Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold337
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: 762055
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:365197 original size:16 final size:16
Alignment explanation
Indices: 365176--365224 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
365166 AAAAGTGCAG
*
365176 AAAAAGAGAAAAATGA
1 AAAAAGAAAAAAATGA
365192 AAAAAGAAAAAAATGA
1 AAAAAGAAAAAAATGA
*
365208 AAAATGAAAAAAGATGA
1 AAAAAGAAAAAA-ATGA
365225 GGAAATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (16 bp):
AAAAAGAAAAAAATGA
Found at i:367125 original size:178 final size:178
Alignment explanation
Indices: 366824--367150 Score: 440
Period size: 178 Copynumber: 1.8 Consensus size: 178
366814 ATTATGGAGT
* * * *
366824 CCACACATTCCCAGTCATATCCCTCATTCCCAACCACTAGATAGTATTGATGCATCACAAAGCCT
1 CCACACATTCCCAATCATATCCCTCATTCCCAACCACTAGATAGTACTAATGCATCACAAAGACT
** *
366889 AATTTTCTTGGGGCAAGATGCAGCCCACACATTCCTAATCATATCCCATTCATTCAACCACTAGA
66 AATTTTCTCAGGGCAAGATGCAGCCCACACATTCCCAATCATATCCCATTCATTCAACCACTAGA
*
366954 TGGTACTAATGCATCACAATGCCCAACTTTTCTGGGGCAAAGTGCAGC
131 TGGTACTAATGAATCACAATGCCCAACTTTTCTGGGGCAAAGTGCAGC
* * * * * *
367002 CCACACATTCCTAATCATATCCCTCTTTCTCTACCATTAGATGGTACTAATGCATCACAAAGACT
1 CCACACATTCCCAATCATATCCCTCATTCCCAACCACTAGATAGTACTAATGCATCACAAAGACT
* * * * * *
367067 AATTTTCTCAGGGCAAGGTGCGGCCCATACATTCCCATTCCTATCCTC-TTCTTTCAACCACTAG
66 AATTTTCTCAGGGCAAGATGCAGCCCACACATTCCCAATCATATCC-CATTCATTCAACCACTAG
* *
367131 ATGGTATTGATGAATCACAA
130 ATGGTACTAATGAATCACAA
367151 AGCCGAATTT
Statistics
Matches: 126, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
178 125 0.99
179 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (178 bp):
CCACACATTCCCAATCATATCCCTCATTCCCAACCACTAGATAGTACTAATGCATCACAAAGACT
AATTTTCTCAGGGCAAGATGCAGCCCACACATTCCCAATCATATCCCATTCATTCAACCACTAGA
TGGTACTAATGAATCACAATGCCCAACTTTTCTGGGGCAAAGTGCAGC
Found at i:367173 original size:89 final size:89
Alignment explanation
Indices: 366824--367265 Score: 378
Period size: 89 Copynumber: 4.9 Consensus size: 89
366814 ATTATGGAGT
* * * *
366824 CCACACATTCCCAGTCATATCC-C-TCATTCCCAACCACTAGATAGTATTGATGCATCACAAAGC
1 CCACACATTCCTAATCATATCCTCTTC-TT-TCAACCACTAGATGGTATTGATGCATCACAAAGC
* * * *
366887 CTAATTTTCTTGGGGCAAGATGCAGC
64 CGAATTTCCATGGGGCAAGGTGCAGC
* * * *
366913 CCACACATTCCTAATCATATCC-CATTCATTCAACCACTAGATGGTACTAATGCATCACAATGCC
1 CCACACATTCCTAATCATATCCTC-TTCTTTCAACCACTAGATGGTATTGATGCATCACAAAGCC
* * *
366977 CAACTTTTC-TGGGGCAAAGTGCAGC
65 GAA-TTTCCATGGGGCAAGGTGCAGC
* * * * * *
367002 CCACACATTCCTAATCATATCCCTCTT-TCTCTACCATTAGATGGTACTAATGCATCACAAAGAC
1 CCACACATTCCTAATCATAT-CCTCTTCTTTCAACCACTAGATGGTATTGATGCATCACAAAGCC
* *
367066 TAATTTTCTCA--GGGCAAGGTGCGGC
65 GAA-TTTC-CATGGGGCAAGGTGCAGC
* * * * *
367091 CCATACATTCCCATTCCTATCCTCTTCTTTCAACCACTAGATGGTATTGATGAATCACAAAGCCG
1 CCACACATTCCTAATCATATCCTCTTCTTTCAACCACTAGATGGTATTGATGCATCACAAAGCCG
* * * *
367156 AATTTCCATGGGTCAAGGATATCCCGA
66 AATTTCCATGGGGCAAGG---TGCAGC
* * * * **
367183 CCACTCATTCCTAATCATATTCCT-TTCTTTTAGCCACTACATGGTATTGATAAATCACAAAGCC
1 CCACACATTCCTAATCATA-TCCTCTTCTTTCAACCACTAGATGGTATTGATGCATCACAAAGCC
*
367247 GAATTTCCATGGGTCAAGG
65 GAATTTCCATGGGGCAAGG
367266 ATATCCCGAC
Statistics
Matches: 292, Mismatches: 47, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
87 2 0.01
88 10 0.03
89 190 0.65
90 11 0.04
91 3 0.01
92 72 0.25
93 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (89 bp):
CCACACATTCCTAATCATATCCTCTTCTTTCAACCACTAGATGGTATTGATGCATCACAAAGCCG
AATTTCCATGGGGCAAGGTGCAGC
Found at i:367227 original size:92 final size:92
Alignment explanation
Indices: 367110--367317 Score: 362
Period size: 92 Copynumber: 2.2 Consensus size: 92
367100 CCCATTCCTA
* * * *
367110 TCCTCTTCTTTCAACCACTAGATGGTATTGATGAATCACAAAGCCGAATTTCCATGGGTCAAGGA
1 TCCT-TTCTTTTAGCCACTACATGGTATTGATAAATCACAAAGCCGAATTTCCATGGGTCAAGGA
367175 TATCCCGACCACTCATTCCTAATCATAT
65 TATCCCGACCACTCATTCCTAATCATAT
367203 TCCTTTCTTTTAGCCACTACATGGTATTGATAAATCACAAAGCCGAATTTCCATGGGTCAAGGAT
1 TCCTTTCTTTTAGCCACTACATGGTATTGATAAATCACAAAGCCGAATTTCCATGGGTCAAGGAT
367268 ATCCCGACCACTCATTCCTAATCATAT
66 ATCCCGACCACTCATTCCTAATCATAT
*
367295 CCCTTTCTTTTAGCCACTACATG
1 TCCTTTCTTTTAGCCACTACATG
367318 ACCATAAAAT
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 106 0.96
93 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (92 bp):
TCCTTTCTTTTAGCCACTACATGGTATTGATAAATCACAAAGCCGAATTTCCATGGGTCAAGGAT
ATCCCGACCACTCATTCCTAATCATAT
Found at i:373088 original size:52 final size:52
Alignment explanation
Indices: 373010--373127 Score: 218
Period size: 52 Copynumber: 2.3 Consensus size: 52
373000 AAGTTGCCTG
373010 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGACTA
1 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGACTA
* *
373062 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGACTA
373114 CATGTATCGATACA
1 CATGTATCGATACA
373128 AAGATCAGTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGACTA
Found at i:373237 original size:32 final size:33
Alignment explanation
Indices: 373201--373266 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
373191 AGTAGCTTAA
* *
373201 ATTGTATTGATACAA-AACTTATGTATCGATAC
1 ATTGTATCGATACAACAACTTATATATCGATAC
**
373233 ATTGTATCGATACAACATTTTATATATCGATAC
1 ATTGTATCGATACAACAACTTATATATCGATAC
373266 A
1 A
373267 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (33 bp):
ATTGTATCGATACAACAACTTATATATCGATAC
Found at i:373240 original size:13 final size:13
Alignment explanation
Indices: 373222--373246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
373212 ACAAAACTTA
373222 TGTATCGATACAT
1 TGTATCGATACAT
373235 TGTATCGATACA
1 TGTATCGATACA
373247 ACATTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:375255 original size:21 final size:21
Alignment explanation
Indices: 375231--375287 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
375221 AAAAAATTTA
375231 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
375252 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
375273 AATGTATCGATACAT
1 AATGTATCGATACAT
375288 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:375436 original size:13 final size:13
Alignment explanation
Indices: 375418--375443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
375408 CATTTTTCTG
375418 TGTATCGATACAT
1 TGTATCGATACAT
375431 TGTATCGATACAT
1 TGTATCGATACAT
375444 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:375440 original size:33 final size:33
Alignment explanation
Indices: 375398--375464 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
375388 GCCAAGGAAA
***
375398 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
375431 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
375464 T
1 T
375465 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:377196 original size:13 final size:13
Alignment explanation
Indices: 377178--377213 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
377168 ACCTTCTCTT
377178 CAAAAAAAAAAAA
1 CAAAAAAAAAAAA
*
377191 CAAAAAAACAAAA
1 CAAAAAAAAAAAA
377204 CAAAGAAAAA
1 CAAA-AAAAA
377214 GAGAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:378280 original size:55 final size:55
Alignment explanation
Indices: 378195--378982 Score: 1179
Period size: 55 Copynumber: 14.3 Consensus size: 55
378185 TCCGCTTTTT
*
378195 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
378250 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
378305 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
378360 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
378415 AGTCCTCAACGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
378470 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
378525 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-T-C
378580 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
378635 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
378690 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
378745 AGTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
378800 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
378855 ATTCCCCAAAGAGCAGGACACTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
378910 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
378965 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
378983 TACAATTTAT
Statistics
Matches: 689, Mismatches: 29, Indels: 30
0.92 0.04 0.04
Matches are distributed among these distances:
53 2 0.00
54 15 0.02
55 657 0.95
56 13 0.02
57 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:379593 original size:21 final size:21
Alignment explanation
Indices: 379569--379625 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
379559 AAAAAATTTA
379569 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
379590 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
379611 AATGTATCGATACAT
1 AATGTATCGATACAT
379626 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:379705 original size:19 final size:19
Alignment explanation
Indices: 379681--379748 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
379671 AATTCAACAA
379681 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
379700 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
379715 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
379732 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
379749 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:379720 original size:13 final size:13
Alignment explanation
Indices: 379702--379726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
379692 ACATAAGTTT
379702 TGTATCGATACAA
1 TGTATCGATACAA
379715 TGTATCGATACA
1 TGTATCGATACA
379727 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:379724 original size:32 final size:32
Alignment explanation
Indices: 379683--379745 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
379673 TTCAACAATT
*
379683 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
379715 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
379746 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:379806 original size:13 final size:13
Alignment explanation
Indices: 379788--379813 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
379778 CATTTTTCTG
379788 TGTATCGATACAT
1 TGTATCGATACAT
379801 TGTATCGATACAT
1 TGTATCGATACAT
379814 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:379810 original size:33 final size:33
Alignment explanation
Indices: 379768--379834 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
379758 GCCAAGGAAA
***
379768 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
379801 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
379834 T
1 T
379835 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:382343 original size:52 final size:51
Alignment explanation
Indices: 382270--382439 Score: 186
Period size: 52 Copynumber: 3.3 Consensus size: 51
382260 TTATTTTCGA
*
382270 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCCACAATC
* **
382322 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTA-TTTCAAAACACCAATTTTTCC-ACAATC
* *
382374 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCCACAATC
*
382426 GAGGATACTCCAAC
1 GGGGATACTCCAAC
382440 CTCGTTATTT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
51 14 0.14
52 69 0.69
53 13 0.13
54 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCCACAATC
Found at i:382459 original size:28 final size:28
Alignment explanation
Indices: 382423--382499 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
382413 ATTTTTCACA
* * *
382423 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
382451 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
382479 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
382500 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:382675 original size:28 final size:27
Alignment explanation
Indices: 382577--382654 Score: 156
Period size: 27 Copynumber: 2.9 Consensus size: 27
382567 TTTCTTCACA
382577 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
382604 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
382631 ATCGGGGATACTCCAACCCCGTTA
1 ATCGGGGATACTCCAACCCCGTTA
382655 TTTTCGAGGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:382735 original size:52 final size:51
Alignment explanation
Indices: 382662--382831 Score: 193
Period size: 52 Copynumber: 3.3 Consensus size: 51
382652 TTATTTTCGA
*
382662 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCCACAATC
* ***
382714 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTTCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTA-TTTCAAAACACCAATTTTTCCACAATC
* *
382766 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCCACAATC
*
382818 GAGGATACTCCAAC
1 GGGGATACTCCAAC
382832 CTCGTTATTT
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
51 8 0.08
52 75 0.75
53 17 0.17
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCCACAATC
Found at i:382851 original size:28 final size:28
Alignment explanation
Indices: 382815--382891 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
382805 ATTTTTCACA
* * *
382815 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
382843 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
382871 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
382892 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.98
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:382965 original size:28 final size:28
Alignment explanation
Indices: 382925--382978 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
382915 TCTCATAATT
382925 AGGGATACTCCAACCCCG-TTATTTTCGA
1 AGGGATACTCCAACCCCGATT-TTTTCGA
*
382953 AGGGATACTCCAATCCCGATTTTTTC
1 AGGGATACTCCAACCCCGATTTTTTC
382979 TAATCATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (28 bp):
AGGGATACTCCAACCCCGATTTTTTCGA
Found at i:384587 original size:21 final size:21
Alignment explanation
Indices: 384563--384618 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
384553 AAGGTGGTTT
*
384563 TGTATCGATACATTTCAGGCA
1 TGTATCGATACATTTCACGCA
** **
384584 TGTATTAATACA-TTCACTTA
1 TGTATCGATACATTTCACGCA
384604 TGTATCGATACATTT
1 TGTATCGATACATTT
384619 ACTATTTATA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATTTCACGCA
Found at i:385282 original size:15 final size:13
Alignment explanation
Indices: 385212--385273 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
385202 GTGATATTTC
*
385212 CATATATATA-TA
1 CATATATGTATTA
* *
385224 TATATATATATATA
1 CATATATGTAT-TA
385238 CATATA--TA-TA
1 CATATATGTATTA
*
385248 TATATATGTATTA
1 CATATATGTATTA
385261 CATATATGTATTA
1 CATATATGTATTA
385274 AACTTATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 7 0.17
12 13 0.32
13 14 0.34
14 7 0.17
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (13 bp):
CATATATGTATTA
Found at i:385284 original size:2 final size:2
Alignment explanation
Indices: 385213--385267 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
385203 TGATATTTCC
*
385213 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
385255 GT AT -T AC AT AT AT
1 AT AT AT AT AT AT AT
385268 GTATTAAACT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:385389 original size:18 final size:19
Alignment explanation
Indices: 385353--385396 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
385343 TATTAATACT
385353 TAATA-TATATAAATTTATA
1 TAATATTATATAAA-TTATA
385372 TAATATTATATAAA-TATA
1 TAATATTATATAAATTATA
385390 TAATATT
1 TAATATT
385397 TATTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.46
19 5 0.21
20 8 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATATTATATAAATTATA
Found at i:385619 original size:15 final size:16
Alignment explanation
Indices: 385599--385629 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
385589 CTCAAACTTA
385599 AAAAAT-TTTGAATCC
1 AAAAATATTTGAATCC
385614 AAAAATATTTGAATCC
1 AAAAATATTTGAATCC
385630 GAGATGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (16 bp):
AAAAATATTTGAATCC
Found at i:389027 original size:22 final size:22
Alignment explanation
Indices: 388976--389027 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
388966 TTAAATTAAG
*
388976 AAATAATTTTATAATAATACTT
1 AAATAATATTATAATAATACTT
* * *
388998 GAAGAATATTATAATATTA-TAT
1 AAATAATATTATAATAATACT-T
389020 AAATAATA
1 AAATAATA
389028 ATTCACCTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
AAATAATATTATAATAATACTT
Found at i:389456 original size:34 final size:35
Alignment explanation
Indices: 389418--389484 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
389408 CCTTACAACA
389418 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
389452 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
389485 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:389940 original size:13 final size:13
Alignment explanation
Indices: 389922--389947 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
389912 TACAAGCCAA
389922 TGTATCGATACAT
1 TGTATCGATACAT
389935 TGTATCGATACAT
1 TGTATCGATACAT
389948 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:399711 original size:51 final size:50
Alignment explanation
Indices: 399648--399870 Score: 216
Period size: 51 Copynumber: 4.4 Consensus size: 50
399638 GAAAATAACA
**
399648 GGGTTGGAGTATCCTTGATTATAGAAAAATGGTGTATTGAAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTAT-GAAAAATGGTGTATTGAAAATAAAATCG
* * * *
399699 GGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTATGA-AAAATGGTGTATTGAAAATAAAATCG
* * * *
399750 GAGTTGGAGTATCCCCAATTATGAAAAATTG-GTATTTTAGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATGGTGTA-TTGA-AAATAAAATCG
* * * * * * *
399801 GGGTTAGAGTATCCTCGATTAAGAAAAATTGATGTTTTGGAAATAGAA-CG
1 GGGTTGGAGTATCCCCGATTATGAAAAA-TGGTGTATTGAAAATAAAATCG
*
399851 AGGATTGGAGTATCCCCGAT
1 -GGGTTGGAGTATCCCCGAT
399871 GACATAACGG
Statistics
Matches: 138, Mismatches: 28, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
49 2 0.01
50 11 0.08
51 120 0.87
52 3 0.02
53 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.30
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATGGTGTATTGAAAATAAAATCG
Found at i:400532 original size:19 final size:18
Alignment explanation
Indices: 400507--400574 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
400497 AATTCAACAA
400507 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
400525 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
400541 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
400557 TATTGTATCGATACATAA
1 T-TTGTATCGATACATAA
400575 TTACTACTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
18 1 0.02
19 27 0.63
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:400546 original size:13 final size:13
Alignment explanation
Indices: 400528--400552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
400518 ACATAAGTGT
400528 TGTATCGATACAA
1 TGTATCGATACAA
400541 TGTATCGATACA
1 TGTATCGATACA
400553 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:400546 original size:32 final size:32
Alignment explanation
Indices: 400509--400571 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
400499 TTCAACAATT
*
400509 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
400541 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
400572 TAATTACTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:400631 original size:13 final size:13
Alignment explanation
Indices: 400613--400638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
400603 CATTTTTCTG
400613 TGTATCGATACAT
1 TGTATCGATACAT
400626 TGTATCGATACAT
1 TGTATCGATACAT
400639 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:400656 original size:34 final size:33
Alignment explanation
Indices: 400593--400659 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
400583 ACCAAGGGAA
*
400593 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
400626 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
400660 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:403123 original size:52 final size:51
Alignment explanation
Indices: 403026--403392 Score: 242
Period size: 51 Copynumber: 7.0 Consensus size: 51
403016 GGATATTCTC
*
403026 ACTCCGATTTTATTTTCAAAACACTAA-TTTTCTATAATCGGGGATACTCCA
1 ACTCCGATTTTATTTTCAAAACACCAATTTTTC-ATAATCGGGGATACTCCA
*
403077 ACTCCGATTTTATTTTCAAAAACACCAATTTTTCATAATCGAGGATACTCCA
1 ACTCCGATTTTATTTTC-AAAACACCAATTTTTCATAATCGGGGATACTCCA
* ** * * * ** * * ****
403129 AC-CTCG-TTGTCA-CATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCA
1 ACTC-CGATT-TTATTTTC---AAAACACCAA---TTTTTCATAATCGGGGATACTCCA
* ** ** * *** *
403185 ACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCA
1 ACTCCGATTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCA
* * *
403236 AC-CTCGGTTTTA-TTTCTAAAACACTAATTTTTCACAATCGGGGATACTCCA
1 ACTC-CGATTTTATTTTC-AAAACACCAATTTTTCATAATCGGGGATACTCCA
* * * *
403287 ACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCA
1 ACTCCGATTTTATTTTCAAAACACCAATTTTTC-ATAATCGGGGATACTCCA
* * *
403339 ACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCA
1 ACTCCGATTTTATTTTC-AAAACACCAATTTTTCATAATCGGGGATACTCCA
403391 AC
1 AC
403393 CTTGTTATTT
Statistics
Matches: 240, Mismatches: 58, Indels: 35
0.72 0.17 0.11
Matches are distributed among these distances:
50 3 0.01
51 99 0.41
52 84 0.35
53 27 0.11
54 3 0.01
56 21 0.09
57 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
ACTCCGATTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCA
Found at i:403427 original size:28 final size:28
Alignment explanation
Indices: 403376--403452 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
403366 ATTTTTCACA
* ** **
403376 ATCGAGGATACTCCAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
403404 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
403432 --CGAGAGGATACTCCAACCCCG
1 ATCG-G-GGATACTCCAACCCCG
403453 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 39 0.93
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:403471 original size:262 final size:261
Alignment explanation
Indices: 403007--403500 Score: 837
Period size: 262 Copynumber: 1.9 Consensus size: 261
402997 CTCAATTCTC
* * *
403007 CACAATCAGGGATATTCTCACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCAGGGATACTCTCACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
* *
403072 CTCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCATAATCGAGGATACTCCAACCTCGTT
66 CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTT
* *
403137 GTCACATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCC
131 ATCACATCGGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGGCTTTATTCCC
403202 AAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTT
196 AAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTT
403267 T
261 T
* * *
403268 CACAATCGGGGATACTC-CAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
1 CACAATCAGGGATACTCTC-ACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGA
*
403332 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTTG
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCG
**
403397 TTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGGCTTTATTC
129 TTATCACATCGGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGGCTTTATTC
*
403462 CCAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
194 CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
403501 CCGTTATTTT
Statistics
Matches: 217, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
260 1 0.00
261 43 0.20
262 173 0.80
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (261 bp):
CACAATCAGGGATACTCTCACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTT
ATCACATCGGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGGCTTTATTCCC
AAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTT
T
Found at i:403555 original size:79 final size:79
Alignment explanation
Indices: 403406--403610 Score: 205
Period size: 79 Copynumber: 2.6 Consensus size: 79
403396 GTTATTTCAT
** * * *
403406 CGGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
403471 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * * * *
403485 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCTGATTTTTTTTCC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
403549 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
** * * * *
403564 CGGGGATACTCCTGCCCCATCATTTTCAAGGGGACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
403611 TTATTATCTC
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
78 3 0.03
79 98 0.97
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:404657 original size:20 final size:21
Alignment explanation
Indices: 404628--404680 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
404618 ATCGATACAT
* **
404628 TGTATTGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
404648 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
404669 TGTATCGATACA
1 TGTATCGATACA
404681 GGTCATTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:412828 original size:31 final size:31
Alignment explanation
Indices: 412790--412853 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
412780 TTAATATGCG
*
412790 AAATTGTCAAATTATTTTACTAAGGGGGAGA
1 AAATTGTCAAACTATTTTACTAAGGGGGAGA
412821 AAATTGTCAAACTATTTTACTAAGGGGGAGA
1 AAATTGTCAAACTATTTTACTAAGGGGGAGA
412852 AA
1 AA
412854 TTTTTGATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (31 bp):
AAATTGTCAAACTATTTTACTAAGGGGGAGA
Found at i:413442 original size:13 final size:13
Alignment explanation
Indices: 413424--413450 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
413414 ATACAGACTG
413424 CATTGTATCGATA
1 CATTGTATCGATA
413437 CATTGTATCGATA
1 CATTGTATCGATA
413450 C
1 C
413451 TTGGAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:413567 original size:33 final size:32
Alignment explanation
Indices: 413504--413571 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
413494 GTAGCCAAAT
** *
413504 TTGTATCGATACACACAGTATGTATTGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
413536 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
413569 TTG
1 TTG
413572 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:416804 original size:20 final size:19
Alignment explanation
Indices: 416779--416852 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
416769 AAAATGCATG
*
416779 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
416799 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
416819 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
416839 AATGTATCGATACA
1 AATGTATCGATACA
416853 TCTGGGTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:417821 original size:51 final size:49
Alignment explanation
Indices: 417764--417939 Score: 156
Period size: 51 Copynumber: 3.7 Consensus size: 49
417754 ATTTAATTAG
*
417764 ATGTATCAATATATTGAAAAATATATCGATACATCTGGAAAAAAAGACAGA
1 ATGTATCAATATATTGAAAAATGTATCGATACATCTGG--AAAAAGACAGA
* * * *
417815 ATGTATCAATACATTGAAGAATGTATCAATACAGTC-------ATAC---
1 ATGTATCAATATATTGAAAAATGTATCGATACA-TCTGGAAAAAGACAGA
* * *
417855 ATGTATCGATATATTGAAAAATGCATCGATACATCTGGGTAAAAAGATAGA
1 ATGTATCAATATATTGAAAAATGTATCGATACATCT-GG-AAAAAGACAGA
*
417906 ATGTATCAATATATTGAATAATGTATCGATACAT
1 ATGTATCAATATATTGAAAAATGTATCGATACAT
417940 TGAAGAATGT
Statistics
Matches: 97, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
39 2 0.02
40 28 0.29
43 3 0.03
48 2 0.02
51 60 0.62
52 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.30
Consensus pattern (49 bp):
ATGTATCAATATATTGAAAAATGTATCGATACATCTGGAAAAAGACAGA
Found at i:417837 original size:20 final size:20
Alignment explanation
Indices: 417812--417983 Score: 87
Period size: 20 Copynumber: 8.1 Consensus size: 20
417802 AAAAAAAGAC
*
417812 AGAATGTATCAATACATTGA
1 AGAATGTATCGATACATTGA
* * *
417832 AGAATGTATCAATACAGTCA
1 AGAATGTATCGATACATTGA
* *
417852 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
* *
417872 AAAATGCATCGATACATCTGGGTAAAA
1 AGAATGTATCGATACAT-T--G----A
* *
417899 AGATAGAATGTATCAATATATTGA
1 AG--A--ATGTATCGATACATTGA
*
417923 ATAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
**
417943 AGAATGTATCGATACATCCA
1 AGAATGTATCGATACATTGA
*
417963 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
417983 A
1 A
417984 AAATAATCCT
Statistics
Matches: 115, Mismatches: 23, Indels: 29
0.69 0.14 0.17
Matches are distributed among these distances:
19 2 0.02
20 90 0.78
21 3 0.03
22 1 0.01
23 1 0.01
24 2 0.02
27 2 0.02
28 1 0.01
29 1 0.01
30 1 0.01
31 11 0.10
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:417871 original size:40 final size:39
Alignment explanation
Indices: 417814--417983 Score: 117
Period size: 40 Copynumber: 4.5 Consensus size: 39
417804 AAAAAGACAG
*
417814 AATGTATCAATACATTGAAGAATGTATCAATACAGT-CAT
1 AATGTATCGATACATTGAAGAATGTATCAATACA-TCCAT
* * * *
417853 ACATGTATCGATATATTGAAAAATGCATCGATACAT-C-T
1 A-ATGTATCGATACATTGAAGAATGTATCAATACATCCAT
** * * **
417891 -GGGTA---A-A-A-AGATAGAATGTATCAATATATTGAAT
1 AATGTATCGATACATTGA-AGAATGTATCAATACA-TCCAT
*
417925 AATGTATCGATACATTGAAGAATGTATCGATACATCCAT
1 AATGTATCGATACATTGAAGAATGTATCAATACATCCAT
417964 ACATGTATCGATACATTGAA
1 A-ATGTATCGATACATTGAA
417984 AAATAATCCT
Statistics
Matches: 98, Mismatches: 20, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
30 2 0.02
31 13 0.13
32 2 0.02
33 1 0.01
34 1 0.01
35 3 0.03
36 3 0.03
38 2 0.02
39 8 0.08
40 61 0.62
41 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (39 bp):
AATGTATCGATACATTGAAGAATGTATCAATACATCCAT
Found at i:417872 original size:91 final size:91
Alignment explanation
Indices: 417764--417938 Score: 269
Period size: 91 Copynumber: 1.9 Consensus size: 91
417754 ATTTAATTAG
*
417764 ATGTATCAATATATTGAAAAATATATCGATACATCTGGAAAAAAAGACAGAATGTATCAATACAT
1 ATGTATCAATATATTGAAAAATACATCGATACATCTGGAAAAAAAGACAGAATGTATCAATACAT
417829 TGAAGAATGTATCAATACAGTCATAC
66 TGAAGAATGTATCAATACAGTCATAC
* * ** * *
417855 ATGTATCGATATATTGAAAAATGCATCGATACATCTGGGTAAAAAGATAGAATGTATCAATATAT
1 ATGTATCAATATATTGAAAAATACATCGATACATCTGGAAAAAAAGACAGAATGTATCAATACAT
* *
417920 TGAATAATGTATCGATACA
66 TGAAGAATGTATCAATACA
417939 TTGAAGAATG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (91 bp):
ATGTATCAATATATTGAAAAATACATCGATACATCTGGAAAAAAAGACAGAATGTATCAATACAT
TGAAGAATGTATCAATACAGTCATAC
Found at i:417974 original size:91 final size:91
Alignment explanation
Indices: 417780--417986 Score: 240
Period size: 91 Copynumber: 2.3 Consensus size: 91
417770 CAATATATTG
*
417780 AAAAATATATCGATACATCTGGAAAAAAAGACAGAATGTATCAATACATTGAAGAATGTATCAAT
1 AAAAATGTATCGATACATCTGGAAAAAAAGACAGAATGTATCAATACATTGAAGAATGTATCAAT
* * **
417845 ACAGTCATACATGTATCGATATATTG
66 ACAGTCATAAATGTATCGATACATCC
* ** * * * *
417871 AAAAATGCATCGATACATCTGGGTAAAAAGATAGAATGTATCAATATATTGAATAATGTATCGAT
1 AAAAATGTATCGATACATCTGGAAAAAAAGACAGAATGTATCAATACATTGAAGAATGTATCAAT
* *
417936 ACATTGA-AGAATGTATCGATACATCC
66 ACAGTCATA-AATGTATCGATACATCC
* *
417962 ATACATGTATCGATACAT-T-GAAAAA
1 AAAAATGTATCGATACATCTGGAAAAA
417987 TAATCCTCTA
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
89 4 0.04
90 2 0.02
91 90 0.94
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (91 bp):
AAAAATGTATCGATACATCTGGAAAAAAAGACAGAATGTATCAATACATTGAAGAATGTATCAAT
ACAGTCATAAATGTATCGATACATCC
Found at i:419601 original size:3 final size:3
Alignment explanation
Indices: 419593--419634 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
419583 TCTAGGTTTT
*
419593 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
419635 ATGTTTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:420990 original size:22 final size:21
Alignment explanation
Indices: 420948--420990 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
420938 ATCTAACTGT
*
420948 TAAACCTGATTGACTTAAACC
1 TAAACCTGAATGACTTAAACC
*
420969 TAAACCTGAAATGACTTGAACC
1 TAAACCTG-AATGACTTAAACC
420991 CGATTTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.26
Consensus pattern (21 bp):
TAAACCTGAATGACTTAAACC
Found at i:421165 original size:15 final size:15
Alignment explanation
Indices: 421147--421197 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
421137 AAAATTTTAA
*
421147 AACCCGAAATAACCC
1 AACCCAAAATAACCC
*
421162 AACCCAAAATGACCC
1 AACCCAAAATAACCC
* *
421177 AACTCAAAACTAACTC
1 AACCCAAAA-TAACCC
421193 AACCC
1 AACCC
421198 GCCCAATTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
15 21 0.72
16 8 0.28
ACGTcount: A:0.47, C:0.39, G:0.04, T:0.10
Consensus pattern (15 bp):
AACCCAAAATAACCC
Found at i:423921 original size:17 final size:18
Alignment explanation
Indices: 423895--423940 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
423885 TTATCTAATC
*
423895 TTATAATTATTAGAT-AA
1 TTATATTTATTAGATGAA
*
423912 TTATATTTATTTGATGAA
1 TTATATTTATTAGATGAA
423930 -TATTATTTATT
1 TTA-TATTTATT
423941 GAAATAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
TTATATTTATTAGATGAA
Found at i:425803 original size:13 final size:13
Alignment explanation
Indices: 425785--425810 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
425775 TACACAAAGT
425785 ATGTATCGATACA
1 ATGTATCGATACA
425798 ATGTATCGATACA
1 ATGTATCGATACA
425811 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:429891 original size:15 final size:15
Alignment explanation
Indices: 429871--429901 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
429861 TAAAAATGTC
*
429871 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
429886 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
429901 C
1 C
429902 TAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:432000 original size:13 final size:13
Alignment explanation
Indices: 431982--432019 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
431972 CATTTTTCTT
431982 TGTATCGATACAA
1 TGTATCGATACAA
*
431995 TGTATCGATACAC
1 TGTATCGATACAA
432008 TGTATCGATACA
1 TGTATCGATACA
432020 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:432173 original size:20 final size:20
Alignment explanation
Indices: 432130--432175 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
432120 CAAATTTTTG
432130 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
432151 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
432171 CAAAA
1 CAAAA
432176 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:434551 original size:13 final size:13
Alignment explanation
Indices: 434533--434558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
434523 TACACAAAGT
434533 ATGTATCGATACA
1 ATGTATCGATACA
434546 ATGTATCGATACA
1 ATGTATCGATACA
434559 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:434556 original size:32 final size:33
Alignment explanation
Indices: 434515--434578 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
434505 TAGCCAAACT
**
434515 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
434547 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
434579 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:435710 original size:22 final size:22
Alignment explanation
Indices: 435657--435711 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
435647 TCAAAGAATT
435657 ATCAAGAACAACAAAGAAAGGAA
1 ATCAAGAA-AACAAAGAAAGGAA
** * * *
435680 AAGATGAAAACAAATAAATGAA
1 ATCAAGAAAACAAAGAAAGGAA
435702 ATCAAGAAAA
1 ATCAAGAAAA
435712 ACATAAAAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.67, C:0.09, G:0.15, T:0.09
Consensus pattern (22 bp):
ATCAAGAAAACAAAGAAAGGAA
Found at i:439356 original size:13 final size:13
Alignment explanation
Indices: 439338--439362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
439328 CATAAGGTGT
439338 TGTATCGATACAA
1 TGTATCGATACAA
439351 TGTATCGATACA
1 TGTATCGATACA
439363 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:439383 original size:32 final size:33
Alignment explanation
Indices: 439318--439383 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
439308 TTCAATGATT
*
439318 TGTATCGATACATAAGGTGTTGTATCGATACAA
1 TGTATCGATACATAAGGTGTTGTATCGAGACAA
*
439351 TGTATCGATACATAA-GTTTTGTATCGAGACAA
1 TGTATCGATACATAAGGTGTTGTATCGAGACAA
439383 T
1 T
439384 TTAAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAGGTGTTGTATCGAGACAA
Found at i:439501 original size:52 final size:52
Alignment explanation
Indices: 439457--439585 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
439447 CACTGATCTT
*
439457 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACACTATAAAA
* * *
439509 TGTATCGATACATGCAAGCAAATTTGCCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACACTATAAAA
*
439561 TGTATCGATACATGCAGGCGAATTT
1 TGTATCGATACATGCAGGCAAATTT
439586 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACACTATAAAA
Found at i:452628 original size:9 final size:9
Alignment explanation
Indices: 452614--452710 Score: 85
Period size: 9 Copynumber: 10.8 Consensus size: 9
452604 CCTCCTGCAA
452614 AAAAAAAAC
1 AAAAAAAAC
452623 AAAAAATAA-
1 AAAAAA-AAC
*
452632 AAAATAAA-
1 AAAAAAAAC
*
452640 AAAAAGAAC
1 AAAAAAAAC
452649 AGAAAAAAA-
1 A-AAAAAAAC
*
452658 AGAAAAAA-
1 AAAAAAAAC
*
452666 AAACAAAAC
1 AAAAAAAAC
452675 AAAAAAAAAC
1 -AAAAAAAAC
452685 AAAAAAAAC
1 AAAAAAAAC
*
452694 AAAAACAAC
1 AAAAAAAAC
452703 AACAAAAA
1 AA-AAAAA
452711 GGGTCGGGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
8 20 0.28
9 32 0.44
10 20 0.28
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:452635 original size:15 final size:14
Alignment explanation
Indices: 452612--452701 Score: 92
Period size: 15 Copynumber: 5.9 Consensus size: 14
452602 GTCCTCCTGC
452612 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
452626 AAATAAAAAATA-AAA
1 AAA-AAAAAA-ACAAA
*
452641 AAAAGAACAGAAAAAAA
1 AAAA-AA-A-AAACAAA
452658 AGAAAAAAAAACAAA
1 A-AAAAAAAAACAAA
452673 ACAAAAAAAAACAAA
1 A-AAAAAAAAACAAA
452688 AAAAACAAAAACAA
1 AAAAA-AAAAACAA
452702 CAACAAAAAG
Statistics
Matches: 66, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
14 8 0.12
15 43 0.65
16 4 0.06
17 8 0.12
18 3 0.05
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:452693 original size:24 final size:22
Alignment explanation
Indices: 452612--452698 Score: 102
Period size: 24 Copynumber: 3.7 Consensus size: 22
452602 GTCCTCCTGC
452612 AAAAAAAAAACAAAAAATAAAAA
1 AAAAAAAAAACAAAAAA-AAAAA
* *
452635 ATAAAAAAAAGAACAGAAAAAAAA
1 AAAAAAAAAACAA-A-AAAAAAAA
*
452659 GAAAAAAAAACAAAACAAAAAAA
1 AAAAAAAAAACAAAA-AAAAAAA
452682 AACAAAAAAAACAAAAA
1 AA-AAAAAAAACAAAAA
452699 CAACAACAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
22 1 0.02
23 21 0.39
24 29 0.54
25 3 0.06
ACGTcount: A:0.87, C:0.07, G:0.03, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAACAAAAAAAAAAA
Found at i:452710 original size:1 final size:1
Alignment explanation
Indices: 452612--452698 Score: 75
Period size: 1 Copynumber: 87.0 Consensus size: 1
452602 GTCCTCCTGC
* * * * * * * * *
452612 AAAAAAAAAACAAAAAATAAAAAATAAAAAAAAGAACAGAAAAAAAAGAAAAAAAAACAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
452677 AAAAAAACAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
452699 CAACAACAAA
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.87, C:0.07, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:454216 original size:29 final size:29
Alignment explanation
Indices: 454148--454311 Score: 148
Period size: 30 Copynumber: 5.3 Consensus size: 29
454138 TCACCCTTCA
454148 AAAGCCCACAAGTCAGTGGCATCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTT-C
*
454178 AAAGCCCACAAGTCCGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
** * *
454207 AAAGTTCACAAGTCGGTGGCAACCTTTTTC
1 AAAGCCCACAAGTCAGTGGC-ATCTTTTTC
* * *
454237 AAAGCCCACACAAGTCGGTGGCAACCTTCTTC
1 AAAG-CC-CACAAGTCAGTGGC-ATCTTTTTC
* * *
454269 TAAAGCCCACACAAGTCGGTGGCAACTCTTCTC
1 -AAAG-CC-CACAAGTCAGTGGCATCT-TTTTC
454302 AAAGCCCACA
1 AAAGCCCACA
454312 CAAGTCGGTG
Statistics
Matches: 118, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
29 18 0.15
30 43 0.36
31 2 0.02
32 30 0.25
33 25 0.21
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:454254 original size:32 final size:33
Alignment explanation
Indices: 454154--454551 Score: 446
Period size: 32 Copynumber: 12.5 Consensus size: 33
454144 TTCAAAAGCC
* * *
454154 CACAAGTCAGTGGC-ATCTTTTTCCAAAG-CC-
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
* * **
454184 CACAAGTCCGTGGC-ATCTTTTTC-AAAG--TT
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
454213 CACAAGTCGGTGGCAACCTTTTTC-AAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
*
454245 CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
*
454278 CACAAGTCGGTGGCAA-C-TCTTCTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCT-AAAGCCCA
* *
454310 CACAAGTCGGTGGCAACC-CTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
* * *
454342 CACAAGTCGGTGGCAACCATCTTCTAAAGGCCA
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
* * * *
454375 CACAAGTTGGTGGCAACCCTTCTC-AAAGCCTA
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
* *
454407 CACAAGTCGGTGGCAACCCTTCTC-AAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
* *
454439 CACAAGTCGGTGGCAACC-CTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
* *
454471 CACAAGTCGGTGGCAACCATCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
* *
454504 CACAAGTCGGTGGCAACCTTCTTCAAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
*
454537 CACAAGTTGGTGGCA
1 CACAAGTCGGTGGCA
454552 TCTTCCTTTA
Statistics
Matches: 329, Mismatches: 29, Indels: 17
0.88 0.08 0.05
Matches are distributed among these distances:
29 17 0.05
30 34 0.10
31 10 0.03
32 154 0.47
33 114 0.35
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.20
Consensus pattern (33 bp):
CACAAGTCGGTGGCAACCTTTTTCTAAAGCCCA
Found at i:454323 original size:97 final size:98
Alignment explanation
Indices: 454213--454551 Score: 510
Period size: 97 Copynumber: 3.5 Consensus size: 98
454203 TTTCAAAGTT
* *
454213 CACAAGTCGGTGGCAACCTTTTTC-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCC
1 CACAAGTCGGTGGCAACCTTTCTCAAAAGCCCACACAAGTCGGTGGCAACCATCTTCTAAAGCCC
454277 ACACAAGTCGGTGGCAACTCTTCTCAAAGCCCA
66 ACACAAGTCGGTGGCAACTCTTCTCAAAGCCCA
* * *
454310 CACAAGTCGGTGGCAACC-CTCTCTAAAGCCCACACAAGTCGGTGGCAACCATCTTCTAAAGGCC
1 CACAAGTCGGTGGCAACCTTTCTCAAAAGCCCACACAAGTCGGTGGCAACCATCTTCTAAAGCCC
* * *
454374 ACACAAGTTGGTGGCAACCCTTCTCAAAGCCTA
66 ACACAAGTCGGTGGCAACTCTTCTCAAAGCCCA
* *
454407 CACAAGTCGGTGGCAACCCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCC
1 CACAAGTCGGTGGCAACCTTTCTCAAAAGCCCACACAAGTCGGTGGCAACCATCTTCTAAAGCCC
454470 ACACAAGTCGGTGGCAACCATCTTCT-AAAGCCCA
66 ACACAAGTCGGTGGCAA-C-TCTTCTCAAAGCCCA
*
454504 CACAAGTCGGTGGCAACC-TTCTTCAAAAGCCCACACAAGTTGGTGGCA
1 CACAAGTCGGTGGCAACCTTTC-TCAAAAGCCCACACAAGTCGGTGGCA
454552 TCTTCCTTTA
Statistics
Matches: 222, Mismatches: 14, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
96 31 0.14
97 160 0.72
98 31 0.14
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (98 bp):
CACAAGTCGGTGGCAACCTTTCTCAAAAGCCCACACAAGTCGGTGGCAACCATCTTCTAAAGCCC
ACACAAGTCGGTGGCAACTCTTCTCAAAGCCCA
Found at i:454410 original size:129 final size:130
Alignment explanation
Indices: 454213--454551 Score: 576
Period size: 129 Copynumber: 2.6 Consensus size: 130
454203 TTTCAAAGTT
* * *
454213 CACAAGTCGGTGGCAACCTTTTTC-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCC
1 CACAAGTCGGTGGCAACCATCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCAAAAGCCC
*
454277 ACACAAGTCGGTGGCAACTCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCA
66 ACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCA
* *
454342 CACAAGTCGGTGGCAACCATCTTCTAAAGGCCACACAAGTTGGTGGCAACCCTTC-TC-AAAGCC
1 CACAAGTCGGTGGCAACCATCTTCTAAAGCCCACACAAGTCGGTGGCAA-CCTTCTTCAAAAGCC
*
454405 TACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCC
65 CACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCC
454470 A
130 A
454471 CACAAGTCGGTGGCAACCATCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCAAAAGCCC
1 CACAAGTCGGTGGCAACCATCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCAAAAGCCC
*
454536 ACACAAGTTGGTGGCA
66 ACACAAGTCGGTGGCA
454552 TCTTCCTTTA
Statistics
Matches: 196, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
128 5 0.03
129 141 0.72
130 45 0.23
131 5 0.03
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (130 bp):
CACAAGTCGGTGGCAACCATCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCAAAAGCCC
ACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCA
Found at i:454667 original size:43 final size:43
Alignment explanation
Indices: 454606--454829 Score: 295
Period size: 43 Copynumber: 5.1 Consensus size: 43
454596 GCACCTTCAT
* * *
454606 CTTTAAGTCCAATGTAGCTGACCTTGAATCAACACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
454649 CTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
454692 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
* *
454736 TTCATGTTTAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGCAC
1 --C---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
454784 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
454827 CTT
1 CTT
454830 CATCTTTAAG
Statistics
Matches: 160, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
43 119 0.74
44 1 0.01
46 2 0.01
48 1 0.01
49 37 0.23
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:454694 original size:21 final size:20
Alignment explanation
Indices: 454626--454694 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 20
454616 AATGTAGCTG
454626 ACCTTGAATCAACACATTGGC
1 ACCTTGAATC-ACACATTGGC
* *
454647 ACCTTTAAGTC-CA-ATGTAGC
1 ACCTTGAA-TCACACAT-TGGC
454667 TAGCCTTGAATCAGCACATTGGC
1 -A-CCTTGAATCA-CACATTGGC
454690 ACCTT
1 ACCTT
454695 TAAGTCCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
19 2 0.05
20 5 0.14
21 14 0.38
22 9 0.24
23 5 0.14
24 2 0.05
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (20 bp):
ACCTTGAATCACACATTGGC
Found at i:454746 original size:92 final size:90
Alignment explanation
Indices: 454606--454875 Score: 352
Period size: 92 Copynumber: 3.0 Consensus size: 90
454596 GCACCTTCAT
* * * * *
454606 CTTTAAGTCCAATGTAGCTGACCTTGAATCAACACATTGGCAC--C--TTTAAGTCCAATGTAGC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATTTTAAGTCCAATGTAGC
454667 TAGCCTTGAATCAGCACATTGGCAC
66 TAGCCTTGAATCAGCACATTGGCAC
454692 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATGTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCAT-TTTAAGTCCAATGTA
* *
454757 GCTGGCCTTGAATCAGTACATTGGCAC
64 GCTAGCCTTGAATCAGCACATTGGCAC
* * *
454784 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAGTGTG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCAT-TTTAAGTCCAATGTA
* *
454849 GC-AGGCCTTGAATCTGCACAGTGGCAC
64 GCTA-GCCTTGAATCAGCACATTGGCAC
454876 ATTGCAATGA
Statistics
Matches: 161, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
86 37 0.23
87 1 0.01
89 1 0.01
92 122 0.76
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (90 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCATTTTAAGTCCAATGTAGC
TAGCCTTGAATCAGCACATTGGCAC
Found at i:454808 original size:135 final size:135
Alignment explanation
Indices: 454556--454829 Score: 467
Period size: 135 Copynumber: 2.0 Consensus size: 135
454546 GTGGCATCTT
454556 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
454621 AGCTGACCTTGAATCAACACATTGGCACCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACAT
66 AGCTGACCTTGAATCAACACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACAT
454686 TGGCA
131 TGGCA
* *
454691 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATGTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* ** * * *
454756 AGCTGGCCTTGAATCAGTACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AGCTGACCTTGAATCAACACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACAT
454821 TGGCA
131 TGGCA
454826 CCTT
1 CCTT
454830 CATCTTTAAG
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
135 130 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (135 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGACCTTGAATCAACACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACAT
TGGCA
Found at i:455433 original size:13 final size:13
Alignment explanation
Indices: 455415--455439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
455405 CATAAGGTGT
455415 TGTATCGATACAA
1 TGTATCGATACAA
455428 TGTATCGATACA
1 TGTATCGATACA
455440 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:455455 original size:32 final size:33
Alignment explanation
Indices: 455395--455460 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
455385 TTCAACGATT
455395 TGTATCGATACATAAGGTGTTGTATCGATACAA
1 TGTATCGATACATAAGGTGTTGTATCGATACAA
*
455428 TGTATCGATACATAA-GTTTTGTATCGATACAA
1 TGTATCGATACATAAGGTGTTGTATCGATACAA
455460 T
1 T
455461 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAGGTGTTGTATCGATACAA
Found at i:455519 original size:13 final size:13
Alignment explanation
Indices: 455501--455525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
455491 ATTACTCAAA
455501 TGTATCGATACAT
1 TGTATCGATACAT
455514 TGTATCGATACA
1 TGTATCGATACA
455526 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:455578 original size:52 final size:52
Alignment explanation
Indices: 455534--455662 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
455524 CACTGATCTT
* *
455534 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAAATGTATCGATACACTATAAAA
*
455586 TGTATCGATACATGCAAGCAAATTTGCCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* *
455638 TGTATCGATACATGCATGCGAATTT
1 TGTATCGATACATGCAAGCAAATTT
455663 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:458821 original size:28 final size:28
Alignment explanation
Indices: 458760--458835 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
458750 GAAACAAAAT
**
458760 CGGGGTTGGAGTATCCCTTA-GAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
**
458787 CAAGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
458815 TGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
458836 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 16 0.39
28 25 0.61
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:458874 original size:106 final size:106
Alignment explanation
Indices: 458684--458882 Score: 285
Period size: 106 Copynumber: 1.9 Consensus size: 106
458674 ACGACACCAG
*
458684 GGTTGGAGTATCCCCGCAAAAATAATGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTT
1 GGTTGGAGTATCCCCGCAAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTT
* *
458749 AGAAACAAAATCGGGGTTGGAGTATCCCTTAGAAATAACAA
66 AGAAACAAAATCAGAGTTGGAGTATCCCTTAGAAATAACAA
* * ** *
458790 GGTTGGAGTATCCCCG-ATGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTT
1 GGTTGGAGTATCCCCGCA-AAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTT
*
458854 T-GAAAATAAAATCAGAGTTGGAGTATCCC
65 TAG-AAACAAAATCAGAGTTGGAGTATCCC
458883 CGATTATGAA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
105 2 0.02
106 80 0.98
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (106 bp):
GGTTGGAGTATCCCCGCAAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTT
AGAAACAAAATCAGAGTTGGAGTATCCCTTAGAAATAACAA
Found at i:458925 original size:51 final size:50
Alignment explanation
Indices: 458813--458930 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 50
458803 CCGATGAAAT
*
458813 AATGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAA
1 AATGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAA
* *
458863 AATCAGAGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTT-AGAAATAA
1 AAT-GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGA-AAATAA
458914 AACTGGGGTTGGAGTAT
1 AA-TGGGGTTGGAGTAT
458931 TCCCTTAGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 4 0.07
51 55 0.92
52 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (50 bp):
AATGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAA
Found at i:459189 original size:51 final size:49
Alignment explanation
Indices: 459080--459189 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 49
459070 ATAACAGGAT
* * *
459080 TAGAGCATCCCCGATGGTGGAAAATCGATGTTTTGAAATAAAATCGGGG
1 TAGAGTATCCCCGATGGTGAAAAATCAATGTTTTGAAATAAAATCGGGG
* * * *
459129 TTGAAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAATTGGGG
1 TAG-AGTATCCCCGATGGTGAAAAATCAATGTTTT-GAAATAAAATCGGGG
459180 TCAGAGTATC
1 T-AGAGTATC
459190 TCTTTGAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 2 0.04
50 26 0.52
51 21 0.42
52 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (49 bp):
TAGAGTATCCCCGATGGTGAAAAATCAATGTTTTGAAATAAAATCGGGG
Found at i:459245 original size:129 final size:129
Alignment explanation
Indices: 458807--459223 Score: 559
Period size: 130 Copynumber: 3.2 Consensus size: 129
458797 GTATCCCCGA
** * * * * * *
458807 TGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCAGAGT
1 TGAAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTGAAAATAAAATCGGGGT
*
458872 TGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATTCCCTT
66 TGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTAGAGTA-TCCCTT
* * *
458937 AGAAATAAC-GGGATTAAAGTATCCCCGATGGTGGAAAATCGATGTTTTGAAAATAAAATCGAGG
1 TGAAATAACAGGG-TTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTGAAAATAAAATCGGGG
** * *
459001 TTGGAGTATCCCTAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCT
65 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTAGAGTATCCCTT
* *
459066 TGAAATAACAGGATTAGAGCATCCCCGATGGTGGAAAATCGATGTTTTG-AAATAAAATCGGGGT
1 TGAAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTGAAAATAAAATCGGGGT
* * * * * *
459130 TGAAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAATTGGGGTCAGAGTATCTCTT
66 TGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTAGAGTATCCCTT
* *
459194 TGAAAATAACAGGGTGAGAGTATTCCCGAT
1 TG-AAATAACAGGGTTAGAGTATCCCCGAT
459224 CATGAGAAGT
Statistics
Matches: 250, Mismatches: 34, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
128 70 0.28
129 73 0.29
130 107 0.43
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (129 bp):
TGAAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTGAAAATAAAATCGGGGT
TGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTAGAGTATCCCTT
Found at i:461526 original size:21 final size:21
Alignment explanation
Indices: 461500--461555 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
461490 GTTGGGACCT
461500 TGTATCGATACATTAAGGGCA
1 TGTATCGATACATTAAGGGCA
461521 TGTATCGATACATTAAGGGCA
1 TGTATCGATACATTAAGGGCA
461542 TGTATCGATACATT
1 TGTATCGATACATT
461556 TTGGGAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATTAAGGGCA
Found at i:462217 original size:87 final size:89
Alignment explanation
Indices: 462072--462232 Score: 209
Period size: 87 Copynumber: 1.8 Consensus size: 89
462062 GGACAAAGTG
* * * * * * * * *
462072 AAAAAGAAGACATCTTGCTTTTTGAGAACTAGAAGGGAAAAGAAGGAAATGAAGTGTGTCCCGCT
1 AAAAAAAAGACATCCTGCTCTTTGAGAACTAAAAGGAAAAAGAAAGAAATGAAATGTGTCACACT
462137 CTTTGAGGACAAAAGAAAAAAAGA
66 CTTTGAGGACAAAAGAAAAAAAGA
* *
462161 AAAAAAAAG-CATCCTGCTCTTTGAGGAC-AAAAGGAAAAAGAAAGAAATGAAATGTGTCATACT
1 AAAAAAAAGACATCCTGCTCTTTGAGAACTAAAAGGAAAAAGAAAGAAATGAAATGTGTCACACT
462224 CTTTGAGGA
66 CTTTGAGGA
462233 TGAAGGAGAG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
87 37 0.61
88 16 0.26
89 8 0.13
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (89 bp):
AAAAAAAAGACATCCTGCTCTTTGAGAACTAAAAGGAAAAAGAAAGAAATGAAATGTGTCACACT
CTTTGAGGACAAAAGAAAAAAAGA
Found at i:462226 original size:45 final size:45
Alignment explanation
Indices: 462104--462232 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 45
462094 TGAGAACTAG
* * * *
462104 AAGGGAAAAGAAGGAAATGAAGTGTGTCCCGCTCTTTGAGGACAA
1 AAGGAAAAAGAAAGAAATGAAATGTGTCCTGCTCTTTGAGGACAA
* **
462149 AAGAAAAAAAGAAA-AAA--AAA-GCATCCTGCTCTTTGAGGACAA
1 AAG-GAAAAAGAAAGAAATGAAATGTGTCCTGCTCTTTGAGGACAA
* *
462191 AAGGAAAAAGAAAGAAATGAAATGTGTCATACTCTTTGAGGA
1 AAGGAAAAAGAAAGAAATGAAATGTGTCCTGCTCTTTGAGGA
462233 TGAAGGAGAG
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
41 9 0.13
42 25 0.37
43 2 0.03
44 3 0.04
45 21 0.31
46 7 0.10
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.18
Consensus pattern (45 bp):
AAGGAAAAAGAAAGAAATGAAATGTGTCCTGCTCTTTGAGGACAA
Found at i:462423 original size:62 final size:62
Alignment explanation
Indices: 462255--462465 Score: 327
Period size: 61 Copynumber: 3.4 Consensus size: 62
462245 GGAACAAGCA
*
462255 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCG
** * *
462316 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTAGGCTTTGCAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG-AAAAGGAAAAGGCG
* * *
462379 TCCTGCTTTTTGAGGACT-AAAGGTGCCACCAACACGTGTGGGCTTTGAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCG
462440 TCCTGCTCTTTGAGGACTAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTG
462466 AAAGGAGAGA
Statistics
Matches: 135, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
61 73 0.54
62 36 0.27
63 26 0.19
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (62 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCG
Found at i:462497 original size:163 final size:161
Alignment explanation
Indices: 462315--462619 Score: 404
Period size: 163 Copynumber: 1.9 Consensus size: 161
462305 AAGAAAAGGC
* * *
462315 GTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTAGG-CTTTGCAAAAGGA-AAAGG
1 GTCCTACTCTTTGAGGACTGGGAA-GTGCCACCAACCTATGT-GGACTTT--AAAAGGAGAAA-G
* * *
462377 CGTCCTGCTTTTTGAGGACT-AAAGGTGCCACCAACACGTGTGGGCTTTGAAAA-GAAAAAGGCG
61 CATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACACGTGTGGGCTTT-AAAACGAAAAA-GCG
*
462440 TCCTGCTCTTTGAGGACTAAAAGGTGAAAGGAGAGAGT
124 TCCTGCTCCTTGAGGACTAAAAGGTGAAAGGAGAGAGT
*
462478 GTCCTACTCTTTGAGGACTGGGAAGTGTCACCAACCTATGTGGACTTTAAAAGGAGAAAGCATCC
1 GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACCTATGTGGACTTTAAAAGGAGAAAGCATCC
* *
462543 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACATGTGTGGGCTTTAAAACGAAAAAGTGTCCTGC
66 TGCTCTTTGAGGACTA-AAAAGTGCCACCAACACGTGTGGGCTTTAAAACGAAAAAGCGTCCTGC
*
462608 TCCTTGGGGACT
130 TCCTTGAGGACT
462620 GGAGGTGCCA
Statistics
Matches: 125, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
161 26 0.21
162 27 0.22
163 68 0.54
164 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (161 bp):
GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACCTATGTGGACTTTAAAAGGAGAAAGCATCC
TGCTCTTTGAGGACTAAAAAGTGCCACCAACACGTGTGGGCTTTAAAACGAAAAAGCGTCCTGCT
CCTTGAGGACTAAAAGGTGAAAGGAGAGAGT
Found at i:462588 original size:62 final size:60
Alignment explanation
Indices: 462479--462887 Score: 437
Period size: 61 Copynumber: 6.7 Consensus size: 60
462469 GGAGAGAGTG
* ** * * * *
462479 TCCTACTCTTTGAGGACTGGGAAGTGTCACCAACCTATGTGGACTTTAAAAGGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGCA
* * **
462540 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACATGTGTGGGCTTTAAAACGAAAAAGTG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAAGCA
* * * * * *
462602 TCCTGCTCCTTGGGGACTG-GAGGTGCCACCAACTTGTGTGGGCTTTTAAAAGAAAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TTTAAAAGGAAAAG-CA
* * *
462663 TCCTGCTCTTTGAGGATTGGAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAATGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCA
* * * * *
462724 TCCTGCTCTTTGAGGACTG-GAGGTGCCACCAACTTGTGTGAGCTTTTAAAAGGGAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TTTAAAAGGAAAAG-CA
* * *
462785 TTCTGCTCTTTGAGGACTGAAAAGTGTCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCA
* * *
462846 TCCTGCCCTTTGAGGACT-AAAGGTGCCACCAGCTTGTGTGGG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGG
462888 TTTTGAAGAA
Statistics
Matches: 295, Mismatches: 43, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
60 71 0.24
61 133 0.45
62 89 0.30
63 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCA
Found at i:462711 original size:122 final size:122
Alignment explanation
Indices: 462479--462899 Score: 492
Period size: 122 Copynumber: 3.5 Consensus size: 122
462469 GGAGAGAGTG
* * * * * * * * *
462479 TCCTACTCTTTGAGGACTGGGAAGTGTCACCAACCTATGTGGAC-TTTAAAAGGAGAAAG-CATC
1 TCCTGCTCCTTGAGGACT-GGAGGTGCCACCAACTTGTGTGGGCTTTTAAAA-GAAAAAGACGTC
* * * **
462542 CTGCTCTTTGAGGACTAGAAAAGTGCCACCAACATGTGTGGGCTTTAAAACGAAAAAGTG
64 CTGCTCTTTGAGGA-TTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCA
*
462602 TCCTGCTCCTTGGGGACTGGAGGTGCCACCAACTTGTGTGGGCTTTTAAAAGAAAAAGACGTCCT
1 TCCTGCTCCTTGAGGACTGGAGGTGCCACCAACTTGTGTGGGCTTTTAAAAGAAAAAGACGTCCT
* * *
462667 GCTCTTTGAGGATTGGAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAATGCA
66 GCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCA
* * ** *
462724 TCCTGCTCTTTGAGGACTGGAGGTGCCACCAACTTGTGTGAGCTTTTAAAAGGGAAAGACGTTCT
1 TCCTGCTCCTTGAGGACTGGAGGTGCCACCAACTTGTGTGGGCTTTTAAAAGAAAAAGACGTCCT
* * * *
462789 GCTCTTTGAGGACTGAAAAGTGTCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCA
66 GCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCA
** * *
462846 TCCTGC-CCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGG-TTTT-GAAGAAAA
1 TCCTGCTCC-TTGAGGACTGGAGGTGCCACCAACTTGTGTGGGCTTTTAAAAGAAAA
462900 GTTGCTTTAC
Statistics
Matches: 257, Mismatches: 38, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
120 5 0.02
121 5 0.02
122 208 0.81
123 39 0.15
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (122 bp):
TCCTGCTCCTTGAGGACTGGAGGTGCCACCAACTTGTGTGGGCTTTTAAAAGAAAAAGACGTCCT
GCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCA
Found at i:464087 original size:18 final size:19
Alignment explanation
Indices: 464064--464101 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
464054 TACTTTTTGA
464064 TTTTTGTCG-TTCTC-TTTT
1 TTTTTGT-GTTTCTCATTTT
464082 TTTTTGTGTTTCTCATTTT
1 TTTTTGTGTTTCTCATTTT
464101 T
1 T
464102 ATGCTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 12 0.67
19 5 0.28
ACGTcount: A:0.03, C:0.13, G:0.11, T:0.74
Consensus pattern (19 bp):
TTTTTGTGTTTCTCATTTT
Found at i:469134 original size:79 final size:79
Alignment explanation
Indices: 469051--469227 Score: 228
Period size: 79 Copynumber: 2.2 Consensus size: 79
469041 GAAATAAAAT
* * * * * *
469051 CGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCTCCGATTGTGAAAAATCGATGC
1 CGGGGTTGGAGTATCCCCGCAAAAATAACAGGGTTAGAGTATCCCCAATTGTGAAAAATCAATAC
* *
469116 TTTAGAAATAAGGC
66 TTTAGAAACAAAGC
* ** * *
469130 CGGGGTTGGAGTATCCCCGCGAAAATAATGGGGTTAGAGTATCCCCAATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCGCAAAAATAACAGGGTTAGAGTATCCCCAATTGTGAAAAATCAATAC
*
469195 TTTAGAAACAAAGT
66 TTTAGAAACAAAGC
469209 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
469228 ATTGTGAAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 84 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGCAAAAATAACAGGGTTAGAGTATCCCCAATTGTGAAAAATCAATAC
TTTAGAAACAAAGC
Found at i:469249 original size:51 final size:50
Alignment explanation
Indices: 469152--469326 Score: 196
Period size: 51 Copynumber: 3.5 Consensus size: 50
469142 ATCCCCGCGA
* * * ** *
469152 AAAT-AAT-GGGGTTAGAGTATCCCCAATTGTGAGAAATCAATATTTTAG
1 AAATAAATCGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAG
*
469200 AAACAAAGTCGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAG
1 AAATAAA-TCGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAG
** *
469251 AAATAAAATCGAAGTTGGAGTGT--CCGATTGTGAAAAATTGATGTTTTAG
1 AAAT-AAATCGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAG
*
469300 AAATAGAACCGGGGTTGGAGTATCCCC
1 AAATA-AATCGGGGTTGGAGTATCCCC
469327 TTGAAAATAA
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
48 4 0.04
49 45 0.43
50 1 0.01
51 52 0.50
52 3 0.03
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (50 bp):
AAATAAATCGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAG
Found at i:469394 original size:179 final size:179
Alignment explanation
Indices: 469094--469437 Score: 537
Period size: 179 Copynumber: 1.9 Consensus size: 179
469084 TTGGAGTATC
* *
469094 TCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCGCGAAAATAAT
1 TCCGATTGTGAAAAATCGATGCTTTAGAAATAAGACCGGGGTTGGAGTATCCCCGCGAAAATAAA
* * **
469159 GGGGTTAGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAACAAAGTCGGGGTTGGAGTATC
66 GGGGTTAGAGTATCCCCAATGGTGAAAAATCAATATTTTAGAAACAAAACCGGGGTTGGAGTATC
469224 CCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGAAGTTGGAGTG
131 CCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGAAGTTGGAGTG
* * **
469273 TCCGATTGTGAAAAATTGATGTTTTAGAAAT-AGAACCGGGGTTGGAGTATCCCCTTGAAAATAA
1 TCCGATTGTGAAAAATCGATGCTTTAGAAATAAG-ACCGGGGTTGGAGTATCCCCGCGAAAATAA
* * * * *
469337 AGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAACCGGGGTTGGAGTAT
65 AGGGGTTAGAGTATCCCCAATGGTGAAAAATCAATATTTTAGAAACAAAACCGGGGTTGGAGTAT
469402 CCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAA
130 CCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAA
469438 CCAGGGTTGA
Statistics
Matches: 149, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
178 2 0.01
179 147 0.99
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (179 bp):
TCCGATTGTGAAAAATCGATGCTTTAGAAATAAGACCGGGGTTGGAGTATCCCCGCGAAAATAAA
GGGGTTAGAGTATCCCCAATGGTGAAAAATCAATATTTTAGAAACAAAACCGGGGTTGGAGTATC
CCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGAAGTTGGAGTG
Found at i:469404 original size:51 final size:51
Alignment explanation
Indices: 469338--469456 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
469328 TGAAAATAAA
* *
469338 GGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACC
* *
469389 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACC
* *
469440 AGGGTTGAAGTATCCCC
1 GGGGTTGGAGTATCCCC
469457 TTAGAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACC
Found at i:469465 original size:130 final size:129
Alignment explanation
Indices: 469209--469646 Score: 621
Period size: 130 Copynumber: 3.4 Consensus size: 129
469199 GAAACAAAGT
* * * * * *
469209 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGAAGTTGGAGTGT
1 CGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTAT
*
469274 --CCGATTGTGAAAAATTGATGTTTTAGAAATAGAACCGGGGTTGGAGTATCCCCTTGAAAATAA
66 CCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACC-GGGTTGGAGTATCCCCTTGAAAATAA
* * *
469337 AGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTAT
*
469402 CCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGAAGTATCCCCTT-AGAAATA
66 CCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACC-GGGTTGGAGTATCCCCTTGA-AAATA
469466 A
129 A
* * *
469467 CGGGCTTAGAGTATCCCCGATAGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTAGAGTAT
1 CGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTAT
*
469532 CCTCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGATTGGAGTATCCCCTTGAAAATAA
66 CCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGG-TTGGAGTATCCCCTTGAAAATAA
** * * * * *
469597 CGGGGTCGGAGTATCCCCGATTATGAAAAGTTGGTGTTTTGAAAATAAAA
1 CGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAA
469647 ACATGAATGA
Statistics
Matches: 277, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
128 56 0.20
129 4 0.01
130 216 0.78
131 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (129 bp):
CGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTAT
CCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGTTGGAGTATCCCCTTGAAAATAA
Found at i:469533 original size:51 final size:51
Alignment explanation
Indices: 469467--469586 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
469457 TTAGAAATAA
* *
469467 CGGGCTTAGAGTATCCCCGATAGTGAAAAATCGATGTTTTGGAAATAAAAC
1 CGGGATTAGAGTATCCCCGATAGTGAAAAATCGATGTTTTAGAAATAAAAC
* * *
469518 CGAGG-TTAGAGTATCCTCGATTGTGAAAAATTGATGTTTTAGAAATAAAAC
1 CG-GGATTAGAGTATCCCCGATAGTGAAAAATCGATGTTTTAGAAATAAAAC
*
469569 CGGGATTGGAGTATCCCC
1 CGGGATTAGAGTATCCCC
469587 TTGAAAATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 2 0.03
51 57 0.93
52 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
CGGGATTAGAGTATCCCCGATAGTGAAAAATCGATGTTTTAGAAATAAAAC
Found at i:475293 original size:33 final size:33
Alignment explanation
Indices: 475251--475313 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
475241 TTTCCAGATG
475251 TATCGATACAAAG-ATCAATGTATCGATACAATA
1 TATCGATACAAAGAAT-AATGTATCGATACAATA
**
475284 TATCGATACATTGAATAATGTATCGATACA
1 TATCGATACAAAGAATAATGTATCGATACA
475314 TTTCCTTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (33 bp):
TATCGATACAAAGAATAATGTATCGATACAATA
Found at i:476794 original size:14 final size:15
Alignment explanation
Indices: 476769--476797 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
476759 AAATTATAAT
476769 TTAATAATAAAAATA
1 TTAATAATAAAAATA
476784 TTAAT-ATAAAAATA
1 TTAATAATAAAAATA
476798 ATCATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAATAATAAAAATA
Found at i:486668 original size:13 final size:13
Alignment explanation
Indices: 486650--486675 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
486640 AATTTTTTTG
486650 TGTATCGATACAT
1 TGTATCGATACAT
486663 TGTATCGATACAT
1 TGTATCGATACAT
486676 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:486789 original size:20 final size:20
Alignment explanation
Indices: 486745--486800 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
486735 ACATCTTTTT
*
486745 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
486765 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
* *
486784 TTATGTATCAATACTTT
1 -CATGTATCGATACTTT
486801 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:487436 original size:21 final size:21
Alignment explanation
Indices: 487395--487438 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
487385 CTCCCCTTTA
* *
487395 TCTCCCCCTTTTATTAATAAT
1 TCTCCCCCTTTAATCAATAAT
487416 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCTTTAATCAA-TAAT
487437 TC
1 TC
487439 ATGTCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.41
Consensus pattern (21 bp):
TCTCCCCCTTTAATCAATAAT
Found at i:489254 original size:13 final size:13
Alignment explanation
Indices: 489236--489299 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
489226 ATAATCCCCC
489236 TGTATCGATACAG
1 TGTATCGATACAG
*
489249 TGTATCGATACAT
1 TGTATCGATACAG
489262 TGTATCGATACAG
1 TGTATCGATACAG
*
489275 TGTATCGATACAT
1 TGTATCGATACAG
489288 TGTATCGATACA
1 TGTATCGATACA
489300 AAGAAAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:489265 original size:26 final size:26
Alignment explanation
Indices: 489236--489299 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
489226 ATAATCCCCC
489236 TGTATCGATACAGTGTATCGATACAT
1 TGTATCGATACAGTGTATCGATACAT
489262 TGTATCGATACAGTGTATCGATACAT
1 TGTATCGATACAGTGTATCGATACAT
489288 TGTATCGATACA
1 TGTATCGATACA
489300 AAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAT
Found at i:493239 original size:22 final size:21
Alignment explanation
Indices: 493192--493241 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
493182 TATGCAAGTT
* *
493192 TTTATTTTTCTTAGCTAACTC
1 TTTATTTTTATTAGCAAACTC
* *
493213 ATTATTTTTATTAGCCAAATTC
1 TTTATTTTTATTAG-CAAACTC
493235 TTTATTT
1 TTTATTT
493242 CAACTTGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.24, C:0.14, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTATTTTTATTAGCAAACTC
Found at i:495321 original size:13 final size:13
Alignment explanation
Indices: 495303--495328 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
495293 AATTTTTTTG
495303 TGTATCGATACAT
1 TGTATCGATACAT
495316 TGTATCGATACAT
1 TGTATCGATACAT
495329 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:499236 original size:13 final size:13
Alignment explanation
Indices: 499218--499243 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
499208 TACAGCAAGT
499218 ATGTATCGATACA
1 ATGTATCGATACA
499231 ATGTATCGATACA
1 ATGTATCGATACA
499244 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:499764 original size:34 final size:35
Alignment explanation
Indices: 499701--499767 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
499691 CTAAGTGATT
499701 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
499737 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
499768 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:502884 original size:13 final size:13
Alignment explanation
Indices: 502866--502890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
502856 TTTTCCAGAT
502866 TGTATCGATACAA
1 TGTATCGATACAA
502879 TGTATCGATACA
1 TGTATCGATACA
502891 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:504473 original size:13 final size:13
Alignment explanation
Indices: 504455--504480 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
504445 TACAGCAAGT
504455 ATGTATCGATACA
1 ATGTATCGATACA
504468 ATGTATCGATACA
1 ATGTATCGATACA
504481 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:505001 original size:34 final size:35
Alignment explanation
Indices: 504938--505004 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
504928 CTAAGTGATT
504938 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
504974 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
505005 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:507063 original size:20 final size:20
Alignment explanation
Indices: 507038--507139 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
507028 TACTCAGATT
507038 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * *
507058 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATG
*
507078 TAACGATACATTCTATTTTTTTACCTAGATG
1 TATCGAT--A--C-A--TTTTT--C-A-ATG
507109 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
507129 TATCGATACAT
1 TATCGATACAT
507140 GCAAGAATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 22
0.68 0.09 0.24
Matches are distributed among these distances:
20 37 0.59
21 1 0.02
22 2 0.03
24 6 0.10
25 1 0.02
26 1 0.02
27 4 0.06
29 1 0.02
30 1 0.02
31 9 0.14
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:507101 original size:71 final size:71
Alignment explanation
Indices: 507024--507296 Score: 269
Period size: 82 Copynumber: 3.6 Consensus size: 71
507014 AAAAGTCACA
* * *
507024 TTTTTA-CTCAGATTTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTAACGATACA
1 TTTTTACCT-AGATGTATCAATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACA
507088 TTCTATT
65 TTCTATT
*
507095 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGCAAGAATGTATCGAAAATG
1 TTTTTACCTAGATGTATCAATACATTTTTCAATGTATCGAT--A--C----ATGTAT-G--AATG
* * *
507160 TATCGAAACATTCTGTC
55 TATCGATACATTCTATT
* *
507177 TTTTTACCTAGATGTATCAATACATTTTTCAATATATCCATACATGTATGAATGTATCGATACAT
1 TTTTTACCTAGATGTATCAATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACA-
*
507242 TCTGTCTTTT
65 --T-TCTATT
* * * *
507252 TTTTTCCCCAGATGTATTAATATATTTTTCAATGTATCGATACAT
1 TTTTTACCTAGATGTATCAATACATTTTTCAATGTATCGATACAT
507297 TTAGTTAAAA
Statistics
Matches: 169, Mismatches: 17, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
71 50 0.30
72 2 0.01
73 2 0.01
74 7 0.04
75 44 0.26
78 1 0.01
79 6 0.04
80 2 0.01
82 55 0.33
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.42
Consensus pattern (71 bp):
TTTTTACCTAGATGTATCAATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTATT
Found at i:507234 original size:20 final size:20
Alignment explanation
Indices: 507188--507241 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
507178 TTTTACCTAG
* *
507188 ATGTATCAATACATTTTTCA
1 ATGTATCAATACATGTATCA
* * *
507208 ATATATCCATACATGTATGA
1 ATGTATCAATACATGTATCA
*
507228 ATGTATCGATACAT
1 ATGTATCAATACAT
507242 TCTGTCTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (20 bp):
ATGTATCAATACATGTATCA
Found at i:507266 original size:75 final size:71
Alignment explanation
Indices: 507156--507296 Score: 183
Period size: 75 Copynumber: 1.9 Consensus size: 71
507146 ATGTATCGAA
*
507156 AATGTATCGAAACATTCTGTCTTTTTACCTAGATGTATCAATACATTTTTCAATATATCCATACA
1 AATGTATCGAAACATTCTGTCTTTTTACCCAGATGTATCAATACATTTTTCAATATATCCATACA
507221 TGTATG
66 TGTATG
* * * * * *
507227 AATGTATCGATACATTCTGTCTTTTTTTTTCCCCAGATGTATTAATATATTTTTCAATGTATCGA
1 AATGTATCGAAACATTCTGTC----TTTTTACCCAGATGTATCAATACATTTTTCAATATATCCA
507292 TACAT
62 TACAT
507297 TTAGTTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
71 20 0.34
75 39 0.66
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (71 bp):
AATGTATCGAAACATTCTGTCTTTTTACCCAGATGTATCAATACATTTTTCAATATATCCATACA
TGTATG
Found at i:518094 original size:2 final size:2
Alignment explanation
Indices: 518087--518122 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
518077 AATAAATAAA
518087 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
518123 TATCAAATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.