Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold55
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: 4293517
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.26
Warning! 910309 characters in sequence are not A, C, G, or T
File 3 of 21
Found at i:331242 original size:13 final size:13
Alignment explanation
Indices: 331224--331261 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
331214 CATTTTTCTT
331224 TGTATCGATACAA
1 TGTATCGATACAA
*
331237 TGTATCGATACAC
1 TGTATCGATACAA
331250 TGTATCGATACA
1 TGTATCGATACA
331262 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:331416 original size:20 final size:20
Alignment explanation
Indices: 331373--331418 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
331363 AAATCTTTTG
331373 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
331394 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
331414 CAAAA
1 CAAAA
331419 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:333811 original size:19 final size:19
Alignment explanation
Indices: 333787--333851 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
333777 TAGCCAAACT
333787 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
333806 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
333819 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
333840 TGTATCGATACA
1 TGTATCGATACA
333852 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:333823 original size:13 final size:13
Alignment explanation
Indices: 333805--333830 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
333795 TACACAAAAT
333805 ATGTATCGATACA
1 ATGTATCGATACA
333818 ATGTATCGATACA
1 ATGTATCGATACA
333831 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:333828 original size:32 final size:33
Alignment explanation
Indices: 333787--333851 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
333777 TAGCCAAACT
333787 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
333819 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
333852 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:342932 original size:88 final size:88
Alignment explanation
Indices: 342834--343008 Score: 307
Period size: 88 Copynumber: 2.0 Consensus size: 88
342824 AGAAATATTA
*
342834 AATAAAATATGAATGTTAAATTTCATTTTTCAAAAAAATAAAGAAAGAAGACAATATTATCTTAT
1 AATAAAATATGAATGTTAAATTTCATTTTTCAAAAAAATAAAGAAAGAAAACAATATTATCTTAT
342899 AATTGATAAAC-ATCATTTGAAAT
66 AATTGATAAACAAT-ATTTGAAAT
* *
342922 AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGAAAGAAAACAATATTATCTTAT
1 AATAAAATATGAATGTTAAATTTCATTTTTCAAAAAAATAAAGAAAGAAAACAATATTATCTTAT
342987 AATTGATAAACAATATTTGAAA
66 AATTGATAAACAATATTTGAAA
343009 CAAATATCTA
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
88 81 0.98
89 2 0.02
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (88 bp):
AATAAAATATGAATGTTAAATTTCATTTTTCAAAAAAATAAAGAAAGAAAACAATATTATCTTAT
AATTGATAAACAATATTTGAAAT
Found at i:343547 original size:61 final size:61
Alignment explanation
Indices: 343452--344008 Score: 721
Period size: 61 Copynumber: 9.5 Consensus size: 61
343442 TGGGGACGAA
* *
343452 TTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCTCACACAAG
1 TTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
* * *
343513 TTGGTGGCACTTCCCAGTCCCCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
1 TTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
* * * *
343574 TTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTT-TTCTTTCAAAGCCCACACAAG
1 TTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
*
343634 TTGGTGGCACCTTTCC-GTCCCCAAAGAGCAGGA---C--C-CCTTTTAAAGCCCACACAAG
1 TTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
*
343689 TTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
1 TTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
* * *
343750 TTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTT-TTCTTTTAAAGCCCACACAAG
1 TTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
* * * *
343810 TTGGTGGCAC-CTCCAGTCCTCAAAGAGCGGGACGCCTT-TTCTTTCAAAGCCCACACAAG
1 TTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
* *
343869 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-AC--CT-C--TTAAAGCCCACACAAG
1 TTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
*
343924 TTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACGAG
1 TTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
**
343979 TTGGTGGCACTTTTTAGTCCTCAAAGAGCA
1 TTGGTGGCACTTTCCAGTCCTCAAAGAGCA
344009 AGATACACTT
Statistics
Matches: 447, Mismatches: 33, Indels: 38
0.86 0.06 0.07
Matches are distributed among these distances:
54 9 0.02
55 124 0.28
56 4 0.01
57 4 0.01
58 2 0.00
59 57 0.13
60 94 0.21
61 153 0.34
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (61 bp):
TTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG
Found at i:343752 original size:176 final size:177
Alignment explanation
Indices: 343452--344008 Score: 741
Period size: 176 Copynumber: 3.2 Consensus size: 177
343442 TGGGGACGAA
* *
343452 TTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCTCACACAAGTTG
1 TTGGTGGCACCTTTCC-GTCCTCAAAGAGCAGGACG----C-CCTTTTAAAGCCCACACAAGTTG
* *
343516 GTGGCACTTCCCAGTCCCCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
60 GTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
343581 CATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAG
125 CATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAG
*
343634 TTGGTGGCACCTTTCCGTCCCCAAAGAGCAGGAC-CCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTGGTGGCACCTTTCCGTCCTCAAAGAGCAGGACGCCCTTTTAAAGCCCACACAAGTTGGTGGCA
343698 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
66 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
*
343763 CCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAG
131 CCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAG
* *
343810 TTGGTGGCACC--TCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGG
1 TTGGTGGCACCTTTCC-GTCCTCAAAGAGCAGGACGCC----CTTTTAAAGCCCACACAAGTTGG
* * *
343873 TGGCATTTTCCAGTCCTCAAAGAGCAGGAC-AC--CT-C--TTAAAGCCCACACAAGTTGGTGGC
61 TGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
343932 ACCTTT-CAGTCCTCAAAGAGCAGGACG-C----CTTTCAAAGCCCACACGAG
126 A-TTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAG
* **
343979 TTGGTGGCACTTTTTAGTCCTCAAAGAGCA
1 TTGGTGGCACCTTTCCGTCCTCAAAGAGCA
344009 AGATACACTT
Statistics
Matches: 345, Mismatches: 20, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
169 27 0.08
170 13 0.04
171 1 0.00
173 1 0.00
174 48 0.14
175 19 0.06
176 151 0.44
177 3 0.01
179 1 0.00
180 50 0.14
182 26 0.08
183 5 0.01
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (177 bp):
TTGGTGGCACCTTTCCGTCCTCAAAGAGCAGGACGCCCTTTTAAAGCCCACACAAGTTGGTGGCA
CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
CCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAG
Found at i:344801 original size:20 final size:20
Alignment explanation
Indices: 344776--344830 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
344766 GCCAAGGAAA
*
344776 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTATCTG
** *
344796 TGTATCGATACATGGATCTT
1 TGTATCGATACATTTATCTG
344816 TGTATCGATACATTT
1 TGTATCGATACATTT
344831 GGAAATTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTATCTG
Found at i:347249 original size:53 final size:51
Alignment explanation
Indices: 347125--347518 Score: 192
Period size: 52 Copynumber: 7.6 Consensus size: 51
347115 TTGAGTTTCT
* * * *
347125 CAATTCTCCACAATCAGGGATATTCTAACTCCGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * *
347176 TAATT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATCAGGGATACTCCAACTCCGATTTTATTTCC--AAAACAC
* * **** * *
347229 CAATTTCTTCACAATC-GGGATACTCCAACCCCG-TTAATCATTGGGGATACTC
1 CAA-TTCTTCACAATCAGGGATACTCCAACTCCGATT--TTATTTCCAAAACAC
** ** * * * * *
347281 CAACCCCGTT-A-TTTCGGGAGGATACTCCAACCCCGACTTTATTT-CAAAATAT
1 CAA-TTC-TTCACAATC-AG-GGATACTCCAACTCCGATTTTATTTCCAAAACAC
** * * * * * * *
347333 TGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACAC
1 CAATTCTTCACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * * * * *
347384 TAATTTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAA-TTCTTCACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * *
347436 CAATT-TTCCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTCTTCAC---AATCAGGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
* *
347490 TAATTTTTCACAATC-GAGGATACTCCAAC
1 CAATTCTTCACAATCAG-GGATACTCCAAC
347519 CTCGTTATTA
Statistics
Matches: 264, Mismatches: 57, Indels: 43
0.73 0.16 0.12
Matches are distributed among these distances:
50 30 0.11
51 49 0.19
52 78 0.30
53 62 0.23
54 37 0.14
55 8 0.03
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTCTTCACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:347275 original size:27 final size:25
Alignment explanation
Indices: 347245--347315 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 25
347235 CTTCACAATC
347245 GGGATACTCCAACCCCGTTAATCATT-G
1 GGGATACTCCAACCCCGTT-AT--TTCG
347272 GGGATACTCCAACCCCGTTATTTCGG
1 GGGATACTCCAACCCCGTTATTTC-G
347298 GAGGATACTCCAACCCCG
1 G-GGATACTCCAACCCCG
347316 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
24 2 0.05
26 4 0.10
27 35 0.85
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (25 bp):
GGGATACTCCAACCCCGTTATTTCG
Found at i:347400 original size:52 final size:50
Alignment explanation
Indices: 347300--347519 Score: 219
Period size: 52 Copynumber: 4.3 Consensus size: 50
347290 TATTTCGGGA
* * * * *
347300 GGATACTCCAACCCCGACTTTATT-TCAAAATATTGATTTTTCATAATCGG
1 GGATACTCCAACCCCGATTTTATTCT-AAAACACTAATTTTTCACAATCGG
*
347350 GGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTTCACAATCGG
1 GGATACTCCAACCCCGATTTTATT-CTAAAACACTAA-TTTTTCACAATCGG
* * * *
347402 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAA-TTTTCCCTTTAATCGG
1 GGATACTCCAACCCCGATTTTATTCT-AAAACACTAATTTTTCAC---AATCGG
* * * *
347455 GGATACTCCAACTCCGATTTTATTTCCAAAAATACTAATTTTTCACAATCGA
1 GGATACTCCAACCCCGATTTTA-TT-CTAAAACACTAATTTTTCACAATCGG
347507 GGATACTCCAACC
1 GGATACTCCAACC
347520 TCGTTATTAC
Statistics
Matches: 142, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
50 28 0.20
51 8 0.06
52 64 0.45
53 26 0.18
54 10 0.07
55 6 0.04
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (50 bp):
GGATACTCCAACCCCGATTTTATTCTAAAACACTAATTTTTCACAATCGG
Found at i:347542 original size:28 final size:30
Alignment explanation
Indices: 347502--347578 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 30
347492 ATTTTTCACA
*
347502 ATCGAGGATACTCCAACCTCGTTA-TTAC-
1 ATCGGGGATACTCCAACCTCGTTACTTACG
*
347530 ATCGGGGATACTCCAACC-CTGTTACTTCCG
1 ATCGGGGATACTCCAACCTC-GTTACTTACG
347560 A--GGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
347579 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 1 0.02
28 37 0.86
29 4 0.09
30 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCTCGTTACTTACG
Found at i:347643 original size:107 final size:108
Alignment explanation
Indices: 347453--347652 Score: 253
Period size: 107 Copynumber: 1.9 Consensus size: 108
347443 CCCTTTAATC
* *
347453 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACTAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGACTTTATTTCCAAAAATACTAATTTCTCACAATCGAGGATACTCCAA
*
347518 CCTCGTTATTACATCGGGGATACTCCAACCCTGTTACTTCCGA
66 CCCCGTTATTACATCGGGGATACTCCAACCCTGTTACTTCCGA
* * * * * * *
347561 GGGGATACTCCAAC-CTCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCA
1 GGGGATACTCCAACTC-CGACTTTATTTCCAAAAATACTAATTTCTCACAATCGAGGATACTCCA
**
347624 ACCCCGTTATT-TTTGCGGGGATACTCCAA
65 ACCCCGTTATTACAT-CGGGGATACTCCAA
347653 TCCGATTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
106 1 0.01
107 57 0.73
108 20 0.26
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (108 bp):
GGGGATACTCCAACTCCGACTTTATTTCCAAAAATACTAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTACATCGGGGATACTCCAACCCTGTTACTTCCGA
Found at i:350177 original size:50 final size:50
Alignment explanation
Indices: 350119--350218 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
350109 AAATATCAAA
*
350119 ACAATTCTTTTAAGCCATTATTTAAGTAAATGATTGCAAAATTGAATGGC
1 ACAATTCTTTTAAGCCATTATGTAAGTAAATGATTGCAAAATTGAATGGC
* *
350169 ACAATTCTTTTAAGCCATTATGTCAGTAAATTATTGCAAAATTGAATGGC
1 ACAATTCTTTTAAGCCATTATGTAAGTAAATGATTGCAAAATTGAATGGC
350219 CTGGGTTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (50 bp):
ACAATTCTTTTAAGCCATTATGTAAGTAAATGATTGCAAAATTGAATGGC
Found at i:352253 original size:17 final size:16
Alignment explanation
Indices: 352231--352266 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
352221 GATCATATTG
352231 AACTAATATCAAGTCGA
1 AACTAATATCAAGTC-A
*
352248 AACTAATGTCAAGTCA
1 AACTAATATCAAGTCA
352264 AAC
1 AAC
352267 ATAGCTAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.22
Consensus pattern (16 bp):
AACTAATATCAAGTCA
Found at i:356457 original size:21 final size:19
Alignment explanation
Indices: 356433--356501 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 19
356423 CAAAAGCATG
356433 AAAAATGAAAAGAAAAACAA
1 AAAAATGAAAAGAAAAA-AA
356453 AAAAATGCAAAAGCAAAATAAA
1 AAAAATG-AAAAG-AAAA-AAA
*
356475 AAAAGA-GAACAA-AAATAAA
1 AAAA-ATGAA-AAGAAAAAAA
356494 AAAAATGA
1 AAAAATGA
356502 GGACATGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
18 1 0.02
19 9 0.21
20 10 0.24
21 7 0.17
22 13 0.31
23 2 0.05
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.07
Consensus pattern (19 bp):
AAAAATGAAAAGAAAAAAA
Found at i:356458 original size:20 final size:20
Alignment explanation
Indices: 356433--356497 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
356423 CAAAAGCATG
*
356433 AAAAATGAAAAGAAAAACAA
1 AAAAATGAAAAGAAAAATAA
*
356453 AAAAATGCAAAAGCAAAATAA
1 AAAAATG-AAAAGAAAAATAA
* *
356474 AAAAA-GAGAACAAAAATAA
1 AAAAATGAAAAGAAAAATAA
356493 AAAAA
1 AAAAA
356498 ATGAGGACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 15 0.38
20 8 0.21
21 16 0.41
ACGTcount: A:0.78, C:0.06, G:0.09, T:0.06
Consensus pattern (20 bp):
AAAAATGAAAAGAAAAATAA
Found at i:356757 original size:13 final size:13
Alignment explanation
Indices: 356739--356763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
356729 ACCTAATCCT
356739 AAAAAAAAAACCA
1 AAAAAAAAAACCA
356752 AAAAAAAAAACC
1 AAAAAAAAAACC
356764 TTTTCACCCC
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:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACCA
Found at i:361040 original size:21 final size:20
Alignment explanation
Indices: 360997--361048 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
360987 AGATTGCACA
**
360997 GTATCGATACATGACCAAAT
1 GTATCGATACATGAAAAAAT
*
361017 GTATCGATACTTGAAAAGAAT
1 GTATCGATACATGAAAA-AAT
*
361038 GTATTGATACA
1 GTATCGATACA
361049 GGTCATCGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGAAAAAAT
Found at i:361144 original size:33 final size:32
Alignment explanation
Indices: 361081--361148 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
361071 GTAGCCAAAT
*
361081 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
* * *
361113 TTGTATCTATACATCATAAAATGTATTGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
361146 TTG
1 TTG
361149 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 12 0.39
33 19 0.61
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:367265 original size:47 final size:50
Alignment explanation
Indices: 367176--367273 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 50
367166 AGGGTCAAAT
*
367176 TCTGGAAAAATTCCAGAATGTATCGATACAGGTTCAAATGTATCGATACA
1 TCTGGAAAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACA
**
367226 TCTGG-AAAATT-CAGAA-GTATCGATACAGCATTC-TCTGTATCGATACA
1 TCTGGAAAAATTCCAGAATGTATCGATACAG-ATTCAAATGTATCGATACA
367273 T
1 T
367274 TGTATCGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
47 25 0.57
48 8 0.18
49 6 0.14
50 5 0.11
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (50 bp):
TCTGGAAAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACA
Found at i:367279 original size:13 final size:13
Alignment explanation
Indices: 367261--367298 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
367251 CAGCATTCTC
*
367261 TGTATCGATACAT
1 TGTATCGATACAG
367274 TGTATCGATACAG
1 TGTATCGATACAG
*
367287 TGTCTCGATACA
1 TGTATCGATACA
367299 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:367466 original size:20 final size:20
Alignment explanation
Indices: 367431--367471 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
367421 CAAATTTTTT
367431 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
367453 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
367472 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:369186 original size:22 final size:22
Alignment explanation
Indices: 369160--369204 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
369150 CGAAATTGTT
369160 AAATTATTTT-ACTAAGGGGGAG
1 AAATT-TTTTGACTAAGGGGGAG
*
369182 AAATTTTTTGATTAAGGGGGAG
1 AAATTTTTTGACTAAGGGGGAG
369204 A
1 A
369205 GAAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (22 bp):
AAATTTTTTGACTAAGGGGGAG
Found at i:369312 original size:52 final size:52
Alignment explanation
Indices: 369234--369339 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
369224 TTGATATTTG
*
369234 AACCTTACTAATGTGTTTCTTGAAGCTATGGAAGTCAGATTATAGGTTAAGC
1 AACCTTACTAATGTGTTTCTTGAAGCTATGGAAGTCAGATTACAGGTTAAGC
369286 AACCTTACTAATGTGTTTCTTGAAGCTATGGAAGTCAGATTACAGGTTAAGC
1 AACCTTACTAATGTGTTTCTTGAAGCTATGGAAGTCAGATTACAGGTTAAGC
369338 AA
1 AA
369340 TATGTTGATA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (52 bp):
AACCTTACTAATGTGTTTCTTGAAGCTATGGAAGTCAGATTACAGGTTAAGC
Found at i:373039 original size:20 final size:20
Alignment explanation
Indices: 372992--373066 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
372982 AAAAAGATAT
372992 AATGTATCGATACATT-AAA
1 AATGTATCGATACATTCAAA
* *
373011 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCAAA
* *
373032 CATGTATCGATATA-TCGAAA
1 AATGTATCGATACATTC-AAA
373052 AATGTATCGATACAT
1 AATGTATCGATACAT
373067 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.05
20 40 0.91
21 2 0.05
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:373669 original size:33 final size:34
Alignment explanation
Indices: 373622--373692 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
373612 TTTTTTTTAA
*
373622 AAAAAAAATGTGCCACTAACTTGTGTAGGCTTCG
1 AAAAAAAATGTGCCACTAACATGTGTAGGCTTCG
* * * *
373656 AAAAAAAGT-TGCCACTCACATGTGTGGGCTTTG
1 AAAAAAAATGTGCCACTAACATGTGTAGGCTTCG
373689 AAAA
1 AAAA
373693 GAGTGTTACT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 24 0.75
34 8 0.25
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (34 bp):
AAAAAAAATGTGCCACTAACATGTGTAGGCTTCG
Found at i:373779 original size:28 final size:28
Alignment explanation
Indices: 373659--375094 Score: 1569
Period size: 28 Copynumber: 50.1 Consensus size: 28
373649 GGCTTCGAAA
* *
373659 AAAAGTTGCCACTCACATGTGTGGGCTTTG
1 AAAAGGTGCCACTGAC-T-TGTGGGCTTTG
**
373689 AAAAGAGTGTTACTGACTTGCGTGGGCTTT-
1 AAAAG-GTGCCACTGACTT--GTGGGCTTTG
*
373719 AAAAGGGTGCCACTAACTTGCGTGGGCTTTG
1 AAAA-GGTGCCACTGACTT--GTGGGCTTTG
*
373750 AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
373778 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
373806 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
373834 AAAAAGGTGCCACTGACTCGTGGGCTTTG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTG
373863 AAAAGGTGCCACTGACTTGCGTGGGCTTT-
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
*
373892 AAAAGGGTGCCACTAACTTGCATGGGCTTTG
1 AAAA-GGTGCCACTGACTTG--TGGGCTTTG
*
373923 AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
373951 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
373979 AAAAAGGTGCCACTGACTCGTGGGCTTTG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTG
374008 AAAAGGTGCCACTGACTTGCGTGGGCTTT-
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
*
374037 AAAAGGGTGCCACTAACTTGCGTGGGCTTTG
1 AAAA-GGTGCCACTGACTT--GTGGGCTTTG
*
374068 AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
374096 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
374124 AAAAGGTGCCACTGACTCGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
374151 AAAGGGTGCCACTGACTCGTGGGCTTT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
374178 AAAAGGAGTGCCATTGACTTTTGTGGGCTTTG
1 AAAA-G-GTGCCACTGAC--TTGTGGGCTTTG
*
374210 AAAGGGTGCCACTGACTTGTGGGCTTT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * * *
374237 AAAAGAGTGCGACTAAATTGTGGGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * * *
374266 CAAGGGTGCCACTGACTTGTGTGCTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
374294 AAAGGGTGCCACTGACTTGTGGGCTCT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
374321 AAAAGGAGTGTCACTGACTTGTGTGGGCTTTG
1 AAAA-G-GTGCCACTGAC-T-TGTGGGCTTTG
* *
374353 AAAGGGTGCCACTGACTTGTTGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
374381 -AAAGAGTGCCACTGAATTGTGAGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * *
374409 CAAGGGTGCCACTGACTTGTGGGCTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
374437 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * * *
374465 -AAAGAGTGCCATTGAATTATGGGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
374493 CAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
374521 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
374549 AAAAGGTGCCACTGACTCGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
374577 AAAAGGTGCCACTGACTTGCGTGGGCTTT-
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
374606 AAAAGAAGTGCCACTGACTTGTGTGGGCTTTG
1 AAAAG--GTGCCACTGAC-T-TGTGGGCTTTG
* *
374638 AAAGGGTGCCACTGACTTGTGGGCTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
374666 AAAGGGTGCCACTGACTTGTGGGCTCT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
374693 AAAAGGAGTGCCACTGACTTGTGTGGGCTTTG
1 AAAA-G-GTGCCACTGAC-T-TGTGGGCTTTG
*
374725 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
**
374753 AATGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
374781 -AAAGAGTGCCACTGAATTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * * *
374809 CAAGGGTGCCACTAACTTGTGGGCTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * * *
374837 CAAGGGTGCCACTAACTTGTGGGCTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
374865 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
374893 -AAAGAGTGCCACTGAATTGTGGGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * *
374921 CAAGGGTGCCACTGACTTGTGGGCTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
374949 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
374977 AAATGGTGCAACTGACTTGTGGGCTTT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
375004 AAAAGGAGTGCCACTGATTTGTGGGCTTTG
1 AAAA-G-GTGCCACTGACTTGTGGGCTTTG
*
375034 AAAAGAGTGCCACTGTCTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
375063 AAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
375092 AAA
1 AAA
375095 GGGATGAACA
Statistics
Matches: 1236, Mismatches: 109, Indels: 123
0.84 0.07 0.08
Matches are distributed among these distances:
27 68 0.06
28 687 0.56
29 190 0.15
30 196 0.16
31 80 0.06
32 14 0.01
33 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.27
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:376333 original size:1 final size:1
Alignment explanation
Indices: 376329--376389 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
376319 TTTTTTGCTA
* * * * * ** *
376329 TTTTTTCTTTTTTTTTTGTTTTTTTGTTTTGTTTTTGTTTTGCTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
376390 AGTGTAAAGG
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:376344 original size:20 final size:18
Alignment explanation
Indices: 376313--376387 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 18
376303 ATCTAGACCC
*
376313 TTCTATTTTTTTGCTATTTT
1 TTCTTTTTTTTTG-T-TTTT
376333 TTCTTTTTTTTTTGTTTTT
1 TTC-TTTTTTTTTGTTTTT
*
376352 TTGTTTTGTTTTTG--TTT
1 TTCTTTT-TTTTTGTTTTT
*
376369 TGC-TTTTTTTTGTTTTT
1 TTCTTTTTTTTTGTTTTT
376386 TT
1 TT
376388 TTAGTGTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
15 6 0.13
16 3 0.07
17 8 0.17
18 4 0.09
19 12 0.26
20 4 0.09
21 9 0.20
ACGTcount: A:0.03, C:0.05, G:0.09, T:0.83
Consensus pattern (18 bp):
TTCTTTTTTTTTGTTTTT
Found at i:378649 original size:15 final size:16
Alignment explanation
Indices: 378623--378652 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
378613 TTAAAAGACG
378623 ACCAAGCACTGGCGGT
1 ACCAAGCACTGGCGGT
378639 ACCAA-CACTGGCGG
1 ACCAAGCACTGGCGG
378653 GTTTGACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.33, G:0.30, T:0.10
Consensus pattern (16 bp):
ACCAAGCACTGGCGGT
Found at i:390227 original size:13 final size:13
Alignment explanation
Indices: 390209--390234 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
390199 CAATTTTTTG
390209 TGTATCGATACAT
1 TGTATCGATACAT
390222 TGTATCGATACAT
1 TGTATCGATACAT
390235 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:390299 original size:21 final size:20
Alignment explanation
Indices: 390273--390349 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 20
390263 CTGCCAAGAA
390273 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TTTTTT
*****
390294 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTTTTTT
390314 ATGTATCGATACATTTTTTT
1 ATGTATCGATACATTTTTTT
390334 CATGTATCGATACATT
1 -ATGTATCGATACATT
390350 GCAACATGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTT
Found at i:390319 original size:20 final size:20
Alignment explanation
Indices: 390294--390366 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
390284 CATCTTTTTT
390294 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
390314 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
390335 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
390355 ATGTATCGATAC
1 ATGTATCGATAC
390367 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:390333 original size:41 final size:41
Alignment explanation
Indices: 390273--390366 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
390263 CTGCCAAGAA
*
390273 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
390314 ATGTATCGATACATTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
390355 ATGTATCGATAC
1 ATGTATCGATAC
390367 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:390976 original size:48 final size:48
Alignment explanation
Indices: 390921--391016 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
390911 AAATTTTACG
390921 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
390969 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
391017 TTATCTCCCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.38
Consensus pattern (48 bp):
AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
Found at i:392874 original size:13 final size:13
Alignment explanation
Indices: 392856--392893 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
392846 ATAAACACCC
392856 TGTATCGATACAG
1 TGTATCGATACAG
*
392869 TGTATCGATACAT
1 TGTATCGATACAG
392882 TGTATCGATACA
1 TGTATCGATACA
392894 AATAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:394993 original size:15 final size:15
Alignment explanation
Indices: 394973--395003 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
394963 ATTTCGTTTG
*
394973 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
394988 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
395003 G
1 G
395004 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:399083 original size:13 final size:13
Alignment explanation
Indices: 399065--399090 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
399055 CAATTTTTTG
399065 TGTATCGATACAT
1 TGTATCGATACAT
399078 TGTATCGATACAT
1 TGTATCGATACAT
399091 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:399155 original size:21 final size:20
Alignment explanation
Indices: 399129--399205 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 20
399119 CTGCCAAGAA
399129 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TTTTTT
*****
399150 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTTTTTT
399170 ATGTATCGATACATTTTTTT
1 ATGTATCGATACATTTTTTT
399190 CATGTATCGATACATT
1 -ATGTATCGATACATT
399206 GCAACATGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTT
Found at i:399175 original size:20 final size:20
Alignment explanation
Indices: 399150--399222 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
399140 CATCTTTTTT
399150 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
399170 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
399191 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
399211 ATGTATCGATAC
1 ATGTATCGATAC
399223 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:399189 original size:41 final size:41
Alignment explanation
Indices: 399129--399222 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
399119 CTGCCAAGAA
*
399129 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
399170 ATGTATCGATACATTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
399211 ATGTATCGATAC
1 ATGTATCGATAC
399223 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:400449 original size:20 final size:21
Alignment explanation
Indices: 400402--400476 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
400392 AAAAAGATAT
400402 AATGTATCGATACATT--AAA
1 AATGTATCGATACATTCGAAA
** *
400421 GAAAATATCGATACATTC-ATA
1 -AATGTATCGATACATTCGAAA
* *
400442 CATGTATCGATATA-TCGAAA
1 AATGTATCGATACATTCGAAA
400462 AATGTATCGATACAT
1 AATGTATCGATACAT
400477 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
19 2 0.05
20 38 0.90
21 2 0.05
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACATTCGAAA
Found at i:405254 original size:27 final size:27
Alignment explanation
Indices: 405209--405835 Score: 520
Period size: 27 Copynumber: 22.7 Consensus size: 27
405199 GGCCTCCTCA
* * * *
405209 AAGTCCACGATTCAGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
405236 AAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * * *
405263 AACTCTACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
405290 AAAGTCCACAACTCCGTGGCATCGTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
405318 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * * * **
405345 AAAGTCCACAAGTCAGTAGAACCCTTCCA
1 -AAGTCCACAACTCCGTGGCACCCTT-TT
* ** *
405374 AAGTCCACAAGTCAATGGTACCCCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCC-TTTT
* * ** **
405403 AAGCCCACAAGTCAATGGCACCCTTCCG
1 AAGTCCACAACTCCGTGGCACCCTT-TT
* * * * * * *
405431 AAGCCCACAAGTCAGTTGAATCCATTTCA
1 AAGTCCACAACTCCGTGGCA-CCCTTT-T
* * **
405460 AAG-CCTACAAGTCAGTGGCATCTTTTTT
1 AAGTCC-ACAACTCCGTGGCA-CCCTTTT
* * **
405488 AAGCCCACAAGTCAATGGCACCCCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCC-TTTT
* * * *
405517 AAGCCCACAAGTCCGTGGCGCCCTTTA
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
405544 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
405571 AAGTCCCCAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
405598 AAGTCCACAACTTCGTGGCACCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
405625 AGGTCCACAACTTCGTGGCACCCTTTTT
1 AAGTCCACAACTCCGTGGCACCC-TTTT
405653 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
405680 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * ** *
405707 AAAGTCTACCACTCTATGGGACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
405735 AGGTCCACAACTCCGTGGCA-CCTATTT
1 AAGTCCACAACTCCGTGGCACCCT-TTT
* *
405762 AAGTCCATAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
405789 AAGTCCACAACTCCATGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
405816 AAGTCCACAAGTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
405836 ACATTTCAAA
Statistics
Matches: 503, Mismatches: 82, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.01
27 278 0.55
28 152 0.30
29 68 0.14
30 2 0.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:405309 original size:28 final size:28
Alignment explanation
Indices: 405208--406058 Score: 505
Period size: 28 Copynumber: 30.8 Consensus size: 28
405198 TGGCCTCCTC
* * * *
405208 AAAGTCCACGATTCAGTGGCATCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * *
405236 -AAGTCCACAACTCCATGGCATCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * * * *
405263 -AACTCTACAACTCTGTGGCATCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * *
405290 AAAGTCCACAACTCCGTGGCATCGTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* *
405318 -AAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * * **
405345 AAAGTCCACAAGTCAGTAGAACCCTTCC
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
** *
405373 AAAGTCCACAAGTCAATGGTACCCCTTTT
1 AAAGTCCACAAGTCCGTGGCA-CCCTTTT
* * ** **
405402 TAAGCCCACAAGTCAATGGCACCCTTCC
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * * * * * *
405430 GAAGCCCACAAGTCAGTTGAATCCATTTC
1 AAAGTCCACAAGTCCGTGGCA-CCCTTTT
* * *
405459 AAAG-CCTACAAGTCAGTGGCATCTTTTT
1 AAAGTCC-ACAAGTCCGTGGCACCCTTTT
* * **
405487 TAAGCCCACAAGTCAATGGCACCCCTTTT
1 AAAGTCCACAAGTCCGTGGCA-CCCTTTT
* * *
405516 TAAGCCCACAAGTCCGTGGCGCCC-TTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* *
405543 AAAGTCCACAACTCTGTGGCACCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* *
405571 -AAGTCCCCAACTCCGTGGCACCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* *
405598 -AAGTCCACAACTTCGTGGCA-CCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * * *
405624 TAGGTCCACAACTTCGTGGCACCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* *
405652 TAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
*
405680 -AAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * * ** *
405707 AAAGTCTACCACTCTATGGGACCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* *
405735 -AGGTCCACAACTCCGTGGCA-CCTATTT
1 AAAGTCCACAAGTCCGTGGCACCCT-TTT
* * *
405762 -AAGTCCATAACTCTGTGGCACCCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* *
405789 -AAGTCCACAACTCCATGGCACCC-TTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * *
405815 AAAGTCCACAAGTCCGTGGCAACATTTC
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * * *
405843 AAAGCCCACAA-TCAGTGGCACCATTTC
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * * *
405870 AAAGCCCACAAGTCAGTGGCACCATTTC
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * * * * *
405898 AAAGCCCATAAGTCAC-TGGTATCATTTC
1 AAAGTCCACAAGTC-CGTGGCACCCTTTT
* * *
405926 AAAGCCCACAAGTCGGTGGCA-GCTTTT
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * * *
405953 CAAAG-CCTACAAGTCAGTGGCATCATTTC
1 -AAAGTCC-ACAAGTCCGTGGCACCCTTTT
** * * * *
405982 AAAACCCACAAGTCAGTGGTATCCTTTC
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* * * * *
406010 AAAGCCCACAAGTCCATGGCATCATTTC
1 AAAGTCCACAAGTCCGTGGCACCCTTTT
* *
406038 AAAGCCCACAAGTCGGTGGCA
1 AAAGTCCACAAGTCCGTGGCA
406059 ACTCATTTCA
Statistics
Matches: 691, Mismatches: 110, Indels: 44
0.82 0.13 0.05
Matches are distributed among these distances:
26 12 0.02
27 289 0.42
28 317 0.46
29 73 0.11
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
AAAGTCCACAAGTCCGTGGCACCCTTTT
Found at i:405310 original size:55 final size:54
Alignment explanation
Indices: 405209--405835 Score: 522
Period size: 55 Copynumber: 11.4 Consensus size: 54
405199 GGCCTCCTCA
* * * * * *
405209 AAGTCCACGATTCAGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * * * *
405263 AACTCTACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT
* * * * * * **
405318 AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAAGTCAGTAGAACCCTTCCA
1 AAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTT-TT
* ** * * * ** **
405374 AAGTCCACAAGTCAATGGTACCCCTTTTTAAGCCCACAAGTCAATGGCACCCTTCCG
1 AAGTCCACAACTCTGTGGCA-CCC-TTTTAAGTCCACAACTCCGTGGCACCCTT-TT
* * * * * * * * * **
405431 AAGCCCACAAGTCAGTTGAATCCATTTCAAAG-CCTACAAGTCAGTGGCATCTTTTTT
1 AAGTCCACAACTCTGTGGCA-CCCTTT-TAAGTCC-ACAACTCCGTGGCA-CCCTTTT
* * ** * * * *
405488 AAGCCCACAAGTCAATGGCACCCCTTTTTAAGCCCACAAGTCCGTGGCGCCCTTTA
1 AAGTCCACAACTCTGTGGCA-CCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
405544 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCCCAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * *
405598 AAGTCCACAACT-TCGTGGCACCTTTTTAGGTCCACAACTTCGTGGCACCCTTTTT
1 AAGTCCACAACTCT-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTT
*
405653 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * * * *
405707 AAAGTCTACCACTCTATGGGACCCTTTTAGGTCCACAACTCCGTGGCA-CCTATTT
1 -AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCT-TTT
* * *
405762 AAGTCCATAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTA
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
405816 AAGTCCACAAGTCCGTGGCA
1 AAGTCCACAACTCTGTGGCA
405836 ACATTTCAAA
Statistics
Matches: 473, Mismatches: 85, Indels: 30
0.80 0.14 0.05
Matches are distributed among these distances:
53 1 0.00
54 158 0.33
55 168 0.36
56 41 0.09
57 93 0.20
58 12 0.03
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (54 bp):
AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:405345 original size:82 final size:82
Alignment explanation
Indices: 405208--405892 Score: 562
Period size: 82 Copynumber: 8.3 Consensus size: 82
405198 TGGCCTCCTC
* * * * * * *
405208 AAAGTCCACGATTCAGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAACTCTACAA
1 AAAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
405273 CTCTGTGGCATCCTTTT
66 CTCTGTGGCACCCTTTT
* * * *
405290 AAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACA
1 AAAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACA
* * * * **
405355 AGTCAGTAGAACCCTTCC
65 ACTCTGTGGCACCCTTTT
* * * * * ** ** *
405373 AAAGTCCACAAGTCAATGGTACCCCTTTTTAAGCCCACAAGTCAATGGCACCCTTCCGAAGCCCA
1 AAAGTCCACAACTCAGTGGCA-CCC-TTTTAAGTCCACAACTCCGTGGCACCCTT-TTAAGTCCA
* * * * * *
405438 CAAGTCAGTTGAATCCATTTC
63 CAACTCTGTGGCA-CCCTTTT
* ** * * ** *
405459 AAAG-CCTACAAGTCAGTGGCATCTTTTTTAAGCCCACAAGTCAATGGCACCCCTTTTTAAGCCC
1 AAAGTCC-ACAACTCAGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CCC-TTTTAAGTCC
* * *
405523 ACAAGTCCGTGGCGCCC-TTT
62 ACAACTCTGTGGCACCCTTTT
* *
405543 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCCCAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
405608 CT-TCGTGGCA-CCTTTT
66 CTCT-GTGGCACCCTTTT
* *
405624 TAGGTCCACAACTTC-GTGGCACCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCAC
1 AAAGTCCACAAC-TCAGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCAC
*
405688 AACTCCGTGGCACCCTTTT
64 AACTCTGTGGCACCCTTTT
* * * * *
405707 AAAGTCTACCACTCTA-TGGGACCCTTTTAGGTCCACAACTCCGTGGCA-CCTATTTAAGTCCAT
1 AAAGTCCACAACTC-AGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCT-TTTAAGTCCAC
405770 AACTCTGTGGCACCCTTTT
64 AACTCTGTGGCACCCTTTT
* * * * * *
405789 -AAGTCCACAACTCCA-TGGCACCCTTTAAAGTCCACAAGTCCGTGGCAACATTTCAAAGCCCAC
1 AAAGTCCACAACT-CAGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCAC
* * *
405852 AA-TCAGTGGCACCATTTC
64 AACTCTGTGGCACCCTTTT
* *
405870 AAAGCCCACAAGTCAGTGGCACC
1 AAAGTCCACAACTCAGTGGCACC
405893 ATTTCAAAGC
Statistics
Matches: 496, Mismatches: 84, Indels: 46
0.79 0.13 0.07
Matches are distributed among these distances:
80 2 0.00
81 100 0.20
82 184 0.37
83 76 0.15
84 19 0.04
85 72 0.15
86 41 0.08
87 2 0.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (82 bp):
AAAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
CTCTGTGGCACCCTTTT
Found at i:405411 original size:57 final size:57
Alignment explanation
Indices: 405339--405541 Score: 199
Period size: 57 Copynumber: 3.6 Consensus size: 57
405329 TCCGTGGCAT
* * * * *
405339 CCTTTTAAAGTCCACAAGTCAGTAGAACCCTTCCAAAGTCCACAAGTCAATGGTACC
1 CCTTTTAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAATGGAACC
* * * * * *
405396 CCTTTTTAAGCCCACAAGTCAATGGCACCCTTCCGAAGCCCACAAGTCAGTTGAATC
1 CCTTTTAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAATGGAACC
* * * * * *** *
405453 CATTTCAAAGCCTACAAGTCAGTGGCATCTTTTTTAAGCCCACAAGTCAATGGCACC
1 CCTTTTAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAATGGAACC
* * *
405510 CCTTTTTAAGCCCACAAGTCCGTGGCGCCCTT
1 CCTTTTAAAGCCCACAAGTCAGTGGCACCCTT
405542 TAAAGTCCAC
Statistics
Matches: 113, Mismatches: 33, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
57 113 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.25
Consensus pattern (57 bp):
CCTTTTAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAATGGAACC
Found at i:405422 original size:85 final size:85
Alignment explanation
Indices: 405314--405529 Score: 238
Period size: 85 Copynumber: 2.5 Consensus size: 85
405304 CGTGGCATCG
* * ** * * *
405314 TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAAGTCAGTAGAA-CCCTTCCAAAGT
1 TTTTAAGCCCACAAGTCAATGGCACCCTTTTAAAGCCCACAAGTCAGTAGAATCCATTCCAAAG-
*
405378 CC-ACAAGTCAATGGTACCCCT
65 CCTACAAGTCAATGGCA-CCCT
*** * *
405399 TTTTAAGCCCACAAGTCAATGGCACCCTTCCGAAGCCCACAAGTCAGTTGAATCCATTTCAAAGC
1 TTTTAAGCCCACAAGTCAATGGCACCCTTTTAAAGCCCACAAGTCAGTAGAATCCATTCCAAAGC
* * *
405464 CTACAAGTCAGTGGCATCTT
66 CTACAAGTCAATGGCACCCT
*
405484 TTTTAAGCCCACAAGTCAATGGCACCCCTTTTTAAGCCCACAAGTC
1 TTTTAAGCCCACAAGTCAATGGCA-CCCTTTTAAAGCCCACAAGTC
405530 CGTGGCGCCC
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
85 70 0.64
86 39 0.36
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (85 bp):
TTTTAAGCCCACAAGTCAATGGCACCCTTTTAAAGCCCACAAGTCAGTAGAATCCATTCCAAAGC
CTACAAGTCAATGGCACCCT
Found at i:405852 original size:109 final size:108
Alignment explanation
Indices: 405209--405892 Score: 455
Period size: 109 Copynumber: 6.2 Consensus size: 108
405199 GGCCTCCTCA
* * * * * * * * *
405209 AAGTCCACGATTCAGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAACTCTACAAC
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAAC
* * * *
405274 TCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCGT-TTT
66 TCCGTGGCAACCTTTT-AAGCCCACAACTCCGTGGCA-CCTATTT
* * * * * * *
405318 AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAAGTCAGTAGAACCCTTCCAAAGTCCACA
1 AAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTT-TAAAGTCCACA
* ** * * * ** **
405383 AGTCAATGGTACCCCTTTTTAAGCCCACAAGTCAATGGCACCCT-TCCG
64 ACTCCGTGGCA-ACC-TTTTAAGCCCACAACTCCGTGGCA-CCTAT-TT
* * * * * * * * * ** * *
405431 AAGCCCACAAGTCAGTTGAATCCATTTCAAAG-CCTACAAGTCAGTGGCATCTTTTTTAAGCCCA
1 AAGTCCACAACTCTGTGGCA-CCCTTT-TAAGTCC-ACAACTCCGTGGCA-CCCTTTAAAGTCCA
* ** * * * *
405495 CAAGTCAATGGCACCCCTTTTTAAGCCCACAAGTCCGTGGCGCCCT-TTA
62 CAACTCCGTGGCA-ACC-TTTTAAGCCCACAACTCCGTGGC-ACCTATTT
* *
405544 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCCCAACTCCGTGGCACCCTTTTAAGTCCACAAC
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAAC
* * * * *
405609 TTCGTGGC-ACCTTTTTAGGTCCACAACTTCGTGGCACCCTTTTT
66 TCCGTGGCAACC-TTTTAAGCCCACAACTCCGTGGCA-CCTATTT
* * *
405653 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCTACCA
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTAAAGTCCACAA
** * * * *
405718 CTCTATGGGACCCTTTTAGGTCCACAACTCCGTGGCACCTATTT
65 CTCCGTGGCAACCTTTTAAGCCCACAACTCCGTGGCACCTATTT
* * *
405762 AAGTCCATAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTAAAGTCCACAAG
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAAC
* * *
405827 TCCGTGGCAACATTTCAAAGCCCACAA-TCAGTGGCACC-ATTT
66 TCCGTGGCAACCTTT-TAAGCCCACAACTCCGTGGCACCTATTT
* * *
405869 CAAAGCCCACAAGTCAGTGGCACC
1 --AAGTCCACAACTCTGTGGCACC
405893 ATTTCAAAGC
Statistics
Matches: 455, Mismatches: 102, Indels: 36
0.77 0.17 0.06
Matches are distributed among these distances:
107 4 0.01
108 57 0.13
109 153 0.34
110 77 0.17
111 30 0.07
112 28 0.06
113 36 0.08
114 67 0.15
115 3 0.01
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (108 bp):
AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAAC
TCCGTGGCAACCTTTTAAGCCCACAACTCCGTGGCACCTATTT
Found at i:406088 original size:32 final size:30
Alignment explanation
Indices: 405815--406211 Score: 326
Period size: 28 Copynumber: 13.5 Consensus size: 30
405805 GGCACCCTTT
* *
405815 AAAGTCCACAAGTCCGTGGCAA--CATTTC
1 AAAGCCCACAAGTCGGTGGCAACTCATTTC
*
405843 AAAGCCCACAA-TCAGTGGC-AC-CATTTC
1 AAAGCCCACAAGTCGGTGGCAACTCATTTC
*
405870 AAAGCCCACAAGTCAGTGGC-AC-CATTTC
1 AAAGCCCACAAGTCGGTGGCAACTCATTTC
* ** *
405898 AAAGCCCATAAGTCACTGG-TA-TCATTTC
1 AAAGCCCACAAGTCGGTGGCAACTCATTTC
*
405926 AAAGCCCACAAGTCGGTGGCAGCT--TTTC
1 AAAGCCCACAAGTCGGTGGCAACTCATTTC
* *
405954 AAAGCCTACAAGTCAGTGGC-A-TCATTTC
1 AAAGCCCACAAGTCGGTGGCAACTCATTTC
* * * *
405982 AAAACCCACAAGTCAGTGG-TA-TCCTTTC
1 AAAGCCCACAAGTCGGTGGCAACTCATTTC
**
406010 AAAGCCCACAAGTCCATGGC-A-TCATTTC
1 AAAGCCCACAAGTCGGTGGCAACTCATTTC
406038 AAAGCCCACAAGTCGGTGGCAACTCATTTC
1 AAAGCCCACAAGTCGGTGGCAACTCATTTC
* *
406068 AAAGCCTACACAAGTTGGTGGCAACTCATTTG
1 AAAGCC--CACAAGTCGGTGGCAACTCATTTC
* *
406100 AAAGCCCACACAAGTCGGTAGCAACCCATTTC
1 AAAG-CC-CACAAGTCGGTGGCAACTCATTTC
* * *
406132 AAAGCCTACACAAGTCGGTGGTAACCCTTTTC
1 AAAGCC--CACAAGTCGGTGGCAACTCATTTC
* * *
406164 AAAGCCCGCACAAGTTGGTGGGAACCTC-TCTC
1 AAAG-CC-CACAAGTCGGTGGCAA-CTCATTTC
406196 AAAGCTCGCACAAGTC
1 AAAGC-C-CACAAGTC
406212 AATGGGAACC
Statistics
Matches: 314, Mismatches: 36, Indels: 34
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.01
27 24 0.08
28 157 0.50
29 1 0.00
30 14 0.04
31 3 0.01
32 107 0.34
33 6 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (30 bp):
AAAGCCCACAAGTCGGTGGCAACTCATTTC
Found at i:406200 original size:96 final size:94
Alignment explanation
Indices: 406032--406211 Score: 236
Period size: 96 Copynumber: 1.9 Consensus size: 94
406022 TCCATGGCAT
* *
406032 CATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCTACACAAGTTGGTGGCAACTCAT
1 CATTTCAAAGCCCACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACTCAT
* *
406097 TTGAAAGCCCACACAAGTCGGTAGCAACC
66 CTCAAAGCCCACACAAGTCGGTAGCAACC
* * * *
406126 CATTTCAAAGCCTACACAAGTCGGTGGTAACCCTTTTCAAAGCCCGCACAAGTTGGTGGGAACCT
1 CATTTCAAAGCC--CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAA-CT
* *
406191 C-TCTCAAAGCTCGCACAAGTC
63 CATCTCAAAGCCCACACAAGTC
406212 AATGGGAACC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
94 12 0.16
96 58 0.79
97 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (94 bp):
CATTTCAAAGCCCACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACTCAT
CTCAAAGCCCACACAAGTCGGTAGCAACC
Found at i:406222 original size:96 final size:94
Alignment explanation
Indices: 406032--406247 Score: 229
Period size: 96 Copynumber: 2.3 Consensus size: 94
406022 TCCATGGCAT
* *
406032 CATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCTACACAAGTTGGTGGCAACTCAT
1 CATTTCAAAGCCCACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACTCAT
* * **
406097 TTGAAAGCCCACACAAGTCGGTAGCAACC
66 CTCAAAGCCCACACAAGTCAATAGCAACC
* * * *
406126 CATTTCAAAGCCTACACAAGTCGGTGGTAACCCTTTTCAAAGCCCGCACAAGTTGGTGGGAACCT
1 CATTTCAAAGCC--CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAA-CT
* * * *
406191 C-TCTCAAAGCTCGCACAAGTCAATGGGAACC
63 CATCTCAAAGCCCACACAAGTCAATAGCAACC
* * * *
406222 C-TTTTAAAGGCCACACGTTGGTGGCA
1 CATTTCAAAGCCCACAAGTCGGTGGCA
406248 TCATTTTTCA
Statistics
Matches: 100, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
93 12 0.12
94 12 0.12
95 8 0.08
96 65 0.65
97 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (94 bp):
CATTTCAAAGCCCACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACTCAT
CTCAAAGCCCACACAAGTCAATAGCAACC
Found at i:408782 original size:14 final size:14
Alignment explanation
Indices: 408763--408792 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
408753 CATGTCAAGG
408763 CACAAATACTTTTA
1 CACAAATACTTTTA
408777 CACAAATACTTTTA
1 CACAAATACTTTTA
408791 CA
1 CA
408793 TCTTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (14 bp):
CACAAATACTTTTA
Found at i:410743 original size:87 final size:88
Alignment explanation
Indices: 410607--410771 Score: 226
Period size: 87 Copynumber: 1.9 Consensus size: 88
410597 AACGAGGTTG
** * * * *
410607 AAGTATCCTTTCAGAATAATGGGGATCGAAGTTTCCCCAAAGGTAAAATTATATGAAGGAAAGTT
1 AAGTATCCCCTCAAAATAATGGGGATCGAAGTTTCCCCAAAGATAAAATTATATGAAAGAAAATT
*
410672 TGAAATTTTGTTAGAACGGAGTA
66 TAAAATTTTGTTAGAACGGAGTA
* *
410695 AAGTATCCCCTCAAAATAGTGGGGAT-GGAGTTTCCCC-AAGAATAAAATTATATGAAAGAAAAT
1 AAGTATCCCCTCAAAATAATGGGGATCGAAGTTTCCCCAAAG-ATAAAATTATATGAAAGAAAAT
410758 TTAAAATTTTGTTA
65 TTAAAATTTTGTTA
410772 AAAGAGGGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
86 3 0.04
87 42 0.63
88 22 0.33
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (88 bp):
AAGTATCCCCTCAAAATAATGGGGATCGAAGTTTCCCCAAAGATAAAATTATATGAAAGAAAATT
TAAAATTTTGTTAGAACGGAGTA
Found at i:410905 original size:88 final size:87
Alignment explanation
Indices: 410636--410965 Score: 242
Period size: 88 Copynumber: 3.8 Consensus size: 87
410626 TGGGGATCGA
* * * * * * **
410636 AGTTTCCCCAAAGGTAAAATTATATGAAGGAAAGTTTGAAATTTTGTTAGAA-CGGAG-TAAAGT
1 AGTTTCCCCAAAGATAAAATTATA-GAAAGAAAATTTAAAATTTTGTTAAAATAGG-GTTGGAGT
* * ***
410699 ATCCCCTCA-AAATAGTGGGGATGG
64 AT-CCCTTAGAAAAAGTGACAATGG
* *
410723 AGTTTCCCC-AAGAATAAAATTATATGAAAGAAAATTTAAAATTTTGTTAAAAGAGGGATGGAGT
1 AGTTTCCCCAAAG-ATAAAATTATA-GAAAGAAAATTTAAAATTTTGTTAAAATAGGGTTGGAGT
*
410787 ATCCCTTGGAAAAAGTGACAATGG
64 ATCCCTTAGAAAAAGTGACAATGG
** *
410811 AGTTTCCTTAAAGATAGAATTATACGAAAGAAAATTTAAAATTTTGTTAAAATAGGGTTGGAGTA
1 AGTTTCCCCAAAGATAAAATTATA-GAAAGAAAATTTAAAATTTTGTTAAAATAGGGTTGGAGTA
* * **
410876 TCCTTTCAG-AATAGT-AGGGATGG
65 TCCCTT-AGAAAAAGTGA-CAATGG
** * * * * * *
410899 CA-TTTCCCCATGGATAAAATTATATAAAGAAGAATTTGAAATCTTGTTAGAATGGGGTTAGAGT
1 -AGTTTCCCCAAAGATAAAATTATAGAAAGAA-AATTTAAAATTTTGTTAAAATAGGGTTGGAGT
410963 ATC
64 ATC
410966 TTCTTGGAGC
Statistics
Matches: 198, Mismatches: 36, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
86 3 0.02
87 55 0.28
88 135 0.68
89 5 0.03
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (87 bp):
AGTTTCCCCAAAGATAAAATTATAGAAAGAAAATTTAAAATTTTGTTAAAATAGGGTTGGAGTAT
CCCTTAGAAAAAGTGACAATGG
Found at i:413181 original size:20 final size:20
Alignment explanation
Indices: 413156--413225 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
413146 GCCCTGAAAA
413156 GTATCGATACACATTTAAAT
1 GTATCGATACACATTTAAAT
* *
413176 GTATCGATACAGATTGTATA-
1 GTATCGATACACATT-TAAAT
*
413196 GTATCGATACACA--CAATAT
1 GTATCGATACACATTTAA-AT
413215 GTATCGATACA
1 GTATCGATACA
413226 GGACATTGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 1 0.02
19 11 0.26
20 26 0.62
21 3 0.07
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (20 bp):
GTATCGATACACATTTAAAT
Found at i:413220 original size:19 final size:19
Alignment explanation
Indices: 413156--413278 Score: 64
Period size: 19 Copynumber: 6.6 Consensus size: 19
413146 GCCCTGAAAA
*
413156 GTATCGATACACATTTAA-AT
1 GTATCGATACACA--CAATAT
* ***
413176 GTATCGATACAGATTGTAT
1 GTATCGATACACACAATAT
413195 AGTATCGATACACACAATAT
1 -GTATCGATACACACAATAT
*
413215 GTATCGATACAGGAC-AT-T
1 GTATCGATACA-CACAATAT
* *
413233 G--GC-AGTAGC-CA-AATTT
1 GTATCGA-TA-CACACAATAT
413249 GTATCGATACACACAATAT
1 GTATCGATACACACAATAT
413268 GTATCGATACA
1 GTATCGATACA
413279 GGTCATTGGC
Statistics
Matches: 79, Mismatches: 12, Indels: 25
0.68 0.10 0.22
Matches are distributed among these distances:
15 4 0.05
16 5 0.06
17 2 0.03
18 8 0.10
19 31 0.39
20 29 0.37
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (19 bp):
GTATCGATACACACAATAT
Found at i:413274 original size:53 final size:53
Alignment explanation
Indices: 413196--413331 Score: 254
Period size: 53 Copynumber: 2.6 Consensus size: 53
413186 AGATTGTATA
413196 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
413249 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
413302 GTATTGATACACACAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
413332 TTGGCAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 81 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:413374 original size:10 final size:10
Alignment explanation
Indices: 413355--413385 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
413345 AATCTCATTT
413355 TCACTGTTCA
1 TCACTGTTCA
*
413365 TCACTATTCA
1 TCACTGTTCA
413375 TCACTGTTCA
1 TCACTGTTCA
413385 T
1 T
413386 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:413407 original size:21 final size:22
Alignment explanation
Indices: 413373--413428 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
413363 CATCACTATT
413373 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
413395 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
413416 CATCACTGTTCAT
1 CATCACTGTTCAT
413429 ACATCACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:413432 original size:14 final size:14
Alignment explanation
Indices: 413413--413444 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
413403 TCATGTATCG
*
413413 ATACATCACTGTTC
1 ATACATCACTATTC
413427 ATACATCACTATTC
1 ATACATCACTATTC
413441 ATAC
1 ATAC
413445 TGTTCACGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (14 bp):
ATACATCACTATTC
Found at i:413447 original size:23 final size:23
Alignment explanation
Indices: 413420--413465 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
413410 TCGATACATC
*
413420 ACTGTTCATACATCACTATTCAT
1 ACTGTTCACACATCACTATTCAT
**
413443 ACTGTTCACGTATCACTATTCAT
1 ACTGTTCACACATCACTATTCAT
413466 GTATCGATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (23 bp):
ACTGTTCACACATCACTATTCAT
Found at i:414045 original size:34 final size:35
Alignment explanation
Indices: 413982--414048 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
413972 CTAAGTGATT
413982 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
414018 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
414049 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:421963 original size:3 final size:3
Alignment explanation
Indices: 421955--421996 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
421945 TATGTATTAC
421955 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
421997 TAAAAATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:422362 original size:19 final size:19
Alignment explanation
Indices: 422329--422379 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
422319 AAATTCAAAT
*
422329 ATAAATTATAAAATAATAAA
1 ATAAA-TATATAATAATAAA
*
422349 ATAAATATATAATAATTAA
1 ATAAATATATAATAATAAA
*
422368 ATACATAT-TAAT
1 ATAAATATATAAT
422380 TCCTTCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 4 0.14
19 19 0.68
20 5 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAATATATAATAATAAA
Found at i:422524 original size:21 final size:24
Alignment explanation
Indices: 422506--422575 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 24
422496 TTAAATTATA
422506 AAAAAAATTAATAAAATTATTCAT
1 AAAAAAATTAATAAAATTATTCAT
* *
422530 AAAAAATTTAATAAAATTTTATTTAT
1 AAAAAAATTAATAAAA--TTATTCAT
* *
422556 CAAAAAATTAA-AAATTTATT
1 AAAAAAATTAATAAAATTATT
422576 TATTCACCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.13
24 15 0.38
25 3 0.08
26 16 0.41
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAAAAATTAATAAAATTATTCAT
Found at i:422576 original size:23 final size:22
Alignment explanation
Indices: 422507--422578 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 22
422497 TAAATTATAA
* *
422507 AAAAAATTAATAAAATTATTCAT
1 AAAAAATTAA-AAATTTATTTAT
422530 AAAAAATTTAATAAAATTTTATTTAT
1 AAAAAA-TT-A-AAAA-TTTATTTAT
422556 CAAAAAATTAAAAATTTATTTAT
1 -AAAAAATTAAAAATTTATTTAT
422579 TCACCCCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
23 15 0.36
24 6 0.14
25 5 0.12
26 10 0.24
27 6 0.14
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAAATTAAAAATTTATTTAT
Found at i:423109 original size:33 final size:33
Alignment explanation
Indices: 423048--423148 Score: 170
Period size: 33 Copynumber: 3.1 Consensus size: 33
423038 CCTTAACTGT
*
423048 TTGTATCGATACAT-A-CAAGATGTATCGATACA
1 TTGTATTGATACATGACCAA-ATGTATCGATACA
423080 TTGTATTGATACATGACCAAATGTATCGATACA
1 TTGTATTGATACATGACCAAATGTATCGATACA
423113 TTGTATTGATACATGACCAAATGTATCGATACA
1 TTGTATTGATACATGACCAAATGTATCGATACA
423146 TTG
1 TTG
423149 GCCTGTAACG
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
32 13 0.20
33 50 0.76
34 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.34
Consensus pattern (33 bp):
TTGTATTGATACATGACCAAATGTATCGATACA
Found at i:423110 original size:20 final size:20
Alignment explanation
Indices: 423081--423146 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
423071 ATCGATACAT
*
423081 TGTATTGATACATGACCAAA
1 TGTATCGATACATGACCAAA
423101 TGTATCGATACAT-------
1 TGTATCGATACATGACCAAA
*
423114 TGTATTGATACATGACCAAA
1 TGTATCGATACATGACCAAA
423134 TGTATCGATACAT
1 TGTATCGATACAT
423147 TGGCCTGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
13 12 0.33
20 24 0.67
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:431764 original size:19 final size:19
Alignment explanation
Indices: 431740--431801 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 19
431730 TACCTTCAGA
431740 TGTATCGATACATGACCAC
1 TGTATCGATACATGACCAC
431759 TGTATCGATACAT------
1 TGTATCGATACATGACCAC
431772 TGTATCGATACATGACCAC
1 TGTATCGATACATGACCAC
431791 TGTATCGATAC
1 TGTATCGATAC
431802 TTGCAAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 13 0.35
19 24 0.65
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (19 bp):
TGTATCGATACATGACCAC
Found at i:431777 original size:13 final size:13
Alignment explanation
Indices: 431759--431784 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
431749 ACATGACCAC
431759 TGTATCGATACAT
1 TGTATCGATACAT
431772 TGTATCGATACAT
1 TGTATCGATACAT
431785 GACCACTGTA
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:431781 original size:32 final size:32
Alignment explanation
Indices: 431740--431801 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
431730 TACCTTCAGA
431740 TGTATCGATACATGACCACTGTATCGATACAT
1 TGTATCGATACATGACCACTGTATCGATACAT
431772 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATGACCACTGTATCGATAC
431802 TTGCAAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (32 bp):
TGTATCGATACATGACCACTGTATCGATACAT
Found at i:431891 original size:13 final size:13
Alignment explanation
Indices: 431873--431898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
431863 ACATACAAGA
431873 TGTATCGATACAT
1 TGTATCGATACAT
431886 TGTATCGATACAT
1 TGTATCGATACAT
431899 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:431914 original size:33 final size:32
Alignment explanation
Indices: 431853--431920 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
431843 CATTAACTAT
431853 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
431885 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
431918 TTG
1 TTG
431921 GCTTGTAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:433205 original size:6 final size:6
Alignment explanation
Indices: 433186--433227 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
433176 GCATTTTAGA
*
433186 TTGTATT TTGTTT TT-TTT TTGTTT TTGTTT TTGTTC TTGTTT
1 TTGT-TT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT
433228 CAGTTTTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 5 0.16
6 23 0.72
7 4 0.12
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.81
Consensus pattern (6 bp):
TTGTTT
Found at i:436993 original size:106 final size:105
Alignment explanation
Indices: 436809--437007 Score: 362
Period size: 106 Copynumber: 1.9 Consensus size: 105
436799 GTATTGATAA
436809 ATTACCTTTAAAACCCTCAAAATATGATCATTGGAGGACAAGGTACCAATACATTAAAAGATTGC
1 ATTACCTTTAAAACCCTCAAAATATGATCATTGGAGGACAAGGTACCAATACATTAAAAGATTGC
436874 ATCGATACATGACTCAAGGTATTTTACAAGGTGTTAATAC
66 ATCGATACATGACTCAAGGTATTTTACAAGGTGTTAATAC
* **
436914 ATTACCTTTAAAACCCTTAAAATTATGATCATTGGAGGACAAGGTGTCAATACATTAAAAGATTG
1 ATTACCTTTAAAACCCTCAAAA-TATGATCATTGGAGGACAAGGTACCAATACATTAAAAGATTG
436979 CATCGATACATGACTCAAGGTATTTTACA
65 CATCGATACATGACTCAAGGTATTTTACA
437008 TCATGCTGGT
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
105 21 0.23
106 69 0.77
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (105 bp):
ATTACCTTTAAAACCCTCAAAATATGATCATTGGAGGACAAGGTACCAATACATTAAAAGATTGC
ATCGATACATGACTCAAGGTATTTTACAAGGTGTTAATAC
Found at i:438119 original size:20 final size:19
Alignment explanation
Indices: 438092--438183 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
438082 TTACCAGTTT
*
438092 CATGTATCGATACAATTAA
1 CATGTATCGATACAATGAA
*
438111 GCTTGTATCGATACAATGAA
1 -CATGTATCGATACAATGAA
* *
438131 CATGTATCAATACAAAGCATA
1 CATGTATCGATACAATG-A-A
* *
438152 -ATGTATCGATACATCTGGA
1 CATGTATCGATACA-ATGAA
*
438171 TATGTATCGATAC
1 CATGTATCGATAC
438184 TTTCTAGGGT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
19 15 0.25
20 42 0.71
21 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:438790 original size:21 final size:21
Alignment explanation
Indices: 438766--438812 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
438756 TAAAATTTTC
*
438766 AATAAAACTCCCCTTTAATAA
1 AATAAAACTCCCCCTTAATAA
** *
438787 AATAATTCTCCCCCTTGATAA
1 AATAAAACTCCCCCTTAATAA
438808 AATAA
1 AATAA
438813 TTAAAGCTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAAAACTCCCCCTTAATAA
Found at i:438813 original size:21 final size:21
Alignment explanation
Indices: 438773--438814 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
438763 TTCAATAAAA
*
438773 CTCCCCTTTAATAAAATAATT
1 CTCCCCCTTAATAAAATAATT
*
438794 CTCCCCCTTGATAAAATAATT
1 CTCCCCCTTAATAAAATAATT
438815 AAAGCTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (21 bp):
CTCCCCCTTAATAAAATAATT
Found at i:446808 original size:19 final size:20
Alignment explanation
Indices: 446763--446816 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
446753 CTGCCAGTTT
*
446763 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAA
* *
446783 TATGTATTGATACAA-TGAA
1 CATGTATCGATACAATTGAA
446802 CATGTATCGATACAA
1 CATGTATCGATACAA
446817 AGTATAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:448770 original size:13 final size:12
Alignment explanation
Indices: 448741--448771 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
448731 AAGTTTTTAT
448741 GAAAAATATTTG
1 GAAAAATATTTG
448753 GAAAAATATTTG
1 GAAAAATATTTG
448765 GAAAAAT
1 GAAAAAT
448772 CATCTAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (12 bp):
GAAAAATATTTG
Found at i:450982 original size:13 final size:13
Alignment explanation
Indices: 450964--450988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
450954 ACAAGGCAAC
450964 ATGTATCGATACA
1 ATGTATCGATACA
450977 ATGTATCGATAC
1 ATGTATCGATAC
450989 TATGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:450983 original size:33 final size:33
Alignment explanation
Indices: 450946--451011 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
450936 TCTTTTTCAA
450946 GTATCGATACAAGGCAACATGTATCGATACAAT
1 GTATCGATACAAGGCAACATGTATCGATACAAT
* *
450979 GTATCGATACTATGCAACATGTATCGATACAAT
1 GTATCGATACAAGGCAACATGTATCGATACAAT
451012 TAAATGTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (33 bp):
GTATCGATACAAGGCAACATGTATCGATACAAT
Found at i:456774 original size:60 final size:60
Alignment explanation
Indices: 456642--457710 Score: 1290
Period size: 61 Copynumber: 17.6 Consensus size: 60
456632 TCTATGGCCT
** * * *
456642 AGTTGGTGGCACCTCCAATCCTCAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACACG
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACA
* * * *
456703 AGTTGGTGGCACCATTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCTCACACG
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
* *
456763 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCTCACACA
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
* * * * * *
456823 AGTTGGTGGCACCTTTAGTCCTCAAAAAGCAGGATGCCATTTCTTTTTGAAGCCCACACG
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
* * * * *
456883 AGTTGGTGGCACCCTCTAGTCCTTAACGAGCAAGACGCCTTTT-CTTTTAAAACCCACACA
1 AGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
* * * * * *
456943 AATTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTCAAAGCCCACACG
1 AGTTGGTGGCAC-CTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
* * * * * *
457005 AGTTGGTGGCACCTTTAGTCCTCAAAGAGTAGGATGCTTTTTTCTTTTGGAAGCCCACACG
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACA
* * * *
457066 AGTTGGTGGCACCTTTAGTCCTCAATGAGCAGGACACTTTTTTTCTTTTCAAAGCCCACACA
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGC-CTTTTCCTTTT-AAAGCCCACACA
* * * **
457128 AGTTGGTGGCACCTCTAGTCCTTAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACATG
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACA
* *
457189 AGTTGGTGGCACCTTTAGTCCTCAAAAAGCAGGACACCTTTTCCTTTTAAAGCCCACACA
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
* * * * *
457249 AGTTGGTGGCACCTTTAGTCCTTAAAAAGCAGGACCCCTTTTCTTTTTAAAGCCCACACG
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
* * * *
457309 AGTTGGTGGCACCCTCTAGTCCTCAACGACCAGGACGCCTTTTTCTTTTAAAGCCCACACA
1 AGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
* * *
457370 AGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCATACA
1 AGTTGGTGGCAC-CTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
** * ** *
457432 AGTTGGTGGCATTTTCTGGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACA
1 AGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
*
457493 AGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCC---T-C--TTAAAGCCCACACA
1 AGTTGGTGGCAC-CTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
*
457549 AGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACA
1 AGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
* *
457610 AGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTTCCTTTTAAAGCTCACACA
1 AGTTGGTGGCACC-TTTAGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACA
*
457673 AGTTGGTGGC-GCTTCCTAGTCCTCAAAGAGCAGGACGC
1 AGTTGGTGGCACCTT--TAGTCCTCAAAGAGCAGGACGC
457711 TCCCTCCTTT
Statistics
Matches: 881, Mismatches: 104, Indels: 44
0.86 0.10 0.04
Matches are distributed among these distances:
54 1 0.00
55 23 0.03
56 25 0.03
58 2 0.00
59 2 0.00
60 282 0.32
61 326 0.37
62 168 0.19
63 52 0.06
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (60 bp):
AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
Found at i:457122 original size:123 final size:120
Alignment explanation
Indices: 456642--457710 Score: 1258
Period size: 123 Copynumber: 8.8 Consensus size: 120
456632 TCTATGGCCT
** * *
456642 AGTTGGTGGCACCTCCAATCCTCAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACACGAGTT
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACAAGTT
* * * * *
456707 GGTGGCACCATTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCTCACACG
65 GGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACA
* * *
456763 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCTCACACAAGTTG
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTG
* * * * *
456828 GTGGCACCTTTAGTCCTCAAAAAGCAGGATGCC-ATTTCTTTTTGAAGCCCACACG
66 GTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACA
* * * * * *
456883 AGTTGGTGGCACCCTCTAGTCCTTAACGAGCAAGACGCC-TTTTCTTTTAAAACCCACACAAATT
1 AGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTT
* * * * * *
456947 GGTGGCACTTTTCTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTCAAAGCCCACACG
65 GGTGGCAC-CTT-TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACA
* * * * *
457005 AGTTGGTGGCACCTTTAGTCCTCAAAGAGTAGGATGCTTTTTTCTTTTGGAAGCCCACACGAGTT
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTT
* * *
457070 GGTGGCACCTTTAGTCCTCAATGAGCAGGACACTTTTTTTCTTTTCAAAGCCCACACA
65 GGTGGCACCTTTAGTCCTCAAAGAGCAGGACGC-CTTTTTCTTTT-AAAGCCCACACA
* * **
457128 AGTTGGTGGCACCTCTAGTCCTTAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACATGAGTT
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACAAGTT
* * *
457193 GGTGGCACCTTTAGTCCTCAAAAAGCAGGACACCTTTTCCTTTTAAAGCCCACACA
65 GGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACA
* * * *
457249 AGTTGGTGGCACCTTTAGTCCTTAAAAAGCAGGAC-CCCTTTTCTTTTTAAAGCCCACACGAGTT
1 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACAAGTT
* * *
457313 GGTGGCACCCTCTAGTCCTCAACGACCAGGACGCCTTTTTCTTTTAAAGCCCACACA
65 GGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACA
* * * *
457370 AGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCATACAAGT
1 AGTTGGTGGCAC-CTT-TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGT
** * *** *
457435 TGGTGGCATTTTCTGGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACA
64 TGGTGGCACCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACA
*
457493 AGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCC----TC--TTAAAGCCCACACAAGT
1 AGTTGGTGGCAC-CTT-TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGT
* *
457552 TGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACA
64 TGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACA
* *
457610 AGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTTCCTTTTAAAGCTCACACAAG
1 AGTTGGTGGCACC-TTTAGTCCTCAAAGAGCAGGACGCC-TTTTT-CTTTTAAAGCCCACACAAG
*
457675 TTGGTGGC-GCTTCCTAGTCCTCAAAGAGCAGGACGC
63 TTGGTGGCACCTT--TAGTCCTCAAAGAGCAGGACGC
457711 TCCCTCCTTT
Statistics
Matches: 816, Mismatches: 105, Indels: 51
0.84 0.11 0.05
Matches are distributed among these distances:
116 23 0.03
117 78 0.10
119 4 0.00
120 136 0.17
121 202 0.25
122 78 0.10
123 241 0.30
124 53 0.06
125 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (120 bp):
AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTG
GTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACA
Found at i:458013 original size:61 final size:57
Alignment explanation
Indices: 457728--458089 Score: 429
Period size: 55 Copynumber: 6.4 Consensus size: 57
457718 TTTCGCCCTT
** * *
457728 AGTCCTCAAAGAGCAGGACACCT-TTT-AAAGCACACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGATGCCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
457782 AGTTCTGAAAGAGCAGGACGCCTC-TT-AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
457837 AGTCCTCAAAGAGCAGGACG-C-CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
457892 AGTCCTCAAAGAGCAGGATGCCTC-CT-AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
**
457947 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGATGC---CTCTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
** * *
458008 AGTCCTCAAAGAGCAGGACACCTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGATGCC--T-C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
*
458069 AGTCCTTAAAGAGCAGGATGC
1 AGTCCTCAAAGAGCAGGATGC
458090 ACTTTATTTT
Statistics
Matches: 270, Mismatches: 21, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
53 1 0.00
54 47 0.17
55 120 0.44
56 2 0.01
57 1 0.00
58 4 0.01
59 1 0.00
60 1 0.00
61 88 0.33
62 5 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (57 bp):
AGTCCTCAAAGAGCAGGATGCCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:458239 original size:42 final size:40
Alignment explanation
Indices: 458186--458279 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
458176 CTCTTTTTCA
* * *
458186 CTTTATCCTCAAGAAGCAGGACACT-TTCCTTTTCTTCTCTTC
1 CTTTGTCCTCAAGAAGCAAGAC-CTATTCC-ATTC-TCTCTTC
* * *
458228 CTTTGTCCTCAAGGAGCAAGACCTATTTCATTCTCTTTTC
1 CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
458268 CTTTGTCCTCAA
1 CTTTGTCCTCAA
458280 AAAGTGGGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 18 0.40
41 5 0.11
42 22 0.49
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.40
Consensus pattern (40 bp):
CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
Found at i:458951 original size:19 final size:18
Alignment explanation
Indices: 458923--458985 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 18
458913 AAATAGAAAA
*
458923 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGT-T
458942 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
458955 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
*
458974 TATATCGATACA
1 TGTATCGATACA
458986 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 21 0.58
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:458960 original size:13 final size:13
Alignment explanation
Indices: 458942--458966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
458932 ACATAAGTGT
458942 TGTATCGATACAA
1 TGTATCGATACAA
458955 TGTATCGATACA
1 TGTATCGATACA
458967 TAAGTTTTAT
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:458965 original size:32 final size:32
Alignment explanation
Indices: 458921--458993 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
458911 ACAAATAGAA
* *
458921 AATGTATTGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTATATCGATAC
*
458953 AATGTATCGATACATAAGTTTTATATCGATAC
1 AATGTATCGATACATAAGTGTTATATCGATAC
458985 AATGTATCG
1 AATGTATCG
458994 CTACGAAGCT
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:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTATATCGATAC
Found at i:459036 original size:21 final size:21
Alignment explanation
Indices: 459010--459051 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
459000 AGCTATTGCC
459010 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
459031 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
459052 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:459056 original size:13 final size:13
Alignment explanation
Indices: 459038--459063 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
459028 ATTAAGGAAA
459038 TGTATCGATACAT
1 TGTATCGATACAT
459051 TGTATCGATACAT
1 TGTATCGATACAT
459064 CGATCTTTGT
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:461474 original size:51 final size:51
Alignment explanation
Indices: 461419--461657 Score: 259
Period size: 51 Copynumber: 4.6 Consensus size: 51
461409 TTAAGTTTCT
* * *
461419 TAATTTTTCATAATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACAC
1 TAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * * *
461470 TAATTTTCCACAATCGGGGATACTCCAACTCTGATTTTATTTTTGAAACAC
1 TAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * *
461521 AAATTTTCCACAAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACAC
1 TAATTTTTCAC-AATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACAC
* * * * *
461573 CAA-TTTTCTATAATCGGGGATACTCCAACTCCGATATTATTTCCAAAAACAC
1 TAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTT-CTAAAACAC
*
461625 TAATTTTTCACAATTC-GGGATACTCTAACCCCG
1 TAATTTTTCACAA-TCGGGGATACTCCAACCCCG
461658 TTAATCATCG
Statistics
Matches: 157, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
51 86 0.55
52 64 0.41
53 7 0.04
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
TAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
Found at i:461613 original size:103 final size:104
Alignment explanation
Indices: 461430--461657 Score: 309
Period size: 103 Copynumber: 2.2 Consensus size: 104
461420 AATTTTTCAT
* *
461430 AATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATACTC
* * ***
461495 CAACTCTGATTTTATTT-TTGAAACACAAATTTTCCACA
66 CAACTCCGATATTATTTCCAAAAACACAAATTTTCCACA
* *
461533 AATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCTATAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTCCACAATCGGGGATACT
* *
461597 CCAACTCCGATATTATTTCCAAAAACACTAATTTTTCACA
65 CCAACTCCGATATTATTTCCAAAAACACAAATTTTCCACA
* *
461637 ATTC-GGGATACTCTAACCCCG
1 AATCGGGGATACTCCAACCCCG
461658 TTAATCATCG
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
102 1 0.01
103 90 0.82
104 19 0.17
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (104 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATACTC
CAACTCCGATATTATTTCCAAAAACACAAATTTTCCACA
Found at i:461704 original size:28 final size:27
Alignment explanation
Indices: 461641--461712 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
461631 TTCACAATTC
*
461641 GGGATACTCTAACCCCGTTAATCATCG
1 GGGATACTCCAACCCCGTTAATCATCG
**
461668 GGGATACTCCAACCCCGTT-ATTTTCGAG
1 GGGATACTCCAACCCCGTTAATCATC--G
461696 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
461713 GCTTTATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 4 0.10
27 18 0.45
28 18 0.45
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTAATCATCG
Found at i:461747 original size:79 final size:79
Alignment explanation
Indices: 461664--461940 Score: 452
Period size: 79 Copynumber: 3.5 Consensus size: 79
461654 CCCGTTAATC
*
461664 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
461729 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * *
461743 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCAGCTTTATTCCTAAAAT
1 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
461808 ATTGATTTCTCACA
66 ATTGATTTCTCACA
*
461822 ATCAGGAATACTCCAACCCCGTT-TTTTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCTTAAA
1 ATCGGGAATACTCCAACCCCGTTATTTT-CGAGGGGATACTCCAACCCCGGCTTTATTTC-TAAA
461885 ATATTGATTTCTCACA
64 ATATTGATTTCTCACA
* *
461901 ATCGGGGATACTCCAACCCCGTTATTTTCG-CGGGATACTC
1 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTC
461941 TAGCCCAGTT
Statistics
Matches: 184, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
78 15 0.08
79 165 0.90
80 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (79 bp):
ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
ATTGATTTCTCACA
Found at i:461965 original size:28 final size:27
Alignment explanation
Indices: 461904--461974 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
461894 TCTCACAATC
*
461904 GGGGATACTCCAACCCCGTTATTTTCG
1 GGGGATACTCCAACCCAGTTATTTTCG
* * * *
461931 CGGGATACTCTAGCCCAGTTATTTTTG
1 GGGGATACTCCAACCCAGTTATTTTCG
461958 AGGGGATACTCCAACCC
1 -GGGGATACTCCAACCC
461975 TAATTTTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (27 bp):
GGGGATACTCCAACCCAGTTATTTTCG
Found at i:465247 original size:52 final size:52
Alignment explanation
Indices: 465047--465227 Score: 308
Period size: 52 Copynumber: 3.5 Consensus size: 52
465037 CGAGATATGA
* *
465047 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
465099 AAATTTGCCTACATGTATCGATACATTTTATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
465151 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
**
465203 AAATTTGCCTGTGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
465228 AAGATCAGTG
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 121 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:465340 original size:13 final size:13
Alignment explanation
Indices: 465322--465346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
465312 ACAAAACTTA
465322 TGTATCGATACAT
1 TGTATCGATACAT
465335 TGTATCGATACA
1 TGTATCGATACA
465347 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:465342 original size:32 final size:33
Alignment explanation
Indices: 465301--465366 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
465291 TGTAGCTTAA
465301 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
465333 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
465366 A
1 A
465367 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:466277 original size:56 final size:53
Alignment explanation
Indices: 466168--466775 Score: 179
Period size: 43 Copynumber: 12.7 Consensus size: 53
466158 TGAAGATGAG
* * * * * * **
466168 AAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAA
1 AAAAG-GA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * *
466223 AAAAGAGAAAAAGGATGTCAATGTGTTGATTCAAGGCTAGCTACATTGAACTT-AA
1 AAAAG-G-AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * *
466278 AGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT---
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * *
466328 -------AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * **
466373 AGAA-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGCCTT---
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
466420 -------AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * * *
466464 AAGATG--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T---
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * * *
466511 ------CAAAGGTGCCAATGTGCTGATTTAAGGCTAGCTACATTGGACTT--A
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * * * *
466556 AAGATG--AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * *
466604 -------AAAGGTGCCAATGTACTGATTCAAGGCCAGTTACATTGGACTT--A
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * * *
466648 AAGATG--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
466696 -------AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * *
466740 AAGATG--AAGGTGCCAATATGCTAATTCAAGGCCAGC
1 AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGC
466776 GATATTAGGC
Statistics
Matches: 451, Mismatches: 59, Indels: 92
0.75 0.10 0.15
Matches are distributed among these distances:
43 189 0.42
44 1 0.00
48 1 0.00
49 176 0.39
52 32 0.07
53 6 0.01
54 1 0.00
55 15 0.03
56 30 0.07
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (53 bp):
AAAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:466332 original size:22 final size:21
Alignment explanation
Indices: 466307--466374 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 21
466297 ATGCTGATTC
466307 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTA-ATTGGACTTA
* *
466329 AAGG--TGCTAATGTGCTGA-TTC
1 AAGGCCAGCTAAT-TG--GACTTA
466350 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTA-ATTGGACTTA
466372 AAG
1 AAG
466375 AAGAAGGTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.23
22 11 0.31
23 6 0.17
24 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (21 bp):
AAGGCCAGCTAATTGGACTTA
Found at i:466346 original size:43 final size:43
Alignment explanation
Indices: 466285--466775 Score: 523
Period size: 43 Copynumber: 10.7 Consensus size: 43
466275 TAAAGATGGA
*
466285 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
466328 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
466371 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGCCTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
466420 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
466463 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTC
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
466512 AAAGGTGCCAATGTGCTGATTTAAGGCTAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
466555 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
466604 AAAGGTGCCAATGTACTGATTCAAGGCCAGTTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
466647 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
466696 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
466739 AAAGATGAAGGTGCCAATATGCTAATTCAAGGCCAGC
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGC
466776 GATATTAGGC
Statistics
Matches: 378, Mismatches: 40, Indels: 54
0.80 0.08 0.11
Matches are distributed among these distances:
43 187 0.49
44 4 0.01
45 3 0.01
46 2 0.01
47 4 0.01
48 4 0.01
49 174 0.46
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:466413 original size:92 final size:92
Alignment explanation
Indices: 466232--466781 Score: 920
Period size: 92 Copynumber: 5.9 Consensus size: 92
466222 AAAAAGAGAA
* * * *
466232 AAAGGATGTCAATGTGTTGATTCAAGGCTAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
466297 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
466328 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
466393 TGATTCAAGGCCAGCTATATTGGCCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
466420 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
466485 TGATTCAAGGCCAGCGATATTGGACTC
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
466512 AAAGGTGCCAATGTGCTGATTTAAGGCTAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
466577 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
466604 AAAGGTGCCAATGTACTGATTCAAGGCCAGTTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
466669 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
466696 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
466761 TAATTCAAGGCCAGCGATATT
66 TGATTCAAGGCCAGCGATATT
466782 AGGCTTAGAA
Statistics
Matches: 430, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
92 386 0.90
94 1 0.00
95 38 0.09
96 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:466872 original size:33 final size:34
Alignment explanation
Indices: 466788--467115 Score: 502
Period size: 33 Copynumber: 10.0 Consensus size: 34
466778 TATTAGGCTT
466788 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
* *
466821 AG-AGGGTGGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
*
466854 AGAA-GGTTACCACCGACTTGTGTGGGCTTTAGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
466887 A-AAGGGTT-CCACCGACTTGTGTGGGCTTTAG-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
466918 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTAGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
*
466951 ATAA-GGTTGCCACCGACTTGTGTGGGCTTTAGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
466984 A-AAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
*
467017 A-AAGGGTTGCCACCAACTTGTGTGGGCTTTAG-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
467049 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTAG-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
* *
467081 AGAAGGGTTGTCACCGACTTATGTGGGCTTTAGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
467115 A
1 A
467116 AGGGTAAAAG
Statistics
Matches: 274, Mismatches: 10, Indels: 21
0.90 0.03 0.07
Matches are distributed among these distances:
31 7 0.03
32 110 0.40
33 154 0.56
34 3 0.01
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (34 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
Found at i:467120 original size:65 final size:65
Alignment explanation
Indices: 466786--467120 Score: 516
Period size: 65 Copynumber: 5.2 Consensus size: 65
466776 GATATTAGGC
* *
466786 TTAG-AAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAGGGTGGCCACCGACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCT
* * *
466849 TTGGAAGAAGGTTACCACCGACTTGTGTGGGCTTTAGAAAAGGGTT-CCACCGACTTGTGTGGGC
1 TTAGAA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGC
466913 T
65 T
*
466914 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAATAA-GGTTGCCACCGACTTGTGTGGGC
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAA-AAGGGTTGCCACCGACTTGTGTGGGC
466978 T
65 T
*
466979 TTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCAACTTGTGTGGGC
1 TTAG-AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGC
467044 T
65 T
* * * *
467045 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGTCACCGACTTATGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCT
467110 TTAGAAAGGGT
1 TTAGAAAGGGT
467121 AAAAGATGCC
Statistics
Matches: 248, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
63 3 0.01
64 35 0.14
65 144 0.58
66 66 0.27
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (65 bp):
TTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCT
Found at i:467231 original size:31 final size:31
Alignment explanation
Indices: 467195--468016 Score: 536
Period size: 31 Copynumber: 25.7 Consensus size: 31
467185 GGGAAAAAGA
* *
467195 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
* * *
467226 GTGCCACGGAGTTGCGGACTTTGAAAGGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
* ** *
467257 GTGCCACGGAGTCATGGACTTAAAAGGAACAAG
1 GTGCCACGGAGTCGTGGACTTTGAA--AAGAAG
* *
467290 GTGCCAAAGG-GTTGTGGACTTT-AAAAGGGTAAAAG
1 GTGCC-ACGGAGTCGTGGACTTTGAAAA--G---AAG
* * *
467325 AGTGCCACGGAATTGTGGGCTTTGAAAAGAAG
1 -GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
* * * * *
467357 GTGTCATGGAGTCGCGGACTTTAAAGGAACAAG
1 GTGCCACGGAGTCGTGGACTTTGAA--AAGAAG
*
467390 GTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAA--G---AAG
* * *
467425 AGTGCCACAGAGTTGTGGGCTTTGAAAAGAAG
1 -GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
* *
467457 GTGCCACGGAGTCGCGGACTCTGAAAAGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
*
467488 GTGCCACGGAGTCGTGGAC-TTAAAAAGAACAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAG---AAG
* *
467521 GTGCCACGAAGTTGTGGACTTTGAAGAA-AAG
1 GTGCCACGGAGTCGTGGACTTTGAA-AAGAAG
*
467552 GATGCCACTGAGTCGTGGACTTTGAGACAA-AA-
1 G-TGCCACGGAGTCGTGGACTTTGA-A-AAGAAG
* *
467584 -CGCCACTGAGTCGTGGACTTTGAAGAA-AAG
1 GTGCCACGGAGTCGTGGACTTTGAA-AAGAAG
*
467614 GATGCCACTGAGTCGTGGACTTTGAAGAA-AAG
1 G-TGCCACGGAGTCGTGGACTTTGAA-AAGAAG
* * *
467646 GATGCCACTGAGTCATGGACTTTGTGATAA-AA-
1 G-TGCCACGGAGTCGTGGAC-TT-TGAAAAGAAG
* *
467678 -TGCCACTGAGTCGTGGACTTTGAAGAAAAAG
1 GTGCCACGGAGTCGTGGACTTTGAA-AAGAAG
* * *
467709 ATGCCACTGAGTCGTGGACTTTGAGATAGAA-
1 GTGCCACGGAGTCGTGGACTTTGA-AAAGAAG
* * *
467740 -TGCCACTGAGTCATGGAGTTTGAGATAA-AA-
1 GTGCCACGGAGTCGTGGACTTTGA-A-AAGAAG
* *
467770 -TGCCACTGAGTCATGGACTTTGAAGAA-AAG
1 GTGCCACGGAGTCGTGGACTTTGAA-AAGAAG
*
467800 GATGCCACTGAGTCGTGGACTTTGAGACAA-AA-
1 G-TGCCACGGAGTCGTGGACTTTGA-A-AAGAAG
* *
467832 -TGCCACTGAGTCGTGGGCTTTGAAAAGAAAAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAG---AAG
* * *
467865 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAG---AAG
*
467899 GTGCCACGGAGTTGTGGACTTTGAAAAGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
* *
467930 GTGCCACGGAGTCGTGGGCTTTAAAAAGAAAAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAG---AAG
* * * *
467964 GTGCCACGAAATTGTGGGCTTTGAAAAGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
*
467995 GTGCCACGGAGTCATGGACTTT
1 GTGCCACGGAGTCGTGGACTTT
468017 AAGAAGGTAT
Statistics
Matches: 658, Mismatches: 82, Indels: 102
0.78 0.10 0.12
Matches are distributed among these distances:
28 5 0.01
29 15 0.02
30 120 0.18
31 163 0.25
32 128 0.19
33 78 0.12
34 93 0.14
35 13 0.02
36 35 0.05
37 8 0.01
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (31 bp):
GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
Found at i:467277 original size:131 final size:131
Alignment explanation
Indices: 467140--468016 Score: 642
Period size: 131 Copynumber: 6.8 Consensus size: 131
467130 CATGAAGTTG
* * *
467140 TGGACTTAAAAGAAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGA
1 TGGACTTAAAAGAAA-AAGGTGCCACGGAGTCGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGA
* * * *
467205 GTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGCGGACTTTGAAAG-GAAGGTGCCACGGAGT
65 GTCGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAGAAAAGGTGCCACGGAGT
467269 CA
130 CA
* * * * *
467271 TGGACTTAAAAGGAACAAGGTGCCAAAGG-GTTGTGGACTTTAAAAGGGTAAAAGAGTGCCACGG
1 TGGACTTAAAA-GAAAAAGGTGCC-ACGGAGTCGTGGACTTTAAAAGAGAAAAAGAGTGCCACGG
* * * * *
467335 AATTGTGGGCTTTGAAAAGAAGGTGTCATGGAGTCGCGGACTTT-AAAGGAACAAGGTGCCACGG
64 AGTCGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAA-GAA-AAGGTGCCACGG
**
467399 AGTTG
127 AGTCA
* * * *
467404 TGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAA-AG---AAG-GTGCCAC
1 TGGAC-TTAAAA--GAAAAAG-GTGCCACGGAGTCGTGGACTTTAAAAGAGAAAAAGAGTGCCAC
* * * **
467464 GGAGTCGCGGACTCTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAAGAACAAGGTGCCACG
62 GGAGTCGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAGAA-AAGGTGCCACG
* **
467529 AAGTTG
126 GAGTCA
** * * * *
467535 TGGACTTTGAAG-AAAAGGATGCCACTGAGTCGTGGACTTT----GAGACAAA-A-CGCCACTGA
1 TGGACTTAAAAGAAAAAGG-TGCCACGGAGTCGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGA
* * *
467593 GTCGTGGACTTTGAAGAA-AAGGATGCCACTGAGTCGTGGACTTTG-AAGAAAAGGATGCCACTG
65 GTCGTGGGCTTTGAA-AAGAAGG-TGCCACGGAGTCGTGGACTTTGAAAGAAAAGG-TGCCACGG
467656 AGTCA
127 AGTCA
*** * * *
467661 TGGACTT-TGTGATAAAA--TGCCACTGAGTCGTGGACTTT--GA-AGAAAAAGA-TGCCACTGA
1 TGGACTTAAAAGA-AAAAGGTGCCACGGAGTCGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGA
* * * * * * * *
467719 GTCGTGGACTTTGAGATAGAA--TGCCACTGAGTCATGGAGTTTGAGATAAAA--TGCCACTGAG
65 GTCGTGGGCTTTGA-AAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAGAAAAGGTGCCACGGAG
467780 TCA
129 TCA
** * * *
467783 TGGACTTTGAAG-AAAAGGATGCCACTGAGTCGTGGACTTT----GAGACAAA-A-TGCCACTGA
1 TGGACTTAAAAGAAAAAGG-TGCCACGGAGTCGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGA
* * *
467841 GTCGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAC
65 GTCGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTCGTGGACTTT-GAAAG-AAAAGGTGCCAC
**
467906 GGAGTTG
125 GGAGTCA
** * * * *
467913 TGGACTTTGAA-AAGAAGGTGCCACGGAGTCGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGAAA
1 TGGACTTAAAAGAAAAAGGTGCCACGGAGTCGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGAG
* *
467975 TTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCATGGACTTT
66 TCGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTT
468017 AAGAAGGTAT
Statistics
Matches: 617, Mismatches: 81, Indels: 97
0.78 0.10 0.12
Matches are distributed among these distances:
121 7 0.01
122 43 0.07
123 7 0.01
124 66 0.11
125 16 0.03
126 86 0.14
127 55 0.09
128 5 0.01
129 19 0.03
130 55 0.09
131 162 0.26
132 18 0.03
133 43 0.07
134 6 0.01
135 10 0.02
136 19 0.03
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (131 bp):
TGGACTTAAAAGAAAAAGGTGCCACGGAGTCGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGAG
TCGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAGAAAAGGTGCCACGGAGTC
A
Found at i:467882 original size:34 final size:34
Alignment explanation
Indices: 467832--468006 Score: 236
Period size: 34 Copynumber: 5.3 Consensus size: 34
467822 TGAGACAAAA
* *
467832 TGCCACTGAGTCGTGGGCTTTGAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
*
467866 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
*
467900 TGCCACGGAGTTGTGGACTTTGAAAAG---AAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
* *
467931 TGCCACGGAGTCGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
* *
467965 TGCCACGAAATTGTGGGCTTTGAAAAG---AAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
467996 TGCCACGGAGT
1 TGCCACGGAGT
468007 CATGGACTTT
Statistics
Matches: 124, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
31 41 0.33
34 83 0.67
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
Found at i:476312 original size:52 final size:53
Alignment explanation
Indices: 476234--476363 Score: 217
Period size: 53 Copynumber: 2.5 Consensus size: 53
476224 CGAAATATGA
*
476234 AAATTTGCCTGCATGTATCGATACATTTCAT-AGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAAGTGTATCGATACATCTGGGC
* *
476286 AAATTTGCCTGCATATATCGATACATTTTATAAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAAGTGTATCGATACATCTGGGC
*
476339 AAATTTGCCTGTATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
476364 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
52 29 0.40
53 43 0.60
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (53 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAAGTGTATCGATACATCTGGGC
Found at i:476463 original size:13 final size:14
Alignment explanation
Indices: 476440--476469 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
476430 TCAATACAAA
476440 ACATATGTATCGAT
1 ACATATGTATCGAT
476454 ACAT-TGTATCGAT
1 ACATATGTATCGAT
476467 ACA
1 ACA
476470 ACACTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (14 bp):
ACATATGTATCGAT
Found at i:476469 original size:32 final size:33
Alignment explanation
Indices: 476424--476489 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
476414 AGTAGCTTAA
476424 ATTGTATCAATACAAAAC-ATATGTATCGATAC
1 ATTGTATCAATACAAAACTATATGTATCGATAC
* * *
476456 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCAATACAAAACTATATGTATCGATAC
476489 A
1 A
476490 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (33 bp):
ATTGTATCAATACAAAACTATATGTATCGATAC
Found at i:477398 original size:55 final size:53
Alignment explanation
Indices: 477302--477909 Score: 298
Period size: 43 Copynumber: 12.8 Consensus size: 53
477292 AAGTGATAAA
* * * *
477302 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGAAGAGAAAAAG
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG-G-AAAAG
* * * * *
477357 GATGTCAATGTGTTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* *
477410 G-TGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTT---------AAAG
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* * *
477453 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA-G--AAG
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* * *
477502 G-TGCCATTATGCTGATTCAAGGCCAGCTATATTGGCCTT--------AAAA-
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* * *
477545 G-TGCCAATGTGCTTGATTCAAGGCCAGCTACATTGGACTT-AAG-ATG--AAG
1 GATGCCAATATG-TTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* *
477594 G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---------AAAG
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* * * *
477637 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ATG--AA-
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* * *
477685 GATGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT---------AAAG
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* * * *
477729 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ATG--AAG
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* *
477778 G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---------AAAG
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* * * *
477821 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-ATG--AAG
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
* * * *
477870 G-TGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
1 GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTA
477910 GAAGGGTTGC
Statistics
Matches: 457, Mismatches: 53, Indels: 92
0.76 0.09 0.15
Matches are distributed among these distances:
43 163 0.36
44 28 0.06
48 28 0.06
49 161 0.35
52 32 0.07
53 6 0.01
54 1 0.00
55 38 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (53 bp):
GATGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGGAAAAG
Found at i:477542 original size:92 final size:92
Alignment explanation
Indices: 477353--477914 Score: 937
Period size: 92 Copynumber: 6.1 Consensus size: 92
477343 AAGAAGAGAA
* * *
477353 AAAGGATGTCAATGTGTTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
477418 ATGCTAATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
477449 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCATTATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
477514 TGATTCAAGGCCAGCTATATTGGCCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
477541 AAAAGTGCCAATGTGCTTGATTCAAGGCCAGCTACATTGGACTT-AAGATGAAGGTGCCAATATG
1 AAAGGTGCCAATGTGC-TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
477605 CTGATTCAAGGCCAGCGATATTGGACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
*
477633 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
477698 TGATTCAAGGCTAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
477725 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
477790 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
477817 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
477882 TGATTCAAGGCCAACGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
477909 AGAAGG
1 A-AAGG
477915 GTTGCCACCG
Statistics
Matches: 444, Mismatches: 19, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
91 27 0.06
92 340 0.77
93 31 0.07
94 1 0.00
95 40 0.09
96 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:477988 original size:33 final size:33
Alignment explanation
Indices: 477902--478150 Score: 345
Period size: 33 Copynumber: 7.7 Consensus size: 33
477892 CCAACGATAT
477902 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
477932 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
477964 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
477997 TGGGCTTTAGAA-AAGGGTT-CCACAGACTTGTG
1 TGGGCTTTAGAAGAA-GGTTGCCACCGACTTGTG
* *
478029 TGGGCTTTAG-AGAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
* *
478061 TGGGCTTTGGAAAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
478094 TGGGCTTTAGAA-AAGGATTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGG-TTGCCACCGACTTGTG
478127 TGGGCTTTAGAA-AAGGGTTGCCAC
1 TGGGCTTTAGAAGAA-GGTTGCCAC
478151 ATACGTCGAA
Statistics
Matches: 197, Mismatches: 12, Indels: 17
0.87 0.05 0.08
Matches are distributed among these distances:
30 7 0.04
31 9 0.05
32 76 0.39
33 103 0.52
34 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.27
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:477989 original size:65 final size:66
Alignment explanation
Indices: 477902--478150 Score: 377
Period size: 65 Copynumber: 3.9 Consensus size: 66
477892 CCAACGATAT
*
477902 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTGTGGGCTTTAG-AGAGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGT
477963 G
66 G
* *
477964 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTT-CCACAGACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGT
478028 G
66 G
* * * *
478029 TGGGCTTTAG-AGAGGGTTGCCACCAACTTGTGTGGGCTTTGGAAAAAGGTTGCCACCGACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGT
478093 G
66 G
478094 TGGGCTTTAGAA-AAGGATTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCAC
1 TGGGCTTTAGAAGAAGG-TTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCAC
478151 ATACGTCGAA
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
62 5 0.03
63 6 0.04
64 37 0.22
65 74 0.44
66 45 0.27
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.27
Consensus pattern (66 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCGACTTGT
G
Found at i:478032 original size:97 final size:98
Alignment explanation
Indices: 477911--478150 Score: 419
Period size: 97 Copynumber: 2.4 Consensus size: 98
477901 TTGGGCTTAG
*
477911 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGGAA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCAACTTGTGTGGGCTTTGGAA
*
477976 GAAGGTTGCCACCGACTTGTGTGGGCTTTAGAA
66 AAAGGTTGCCACCGACTTGTGTGGGCTTTAGAA
*
478009 AAGGGTT-CCACAGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCAACTTGTGTGGGCTTTGGAA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCAACTTGTGTGGGCTTTGGAA
478073 AAAGGTTGCCACCGACTTGTGTGGGCTTTAGAA
66 AAAGGTTGCCACCGACTTGTGTGGGCTTTAGAA
* *
478106 AAGGATTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCAC
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAGGGTTGCCAC
478151 ATACGTCGAA
Statistics
Matches: 134, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
97 93 0.69
98 29 0.22
99 12 0.09
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (98 bp):
AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCAACTTGTGTGGGCTTTGGAA
AAAGGTTGCCACCGACTTGTGTGGGCTTTAGAA
Found at i:480361 original size:18 final size:18
Alignment explanation
Indices: 480306--480365 Score: 70
Period size: 17 Copynumber: 3.3 Consensus size: 18
480296 CCTCCATAAA
*
480306 AAAAAAACAAACAAACAAAC
1 AAAAAAAGAAA-AAAC-AAC
480326 AAAAAAAGAAAAAA-AAC
1 AAAAAAAGAAAAAACAAC
480343 AAAATAAA-AAAAAACAAC
1 AAAA-AAAGAAAAAACAAC
480361 AAAAA
1 AAAAA
480366 GGGTCCGGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 14 0.38
18 10 0.27
19 3 0.08
20 10 0.27
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.02
Consensus pattern (18 bp):
AAAAAAAGAAAAAACAAC
Done.