTATCGATACAATGTATC
1 TTGTATCGATACAATGTATC
578317 AGTACGAAGC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:578380 original size:13 final size:13
Alignment explanation
Indices: 578362--578389 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
578352 ATTACTCAAA
578362 TGTATCGATACAT
1 TGTATCGATACAT
578375 TGTATCGATACAT
1 TGTATCGATACAT
578388 TG
1 TG
578390 ATCTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:581630 original size:22 final size:23
Alignment explanation
Indices: 581605--581648 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
581595 ACTTTGAATT
*
581605 ATTT-TTACTTGAAAAACATTTG
1 ATTTGTTACTTAAAAAACATTTG
*
581627 ATTTGTTGCTTAAAAAACATTT
1 ATTTGTTACTTAAAAAACATTT
581649 TAAACTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (23 bp):
ATTTGTTACTTAAAAAACATTTG
Found at i:584524 original size:21 final size:22
Alignment explanation
Indices: 584500--584550 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
584490 ATGCAAATTT
584500 TTATTTTTATTAGT-TAACTCA-
1 TTATTTTTATT-GTGTAACTCAC
* *
584521 TTATTTTCATTTTGTAACTCAC
1 TTATTTTTATTGTGTAACTCAC
584543 TTATTTTT
1 TTATTTTT
584551 TTCTAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.61
Consensus pattern (22 bp):
TTATTTTTATTGTGTAACTCAC
Found at i:585993 original size:20 final size:21
Alignment explanation
Indices: 585967--586023 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
585957 GTTCGGCTCA
585967 ATGTATCGATACAATGC-ACT
1 ATGTATCGATACAATGCAACT
* * *
585987 CTGTATCGATACAATTCAAGT
1 ATGTATCGATACAATGCAACT
586008 ATGTATCGATACAATG
1 ATGTATCGATACAATG
586024 TATCAATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACAATGCAACT
Found at i:586139 original size:33 final size:32
Alignment explanation
Indices: 586081--586145 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
586071 ATAATTCAAT
586081 ATGTATCGATACCAAGAACATGTATCGATACA
1 ATGTATCGATACCAAGAACATGTATCGATACA
* * *
586113 ATGTATCTATACTAAGCAATATGTATCGATACA
1 ATGTATCGATACCAAG-AACATGTATCGATACA
586146 TCTAGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACCAAGAACATGTATCGATACA
Found at i:586157 original size:20 final size:21
Alignment explanation
Indices: 586134--586172 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
586124 CTAAGCAATA
586134 TGTATCGATACA-TCTAGGTG
1 TGTATCGATACATTCTAGGTG
586154 TGTATCGATACATTCTAGG
1 TGTATCGATACATTCTAGG
586173 GTTTTGACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTAGGTG
Found at i:588482 original size:84 final size:83
Alignment explanation
Indices: 588309--588482 Score: 201
Period size: 84 Copynumber: 2.1 Consensus size: 83
588299 TCCCCAAAGA
* * * *
588309 TAAAATTATATGAAGGAAAAGTTTCAGTTTTTTGAAGATCTAAATTAGAGTATCCCCTTGGAAGA
1 TAAAATTATATGAAAGAAAAGTTTAAGTTTTTTGAAGATCTAAATTAAAGTATCCCCTTAGAAGA
*
588374 GTGAGGATGAAGTTTCTT
66 GTGAGGATGAAGTTTCTC
* * **
588392 TAAAAATTATATGAAAGAAAAGTTTAAGTTTTTTTAACGATC-AAGGTTAAAGTATCCTTTTAG-
1 T-AAAATTATATGAAAGAAAAGTTTAAGTTTTTTGAA-GATCTAA-ATTAAAGTATCCCCTTAGA
588455 AGTAGTG-GGAATGAAGTTTCTC
63 AG-AGTGAGG-ATGAAGTTTCTC
588477 TAAAAT
1 TAAAAT
588483 CCAAAATTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
83 1 0.01
84 43 0.56
85 33 0.43
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.36
Consensus pattern (83 bp):
TAAAATTATATGAAAGAAAAGTTTAAGTTTTTTGAAGATCTAAATTAAAGTATCCCCTTAGAAGA
GTGAGGATGAAGTTTCTC
Found at i:590981 original size:51 final size:51
Alignment explanation
Indices: 590905--591004 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
590895 AATTAGCTTG
* * ** *
590905 TGTATCGATACATTTTGTCAAAAATTTCAATCGTAGCTACTGCTAAGGCCA
1 TGTATCGATACATTTTGTCAAAAATTCCAACCACAGCTACTGCCAAGGCCA
*
590956 TGTATCGATACATTTTGTCGAAAATTCCAACCACAGCTACTGCCAAGGC
1 TGTATCGATACATTTTGTCAAAAATTCCAACCACAGCTACTGCCAAGGC
591005 AATATATTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (51 bp):
TGTATCGATACATTTTGTCAAAAATTCCAACCACAGCTACTGCCAAGGCCA
Found at i:597001 original size:39 final size:39
Alignment explanation
Indices: 596958--597046 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
596948 ATTTTCGCCG
596958 AGCGACATTGGGCTCGTGCCAATGTGCTGATTCAAGGCA
1 AGCGACATTGGGCTCGTGCCAATGTGCTGATTCAAGGCA
* *
596997 AGCGACATTGGGCTTGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGGCTCGTGCCAATGTGCTGATTCAAGGCA
597036 AGCGACATTGG
1 AGCGACATTGG
597047 TCTTAAAGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
AGCGACATTGGGCTCGTGCCAATGTGCTGATTCAAGGCA
Found at i:597137 original size:51 final size:49
Alignment explanation
Indices: 597015--597146 Score: 151
Period size: 51 Copynumber: 2.7 Consensus size: 49
597005 TGGGCTTGTG
* * * * *
597015 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTG
1 CCAATATGCTGTTTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTA
* *
597064 CCAATATGCTGATTT-AAAGCCAGCGATATTGGAC-TCAAGATGGTAAAGGTA
1 CCAATATGCTG-TTTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTA
597115 CCAATATGCTGTTTCAAGGCCAGCGATATTGG
1 CCAATATGCTGTTTCAAGGCCAGCGATATTGG
597147 GTATGTGCTA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
48 6 0.09
49 27 0.39
50 5 0.07
51 32 0.46
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CCAATATGCTGTTTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTA
Found at i:597220 original size:87 final size:86
Alignment explanation
Indices: 597109--597321 Score: 309
Period size: 87 Copynumber: 2.5 Consensus size: 86
597099 CAAGATGGTA
* * * * * *
597109 AAGGTACCAATATGCTGTTTCAAGGCCAGCGATATTGGGTATGTGCTATTGTGCTGATTTAGGGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGT-TGTGCCAATGTGCTGATTCAAGGC
* *
597174 CAGCGACATTGGTCTTAGAGAC
65 CAGCGACACTAGTCTTAGAGAC
* * *
597196 AAGGTGCCAATATGCTGATTCAAGGCTAGAGATATTAGGCTTGTGCCAATGTGCTGATTCAAGGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGGTTGTGCCAATGTGCTGATTCAAGGC
597261 CAGCGACACTAGTCTTAGAGAC
65 CAGCGACACTAGTCTTAGAGAC
597283 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG
597322 CTCAAGATGG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
86 2 0.02
87 106 0.95
88 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (86 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTTGTGCCAATGTGCTGATTCAAGGCC
AGCGACACTAGTCTTAGAGAC
Found at i:597309 original size:48 final size:43
Alignment explanation
Indices: 597107--597559 Score: 314
Period size: 48 Copynumber: 10.3 Consensus size: 43
597097 CTCAAGATGG
* * * * *
597107 TAAAGGTACCAATATGCTGTTTCAAGGCCAGCGATATTGG--G
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * * * * *
597148 T--ATGTGCTATTGTGCTGATTTAGGGCCAGCGACATTGGTCT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * * *
597189 TAGAGACAAGGTGCCAATATGCTGATTCAAGGCTAGAGATATTAGG-CT
1 T----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACT
* * *
597237 T----GTGCCAATGTGCTGATTCAAGGCCAGCGACACTAGTCT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * *
597276 TAGAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCT
1 T----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * * *
597324 CAAGATGGAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACT
1 -TA-A---AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* *
597372 TAAAGGTGCCAATGTACTAATTCAAGGCCAGCGACATTGGACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
*
597415 TAAAGGTG-CAATGTACTGATTCAAGGCCAGCGACATTGGACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * * *
597457 TAAAGGTGCCAATGTGCTGATTCGAGGCTAGCAACATTGGTCTT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC-T
* * * *
597501 GAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGAACT
1 -----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
597549 TAAAGGTGCCA
1 TAAAGGTGCCA
597560 CGGAGTTGTG
Statistics
Matches: 329, Mismatches: 52, Indels: 60
0.75 0.12 0.14
Matches are distributed among these distances:
38 1 0.00
39 59 0.18
41 2 0.01
42 41 0.12
43 82 0.25
44 1 0.00
45 2 0.01
46 1 0.00
47 1 0.00
48 101 0.31
49 38 0.12
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (43 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
Found at i:597395 original size:43 final size:43
Alignment explanation
Indices: 597196--597559 Score: 308
Period size: 43 Copynumber: 8.2 Consensus size: 43
597186 TCTTAGAGAC
* * *
597196 AAGGTGCCAATATGCTGATTCAAGGCTAGAGATATTAGG-CTT-
1 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATT-GGACTTA
* * * *
597238 ---GTGCCAATGTGCTGATTCAAGGCCAGCGACACTAGTCTTAGAGA
1 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTT----A
* * * * *
597282 CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTCAA
1 -AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACT-TA
* *
597327 GATGGAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTA
1 -A---AGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTA
* * *
597374 AAGGTGCCAATGTACTAATTCAAGGCCAGCGACATTGGACTTA
1 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTA
* *
597417 AAGGTG-CAATGTACTGATTCAAGGCCAGCGACATTGGACTTA
1 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTA
* * *
597459 AAGGTGCCAATGTGCTGATTCGAGGCTAGCAACATTGGTCTTGAAGATA
1 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGAC-T-----TA
* * *
597508 AAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGAACTTA
1 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTA
597551 AAGGTGCCA
1 AAGGTGCCA
597560 CGGAGTTGTG
Statistics
Matches: 268, Mismatches: 33, Indels: 41
0.78 0.10 0.12
Matches are distributed among these distances:
38 1 0.00
39 31 0.12
42 41 0.15
43 82 0.31
44 1 0.00
45 2 0.01
46 1 0.00
47 1 0.00
48 72 0.27
49 36 0.13
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (43 bp):
AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTA
Found at i:597403 original size:226 final size:218
Alignment explanation
Indices: 596973--597544 Score: 675
Period size: 226 Copynumber: 2.6 Consensus size: 218
596963 CATTGGGCTC
596973 GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAG
1 GTGCCAATGTGCTGATTCAAGGCAAGCGACATT-GGCTTGTGCCAATGTGCTGATTCAAGGCCAG
* * * *
597038 CGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTTAAAGCCAGCGATATTGGACTCAAG
65 CGACATTGGTCTTAGAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAG
* * * * * *
597103 ATGGTAAAGGTACCAATATGCTGTTTCAAGGCCAGCGATATTGGGTATGTGCTATTGTGCTGATT
130 ATGG--AAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGGTAGGTGCCAATGTACTAATT
* * *
597168 TAGGGCCAGCGACATTGGTCTTAGAGACAAG
193 CAAGGCCAGCGACATTGGACTT----A-AAG
* * * *
597199 GTGCCAATATGCTGATTCAAGGCTAGAGATATTAGGCTTGTGCCAATGTGCTGATTCAAGGCCAG
1 GTGCCAATGTGCTGATTCAAGGCAAGCGACATT-GGCTTGTGCCAATGTGCTGATTCAAGGCCAG
* * * *
597264 CGACACTAGTCTTAGAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTCAAG
65 CGACATTGGTCTTAGAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAG
* * *
597328 ATGG-AGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTACTAA
130 ATGGAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGG--GT--AGGTGCCAATGTACTAA
597392 TTCAAGGCCAGCGACATTGGACTTAAAG
191 TTCAAGGCCAGCGACATTGGACTTAAAG
* * *
597420 GTG-CAATGTACTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATGTGCTGATTCGAGG
1 GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGG-CTT----GTGCCAATGTGCTGATTCAAGG
* * *
597484 CTAGCAACATTGGTCTT-GAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTG
61 CCAGCGACATTGGTCTTAG-AGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
597545 AACTTAAAGG
Statistics
Matches: 299, Mismatches: 36, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
219 2 0.01
220 27 0.09
221 6 0.02
222 35 0.12
223 1 0.00
224 38 0.13
225 82 0.27
226 108 0.36
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (218 bp):
GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGCTTGTGCCAATGTGCTGATTCAAGGCCAGC
GACATTGGTCTTAGAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAGA
TGGAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGGTAGGTGCCAATGTACTAATTCAA
GGCCAGCGACATTGGACTTAAAG
Found at i:597420 original size:22 final size:22
Alignment explanation
Indices: 597395--597462 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
597385 GTACTAATTC
597395 AAGGCCAGCGACATTGGACTTA
1 AAGGCCAGCGACATTGGACTTA
* ** *
597417 AAGGTGCAATGTAC--T-GA-TTC
1 AAGG-CCAGCG-ACATTGGACTTA
597437 AAGGCCAGCGACATTGGACTTA
1 AAGGCCAGCGACATTGGACTTA
597459 AAGG
1 AAGG
597463 TGCCAATGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 7 0.22
21 4 0.12
22 11 0.34
23 3 0.09
24 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (22 bp):
AAGGCCAGCGACATTGGACTTA
Found at i:597462 original size:85 final size:88
Alignment explanation
Indices: 597332--597559 Score: 291
Period size: 85 Copynumber: 2.6 Consensus size: 88
597322 CTCAAGATGG
*
597332 AGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTACTAATTCAA
1 AGGTGCCAATATACTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTACTAATTCAA
*
597397 GGCCAGCGACATTGGAC-T-TAA
66 GGCCAGCAACATTGGACTTATAA
* * * * * *
597418 AGGTG-CAATGTACTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATGTGCTGATTCGA
1 AGGTGCCAATATACTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTACTAATTCAA
* *
597482 GGCTAGCAACATTGGTCTTGAAGATAA
66 GGCCAGCAACATTGGACTT----ATAA
* *
597509 AGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGAACTTAAAGGTGCCA
1 AGGTGCCAATATACTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCA
597560 CGGAGTTGTG
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
85 66 0.55
86 6 0.05
91 8 0.07
92 40 0.33
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (88 bp):
AGGTGCCAATATACTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTACTAATTCAA
GGCCAGCAACATTGGACTTATAA
Found at i:597592 original size:34 final size:33
Alignment explanation
Indices: 597550--598290 Score: 573
Period size: 33 Copynumber: 22.8 Consensus size: 33
597540 TATTGAACTT
*
597550 AAAGGTGCCACGGAGTTGTGGATTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
597583 AAGGAGTGCCACAGAGTTGTGGGCTT-----TAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** * * *
597612 AAAGGTGCCGCAAAATTATGGACTCAAAAGGTAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-AA
* *
597646 AAGAGG-GCCACAGAGTTGTGGGCTTTAATAAGGAA
1 AA-AGGTGCCACGGAGTTGTGGAC-TTAA-AAGGAA
* * *
597681 TAAGGTGCCATGGAGTTGTGCACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * * *
597714 AAAGATGCCACGAATTTGTGAACTTCAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
597744 ---GGTGCCACAGAGTTGTGGACGTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
597774 CAAGGTGCCACGGAGTTGTGGACTTAAAA--AG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
597805 AAAGATGCCACGGAGTTGTGGACTTCAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
597838 ATAGAGTGCCACAGAGTTATAGG-CTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGT-GGAC-TTAAAAGGAA
*
597873 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
597906 AAAGAGTGCCACGGAGTTTTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
597941 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
597974 AAAGATGCCACGGAGCTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
598007 AAAGATGCCACGGAGCTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
598037 ---GGTGCCATGGAGTTGTGGACTTAAAAGGAGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA-A
* * ** * *
598068 AAGGGTGCTACAAAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* * *
598102 AATGGGTGCCACGAAGTTGTGGGCTTAAAAGGAA
1 AA-AGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
598136 AAAGATGCCACGGAGTTGTGGACGTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
** *
598166 ---GGTGCCACGGAGTTACGGACTTAAAAGGAG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
598196 AAAGGCTGCCACGAAGTTGTGGGCTTTAAAAAGAAA
1 AAAGG-TGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* * * *
598232 AAAGGGCGCCATGGAGTCGTGGACTTAAAAAGAA
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
598266 AAAGGTGCCACAGAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
598291 TAGGACTGAG
Statistics
Matches: 564, Mismatches: 100, Indels: 88
0.75 0.13 0.12
Matches are distributed among these distances:
27 64 0.11
28 18 0.03
29 5 0.01
31 27 0.05
32 3 0.01
33 186 0.33
34 154 0.27
35 79 0.14
36 26 0.05
37 2 0.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:597758 original size:60 final size:62
Alignment explanation
Indices: 597552--598037 Score: 275
Period size: 68 Copynumber: 7.5 Consensus size: 62
597542 TTGAACTTAA
* * ** *
597552 AGGTGCCACGGAGTTGTGGATTTAAAAGGAAAAGGAGTGCCAC-AGAGTTGTGGGCTTTAAAA-
1 AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGA-AGTTGTGAACTTAAAAAG
* ** * * * * * **
597614 AGGTGCCGCAAAATTATGGACTCAAAAGGTAAAAGAGGGCCAC-AGAGTTGTGGGCTTTAATAAG
1 AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGA-AGTTGTGAAC-TT-A-AA-
*
597678 GAATA
60 -AA-G
* * * *
597683 AGGTGCCATGGAGTTGTGCACTTAAAAGGAAAAAGATGCCACGAATTTGTGAACTT-CAAAG
1 AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTGTGAACTTAAAAAG
* * * * * *
597744 -GGTGCCACAGAGTTGTGGACGTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAAG
1 AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTGTGAACTTAAAAAG
* * * * *
597805 AAAGATGCCACGGAGTTGTGGACTTCAAAGGAAATAGAGTGCCAC-AGAGTTAT-AGGCTTTAAA
1 --AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGA-AGTTGTGA-AC-TTAAA
597868 AAG
60 AAG
* * * **
597871 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTTTGGGCTTTAAA
1 ----AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGAAGTTGTGAAC-TTAAA
597936 AAG
60 AAG
* * *
597939 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGCTGTGGACTTAAAAG
1 ----AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTGTGAACTT--AA-
*
598004 GAAAA
59 -AAAG
* *
598009 AGATGCCACGGAGCTGTGGACTTAAAAGG
1 AGGTGCCACGGAGTTGTGGACTTAAAAGG
598038 GTGCCATGGA
Statistics
Matches: 339, Mismatches: 61, Indels: 44
0.76 0.14 0.10
Matches are distributed among these distances:
60 46 0.14
61 4 0.01
62 47 0.14
63 2 0.01
64 29 0.09
65 14 0.04
66 37 0.11
67 19 0.06
68 110 0.32
69 28 0.08
70 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.20
Consensus pattern (62 bp):
AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTGTGAACTTAAAAAG
Found at i:597891 original size:68 final size:67
Alignment explanation
Indices: 597744--598290 Score: 502
Period size: 68 Copynumber: 8.3 Consensus size: 67
597734 AACTTCAAAG
* * *
597744 GGTGCCACAGAGTTGTGGACGTAAAAGGAACAAG-GTGCCACGGAGTTGTGGACTTAAAAAG--A
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAA
597806 AA
66 AA
* * * * *
597808 GATGCCACGGAGTTGTGGACTTCAAAGGAAATAGAGTGCCACAGAGTTATAGG-CTTTAAAAAGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGT-GGAC-TTAAAAAGA
597872 AAAA
64 AAAA
* * *
597876 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTTTGGGCTTTAAAAAGAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
597941 AAA
65 AAA
* *
597944 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGCTGTGGACTTAAAAGGAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAA
598008 AA
66 AA
* * * *
598010 GATGCCACGGAGCTGTGGACTTAAAA-G-----G-GTGCCATGGAGTTGTGGACTTAAAAGGAGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA-A
*
598068 AAG
65 AAA
* ** * * * * * * *
598071 GGTGCTACAAAGTTGTGGGCTTTAAAAAGAAAATGGGTGCCACGAAGTTGTGGGCTTAAAAGGAA
1 GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA
598136 AAA
65 AAA
* * ** * *
598139 GATGCCACGGAGTTGTGGACGTAAAA-G-----G-GTGCCACGGAGTTACGGACTTAAAAGGAGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAA
598197 AA
66 AA
* * * * * * *
598199 GGCTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAAGGGCGCCATGGAGTCGTGGACTTAAAAAG
1 GG-TGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAG
598264 AAAAA
63 AAAAA
* *
598269 GGTGCCACAGAGTCGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
598291 TAGGACTGAG
Statistics
Matches: 396, Mismatches: 61, Indels: 48
0.78 0.12 0.10
Matches are distributed among these distances:
60 54 0.14
61 34 0.09
62 7 0.02
63 5 0.01
64 28 0.07
65 15 0.04
66 47 0.12
67 22 0.06
68 117 0.30
69 40 0.10
70 27 0.07
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.19
Consensus pattern (67 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAA
AA
Found at i:598043 original size:27 final size:27
Alignment explanation
Indices: 598012--598064 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
598002 AGGAAAAAGA
598012 TGCCACGGAGCTGTGGACTTAAAAGGG
1 TGCCACGGAGCTGTGGACTTAAAAGGG
* *
598039 TGCCATGGAGTTGTGGACTTAAAAGG
1 TGCCACGGAGCTGTGGACTTAAAAGG
598065 AGAAAGGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGCTGTGGACTTAAAAGGG
Found at i:598137 original size:129 final size:127
Alignment explanation
Indices: 597777--598290 Score: 484
Period size: 129 Copynumber: 4.0 Consensus size: 127
597767 AAAGGAACAA
* * * * * *
597777 GGTGCCACGGAGTTGTGGACTTAAAA--AGAAA-GATGCCACGGAGTTGTGGAC-TTCAAAGGAA
1 GGTGCCACGGAGTTATGGACTTAAAAGGAGAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAAGAA
* * * * * *
597838 ATAGAGTGCCACAGAGTTATAGG-CTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAA
66 A-AGGGTGCCACGGAGTTGT-GGAC-TTAAAAGGAAAAAGATGCCACGGAG-TGTGGACTTAAAA
597902 GG
127 -G
* * * * * *
597904 AAAAAGAGTGCCACGGAGTTTTGGGCTTTAAAAAGA-AAAAGGTGCCACGGAGTTGTGGAC-TTA
1 -----G-GTGCCACGGAGTTATGGAC-TTAAAAGGAGAAAGGGTGCCACGAAGTTGTGGGCTTTA
* * * *
597967 AAAGGAAAAAGATGCCACGGAGCTGTGGACTTAAAAGGAAAAAGATGCCACGGAGCTGTGGACTT
59 AAAAGAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAG-TGTGGACTT
598032 AAAAG
123 AAAAG
* * * *
598037 GGTGCCATGGAGTTGTGGACTTAAAAGGAGAAAGGGTGCTACAAAGTTGTGGGCTTTAAAAAGAA
1 GGTGCCACGGAGTTATGGACTTAAAAGGAGAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAAGAA
* * *
598102 AATGGGTGCCACGAAGTTGTGGGCTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACGTAAAAG
66 AA-GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAG-TGTGGACTTAAAAG
* *
598166 GGTGCCACGGAGTTACGGACTTAAAAGGAGAAAGGCTGCCACGAAGTTGTGGGCTTTAAAAAGAA
1 GGTGCCACGGAGTTATGGACTTAAAAGGAGAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAAG--
* * * * * *
598231 AAAAGGGCGCCATGGAGTCGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTCGTGGACTT
64 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGT-GTGGACTT
598291 TAGGACTGAG
Statistics
Matches: 324, Mismatches: 46, Indels: 26
0.82 0.12 0.07
Matches are distributed among these distances:
126 8 0.02
127 35 0.11
128 12 0.04
129 112 0.35
130 45 0.14
131 4 0.01
132 1 0.00
133 18 0.06
134 43 0.13
135 16 0.05
136 30 0.09
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.19
Consensus pattern (127 bp):
GGTGCCACGGAGTTATGGACTTAAAAGGAGAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAAGAA
AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTGTGGACTTAAAAG
Found at i:598172 original size:27 final size:27
Alignment explanation
Indices: 598141--598193 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
598131 AGGAAAAAGA
**
598141 TGCCACGGAGTTGTGGACGTAAAAGGG
1 TGCCACGGAGTTACGGACGTAAAAGGG
*
598168 TGCCACGGAGTTACGGACTTAAAAGG
1 TGCCACGGAGTTACGGACGTAAAAGG
598194 AGAAAGGCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (27 bp):
TGCCACGGAGTTACGGACGTAAAAGGG
Found at i:598333 original size:31 final size:30
Alignment explanation
Indices: 598295--598746 Score: 550
Period size: 31 Copynumber: 14.6 Consensus size: 30
598285 GGACTTTAGG
598295 ACTGAGTCGTGGACTTTGAGAAAAGATTGCC
1 ACTGAGTCGTGGACTTTGAGAAAAGA-TGCC
*
598326 ACTGAGTCATGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
*
598357 ACTGAGCCGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
*
598388 ACTGAGTCGTGGGCTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
* *
598419 ACTGAGTCGTGGACTTTGGGAAGAGATGCC
1 ACTGAGTCGTGGACTTTGAGAAAAGATGCC
*
598449 ACTGAGTCGTGGACTTTGAGGAAAAGATGCT
1 ACTGAGTCGTGGACTTTGA-GAAAAGATGCC
*
598480 ACTGAGTTGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
*
598511 ACTGAGTCGTGGACTTAGA-AAAGAGATTGCC
1 ACTGAGTCGTGGACTTTGAGAAA-AGA-TGCC
* *
598542 ACTGAGTCATGGACTTTAGAAAAAGAGATGCC
1 ACTGAGTCGTGGACTTT-GAGAAA-AGATGCC
*
598574 ACTGAGTTGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
*
598605 ACTGAGTCGTGGACTTAGA-AAAGAGATTGCC
1 ACTGAGTCGTGGACTTTGAGAAA-AGA-TGCC
*
598636 ACTGAGTCGTGGACTTTGGGAAAAGAGATGCC
1 ACTGAGTCGTGGACTTTGAG-AAA-AGATGCC
* *
598668 ACTAAGTTGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
* *
598699 ACTAAGTCGTGGACTTAGA-AAAGAGATGCC
1 ACTGAGTCGTGGACTTTGAGAAA-AGATGCC
* * *
598729 ACAGAATTGTGGACTTTG
1 ACTGAGTCGTGGACTTTG
598747 TCAGAAGAGA
Statistics
Matches: 373, Mismatches: 34, Indels: 29
0.86 0.08 0.07
Matches are distributed among these distances:
29 9 0.02
30 57 0.15
31 235 0.63
32 57 0.15
33 15 0.04
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (30 bp):
ACTGAGTCGTGGACTTTGAGAAAAGATGCC
Found at i:598614 original size:94 final size:91
Alignment explanation
Indices: 598295--598746 Score: 636
Period size: 94 Copynumber: 4.9 Consensus size: 91
598285 GGACTTTAGG
* * * *
598295 ACTGAGTCGTGGACTTTG-AGAAAAGATTGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCAC
1 ACTGAGTTGTGGACTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTAGAA-AAGAGATGCCAC
*
598359 TGAGCCGTGGACTTTGAAGAAAAGATGCC
64 TGAGTCGTGGACTTTGAA-AAAAGATGCC
* * * **
598388 ACTGAGTCGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTG
1 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTG
* *
598453 AGTCGTGGACTTTGAGGAAAAGATGCT
66 AGTCGTGGACTTTGA-AAAAAGATGCC
598480 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATTGCCACT
1 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGA-TGCCACT
*
598545 GAGTCATGGACTTTAGAAAAAGAGATGCC
65 GAGTCGTGGACTTT-GAAAAA-AGATGCC
598574 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATTGCCACT
1 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGA-TGCCACT
*
598639 GAGTCGTGGACTTTGGGAAAAGAGATGCC
65 GAGTCGTGGACTTT--GAAAAAAGATGCC
* * *
598668 ACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACAG
1 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTG
* *
598733 AATTGTGGACTTTG
66 AGTCGTGGACTTTG
598747 TCAGAAGAGA
Statistics
Matches: 329, Mismatches: 24, Indels: 14
0.90 0.07 0.04
Matches are distributed among these distances:
91 1 0.00
92 88 0.27
93 79 0.24
94 156 0.47
95 5 0.02
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (91 bp):
ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTG
AGTCGTGGACTTTGAAAAAAGATGCC
Found at i:599449 original size:31 final size:28
Alignment explanation
Indices: 599406--599462 Score: 78
Period size: 31 Copynumber: 1.9 Consensus size: 28
599396 AAAGGCTTGC
*
599406 TTGACAATAAAGATGATATGGTTTGATTTAT
1 TTGACAAGAAAGAT-A-ATGGTTT-ATTTAT
599437 TTGACAAGAAAGATAATGGTTTATTT
1 TTGACAAGAAAGATAATGGTTTATTT
599463 CCAACAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 7 0.28
30 1 0.04
31 13 0.52
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (28 bp):
TTGACAAGAAAGATAATGGTTTATTTAT
Found at i:603193 original size:12 final size:12
Alignment explanation
Indices: 603173--603203 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
603163 CGTAAAATGG
*
603173 AAAAGGATGCGT
1 AAAATGATGCGT
603185 AAAATGATGCGT
1 AAAATGATGCGT
603197 AAAATGA
1 AAAATGA
603204 AAATGTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.26, T:0.19
Consensus pattern (12 bp):
AAAATGATGCGT
Found at i:607122 original size:13 final size:13
Alignment explanation
Indices: 607104--607133 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
607094 ATACAAAGAT
607104 CAATGTATCGATA
1 CAATGTATCGATA
607117 CAATGTATCGATA
1 CAATGTATCGATA
607130 CAAT
1 CAAT
607134 AAATAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:607128 original size:33 final size:33
Alignment explanation
Indices: 607086--607151 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
607076 AAATTTCTAG
*
607086 ATGTATCGATACAA-AGATCAATGTATCGATACA
1 ATGTATCGATACAATAAAT-AATGTATCGATACA
607119 ATGTATCGATACAATAAATAATGTATCGATACA
1 ATGTATCGATACAATAAATAATGTATCGATACA
607152 TTTCCTTAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAATAAATAATGTATCGATACA
Found at i:607228 original size:21 final size:18
Alignment explanation
Indices: 607182--607235 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
607172 TAGCGATACA
*
607182 TTGTATCGATACAACTCT
1 TTGTATCGATACAACTAT
607200 TATGTATCGATACATTTACTAT
1 T-TGTATCGATACA---ACTAT
607222 TTGTATCGATACAA
1 TTGTATCGATACAA
607236 ATTGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.39
21 12 0.39
22 5 0.16
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (18 bp):
TTGTATCGATACAACTAT
Found at i:607544 original size:51 final size:49
Alignment explanation
Indices: 607423--608053 Score: 256
Period size: 48 Copynumber: 13.9 Consensus size: 49
607413 ATTGGGCTCA
* * * *
607423 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGG
607472 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A-GGTAAAGG
* * *
607523 TGCCAATATGCTGTTTCAAGGCCAGCGATGTTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGG
* * * * * * *
607562 TGCCGATGTGTTGATTTAAGGCCAGCGACATTGGTCTTAGA-G-ACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTA-AAGG
** *
607610 TGCCAATATGCTGATTCAAGGCCAAAGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGG
* * * * *
607649 TGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAGA-G-ACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTA-AAGG
* ** * *
607697 TGCCAATATGCTAATTCAAGGCCAAAGAAATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGG
* * * * * * * * *
607736 TGCCAATGTGTTGATTCAAGGCCAACGACACTAGTCTGAGA-G-AGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTA-AAGG
* * * **
607784 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-TCAAGATGGAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGG
* *
607832 TGCCAATATGCTGATCCAAGGCTAGCGATATTGGAC-T-----TAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGG
* * * * *
607875 TGCCAATGTACTAATTCAAGGCTAGCGACATTGGAC-T-----TAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGG
* * * ** *
607918 TGCTAATGTACTGATTCAAGGCCAATGACATTGGAC-T-----TAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGG
* * * * * * * *
607961 TGCCAATGTGCTGATTCGAGGCTAGCAACATTGGTCTTAAAGATAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGG
* *
608010 TGCCAATATACTGATTCAAGGCCAGCGATATTAGACTTAAAGGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT
608054 GCCACGGAGT
Statistics
Matches: 449, Mismatches: 91, Indels: 84
0.72 0.15 0.13
Matches are distributed among these distances:
39 89 0.20
40 2 0.00
43 109 0.24
44 1 0.00
47 3 0.01
48 126 0.28
49 77 0.17
50 2 0.00
51 40 0.09
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGG
Found at i:607632 original size:48 final size:43
Alignment explanation
Indices: 607517--608057 Score: 305
Period size: 48 Copynumber: 12.3 Consensus size: 43
607507 CTTAAGATGG
* ** *
607517 TAAAGGTGCCAATATGCTGTTTCAAGGCCAGCGATGTTGGGCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
* * * *
607560 T----GTGCCGATGTGTTGATTTAAGGCCAGCGACATTGGTCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
** * *
607599 TAGAGACAAGGTGCCAATATGCTGATTCAAGGCCAAAGATATTGGGCT
1 T----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
* *
607647 T----GTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
* ** * *
607686 TAGAGACAAGGTGCCAATATGCTAATTCAAGGCCAAAGAAATTGGGCT
1 T----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
* * * * *
607734 T----GTGCCAATGTGTTGATTCAAGGCCAACGACACTAGTCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
* * *
607773 GAGAGAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCT
1 ----TA-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
* * * * *
607821 CAAGATGGAGGTGCCAATATGCTGATCCAAGGCTAGCGATATTGGACT
1 -TA-A---AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
* * * * *
607869 TAAAGGTGCCAATGTACTAATTCAAGGCTAGCGACATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
* * * ** *
607912 TAAAGGTGCTAATGTACTGATTCAAGGCCAATGACATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
* * * *
607955 TAAAGGTGCCAATGTGCTGATTCGAGGCTAGCAACATTGGTCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
* * * *
607998 TAAAGATAAAGATGCCAATATACTGATTCAAGGCCAGCGATATTAGACT
1 TAAAG-----G-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
608047 TAAAGGTGCCA
1 TAAAGGTGCCA
608058 CGGAGTTGTG
Statistics
Matches: 385, Mismatches: 77, Indels: 72
0.72 0.14 0.13
Matches are distributed among these distances:
39 94 0.24
43 119 0.31
44 1 0.00
45 3 0.01
46 1 0.00
47 1 0.00
48 132 0.34
49 34 0.09
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT
Found at i:607632 original size:87 final size:87
Alignment explanation
Indices: 607471--607820 Score: 468
Period size: 87 Copynumber: 4.0 Consensus size: 87
607461 AAAGGTGAAG
* * * *
607471 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGGTA-AAGGTGCCAATATGCT
1 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTT-AGA--G-ACAAGGTGCCAATATGCT
* ** *
607535 GTTTCAAGGCCAGCGATGTTGGGCTT
62 GATTCAAGGCCAAAGATATTGGGCTT
* *
607561 GTGCCGATGTGTTGATTTAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
607626 CAAGGCCAAAGATATTGGGCTT
66 CAAGGCCAAAGATATTGGGCTT
* * *
607648 GTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTAATT
1 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
*
607713 CAAGGCCAAAGAAATTGGGCTT
66 CAAGGCCAAAGATATTGGGCTT
* * * * *
607735 GTGCCAATGTGTTGATTCAAGGCCAACGACACTAGTCTGAGAGAGAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
**
607800 CAAGGCCAGCGATATTGGGCT
66 CAAGGCCAAAGATATTGGGCT
607821 CAAGATGGAG
Statistics
Matches: 234, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
86 1 0.00
87 197 0.84
89 3 0.01
90 33 0.14
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
CAAGGCCAAAGATATTGGGCTT
Found at i:607663 original size:39 final size:39
Alignment explanation
Indices: 607609--607760 Score: 133
Period size: 39 Copynumber: 3.7 Consensus size: 39
607599 TAGAGACAAG
*
607609 GTGCCAATATGCTGATTCAAGGCCAAAGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAAAGAAATTGGGCTT
* * ** * *
607648 GTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAAAGAAATTGGGCTT
*
607687 AGAGACAAGGTGCCAATATGCTAATTCAAGGCCAAAGAAATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAAAGAAATTGGGCTT
* *
607735 GTGCCAATGTGTTGATTCAAGGCCAA
1 GTGCCAATATGCTGATTCAAGGCCAA
607761 CGACACTAGT
Statistics
Matches: 88, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
39 56 0.64
48 32 0.36
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAAAGAAATTGGGCTT
Found at i:607895 original size:43 final size:43
Alignment explanation
Indices: 607829--608057 Score: 251
Period size: 43 Copynumber: 5.2 Consensus size: 43
607819 CTCAAGATGG
* * * *
607829 AGGTGCCAATATGCTGATCCAAGGCTAGCGATATTGGACTTAA
1 AGGTGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTAA
*
607872 AGGTGCCAATGTACTAATTCAAGGCTAGCGACATTGGACTTAA
1 AGGTGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTAA
* * **
607915 AGGTGCTAATGTACTGATTCAAGGCCAATGACATTGGACTTAA
1 AGGTGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTAA
* * * *
607958 AGGTGCCAATGTGCTGATTCGAGGCTAGCAACATTGGTCTTAA
1 AGGTGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTAA
* * * *
608001 AGATAAAGATGCCAATATACTGATTCAAGGCCAGCGATATTAGACTTAA
1 AG-----G-TGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTAA
608050 AGGTGCCA
1 AGGTGCCA
608058 CGGAGTTGTG
Statistics
Matches: 154, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
43 118 0.77
44 1 0.01
48 1 0.01
49 34 0.22
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (43 bp):
AGGTGCCAATGTACTGATTCAAGGCTAGCGACATTGGACTTAA
Found at i:607965 original size:24 final size:24
Alignment explanation
Indices: 607901--607968 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
607891 CAAGGCTAGC
*
607901 GACATTGGACTTAAAGGTGCTAAT
1 GACATTGGACTTAAAGGTGCCAAT
*
607925 GTAC--T-GA-TTCAA-G-GCCAAT
1 G-ACATTGGACTTAAAGGTGCCAAT
607944 GACATTGGACTTAAAGGTGCCAAT
1 GACATTGGACTTAAAGGTGCCAAT
607968 G
1 G
607969 TGCTGATTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
18 2 0.06
19 6 0.18
20 2 0.06
21 6 0.18
22 6 0.18
23 2 0.06
24 8 0.24
25 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (24 bp):
GACATTGGACTTAAAGGTGCCAAT
Found at i:608055 original size:92 final size:89
Alignment explanation
Indices: 607780--608057 Score: 303
Period size: 86 Copynumber: 3.1 Consensus size: 89
607770 TCTGAGAGAG
* * * * * *
607780 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-TCAAGATGGAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGAT--A-GTGCCAATATACT
* *
607844 GATCCAAGGCTAGCGATATTGGACTTA
63 GATTCAAGGCCAGCGATATTGGACTTA
* * * *
607871 AAGGTGCCAATGTACTAATTCAAGGCTAGCGACATTGGACTTAAAG---GTGCTAATGTACTGAT
1 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATAGTGCCAATATACTGAT
** *
607933 TCAAGGCCAATGACATTGGACTTA
66 TCAAGGCCAGCGATATTGGACTTA
* * *
607957 AAGGTGCCAATGTGCTGATTCGAGGCTAGCAACATTGGTCTTAAAGATAAAGATGCCAATATACT
1 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGAT--AG-TGCCAATATACT
*
608022 GATTCAAGGCCAGCGATATTAGACTTA
63 GATTCAAGGCCAGCGATATTGGACTTA
608049 AAGGTGCCA
1 AAGGTGCCA
608058 CGGAGTTGTG
Statistics
Matches: 154, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
86 73 0.47
91 35 0.23
92 46 0.30
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (89 bp):
AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATAGTGCCAATATACTGAT
TCAAGGCCAGCGATATTGGACTTA
Found at i:608157 original size:27 final size:27
Alignment explanation
Indices: 608119--608200 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
608109 AAGGGAGAAT
*
608119 GGTGCCACGGAGTTTTGGACTTCAAAG
1 GGTGCCACGGAGTTATGGACTTCAAAG
608146 GGTGCCACGGAGTTATGGACTTCAAAG
1 GGTGCCACGGAGTTATGGACTTCAAAG
* * *
608173 GGTGCCATGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTATGGACTTCAAAG
608200 G
1 G
608201 AAAAAGAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.24
Consensus pattern (27 bp):
GGTGCCACGGAGTTATGGACTTCAAAG
Found at i:608274 original size:33 final size:32
Alignment explanation
Indices: 608228--608381 Score: 110
Period size: 33 Copynumber: 4.6 Consensus size: 32
608218 GTTATAAGCT
*
608228 TTAAAAAGAAAAAGGTGCCATAGAGTTGCAGAC
1 TTAAAAGGAAAAAGGTGCCAT-GAGTTGCAGAC
* * * **
608261 TTGAAAGGAAAAAGATGCCACGGAGTTGTGGAC
1 TTAAAAGGAAAAAGGTGCCA-TGAGTTGCAGAC
** *
608294 TTAAAAGGAAAAAGAGTGCCACTGAGTTGTGGGC
1 TTAAAAGGAAAAAG-GTGCCA-TGAGTTGCAGAC
* * * ***
608328 TTTAAAAAGAAAAGGGTGCCACGGAGTTATGGAC
1 -TTAAAAGGAAAAAGGTGCCA-TGAGTTGCAGAC
*
608362 TTAAAAGGAAAAAGATGCCA
1 TTAAAAGGAAAAAGGTGCCA
608382 CGGAGCTGTG
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
33 56 0.56
34 32 0.32
35 12 0.12
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.19
Consensus pattern (32 bp):
TTAAAAGGAAAAAGGTGCCATGAGTTGCAGAC
Found at i:608321 original size:101 final size:101
Alignment explanation
Indices: 608175--608402 Score: 321
Period size: 101 Copynumber: 2.3 Consensus size: 101
608165 CTTCAAAGGG
* **
608175 TGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAGTGTGACGGAGTTATAAGCTTTAAAAAGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATAAGCTTTAAAAAGAAAA
* * *
608240 AGGTGCCATAGAGTTGCAGACTTGAAAGGAAAAAGA
66 AGGTGCCACAGAGTTACAGACTTAAAAGGAAAAAGA
* * **
608276 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACTGAGTTGTGGGCTTTAAAAAGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATAAGCTTTAAAAAGAAAA
* * **
608341 GGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGA
66 AGGTGCCACAGAGTTACAGACTTAAAAGGAAAAAGA
*
608377 TGCCACGGAGCTGTGGACTTAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG
608403 GTGCCATGGA
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 112 1.00
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.20
Consensus pattern (101 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATAAGCTTTAAAAAGAAAA
AGGTGCCACAGAGTTACAGACTTAAAAGGAAAAAGA
Found at i:608382 original size:33 final size:33
Alignment explanation
Indices: 608173--608688 Score: 412
Period size: 34 Copynumber: 15.7 Consensus size: 33
608163 GACTTCAAAG
*
608173 GGTGCCATGGAGTTGTGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
** * * *
608206 GAGTGTGACGGAGTTAT-AAGCTTTAAAAAGAAAAA
1 G-GTGCCACGGAGTTGTGGA-C-TTAAAAGGAAAAA
** ** *
608241 GGTGCCATAGAGTTGCAGACTTGAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
608274 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * * *
608307 GAGTGCCACTGAGTTGTGGGCTTTAAAAAGAAAAG
1 G-GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA
*
608342 GGTGCCACGGAGTTATGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
608375 GATGCCACGGAGCTGTGGACTTAAAA-G-----
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
608402 GGTGCCATGGAGTTGTGGACTTAAAAGGAGAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGA-AAAA
** * *
608436 GGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA
* ** *
608470 TGCTGCCACAAAGTTGTGGGCTTAAAAGGAAAAA
1 -GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
608504 GATGCCACGGAGTTGTGGACTTAAAA-G-----
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
608531 GGTGCCACGGAGTTATGGACTTAAAAGGAGAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGA-AAAA
* * * * *
608565 GGTGCCACGAAGTTATGGGCTTTAAAAAGAAAACG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAA-A
* *
608600 GGTGCCA-GAGAGTTATGGACTTAAAAAGAAAAA
1 GGTGCCACG-GAGTTGTGGACTTAAAAGGAAAAA
** * *
608633 GGGTGCCATAGAGTCGTGGACTTAAAAAGAAAAA
1 -GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
608667 GGTGCCACAGAGTCGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
608689 TGTGACTGAG
Statistics
Matches: 395, Mismatches: 61, Indels: 54
0.77 0.12 0.11
Matches are distributed among these distances:
27 47 0.12
28 2 0.01
32 2 0.01
33 118 0.30
34 148 0.37
35 78 0.20
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (33 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
Found at i:608405 original size:60 final size:61
Alignment explanation
Indices: 608337--608578 Score: 254
Period size: 60 Copynumber: 3.9 Consensus size: 61
608327 CTTTAAAAAG
*
608337 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGA-AAAAGATGCCACGGAGCTGTGGACTT
1 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAGAAAAGATGCCACGGAGTTGTGGACTT
* * * * ** *
608397 AAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGAGAAAGGGTGCCACAAAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAGAAAAGATGCCACGGAGTTGTGGAC-TT
* ** * *
608459 AAAAAGAAAAATGCTGCCACAAAGTTGTGGGCTTAAAAGGA-AAAAGATGCCACGGAGTTGTGGA
1 -AAAAG------GGTGCCACGGAGTTATGGACTTAAAAGGAGAAAAGATGCCACGGAGTTGTGGA
608523 CTT
59 CTT
* * *
608526 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAGAAAGGGTGCCACGAAGTT
1 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAGAAAAGATGCCACGGAGTT
608579 ATGGGCTTTA
Statistics
Matches: 146, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
60 56 0.38
61 33 0.23
62 2 0.01
63 5 0.03
66 5 0.03
67 2 0.01
68 19 0.13
69 24 0.16
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.19
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAGAAAAGATGCCACGGAGTTGTGGACTT
Found at i:608408 original size:27 final size:27
Alignment explanation
Indices: 608377--608429 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
608367 AGGAAAAAGA
608377 TGCCACGGAGCTGTGGACTTAAAAGGG
1 TGCCACGGAGCTGTGGACTTAAAAGGG
* *
608404 TGCCATGGAGTTGTGGACTTAAAAGG
1 TGCCACGGAGCTGTGGACTTAAAAGG
608430 AGAAAGGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGCTGTGGACTTAAAAGGG
Found at i:608536 original size:129 final size:129
Alignment explanation
Indices: 608276--608659 Score: 554
Period size: 129 Copynumber: 3.0 Consensus size: 129
608266 AGGAAAAAGA
* * **
608276 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACTGAGTTGTGGGCTTTAAAAAG-AAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGGGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAA
* *
608340 AGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGCTGTGGACTTAAAAGGG
66 AGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
*
608404 TGCCATGGAGTTGTGGACTTAAAAGGAGAAAGGGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGGGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAA
* * * * *
608469 ATGCTGCCACAAAGTTGTGGGCTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
66 AGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
* * *
608533 TGCCACGGAGTTATGGACTTAAAAGGAGAAAGGGTGCCACGAAGTTATGGGCTTTAAAAAGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGGGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAA
* * * * ** *
608598 CGGGTGCCAGAGAGTTATGGACTTAAAAAGAAAAAGGGTGCCATAGAGTCGTGGACTTAAAA
66 AGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAA-GATGCCACGGAGTTGTGGACTTAAAA
608660 AGAAAAAGGT
Statistics
Matches: 226, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
128 56 0.25
129 148 0.65
130 22 0.10
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (129 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGGGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAA
AGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:608537 original size:27 final size:27
Alignment explanation
Indices: 608506--608558 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
608496 AGGAAAAAGA
*
608506 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAGGG
608533 TGCCACGGAGTTATGGACTTAAAAGG
1 TGCCACGGAGTTATGGACTTAAAAGG
608559 AGAAAGGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTATGGACTTAAAAGGG
Found at i:608626 original size:163 final size:156
Alignment explanation
Indices: 608276--608688 Score: 418
Period size: 163 Copynumber: 2.6 Consensus size: 156
608266 AGGAAAAAGA
* * *
608276 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACTGAGTTGTGGGCTTTAAAAAGAAAA
1 TGCCACAGAGTTGTGGACTTAAAAAGAAAAAG-GTGCCACAGAGTTGTGGGC-TTAAAAAGAAAA
* * *
608341 GGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGCTGTGGACTTAAAAGGGTG
64 AGGTGCCACGGAGTTGTGGACTTAAAAGG----AGATGCCACGGAGCTATGGACTTAAAAGGGTG
* * * *
608406 CCATGGAGTTGTGGACTTAAAAGGAGAAAGGG
125 CCACGAAGTTATGGACTTAAAAAGAGAAAGGG
* * * * *
608438 TGCCACAAAGTTGTGGGCTTTAAAAAGAAAAATGCTGCCACAAAGTTGTGGGCTTAAAAGGAAAA
1 TGCCACAGAGTTGTGGAC-TTAAAAAGAAAAA-GGTGCCACAGAGTTGTGGGCTTAAAAAGAAAA
* *
608503 AGATGCCACGGAGTTGTGGACTTAAAAGG-G-TGCCACGGAGTTATGGACTTAAAAGGAGAAAGG
64 AGGTGCCACGGAGTTGTGGACTTAAAAGGAGATGCCACGGAGCTATGGACTT------A-AAAGG
*
608566 GTGCCACGAAGTTATGGGCTTTAAAAAGA-AAACGGG
122 GTGCCACGAAGTTATGGAC-TTAAAAAGAGAAA-GGG
* * * * *
608602 TGCCAGAGAGTTATGGACTTAAAAAGAAAAAGGGTGCCATAGAGTCGTGGACTTAAAAAGAAAAA
1 TGCCACAGAGTTGTGGACTTAAAAAGAAAAA-GGTGCCACAGAGTTGTGGGCTTAAAAAGAAAAA
* *
608667 GGTGCCACAGAGTCGTGGACTT
65 GGTGCCACGGAGTTGTGGACTT
608689 TGTGACTGAG
Statistics
Matches: 208, Mismatches: 32, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
156 18 0.09
157 1 0.00
162 53 0.25
163 110 0.53
164 26 0.12
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (156 bp):
TGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTAAAAAGAAAAAG
GTGCCACGGAGTTGTGGACTTAAAAGGAGATGCCACGGAGCTATGGACTTAAAAGGGTGCCACGA
AGTTATGGACTTAAAAAGAGAAAGGG
Found at i:608678 original size:69 final size:70
Alignment explanation
Indices: 608526--608678 Score: 183
Period size: 69 Copynumber: 2.2 Consensus size: 70
608516 TTGTGGACTT
* * * * *
608526 AAAAGGGTGCCAC-G-GAGTTATGGACTTAAAAGGAGAAAGGGTGCCACGAAGTTATGGGCTTTA
1 AAAAGGGTGCCACAGAGAGTTATGGACTTAAAAAGAAAAAGGGTGCCAAGAAGTCATGGACTTTA
608589 AAAAG
66 AAAAG
*
608594 AAAACGGGTG-C-CAGAGAGTTATGGACTTAAAAAGAAAAAGGGTGCCATAG-AGTCGTGGAC-T
1 AAAA-GGGTGCCACAGAGAGTTATGGACTTAAAAAGAAAAAGGGTGCCA-AGAAGTCATGGACTT
608655 TAAAAAG
64 TAAAAAG
*
608662 AAAAAGGTGCCACAGAG
1 AAAAGGGTGCCACAGAG
608679 TCGTGGACTT
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
67 5 0.07
68 19 0.26
69 47 0.65
70 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.31, T:0.17
Consensus pattern (70 bp):
AAAAGGGTGCCACAGAGAGTTATGGACTTAAAAAGAAAAAGGGTGCCAAGAAGTCATGGACTTTA
AAAAG
Found at i:608731 original size:31 final size:30
Alignment explanation
Indices: 608693--609245 Score: 628
Period size: 31 Copynumber: 17.9 Consensus size: 30
608683 GGACTTTGTG
608693 ACTGAGTCGTGGACTTTGAGAAAAGATTGCC
1 ACTGAGTCGTGGACTTTGAGAAAAGA-TGCC
608724 ACTGAGTCGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
* *
608755 ACTAAGTTGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
608786 ACTGAGTCGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
* *
608817 ACTGAGTCGTGGACTTTGGGAAGAGATGCC
1 ACTGAGTCGTGGACTTTGAGAAAAGATGCC
*
608847 ACTGAGTCGTGGACTTTGAGGAAAAGATGCT
1 ACTGAGTCGTGGACTTTGA-GAAAAGATGCC
*
608878 ACT-AGTTGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
* * *
608908 ACTGAGTCGTGGACATAGA-AAAGAGATTGGC
1 ACTGAGTCGTGGACTTTGAGAAA-AGA-TGCC
*
608939 ACTGAGTCGTGGACTTTAGAAAAAGAGATGCC
1 ACTGAGTCGTGGACTTT-GAGAAA-AGATGCC
*
608971 ACTGAGTTGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
* *
609002 ACTGAGTCATGGACTTAGA-AAAGAGATTGCC
1 ACTGAGTCGTGGACTTTGAGAAA-AGA-TGCC
* *
609033 ACTAAGTCGTGGACTTTGGGAAAAGAGATGCC
1 ACTGAGTCGTGGACTTTGAG-AAA-AGATGCC
*
609065 ACTGAGTTGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
* *
609096 ACTGAGTCATGGACTTAGA-AAAGAGATTGCC
1 ACTGAGTCGTGGACTTTGAGAAA-AGA-TGCC
* *
609127 ACTAAGTCGTGGACTTTGGGAAAAGAGATGCC
1 ACTGAGTCGTGGACTTTGAG-AAA-AGATGCC
*
609159 ACTGAGTTGTGGACTTTGAAGAAAAGATGCC
1 ACTGAGTCGTGGACTTTG-AGAAAAGATGCC
* * * * *
609190 ATTAAGTCGTGGACCTAGAAAAAAGATGCC
1 ACTGAGTCGTGGACTTTGAGAAAAGATGCC
** *
609220 AAAGAGTCGTGGACTTTGAGAGAAGA
1 ACTGAGTCGTGGACTTTGAGAAAAGA
609246 GATTTGAAGA
Statistics
Matches: 450, Mismatches: 53, Indels: 39
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.02
30 96 0.21
31 243 0.54
32 79 0.18
33 23 0.05
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.23
Consensus pattern (30 bp):
ACTGAGTCGTGGACTTTGAGAAAAGATGCC
Found at i:609015 original size:94 final size:92
Alignment explanation
Indices: 608693--609248 Score: 753
Period size: 94 Copynumber: 6.0 Consensus size: 92
608683 GGACTTTGTG
* * *
608693 ACTGAGTCGTGGACTTTG-AGAAAAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCAC
1 ACTGAGTTGTGGACTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTAGAA-AAGAGATGCCAC
*
608757 TAAGTTGTGGACTTTGAAGAAA-AGATGCC
64 TAAGTCGTGGACTTTGAA-AAAGAGATGCC
* * ** *
608786 ACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTG
1 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTA
* *
608851 AGTCGTGGACTTTGAGGAAA-AGATGCT
66 AGTCGTGGACTTTGA-AAAAGAGATGCC
* *
608878 ACT-AGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACATAGAAAAGAGATTGGCACT
1 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGA-TGCCACT
*
608942 GAGTCGTGGACTTTAGAAAAAGAGATGCC
65 AAGTCGTGGACTTT-GAAAAAGAGATGCC
*
608971 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTAGAAAAGAGATTGCCACT
1 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGA-TGCCACT
*
609036 AAGTCGTGGACTTTGGGAAAAGAGATGCC
65 AAGTCGTGGACTTT-GAAAAAGAGATGCC
*
609065 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTAGAAAAGAGATTGCCACT
1 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGA-TGCCACT
*
609130 AAGTCGTGGACTTTGGGAAAAGAGATGCC
65 AAGTCGTGGACTTT-GAAAAAGAGATGCC
* * * * *
609159 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCATTAAGTCGTGGACCTAGAAAAAAGATGCCA-AA
1 ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTA
*
609223 GAGTCGTGGACTTTGAGAGAAGAGAT
66 -AGTCGTGGACTTTGA-AAAAGAGAT
609249 TTGAAGAATT
Statistics
Matches: 426, Mismatches: 29, Indels: 16
0.90 0.06 0.03
Matches are distributed among these distances:
91 48 0.11
92 63 0.15
93 77 0.18
94 238 0.56
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.23
Consensus pattern (92 bp):
ACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTA
AGTCGTGGACTTTGAAAAAGAGATGCC
Found at i:609940 original size:31 final size:28
Alignment explanation
Indices: 609897--609953 Score: 78
Period size: 31 Copynumber: 1.9 Consensus size: 28
609887 AAAGGCTTGC
*
609897 TTGACAATAAAGATGATATGGTTTGATTTAT
1 TTGACAAGAAAGAT-A-ATGGTTT-ATTTAT
609928 TTGACAAGAAAGATAATGGTTTATTT
1 TTGACAAGAAAGATAATGGTTTATTT
609954 CCAACAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 7 0.28
30 1 0.04
31 13 0.52
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (28 bp):
TTGACAAGAAAGATAATGGTTTATTTAT
Found at i:610264 original size:9 final size:9
Alignment explanation
Indices: 610250--610275 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
610240 TTTTGTTTTG
610250 TTTTTTCTT
1 TTTTTTCTT
610259 TTTTTTCTT
1 TTTTTTCTT
610268 TTTTTTCT
1 TTTTTTCT
610276 GGTGTAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:617582 original size:13 final size:13
Alignment explanation
Indices: 617564--617591 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
617554 ATACAAAGAT
617564 CAATGTATCGATA
1 CAATGTATCGATA
617577 CAATGTATCGATA
1 CAATGTATCGATA
617590 CA
1 CA
617592 TTTCCCTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Done.