Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3533819
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 18
Found at i:2979028 original size:397 final size:397
Alignment explanation
Indices: 2978047--2979370 Score: 1996
Period size: 397 Copynumber: 3.3 Consensus size: 397
2978037 TTAAAAAAAA
* * **
2978047 TATCGATACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATTGGTATAT
1 TATCGACAC-AATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATAT
* *
2978112 TTCTACCGGTTATATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
65 TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
* * *
2978177 CGATACTTACAATAAATGTATCGACAC-TTATGCATGCACCTCGTTGGACATTCATTTTGGACCA
130 CAATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTGGACCA
* * * * * *
2978241 AAAGTATCGAAACAAATTTAAAAAGTGTCAATACATTATGTTGACCTATTTTTTTTATTAATCGA
195 AAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTA-TTTTCTAATTAACCGG
*
2978306 TATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATAT-TTT
259 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC-A-ATGTTT
* ** *
2978370 TTTGGGTCGATACTTTTAATAAATGTATCGATATTTTATGATTGCAGCTGGTTTGGCATACATTC
322 TTTGGGTCGATACTTTTAATAAATGTATCGATAATTTATGCGTGCACCTGGTTTGGCATACATTC
2978435 TGGACATAAAG
387 TGGACATAAAG
*
2978446 TATCGACACAATTTAAAAATGTATCGATACATTCTGTTGACCTATTTTCTAATTAACCGGTATAT
1 TATCGACACAATTTAAAAA-GTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATAT
* *
2978511 TTCTACCGGTTGCATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGAT
65 TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
* *
2978576 CAATACTTACAATAAATGTATCAACACTTTATGCGTGCACCTCATTGGGCATTCATTTTGGACCA
130 CAATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTGGACCA
2978641 AAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGGT
195 AAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGGT
*
2978706 ATATTTCTACCGGTTACATTGTAAATTTACCTATTATATTATAATTATCGGTTTCAATGTTTTTT
260 ATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTT
*
2978771 GGGTCGATACTTTTAATAAATGTATCGATAATTTATGCGTGCATCTGGTTTGGCATACATTCTGG
325 GGGTCGATACTTTTAATAAATGTATCGATAATTTATGCGTGCACCTGGTTTGGCATACATTCTGG
2978836 ACATAAAG
390 ACATAAAG
* *
2978844 TATCGTCACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTT-TAATTAACCGATATAT
1 TATCGACACAATTTAAAAA-GTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATAT
* * *
2978908 TTATACCGGTTATATTGTAAATTTACCTATTATATTATAATTATCGGTTTCGATGTTTTTCGGG-
65 TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT-GGGA
** * *
2978972 TCAATACTTTTAATAACTGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACC
129 TCAATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTGGACC
* * * * *
2979037 AAAAGTATCGACACAATTTTAAAAAGTGTTGATACAATATGTCGACATATTTTCTAATTAACCGG
194 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
* *
2979102 TATATTTCTA-CAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
259 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTT
* * * * * * *
2979166 GGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCAGT-CATTCC
324 TGGGTCGATACTTTTAATAAATGTATCGATAATTTATGCGTGCACCTGGTTTGGCA-TACATTCT
*
2979230 GAACCA-AAAG
388 GGA-CATAAAG
* *
2979240 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCGGTATAT
1 TATCGACAC-AATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATAT
* * * *
2979305 TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCTGTTTCGATATTTTTTGGAT
65 TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
2979370 C
130 C
2979371 GATAAAATTT
Statistics
Matches: 848, Mismatches: 68, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
396 148 0.17
397 284 0.33
398 135 0.16
399 201 0.24
400 80 0.09
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (397 bp):
TATCGACACAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATATT
TCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATC
AATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTGGACCAA
AAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGGTA
TATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTTG
GGTCGATACTTTTAATAAATGTATCGATAATTTATGCGTGCACCTGGTTTGGCATACATTCTGGA
CATAAAG
Found at i:2980908 original size:24 final size:24
Alignment explanation
Indices: 2980851--2980908 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
2980841 GCCGAAATTT
2980851 ATATCGAAATTCAAACTCAAATTAA
1 ATAT-GAAATTCAAACTCAAATTAA
* *
2980876 A-ATTTAAATTCAAACTCCAATTAA
1 ATA-TGAAATTCAAACTCAAATTAA
2980900 ATATGAAAT
1 ATATGAAAT
2980909 GAACATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (24 bp):
ATATGAAATTCAAACTCAAATTAA
Found at i:2982740 original size:15 final size:16
Alignment explanation
Indices: 2982722--2982751 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2982712 GAAGGTTGTC
2982722 GTTGAGAAG-AGATTG
1 GTTGAGAAGAAGATTG
2982737 GTTGAGAAGAAGATT
1 GTTGAGAAGAAGATT
2982752 AGGGTTCTCG
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:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (16 bp):
GTTGAGAAGAAGATTG
Found at i:2983514 original size:198 final size:198
Alignment explanation
Indices: 2983044--2983805 Score: 955
Period size: 198 Copynumber: 3.8 Consensus size: 198
2983034 CATAATTTAA
* * * * * * * *
2983044 AAAAATATCGATACAATTTAAAAAGTGTCAATACATTATGTTAACATATTCTCTCATAAAACCGA
1 AAAAGTATCGACACAATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTGTCATAAAACTGG
2983109 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGGTTT-GATGTTTT
66 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATC-GGTTTCGATGTTTT
* ***
2983173 TGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCTTATCGTTGGGCATTTATTC
130 TGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTTATTC
2983237 TGGACC
193 TGGACC
* ** ** *
2983243 AAAAGTATCGACAC-TTATTAAATTTGTGTTTATAC-TTTTGTTGACCTATT-T-T-ATAATTAA
1 AAAAGTATCGACACAAT-TTAAA-AAGTGTCGATACATTATGTTGACCTATTCTGTCATAA--AA
* *
2983303 CAGGTAAATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
62 CTGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
* *
2983368 TTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCATGCACCTCATTGGGCATTTATT
127 TTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTTATT
2983433 CTGGACC
192 CTGGACC
* * *
2983440 AAAAGTATCGACACAATTTAAAAAGTGTCGATACATTATGTGGACCTATTTTGT-ATTTAAACTG
1 AAAAGTATCGACACAATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTGTCA-TAAAACTG
* * *
2983504 GTATATTTCTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGGTTCGATGTCTT
65 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * *
2983569 TAGGATCGATACAATTTTAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTCATTCTG
130 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTTATTCTG
2983634 GACC
195 GACC
* * * * * * *
2983638 AAAAGTATCGACTCAATTTAAAAAAGTATCGACATAATATGTTGACCTATTCTGTCAGAAAATTG
1 AAAAGTATCGACACAATTT-AAAAAGTGTCGATACATTATGTTGACCTATTCTGTCATAAAACTG
* * * * * * *
2983703 GTATATTTTTACCTGTTATATTGTAAATTTACCTATTACTTTATAATTATCAGTTTTGATATTTT
65 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * *
2983768 TGGGATCGATACAATTTTAAATTTATCGATACATTATG
130 TGGGATCGATACAATTTTAAATGTATCGACACTTTATG
2983806 TTCACCTATT
Statistics
Matches: 490, Mismatches: 60, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
196 12 0.02
197 85 0.17
198 224 0.46
199 158 0.32
200 11 0.02
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (198 bp):
AAAAGTATCGACACAATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTGTCATAAAACTGG
TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
GGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTTATTCTGG
ACC
Found at i:2986714 original size:51 final size:51
Alignment explanation
Indices: 2986658--2986754 Score: 194
Period size: 51 Copynumber: 1.9 Consensus size: 51
2986648 AAGAAACATG
2986658 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
2986709 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACAT
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACAT
2986755 CAACATGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (51 bp):
TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
Found at i:2987425 original size:200 final size:199
Alignment explanation
Indices: 2986983--2987825 Score: 1201
Period size: 199 Copynumber: 4.2 Consensus size: 199
2986973 ATCAATACAG
* * * *
2986983 TTTAAAAAGTTTCGATACAATATGTTTACCTATTCTCTAATAAAACCGGTATATTTTTACCGGAT
1 TTTAAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAACCGGTATATTTCTACCGGTT
*
2987048 ACATTGTAAACTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACAATTT
66 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACAATTT
* * *
2987113 TAAATGTATCGACACTTTATGTGTGTACCTTGTTGGGCATTCATTCTGGACAAAAAGTATCGACA
131 TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAGTATCGACA
2987178 CAAA
196 CAAA
* * *
2987182 TTTAAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAGCCAGTATATTTCTACTGGTT
1 TTTAAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAACCGGTATATTTCTACCGGTT
* *
2987247 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCAATAC-ATTT
66 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACAATTT
* * * *
2987311 AATAAATGTATCGACACTTTATGCGTTCACCTCGTTGGGCATTCAATCTAGACCAAAAGTATCGA
131 --TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAGTATCGA
2987376 CAC-AA
194 CACAAA
* * * *
2987381 TTTAAAAAAGTATCGACACAATATGGTTACATATTCTGTCATAAAACCGGTATA-TTCTTACCGG
1 TTT-AAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAACCGGTATATTTC-TACCGG
* * * *
2987445 TTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATATTTTTGAGATTGATACAAA
64 TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACAAT
* * *
2987510 TTTAAATGTATCGACACTTTATGTGTGCACCTCATTGGGCATTCATTCTGGATAAAAAGTATCGA
129 TTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAGTATCGA
2987575 CACAAA
194 CACAAA
* *
2987581 TTTAAAAAGTGTCGATACAATATGTTTACCTATTCTCTCATAAAACCGGTATATTTCTATCGGTT
1 TTTAAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAACCGGTATATTTCTACCGGTT
* *
2987646 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATA-ATTTT
66 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACAATTT
* * * *
2987710 AATAAATGTATCAAAACTTTATGCGTGCACCTTGTTGGGCATTCATTCTGGACCAAAAGTATCGA
131 --TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAGTATCGA
2987775 CAC-AA
194 CACAAA
* * * * * * *
2987780 TTTAAAAAATTATCAACACAATATGTTGACGTATTTTGTCATAAAA
1 TTT-AAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAA
2987826 TTATCGATAC
Statistics
Matches: 570, Mismatches: 64, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
198 7 0.01
199 294 0.52
200 266 0.47
201 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (199 bp):
TTTAAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAACCGGTATATTTCTACCGGTT
ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACAATTT
TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAGTATCGACA
CAAA
Found at i:2987731 original size:399 final size:399
Alignment explanation
Indices: 2986986--2987825 Score: 1353
Period size: 399 Copynumber: 2.1 Consensus size: 399
2986976 AATACAGTTT
* * * * * * *
2986986 AAAAAGTTTCGATACAATATGTTTACCTATTCTCTAATAAAACCGGTATATTTTTACCGGATACA
1 AAAAAGTATCGACACAATATGGTTACATATTCTGTCATAAAACCGGTATATTCTTACCGGATACA
* *
2987051 TTGTAAACTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACAATTTTAA
66 TTGTAAACTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGAGATCGATACAAATTTAA
* **
2987116 ATGTATCGACACTTTATGTGTGTACCTTGTTGGGCATTCATTCTGGACAAAAAGTATCGACACAA
131 ATGTATCGACACTTTATGTGTGCACCTCATTGGGCATTCATTCTGGACAAAAAGTATCGACACAA
*
2987181 ATTTAAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAGCCAGTATATTTCTACTGGT
196 ATTTAAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAACCAGTATATTTCTACTGGT
2987246 TACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCAATACATTT
261 TACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCAATACATTT
* * *
2987311 AATAAATGTATCGACACTTTATGCGTTCACCTCGTTGGGCATTCAATCTAGACCAAAAGTATCGA
326 AATAAATGTATCAAAACTTTATGCGTGCACCTCGTTGGGCATTCAATCTAGACCAAAAGTATCGA
2987376 CACAATTTA
391 CACAATTTA
*
2987385 AAAAAGTATCGACACAATATGGTTACATATTCTGTCATAAAACCGGTATATTCTTACCGGTTACA
1 AAAAAGTATCGACACAATATGGTTACATATTCTGTCATAAAACCGGTATATTCTTACCGGATACA
* * *
2987450 TTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATATTTTTGAGATTGATACAAATTTAA
66 TTGTAAACTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGAGATCGATACAAATTTAA
*
2987515 ATGTATCGACACTTTATGTGTGCACCTCATTGGGCATTCATTCTGGATAAAAAGTATCGACACAA
131 ATGTATCGACACTTTATGTGTGCACCTCATTGGGCATTCATTCTGGACAAAAAGTATCGACACAA
* *
2987580 ATTTAAAAAGTGTCGATACAATATGTTTACCTATTCTCTCATAAAACCGGTATATTTCTA-TCGG
196 ATTTAAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAACCAGTATATTTCTACT-GG
*
2987644 TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATA-ATT
260 TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCAATACA-T
* * *
2987708 TTAATAAATGTATCAAAACTTTATGCGTGCACCTTGTTGGGCATTCATTCTGGACCAAAAGTATC
324 TTAATAAATGTATCAAAACTTTATGCGTGCACCTCGTTGGGCATTCAATCTAGACCAAAAGTATC
2987773 GACACAATTTA
389 GACACAATTTA
* * * *
2987784 AAAAATTATCAACACAATAT-GTTGACGTATTTTGTCATAAAA
1 AAAAAGTATCGACACAATATGGTT-ACATATTCTGTCATAAAA
2987826 TTATCGATAC
Statistics
Matches: 407, Mismatches: 31, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
398 5 0.01
399 402 0.99
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (399 bp):
AAAAAGTATCGACACAATATGGTTACATATTCTGTCATAAAACCGGTATATTCTTACCGGATACA
TTGTAAACTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGAGATCGATACAAATTTAA
ATGTATCGACACTTTATGTGTGCACCTCATTGGGCATTCATTCTGGACAAAAAGTATCGACACAA
ATTTAAAAAGTATCGATACAATATGTTTACCTATTCTCTCATAAAACCAGTATATTTCTACTGGT
TACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCAATACATTT
AATAAATGTATCAAAACTTTATGCGTGCACCTCGTTGGGCATTCAATCTAGACCAAAAGTATCGA
CACAATTTA
Found at i:2988667 original size:51 final size:51
Alignment explanation
Indices: 2988591--2989018 Score: 374
Period size: 51 Copynumber: 7.9 Consensus size: 51
2988581 AAGAAACATG
* *
2988591 TACAACACCCTATTGCTAACTTTTCTCATCTTATACATAATTACATTCAGA
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
*
2988642 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACA-TCAACA
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTC-AGA
* * * * ** *
2988693 TGTATAAGAA-ATATGTACAATAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCA
1 --TACAACAACCTAT-TGC--TAA-CT-TT--T--CTCATCTCAT-ACAT----AATTACATTCA
2988757 GA
50 GA
* ** *
2988759 TACAATAATTTATTGCTAACTTTTCTCATCTCATGCATAATTACATTCAGA
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
**
2988810 TACAACAATTTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
* * * *
2988861 TACAATAATCTATTGCTAACTTTTCTTATCTCATACATAATTACATCATGTAATAGAAACA
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATT--A-CAT-T--CAG----A
* *
2988922 TGTACAACAACCTACTGCTAACTTTTCTCATCTCATACATAATTACATACAGA
1 --TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
*
2988975 TGCAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTAC
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTAC
2989019 TCCTACTATG
Statistics
Matches: 314, Mismatches: 32, Indels: 62
0.77 0.08 0.15
Matches are distributed among these distances:
50 2 0.01
51 188 0.60
52 3 0.01
53 10 0.03
54 3 0.01
55 7 0.02
56 10 0.03
57 6 0.02
58 1 0.00
59 1 0.00
60 5 0.02
61 12 0.04
62 6 0.02
63 38 0.12
64 8 0.03
65 3 0.01
66 9 0.03
67 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.37
Consensus pattern (51 bp):
TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
Found at i:2988884 original size:102 final size:106
Alignment explanation
Indices: 2988590--2989097 Score: 529
Period size: 117 Copynumber: 4.5 Consensus size: 106
2988580 TAAGAAACAT
* * * *
2988590 GTACAACACCCTATTGCTAACTTTTCTCATCTTATACATAATTACATTCAGATACAACAACCTAT
1 GTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAATAATCTAT
*
2988655 TGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAATA
66 TGCTAACTTTTCTCATCTCATACATAA-T---T--ACATGTA-CAG--A-A
* *
2988706 TGTACAATAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAATAATTTA
1 -GTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAATAATCTA
*
2988771 TTGCTAACTTTTCTCATCTCATGCATAATTACAT-T-CAG-A
65 TTGCTAACTTTTCTCATCTCATACATAATTACATGTACAGAA
**
2988810 -TACAACAATTTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAATAATCTAT
1 GTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAATAATCTAT
* *
2988874 TGCTAACTTTTCTTATCTCATACATAATTACATCATGTAATAGAAACA
66 TGCTAACTTTTCTCATCTCATACATAATT--A-CATGT-ACAG--A-A
* * * * *
2988922 TGTACAACAACCTACTGCTAACTTTTCTCATCTCATACATAATTACATACAGATGCAACAACCTA
1 -GTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAATAATCTA
*
2988987 TTGCTAACTTTTCTCATCTCATACATAATTACTCCTACTATGTATAAGAAACA
65 TTGCTAACTTTTCTCATCTCATACAT-A--A-T--TAC-ATGTA-CAG--A-A
* *
2989040 TGTACAACACCCTATTGCTAACTTATCTCATCTCATACATAATTACATTCAGATACAA
1 -GTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAA
2989098 AATTATAAAT
Statistics
Matches: 342, Mismatches: 29, Indels: 39
0.83 0.07 0.10
Matches are distributed among these distances:
102 87 0.25
104 2 0.01
105 3 0.01
106 1 0.00
108 4 0.01
110 1 0.00
111 4 0.01
112 1 0.00
113 1 0.00
114 81 0.24
115 1 0.00
116 1 0.00
117 88 0.26
118 66 0.19
120 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (106 bp):
GTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAATAATCTAT
TGCTAACTTTTCTCATCTCATACATAATTACATGTACAGAA
Found at i:2989083 original size:118 final size:114
Alignment explanation
Indices: 2988810--2989097 Score: 425
Period size: 114 Copynumber: 2.5 Consensus size: 114
2988800 TACATTCAGA
** * *
2988810 TACAACAATTTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAATAATCTATT
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAACAACCTATT
*
2988875 GCTAACTTTTCTTATCTCATACATAATTACATCATGTAATAGAAACATG
66 GCTAACTTTTCTCATCTCATACATAATTACATCATGTAATAGAAACATG
* * *
2988924 TACAACAACCTACTGCTAACTTTTCTCATCTCATACATAATTACATACAGATGCAACAACCTATT
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAACAACCTATT
*
2988989 GCTAACTTTTCTCATCTCATACATAATTACTCCTACTATGT-ATAAGAAACATG
66 GCTAACTTTTCTCATCTCATACATAATTA--CAT-C-ATGTAAT-AGAAACATG
* *
2989042 TACAACACCCTATTGCTAACTTATCTCATCTCATACATAATTACATTCAGATACAA
1 TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAA
2989098 AATTATAAAT
Statistics
Matches: 155, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
114 86 0.55
116 2 0.01
117 3 0.02
118 64 0.41
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (114 bp):
TACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGATACAACAACCTATT
GCTAACTTTTCTCATCTCATACATAATTACATCATGTAATAGAAACATG
Found at i:2991086 original size:16 final size:15
Alignment explanation
Indices: 2991045--2991087 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
2991035 TTTTCTCTCG
*
2991045 CCGTCATCCCCCTTA
1 CCGTCATCCCCCTCA
2991060 CCGTCATCCCCCTCA
1 CCGTCATCCCCCTCA
*
2991075 CCGTTATCCCCCT
1 CCGTCATCCCCCT
2991088 ACTACCATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.12, C:0.56, G:0.07, T:0.26
Consensus pattern (15 bp):
CCGTCATCCCCCTCA
Found at i:2993480 original size:182 final size:183
Alignment explanation
Indices: 2993263--2994098 Score: 1261
Period size: 183 Copynumber: 4.6 Consensus size: 183
2993253 TTATTAAAGT
* * *
2993263 ATCGAGACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACTGGTTTTATCA
1 ATCGATACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCA
* * *
2993328 TACTTTTACTTGTTATATTGTTATGGATCGATAC-TTTTTATAAAGTATCGACACTTTATAGGCA
66 TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCG
2993392 CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
131 CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
** *
2993445 ATCGATACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTACAGACCGGTTTTGTTA
1 ATCGATACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCA
* *
2993510 TATTTTTACCTATTATATTGTTATGGATCGATACATTCTTATAAAGTATCGACACTTTATAGGCG
66 TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCG
*
2993575 CTATTATTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
131 CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
* *
2993628 ATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGGTTTTTTTC
1 ATCGATACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGG-TTTTGTC
* *
2993693 ATATTTTCACATGTTATATTGTTATGGATCGATAC-TTTTTATAAAGTATCGACACTTTATAGGC
65 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGC
2993757 GCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
130 GCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
* * * ** *
2993811 ATCGATACTTTCAACATATCTGGTAGCTCTTTACCGGTTTTTTTATAATGTA-ACCGTTTTTGTC
1 ATCGATACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTG-AGACCGGTTTTGTC
* ** ** *
2993875 ATATTTTTACCTGTTATATTGTTATGTATTAATACATTTTTAT-TTGTATAGACACTTTATAGGC
65 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGC
*
2993939 GCTATTACTGCTTTTCTTTTAAATTTCAAAAGTGTCGATACTTATTTCAATGGA
130 GCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
* * ** ***
2993993 ATCAATACTTTCAACATATCTGGTATCGCTTTACCGGTTTTGTCATAATGTA-A-CTAATTTGTC
1 ATCGATACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTG-AGACCGGTTTTGTC
* *
2994056 ATATTTTTACCTGTTATATTGATATGTATCGATACATTTTTAT
65 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTAT
2994099 TTGTATCGAT
Statistics
Matches: 600, Mismatches: 50, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
181 47 0.08
182 245 0.41
183 270 0.45
184 38 0.06
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (183 bp):
ATCGATACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCA
TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCG
CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
Found at i:2995344 original size:19 final size:19
Alignment explanation
Indices: 2995307--2995344 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2995297 GATTATTAAA
*
2995307 AATTATAAAATAATCTTTT
1 AATTATAAAATAATATTTT
*
2995326 AATTATAAAATATTATTTT
1 AATTATAAAATAATATTTT
2995345 GTTAAATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTATAAAATAATATTTT
Found at i:2996731 original size:16 final size:16
Alignment explanation
Indices: 2996710--2996743 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2996700 TTCCCTAAAA
*
2996710 ATTTTAATTATTATAT
1 ATTTTAAATATTATAT
*
2996726 ATTTTAAATATTTTAT
1 ATTTTAAATATTATAT
2996742 AT
1 AT
2996744 AAACAATCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTAAATATTATAT
Found at i:2999497 original size:29 final size:27
Alignment explanation
Indices: 2999431--2999511 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 27
2999421 CAAGTCTTAA
*
2999431 ATATGTTTTCATTTATTTTAATTCAGTC
1 ATATGTTTT-ATTTATTTTAATTTAGTC
*
2999459 ATAGGCTTTTAATTTATTTTAATTTAGTC
1 ATATG-TTTT-ATTTATTTTAATTTAGTC
* * * *
2999488 CTCCTGTTTTGTTTATTTTTATTT
1 AT-ATGTTTTATTTATTTTAATTT
2999512 TAGCACTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 16 0.37
29 26 0.60
30 1 0.02
ACGTcount: A:0.21, C:0.10, G:0.09, T:0.60
Consensus pattern (27 bp):
ATATGTTTTATTTATTTTAATTTAGTC
Found at i:2999628 original size:18 final size:19
Alignment explanation
Indices: 2999607--2999644 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
2999597 TTAAGTCCTA
*
2999607 TTTTCATGTTTTTTA-ATT
1 TTTTCATGTTGTTTACATT
2999625 TTTTCATGTTGTTTACATT
1 TTTTCATGTTGTTTACATT
2999644 T
1 T
2999645 AGTTCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (19 bp):
TTTTCATGTTGTTTACATT
Found at i:3003872 original size:19 final size:19
Alignment explanation
Indices: 3003839--3003878 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3003829 CACATTTTCT
* *
3003839 CATTCTTTGTCATTTTTTA
1 CATTCTTTATAATTTTTTA
3003858 CATTCTTTATAATTTTTTA
1 CATTCTTTATAATTTTTTA
3003877 CA
1 CA
3003879 CTTATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.03, T:0.60
Consensus pattern (19 bp):
CATTCTTTATAATTTTTTA
Found at i:3003888 original size:21 final size:19
Alignment explanation
Indices: 3003850--3003888 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
3003840 ATTCTTTGTC
*
3003850 ATTTTTTACATTCTTTATA
1 ATTTTTTACATTATTTATA
3003869 ATTTTTTACACTTATATTAT
1 ATTTTTTACA-TTAT-TTAT
3003889 TACTAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 3 0.18
21 4 0.24
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTTACATTATTTATA
Found at i:3005389 original size:10 final size:8
Alignment explanation
Indices: 3005375--3005456 Score: 56
Period size: 9 Copynumber: 9.2 Consensus size: 8
3005365 AAAATGAATG
3005375 AAAAAAGA
1 AAAAAAGA
3005383 AGCAAAAAGA
1 A--AAAAAGA
3005393 AAAAAAGA
1 AAAAAAGA
*
3005401 AAAGAAAAA
1 AAA-AAAGA
*
3005410 AAAGAAAAA
1 AAA-AAAGA
3005419 AAAAAAGGA
1 AAAAAA-GA
*
3005428 AAAAAATA
1 AAAAAAGA
*
3005436 ATAAATAATA
1 A-AAA-AAGA
3005446 AAAATAAGA
1 AAAA-AAGA
3005455 AA
1 AA
3005457 GATTGAAAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
8 16 0.25
9 35 0.55
10 13 0.20
ACGTcount: A:0.82, C:0.01, G:0.11, T:0.06
Consensus pattern (8 bp):
AAAAAAGA
Found at i:3005409 original size:14 final size:14
Alignment explanation
Indices: 3005387--3005430 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 14
3005377 AAAAGAAGCA
3005387 AAAAG-AAAAAAAG
1 AAAAGAAAAAAAAG
3005400 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
*
3005414 AAAA-AAAAAAAGG
1 AAAAGAAAAAAAAG
3005427 AAAA
1 AAAA
3005431 AAATAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:3005411 original size:22 final size:21
Alignment explanation
Indices: 3005375--3005433 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
3005365 AAAATGAATG
*
3005375 AAAAAAGAAGCAAAAAGAAAAA
1 AAAAAAGAA-AAAAAAGAAAAA
3005397 AAGAAAAGAAAAAAAAGAAAAA
1 AA-AAAAGAAAAAAAAGAAAAA
*
3005419 AAAAAAGGAAAAAAA
1 AAAAAAGAAAAAAAA
3005434 TAATAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 12 0.35
22 15 0.44
23 7 0.21
ACGTcount: A:0.85, C:0.02, G:0.14, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAAAGAAAAA
Found at i:3005431 original size:14 final size:13
Alignment explanation
Indices: 3005375--3005433 Score: 73
Period size: 14 Copynumber: 4.3 Consensus size: 13
3005365 AAAATGAATG
*
3005375 AAAAAAGAAGCAAA
1 AAAAAAAAAG-AAA
3005389 AAGAAAAAAAGAAA
1 AA-AAAAAAAGAAA
3005403 AGAAAAAAAAGAAA
1 A-AAAAAAAAGAAA
*
3005417 AAAAAAAAGGAAA
1 AAAAAAAAAGAAA
3005430 AAAA
1 AAAA
3005434 TAATAAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
13 15 0.37
14 18 0.44
15 8 0.20
ACGTcount: A:0.85, C:0.02, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:3007643 original size:20 final size:18
Alignment explanation
Indices: 3007616--3007671 Score: 71
Period size: 17 Copynumber: 3.1 Consensus size: 18
3007606 AGATGAAAAA
3007616 AGAAAAAATGAATAAAATG
1 AGAAAAAATGAA-AAAATG
3007635 AGAAAAAAATGAAAAAA--
1 AG-AAAAAATGAAAAAATG
3007652 ATGAAAAAATGAAAAAATG
1 A-GAAAAAATGAAAAAATG
3007671 A
1 A
3007672 AAACGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 15 0.45
18 1 0.03
19 7 0.21
20 10 0.30
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.12
Consensus pattern (18 bp):
AGAAAAAATGAAAAAATG
Found at i:3007682 original size:8 final size:8
Alignment explanation
Indices: 3007608--3007674 Score: 82
Period size: 8 Copynumber: 7.9 Consensus size: 8
3007598 TCTCTTGAAG
3007608 ATGAAAAA
1 ATGAAAAA
3007616 A-GAAAAA
1 ATGAAAAA
3007623 ATGAATAAA
1 ATGAA-AAA
3007632 ATGAGAAAAAA
1 AT--G-AAAAA
3007643 ATGAAAAAA
1 ATG-AAAAA
3007652 ATGAAAAA
1 ATGAAAAA
3007660 ATGAAAAA
1 ATGAAAAA
3007668 ATGAAAA
1 ATGAAAA
3007675 CGAAAAAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.13
8 24 0.44
9 15 0.28
11 6 0.11
12 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (8 bp):
ATGAAAAA
Found at i:3007683 original size:9 final size:9
Alignment explanation
Indices: 3007618--3007674 Score: 73
Period size: 9 Copynumber: 6.3 Consensus size: 9
3007608 ATGAAAAAAG
3007618 AAAAAATGA
1 AAAAAATGA
*
3007627 ATAAAATGAGA
1 AAAAAAT--GA
3007638 AAAAAATGA
1 AAAAAATGA
3007647 AAAAAATG-
1 AAAAAATGA
3007655 AAAAAATG-
1 AAAAAATGA
3007663 AAAAAATGA
1 AAAAAATGA
3007672 AAA
1 AAA
3007675 CGAAAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
8 16 0.37
9 19 0.44
11 8 0.19
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
AAAAAATGA
Found at i:3007703 original size:15 final size:14
Alignment explanation
Indices: 3007646--3007694 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 14
3007636 GAAAAAAATG
3007646 AAAAAAATGAAAAA
1 AAAAAAATGAAAAA
*
3007660 ATGAAAAAATGAAAACG
1 A--AAAAAATGAAAA-A
3007677 AAAAAAAT-AAAAA
1 AAAAAAATGAAAAA
3007690 AAAAA
1 AAAAA
3007695 TGAATAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.17
14 5 0.17
15 7 0.23
16 12 0.40
17 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.08, T:0.08
Consensus pattern (14 bp):
AAAAAAATGAAAAA
Found at i:3008557 original size:22 final size:22
Alignment explanation
Indices: 3008530--3008578 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
3008520 AGAATTGATA
3008530 AAGATTTCTTTCCACAGAAAGG
1 AAGATTTCTTTCCACAGAAAGG
*
3008552 AAGATTTCTTTCCATAGAAAGG
1 AAGATTTCTTTCCACAGAAAGG
3008574 AAGAT
1 AAGAT
3008579 GGAATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (22 bp):
AAGATTTCTTTCCACAGAAAGG
Found at i:3009655 original size:36 final size:36
Alignment explanation
Indices: 3009615--3009707 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
3009605 GCCGTCACCG
* *
3009615 AAGAGTCGTGAAGAAAATCCATCTGAAGCCTTCACA
1 AAGAGTAGTGAAGAAAATCAATCTGAAGCCTTCACA
* *
3009651 AAGAGTAGTGAAGAAAATCAATCTTAAGCCTTCACCG
1 AAGAGTAGTGAAGAAAATCAATCTGAAGCCTTCA-CA
* *
3009688 AAGAGTAGTCAAGCAAATCA
1 AAGAGTAGTGAAGAAAATCA
3009708 CTCCCCCAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
36 31 0.62
37 19 0.38
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (36 bp):
AAGAGTAGTGAAGAAAATCAATCTGAAGCCTTCACA
Found at i:3009706 original size:37 final size:37
Alignment explanation
Indices: 3009593--3009707 Score: 151
Period size: 37 Copynumber: 3.1 Consensus size: 37
3009583 CCTTCGAAGT
* * *
3009593 AATCAATATTAAGCCGTCACCGAAGAGTCGTGAAGAA
1 AATCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGAA
* * *
3009630 AATCCATCTGAAGCCTTCA-CAAAGAGTAGTGAAGAA
1 AATCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGAA
* *
3009666 AATCAATCTTAAGCCTTCACCGAAGAGTAGTCAAGCA
1 AATCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGAA
3009703 AATCA
1 AATCA
3009708 CTCCCCCAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
36 32 0.48
37 34 0.52
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (37 bp):
AATCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGAA
Found at i:3009988 original size:115 final size:111
Alignment explanation
Indices: 3009713--3010149 Score: 513
Period size: 112 Copynumber: 3.9 Consensus size: 111
3009703 AATCACTCCC
*
3009713 CCAGATCTTATATTCCCTTTCA-AA-AA-AGCGAACAAATCCCTCTCTTCCAAGATTTGATATTC
1 CCAGATCTGATATTCCC-TTCAGAAGAAGAG-GAACAAATCCCTCTCTTCCAAGATTTGATATTC
* * ** * * *
3009775 CCTGAGTGACAGCAGAACAAGCCTGCCCTGATTCAATGGATCAAC-CC
64 CCTGAGTGACAACGGAACAAATCTACCCTAATTCAATGGATCAACTCT
* * * * * *
3009822 CCACTATCTGATATTCCCTTCAGAAGAAGCGGAATATATCCCTCTTTTCCAAGGTTTGATATTCC
1 CCA-GATCTGATATTCCCTTCAGAAGAAGAGGAACAAATCCCTCTCTTCCAAGATTTGATATTCC
* * *
3009887 CTGAGTGACAACGGAATAAATCTGCCCTAATTCAATGGGTCACATCTCTTT
65 CTGAGTGACAACGGAACAAATCTACCCTAATTCAATGGATCA-A-CTC--T
* *
3009938 CCAGATCTGATATTCCCTTCAGAAGAAGAGGAACATATCCCACTCTTCCAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAAGAAGAGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCC
* * ** *
3010003 TGAGTGACAGCGAAACAAATCTACCCCGATTCAATGGATCAACTCA
66 TGAGTGACAACGGAACAAATCTACCCTAATTCAATGGATCAACTCT
* * *
3010049 CTCAGATCTGATATTTCCTTTAGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCC
1 C-CAGATCTGATATTCCCTTCAGAAGAAGAGGAACAAATCCCTCTCTTCCAAGATTTGATATTCC
* *
3010114 CTGAGTGACAACGGAACAAGTCTACCATAATTCAAT
65 CTGAGTGACAACGGAACAAATCTACCCTAATTCAAT
3010150 CTTCCCTTAG
Statistics
Matches: 278, Mismatches: 40, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
109 7 0.03
110 14 0.05
111 68 0.24
112 90 0.32
113 4 0.01
114 2 0.01
115 90 0.32
116 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (111 bp):
CCAGATCTGATATTCCCTTCAGAAGAAGAGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCC
TGAGTGACAACGGAACAAATCTACCCTAATTCAATGGATCAACTCT
Found at i:3010104 original size:112 final size:111
Alignment explanation
Indices: 3009714--3010149 Score: 511
Period size: 115 Copynumber: 3.9 Consensus size: 111
3009704 ATCACTCCCC
* *
3009714 CAGATCTTATATTCCCTTTCA-AAAAAGC-GAACAAATCCCTCTCTTCCAAGATTTGATATTCCC
1 CAGATCTGATATTCCC-TTCAGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCC
* ** * *
3009777 TGAGTGACAGC-AGAACAAGCCTGCCCTGATTCAATGGATCAAC-CCC
65 TGAGTGACAACGA-AACAAATCTACCCTGATTCAATGGATCAACTCCT
* * * * *
3009823 CACTATCTGATATTCCCTTCAGAAGAAGCGGAATATATCCCTCTTTTCCAAGGTTTGATATTCCC
1 CA-GATCTGATATTCCCTTCAGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCC
* * * * * *
3009888 TGAGTGACAACGGAATAAATCTGCCCTAATTCAATGGGTCACATCTCTTT
65 TGAGTGACAACGAAACAAATCTACCCTGATTCAATGGATCA-A-CTC-CT
* * *
3009938 CCAGATCTGATATTCCCTTCAGAAGAAGAGGAACATATCCCACTCTTCCAAGATTTGATATTCCC
1 -CAGATCTGATATTCCCTTCAGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCC
* *
3010003 TGAGTGACAGCGAAACAAATCTACCCCGATTCAATGGATCAACTCACT
65 TGAGTGACAACGAAACAAATCTACCCTGATTCAATGGATCAACTC-CT
* *
3010051 CAGATCTGATATTTCCTTTAGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCT
1 CAGATCTGATATTCCCTTCAGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCT
* * * *
3010116 GAGTGACAACGGAACAAGTCTACCATAATTCAAT
66 GAGTGACAACGAAACAAATCTACCCTGATTCAAT
3010150 CTTCCCTTAG
Statistics
Matches: 276, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
109 6 0.02
110 18 0.07
111 64 0.23
112 89 0.32
113 5 0.02
114 2 0.01
115 90 0.33
116 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (111 bp):
CAGATCTGATATTCCCTTCAGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCT
GAGTGACAACGAAACAAATCTACCCTGATTCAATGGATCAACTCCT
Found at i:3010114 original size:227 final size:225
Alignment explanation
Indices: 3009713--3010149 Score: 621
Period size: 227 Copynumber: 1.9 Consensus size: 225
3009703 AATCACTCCC
* *
3009713 CCAGATCTTATATTCCCTTTCAAAAAAGCGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCT
1 CCAGATCTGATATTCCCTTTCAAAAAAGCGAACAAATCCCACTCTTCCAAGATTTGATATTCCCT
* * * *
3009778 GAGTGACAGCAGAACAAGCCTGCCCTGATTCAATGGATCAACCCCCACTATCTGATATTCCCTTC
66 GAGTGACAGCAGAACAAACCTACCCCGATTCAATGGATCAACCCCCACGATCTGATATTCCCTTC
* * * * *
3009843 AGAAGAAGCGGAATATATCCCTCTTTTCCAAGGTTTGATATTCCCTGAGTGACAACGGAATAAAT
131 AGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAACGGAACAAAT
* *
3009908 CTGCCCTAATTCAATGGGTCACATCTCTTT
196 CTACCATAATTCAATGGGTCACATCTCTTT
*
3009938 CCAGATCTGATATTCCC-TTCAGAAGAAGAG-GAACATATCCCACTCTTCCAAGATTTGATATTC
1 CCAGATCTGATATTCCCTTTCA-AA-AA-AGCGAACAAATCCCACTCTTCCAAGATTTGATATTC
* *
3010001 CCTGAGTGACAGC-GAAACAAATCTACCCCGATTCAATGGATCAACTCACTCA-GATCTGATATT
63 CCTGAGTGACAGCAG-AACAAACCTACCCCGATTCAATGGATCAAC-C-CCCACGATCTGATATT
* *
3010064 TCCTTTAGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAACGGA
125 CCCTTCAGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAACGGA
*
3010129 ACAAGTCTACCATAATTCAAT
190 ACAAATCTACCATAATTCAAT
3010150 CTTCCCTTAG
Statistics
Matches: 187, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
224 4 0.02
225 19 0.10
226 72 0.39
227 89 0.48
228 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (225 bp):
CCAGATCTGATATTCCCTTTCAAAAAAGCGAACAAATCCCACTCTTCCAAGATTTGATATTCCCT
GAGTGACAGCAGAACAAACCTACCCCGATTCAATGGATCAACCCCCACGATCTGATATTCCCTTC
AGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAACGGAACAAAT
CTACCATAATTCAATGGGTCACATCTCTTT
Found at i:3010301 original size:136 final size:137
Alignment explanation
Indices: 3010051--3010351 Score: 435
Period size: 136 Copynumber: 2.2 Consensus size: 137
3010041 TCAACTCACT
* * * * ** *
3010051 CAGATCTGATATTTCCTTTAGAAGAAGCGGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCT
1 CAGATATGATAATCCCTTCAGAAGAAGCAAAACAAATCCATCTCTTCCAAGATTTGATATTCCCT
*
3010116 GAGTGACAACGGAACAAGTCTACCATAATTCAATCTTCCCTTAGTGACAGC-AAATGAATCACCT
66 GAGTGACAACGGAACAAGTCTACCATAATTCAATCTTCCCTGAGTGACAGCGAAATGAATCACCT
3010180 CTCCTCC
131 CTCCTCC
*
3010187 CATATATGATAATCCCTTCAGAAGAAGCAAAACAAATCCATCTCCTT-CAAGATTTGATATTCCC
1 CAGATATGATAATCCCTTCAGAAGAAGCAAAACAAATCCATCT-CTTCCAAGATTTGATATTCCC
* * * * *
3010251 TGAGTGACAGCGGAACAAGTCTGCCCTGATTCAATCTTCCCTGAGTGACAGCGGAATGAATCACC
65 TGAGTGACAACGGAACAAGTCTACCATAATTCAATCTTCCCTGAGTGACAGCGAAATGAATCACC
3010316 TCTCCTCC
130 TCTCCTCC
* *
3010324 CAGATCTGATAATCCCTTCAGAGGAAGC
1 CAGATATGATAATCCCTTCAGAAGAAGC
3010352 GGAACGAATC
Statistics
Matches: 146, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
136 99 0.68
137 47 0.32
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (137 bp):
CAGATATGATAATCCCTTCAGAAGAAGCAAAACAAATCCATCTCTTCCAAGATTTGATATTCCCT
GAGTGACAACGGAACAAGTCTACCATAATTCAATCTTCCCTGAGTGACAGCGAAATGAATCACCT
CTCCTCC
Found at i:3010602 original size:27 final size:28
Alignment explanation
Indices: 3010551--3010620 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
3010541 GCCCCCAAAA
* * *
3010551 TTTTATATTTATGATCGGGACCCTTAAT
1 TTTTATATTTATAATCGAGAACCTTAAT
3010579 TTTTATATTTATAAT-GAGAACCTTAAT
1 TTTTATATTTATAATCGAGAACCTTAAT
3010606 TTTTATATTTATAAT
1 TTTTATATTTATAAT
3010621 TGGGGCTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 25 0.64
28 14 0.36
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (28 bp):
TTTTATATTTATAATCGAGAACCTTAAT
Found at i:3010632 original size:28 final size:27
Alignment explanation
Indices: 3010551--3010634 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
3010541 GCCCCCAAAA
* *
3010551 TTTTATATTTATGATCGGGACCCTTAAT
1 TTTTATATTTATAATTGGGA-CCTTAAT
*
3010579 TTTTATATTTATAA-TGAGAACCTTAAT
1 TTTTATATTTATAATTG-GGACCTTAAT
*
3010606 TTTTATATTTATAATTGGGGCTCTTAAT
1 TTTTATATTTATAATTGGGAC-CTTAAT
3010634 T
1 T
3010635 GTTTTAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
27 24 0.50
28 24 0.50
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (27 bp):
TTTTATATTTATAATTGGGACCTTAAT
Found at i:3011081 original size:4 final size:4
Alignment explanation
Indices: 3011072--3011105 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
3011062 TAATGCATGT
3011072 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
3011106 GCATAGTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:3011168 original size:14 final size:14
Alignment explanation
Indices: 3011149--3011188 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
3011139 AATGGGAAGT
3011149 AATCCCTGCA-AATA
1 AATCCCTGCATAA-A
3011163 AATCCCTGCATAAA
1 AATCCCTGCATAAA
*
3011177 AATCTCTGCATA
1 AATCCCTGCATA
3011189 TAGACAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 22 0.92
15 2 0.08
ACGTcount: A:0.40, C:0.28, G:0.07, T:0.25
Consensus pattern (14 bp):
AATCCCTGCATAAA
Found at i:3018988 original size:5 final size:5
Alignment explanation
Indices: 3018978--3019011 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
3018968 CTGTAAAAAC
* *
3018978 AATAA AATAA AACAA AATAA AATAA AACAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA
3019012 GATAAATAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:3018998 original size:15 final size:15
Alignment explanation
Indices: 3018978--3019011 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
3018968 CTGTAAAAAC
3018978 AATAAAATAAAACAA
1 AATAAAATAAAACAA
3018993 AATAAAATAAAACAA
1 AATAAAATAAAACAA
3019008 AATA
1 AATA
3019012 GATAAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (15 bp):
AATAAAATAAAACAA
Found at i:3019475 original size:41 final size:41
Alignment explanation
Indices: 3019412--3019490 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
3019402 AAGGTCTTAT
* *
3019412 AGATCACCCGAAGGACTTATCATCTTGCTCGAAAGACTGAC
1 AGATCACCCGAAGGACTTATCATCATGCTCAAAAGACTGAC
* *
3019453 AGAT-ACCTGAAGGATTTAATCATCATGCTCAAAAGACT
1 AGATCACCCGAAGGACTT-ATCATCATGCTCAAAAGACT
3019491 TAATGATGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 11 0.33
41 22 0.67
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (41 bp):
AGATCACCCGAAGGACTTATCATCATGCTCAAAAGACTGAC
Found at i:3019683 original size:258 final size:259
Alignment explanation
Indices: 3019213--3020664 Score: 2205
Period size: 258 Copynumber: 5.6 Consensus size: 259
3019203 GAGCCGAAGG
* * *
3019213 ATCATTATGCTCGAAAGACTTACCGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTTCTA
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTA
3019278 GGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATG
66 GGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATG
3019343 AGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTGT-CTGAAGGT
131 AGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTT-TCCTGAAGGT
** *
3019407 CTTATAGATCACCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGAT-ACCTGAAGGATTTA
195 CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
* * *
3019471 ATCATCATGCTCAAAAGACTTAATGATGGCCCGAAGAACTTACCAATTTTGGAAATAGTTTACTA
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTA
*
3019536 GGTAAGAAACTTTGGAAATCGCTTTTTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATG
66 GGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATG
* *
3019601 AGAAACTTTAAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTTCCTGAAGGCC
131 AGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTTCCTGAAGGTC
*
3019666 TTAAAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
196 TTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
* * *
3019730 ATCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGAATTACCAATTTTGGAAATAGTTTACTG
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTA
* * *
3019795 GGTAATAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCAGAAATTACTAAATG
66 GGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATG
* * * * *
3019860 AGAAATTTTGAAAATCACTTTCTCATTTTTCATATTA-CATATGAAGGCATCTTGCCTGAAGGTC
131 AGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTTCCTGAAGGTC
* * * *
3019924 TTATAGATGGCCCGAAGGACTTATCATCTTTCTCGAAAGACTAAAAGATGA--CTAAGGATTTA
196 TTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
* * ** *
3019986 ATTATCCTGCTCGAAAGACTTACT-ATTTACCCGAAGGACTTAACAATTTTGGAAATAGTTTACT
1 ATCATCATGCTCGAAAGACTTACTGA-TGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACT
* ** *
3020050 AGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTTGTTTTCTAAAAATACTAAAT
65 AGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAAT
* **
3020115 GAGAAACTTTGAAAATCGCTTTTTCATTTTTCAAATTATCATATGAAAGCATC-TTAGTAGAAGG
130 GAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTTCCT-GAAGG
* *
3020179 TCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCT-TCAGATGACCCGAAGGATTT
194 TCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTT
3020243 A
259 A
* *
3020244 ATCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACCAATTTTGGATATAG---ACTA
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTA
* *
3020306 GGTAAAAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTAAATG
66 GGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATG
* **
3020371 AGAAACTTTGAAAATCGCTTTATCATTTTTCAAATTAT--T-TGAAAGCATCTTTCCCAAAGGTC
131 AGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTTCCTGAAGGTC
* * *
3020433 TTATAGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGATTGACAGATGACCCGAAGTATTTA
196 TTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
* * * * *
3020497 ATCATCATGCTCAAAAGAGTTACTGATAGCCCGGAGCA-TTGACCAATTTTGGAAATAGTTTACT
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT-ACCAATTTTGGAAATAGTTTACT
* * *
3020561 AGGTAAGAAACTTTAGAAATCGCTTTCTTACTTTTAAAAAATTTCATTTTCTGGAAATACTAAAT
65 AGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAAT
* *
3020626 AAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTAT
130 GAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTAT
3020665 ATGAAAACAA
Statistics
Matches: 1081, Mismatches: 99, Indels: 30
0.89 0.08 0.02
Matches are distributed among these distances:
252 57 0.05
253 70 0.06
255 103 0.10
256 263 0.24
257 61 0.06
258 360 0.33
259 167 0.15
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (259 bp):
ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTA
GGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATG
AGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTTCCTGAAGGTC
TTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
Found at i:3019715 original size:41 final size:42
Alignment explanation
Indices: 3019670--3019767 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 42
3019660 AAGGCCTTAA
*
3019670 AGATGGCCCGAAGGACTT-ATCATCTTGCTCGAAAGACTGAC
1 AGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGACTGAC
* * *
3019711 AGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTAC
1 AGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGACTGAC
* *
3019753 TGATGGCCTGAAGGA
1 AGATGGCCCGAAGGA
3019768 ATTACCAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (42 bp):
AGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGACTGAC
Found at i:3020235 original size:40 final size:41
Alignment explanation
Indices: 3020180--3020285 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 41
3020170 AGTAGAAGGT
* * *
3020180 CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGG
1 CTTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* *
3020221 CTT-CAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGA
* *
3020262 CTTACTGATGGCCTGAAGGACTTA
1 CTTACAGATGGCCCGAAGGACTTA
3020286 CCAATTTTGG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 16 0.30
41 23 0.43
42 15 0.28
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (41 bp):
CTTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:3026690 original size:20 final size:19
Alignment explanation
Indices: 3026653--3026701 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
3026643 TTTAAATCCT
*
3026653 TTTTCAAAAGTTCATTTTG
1 TTTTCAAAAGTCCATTTTG
3026672 ATTTTCAAAA-TCCATTTTTG
1 -TTTTCAAAAGTCCA-TTTTG
*
3026692 CTTTCAAAAG
1 TTTTCAAAAG
3026702 AAAATCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (19 bp):
TTTTCAAAAGTCCATTTTG
Found at i:3032283 original size:6 final size:6
Alignment explanation
Indices: 3032269--3032334 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
3032259 ACTTGACCTG
* * * * *
3032269 TTCTAT TTCTTT TTCTTT TTCTTC TCCTTT TT-TCTT CTCTTT TTCTCT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT
* *
3032317 CTCTTT TCCTTT TTCTTT
1 TTCTTT TTCTTT TTCTTT
3032335 CTTTCTATCC
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
5 1 0.02
6 43 0.96
7 1 0.02
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.73
Consensus pattern (6 bp):
TTCTTT
Found at i:3032302 original size:13 final size:12
Alignment explanation
Indices: 3032284--3032323 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
3032274 TTTCTTTTTC
3032284 TTTTTCTTCTCCT
1 TTTTTCTTCT-CT
3032297 TTTTTCTTCTC-
1 TTTTTCTTCTCT
3032308 TTTTTCTCTCTCT
1 TTTTTCT-TCTCT
3032321 TTT
1 TTT
3032324 CCTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.28
12 5 0.20
13 13 0.52
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTCTTCTCT
Found at i:3032310 original size:30 final size:28
Alignment explanation
Indices: 3032274--3032338 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 28
3032264 ACCTGTTCTA
* *
3032274 TTTCTTTTTCTTTTTCTTCTCCTTTTTTC
1 TTTCTTTTTCTCTCTCTTCTCC-TTTTTC
*
3032303 TTCTCTTTTTCTCTCTCTTTTCCTTTTTC
1 TT-TCTTTTTCTCTCTCTTCTCCTTTTTC
3032332 TTTCTTT
1 TTTCTTT
3032339 CTATCCTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 5 0.16
29 10 0.31
30 17 0.53
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTCTTTTTCTCTCTCTTCTCCTTTTTC
Found at i:3032333 original size:24 final size:23
Alignment explanation
Indices: 3032274--3032334 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
3032264 ACCTGTTCTA
3032274 TTTCTTTTTCTTTTTCTTCTCCT
1 TTTCTTTTTCTTTTTCTTCTCCT
3032297 TTT-TTCTTCTCTTTTTC-TCTCTCT
1 TTTCTT-TT-TCTTTTTCTTCTC-CT
3032321 TTTCCTTTTTCTTT
1 TTT-CTTTTTCTTT
3032335 CTTTCTATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
22 2 0.06
23 9 0.27
24 18 0.55
25 2 0.06
26 2 0.06
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTCTTTTTCTTTTTCTTCTCCT
Found at i:3034864 original size:87 final size:88
Alignment explanation
Indices: 3034697--3034892 Score: 241
Period size: 87 Copynumber: 2.2 Consensus size: 88
3034687 AACGAAAATG
* * * * * * *
3034697 CATAACAGTGAATTATTGGCAGAAATGTGTCATAAATGAAAATGCATAATGGTGCGTTATTGGCA
1 CATAACAGTGCATTATTGGCAGAAATATGCCATAAATGAAAATGCATAACGATGCATTATTCGCA
*
3034762 GAAAGGTGCCATAAATGAAAACA
66 GAAAGATGCCATAAATGAAAACA
* **
3034785 CATAACAATGCATTATTGGCAGAAATAT-CCATAAATGGTAATGCATAACGATGCATTATTCGCA
1 CATAACAGTGCATTATTGGCAGAAATATGCCATAAATGAAAATGCATAACGATGCATTATTCGCA
* * **
3034849 TAAAGATGCCATAAATGTAAATG
66 GAAAGATGCCATAAATGAAAACA
*
3034872 CATAACGGTGCATTATTGGCA
1 CATAACAGTGCATTATTGGCA
3034893 TAAAAGGTAC
Statistics
Matches: 91, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
87 66 0.73
88 25 0.27
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (88 bp):
CATAACAGTGCATTATTGGCAGAAATATGCCATAAATGAAAATGCATAACGATGCATTATTCGCA
GAAAGATGCCATAAATGAAAACA
Found at i:3034896 original size:44 final size:44
Alignment explanation
Indices: 3034684--3034892 Score: 233
Period size: 44 Copynumber: 4.8 Consensus size: 44
3034674 TGTTACCGAA
* * * *
3034684 ATAAACGAAAATGCATAACAGTGAATTATTGGCAGAAATG-TGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAA-GATGCC
* * *
3034728 ATAAATGAAAATGCATAATGGTGCGTTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGATGCC
** ** *
3034772 ATAAATGAAAACACATAACAATGCATTATTGGCAGAAATAT-CC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGATGCC
** * * *
3034815 ATAAATGGTAATGCATAACGATGCATTATTCGCATAAAGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGATGCC
*
3034859 ATAAATGTAAATGCATAACGGTGCATTATTGGCA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCA
3034893 TAAAAGGTAC
Statistics
Matches: 137, Mismatches: 26, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
43 36 0.26
44 101 0.74
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGATGCC
Found at i:3036497 original size:20 final size:20
Alignment explanation
Indices: 3036464--3036501 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3036454 AATCCCGAAT
3036464 ATTTAATTTCAATTAATTAA
1 ATTTAATTTCAATTAATTAA
3036484 ATTTAGATTT-AATTAATT
1 ATTTA-ATTTCAATTAATT
3036502 TGAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTAATTTCAATTAATTAA
Found at i:3037369 original size:25 final size:25
Alignment explanation
Indices: 3037335--3037395 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
3037325 AGTTGTTCCG
* *
3037335 CCCCTAGACCCCGCAAGGGGCTCCA
1 CCCCTTGACCCCGCAAAGGGCTCCA
* * *
3037360 CCCCTTGACCCTGCAAAGGGCTTCT
1 CCCCTTGACCCCGCAAAGGGCTCCA
*
3037385 CCCATTGACCC
1 CCCCTTGACCC
3037396 TCATTAGCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.18, C:0.46, G:0.20, T:0.16
Consensus pattern (25 bp):
CCCCTTGACCCCGCAAAGGGCTCCA
Found at i:3046706 original size:72 final size:72
Alignment explanation
Indices: 3046588--3046734 Score: 242
Period size: 72 Copynumber: 2.0 Consensus size: 72
3046578 TTATTATAGA
**
3046588 TGGTTCGTGAAGAAATTCTCAATGTTAGCTTCGTCGCTAACTAAGTTATTACAA-AAAGATGTGC
1 TGGTTCGTGAAGAAATTCTCAATGTTAGCTTCGTCGCTAAAAAAGTTATTA-AAGAAAGATGTGC
3046652 CTTTTGTT
65 CTTTTGTT
* *
3046660 TGGTTCGTGAAGAACTTTTCAATGTTAGCTTCGTCGCTAAAAAAGTTATTAAAGAAAGATGTGCC
1 TGGTTCGTGAAGAAATTCTCAATGTTAGCTTCGTCGCTAAAAAAGTTATTAAAGAAAGATGTGCC
3046725 TTTTGTT
66 TTTTGTT
3046732 TGG
1 TGG
3046735 ACAGAGAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 2 0.03
72 68 0.97
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (72 bp):
TGGTTCGTGAAGAAATTCTCAATGTTAGCTTCGTCGCTAAAAAAGTTATTAAAGAAAGATGTGCC
TTTTGTT
Found at i:3050161 original size:44 final size:44
Alignment explanation
Indices: 3050111--3050376 Score: 358
Period size: 44 Copynumber: 6.0 Consensus size: 44
3050101 TGTTACCGAA
* *
3050111 ATAAATGAAAATGCATAACGATGCATTATTGGAAAAAATGTGCC
1 ATAAATGAAAATGCATAACGATGCATTATTGGAAGAAAGGTGCC
* * *
3050155 ATAAATGAAAATGCATAACGATGTATTATTGGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGATGCATTATTGGAAGAAAGGTGCC
*
3050199 ATAAATGAAAATGCATAACGATGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGATGCATTATTGGAAGAAAGGTGCC
* *
3050243 ATAAATGAAAATGCATAACTG-TGCATTATTGGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAAC-GATGCATTATTGGAAGAAAGGTGCC
* * *
3050287 ATAAATGAAAATGCTTAACGGTGCATTATT-GATAGAAAGATGCC
1 ATAAATGAAAATGCATAACGATGCATTATTGGA-AGAAAGGTGCC
* *
3050331 ATAAATAAAAATGCATAACGGTGCATTATTGGCATA-AAAGGTGCC
1 ATAAATGAAAATGCATAACGATGCATTATTGG-A-AGAAAGGTGCC
3050376 A
1 A
3050377 CTCATGGTAT
Statistics
Matches: 202, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
43 2 0.01
44 186 0.92
45 11 0.05
46 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGATGCATTATTGGAAGAAAGGTGCC
Found at i:3058667 original size:3 final size:3
Alignment explanation
Indices: 3058638--3058687 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
3058628 GGCTTGGAAA
3058638 AAT AAT AA- AAT AA- AAT AGAT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT
3058683 AAT AA
1 AAT AA
3058688 ATCCGGACGA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.09
3 34 0.79
4 4 0.09
5 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:3059895 original size:18 final size:20
Alignment explanation
Indices: 3059874--3059918 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
3059864 AGATAATAAA
3059874 AAAATTTAA-TAAAA-ATAT
1 AAAATTTAATTAAAATATAT
**
3059892 AAAAAATAATTAAAATATAT
1 AAAATTTAATTAAAATATAT
3059912 AAAATTT
1 AAAATTT
3059919 TGAAATTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 7 0.33
19 5 0.24
20 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTTAATTAAAATATAT
Found at i:3059897 original size:20 final size:20
Alignment explanation
Indices: 3059868--3059918 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
3059858 AATATTAGAT
3059868 AATA-AAAAAATTTAATAAA
1 AATATAAAAAATTTAATAAA
*
3059887 AATATAAAAAA--TAATTAA
1 AATATAAAAAATTTAATAAA
*
3059905 AATATATAAAATTT
1 AATATAAAAAATTT
3059919 TGAAATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 16 0.59
19 4 0.15
20 7 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AATATAAAAAATTTAATAAA
Found at i:3061954 original size:21 final size:21
Alignment explanation
Indices: 3061930--3061974 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
3061920 CTAAAAATGT
*
3061930 TAAAAATATTAATATTTTAAA
1 TAAAAATAATAATATTTTAAA
3061951 TAAAAATAATAATATTTTAAA
1 TAAAAATAATAATATTTTAAA
3061972 TAA
1 TAA
3061975 TTTTTATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAAA
Found at i:3063119 original size:61 final size:56
Alignment explanation
Indices: 3063054--3063217 Score: 176
Period size: 61 Copynumber: 2.9 Consensus size: 56
3063044 GCTCCATTAT
* **
3063054 TAATTAATTTAATTAAATAAGGACATAATTGAAAGAAGTTAAACTTATTAGGCTCAGTTAG
1 TAATTAATTTAATTAAATAAGGACATAATTGAAAGAAGCTAAACTTATTAAACTC-----G
*
3063115 TAATTAA-TTAATTTAAATAAGGACCTAATT-ATAAGAAGCTAAACTT-TCTAAACTCG
1 TAATTAATTTAA-TTAAATAAGGACATAATTGA-AAGAAGCTAAACTTAT-TAAACTCG
*
3063171 --ATTAATTTAATTAAATAAGGACTTAATTGAAAGAAGCTAAACTTATT
1 TAATTAATTTAATTAAATAAGGACATAATTGAAAGAAGCTAAACTTATT
3063218 TGATTAAATT
Statistics
Matches: 92, Mismatches: 5, Indels: 19
0.79 0.04 0.16
Matches are distributed among these distances:
54 37 0.40
55 6 0.07
56 1 0.01
60 6 0.07
61 42 0.46
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.35
Consensus pattern (56 bp):
TAATTAATTTAATTAAATAAGGACATAATTGAAAGAAGCTAAACTTATTAAACTCG
Found at i:3063483 original size:3 final size:3
Alignment explanation
Indices: 3063475--3063535 Score: 88
Period size: 3 Copynumber: 20.3 Consensus size: 3
3063465 ATCTCGTTAA
* *
3063475 TAT TAT TAT TAT TAT TAAT TAT TAT T-T AAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3063520 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
3063536 TTCGCTGCCC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 48 0.92
4 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:3064644 original size:19 final size:20
Alignment explanation
Indices: 3064620--3064691 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 20
3064610 ATGCAAAAAT
3064620 GGTATCGATACCATGGTA-G
1 GGTATCGATACCATGGTAGG
*
3064639 GGTATC-AGTACCATAGTATGG
1 GGTATCGA-TACCATGGTA-GG
* * *
3064660 TAGTATCAATTCCATGGTAGG
1 -GGTATCGATACCATGGTAGG
3064681 GGTATCGATAC
1 GGTATCGATAC
3064692 TGAGGAGCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 1 0.02
19 15 0.37
20 8 0.20
21 3 0.07
22 13 0.32
23 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATGGTAGG
Found at i:3065101 original size:56 final size:56
Alignment explanation
Indices: 3065014--3065564 Score: 797
Period size: 56 Copynumber: 9.9 Consensus size: 56
3065004 ATTACCAAAT
* * *
3065014 GGCACTAAATGTGCAAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
1 GGCACTATATGTG-TAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
*
3065071 GGCACTATATATGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTT-TCGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCT-GTATG
* * *
3065127 GGCTCTATATGTGTAAAACTTAATAAATTAATACTAAGTGGATGAATTTCTGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
* *
3065183 GACACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGTTGAATTTCTGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
*
3065239 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTACG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
* * *
3065295 GGCACTATATGTGTAAAACTTAAAAAATTTATACTAAGTGGATGAATTTCCGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
* * *
3065351 GGCACTATATGTGTAAAACTGAAGAAATTCATACGAAGTGAATGAATTTCTGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
* * * * *
3065407 GACACTATATGTGTATAACTGAAGAAATTCATACTAAGTGGATGGATTTC-ATATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
* * *
3065462 GGCACTATATGTGTAAAACTAAAGAAATTCACACTAAGTAGATGAATTTCTGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
* * *
3065518 GG-ACTATATGTGCAAAAC-T-AGAAAATTTATACTAAGTGAATGAATTT
1 GGCACTATATGTGTAAAACTTAAG-AAATTCATACTAAGTGGATGAATTT
3065565 TTCGTATTGG
Statistics
Matches: 445, Mismatches: 45, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
53 2 0.00
54 21 0.05
55 63 0.14
56 347 0.78
57 12 0.03
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (56 bp):
GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATG
Found at i:3071586 original size:20 final size:20
Alignment explanation
Indices: 3071540--3071592 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
3071530 TCATTCAATC
* *
3071540 AGTATTGATACCAAAGGAGG
1 AGTATCGATACCAAAGGAAG
*
3071560 AGAATCGATACCAAAGCGAAG
1 AGTATCGATACCAAAG-GAAG
3071581 -GTATCGATACCA
1 AGTATCGATACCA
3071593 TTCAAAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (20 bp):
AGTATCGATACCAAAGGAAG
Found at i:3071669 original size:28 final size:28
Alignment explanation
Indices: 3071629--3071693 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
3071619 CGGTACCATA
* *
3071629 GTATGGTAGTATCGATACCATGGTAGGG
1 GTATGGTAGTATCAATACCATGGTAAGG
3071657 GTATGGTAGTATCAATACCATGGTAAGG
1 GTATGGTAGTATCAATACCATGGTAAGG
3071685 GTATCGGTA
1 GTAT-GGTA
3071694 CTGAGGAGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.29
Consensus pattern (28 bp):
GTATGGTAGTATCAATACCATGGTAAGG
Found at i:3072105 original size:56 final size:56
Alignment explanation
Indices: 3072017--3072567 Score: 775
Period size: 56 Copynumber: 9.9 Consensus size: 56
3072007 ATTACCAAAT
* * *
3072017 GGCACTAAATGTGCAAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCATATG
1 GGCACTATATGTG-TAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
* *
3072074 AGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTACGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
*
3072130 GGCTCTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
* * *
3072186 GGCACTATATGTGTAAAATTTATGAAATTCATACTAAGTGGATGAATTTCAGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
* * * *
3072242 GGCACCATATGTGTAAAACTTATGAAATTCATACTAAGTAGATGAATTTCCATATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
*
3072298 GGCACTATATGTGTAAAACTTAAGAAATTTATACTAAGTGGATGAATTTCCGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
* * * *
3072354 AGCACTATATGTGTAAAACTAAAGAAATTCATACTCAGTGGATGAATTTCTGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
* * * * * **
3072410 GGCACTATATATGTAAAACTGAAGAAATTCATACTAAGCGAATGGATTTATGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
* * **
3072466 GGCATTATATGTGTAAAACTGAAGAAATTCATACTAAGTGGATGAATTTTTGTATG
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
* * * *
3072522 GG-A-TATATGTGCAAAAC-TAGGAAATTTATACTAAGTGTATGAATTT
1 GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTT
3072568 TCCGAATTGG
Statistics
Matches: 448, Mismatches: 46, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
53 25 0.06
54 13 0.03
55 1 0.00
56 398 0.89
57 11 0.02
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (56 bp):
GGCACTATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
Found at i:3074042 original size:109 final size:109
Alignment explanation
Indices: 3073821--3074065 Score: 305
Period size: 110 Copynumber: 2.2 Consensus size: 109
3073811 TCCCCCTAGG
* *
3073821 TTTAGCTTGTTTTTGCACTTTGGTCACATGCAAGGACCAAAATTGTTATTTACCCTTTTTAATGC
1 TTTAGCGTGTTTTTACACTTTGGTCACATGCAAGGACCAAAATTGTTATTTACCCTTTTTAATGC
* * * *
3073886 TTAATATATATTTATTGGAATATTTTTTGTTTAGTCTCCCATAA
66 ATAATATATATTTATTGGAATATTTGTTGCTTAGTCACCCATAA
* * *
3073930 TTTAGCGTGTTTTTACACTTTGGTCACCTGCGAGGACC-AAATATGTTATTTACCCTTTTTTCAT
1 TTTAGCGTGTTTTTACACTTTGGTCACATGCAAGGACCAAAAT-TGTTATTTACCC-TTTTTAAT
** * *
3073994 GCATGTTATATATTTATTGGAATATTTGTTGCTTAGTCACTC-TTA
64 GCATAATATATATTTATTGGAATATTTGTTGCTTAGTCACCCATAA
* * *
3074039 TTTAAGAGTGTTTTTTCATTTTGGTCA
1 TTT-AGCGTGTTTTTACACTTTGGTCA
3074066 TATGTAGTGA
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
108 4 0.03
109 51 0.44
110 62 0.53
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (109 bp):
TTTAGCGTGTTTTTACACTTTGGTCACATGCAAGGACCAAAATTGTTATTTACCCTTTTTAATGC
ATAATATATATTTATTGGAATATTTGTTGCTTAGTCACCCATAA
Found at i:3083981 original size:21 final size:21
Alignment explanation
Indices: 3083939--3083986 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
3083929 AAGGGTTAAG
*
3083939 ACCTTTCGATGAAAGGACTTA
1 ACCTTTCGATGAAAAGACTTA
*
3083960 ACCTTTCGATGAAAAGATTTA
1 ACCTTTCGATGAAAAGACTTA
*
3083981 ATCTTT
1 ACCTTT
3083987 TCATGAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
ACCTTTCGATGAAAAGACTTA
Found at i:3087143 original size:16 final size:17
Alignment explanation
Indices: 3087117--3087148 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
3087107 CATCCCTATT
3087117 TTTTATATATATGTATA
1 TTTTATATATATGTATA
3087134 TTTT-TATATATGTAT
1 TTTTATATATATGTAT
3087149 TTACGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TTTTATATATATGTATA
Found at i:3087192 original size:21 final size:19
Alignment explanation
Indices: 3087154--3087193 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
3087144 TGTATTTACG
*
3087154 AAATATATTATTTTTTTAT
1 AAATATATTATTTATTTAT
3087173 AAATATATTTAGTTTATTTAT
1 AAATATA-TTA-TTTATTTAT
3087194 CTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
AAATATATTATTTATTTAT
Found at i:3087215 original size:2 final size:2
Alignment explanation
Indices: 3087210--3087244 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3087200 TTTTAACTAC
3087210 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3087245 TTGTACATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3087278 original size:21 final size:22
Alignment explanation
Indices: 3087237--3087278 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3087227 ATATATATAT
* *
3087237 ATATATATTTGTACATGCATAC
1 ATATATATTTGTAAATACATAC
3087259 ATATAT-TTTGTAAATACATA
1 ATATATATTTGTAAATACATA
3087279 TCTAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (22 bp):
ATATATATTTGTAAATACATAC
Found at i:3090251 original size:49 final size:49
Alignment explanation
Indices: 3090179--3090276 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
3090169 AGATCAAGTA
*
3090179 AATGAAGAAAATGAAGCTCGTATGTCTAGTATAAGGGGGACTTATGGTC
1 AATGAAGAAAATGAAGCTCGTATGTCTAGTATAAAGGGGACTTATGGTC
* * *
3090228 AATGAAGAAAATGGAGCTCGTATGTCTAGTGTAAATGGGACTTATGGTC
1 AATGAAGAAAATGAAGCTCGTATGTCTAGTATAAAGGGGACTTATGGTC
3090277 TGATGAAGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.28
Consensus pattern (49 bp):
AATGAAGAAAATGAAGCTCGTATGTCTAGTATAAAGGGGACTTATGGTC
Found at i:3090332 original size:6 final size:6
Alignment explanation
Indices: 3090321--3090346 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3090311 ATTAACACCC
3090321 TTTGCA TTTGCA TTTGCA TTTGCA TT
1 TTTGCA TTTGCA TTTGCA TTTGCA TT
3090347 CTTGTTTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (6 bp):
TTTGCA
Found at i:3092228 original size:18 final size:19
Alignment explanation
Indices: 3092207--3092277 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 19
3092197 ATCTAATTTT
3092207 GGTATCGATACC-GGTAGG
1 GGTATCGATACCAGGTAGG
*
3092225 GGTATCGATACCATAGTAGG
1 GGTATCGATACCA-GGTAGG
*
3092245 GTAGTATCGATACCATGGTAAG
1 G--GTATCGATACCA-GGTAGG
3092267 GGTATCGATAC
1 GGTATCGATAC
3092278 TAGGCAACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
18 12 0.26
20 16 0.35
22 18 0.39
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.25
Consensus pattern (19 bp):
GGTATCGATACCAGGTAGG
Found at i:3092320 original size:94 final size:96
Alignment explanation
Indices: 3092149--3092334 Score: 259
Period size: 94 Copynumber: 2.0 Consensus size: 96
3092139 ATACCGATTA
* * *
3092149 GGTAGTATCGATACCATGATAAGGGGTATTGATACCAAGCAACTTCGAATCTAATTTTGGTATCG
1 GGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCGAACCTAATTTTGGTATCG
***
3092214 ATACCGGTA-GGGGTATCGATACCATAGTAG
66 ATACCCAAAGGGGGTATCGATACCATAGTAG
* * * *
3092244 GGTAGTATCGATACCATGGTAA-GGGTATCGATACTAGGCAACATCGAACCTATTTTTGGTATCG
1 GGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCGAACCTAATTTTGGTATCG
*
3092308 ATACCCAAAGGGGGTATCGGTACCATA
66 ATACCCAAAGGGGGTATCGATACCATA
3092335 TTATAGAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 42 0.53
95 37 0.47
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (96 bp):
GGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCGAACCTAATTTTGGTATCG
ATACCCAAAGGGGGTATCGATACCATAGTAG
Found at i:3092348 original size:95 final size:94
Alignment explanation
Indices: 3092154--3092374 Score: 228
Period size: 95 Copynumber: 2.3 Consensus size: 94
3092144 GATTAGGTAG
* * * * *
3092154 TATCGATACCATGATAAGGGGTATTGATACCAAGCAACTTCGAATCTAATTTTGGTATCGATACC
1 TATCGATACCATGGTAA-GGGTATCGATACTAAGCAACATCGAACCTAATTTTGGTATCGATACC
*** * * *
3092219 GGTAGGGGTATCGATACCATAGTAGGGTAG
65 CAAAGGGGTATCGATACCATAGTAGAGAAA
* *
3092249 TATCGATACCATGGTAAGGGTATCGATACTAGGCAACATCGAACCTATTTTTGGTATCGATACCC
1 TATCGATACCATGGTAAGGGTATCGATACTAAGCAACATCGAACCTAATTTTGGTATCGATACCC
* * *
3092314 AAAGGGGGTATCGGTACCATATTATAGAAA
66 AAA-GGGGTATCGATACCATAGTAGAGAAA
* * * *
3092344 TATCGGTACTAGGGT-AGTAGTATCGATACTA
1 TATCGATACCATGGTAAG-GGTATCGATACTA
3092375 TGGAGCTAGA
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
94 44 0.42
95 60 0.58
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (94 bp):
TATCGATACCATGGTAAGGGTATCGATACTAAGCAACATCGAACCTAATTTTGGTATCGATACCC
AAAGGGGTATCGATACCATAGTAGAGAAA
Found at i:3092826 original size:54 final size:54
Alignment explanation
Indices: 3092693--3093196 Score: 586
Period size: 54 Copynumber: 9.3 Consensus size: 54
3092683 ATAACAAATA
*
3092693 GGCACTAAGTGTGAATTTCACGGAATTCATCCTATGTGGATGAATAA-----TC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
** * * * *
3092742 ATCACTAAGTGTGCATATCACAGAATTCATCCTATGTGGATGAATAACCATTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
3092796 GGCACTAAGTGTACATTTCACGGAATTCATCCTATGTGGCTGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
3092850 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * ** *
3092904 GGCACTAATTGTGTATTTCGTGGAATTCATCCACTCATCCTATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGG-A---AT----TCATCCTATGTGGATGAATAACCGTTTC
* * *
3092966 GGTACTAAGTGTGTATTTCACGGAATTCATCCTTTGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*** * * * *
3093020 AAAACTAAGTGTGCATTTCATGAAATTCATCATATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
3093074 GGCACTAAGTGTGCATTTCATGGAATTCATCCTATGTGGATGATTAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * *
3093128 GACACTAAGTGTACATTTCACAGAATTCATCCTATGTGGAAGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
3093182 AGCACTATGTGTGCA
1 GGCACTAAGTGTGCA
3093197 AAACACGAAA
Statistics
Matches: 384, Mismatches: 58, Indels: 21
0.83 0.13 0.05
Matches are distributed among these distances:
49 42 0.11
54 291 0.76
55 1 0.00
58 4 0.01
61 1 0.00
62 45 0.12
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:3093050 original size:170 final size:162
Alignment explanation
Indices: 3092695--3093196 Score: 609
Period size: 170 Copynumber: 3.1 Consensus size: 162
3092685 AACAAATAGG
* * * *
3092695 CACTAAGTGTGAATTTCACGGAATTCATCCTATGTGGATGAATAATCA--T---CACTAAGTGTG
1 CACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCATTTCGGCACTAAGTGTG
* ** * *
3092755 CATATCACAGAATTCATCCTATGTGGATGAATAACCATTTTGGCACTAAGTGTACATTTCACGGA
66 CATTTCATGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTACATTTCACGGA
* *
3092820 ATTCATCCTATGTGGCTGAATAACCGTTTCGA
131 ATTCATCCTATGTGGATGAATAACCGTTTCAA
* * * * *
3092852 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGGCACTAATTGTG
1 CACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCATTTCGGCACTAAGTGTG
* * * * **
3092917 TATTTCGTGGAATTCATCCACTCATCCTATGTTGATGAATAACCGTTTCGGTACTAAGTGTGTAT
66 CATTTCATGG-A---AT----TCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTACAT
*
3092982 TTCACGGAATTCATCCTTTGTGGATGAATAACCGTTTCAA
123 TTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCAA
* *
3093022 AACTAAGTGTGCATTTCATGAAATTCATCATATGTGGATGAATAACCATTTCGGCACTAAGTGTG
1 CACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCATTTCGGCACTAAGTGTG
* * *
3093087 CATTTCATGGAATTCATCCTATGTGGATGATTAACCGTTTCGACACTAAGTGTACATTTCACAGA
66 CATTTCATGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTACATTTCACGGA
* * *
3093152 ATTCATCCTATGTGGAAGAATAACCATTTCAG
131 ATTCATCCTATGTGGATGAATAACCGTTTCAA
*
3093184 CACTATGTGTGCA
1 CACTAAGTGTGCA
3093197 AAACACGAAA
Statistics
Matches: 293, Mismatches: 39, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
157 46 0.16
159 1 0.00
162 99 0.34
163 1 0.00
166 4 0.01
169 1 0.00
170 141 0.48
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (162 bp):
CACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCATTTCGGCACTAAGTGTG
CATTTCATGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTACATTTCACGGA
ATTCATCCTATGTGGATGAATAACCGTTTCAA
Found at i:3093156 original size:224 final size:224
Alignment explanation
Indices: 3092745--3093159 Score: 596
Period size: 224 Copynumber: 1.9 Consensus size: 224
3092735 AATAATCATC
****
3092745 ACTAAGTGTGCATATCACAGAATTCATCCTATGTGGATGAATAACCATTTTGGCACTAAGTGTAC
1 ACTAAGTGTGCATATCACAGAATTCATCCTATGTGGATGAATAACCATTTCAAAACTAAGTGTAC
* * * *
3092810 ATTTCACGGAATTCATCCTATGTGGCTGAATAACCGTTTCGACACTAAGTGTGCATTTCACGGAA
66 ATTTCACGAAATTCATCATATGTGGATGAATAACCATTTCGACACTAAGTGTGCATTTCACGGAA
* * * ** ***
3092875 TTCATCCTATGTGGATGAATAATCGTTTCGGCACTAATTGTGTATTTCGTGGAATTCATCCACTC
131 TTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTACATTTCACAGAATTCATCCACTC
3092940 ATCCTATGTTGATGAATAACCGTTTCGGT
196 ATCCTATGTTGATGAATAACCGTTTCGGT
* * * * * *
3092969 ACTAAGTGTGTATTTCACGGAATTCATCCTTTGTGGATGAATAACCGTTTCAAAACTAAGTGTGC
1 ACTAAGTGTGCATATCACAGAATTCATCCTATGTGGATGAATAACCATTTCAAAACTAAGTGTAC
* * *
3093034 ATTTCATGAAATTCATCATATGTGGATGAATAACCATTTCGGCACTAAGTGTGCATTTCATGGAA
66 ATTTCACGAAATTCATCATATGTGGATGAATAACCATTTCGACACTAAGTGTGCATTTCACGGAA
*
3093099 TTCATCCTATGTGGATGATTAACCGTTTCGACACTAAGTGTACATTTCACAGAATTCATCC
131 TTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTACATTTCACAGAATTCATCC
3093160 TATGTGGAAG
Statistics
Matches: 165, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
224 165 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (224 bp):
ACTAAGTGTGCATATCACAGAATTCATCCTATGTGGATGAATAACCATTTCAAAACTAAGTGTAC
ATTTCACGAAATTCATCATATGTGGATGAATAACCATTTCGACACTAAGTGTGCATTTCACGGAA
TTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTACATTTCACAGAATTCATCCACTC
ATCCTATGTTGATGAATAACCGTTTCGGT
Found at i:3099308 original size:20 final size:19
Alignment explanation
Indices: 3099283--3099335 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
3099273 ATTCAATCAA
*
3099283 TATCGATACCAATGAGGTAG
1 TATCGATACCAATAAGG-AG
*
3099303 TATCGATACCATGATAAGGGG
1 TATCGATACCA--ATAAGGAG
3099324 TATCGATACCAA
1 TATCGATACCAA
3099336 GAAACTTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 1 0.03
20 11 0.38
21 12 0.41
22 5 0.17
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (19 bp):
TATCGATACCAATAAGGAG
Found at i:3099394 original size:20 final size:20
Alignment explanation
Indices: 3099356--3099420 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 20
3099346 ATCTAATTTT
*
3099356 GGTATCGATACC--GGTAGG
1 GGTATCGATACCATAGTAGG
*
3099374 GGTATCGGTACCATAGTAGG
1 GGTATCGATACCATAGTAGG
* *
3099394 GTAGTATCGATACCATGGTAAG
1 G--GTATCGATACCATAGTAGG
3099416 GGTAT
1 GGTAT
3099421 TAATACCAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 11 0.29
20 10 0.26
22 17 0.45
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCATAGTAGG
Found at i:3099402 original size:22 final size:23
Alignment explanation
Indices: 3099375--3099419 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
3099365 ACCGGTAGGG
*
3099375 GTATCGGTACCATAGT-AGGGTA
1 GTATCGATACCATAGTAAGGGTA
*
3099397 GTATCGATACCATGGTAAGGGTA
1 GTATCGATACCATAGTAAGGGTA
3099420 TTAATACCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (23 bp):
GTATCGATACCATAGTAAGGGTA
Found at i:3099452 original size:94 final size:96
Alignment explanation
Indices: 3099283--3099486 Score: 256
Period size: 94 Copynumber: 2.2 Consensus size: 96
3099273 ATTCAATCAA
* *
3099283 TATCGATACCA-A-T-GAGGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGAAACTTCG
1 TATCGATACCATAGTAG-GGTAGTATCGATACCATGATAAGGGGTATCAATACCAAGAAACATCG
* ***
3099345 AATCTAATTTTGGTATCGATACCGGTA-GGGG
65 AACCTAATTTTGGTATCGATACCCAAAGGGGG
* * * * *
3099376 TATCGGTACCATAGTAGGGTAGTATCGATACCATGGTAA-GGGTATTAATACCAGGGAACATCGA
1 TATCGATACCATAGTAGGGTAGTATCGATACCATGATAAGGGGTATCAATACCAAGAAACATCGA
*
3099440 ACCTATTTTTGGTATCGATACCCAAAGGGGG
66 ACCTAATTTTGGTATCGATACCCAAAGGGGG
3099471 TATCGATACCATAGTA
1 TATCGATACCATAGTA
3099487 TAGAAGTATC
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 10 0.11
94 42 0.45
95 41 0.44
96 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (96 bp):
TATCGATACCATAGTAGGGTAGTATCGATACCATGATAAGGGGTATCAATACCAAGAAACATCGA
ACCTAATTTTGGTATCGATACCCAAAGGGGG
Found at i:3099495 original size:95 final size:95
Alignment explanation
Indices: 3099301--3099496 Score: 241
Period size: 95 Copynumber: 2.1 Consensus size: 95
3099291 CCAATGAGGT
* * *
3099301 AGTATCGATACCATGATAAGGGGTATCGATACCAAGAAACTTCGAATCTAATTTTGGTATCGATA
1 AGTATCGATACCATGATAAGGGGTATCAATACCAAGAAACATCGAACCTAATTTTGGTATCGATA
*** * * *
3099366 CCGGTAGGGGTATCGGTACCATAGTAGGGT
66 CCCAAAGGGGTATCGATACCATAGTAGAGA
* * * * *
3099396 AGTATCGATACCATGGTAA-GGGTATTAATACCAGGGAACATCGAACCTATTTTTGGTATCGATA
1 AGTATCGATACCATGATAAGGGGTATCAATACCAAGAAACATCGAACCTAATTTTGGTATCGATA
*
3099460 CCCAAAGGGGGTATCGATACCATAGTATAGA
66 CCCAAA-GGGGTATCGATACCATAGTAGAGA
3099491 AGTATC
1 AGTATC
3099497 AGTACTAGGG
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 41 0.48
95 44 0.52
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (95 bp):
AGTATCGATACCATGATAAGGGGTATCAATACCAAGAAACATCGAACCTAATTTTGGTATCGATA
CCCAAAGGGGTATCGATACCATAGTAGAGA
Found at i:3099910 original size:54 final size:54
Alignment explanation
Indices: 3099841--3100124 Score: 365
Period size: 54 Copynumber: 5.3 Consensus size: 54
3099831 GATTACCATA
* * * *
3099841 GGCACTAAGTGTGCATTTCACAAAATTCATCATATATGGATGAATAACTATTTT
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACTATTTC
*
3099895 GGCATTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAA--AGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACTA-TTTC
* * * **
3099948 GGAACTAAGTGTGCATTTCACGGAATTAATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACTATTTC
* ** *
3100002 GGCACTAAGTGTGCATTTCACGGAATTCGCCCTATGTGGATGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACTATTTC
* * **
3100056 GGCATTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACTATTTC
* *
3100110 AGCACTATGTGTGCA
1 GGCACTAAGTGTGCA
3100125 AAGCACGAAA
Statistics
Matches: 203, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
52 1 0.00
53 46 0.23
54 156 0.77
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACTATTTC
Found at i:3100036 original size:107 final size:108
Alignment explanation
Indices: 3099844--3100124 Score: 402
Period size: 107 Copynumber: 2.6 Consensus size: 108
3099834 TACCATAGGC
* * ** * *
3099844 ACTAAGTGTGCATTTCACAAAATTCATCATATATGGATGAATAACTATTTTGGCATTAAGTGTGC
1 ACTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGC
*
3099909 ATTTCACAGAATTCATCCTATGTGGATGAATAA-AGTTTCGGA
66 ATTTCACAGAATTCACCCTATGTGGATGAATAACAGTTTCGGA
** *
3099951 ACTAAGTGTGCATTTCACGGAATTAATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGC
1 ACTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGC
* * * *
3100016 ATTTCACGGAATTCGCCCTATGTGGATGAATAACTGTTTCGGC
66 ATTTCACAGAATTCACCCTATGTGGATGAATAACAGTTTCGGA
* * *
3100059 ATTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTTTCAGCACTATGTGTGC
1 ACTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGC
3100124 A
66 A
3100125 AAGCACGAAA
Statistics
Matches: 153, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
107 86 0.56
108 67 0.44
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (108 bp):
ACTAAGTGTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGC
ATTTCACAGAATTCACCCTATGTGGATGAATAACAGTTTCGGA
Found at i:3100179 original size:161 final size:160
Alignment explanation
Indices: 3099841--3100134 Score: 390
Period size: 161 Copynumber: 1.8 Consensus size: 160
3099831 GATTACCATA
* *
3099841 GGCACTAAGTGTGCATTTCACAAAATTCATCATATATGGATGAATAACTATTTTGGCATTAAGTG
1 GGCACTAAGTGTGCATTTCACAAAATTCACCATATATGGATGAATAACTATTTCGGCATTAAGTG
* * *** *
3099906 TGCATTTCACAGAATTCATCCTATGTGGATGAATAAAGTTTCGGAACTAAGTGTGCATTTCACGG
66 TGCATTTCACAAAATTCATCCTATGTGGATGAATAAAGTTTCAGAACTAAGTGTGCAAAGCACGA
***
3099971 AATTAATCCTATGTGGATGAATAACCGTTTC
131 AATTAATCCTATGT-GATGAATAACCAAATC
** * * * *
3100002 GGCACTAAGTGTGCATTTCACGGAATTCGCCCTATGTGGATGAATAACTGTTTCGGCATTAAGTG
1 GGCACTAAGTGTGCATTTCACAAAATTCACCATATATGGATGAATAACTATTTCGGCATTAAGTG
* * *
3100067 TGCATTTCACAAAATTCATCCTATGTGGATGAATAACCGTTTCAGCACTATGTGTGCAAAGCACG
66 TGCATTTCACAAAATTCATCCTATGTGGATGAATAA-AGTTTCAGAACTAAGTGTGCAAAGCACG
3100132 AAA
130 AAA
3100135 GTCATAATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
161 92 0.80
162 23 0.20
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (160 bp):
GGCACTAAGTGTGCATTTCACAAAATTCACCATATATGGATGAATAACTATTTCGGCATTAAGTG
TGCATTTCACAAAATTCATCCTATGTGGATGAATAAAGTTTCAGAACTAAGTGTGCAAAGCACGA
AATTAATCCTATGTGATGAATAACCAAATC
Found at i:3100540 original size:22 final size:23
Alignment explanation
Indices: 3100515--3100559 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
3100505 TTGTTATTCT
* *
3100515 ATTTAAGTTAA-TGAATGTTTTA
1 ATTTAAGTGAATTAAATGTTTTA
3100537 ATTTAAGTGAATTAAATGTTTTA
1 ATTTAAGTGAATTAAATGTTTTA
3100560 TAAAACGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTTAAGTGAATTAAATGTTTTA
Found at i:3103705 original size:2 final size:2
Alignment explanation
Indices: 3103694--3103724 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3103684 TAAAGGCGAT
3103694 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3103725 AAACTGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3105792 original size:243 final size:244
Alignment explanation
Indices: 3105362--3106635 Score: 1787
Period size: 244 Copynumber: 5.2 Consensus size: 244
3105352 GTTTCTTACC
* * * ** * * * ** *
3105362 TGGTAAGTCCCTGGGGCCATCAACAAGTCTTTTGAGCGTGATGATTAAATTATTTGGGTCATCTA
1 TGGTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTA
* * *
3105427 TAAGCCTTTCGAGCAAGATAATAAGTCCTTCGGGTCATCCATAAGACCTTCGAGCAAGATGTTTT
66 TAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGTTTT
* * *
3105492 CACATGTTTTTCAAAAAATGAGAAAAGTTTGTCATTTAAATCTGAAAATTAAAATTTTTTAAAAG
131 CACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAG
* * * *
3105557 TAAGAAAACAATTTCCAAATTTTCTTACCAAGTAAACTTTTTCCAAAAT
196 TAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAAT
* * * *
3105606 TGGTAAGTCATTCGAGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCATTCGAGTAATCTA
1 TGGTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTA
* * * * *
3105671 TAAGGCTCTCGAGCAAGATGATAAGTCCTTTGGGCCA-CCATAAGACCTTAGGGCAAGGTGTTTT
66 TAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGTTTT
* * *
3105735 CACATGTTTTTTGATAAAA-GAGAAAAATTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
131 CACATG-TTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
*
3105799 GTAAGAAAACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAAT
195 GTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAAT
* *
3105849 TGGTAAGTCCTTCTG-GCCATCAGTAAGTCTTTCGAGAATGATGAGTAAATCCTCCGGGTCATCT
1 TGGTAAGTCCTTC-GAGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCT
* **
3105913 ATAAGCCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCACGCAAGATGTTT
65 ATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGTTT
*
3105978 TAACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
130 TCACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
*
3106043 GTAAGAAAATGATTTCCAAAGTTTCTTACCTAGTAAACTATTT-CAAAAGT
195 GTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAA-T
* *
3106093 TGGTAAGTCCTTC-AGGCCATCAGTAAGTCTTTTGAGCATCATGAGTAAATCCTTCGGGTCATCT
1 TGGTAAGTCCTTCGA-GCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCT
* *
3106157 ATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGACCATCCATAAGACCTTCGGGCAGGATGTTT
65 ATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGTTT
* *
3106222 TCAAATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAA
130 TCACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
*
3106287 GTAAGAAAACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAAT
195 GTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAAT
* * * *
3106337 TTGCAAGT-CTTCGAGCCATCAGTAAGTCTTTCGAGCATGATAAGTAAATCCTTTGGGTCATCTA
1 TGGTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTA
* * * *
3106401 TAAGCCTTTTGAGCAAGATAATAAGTCTTTCGGGCCATCCATAAGACCTTCGGGC-AGTATATTT
66 TAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAG-ATGTTT
* * *
3106465 TCACATGTTTTTCAAAAAATGAGAAAAGTTTCTGATTTAAATCTGAAAATTGCAGTTTTTGAAAA
130 TCACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
* * *
3106530 GTAAG-AAATGATTTCCAAAGTTTCTTACGTATTAAACT-TCTTCCAAAAT
195 GTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTAT-TTCCAAAAT
* * * * * * *
3106579 TAGTAAGTCCTTCTG-GCCATCTGTTAGTCCTTCGAGAAAGATGA-TAAGTCCTTCGGG
1 TGGTAAGTCCTTC-GAGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGG
3106636 CAAGATGCGT
Statistics
Matches: 920, Mismatches: 97, Indels: 28
0.88 0.09 0.03
Matches are distributed among these distances:
241 1 0.00
242 56 0.06
243 419 0.46
244 439 0.48
245 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (244 bp):
TGGTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCCTTCGGGTCATCTA
TAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGTTTT
CACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAG
TAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAAT
Found at i:3106189 original size:41 final size:42
Alignment explanation
Indices: 3106095--3106196 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
3106085 TCAAAAGTTG
* * * *
3106095 GTAAGTCCTTCAGGCCATCAGTAAGTCTTTTGAGCATCATGA
1 GTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAACATGA
* * *
3106137 GTAAATCCTTCGGGTCATCTA-TAAGCCTTTCGAGCAAGATGA
1 GTAAGTCCTTCGGGCCATC-AGTAAGCCTTTCGAGCAACATGA
*
3106179 -TAAGTCCTTCGGACCATC
1 GTAAGTCCTTCGGGCCATC
3106197 CATAAGACCT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 15 0.31
42 33 0.67
43 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (42 bp):
GTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAACATGA
Found at i:3106357 original size:487 final size:484
Alignment explanation
Indices: 3105417--3106614 Score: 1798
Period size: 487 Copynumber: 2.5 Consensus size: 484
3105407 TAAATTATTT
*
3105417 GGGTCATCTATAAGCCTTTCGAGCAAGATAATAAGTCCTTCGGGTCATCCATAAGACCTTCGAGC
1 GGGTCATCTATAAGCCTTTCGAGCAAGATAATAAGTCCTTCGGGCCATCCATAAGACCTTC-AGC
* *
3105482 AAGATGTTTTCACATGTTTTTCAAAAAATGAGAAAAGTTTGTCATTTAAATCTGAAAATTAAAAT
65 AAGATGTTTTCACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAAT
* ** * *
3105547 TTTTTAAAAGTAAGAAAACAATTTCCAAATTTTCTTACCAAGTAAACTTTTTCCAAAATTGGTAA
130 TTTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACCTAGTAAAC-TTTTCCAAAATTGGTAA
* * *
3105612 GTCATTCGAGCCATCAGTAAGTCTTTCGAGCATGATGAGTAAATCATTCGAGTAATCTATAAGGC
194 GTCCTTCG-GCCATCAGTAAGTCTTTCGAGCATCATGAGTAAATCATTCGAGTAATCTATAAGCC
* * *
3105677 TCTCGAGCAAGATGATAAGTCCTTTGGGCCACCATAAGACCTTAGGGCAAGGTGTTTTCACATGT
258 TCTCGAGCAAGATGATAAGTCCTTCGGACCACCATAAGACCTTAGGGCAAGGTGTTTTCAAATGT
* * *
3105742 TTTTTGATAAAAGAGAAAAATTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAA
323 TTTTTCAAAAAAGAGAAAAATTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAA
*
3105807 ACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCTGGCCATCAG
388 ACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGCAAGTCCTTCTGGCCATCAG
*
3105872 TAAGTCTTTCGAGAATGATGAGTAAATCCTCC
453 TAAGTCTTTCGAGAATGATAAGTAAATCCTCC
* *
3105904 GGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCACGC
1 GGGTCATCTATAAGCCTTTCGAGCAAGATAATAAGTCCTTCGGGCCATCCATAAGACCTTCA-GC
*
3105969 AAGATGTTTTAACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAAT
65 AAGATGTTTTCACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAAT
3106034 TTTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACCTAGTAAACTATTT-CAAAAGTTGGTA
130 TTTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACCTAGTAAACT-TTTCCAAAA-TTGGTA
* * * *
3106098 AGTCCTTCAGGCCATCAGTAAGTCTTTTGAGCATCATGAGTAAATCCTTCGGGTCATCTATAAGC
193 AGTCCTTC-GGCCATCAGTAAGTCTTTCGAGCATCATGAGTAAATCATTCGAGTAATCTATAAGC
* *
3106163 CTTTCGAGCAAGATGATAAGTCCTTCGGACCATCCATAAGACCTTCGGGC-AGGATGTTTTCAAA
257 CTCTCGAGCAAGATGATAAGTCCTTCGGACCA-CCATAAGACCTTAGGGCAAGG-TGTTTTCAAA
*
3106227 TG-TTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAA
320 TGTTTTTTCAAAAAA-GAGAAAAATTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAA
*
3106291 GAAAACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTGCAAGT-CTTC-GAGCC
384 GAAAACGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGCAAGTCCTTCTG-GCC
* **
3106354 ATCAGTAAGTCTTTCGAGCATGATAAGTAAATCCTTT
448 ATCAGTAAGTCTTTCGAGAATGATAAGTAAATCCTCC
* * *
3106391 GGGTCATCTATAAGCCTTTTGAGCAAGATAATAAGTCTTTCGGGCCATCCATAAGACCTTCGGGC
1 GGGTCATCTATAAGCCTTTCGAGCAAGATAATAAGTCCTTCGGGCCATCCATAAGACCTTC-AGC
* * * *
3106456 -AGTATATTTTCACATGTTTTTCAAAAAATGAGAAAAGTTTCTGATTTAAATCTGAAAATTGCAG
65 AAG-ATGTTTTCACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAA
* * *
3106520 TTTTTGAAAAGTAAG-AAATGATTTCCAAAGTTTCTTACGTATTAAACTTCTTCCAAAATTAGTA
129 TTTTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACCTAGTAAACTT-TTCCAAAATTGGTA
* * *
3106584 AGTCCTTCTGGCCATCTGTTAGTCCTTCGAG
193 AGTCCTTC-GGCCATCAGTAAGTCTTTCGAG
3106615 AAAGATGATA
Statistics
Matches: 648, Mismatches: 51, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
485 1 0.00
486 74 0.11
487 446 0.69
488 127 0.20
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (484 bp):
GGGTCATCTATAAGCCTTTCGAGCAAGATAATAAGTCCTTCGGGCCATCCATAAGACCTTCAGCA
AGATGTTTTCACATGTTTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATT
TTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACCTAGTAAACTTTTCCAAAATTGGTAAGT
CCTTCGGCCATCAGTAAGTCTTTCGAGCATCATGAGTAAATCATTCGAGTAATCTATAAGCCTCT
CGAGCAAGATGATAAGTCCTTCGGACCACCATAAGACCTTAGGGCAAGGTGTTTTCAAATGTTTT
TTCAAAAAAGAGAAAAATTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAACG
ATTTTCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGCAAGTCCTTCTGGCCATCAGTAA
GTCTTTCGAGAATGATAAGTAAATCCTCC
Found at i:3106898 original size:3 final size:3
Alignment explanation
Indices: 3106890--3106915 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3106880 CATCCCGATG
3106890 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
3106916 GTTTTCAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3107427 original size:26 final size:25
Alignment explanation
Indices: 3107398--3107459 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
3107388 CGGGGTTTTG
3107398 AAAGGAAAAAGATCGAAGAAAGAAAA
1 AAAGGAAAAAGATCGAA-AAAGAAAA
* * ***
3107424 AAAGCAACATTTTCGAAAAAGAAAA
1 AAAGGAAAAAGATCGAAAAAGAAAA
3107449 AAGAGGAAAAA
1 AA-AGGAAAAA
3107460 AAGGATTTAC
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.66, C:0.06, G:0.19, T:0.08
Consensus pattern (25 bp):
AAAGGAAAAAGATCGAAAAAGAAAA
Found at i:3109674 original size:20 final size:21
Alignment explanation
Indices: 3109632--3109677 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3109622 ATTTTTACAG
*
3109632 AGAAAACATCCCCATATGGCT
1 AGAAAACATCCCCATACGGCT
*
3109653 AGAAATCATCCCCA-ACGGCT
1 AGAAAACATCCCCATACGGCT
3109673 AGAAA
1 AGAAA
3109678 CGACCACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.41, C:0.28, G:0.15, T:0.15
Consensus pattern (21 bp):
AGAAAACATCCCCATACGGCT
Found at i:3112231 original size:20 final size:20
Alignment explanation
Indices: 3112208--3112257 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
3112198 GTTCTTACAA
3112208 TATCGATACTATATGAACAG
1 TATCGATACTATATGAACAG
*
3112228 TATCGATATTATATGAACAG
1 TATCGATACTATATGAACAG
3112248 TATCGATACT
1 TATCGATACT
3112258 GTTTGTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
TATCGATACTATATGAACAG
Found at i:3115492 original size:14 final size:14
Alignment explanation
Indices: 3115475--3115505 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3115465 AACGGTCAGT
3115475 GGTCAAAGTCAACG
1 GGTCAAAGTCAACG
*
3115489 GGTCAAAGTCAATG
1 GGTCAAAGTCAACG
3115503 GGT
1 GGT
3115506 TGACTAAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.19
Consensus pattern (14 bp):
GGTCAAAGTCAACG
Found at i:3115499 original size:20 final size:20
Alignment explanation
Indices: 3115456--3115500 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
3115446 AACTTTTTGG
**
3115456 GTCAAAGTCAACGGTCAGTG
1 GTCAAAGTCAACGGTCAGAA
3115476 GTCAAAGTCAACGGGTCA-AA
1 GTCAAAGTCAAC-GGTCAGAA
3115496 GTCAA
1 GTCAA
3115501 TGGGTTGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.18
Consensus pattern (20 bp):
GTCAAAGTCAACGGTCAGAA
Found at i:3115521 original size:14 final size:14
Alignment explanation
Indices: 3115504--3115538 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3115494 AAGTCAATGG
3115504 GTTGACTAAGACGA
1 GTTGACTAAGACGA
* *
3115518 GTTGACTAAGATGG
1 GTTGACTAAGACGA
3115532 GTTGACT
1 GTTGACT
3115539 TAGTCTGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (14 bp):
GTTGACTAAGACGA
Found at i:3116606 original size:21 final size:21
Alignment explanation
Indices: 3116573--3116621 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
3116563 TTTATTTTTG
3116573 TAGAGAATACATCCCTAAACGAC
1 TAGA-AATACATCCC-AAACGAC
* *
3116596 TAGAAAT-CATCCCCAACGGC
1 TAGAAATACATCCCAAACGAC
3116616 TAGAAA
1 TAGAAA
3116622 CAGCCACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.46
21 6 0.25
22 3 0.12
23 4 0.17
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.16
Consensus pattern (21 bp):
TAGAAATACATCCCAAACGAC
Found at i:3117786 original size:19 final size:20
Alignment explanation
Indices: 3117762--3117809 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
3117752 AATGGTTTTC
* * *
3117762 TTTTGAAAGCTAAAATG-GA
1 TTTTGAAAACCAAAATGAAA
3117781 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
3117801 TTTTGAAAA
1 TTTTGAAAA
3117810 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:3119364 original size:110 final size:111
Alignment explanation
Indices: 3119186--3119391 Score: 360
Period size: 110 Copynumber: 1.9 Consensus size: 111
3119176 CGAAGTGCCA
* * *
3119186 AAATGGTAATTCACCTTTTATGAATACCATGGGTGTCACCTTTTATGCCAAAAATGTATCGTTAT
1 AAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCAAAAATGCACCGTTAT
3119251 GCATTAAACAAAATCGATCGATAACTTTCATACACGAAGTATGTCG
66 GCATTAAACAAAATCGATCGATAACTTTCATACACGAAGTATGTCG
*
3119297 AAATGGTAATTCA-CTTTTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACCGTTAT
1 AAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCAAAAATGCACCGTTAT
*
3119361 GCATTAAACAAAATTGATCGATAACTTTCAT
66 GCATTAAACAAAATCGATCGATAACTTTCAT
3119392 TAGTGGCACC
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
110 77 0.86
111 13 0.14
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (111 bp):
AAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCAAAAATGCACCGTTAT
GCATTAAACAAAATCGATCGATAACTTTCATACACGAAGTATGTCG
Found at i:3121153 original size:23 final size:23
Alignment explanation
Indices: 3121123--3121173 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
3121113 TTCAAATGTT
3121123 TTGTTATATCAAAAATGGGGAGA
1 TTGTTATATCAAAAATGGGGAGA
3121146 TTGTTATATCAAAAATGGGGAGA
1 TTGTTATATCAAAAATGGGGAGA
3121169 TTGTT
1 TTGTT
3121174 GAACTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.35
Consensus pattern (23 bp):
TTGTTATATCAAAAATGGGGAGA
Found at i:3123388 original size:3 final size:3
Alignment explanation
Indices: 3123380--3123418 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
3123370 CTAATGTTAC
3123380 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3123419 GTTGTTGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3123423 original size:3 final size:3
Alignment explanation
Indices: 3123417--3123693 Score: 547
Period size: 3 Copynumber: 92.7 Consensus size: 3
3123407 ATTATTATTA
3123417 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
3123465 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
3123513 TTG TTG TTG TTG TTG TTG -TG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
3123560 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
3123608 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
3123656 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
3123694 ATTATTATTA
Statistics
Matches: 273, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
2 2 0.01
3 271 0.99
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:3124616 original size:8 final size:8
Alignment explanation
Indices: 3124587--3124655 Score: 63
Period size: 8 Copynumber: 8.6 Consensus size: 8
3124577 ATATATTTAC
3124587 TTAT-ATA
1 TTATAATA
3124594 TTATAATAA
1 TTATAAT-A
3124603 TT-TAATA
1 TTATAATA
3124610 TTATAATA
1 TTATAATA
* *
3124618 ATATATTCAA
1 TTATAAT--A
*
3124628 TTATATTA
1 TTATAATA
3124636 TTATAATA
1 TTATAATA
3124644 -TATAATA
1 TTATAATA
3124651 TTATA
1 TTATA
3124656 TTCTTATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
7 14 0.27
8 28 0.54
9 3 0.06
10 7 0.13
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (8 bp):
TTATAATA
Found at i:3124622 original size:41 final size:40
Alignment explanation
Indices: 3124567--3124655 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 40
3124557 TAATTATTAA
* * *
3124567 AATATT-TAAAATATATTTACTTATA-TATTATAATAATTT
1 AATATTATAAAATATATTCAATTATATTATTATAAT-ATAT
3124606 AATATTATAATAATATATTCAATTATATTATTATAATATAT
1 AATATTATAA-AATATATTCAATTATATTATTATAATATAT
3124647 AATATTATA
1 AATATTATA
3124656 TTCTTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 6 0.14
40 3 0.07
41 26 0.59
42 9 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (40 bp):
AATATTATAAAATATATTCAATTATATTATTATAATATAT
Found at i:3124656 original size:23 final size:23
Alignment explanation
Indices: 3124525--3124662 Score: 79
Period size: 23 Copynumber: 5.9 Consensus size: 23
3124515 TTTAATATTA
* * **
3124525 ATATAATATTTTATTATCATTTT
1 ATATAATATTATATTATTATAAT
*
3124548 A-ATAAATATTA-ATTATTAAAAT
1 ATAT-AATATTATATTATTATAAT
* *
3124570 ATTTAA-AATATATTTACTTAT-AT
1 ATATAATATTATA-TTA-TTATAAT
*
3124593 ATTATAATAATT-TAATATTATAAT
1 A-TATAAT-ATTATATTATTATAAT
*
3124617 AATATATTCAATTATATTATTATAAT
1 -ATATAAT--ATTATATTATTATAAT
*
3124643 ATATAATATTATATTCTTAT
1 ATATAATATTATATTATTAT
3124663 TTTAATAATA
Statistics
Matches: 88, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
21 3 0.03
22 13 0.15
23 30 0.34
24 16 0.18
25 13 0.15
26 13 0.15
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATAATATTATATTATTATAAT
Found at i:3124890 original size:29 final size:27
Alignment explanation
Indices: 3124828--3124890 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
3124818 TATTAATAAT
*
3124828 TTTCAA-AATATAATTTAGTATTCCTA
1 TTTCAATAATATAATTTAATATTCCTA
* **
3124854 TTTTAATAATATAATTTCAAATATTTTTA
1 TTTCAATAATATAATTT--AATATTCCTA
3124883 TTTCAATA
1 TTTCAATA
3124891 GAATATATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 5 0.17
27 10 0.34
29 14 0.48
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (27 bp):
TTTCAATAATATAATTTAATATTCCTA
Found at i:3125561 original size:60 final size:60
Alignment explanation
Indices: 3125489--3125604 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
3125479 TGGTTCTCTA
* * *
3125489 ATTATAGGGCGTTACTTTGTTGAGTCCCCCGACTATTAAAAGTTATAAAATGATCATTTG
1 ATTATAGAGCGTTACTTTGTTGAGTCCACCGACTATTAAAAGTTACAAAATGATCATTTG
* * *
3125549 ATTATAGAGCGTTGCTTTGTTGAGTCCACTGACTGTTAAAAGTTACAAAATGATCA
1 ATTATAGAGCGTTACTTTGTTGAGTCCACCGACTATTAAAAGTTACAAAATGATCA
3125605 ACTGTATATG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (60 bp):
ATTATAGAGCGTTACTTTGTTGAGTCCACCGACTATTAAAAGTTACAAAATGATCATTTG
Found at i:3128627 original size:14 final size:15
Alignment explanation
Indices: 3128594--3128627 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
3128584 ATTTCTATGT
*
3128594 AGGGAATTATTTTGC
1 AGGGAATTATTTTAC
3128609 AGGGAATTA-TTTAC
1 AGGGAATTATTTTAC
3128623 AGGGA
1 AGGGA
3128628 TTACTCCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (15 bp):
AGGGAATTATTTTAC
Found at i:3133673 original size:70 final size:71
Alignment explanation
Indices: 3133588--3133721 Score: 182
Period size: 70 Copynumber: 1.9 Consensus size: 71
3133578 TAGTAGGAGT
* *
3133588 CCTTTTTAACCTAAAATGAAATGTTGAGGGATAAAATG-TCCAAAAAAA-GAATAGGGGACAAAG
1 CCTTTTTAACCTAAAATGAAACGTTGA-GGATAAAATGCTCCAAAAAAATGAATAGGGCACAAAG
3133651 TTAGGGG
65 TTAGGGG
** * *
3133658 CCTTTTTGCCCTAAAATGAAACGTTGAGGCTAAAATGCTCTAAAAAAATTGAATAGGGCACAAA
1 CCTTTTTAACCTAAAATGAAACGTTGAGGATAAAATGCTCCAAAAAAA-TGAATAGGGCACAAA
3133722 ATGACCATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
69 9 0.16
70 33 0.60
72 13 0.24
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (71 bp):
CCTTTTTAACCTAAAATGAAACGTTGAGGATAAAATGCTCCAAAAAAATGAATAGGGCACAAAGT
TAGGGG
Found at i:3136148 original size:62 final size:62
Alignment explanation
Indices: 3136079--3136199 Score: 145
Period size: 64 Copynumber: 1.9 Consensus size: 62
3136069 CTCTAAAATC
* * *
3136079 TAGAATAAAAATTATACCAAATAGAC-CACTCTTTCTTTTGTTGTTTATTATAATATAATATA
1 TAGAATAAAAATTATACCAAATAAACTCACTCTTTCTTTTATTCTTTATTATAA-ATAATATA
* * * **
3136141 TAGAATAACAGTTTTACCAAATAAACTTTTCTCTTTCTTTTATTCTTTATTATAAATAA
1 TAGAATAAAAATTATACCAAATAAAC-TCACTCTTTCTTTTATTCTTTATTATAAATAA
3136200 GTTCAAATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
62 22 0.45
63 4 0.08
64 23 0.47
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (62 bp):
TAGAATAAAAATTATACCAAATAAACTCACTCTTTCTTTTATTCTTTATTATAAATAATATA
Found at i:3141557 original size:42 final size:41
Alignment explanation
Indices: 3141464--3141560 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
3141454 AGGTTTTATG
* * * *
3141464 GATGGCCCGAAGGATTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGATTTAGCATCATGCTCGAAAGACTTACA
* *
3141505 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGATTT-AGCATCATGCTCGAAAGACTTACA
*
3141547 GATGGTCCGAAGGA
1 GATGGCCCGAAGGA
3141561 CTTATACATT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 16 0.34
42 31 0.66
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGATTTAGCATCATGCTCGAAAGACTTACA
Found at i:3141738 original size:41 final size:41
Alignment explanation
Indices: 3141680--3141781 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 41
3141670 AGGTTTTATG
* * * *
3141680 GATGACCCGAAGAATTTATCATCTTGCTCTAAAGGCTTACA
1 GATGACCCGAAGGATTTATCATCATGCTCGAAAGACTTACA
* *
3141721 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTT-ATCATCATGCTCGAAAGACTTACA
** *
3141763 GATGGTCCGAAGGACTTAT
1 GATGACCCGAAGGATTTAT
3141782 ACATTGTGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 17 0.34
42 33 0.66
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (41 bp):
GATGACCCGAAGGATTTATCATCATGCTCGAAAGACTTACA
Found at i:3141812 original size:216 final size:215
Alignment explanation
Indices: 3141128--3142115 Score: 1604
Period size: 216 Copynumber: 4.6 Consensus size: 215
3141118 CTGTGAAGGC
*
3141128 GATGGCCCGAAGGACTTATGA-ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTC-AAAATTT
1 GATGGCCCGAAGGACTTAT-ACATTGTGAAATTTTGAAACTCGCATTCTTCGTTTTCAAAAATTT
*
3141191 CATCTTCTTAAAACATCATTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTT
65 CATCATCTTAAAACATCATTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTT
* *
3141256 ATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTATAGATGACCCGAAGGATTTAAAC
130 ATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGC
*
3141321 ACCATGCTCGAAAGACTTACT
195 ATCATGCTCGAAAGACTTACT
* * * *
3141342 GGTGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTCAAAAA--T-
1 GATGGCCCGAAGGACTTATACATTGTGAAATTTTGAAACTCGCATTCTTCGTTTTCAAAAATTTC
* * * *
3141404 -TC--C----AACATCTTTTTTTCATTCTCCAATTCATGTGAAAACATCCTACCCGAAGGTTTTA
66 ATCATCTTAAAACATCATTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTA
*
3141462 TGGATGGCCCGAAGGATTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCA
131 TGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCA
3141527 TCATGCTCGAAAGACTTACT
196 TCATGCTCGAAAGACTTACT
* * * *
3141547 GATGGTCCGAAGGACTTATACATTGTGAAATCTTGAAACTCGTATTCTTCGTTTTCAAAAATTAC
1 GATGGCCCGAAGGACTTATACATTGTGAAATTTTGAAACTCGCATTCTTCGTTTTCAAAAATTTC
3141612 ATCATCTTAAAACATCATTTTTTCCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTT
66 ATCATCTTAAAACATCATTTTTT-CATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTT
* * *
3141677 ATGGATGACCCGAAGAATTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGC
130 ATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGC
3141742 ATCATGCTCGAAAGACTTACT
195 ATCATGCTCGAAAGACTTACT
* *
3141763 GATGGTCCGAAGGACTTATACATTGTGAAATTTTGAAACTCGCATTCTTCGTTTTCAAAATTTTC
1 GATGGCCCGAAGGACTTATACATTGTGAAATTTTGAAACTCGCATTCTTCGTTTTCAAAAATTTC
*
3141828 ATCATCTTAAAACATCATTTTTTCCATTTTCAAATTAATGTGAAAACATCCTACTCGAAGGTTTT
66 ATCATCTTAAAACATCATTTTTT-CATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTT
* * * *
3141893 ATGGATGGCTCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATAACCCGAAGGACTTAAGC
130 ATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGC
3141958 ATCATGCTCGAAAGACTTACT
195 ATCATGCTCGAAAGACTTACT
*
3141979 GATGGCCCGAAGGACTTATACATTGTGAAATTTTGAAACTCGCATTCTTCGTTTTCAAAATTTTC
1 GATGGCCCGAAGGACTTATACATTGTGAAATTTTGAAACTCGCATTCTTCGTTTTCAAAAATTTC
3142044 ATCATCTTAAAACATCATTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTA
66 ATCATCTTAAAACATCATTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTA
3142109 TGGATGG
131 TGGATGG
3142116 ATTTGCTTCA
Statistics
Matches: 721, Mismatches: 40, Indels: 25
0.92 0.05 0.03
Matches are distributed among these distances:
205 186 0.26
209 3 0.00
211 3 0.00
213 2 0.00
214 50 0.07
215 64 0.09
216 413 0.57
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (215 bp):
GATGGCCCGAAGGACTTATACATTGTGAAATTTTGAAACTCGCATTCTTCGTTTTCAAAAATTTC
ATCATCTTAAAACATCATTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTA
TGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCA
TCATGCTCGAAAGACTTACT
Found at i:3141988 original size:42 final size:42
Alignment explanation
Indices: 3141896--3141996 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
3141886 AGGTTTTATG
* * * *
3141896 GATGGCTCGAAGGACTT-ATCATCTTGCTCTGAAGGCTTACA
1 GATGGCCCGAAGGACTTAAGCATCATGCTCTGAAGACTTACA
** *
3141937 GATAACCCGAAGGACTTAAGCATCATGCTC-GAAAGACTTACT
1 GATGGCCCGAAGGACTTAAGCATCATGCTCTG-AAGACTTACA
3141979 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
3141997 TACATTGTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 15 0.31
42 34 0.69
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTAAGCATCATGCTCTGAAGACTTACA
Found at i:3142232 original size:36 final size:35
Alignment explanation
Indices: 3142118--3142258 Score: 101
Period size: 36 Copynumber: 4.0 Consensus size: 35
3142108 ATGGATGGAT
* *
3142118 TTGCTTCACTACC-CTTCGGTGAAGGCTTAATA-TG
1 TTGCTTCACT-CCTCTTCAGTGAAGGCTTAAGATTG
* * * * * * *
3142152 ATGCTCCACTACTCTTTAGTGAAGGTTTAAAATGG
1 TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTG
*
3142187 ATTGTTTCACTCCTCTTCAGTGAAGGCTTAAGATTG
1 -TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTG
* *
3142223 TCTGCTTCACTATCCTC--CGGTGAAGGTTTAAGATTG
1 T-TGCTTCAC--TCCTCTTCAGTGAAGGCTTAAGATTG
3142259 ACTTTGCTCC
Statistics
Matches: 82, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
33 1 0.01
34 23 0.28
35 2 0.02
36 51 0.62
38 5 0.06
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (35 bp):
TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTG
Found at i:3148548 original size:21 final size:21
Alignment explanation
Indices: 3148524--3148563 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3148514 AGTCTACATG
*
3148524 TCTTTATTAAGGGTCTTCTTT
1 TCTTTATGAAGGGTCTTCTTT
*
3148545 TCTTTATGAATGGTCTTCT
1 TCTTTATGAAGGGTCTTCT
3148564 CGTCCTTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (21 bp):
TCTTTATGAAGGGTCTTCTTT
Found at i:3152539 original size:3 final size:3
Alignment explanation
Indices: 3152533--3152582 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
3152523 ACAACTCTTA
* *
3152533 TAT TAT TAT TAT TAT TAT TAT TAT AAAA TAT TAT TATT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA-T TA-T TAT TAT
3152581 TA
1 TA
3152583 CAAAATACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 33 0.80
4 8 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Done.