Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 36 of 198
Found at i:10762415 original size:15 final size:16
Alignment explanation
Indices: 10762390--10762420 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10762380 CCGAGCGGTT
10762390 CACTCATTTTGAGCAG
1 CACTCATTTTGAGCAG
10762406 CACT-ATTTTGAGCAG
1 CACTCATTTTGAGCAG
10762421 TTCAACAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (16 bp):
CACTCATTTTGAGCAG
Found at i:10775651 original size:2 final size:2
Alignment explanation
Indices: 10775638--10775673 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
10775628 AATATGAATT
*
10775638 TA TA TG TA TA 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 TA TA
10775674 AATGTCATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10791805 original size:17 final size:20
Alignment explanation
Indices: 10791764--10791806 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
10791754 TTTTCTCTAA
10791764 TTTGTTGTTATTGTATAACT
1 TTTGTTGTTATTGTATAACT
*
10791784 CTTGTT-TTATTGT-TAA-T
1 TTTGTTGTTATTGTATAACT
10791801 TTTGTT
1 TTTGTT
10791807 AATATTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 3 0.14
19 7 0.33
20 5 0.24
ACGTcount: A:0.16, C:0.05, G:0.14, T:0.65
Consensus pattern (20 bp):
TTTGTTGTTATTGTATAACT
Found at i:10791948 original size:17 final size:18
Alignment explanation
Indices: 10791904--10791949 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 18
10791894 GTTGGGAAAC
10791904 ATTTATTTTAGTGTTATTA
1 ATTT-TTTTAGTGTTATTA
10791923 ATATTTTTTA-TG-TATTA
1 AT-TTTTTTAGTGTTATTA
10791940 TATTTTTTTA
1 -ATTTTTTTA
10791950 AAAATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 12 0.48
18 4 0.16
19 7 0.28
20 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (18 bp):
ATTTTTTTAGTGTTATTA
Found at i:10799434 original size:23 final size:23
Alignment explanation
Indices: 10799408--10799454 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
10799398 TTGAATCGTC
10799408 TAGCAAACATTGTAATTTTTTTA
1 TAGCAAACATTGTAATTTTTTTA
10799431 TAGCAAACATTGTAATTTTTTTA
1 TAGCAAACATTGTAATTTTTTTA
10799454 T
1 T
10799455 CTTTGTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (23 bp):
TAGCAAACATTGTAATTTTTTTA
Found at i:10801786 original size:23 final size:23
Alignment explanation
Indices: 10801755--10801805 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
10801745 ACCTACTTTC
* * *
10801755 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCAGGATA
10801778 TTACAGTAGTAATTTTCAGGATA
1 TTACAGTAGTAATTTTCAGGATA
10801801 TTACA
1 TTACA
10801806 ATCTTCATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:10803982 original size:26 final size:26
Alignment explanation
Indices: 10803950--10804104 Score: 130
Period size: 26 Copynumber: 6.0 Consensus size: 26
10803940 ATGTTGGAAA
*
10803950 AGCAGGCCTTGAGCCGGTGGTTATTT
1 AGCAGGCCTTGAGCCGGTGTTTATTT
* * ** * *
10803976 AGTAGGCCTCGAGCCTATGGTTCTTT
1 AGCAGGCCTTGAGCCGGTGTTTATTT
* * *
10804002 AGCAGGACTTGAGTCAGTGTTTATTT
1 AGCAGGCCTTGAGCCGGTGTTTATTT
* * * *
10804028 AACAGGCCTTTAGCCGATTTTTATTT
1 AGCAGGCCTTGAGCCGGTGTTTATTT
* *
10804054 AGCAGGCCTTGAACTGGTGTTTATTT
1 AGCAGGCCTTGAGCCGGTGTTTATTT
* * * *
10804080 AGCAGGCTTTAAGCTGGTGTATATT
1 AGCAGGCCTTGAGCCGGTGTTTATT
10804105 ATCAGGTACT
Statistics
Matches: 99, Mismatches: 30, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 99 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (26 bp):
AGCAGGCCTTGAGCCGGTGTTTATTT
Found at i:10808125 original size:34 final size:34
Alignment explanation
Indices: 10808082--10808170 Score: 160
Period size: 34 Copynumber: 2.6 Consensus size: 34
10808072 ACATATACAA
10808082 ATATCATATCAGAATGTCATATTACTAGAAACAT
1 ATATCATATCAGAATGTCATATTACTAGAAACAT
*
10808116 ATATCATATCAGAATGTCATATTTCTAGAAACAT
1 ATATCATATCAGAATGTCATATTACTAGAAACAT
*
10808150 ATATCATATCAAAATGTCATA
1 ATATCATATCAGAATGTCATA
10808171 ACAAATCAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (34 bp):
ATATCATATCAGAATGTCATATTACTAGAAACAT
Found at i:10831194 original size:23 final size:22
Alignment explanation
Indices: 10831151--10831208 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10831141 AAAGGGTATC
* *
10831151 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
10831172 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
10831195 TGCATATCATATCT
1 TACAAATCATATCT
10831209 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:10831825 original size:132 final size:132
Alignment explanation
Indices: 10831683--10832058 Score: 538
Period size: 131 Copynumber: 2.9 Consensus size: 132
10831673 GGAGATAAAG
* * *
10831683 CTGGTGGCTTAAATATGCTTTCCTACTACCTCGGGAAGATAAGACTCGCCGTCTTTGATCTGCTC
1 CTGGTGGCTTAAATCTGCTTTCCTACTACCTCGGGAAGATAAGATTCACCGTCTTTGATCTGCTC
* * * *
10831748 CACTACTACTTAGGGAGAGAGGATATACAATCTTCAACCTACTCCACTACTGCTGAGGGAAAGAA
66 CACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAAAGAA
10831813 GA
131 GA
* * * *
10831815 CTGGTGGCTTAAATCTAC-TTCCTACTATCTCGGGATGATAAGATTCACCGTCTTCGATCTGCTC
1 CTGGTGGCTTAAATCTGCTTTCCTACTACCTCGGGAAGATAAGATTCACCGTCTTTGATCTGCTC
* * * *
10831879 CACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAG
66 CACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAAAGAA
*
10831944 GG
131 GA
* * * *
10831946 CCGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCACCGTCTTTGATCTGCTC
1 CTGGTGGCTTAAATCTGCTTTCCTACTACCTCGGGAAGATAAGATTCACCGTCTTTGATCTGCTC
* * *
10832011 CACTATTGCTTAGGGAGACAGGATCTACAATATTCAACCTACCCCACT
66 CACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
10832059 GCAAACTTAG
Statistics
Matches: 215, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
131 115 0.53
132 100 0.47
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (132 bp):
CTGGTGGCTTAAATCTGCTTTCCTACTACCTCGGGAAGATAAGATTCACCGTCTTTGATCTGCTC
CACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAAAGAA
GA
Found at i:10832187 original size:89 final size:89
Alignment explanation
Indices: 10832094--10832394 Score: 424
Period size: 89 Copynumber: 3.4 Consensus size: 89
10832084 GTTTTCGATA
* *
10832094 TGCTTCACTGCCAATACAGGAAGACAAGATCTACTATTTTCAGTCTGCTCCGCTGTAAACTCAGA
1 TGCTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAGTCTGCTCCGCTGTAAACTCAGG
* * *
10832159 GAGGTAAAGATGGCGTCTTCGGTT
66 GAGGTAAGGATGGTGTCTTTGGTT
* * * *
10832183 TGCTTCACTGCCAATACAGTAAGACAAGATCTGTTGTTTTCAGTCTGCTCCACTGTAAACTCAGG
1 TGCTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAGTCTGCTCCGCTGTAAACTCAGG
10832248 GAGGTAAGGATGGTGTCTTTGGTT
66 GAGGTAAGGATGGTGTCTTTGGTT
* * ** *
10832272 TGCTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTACAGTCTGCTTTGCTGCAAACTCAGG
1 TGCTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAGTCTGCTCCGCTGTAAACTCAGG
* * *
10832337 GAGGCAAGGCA-GGTGTCTTTGATC
66 GAGGTAAGG-ATGGTGTCTTTGGTT
*
10832361 TGCTTCGCTGCCAATACAGGAAGACAAGATCTGC
1 TGCTTCACTGCCAATACAGGAAGACAAGATCTGC
10832395 ATCGTCAGGG
Statistics
Matches: 189, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
89 188 0.99
90 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (89 bp):
TGCTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAGTCTGCTCCGCTGTAAACTCAGG
GAGGTAAGGATGGTGTCTTTGGTT
Found at i:10832562 original size:44 final size:44
Alignment explanation
Indices: 10832476--10832592 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 44
10832466 TCATTTTAAT
* * * *
10832476 CTGCTCCATTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAATC
1 CTGCTACACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAA-C
* * * **
10832521 C-GGTACACTGCAACTTCAGGGAAATAAGATTGGTATTTTCAAC
1 CTGCTACACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAAC
* *
10832564 CTGCTCCTCTGCAACTTCAGGGAGATAAG
1 CTGCTACACTGCAACTTCAGGGAGATAAG
10832593 GTTTGATGTG
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
43 2 0.03
44 55 0.95
45 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
CTGCTACACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAAC
Found at i:10832751 original size:42 final size:44
Alignment explanation
Indices: 10832696--10832816 Score: 149
Period size: 42 Copynumber: 2.8 Consensus size: 44
10832686 GATTTGCTAT
*
10832696 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TCA-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTATCAG
* * * * *
10832738 CTTCAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTATCAG
*
10832782 CTTTAATCTGCTCCACTAG-AACTTCAGGGAGATAA
1 CTTCAATCTGCTCCACT-GCAACTTCAGGGAGATAA
10832817 AATTTTCCAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 34 0.52
43 2 0.03
44 29 0.44
45 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTATCAG
Found at i:10832805 original size:44 final size:42
Alignment explanation
Indices: 10832696--10832859 Score: 145
Period size: 42 Copynumber: 3.9 Consensus size: 42
10832686 GATTTGCTAT
*
10832696 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCA
* * * * *
10832738 CTTCAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TCA
* * *
10832781 GCTTTAATCTGCTCCACTAG-AACTTCAGGGAGATAAAATTTTC-
1 -CTTCAATCTGCTCCACT-GCAACTTCAGGGAGATAAGA-CTTCA
* * * * *
10832824 CAT-GATCTACTCTACTGCAACTTCAGAGAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
10832860 TCTGTGATTT
Statistics
Matches: 99, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 26 0.26
42 36 0.36
43 2 0.02
44 31 0.31
45 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (42 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCA
Found at i:10832840 original size:225 final size:225
Alignment explanation
Indices: 10832475--10832958 Score: 582
Period size: 225 Copynumber: 2.2 Consensus size: 225
10832465 ATCATTTTAA
* * * * *
10832475 TCTGCTCCATTGCAACTTCAAGGAGATAGGA-TTAGTAGCTTCAATCCGGTACACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTA-CAGCTTCAATCCGCTACACTGCAACTTCA
* * * ** **
10832539 GGGAAATAAGATTGGTATTTTCAACCTGCTCCTCTGCAACTTCAGGGAGATAAGGTTTGATGTGA
65 GGGAAATAAGATTAGTACTTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAATTTGACATGA
** *
10832604 TCTGTTCTACTGCAACTTCAGAGAGATAAGATCTTATGATTTATAACTTTGATCTATTCCACTGC
130 TCTACTCTACTGCAACTTCAGAGAGATAAGATC-TATGATTTATAACTTTAATCTATTCCACTGC
* * * * *
10832669 AATCTTTAGGGAAACGAGATTTGCTATCTTCAG
194 -AGCTTCAAGAAAACGAGATTCGCTATCTTCAG
* *
10832702 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-CA-CTTCAATCCGCTCCACTGCAACTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTACAGCTTCAATCCGCTACACTGCAACTTCAG
* * * * **
10832765 GGAGATAGGATTATTAGCTTT-AATCTGCTCCACTAG-AACTTCAGGGAGATAAAATTTTCCATG
66 GGAAATAAGATTAGTA-CTTTCAACCTGCTCCACT-GCAACTTCAGGGAGATAAAATTTGACATG
* * *
10832828 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTATTCTACTGC
129 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTATAACTTTAATCTATTCCACTGC
*
10832893 AGCTTCAAGAAAATGAGATTCGCTATCTTCAG
194 AGCTTCAAGAAAACGAGATTCGCTATCTTCAG
* *
10832925 TCTGCCCCACTGCAACTTCAGGGGGATAAGACTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
10832959 TCTTTCTTCA
Statistics
Matches: 220, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
223 58 0.26
224 27 0.12
225 100 0.45
226 5 0.02
227 28 0.13
228 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (225 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTACAGCTTCAATCCGCTACACTGCAACTTCAG
GGAAATAAGATTAGTACTTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAATTTGACATGAT
CTACTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTATAACTTTAATCTATTCCACTGCAG
CTTCAAGAAAACGAGATTCGCTATCTTCAG
Found at i:10833024 original size:44 final size:45
Alignment explanation
Indices: 10832969--10833467 Score: 391
Period size: 44 Copynumber: 11.2 Consensus size: 45
10832959 TCTTTCTTCA
* *
10832969 ATAAGACTTGTAACTTTAATTC-GCTCCACTACAACTTCAGGGAG
1 ATAAGATTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* *
10833013 ATAAGATTTGTAGCTTTAA-TCTGCTCCACTGTAACTTCAGGGAG
1 ATAAGATTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* ** *
10833057 ATAGGATTAT-TGGCTTTAA-TCTACTCCACTGCAACTTCAGGGAG
1 ATAAGATT-TGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* * * **
10833101 ATAAGATTCGTAA-TCTTCATTCTGCCCCACTATAACTTCAGAGG-G
1 ATAAGATTTGTAACT-TTAATTCTGCTCCACTGCAACTTCAG-GGAG
** ** * * *
10833146 ATAAGACTTACTTTC-TTCAGTCTGCTCCACTACAACTTCAGGGAG
1 ATAAGA-TTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* * *
10833191 ATAAGATTTGTAACTTTAA-TCCGCTCCACAGCAACTTCAGTGAG
1 ATAAGATTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* *
10833235 ATAGGATTAT-TGACTTTAA-TCTGCTCCACTGCAACTTCAGGGAG
1 ATAAGATT-TGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* * * *
10833279 ATAGGATTAT-TGACTTTAA-TATGCTCCACTGCAACTTTAGGGAG
1 ATAAGATT-TGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* * * *
10833323 ATAAGATTTGCCATCTTT-AGTCTGCCCCACTGCAACTTCAGCGG-G
1 ATAAGATTTG-TAACTTTAATTCTGCTCCACTGCAACTTCAG-GGAG
* ** * * ** *
10833368 ATAAGACTTGCTTTC-TTCAGTCTGCTGTACTGCAACTTCAAGGAG
1 ATAAGATTTG-TAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* * * *
10833413 ATAAGACTTGTAACTTTAA-TCCGCTCCACTACAACCTCAGGGAG
1 ATAAGATTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
*
10833457 ATAGGATTTGT
1 ATAAGATTTGT
10833468 GGTTTCACCG
Statistics
Matches: 372, Mismatches: 65, Indels: 36
0.79 0.14 0.08
Matches are distributed among these distances:
43 4 0.01
44 234 0.63
45 127 0.34
46 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
ATAAGATTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
Found at i:10833362 original size:222 final size:223
Alignment explanation
Indices: 10832969--10833465 Score: 741
Period size: 222 Copynumber: 2.2 Consensus size: 223
10832959 TCTTTCTTCA
* *
10832969 ATAAGACTTGTAACTTTAATTCGCTCCACTACAACTTCAGGGAGATAAGA-TTTGTAGCTTTAAT
1 ATAAGACTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTTGTAGCTTTAAT
* * *
10833033 CTGCTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTCAGG
66 CTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGACTTTAATATACTCCACTGCAACTTCAGG
* * *
10833098 GAGATAAGATTCGTAATCTTCATTCTGCCCCACTATAACTTCAGAGGGATAAGACTTACTTTCTT
131 GAGATAAGATTCGCAATCTTCAGTCTGCCCCACTACAACTTCAGAGGGATAAGACTTACTTTCTT
*
10833163 CAGTCTGCTCCACTACAACTTCAGGGAG
196 CAGTCTGCTCCACTACAACTTCAAGGAG
* *
10833191 ATAAGATTTGTAACTTTAATCCGCTCCAC-AGCAACTTCAGTGAGATAGGATTATTG-A-CTTTA
1 ATAAGACTTGTAACTTTAATCCGCTCCACTA-CAACTTCAGGGAGATAGGATT-TTGTAGCTTTA
* *
10833253 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGACTTTAATATGCTCCACTGCAACTTTA
64 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGACTTTAATATACTCCACTGCAACTTCA
* * * * * *
10833318 GGGAGATAAGATTTGCCATCTTTAGTCTGCCCCACTGCAACTTCAGCGGGATAAGACTTGCTTTC
129 GGGAGATAAGATTCGCAATCTTCAGTCTGCCCCACTACAACTTCAGAGGGATAAGACTTACTTTC
** *
10833383 TTCAGTCTGCTGTACTGCAACTTCAAGGAG
194 TTCAGTCTGCTCCACTACAACTTCAAGGAG
*
10833413 ATAAGACTTGTAACTTTAATCCGCTCCACTACAACCTCAGGGAGATAGGATTT
1 ATAAGACTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTT
10833466 GTGGTTTCAC
Statistics
Matches: 246, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
221 2 0.01
222 238 0.97
223 3 0.01
224 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (223 bp):
ATAAGACTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTTGTAGCTTTAAT
CTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGACTTTAATATACTCCACTGCAACTTCAGG
GAGATAAGATTCGCAATCTTCAGTCTGCCCCACTACAACTTCAGAGGGATAAGACTTACTTTCTT
CAGTCTGCTCCACTACAACTTCAAGGAG
Found at i:10833405 original size:178 final size:177
Alignment explanation
Indices: 10832994--10833464 Score: 491
Period size: 178 Copynumber: 2.6 Consensus size: 177
10832984 TTAATTCGCT
* * * * *
10832994 CCACTACAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGAT
1 CCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAATCCGCTCCACTGCAACTTCA-GGAGAT
* * * * * *
10833059 AGGATTATTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGTAATCTTCATTCT
65 AGGATTATTGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAATCTTCAATAT
* ** *
10833124 GCCCCACTATAACTTCAGAGGGATAAGACTTACTTTCTTCAGTCTGCT
130 GCCCCACTACAACTTCAGAGGGATAAGACTTACCATCTTCAGTCTGCC
* * *
10833172 CCACTACAACTTCAGGGAGATAAGATTTGTAACTTTAATCCGCTCCACAGCAACTTCAGTGAGAT
1 CCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAATCCGCTCCACTGCAACTTCAG-GAGAT
* * *
10833237 AGGATTATTGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGA-CTTTAATAT
65 AGGATTATTGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAATCTTCAATAT
* * * * * *
10833301 GCTCCACTGCAACTTTAG-GGAGATAAGATTTGCCATCTTTAGTCTGCC
130 GCCCCACTACAACTTCAGAGG-GATAAGACTTACCATCTTCAGTCTGCC
* ** * * **
10833349 CCACTGCAACTTCAGCGG-GATAAGACTTGCTTTCTTCAGTCTGCTGTACTGCAACTTCAAGGAG
1 CCACTACAACTTCAG-GGAGATAAGACTTG-TAACTTCAATCCGCTCCACTGCAACTTC-AGGAG
* * * * * *
10833413 ATAAGACTT-GTAACTTTAATCCGCTCCACTACAACCTCAGGGAGATAGGATT
63 ATAGGA-TTATTGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATT
10833465 TGTGGTTTCA
Statistics
Matches: 248, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
176 2 0.01
177 66 0.27
178 176 0.71
179 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (177 bp):
CCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAATCCGCTCCACTGCAACTTCAGGAGATA
GGATTATTGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAATCTTCAATATG
CCCCACTACAACTTCAGAGGGATAAGACTTACCATCTTCAGTCTGCC
Found at i:10839833 original size:15 final size:16
Alignment explanation
Indices: 10839815--10839847 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10839805 AAATGTAAAA
10839815 AAATTTAAAAAT-AAT
1 AAATTTAAAAATGAAT
*
10839830 AAATTTGAAAATGAAT
1 AAATTTAAAAATGAAT
10839846 AA
1 AA
10839848 TAAGGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AAATTTAAAAATGAAT
Found at i:10840717 original size:23 final size:22
Alignment explanation
Indices: 10840674--10840731 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10840664 AAAGGGTATC
* *
10840674 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
10840695 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
10840718 TGCATATCATATCT
1 TACAAATCATATCT
10840732 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:10841785 original size:20 final size:20
Alignment explanation
Indices: 10841715--10841970 Score: 113
Period size: 20 Copynumber: 12.8 Consensus size: 20
10841705 GCATTATAGA
10841715 TGCATAACAGGGGCACCGAAG
1 TGCA-AACAGGGGCACCGAAG
* * * *
10841736 TGTAATCAGGAGCA-CAAATG
1 TGCAAACAGGGGCACCGAA-G
* * * *
10841756 TACGATCAGGGGCACCAAAG
1 TGCAAACAGGGGCACCGAAG
*
10841776 TGCAAACAGGGGCA-CAAATG
1 TGCAAACAGGGGCACCGAA-G
** *
10841796 TGCATTCAGGGGCACCCAAG
1 TGCAAACAGGGGCACCGAAG
* * * * * *
10841816 AGCAAGCAGAGACACTGATG
1 TGCAAACAGGGGCACCGAAG
*
10841836 TGCAAACAGGGGTACCGAAG
1 TGCAAACAGGGGCACCGAAG
* * *
10841856 TACAATCAGGGGCACTGATA-
1 TGCAAACAGGGGCACCGA-AG
* *
10841876 TGCAAACATGGGTACCGAAG
1 TGCAAACAGGGGCACCGAAG
* * * * *
10841896 TACAAACAGAGGTACTGATG
1 TGCAAACAGGGGCACCGAAG
* * * *
10841916 TGCAAATAGGGGTACCAAAA
1 TGCAAACAGGGGCACCGAAG
* * * *
10841936 TACAAATAGGGGCACTGATG
1 TGCAAACAGGGGCACCGAAG
*
10841956 TGCAAACAGAGGCAC
1 TGCAAACAGGGGCAC
10841971 TTCTTCATTT
Statistics
Matches: 170, Mismatches: 59, Indels: 13
0.70 0.24 0.05
Matches are distributed among these distances:
19 8 0.05
20 151 0.89
21 11 0.06
ACGTcount: A:0.37, C:0.20, G:0.29, T:0.14
Consensus pattern (20 bp):
TGCAAACAGGGGCACCGAAG
Found at i:10841846 original size:40 final size:40
Alignment explanation
Indices: 10841762--10841964 Score: 192
Period size: 40 Copynumber: 5.1 Consensus size: 40
10841752 AATGTACGAT
* * * * ** **
10841762 CAGGGGCACCAAAGTGCAAACAGGGGCACAAATGTGCATT
1 CAGGGGTACCGAAGTACAAACAGAGGCACTGATGTGCAAA
* * * *
10841802 CAGGGGCACCCAAG-AGCAAGCAGAGACACTGATGTGCAAA
1 CAGGGGTACCGAAGTA-CAAACAGAGGCACTGATGTGCAAA
* * *
10841842 CAGGGGTACCGAAGTACAATCAGGGGCACTGATATGCAAA
1 CAGGGGTACCGAAGTACAAACAGAGGCACTGATGTGCAAA
* *
10841882 CATGGGTACCGAAGTACAAACAGAGGTACTGATGTGCAAA
1 CAGGGGTACCGAAGTACAAACAGAGGCACTGATGTGCAAA
* * * * *
10841922 TAGGGGTACCAAAATACAAATAGGGGCACTGATGTGCAAA
1 CAGGGGTACCGAAGTACAAACAGAGGCACTGATGTGCAAA
10841962 CAG
1 CAG
10841965 AGGCACTTCT
Statistics
Matches: 133, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
40 132 0.99
41 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.29, T:0.14
Consensus pattern (40 bp):
CAGGGGTACCGAAGTACAAACAGAGGCACTGATGTGCAAA
Found at i:10841869 original size:80 final size:80
Alignment explanation
Indices: 10841762--10841970 Score: 224
Period size: 80 Copynumber: 2.6 Consensus size: 80
10841752 AATGTACGAT
* * * ** ** *
10841762 CAGGGGCACCAAAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGCACCCAAG-AGCAAGCAGA
1 CAGGGGTACCAAAGTACAATCAGGGGCACTGATGTGCAAACAGGGGCACCCAAGTA-CAAACAGA
10841826 GACACTGATGTGCAAA
65 GACACTGATGTGCAAA
* * * * *
10841842 CAGGGGTACCGAAGTACAATCAGGGGCACTGATATGCAAACATGGGTACCGAAGTACAAACAGAG
1 CAGGGGTACCAAAGTACAATCAGGGGCACTGATGTGCAAACAGGGGCACCCAAGTACAAACAGAG
**
10841907 GTACTGATGTGCAAA
66 ACACTGATGTGCAAA
* * *
10841922 TAGGGGTACCAAAATACAAAT-AGGGGCACTGATGTGCAAACAGAGGCAC
1 CAGGGGTACCAAAGTAC-AATCAGGGGCACTGATGTGCAAACAGGGGCAC
10841971 TTCTTCATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
80 101 0.96
81 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.29, T:0.13
Consensus pattern (80 bp):
CAGGGGTACCAAAGTACAATCAGGGGCACTGATGTGCAAACAGGGGCACCCAAGTACAAACAGAG
ACACTGATGTGCAAA
Found at i:10853161 original size:71 final size:71
Alignment explanation
Indices: 10853045--10853203 Score: 228
Period size: 71 Copynumber: 2.2 Consensus size: 71
10853035 ATACATCGTG
* ** *
10853045 ATACCTACCTGACATATTTTGAAGTTTGGTTACTATTTTCGAAATCGTGATACCAAGCCCTGGAT
1 ATACCCACCTGACATATTTTGAAGTTTGGTTACTATTTTCGAAATCACGATACCAAGCCCTAGAT
10853110 ATCGCA
66 ATCGCA
* * *
10853116 ATACCCACCTGACATATTTTGAAGTTTGGTTATTGTTTTTGAAATCACGATACCAAGCCCTAGAT
1 ATACCCACCTGACATATTTTGAAGTTTGGTTACTATTTTCGAAATCACGATACCAAGCCCTAGAT
* *
10853181 ATGGCG
66 ATCGCA
*
10853187 ATACCCACTTGACATAT
1 ATACCCACCTGACATAT
10853204 ATTCAAAATT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 78 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (71 bp):
ATACCCACCTGACATATTTTGAAGTTTGGTTACTATTTTCGAAATCACGATACCAAGCCCTAGAT
ATCGCA
Found at i:10861399 original size:56 final size:59
Alignment explanation
Indices: 10861339--10861449 Score: 165
Period size: 56 Copynumber: 1.9 Consensus size: 59
10861329 GTTAGATGGC
* * *
10861339 TATTTTATAATTTTTTATAGTTGAAT-A-ATAAAA-AAATTTACTAATAATTGAGTATT
1 TATTTTATAATTTTTGATAGTTAAATCACAGAAAATAAATTTACTAATAATTGAGTATT
10861395 TATTTTATAATTTTTGATAGTTAAATCATCAGAAAATAAATTTACTAATAATTGA
1 TATTTTATAATTTTTGATAGTTAAATCA-CAGAAAATAAATTTACTAATAATTGA
10861450 CAAACTATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
56 24 0.50
57 1 0.02
59 5 0.10
60 18 0.38
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (59 bp):
TATTTTATAATTTTTGATAGTTAAATCACAGAAAATAAATTTACTAATAATTGAGTATT
Found at i:10863238 original size:21 final size:21
Alignment explanation
Indices: 10863213--10863252 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10863203 CATAGATAGC
* *
10863213 AAAACAATCGATTGAAAAGGA
1 AAAACAATCAATTAAAAAGGA
10863234 AAAACAATCAATTAAAAAG
1 AAAACAATCAATTAAAAAG
10863253 AGAAGAGAAA
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:0.62, C:0.10, G:0.12, T:0.15
Consensus pattern (21 bp):
AAAACAATCAATTAAAAAGGA
Found at i:10888490 original size:8 final size:8
Alignment explanation
Indices: 10888477--10888501 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10888467 CACTTTCTCG
10888477 TATTTGTT
1 TATTTGTT
10888485 TATTTGTT
1 TATTTGTT
10888493 TATTTGTT
1 TATTTGTT
10888501 T
1 T
10888502 GAGTATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TATTTGTT
Found at i:10892892 original size:11 final size:11
Alignment explanation
Indices: 10892863--10892899 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
10892853 CAAGGATTTT
10892863 TTTCCCAATTG
1 TTTCCCAATTG
*
10892874 -TGCCCAATTG
1 TTTCCCAATTG
10892884 TTTCCCAATTG
1 TTTCCCAATTG
10892895 TTTCC
1 TTTCC
10892900 TCAACAGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (11 bp):
TTTCCCAATTG
Found at i:10904807 original size:20 final size:22
Alignment explanation
Indices: 10904770--10904813 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
10904760 TGAACTGATG
10904770 AAAATACGAACAAAATGT-CCT
1 AAAATACGAACAAAATGTACCT
*
10904791 AAAATAC-AACTAAATGTACCT
1 AAAATACGAACAAAATGTACCT
10904812 AA
1 AA
10904814 TTACAAGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.55, C:0.18, G:0.07, T:0.20
Consensus pattern (22 bp):
AAAATACGAACAAAATGTACCT
Found at i:10906017 original size:100 final size:100
Alignment explanation
Indices: 10905844--10906240 Score: 458
Period size: 100 Copynumber: 4.0 Consensus size: 100
10905834 AGCATCCTTT
* * * * * * *
10905844 GATAGTCCAACGGGATAGTAATCACGAAGTTATATTTTGTAAGACCATAGCTAGATGACGCTACA
1 GATAGTCCACCAGGACAGTAATCACGAAGTTATATTGTGTAAGACCATAGCTAGAAGATGCTACG
* *
10905909 ACATCATAGATAGTTCATCGGGACAATAAACATGG
66 ACATCATAGATAGTCCATCGAGACAATAAACATGG
*
10905944 GATAGTCCACCAGGAGAGTAATCAC-AGAGTTATATTGTGTAAGACCATAGCTAGAAGATGCTAC
1 GATAGTCCACCAGGACAGTAATCACGA-AGTTATATTGTGTAAGACCATAGCTAGAAGATGCTAC
* * *
10906008 GGCATCATAGAT-GATCCATCGAGACAATAAACACGA
65 GACATCATAGATAG-TCCATCGAGACAATAAACATGG
** * * * * * * *
10906044 GATAGTCCGTCAGAACAGTAATCACGAAATTCTATTATGTAAGACCATAGCTTGAAGAAGCTATG
1 GATAGTCCACCAGGACAGTAATCACGAAGTTATATTGTGTAAGACCATAGCTAGAAGATGCTACG
* * * * *
10906109 GCATCATAGATAGTCCGTCAAGACAATAAATATAG
66 ACATCATAGATAGTCCATCGAGACAATAAACATGG
* * * *
10906144 GATAG-CCTACCAGGACAGTAATCATGGAGTTATATTGTGTAAGACCATAGTTGGAAGATGCTAC
1 GATAGTCC-ACCAGGACAGTAATCACGAAGTTATATTGTGTAAGACCATAGCTAGAAGATGCTAC
*
10906208 GACATCATAGATAGTCCACCGAGACAATAAACA
65 GACATCATAGATAGTCCATCGAGACAATAAACA
10906241 CAAGGTAGTC
Statistics
Matches: 247, Mismatches: 45, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
99 4 0.02
100 241 0.98
101 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (100 bp):
GATAGTCCACCAGGACAGTAATCACGAAGTTATATTGTGTAAGACCATAGCTAGAAGATGCTACG
ACATCATAGATAGTCCATCGAGACAATAAACATGG
Found at i:10906187 original size:200 final size:200
Alignment explanation
Indices: 10905860--10906251 Score: 536
Period size: 200 Copynumber: 2.0 Consensus size: 200
10905850 CCAACGGGAT
* * * * *
10905860 AGTAATCACGAAGTTATATTTTGTAAGACCATAGCTAGATGACGCTACAACATCATAGATAGTTC
1 AGTAATCACGAAATTATATTATGTAAGACCATAGCTAGAAGAAGCTACAACATCATAGATAGTCC
** * *
10905925 ATCGGGACAATAAACATGGGATAGTCCACCAGGAGAGTAATCACAGAGTTATATTGTGTAAGACC
66 ATCAAGACAATAAACATAGGATAGTCCACCAGGACAGTAATCACAGAGTTATATTGTGTAAGACC
* * *
10905990 ATAGCTAGAAGATGCTACGGCATCATAGAT-GATCCATCGAGACAATAAACACGAGATAGTCCGT
131 ATAGCTAGAAGATGCTACGACATCATAGATAG-TCCACCGAGACAATAAACACAAGATAGTCCGT
10906054 CAGAAC
195 CAGAAC
* * ***
10906060 AGTAATCACGAAATTCTATTATGTAAGACCATAGCTTGAAGAAGCTATGGCATCATAGATAGTCC
1 AGTAATCACGAAATTATATTATGTAAGACCATAGCTAGAAGAAGCTACAACATCATAGATAGTCC
* * **
10906125 GTCAAGACAATAAATATAGGATAG-CCTACCAGGACAGTAATCATGGAGTTATATTGTGTAAGAC
66 ATCAAGACAATAAACATAGGATAGTCC-ACCAGGACAGTAATCACAGAGTTATATTGTGTAAGAC
* * *
10906189 CATAGTTGGAAGATGCTACGACATCATAGATAGTCCACCGAGACAATAAACACAAGGTAGTCC
130 CATAGCTAGAAGATGCTACGACATCATAGATAGTCCACCGAGACAATAAACACAAGATAGTCC
10906252 ACTGGGACAA
Statistics
Matches: 166, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
199 2 0.01
200 163 0.98
201 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (200 bp):
AGTAATCACGAAATTATATTATGTAAGACCATAGCTAGAAGAAGCTACAACATCATAGATAGTCC
ATCAAGACAATAAACATAGGATAGTCCACCAGGACAGTAATCACAGAGTTATATTGTGTAAGACC
ATAGCTAGAAGATGCTACGACATCATAGATAGTCCACCGAGACAATAAACACAAGATAGTCCGTC
AGAAC
Found at i:10907218 original size:55 final size:55
Alignment explanation
Indices: 10907066--10907210 Score: 281
Period size: 55 Copynumber: 2.6 Consensus size: 55
10907056 CCTAAAAACA
*
10907066 TGTAAGGGAAGTTACAAAAATTTAATGGATGGTAAGTAACCATGCCATAATATCG
1 TGTAAGGAAAGTTACAAAAATTTAATGGATGGTAAGTAACCATGCCATAATATCG
10907121 TGTAAGGAAAGTTACAAAAATTTAATGGATGGTAAGTAACCATGCCATAATATCG
1 TGTAAGGAAAGTTACAAAAATTTAATGGATGGTAAGTAACCATGCCATAATATCG
10907176 TGTAAGGAAAGTTACAAAAATTTAATGGATGGTAA
1 TGTAAGGAAAGTTACAAAAATTTAATGGATGGTAA
10907211 ACCACCATAG
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (55 bp):
TGTAAGGAAAGTTACAAAAATTTAATGGATGGTAAGTAACCATGCCATAATATCG
Found at i:10914002 original size:51 final size:51
Alignment explanation
Indices: 10913926--10914249 Score: 544
Period size: 51 Copynumber: 6.4 Consensus size: 51
10913916 CGAATCACAT
* *
10913926 TTATCACTTGTCACTTGTCACTGATCTGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
10913977 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTATCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
10914028 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
10914079 TTATCACTTGTCACTAATCACTGATCAGATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
10914129 TTATCACTTGTCACTTATCACTGATCAGATAGGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
10914180 TTATCACTTGTCACTTATCACTGATCAGAAAAATGCAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
10914230 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
10914250 GAAGTACTCA
Statistics
Matches: 258, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
50 74 0.29
51 184 0.71
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:10914191 original size:101 final size:101
Alignment explanation
Indices: 10913926--10914249 Score: 558
Period size: 101 Copynumber: 3.2 Consensus size: 101
10913916 CGAATCACAT
* *
10913926 TTATCACTTGTCACTTGTCACTGATCTGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
*
10913991 TTATCACTGATCAGATAAGTGCAGCTAAAGCTATCAC
66 TTATCACTGATCAGATAAGTGCAGCTAAA-CTACCAC
10914028 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
* *
10914093 TAATCACTGATCAGATAAGTGTAGCTAAACTACCAC
66 TTATCACTGATCAGATAAGTGCAGCTAAACTACCAC
*
10914129 TTATCACTTGTCACTTATCACTGATCAGATAGGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
* *
10914194 TTATCACTGATCAGAAAAATGCAGCTAAACTACCAC
66 TTATCACTGATCAGATAAGTGCAGCTAAACTACCAC
*
10914230 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
10914250 GAAGTACTCA
Statistics
Matches: 211, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
101 121 0.57
102 90 0.43
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (101 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
TTATCACTGATCAGATAAGTGCAGCTAAACTACCAC
Found at i:10914345 original size:17 final size:17
Alignment explanation
Indices: 10914323--10914355 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10914313 TATTCTCAAT
10914323 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
10914340 TCATCATACAATATAT
1 TCATCATACAATATAT
10914356 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:10917184 original size:9 final size:9
Alignment explanation
Indices: 10917170--10917201 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
10917160 ATTTCATATG
10917170 AACATTAGT
1 AACATTAGT
*
10917179 AACATTGGT
1 AACATTAGT
10917188 AACATTAGT
1 AACATTAGT
10917197 AACAT
1 AACAT
10917202 AACATATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (9 bp):
AACATTAGT
Found at i:10922668 original size:5 final size:5
Alignment explanation
Indices: 10922658--10922708 Score: 102
Period size: 5 Copynumber: 10.2 Consensus size: 5
10922648 CTTTAAAATT
10922658 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
10922708 T
1 T
10922709 TTCACACATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:10924092 original size:17 final size:17
Alignment explanation
Indices: 10924070--10924108 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
10924060 GAGGGGACAA
*
10924070 TTATTTAAAAAATTATG
1 TTATTTAAAAAAATATG
10924087 TTATTTAAAAAAATATG
1 TTATTTAAAAAAATATG
10924104 TTATT
1 TTATT
10924109 GATGTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
TTATTTAAAAAAATATG
Found at i:10925644 original size:711 final size:709
Alignment explanation
Indices: 10924264--10926341 Score: 2668
Period size: 711 Copynumber: 2.9 Consensus size: 709
10924254 GGCATATGGG
* * * * * *
10924264 TGTCTCGACATAGCTGCGACGAGGCCAATAAAAATGTCAAGGGCGTTTCTGTCTAT-GCCACCCA
1 TGTCGCGACATAGCTGCGATGAGGCCAATTAAAATGTCAAGGGTGTTTCTGTCT-TCACCACCAA
* * *
10924328 ACTCAGTCATGTTTAGTCATCAATATTAAACCCACATGAGTTATTTAATAGTAGGGATATAAATA
65 ACTCAGTCATGTTTAGTCATCAATATTAAACCCAAATGAGTCATTTAATAGAAGGGATATAAATA
* * *
10924393 AGACTACTCAGAACTTAAAAGGGGAATTCTTCAT-GTGGAATAGTGTATTTATTTCGCTTCATTT
130 AGACTACTCATAACTCAAAAAGGGAATTCTTCATAG-GGAATAGTGTATTTATTT--C--C-TTT
* * * * *
10924457 CAAACCCTCG-ATAATGTGGGGTTTGGTTATAATTTATGAATGTATGTGAAGAAACTCACTAAGT
189 CTAACCC-AGAATAAGGTAGGGTTTGGTTATAATTTATGAATGTATATGAAGAAACTCACTAAGT
* * *
10924521 CCAATTCAAAC-TATCAAAGGTTTAACATGTGATCGTAGGAATTGGGGAATAAGAAGCTCGAGAA
253 TCAATTCAAACTTA-CAAAGGTTTAACATGTGATTGTAGGAATTGGGG-ATAAGGAGCTCGAGAA
* *
10924585 AGGGACTATGCCAAATTGTGTTGTATCGAAGATAGCTATTGGTTTTGTGTCATGCACATAGGAAA
316 AGGGACTATGCCAAATTGCGTTGTATCGAAGATAGCTATTGGTTTAGTGTCATGCACATAGG-AA
* * * * *
10924650 AGGGGTACTTATAGAGACTACGCTTAGGGAATGAATGTTGTAGTTAGACATTTCCCCTGTTGTCT
380 AGGGGTACCTCTAGAGACTACGCTGAGGGAAAGAATGTTGTAGTTAGACATTT-CCCTGGTGTCT
* * * * * *
10924715 AAAATTGAAACACTGGACAATTATTTACAATTTTATGTTATTGATGTAAATTTTCATTCTTTAAT
444 GAAGTTGAAACAGTGGACAATTATTTAAAAATTTATGTTATTGATGTAAATTTTCTTTCTTTAAT
* * *
10924780 TAAATAGGTATTACAGCTTGATTTTAAAGATAATAATTTTTAAGTGTGTATTTCAACCCAATTCA
509 TAAATAGGTATTACAGTTTGATTTTAAAGATAATAATGTTTAAGTGTGTATTTCAACCCGATTCA
* * * * *
10924845 GATGTGACACTCTATACTCGAATTCAGCAAATGGGATAGGTAAGGGTGTTACACCTAGGCATTTG
574 AATGTGACGCTCTATACTCAAATTCAGCAAATGGGATAGGTAGGGGTGTTACACCTAGGCATATG
** * * *
10924910 GGCATCGTGACACACCATCTAGACTTTCAAAGGTGTACATTGTCTTCGATGTTACAACACAGGCT
639 GGTGTCGCGACACACCATCTAGACTTTCAAAAGTGTACACTGTCTTCGATGTTACAACACAGGCT
*
10924975 TTAGTA
704 TTAATA
* * * * *
10924981 TGTCGCGACATAGTTGGGATGAGGCCAATTAAAATGTTAAGGGTGTTTCCGTCTTCACCACAAAA
1 TGTCGCGACATAGCTGCGATGAGGCCAATTAAAATGTCAAGGGTGTTTCTGTCTTCACCACCAAA
* *
10925046 CTTAGTCATGTTTAGTCATCAATATTAAACCCAAATGAGTCATTTAATAGAAGGCATATAAATAA
66 CTCAGTCATGTTTAGTCATCAATATTAAACCCAAATGAGTCATTTAATAGAAGGGATATAAATAA
10925111 GACTACTCATAACTCAAAAAGGGAATTCTTCATAGGGAATAGTGTATTTATTTCCTTTC-AACCC
131 GACTACTCATAACTCAAAAAGGGAATTCTTCATAGGGAATAGTGTATTTATTTCCTTTCTAACCC
* * *
10925175 AGAATAAGGTAGGGTTTGGTTATAATATATGAATGTACT-TAAATAAACTCACTAAGTTCAATTC
196 AGAATAAGGTAGGGTTTGGTTATAATTTATGAATGTA-TATGAAGAAACTCACTAAGTTCAATTC
* * * *
10925239 GAACTTACAAAGGTTTAACATGTGATTGCAAGAATTGCGAGATAAGGAGCTCGAGAAAGGGACTA
260 AAACTTACAAAGGTTTAACATGTGATTGTAGGAATTG-GGGATAAGGAGCTCGAGAAAGGGACTA
* * *
10925304 TGCCAAATTCCATTGTATCGAAGATAGCTATTGGTTTAGTGTCATGCACATAGGAATAGGGATAC
324 TGCCAAATTGCGTTGTATCGAAGATAGCTATTGGTTTAGTGTCATGCACATAGGAA-AGGGGTAC
* * * *
10925369 CTCTAGAGACTATGCTGAGGGAAAGAATGTTATAGTTAGACAGTTTCCTTGGTGTCTGAGGTTGA
388 CTCTAGAGACTACGCTGAGGGAAAGAATGTTGTAGTTAGACA-TTTCCCTGGTGTCTGAAGTTGA
* * *
10925434 GACAGTGGACAATTCTTTAAAAATTTATGTTATTGATGTAAATTTTCTTTCTTTACTTAAATAGG
452 AACAGTGGACAATTATTTAAAAATTTATGTTATTGATGTAAATTTTCTTTCTTTAATTAAATAGG
* * * * * * * *
10925499 TGTTACAGTTTGATTTTAAAGATAATAATGTTTAAATGGGCATTTCAACCTGGTTTAAATATGAC
517 TATTACAGTTTGATTTTAAAGATAATAATGTTTAAGTGTGTATTTCAACCCGATTCAAATGTGAC
* * * *
10925564 GCTCTATAC-CTAAATTCGGTAAATGGGTTAGGTAGGGGTGTTACACCAAGGCATATGGGTGTCG
582 GCTCTATACTC-AAATTCAGCAAATGGGATAGGTAGGGGTGTTACACCTAGGCATATGGGTGTCG
* * * **
10925628 CGACACACCTTCTAGACTTTCAAAAGTGTACGCTGTCTTCGATGTTGCAACATGGGCTTTAATA
646 CGACACACCATCTAGACTTTCAAAAGTGTACACTGTCTTCGATGTTACAACACAGGCTTTAATA
* * * * * *
10925692 TGTCGCGACATAGCTACGATAAGGGCAATTAAAATGTCAAGGGTATTTTTGTCTACACCACCCAA
1 TGTCGCGACATAGCTGCGATGAGGCCAATTAAAATGTCAAGGGTGTTTCTGTCTTCACCA-CCAA
* * * *
10925757 A-TCATTCATGTATAGTCATCAATATTAAACCCAAATAAGTCATTTAATAGGAGGGATATAAATA
65 ACTCAGTCATGTTTAGTCATCAATATTAAACCCAAATGAGTCATTTAATAGAAGGGATATAAATA
* *
10925821 AGACTACTCATAACTC-AAAAGGGAAATTCCTCACAGGGAATAGTGTATTTATTTCCTTTCATTT
130 AGACTACTCATAACTCAAAAAGGG-AATTCTTCATAGGGAATAGTGTATTTATTTCCTTTC----
* ** *
10925885 TAAACCCATAGCAAGGTAGGGTTTGGTTATAATTTATGACTGTATATGAAGAAACTCACTAAGTT
190 T-AACCCAGAATAAGGTAGGGTTTGGTTATAATTTATGAATGTATATGAAGAAACTCACTAAGTT
** * *
10925950 CAATTCAAACTTGGAAAGGTTTAATATGTGATTGTAGGAATTGTGGGATAAGGAGCTCAAGAAAG
254 CAATTCAAACTTACAAAGGTTTAACATGTGATTGTAGGAATTG-GGGATAAGGAGCTCGAGAAAG
* * *
10926015 GGACTATGCCAAATTGCGTTGTATCGAAGATAACTATTGGTTTGGTGTCATGCACATAGGAAGGG
318 GGACTATGCCAAATTGCGTTGTATCGAAGATAGCTATTGGTTTAGTGTCATGCACATAGGAAAGG
* *
10926080 GGTACCTCTAGAGACTACGCTTG-GGGAACGAATGTTGTAGTTAGACAATTTCCCTGGTGTCCGA
383 GGTACCTCTAGAGACTACGC-TGAGGGAAAGAATGTTGTAGTTAGAC-ATTTCCCTGGTGTCTGA
* * ** * * *
10926144 AGTTTAAATAGTCAATAATTATTT-AAAATCTTATGTTATTGATGTAAAATTTCTTTCTTTATTT
446 AGTTGAAACAGTGGACAATTATTTAAAAAT-TTATGTTATTGATGTAAATTTTCTTTCTTTAATT
* * *
10926208 AGATAGGTATTACAGTTTGATTTTAGAGATAATAATGTTTATGTGTGTATTTCAACCCGATTCAA
510 AAATAGGTATTACAGTTTGATTTTAAAGATAATAATGTTTAAGTGTGTATTTCAACCCGATTCAA
* * * *
10926273 ATGTGACGCTC-ATTACTCAAATTTAGCAAATGCGATGGGTAGGAGTGTTACACCTAGGCATATG
575 ATGTGACGCTCTA-TACTCAAATTCAGCAAATGGGATAGGTAGGGGTGTTACACCTAGGCATATG
10926337 GGTGT
639 GGTGT
10926342 AAACTGTATC
Statistics
Matches: 1177, Mismatches: 161, Indels: 47
0.85 0.12 0.03
Matches are distributed among these distances:
710 11 0.01
711 593 0.50
712 16 0.01
713 1 0.00
715 7 0.01
716 216 0.18
717 332 0.28
718 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (709 bp):
TGTCGCGACATAGCTGCGATGAGGCCAATTAAAATGTCAAGGGTGTTTCTGTCTTCACCACCAAA
CTCAGTCATGTTTAGTCATCAATATTAAACCCAAATGAGTCATTTAATAGAAGGGATATAAATAA
GACTACTCATAACTCAAAAAGGGAATTCTTCATAGGGAATAGTGTATTTATTTCCTTTCTAACCC
AGAATAAGGTAGGGTTTGGTTATAATTTATGAATGTATATGAAGAAACTCACTAAGTTCAATTCA
AACTTACAAAGGTTTAACATGTGATTGTAGGAATTGGGGATAAGGAGCTCGAGAAAGGGACTATG
CCAAATTGCGTTGTATCGAAGATAGCTATTGGTTTAGTGTCATGCACATAGGAAAGGGGTACCTC
TAGAGACTACGCTGAGGGAAAGAATGTTGTAGTTAGACATTTCCCTGGTGTCTGAAGTTGAAACA
GTGGACAATTATTTAAAAATTTATGTTATTGATGTAAATTTTCTTTCTTTAATTAAATAGGTATT
ACAGTTTGATTTTAAAGATAATAATGTTTAAGTGTGTATTTCAACCCGATTCAAATGTGACGCTC
TATACTCAAATTCAGCAAATGGGATAGGTAGGGGTGTTACACCTAGGCATATGGGTGTCGCGACA
CACCATCTAGACTTTCAAAAGTGTACACTGTCTTCGATGTTACAACACAGGCTTTAATA
Found at i:10934438 original size:25 final size:25
Alignment explanation
Indices: 10934368--10934447 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
10934358 GTAAACTTGA
* *
10934368 GAATTCTTTAGAAA-CCTTTTGCGGT
1 GAATTCTTTGGAAAGCC-TTTGTGGT
* *
10934393 AAATTCTTTGGAAAGCTTTTGTGGT
1 GAATTCTTTGGAAAGCCTTTGTGGT
* *
10934418 GAATTCTCTGGAAAGCCTTTGTGGA
1 GAATTCTTTGGAAAGCCTTTGTGGT
10934443 GAATT
1 GAATT
10934448 ATTGTTCCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 45 0.98
26 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (25 bp):
GAATTCTTTGGAAAGCCTTTGTGGT
Found at i:10937196 original size:40 final size:40
Alignment explanation
Indices: 10937141--10937221 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
10937131 GAGAATGAAT
10937141 CAAATCTTGATTATGGGTGATTAGCTTGCTTCGGTAATTC
1 CAAATCTTGATTATGGGTGATTAGCTTGCTTCGGTAATTC
10937181 CAAATCTTGATTATGGGTGATTAGCTTGCTTCGGTAATTC
1 CAAATCTTGATTATGGGTGATTAGCTTGCTTCGGTAATTC
10937221 C
1 C
10937222 CACCAACTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (40 bp):
CAAATCTTGATTATGGGTGATTAGCTTGCTTCGGTAATTC
Found at i:10947122 original size:44 final size:44
Alignment explanation
Indices: 10947062--10947217 Score: 224
Period size: 44 Copynumber: 3.5 Consensus size: 44
10947052 GTATGGGAAA
10947062 ACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAG
1 ACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAG
* * *
10947106 ACAAGATCTG-TCATCTTCGATCTACTTCACGCCAATACGTGAAG
1 ACAAGATCTGCT-ATCTTTGATCTACTTCATGCCAATACATGAAG
* * *
10947150 ACAAAATCTGCTACCTTTGATCTACTTCATGCCGATACATGAAG
1 ACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAG
* *
10947194 ACAAGATCTGCTTTCTTCGATCTA
1 ACAAGATCTGCTATCTTTGATCTA
10947218 TTTCGCCACC
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.01
44 95 0.98
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
ACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAG
Found at i:10957757 original size:3 final size:3
Alignment explanation
Indices: 10957751--10957819 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
10957741 GCTGCTGTTT
10957751 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10957799 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
10957820 CCAATACTCT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10972984 original size:15 final size:16
Alignment explanation
Indices: 10972964--10972993 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10972954 TGGTGCCTTA
10972964 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
10972979 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
10972994 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:11000091 original size:41 final size:41
Alignment explanation
Indices: 11000046--11000150 Score: 156
Period size: 41 Copynumber: 2.6 Consensus size: 41
11000036 GCTTATTAAA
* *
11000046 ATACACCGGCATAAAGCCTTCTAGGCACAAAGCCAGATATG
1 ATACACCGGCATGAAGCCTGCTAGGCACAAAGCCAGATATG
* * *
11000087 ATACACCGGCACGAAGCCTGCTAGGCATAAAGCCTGATATG
1 ATACACCGGCATGAAGCCTGCTAGGCACAAAGCCAGATATG
*
11000128 GTACACCGGCATGAAGCCTGCTA
1 ATACACCGGCATGAAGCCTGCTA
11000151 TAAGTTACCG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (41 bp):
ATACACCGGCATGAAGCCTGCTAGGCACAAAGCCAGATATG
Found at i:11001583 original size:17 final size:17
Alignment explanation
Indices: 11001561--11001593 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11001551 TGAATGATTC
*
11001561 GTTCGGACTGACCATCT
1 GTTCGGACTGAACATCT
11001578 GTTCGGACTGAACATC
1 GTTCGGACTGAACATC
11001594 GGGTCTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (17 bp):
GTTCGGACTGAACATCT
Found at i:11003453 original size:21 final size:21
Alignment explanation
Indices: 11003427--11003477 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
11003417 CCTCTATCTG
* *
11003427 TCAACTGTTGCAACTGTGCTT
1 TCAACTCTTGCAACTATGCTT
11003448 TCAACTCTTGCAACTATGCTT
1 TCAACTCTTGCAACTATGCTT
11003469 TCAACTCTT
1 TCAACTCTT
11003478 TTAATCAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (21 bp):
TCAACTCTTGCAACTATGCTT
Found at i:11007544 original size:41 final size:42
Alignment explanation
Indices: 11007499--11007646 Score: 153
Period size: 41 Copynumber: 3.6 Consensus size: 42
11007489 GCTTATTAAA
* *
11007499 ATACACCGGCATAG-AGCCTTCTAGGCACAAAGCCAGATATG
1 ATACACCGGCATAGAAGCCTGCTAGGCATAAAGCCAGATATG
* *
11007540 ATACACCGGCA-CGAAGCCTGCTAGGCATAAAGCCTA-AAATG
1 ATACACCGGCATAGAAGCCTGCTAGGCATAAAGCC-AGATATG
* * * * *
11007581 GTATACCGGCAT-GAAGCCTGCTAGGCATAAAGCCTGCTATA
1 ATACACCGGCATAGAAGCCTGCTAGGCATAAAGCCAGATATG
* *
11007622 ATTCACCGGCATA-AAGCCTACTAGG
1 ATACACCGGCATAGAAGCCTGCTAGG
11007647 TAGAGATCTC
Statistics
Matches: 88, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 86 0.98
42 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.18
Consensus pattern (42 bp):
ATACACCGGCATAGAAGCCTGCTAGGCATAAAGCCAGATATG
Found at i:11007613 original size:16 final size:16
Alignment explanation
Indices: 11007588--11007619 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11007578 ATGGTATACC
*
11007588 GGCATGAAGCCTGCTA
1 GGCATAAAGCCTGCTA
11007604 GGCATAAAGCCTGCTA
1 GGCATAAAGCCTGCTA
11007620 TAATTCACCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (16 bp):
GGCATAAAGCCTGCTA
Found at i:11017202 original size:40 final size:40
Alignment explanation
Indices: 11017117--11017581 Score: 504
Period size: 40 Copynumber: 11.7 Consensus size: 40
11017107 GAGTTACAGG
* * * *
11017117 AGTATAAAC-GGGGCACGGAAGTGCATTCA-AGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* **
11017155 AGTACAAAGAGGGGCACAAATGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
** * **
11017195 AGTACAAACAGGGGCACACATGTGCATTTAAAGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * *
11017235 AGTACAAATAAGGACACGTATGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * *
11017275 AGTGCAAACAGGGGCACGTATGTGCATTTAGGAGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* *
11017315 AGTACAAA-AAGGGCACGTATGTGCATTCAGGGGTAACGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * * * *
11017354 AGTACAAATAGTGGCACATGTGTGCATTTAGGGGTACCAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * ** *
11017394 ATTAAAAACAGGGGCATGTATGTGCATTCAAAGGTATCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * *
11017434 AGTACAAACAAGGGCACGTATGTGCGTTCAGGGGTACCAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * **
11017474 AGTACAACCAGGGGCATGTATGTGCATTCAAAGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * *
11017514 AGTACAAACAAGGGCACGTATGTGCGTTCAGGGGTACCAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * *
11017554 AGTACAACCAGGGGCATGTTTGTGCATT
1 AGTACAAACAGGGGCACGTATGTGCATT
11017582 AATACAATAA
Statistics
Matches: 347, Mismatches: 77, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
38 7 0.02
39 52 0.15
40 288 0.83
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.20
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
Found at i:11017206 original size:20 final size:20
Alignment explanation
Indices: 11017147--11017208 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
11017137 GTGCATTCAA
*
11017147 GGTACCGAAGTACAAAGAGG
1 GGTACCGAAGTACAAACAGG
* * * **
11017167 GGCA-CAAATGTGCATTCAGG
1 GGTACCGAA-GTACAAACAGG
11017187 GGTACCGAAGTACAAACAGG
1 GGTACCGAAGTACAAACAGG
11017207 GG
1 GG
11017209 CACACATGTG
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
19 3 0.10
20 23 0.79
21 3 0.10
ACGTcount: A:0.35, C:0.18, G:0.34, T:0.13
Consensus pattern (20 bp):
GGTACCGAAGTACAAACAGG
Found at i:11017299 original size:20 final size:20
Alignment explanation
Indices: 11017249--11017300 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
11017239 CAAATAAGGA
**
11017249 CACGTATGTGCATTCAGGGG
1 CACGTATGTGCAAACAGGGG
* *
11017269 TACCG-AAGTGCAAACAGGGG
1 CA-CGTATGTGCAAACAGGGG
11017289 CACGTATGTGCA
1 CACGTATGTGCA
11017301 TTTAGGAGTA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
19 2 0.08
20 20 0.83
21 2 0.08
ACGTcount: A:0.27, C:0.21, G:0.33, T:0.19
Consensus pattern (20 bp):
CACGTATGTGCAAACAGGGG
Found at i:11017497 original size:199 final size:200
Alignment explanation
Indices: 11017127--11017569 Score: 586
Period size: 199 Copynumber: 2.2 Consensus size: 200
11017117 AGTATAAACG
* * *
11017127 GGGCACGGAAGTGCATTCA-AGGTACCGAAGTACAAAGAGGGGCACAAATGTGCATTCAGGGGTA
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAGAGGGGCACAAATGTGCATTCAGGGGTA
* * * *
11017191 CCGAAGTACAAACAGGGGCACACATGTGCATTTAAAGGTACCGAAGTACAAATAAGGACACGTAT
66 CCAAAGTAAAAACAGGGGCACACATGTGCATTCAAAGGTACCGAAGTACAAACAAGGACACGTAT
* * * *
11017256 GTGCATTCAGGGGTACCGAAGTGCAAACAGGGGCACGTATGTGCATT-TAGGAGTACCGAAGTAC
131 GTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAAAG-GTACCGAAGTAC
11017320 AAA-AA
195 AAACAA
* * * ** *
11017325 GGGCACGTATGTGCATTCAGGGGTAACGAAGTACAAATAGTGGCACATGTGTGCATTTAGGGGTA
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAGAGGGGCACAAATGTGCATTCAGGGGTA
* *** * *
11017390 CCAAATTAAAAACAGGGGCATGTATGTGCATTCAAAGGTATCGAAGTACAAACAAGGGCACGTAT
66 CCAAAGTAAAAACAGGGGCACACATGTGCATTCAAAGGTACCGAAGTACAAACAAGGACACGTAT
* * *
11017455 GTGCGTTCAGGGGTACCAAAGTACAACCAGGGGCATGTATGTGCATTCAAAGGTACCGAAGTACA
131 GTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAAAGGTACCGAAGTACA
11017520 AACAA
196 AACAA
* * **
11017525 GGGCACGTATGTGCGTTCAGGGGTACCAAAGTACAACCAGGGGCA
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAGAGGGGCA
11017570 TGTTTGTGCA
Statistics
Matches: 210, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
198 17 0.08
199 150 0.71
200 43 0.20
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (200 bp):
GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAGAGGGGCACAAATGTGCATTCAGGGGTA
CCAAAGTAAAAACAGGGGCACACATGTGCATTCAAAGGTACCGAAGTACAAACAAGGACACGTAT
GTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAAAGGTACCGAAGTACA
AACAA
Found at i:11021996 original size:22 final size:22
Alignment explanation
Indices: 11021953--11021993 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11021943 CATTTTTCAC
*
11021953 AAAATAGTATTGATACCTTTAG
1 AAAATAGTATCGATACCTTTAG
11021975 AAAA-AGTATCGATACCTTT
1 AAAATAGTATCGATACCTTT
11021994 TAGCAGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (22 bp):
AAAATAGTATCGATACCTTTAG
Found at i:11022787 original size:22 final size:24
Alignment explanation
Indices: 11022744--11022787 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
11022734 TGATAATATG
11022744 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
11022768 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
11022788 TGAACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:11023012 original size:21 final size:22
Alignment explanation
Indices: 11022983--11023023 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11022973 CAATTTTCAC
11022983 AAAACAGTATCCATACCTTTAG
1 AAAACAGTATCCATACCTTTAG
**
11023005 AAAA-AGTATTGATACCTTT
1 AAAACAGTATCCATACCTTT
11023024 TACCATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (22 bp):
AAAACAGTATCCATACCTTTAG
Found at i:11023690 original size:33 final size:33
Alignment explanation
Indices: 11023624--11023690 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
11023614 TTTGTTTAGC
*
11023624 CTTAAATTGAAAATGAATTTTATATAGGGGGAG
1 CTTAAATTGAAAATGAATTTTATATAGGAGGAG
11023657 CTTAAATTGAAAAT-AGATTTTAT-TAAGGAGGAG
1 CTTAAATTGAAAATGA-ATTTTATAT-AGGAGGAG
11023690 C
1 C
11023691 AATTTATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 2 0.06
33 29 0.94
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (33 bp):
CTTAAATTGAAAATGAATTTTATATAGGAGGAG
Found at i:11023767 original size:37 final size:37
Alignment explanation
Indices: 11023717--11023791 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
11023707 AAGTTACCAA
11023717 ATGTTTTGTTATATCAAAAGGGGGAGATTGTTAAACC
1 ATGTTTTGTTATATCAAAAGGGGGAGATTGTTAAACC
*
11023754 ATGTTTTGTTATATCGAAAGGGGGAGATTGTTAAACC
1 ATGTTTTGTTATATCAAAAGGGGGAGATTGTTAAACC
11023791 A
1 A
11023792 AGGTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (37 bp):
ATGTTTTGTTATATCAAAAGGGGGAGATTGTTAAACC
Found at i:11023854 original size:22 final size:23
Alignment explanation
Indices: 11023809--11023854 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
11023799 TTTAAAAATA
*
11023809 TGTTTTGATATAACAATTTAAAG
1 TGTTTTGATATAACAAGTTAAAG
11023832 TGTTCTTGA-ATAA-AAGTTAAAG
1 TGTT-TTGATATAACAAGTTAAAG
11023854 T
1 T
11023855 TGAACATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 8 0.38
24 4 0.19
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.41
Consensus pattern (23 bp):
TGTTTTGATATAACAAGTTAAAG
Found at i:11030759 original size:27 final size:27
Alignment explanation
Indices: 11030704--11030843 Score: 158
Period size: 27 Copynumber: 5.2 Consensus size: 27
11030694 ATTCATGGGC
*
11030704 AAATGACTGAAATA-CCTCGAAGGGTA
1 AAATGACTGAAATACCCCCGAAGGGTA
*
11030730 AAATGACTGAAAAACCCCCGAAGGGTA
1 AAATGACTGAAATACCCCCGAAGGGTA
* * *
11030757 AAATGACCGAAATTCCCTCGAAGGGTA
1 AAATGACTGAAATACCCCCGAAGGGTA
** **
11030784 AAATGACAAAAATACCCATGAAGGGTA
1 AAATGACTGAAATACCCCCGAAGGGTA
* *
11030811 AAATGACAGAAATACCCCC-ATGGGGTA
1 AAATGACTGAAATACCCCCGA-AGGGTA
11030838 AAATGA
1 AAATGA
11030844 ATGTTATACT
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 14 0.14
27 83 0.86
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCGAAGGGTA
Found at i:11031047 original size:26 final size:26
Alignment explanation
Indices: 11031018--11031094 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
11031008 TTGCCACATA
*
11031018 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* * *
11031044 TACTGTTACTGCCATCTTTGCTGTAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* * *
11031070 CACTATTACTAGCAGCTTTGCTGCA
1 TACTGTTACTGGCAGCTTTGCTGCA
11031095 ATATTGGTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCAT
Found at i:11031235 original size:27 final size:28
Alignment explanation
Indices: 11031205--11031294 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
11031195 ATTGCACTAA
*
11031205 TTACTGTATTAGGCTAAGGCCC-CACTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
11031232 TTACTGTATTGGGCTAAGGCTCACACACTG
1 TTACTGTATTGGGCTAAGGC-C-CACACTG
* * *
11031262 TTATTGTAATGGGCTAAGGCCCAAACTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
11031290 -TACTG
1 TTACTG
11031295 ATACTGTATG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 23 0.42
28 7 0.13
29 2 0.04
30 23 0.42
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTG
Found at i:11031263 original size:30 final size:27
Alignment explanation
Indices: 11031205--11031283 Score: 104
Period size: 30 Copynumber: 2.8 Consensus size: 27
11031195 ATTGCACTAA
*
11031205 TTACTGTATTAGGCTAAGGCCCCACTG
1 TTACTGTATTGGGCTAAGGCCCCACTG
11031232 TTACTGTATTGGGCTAAGGCTCACACACTG
1 TTACTGTATTGGGCTAAGGC-C-C-CACTG
* *
11031262 TTATTGTAATGGGCTAAGGCCC
1 TTACTGTATTGGGCTAAGGCCC
11031284 AAACTGTACT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 19 0.41
28 2 0.04
29 2 0.04
30 23 0.50
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (27 bp):
TTACTGTATTGGGCTAAGGCCCCACTG
Found at i:11038456 original size:51 final size:50
Alignment explanation
Indices: 11038341--11038520 Score: 168
Period size: 51 Copynumber: 3.6 Consensus size: 50
11038331 GATGGTAACG
* * * * * *
11038341 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGA-ACG-ACAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACTAGATA-GTA-TGATCACA
* * *
11038391 TGTGTAGTACTATGTGAAGGGTACTATGCATACTGGATAGCT-TCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACTAGATAG-TAT-GATCACA
* ** * *
11038442 TGTGTAGTACTATGTGCAGGCTACTACGTGTATTAGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACTAGATAGT-ATGATCACA
11038493 TGTGTAGTACTATGTGCAGGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
11038521 TGAACCGGTA
Statistics
Matches: 106, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
50 33 0.31
51 72 0.68
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCATACTAGATAGTATGATCACA
Found at i:11038522 original size:26 final size:26
Alignment explanation
Indices: 11038441--11038522 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
11038431 CTTCGATCAC
11038441 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * *
11038467 ACGTGTATTA-GATAGTG-ATGG-TCAC-
1 ATGTGTAGTACTAT-GTGCA-GGCT-ACT
11038492 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
11038518 ATGTG
1 ATGTG
11038523 AACCGGTATC
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
25 19 0.44
26 24 0.56
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.34
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:11038608 original size:46 final size:43
Alignment explanation
Indices: 11038524--11038622 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
11038514 TACTATGTGA
* *
11038524 ACCGGTATCATTAATTATAAAGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTACAAAGTGGCTGCTATGTGCTGAAT-CC
* *
11038567 ACCGGATATCATTGATTACAAAGGGTGGCTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTACAAA--GTGGCTGCTATGTGCTGAATCC
11038613 ACCGTGTATC
1 ACCG-GTATC
11038623 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 14 0.30
46 25 0.53
47 3 0.06
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
ACCGGTATCATTAATTACAAAGTGGCTGCTATGTGCTGAATCC
Found at i:11038767 original size:16 final size:16
Alignment explanation
Indices: 11038746--11038777 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11038736 TGATTGAAAG
*
11038746 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
11038762 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
11038778 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:11041846 original size:26 final size:26
Alignment explanation
Indices: 11041817--11041871 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
11041807 ATAAATAGAT
11041817 GTGTTAATTTATTTGGAATGAACTAC
1 GTGTTAATTTATTTGGAATGAACTAC
11041843 GTGTTAATTTATTTGGAATGAACTAC
1 GTGTTAATTTATTTGGAATGAACTAC
11041869 GTG
1 GTG
11041872 GTTATGACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (26 bp):
GTGTTAATTTATTTGGAATGAACTAC
Found at i:11044606 original size:51 final size:51
Alignment explanation
Indices: 11044545--11044772 Score: 189
Period size: 51 Copynumber: 4.5 Consensus size: 51
11044535 TGTGGCATGG
* * * *
11044545 ACTATGTGTAGGCCACTATGTGAAAGTGAAAGTGAT-GGTCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAACG-GAAAGTGATAGGTCACATGTGTAGT
* * * * * *
11044596 ACTATGTGTAGGCTACTACGTGTAC-CAGAA-TGATAGTTCGCATGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAACGGA-AAGTGATAGGTCACATGTGTAGT
* * * * * * *
11044646 ACTATGTGCAGGCTACTCTGCGTACCGGATAGCT--TCGATCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTG-AACGGAAAG-TGATAGGTCACATGTGTAGT
* * *
11044697 ACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 ACTATGTGCAGGCTACTATGTG-AACGGAAAGTGATAGGTCACATGTGTAGT
11044748 ACTATGTGCAGGCTACTATGTGAAC
1 ACTATGTGCAGGCTACTATGTGAAC
11044773 CGGTATCATT
Statistics
Matches: 141, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
49 5 0.04
50 35 0.25
51 98 0.70
52 2 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
ACTATGTGCAGGCTACTATGTGAACGGAAAGTGATAGGTCACATGTGTAGT
Found at i:11044769 original size:26 final size:26
Alignment explanation
Indices: 11044689--11044769 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
11044679 TTCGATCACG
11044689 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
11044715 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
11044740 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
11044766 TGTG
1 TGTG
11044770 AACCGGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:11044852 original size:46 final size:43
Alignment explanation
Indices: 11044771--11044869 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
11044761 TACTATGTGA
*
11044771 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCTC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATC-C
* * *
11044814 ACCGGATATCATTGATTACAAAGGGTTGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
11044860 ACCGTGTATC
1 ACCG-GTATC
11044870 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 25 0.53
47 4 0.09
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:11045014 original size:16 final size:16
Alignment explanation
Indices: 11044993--11045024 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11044983 TGATAGAAAG
*
11044993 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
11045009 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
11045025 ACAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:11049151 original size:16 final size:17
Alignment explanation
Indices: 11049124--11049158 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11049114 AGAGAGTTGA
11049124 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
11049141 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
11049157 GA
1 GA
11049159 TGGATGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:11055455 original size:27 final size:27
Alignment explanation
Indices: 11055417--11055560 Score: 93
Period size: 27 Copynumber: 5.3 Consensus size: 27
11055407 TCGATATTTG
*
11055417 GACCGAAATACCCTCGATGGGTAAAAT
1 GACCGTAATACCCTCGATGGGTAAAAT
**
11055444 GACCGTAATACCCATTTA-GGGTAAAAT
1 GACCGTAATACCC-TCGATGGGTAAAAT
* * **
11055471 GATCGCAATAGCCCTATAT-GGTAAAAT
1 GACCGTAATA-CCCTCGATGGGTAAAAT
* *
11055498 GATCGCAATACCC-CTG-TAGGGTAAAAT
1 GACCGTAATACCCTC-GAT-GGGTAAAAT
* *
11055525 AATCGTAATACCC-CTG-TAGGGTAAAAT
1 GACCGTAATACCCTC-GAT-GGGTAAAAT
11055552 GACCGTAAT
1 GACCGTAAT
11055561 GCCCCTGTCA
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.01
26 3 0.03
27 90 0.91
28 5 0.05
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GACCGTAATACCCTCGATGGGTAAAAT
Found at i:11055565 original size:27 final size:27
Alignment explanation
Indices: 11055435--11055705 Score: 201
Period size: 27 Copynumber: 10.4 Consensus size: 27
11055425 TACCCTCGAT
* * *
11055435 GGGTAAAATGACCGTAATACCCATTTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
11055462 GGGTAAAATGATCGCAATAG-CCCTATA
1 GGGTAAAATGACCGTAAT-GCCCCTGTA
* * * *
11055489 TGGTAAAATGATCGCAATACCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
11055516 GGGTAAAATAATCGTAATACCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
11055543 GGGTAAAATGACCGTAATGCCCCTGTCA
1 GGGTAAAATGACCGTAATGCCCCTGT-A
** *
11055571 -AATAAAATGACCGTAATGTCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
11055597 GGGTAAAATGATCGCAATGCCCCGGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
11055624 GGCTAAAAT----G--A---CCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * * *
11055642 GGGTAAAATAATCGTAATACCCTTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
11055669 GGGTAAAATGACCGTAATG-CCCTGGT-
1 GGGTAAAATGACCGTAATGCCCCT-GTA
11055695 GGGT-AAATGAC
1 GGGTAAAATGAC
11055706 TATTTTTGCC
Statistics
Matches: 199, Mismatches: 31, Indels: 30
0.77 0.12 0.12
Matches are distributed among these distances:
18 14 0.07
21 1 0.01
22 1 0.01
23 1 0.01
24 1 0.01
25 7 0.04
26 8 0.04
27 165 0.83
28 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTGTA
Found at i:11055670 original size:45 final size:45
Alignment explanation
Indices: 11055585--11055681 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 45
11055575 AAATGACCGT
* * *
11055585 AATGTCCCTGTAGGGTAAAATGATCGCAATGCCCCGGTAGGCTAA
1 AATGACCCTGTAGGGTAAAATAATCGCAATACCCCGGTAGGCTAA
* ** *
11055630 AATGACCCTGTAGGGTAAAATAATCGTAATACCCTTGTAGGGTAA
1 AATGACCCTGTAGGGTAAAATAATCGCAATACCCCGGTAGGCTAA
11055675 AATGACC
1 AATGACC
11055682 GTAATGCCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (45 bp):
AATGACCCTGTAGGGTAAAATAATCGCAATACCCCGGTAGGCTAA
Found at i:11055778 original size:24 final size:25
Alignment explanation
Indices: 11055751--11055809 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 25
11055741 CTGTGGTTAA
*
11055751 ATGACTGATTTGTCTGTG-TTTGGT
1 ATGAATGATTTGTCTGTGATTTGGT
*
11055775 ATGAATGATTTGTCTGTGATTT-GA
1 ATGAATGATTTGTCTGTGATTTGGT
11055799 ATGAATGATTT
1 ATGAATGATTT
11055810 TGAGCATGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.22, C:0.05, G:0.25, T:0.47
Consensus pattern (25 bp):
ATGAATGATTTGTCTGTGATTTGGT
Found at i:11055962 original size:26 final size:26
Alignment explanation
Indices: 11055924--11055973 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
11055914 TTGGCCAAAT
11055924 ATACTATTACTGGCAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGTG
* *
11055950 ATACTGTTGCTGGCAGCTTTGCTG
1 ATACTATTACTGGCAGCTTTGCTG
11055974 CGATGCTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGTG
Found at i:11056016 original size:32 final size:32
Alignment explanation
Indices: 11055980--11056150 Score: 125
Period size: 32 Copynumber: 5.3 Consensus size: 32
11055970 GCTGCGATGC
* * *
11055980 TACTGATAGCTTTGTGCCAATTATAGTACTGT
1 TACTGATGGCTTTGTGCCAATCATAGTACCGT
* * *
11056012 TACTGATGGTTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATAGTACCGT
* * * *
11056044 TACCGATGGCTGTGTGCCAATCAT--TTCGTTGT
1 TACTGATGGCTTTGTGCCAATCATAGTAC--CGT
* * * ** *
11056076 TACTGATGGCTGTGTCCCGATCATA-TCATTGC
1 TACTGATGGCTTTGTGCCAATCATAGT-ACCGT
*
11056108 TACTGATGGCTTTGTGCCGATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCAATCATAG-TACCGT
11056140 TACTGATGGCT
1 TACTGATGGCT
11056151 GTGTACCGGT
Statistics
Matches: 110, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
30 2 0.02
32 106 0.96
33 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATAGTACCGT
Found at i:11056175 original size:64 final size:64
Alignment explanation
Indices: 11055977--11056194 Score: 226
Period size: 64 Copynumber: 3.4 Consensus size: 64
11055967 TTTGCTGCGA
* * * * * *
11055977 TGCTACTGATAGCTTTGTGCCAATTATAG-TACTGTTACTGATGGTTTTGTGCCGATCATATTAC
1 TGCTACTGATGGCTTTGTGCCAATCAT-GTTACTGTTACTGATGGCTGTGTACCGATCATATCAC
* * * * *
11056041 CGTTACCGATGGCTGTGTGCCAATCAT-TT-CGTTGTTACTGATGGCTGTGTCCCGATCATATCA
1 TGCTACTGATGGCTTTGTGCCAATCATGTTAC--TGTTACTGATGGCTGTGTACCGATCATATCA
*
11056104 T
64 C
* * *
11056105 TGCTACTGATGGCTTTGTGCCGATCATGTTACCGTTACTGATGGCTGTGTACCGGTCATATCAC
1 TGCTACTGATGGCTTTGTGCCAATCATGTTACTGTTACTGATGGCTGTGTACCGATCATATCAC
* * *
11056169 TGCTACTGGTGGTTTTGGGCCAATCA
1 TGCTACTGATGGCTTTGTGCCAATCA
11056195 CACTATTGTA
Statistics
Matches: 125, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 120 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCAATCATGTTACTGTTACTGATGGCTGTGTACCGATCATATCAC
Found at i:11056176 original size:32 final size:32
Alignment explanation
Indices: 11056007--11056176 Score: 133
Period size: 32 Copynumber: 5.3 Consensus size: 32
11055997 CAATTATAGT
* * * * *
11056007 ACTGTTACTGATGGTTTTGTGCCGATCATATT
1 ACTGCTACTGATGGCTGTGTACCGATCATATC
* * * * * *
11056039 ACCGTTACCGATGGCTGTGTGCCAATCATTTC
1 ACTGCTACTGATGGCTGTGTACCGATCATATC
** * *
11056071 GTTGTTACTGATGGCTGTGTCCCGATCATATC
1 ACTGCTACTGATGGCTGTGTACCGATCATATC
* * * * *
11056103 ATTGCTACTGATGGCTTTGTGCCGATCATGTT
1 ACTGCTACTGATGGCTGTGTACCGATCATATC
* * *
11056135 ACCGTTACTGATGGCTGTGTACCGGTCATATC
1 ACTGCTACTGATGGCTGTGTACCGATCATATC
11056167 ACTGCTACTG
1 ACTGCTACTG
11056177 GTGGTTTTGG
Statistics
Matches: 108, Mismatches: 30, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 108 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (32 bp):
ACTGCTACTGATGGCTGTGTACCGATCATATC
Found at i:11056231 original size:22 final size:21
Alignment explanation
Indices: 11056206--11056270 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
11056196 ACTATTGTAC
*
11056206 TTATGGCTTGTAGCCATTTTGT
1 TTATGGCTT-TAGCCATTCTGT
* * *
11056228 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTGT
*
11056250 TTACGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
11056271 ACTACTGGCA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:11056293 original size:26 final size:26
Alignment explanation
Indices: 11056264--11056316 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
11056254 GGCTCTTAGC
* *
11056264 CATTCTGACTACTGGCAACTCTGCTG
1 CATTATGACTACTGGCAACTATGCTG
* *
11056290 CATTATTACTACTGGCAGCTATGCTG
1 CATTATGACTACTGGCAACTATGCTG
11056316 C
1 C
11056317 GATATTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (26 bp):
CATTATGACTACTGGCAACTATGCTG
Found at i:11062227 original size:50 final size:51
Alignment explanation
Indices: 11062061--11062250 Score: 206
Period size: 51 Copynumber: 3.7 Consensus size: 51
11062051 CTATAAACAT
* * * * *
11062061 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCG-ATAGATAATGGTCAC
1 GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGAAAAGAT-TTGGTCAC
* * * * * * * *
11062112 ATGAGTAGTACTATATGCAGGCTACTATGTGTACCGGAAGGCTTTGGTCAC
1 GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGAAAAGATTTGGTCAC
*
11062163 GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGAAAAG-TTTGATCAC
1 GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGAAAAGATTTGGTCAC
*
11062213 GTGTGTAGTACTATGTGA-AGGCTACTACGTGTATCGAA
1 GTGTGTAGTACTATGT-ACAGGCTACTACGTGTACCGAA
11062251 TGATAATAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 43 0.36
51 72 0.61
52 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (51 bp):
GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGAAAAGATTTGGTCAC
Found at i:11066237 original size:21 final size:21
Alignment explanation
Indices: 11066197--11066252 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
11066187 GTTGAGAGAG
*
11066197 AGGATGAGAGATGAGAGGGATGA
1 AGGATGAGGGAT--GAGGGATGA
*
11066220 GGGATGAGGGATGAGGGATGA
1 AGGATGAGGGATGAGGGATGA
*
11066241 AGGATGATGGAT
1 AGGATGAGGGAT
11066253 AAAGTGAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 19 0.66
23 10 0.34
ACGTcount: A:0.34, C:0.00, G:0.50, T:0.16
Consensus pattern (21 bp):
AGGATGAGGGATGAGGGATGA
Found at i:11066245 original size:7 final size:7
Alignment explanation
Indices: 11066211--11066252 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
11066201 TGAGAGATGA
11066211 GAGGGAT
1 GAGGGAT
11066218 GAGGGAT
1 GAGGGAT
11066225 GAGGGAT
1 GAGGGAT
11066232 GAGGGAT
1 GAGGGAT
*
11066239 GAAGGAT
1 GAGGGAT
*
11066246 GATGGAT
1 GAGGGAT
11066253 AAAGTGAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.52, T:0.17
Consensus pattern (7 bp):
GAGGGAT
Found at i:11067636 original size:18 final size:18
Alignment explanation
Indices: 11067613--11067647 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11067603 ACAGAATTGG
* *
11067613 ATGCATATTTAGATACAA
1 ATGCATAATAAGATACAA
11067631 ATGCATAATAAGATACA
1 ATGCATAATAAGATACA
11067648 GAATTAGATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
ATGCATAATAAGATACAA
Found at i:11072838 original size:12 final size:12
Alignment explanation
Indices: 11072808--11072840 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
11072798 CGACACCACC
*
11072808 AAAGATCGCCCA
1 AAAGATGGCCCA
11072820 AAAGATGGCCCA
1 AAAGATGGCCCA
11072832 AAAGATGGC
1 AAAGATGGC
11072841 ACTCAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.24, G:0.24, T:0.09
Consensus pattern (12 bp):
AAAGATGGCCCA
Found at i:11091635 original size:35 final size:34
Alignment explanation
Indices: 11091589--11091661 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
11091579 AATGATGTTA
* ** *
11091589 AATTGAATGTATTTATTATGTACATAGTCGAATTG
1 AATTGAATGTATGTA-TAACTACATAGCCGAATTG
* *
11091624 AATTGTATGTATGTATAACTACATTGCCGAATTG
1 AATTGAATGTATGTATAACTACATAGCCGAATTG
11091658 AATT
1 AATT
11091662 TAGAATGGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (34 bp):
AATTGAATGTATGTATAACTACATAGCCGAATTG
Found at i:11091846 original size:43 final size:43
Alignment explanation
Indices: 11091778--11091900 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
11091768 TACGATATGT
* * **
11091778 GATTTCGTGTAATACCGCGTCTGGGACGTTGGCATTGATTTGA
1 GATTTCGTGTAAGACCGCGTCTGGGACATTGGCATCAATTTGA
* * *
11091821 GATTTCGTGGAAGACTGCGTTTGGGACATTGGCATCAATTTGA
1 GATTTCGTGTAAGACCGCGTCTGGGACATTGGCATCAATTTGA
** *
11091864 GATTTACGTGTAAGACCATGTCTAGGACATTGGCATC
1 GATTT-CGTGTAAGACCGCGTCTGGGACATTGGCATC
11091901 GTATATCATT
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
43 41 0.62
44 25 0.38
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
GATTTCGTGTAAGACCGCGTCTGGGACATTGGCATCAATTTGA
Found at i:11091928 original size:42 final size:43
Alignment explanation
Indices: 11091871--11092032 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 43
11091861 TGAGATTTAC
* * *
11091871 GTGTAAGACCATGTCTAGGACATTGGCATCGTATA-TCATTTT
1 GTGTAAGACCCTATCTAGGACATTGGCATCGTATAGTGATTTT
* * * *
11091913 GTGTAAGACCCTGTCTAGGACAGTGGCATC-AATAGTTGATTTC
1 GTGTAAGACCCTATCTAGGACATTGGCATCGTATAG-TGATTTT
* * * * * *
11091956 ATGTAAGACCCTATATGGGACAATGACATTG-ATAGTTGATTTT
1 GTGTAAGACCCTATCTAGGACATTGGCATCGTATAG-TGATTTT
**
11091999 GTGTAAGACCCTATCTAGGATGTTGGCATCGTAT
1 GTGTAAGACCCTATCTAGGACATTGGCATCGTAT
11092033 GAGCTTTTCG
Statistics
Matches: 95, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 3 0.03
42 28 0.29
43 62 0.65
44 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCCTATCTAGGACATTGGCATCGTATAGTGATTTT
Found at i:11096725 original size:13 final size:13
Alignment explanation
Indices: 11096707--11096731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11096697 AATTATATTA
11096707 GTAATTATTTTTT
1 GTAATTATTTTTT
11096720 GTAATTATTTTT
1 GTAATTATTTTT
11096732 ATAATAATTT
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
GTAATTATTTTTT
Found at i:11097150 original size:23 final size:22
Alignment explanation
Indices: 11097115--11097158 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
11097105 AATGTATATT
*
11097115 AAATTTAGCAAGTGTGAAATTCC
1 AAATTTAGCAAGT-AGAAATTCC
11097138 AAATTTAAG-AAGTAGAAATTC
1 AAATTT-AGCAAGTAGAAATTC
11097159 TTGAGACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 10 0.53
24 2 0.11
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (22 bp):
AAATTTAGCAAGTAGAAATTCC
Found at i:11105864 original size:28 final size:28
Alignment explanation
Indices: 11105821--11105877 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
11105811 AACATGCAGC
* * * *
11105821 AACAGTGTGGGCCTTAGCCTAATATAGT
1 AACAATGTGGGACTTAGCCCAATACAGT
11105849 AACAATGTGGGACTTAGCCCAATACAGT
1 AACAATGTGGGACTTAGCCCAATACAGT
11105877 A
1 A
11105878 TCGGTATAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (28 bp):
AACAATGTGGGACTTAGCCCAATACAGT
Found at i:11106161 original size:32 final size:32
Alignment explanation
Indices: 11106125--11106232 Score: 126
Period size: 32 Copynumber: 3.4 Consensus size: 32
11106115 ATTACCTCAA
* *
11106125 AGCCATCAGTAGCAGTGATATGATCGACACAC
1 AGCCATCAGTAACAGTGATATGATCGGCACAC
** * * *
11106157 AGCCATCAGTAATGGTAATATGATTGGCACAA
1 AGCCATCAGTAACAGTGATATGATCGGCACAC
* * *
11106189 AGCCATTAGTAACAGTGATTTGACCGGCACAC
1 AGCCATCAGTAACAGTGATATGATCGGCACAC
11106221 AGCCATCAGTAA
1 AGCCATCAGTAA
11106233 TGGTAATATG
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (32 bp):
AGCCATCAGTAACAGTGATATGATCGGCACAC
Found at i:11106220 original size:64 final size:64
Alignment explanation
Indices: 11106107--11106258 Score: 216
Period size: 64 Copynumber: 2.4 Consensus size: 64
11106097 CATAAATACA
* * *
11106107 GTAATATGATT-ACCTCAAAGCCATCAGTAGCAGTGATATGATCGACACACAGCCATCAGTAATG
1 GTAATATGATTGA-CACAAAGCCATCAGTAACAGTGATATGACCGACACACAGCCATCAGTAATG
* * * *
11106171 GTAATATGATTGGCACAAAGCCATTAGTAACAGTGATTTGACCGGCACACAGCCATCAGTAATG
1 GTAATATGATTGACACAAAGCCATCAGTAACAGTGATATGACCGACACACAGCCATCAGTAATG
*
11106235 GTAATATGACTGACACAAAGCCAT
1 GTAATATGATTGACACAAAGCCAT
11106259 AAGCAGCATT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (64 bp):
GTAATATGATTGACACAAAGCCATCAGTAACAGTGATATGACCGACACACAGCCATCAGTAATG
Found at i:11106257 original size:32 final size:32
Alignment explanation
Indices: 11106104--11106258 Score: 125
Period size: 32 Copynumber: 4.8 Consensus size: 32
11106094 AGCCATAAAT
* *
11106104 ACAGTAATATGA-TTACCTCAAAGCCATCAGTA
1 ACAGTAATATGACTGA-CACAAAGCCATCAGTA
* * *
11106136 GCAGTGATATGA-TCGACACACAGCCATCAGTA
1 ACAGTAATATGACT-GACACAAAGCCATCAGTA
** * * *
11106168 ATGGTAATATGATTGGCACAAAGCCATTAGTA
1 ACAGTAATATGACTGACACAAAGCCATCAGTA
* * * * *
11106200 ACAGTGATTTGACCGGCACACAGCCATCAGTA
1 ACAGTAATATGACTGACACAAAGCCATCAGTA
**
11106232 ATGGTAATATGACTGACACAAAGCCAT
1 ACAGTAATATGACTGACACAAAGCCAT
11106259 AAGCAGCATT
Statistics
Matches: 94, Mismatches: 27, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
32 92 0.98
33 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (32 bp):
ACAGTAATATGACTGACACAAAGCCATCAGTA
Found at i:11106493 original size:24 final size:24
Alignment explanation
Indices: 11106435--11106494 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
11106425 CCATGCTCAG
** *
11106435 AATCAATCATACAATTCACAGACA
1 AATCAATCATTTAAATCACAGACA
* *
11106459 AAACAATCATTTAAATCACAGGCA
1 AATCAATCATTTAAATCACAGACA
11106483 AATCAATCATTT
1 AATCAATCATTT
11106495 TCATCATGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.48, C:0.22, G:0.05, T:0.25
Consensus pattern (24 bp):
AATCAATCATTTAAATCACAGACA
Found at i:11106595 original size:27 final size:28
Alignment explanation
Indices: 11106565--11106705 Score: 125
Period size: 27 Copynumber: 5.2 Consensus size: 28
11106555 GGCATTACGA
* *
11106565 TCATTTTA-CCTTAGAAGGATATTTTGG
1 TCATTTTACCCTTAGAAGGGTATTTCGG
*
11106592 TCATTTTACCC-T--AAGGGAATATCTCGG
1 TCATTTTACCCTTAGAAGGG--TATTTCGG
* * *
11106619 TCATTTTACCCTTCG-GGGGTATTTTGG
1 TCATTTTACCCTTAGAAGGGTATTTCGG
* * *
11106646 TCGTTTTACCCTT-TAAGGGTATTTCGA
1 TCATTTTACCCTTAGAAGGGTATTTCGG
*
11106673 TCATTTTACCCTTCG-AGGGTATTTCGG
1 TCATTTTACCCTTAGAAGGGTATTTCGG
11106700 TCATTT
1 TCATTT
11106706 AAAAATATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 16
0.75 0.11 0.13
Matches are distributed among these distances:
25 4 0.04
27 82 0.89
28 3 0.03
29 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (28 bp):
TCATTTTACCCTTAGAAGGGTATTTCGG
Found at i:11106623 original size:54 final size:53
Alignment explanation
Indices: 11106562--11106705 Score: 175
Period size: 54 Copynumber: 2.7 Consensus size: 53
11106552 AGGGGCATTA
* *
11106562 CGATCATTTTA-CCTTAGAAGGATATTTTGGTCATTTTACCC-TAAGGGAATATCT
1 CGATCATTTTACCCTTCG-AGGGTATTTTGGTCATTTTACCCTTAAGGG--TATCT
* * * *
11106616 CGGTCATTTTACCCTTCGGGGGTATTTTGGTCGTTTTACCCTTTAAGGGTATTT
1 CGATCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCC-TTAAGGGTATCT
*
11106670 CGATCATTTTACCCTTCGAGGGTATTTCGGTCATTT
1 CGATCATTTTACCCTTCGAGGGTATTTTGGTCATTT
11106706 AAAAATATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
54 66 0.86
55 5 0.06
56 6 0.08
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (53 bp):
CGATCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTAAGGGTATCT
Found at i:11109886 original size:32 final size:32
Alignment explanation
Indices: 11109850--11109952 Score: 79
Period size: 32 Copynumber: 3.2 Consensus size: 32
11109840 AATTATCTTA
11109850 AAATGTATATATGTGTAATGTGATGTATGCCT
1 AAATGTATATATGTGTAATGTGATGTATGCCT
* *** *
11109882 AAATG-AGTATGTGGTTGCT-ATACAAAT-TAT-CTT
1 AAATGTA-TATAT-G-TG-TAAT-GTGATGTATGCCT
11109915 AAAATGTATATATGTGTAATGTGATGTATGCCT
1 -AAATGTATATATGTGTAATGTGATGTATGCCT
11109948 AAATG
1 AAATG
11109953 AGTATGTGGT
Statistics
Matches: 51, Mismatches: 10, Indels: 20
0.63 0.12 0.25
Matches are distributed among these distances:
31 4 0.08
32 21 0.41
33 6 0.12
34 16 0.31
35 4 0.08
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (32 bp):
AAATGTATATATGTGTAATGTGATGTATGCCT
Found at i:11109913 original size:66 final size:66
Alignment explanation
Indices: 11109838--11109988 Score: 257
Period size: 66 Copynumber: 2.3 Consensus size: 66
11109828 CCTCAAGTGT
*
11109838 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTTGCTAT
1 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTTGCCAT
11109903 A
66 A
*
11109904 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTTTCCAT
1 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTTGCCAT
*
11109969 G
66 A
*
11109970 CAAATTATCATTTAAATGT
1 CAAATTATC-TTAAAATGT
11109989 GATCTTATAT
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
66 72 0.90
67 8 0.10
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.40
Consensus pattern (66 bp):
CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTTGCCAT
A
Found at i:11112484 original size:35 final size:35
Alignment explanation
Indices: 11112434--11112500 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
11112424 TATAGGCTAT
*
11112434 ACATATCCCTAGTTCCCTGATTTTGAGCCTTGATA
1 ACATATCACTAGTTCCCTGATTTTGAGCCTTGATA
* *
11112469 ACATATCACTCGTTCCCTGATTTTGTGCCTTG
1 ACATATCACTAGTTCCCTGATTTTGAGCCTTG
11112501 TTGATCCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (35 bp):
ACATATCACTAGTTCCCTGATTTTGAGCCTTGATA
Found at i:11120733 original size:15 final size:16
Alignment explanation
Indices: 11120713--11120742 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11120703 CAAGAAAAGC
11120713 ATATTT-CAATAGAAG
1 ATATTTGCAATAGAAG
11120728 ATATTTGCAATAGAA
1 ATATTTGCAATAGAA
11120743 TAAAAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (16 bp):
ATATTTGCAATAGAAG
Found at i:11126541 original size:15 final size:15
Alignment explanation
Indices: 11126521--11126551 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11126511 GTTATGTAAG
11126521 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11126536 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11126551 T
1 T
11126552 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:11126645 original size:9 final size:9
Alignment explanation
Indices: 11126631--11126657 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
11126621 TATTATTAGA
11126631 TTTTATTTT
1 TTTTATTTT
11126640 TTTTATTTT
1 TTTTATTTT
11126649 TTTTATTTT
1 TTTTATTTT
11126658 AAAGGGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTATTTT
Found at i:11130884 original size:15 final size:15
Alignment explanation
Indices: 11130864--11130894 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11130854 GTTATGTAAG
11130864 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11130879 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11130894 T
1 T
11130895 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:11132648 original size:3 final size:3
Alignment explanation
Indices: 11132640--11132671 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11132630 TTGCTATTAA
*
11132640 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11132672 AAGATCAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11134391 original size:114 final size:113
Alignment explanation
Indices: 11134204--11134758 Score: 537
Period size: 114 Copynumber: 4.9 Consensus size: 113
11134194 TAATCATTCT
* * * *
11134204 CGGCGTTT-TTGAGAAAGCGCCGCAAAAAACCT-AGCGCAACGACGCCGTTTCCCCAGCATTC-G
1 CGGCGTTTCTTG-GAAAGCGCCGCAAAAAAACTAAGCGCAACGACGTCGTTTCCCGAGCTTTCAG
11134266 GTGATTTAGCGGCGTTTTTCAGTAAGCGCCGCTAATGCTCAAGGCTTTAG
65 G-GATTTAGCGGCGTTTTTCAGTAAGCGCCGCTAATGCTCAAGGCTTTAG
* * *
11134316 CGGCGTTTCTAGGAAAGCGCCGCAAAAATAACTAAGCCCAACGATGTCGTTTCCCGAGCTTTCAG
1 CGGCGTTTCTTGGAAAGCGCCGCAAAAA-AACTAAGCGCAACGACGTCGTTTCCCGAGCTTTCAG
* * *
11134381 GGATTTAGCGGCG-CTTTCTA-TAAAGCGCCGCTAATGGT-TAGGTCTTTAG
65 GGATTTAGCGGCGTTTTTC-AGT-AAGCGCCGCTAATGCTCAAGG-CTTTAG
* ** *
11134430 CAGCGTTTC-TGGAAAAGCGCCGCTACTTAAAACT-AGCGCAACGACGTCGTCTCCCGAGCTTTC
1 CGGCGTTTCTTGG-AAAGCGCCGC-A-AAAAAACTAAGCGCAACGACGTCGTTTCCCGAGCTTTC
* * * * *
11134493 AGGGATTTAGCGGCGCTTTTACAGAAAGTGCCGCTAATGCTGAAGTCTTTAG
63 AGGGATTTAGCGGCG-TTTTTCAGTAAGCGCCGCTAATGCTCAAGGCTTTAG
* * * *** *
11134545 CGGCGTTT-TTGTTAAAGCGCCGCAAAAAAACTAAGCCCAACGACGACGTTTTTTG-GCTTTCGG
1 CGGCGTTTCTTG-GAAAGCGCCGCAAAAAAACTAAGCGCAACGACGTCGTTTCCCGAGCTTTCAG
* *
11134608 GGATTTTAGCGGCGTTTTT--GTTAAAGCGCCGCTAATGTTC-AGTCTTTAG
65 GGA-TTTAGCGGCGTTTTTCAG-T-AAGCGCCGCTAATGCTCAAGGCTTTAG
* * * * *
11134657 CGGCGTTTTTTGGAAAGCGCCGCAAAAAAAACTAAGCGCAACGTCGTCGTTTTCTGTA-CTTTTG
1 CGGCGTTTCTTGGAAAGCGCCGC-AAAAAAACTAAGCGCAACGACGTCGTTTCCCG-AGC-TTTC
*
11134721 AGGGATTTAGCGGCGTTTTT-AGAAAAGCGCCGCTAATG
63 AGGGATTTAGCGGCGTTTTTCAG-TAAGCGCCGCTAATG
11134759 ATCAGGGATT
Statistics
Matches: 368, Mismatches: 49, Indels: 50
0.79 0.10 0.11
Matches are distributed among these distances:
111 1 0.00
112 51 0.14
113 80 0.22
114 174 0.47
115 55 0.15
116 7 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (113 bp):
CGGCGTTTCTTGGAAAGCGCCGCAAAAAAACTAAGCGCAACGACGTCGTTTCCCGAGCTTTCAGG
GATTTAGCGGCGTTTTTCAGTAAGCGCCGCTAATGCTCAAGGCTTTAG
Found at i:11134587 original size:228 final size:226
Alignment explanation
Indices: 11134206--11134758 Score: 633
Period size: 228 Copynumber: 2.4 Consensus size: 226
11134196 ATCATTCTCG
* * * *
11134206 GCGTTTT-TGAGAAAGCGCCGC-AAAAAACCTAGCGCAACGACGCCGTTTCCCCAGCATTC-GGT
1 GCGTTTTCTG-GAAAGCGCCGCAAAAAAAACTAGCGCAACGACGTCGTTTCCCGAGCTTTCAGG-
* *
11134268 GATTTAGCGGCGTTTTTCAGTAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAGGAAAG
64 GATTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAGGAAAG
* *
11134333 CGCCGCAAAAATAACTAAGCCCAACGATGTCGTTTCCCGAGCTTTCAGGGA-TTTAGCGGCGCTT
129 CGCCGCAAAAATAACTAAGCCCAACGACGACGTTTCCCG-GCTTTCAGGGATTTTAGCGGCG-TT
11134397 TCT-ATAAAGCGCCGCTAATGGTT-AGGTCTTTAGCA
192 TCTGATAAAGCGCCGCTAAT-GTTCA-GTCTTTAGCA
*** *
11134432 GCG-TTTCTGGAAAAGCGCCGCTACTTAAAACTAGCGCAACGACGTCGTCTCCCGAGCTTTCAGG
1 GCGTTTTCTGG-AAAGCGCCGC-AAAAAAAACTAGCGCAACGACGTCGTTTCCCGAGCTTTCAGG
* * * * *
11134496 GATTTAGCGGCGCTTTTACAGAAAGTGCCGCTAATGCTGAAGTCTTTAGCGGCGTTT-TTGTTAA
64 GATTTAGCGGCG-TTTTACAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAG-GAA
*** *
11134560 AGCGCCGCAAAAA-AACTAAGCCCAACGACGACGTTTTTTGGCTTTCGGGGATTTTAGCGGCGTT
127 AGCGCCGCAAAAATAACTAAGCCCAACGACGACGTTTCCCGGCTTTCAGGGATTTTAGCGGCGTT
* * *
11134624 TTTGTTAAAGCGCCGCTAATGTTCAGTCTTTAGCG
192 TCTGATAAAGCGCCGCTAATGTTCAGTCTTTAGCA
* * * * *
11134659 GCGTTTTTTGGAAAGCGCCGCAAAAAAAACTAAGCGCAACGTCGTCGTTTTCTGTA-CTTTTGAG
1 GCGTTTTCTGGAAAGCGCCGCAAAAAAAACT-AGCGCAACGACGTCGTTTCCCG-AGC-TTTCAG
*
11134723 GGATTTAGCGGCGTTTT-TAGAAAAGCGCCGCTAATG
63 GGATTTAGCGGCGTTTTACAG-AAAGCGCCGCTAATG
11134759 ATCAGGGATT
Statistics
Matches: 277, Mismatches: 35, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
225 4 0.01
226 24 0.09
227 76 0.27
228 117 0.42
229 56 0.20
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (226 bp):
GCGTTTTCTGGAAAGCGCCGCAAAAAAAACTAGCGCAACGACGTCGTTTCCCGAGCTTTCAGGGA
TTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAGGAAAGCG
CCGCAAAAATAACTAAGCCCAACGACGACGTTTCCCGGCTTTCAGGGATTTTAGCGGCGTTTCTG
ATAAAGCGCCGCTAATGTTCAGTCTTTAGCA
Found at i:11135055 original size:7 final size:7
Alignment explanation
Indices: 11135045--11135106 Score: 79
Period size: 7 Copynumber: 8.4 Consensus size: 7
11135035 AGAGTTAAGA
11135045 TTTAGGG
1 TTTAGGG
11135052 TTTAAGGG
1 TTT-AGGG
11135060 TTTAGGGG
1 TTTA-GGG
11135068 TTTAGGG
1 TTTAGGG
11135075 TTTAGGG
1 TTTAGGG
11135082 TTTAGGG
1 TTTAGGG
**
11135089 ATTTCTGG
1 -TTTAGGG
11135097 TTTAGGG
1 TTTAGGG
11135104 TTT
1 TTT
11135107 GAACGGTAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
7 29 0.60
8 19 0.40
ACGTcount: A:0.15, C:0.02, G:0.39, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:11135061 original size:8 final size:8
Alignment explanation
Indices: 11135048--11135085 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
11135038 GTTAAGATTT
11135048 AGGGTTTA
1 AGGGTTTA
11135056 AGGGTTTA
1 AGGGTTTA
*
11135064 GGGGTTT-
1 AGGGTTTA
11135071 AGGGTTT-
1 AGGGTTTA
11135078 AGGGTTTA
1 AGGGTTTA
11135086 GGGATTTCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (8 bp):
AGGGTTTA
Found at i:11135065 original size:15 final size:14
Alignment explanation
Indices: 11135045--11135106 Score: 79
Period size: 15 Copynumber: 4.2 Consensus size: 14
11135035 AGAGTTAAGA
11135045 TTTAGGGTTTAAGGG
1 TTTAGGGTTT-AGGG
11135060 TTTAGGGGTTTAGGG
1 TTTA-GGGTTTAGGG
11135075 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
**
11135089 ATTTCTGGTTTAGGG
1 -TTTAGGGTTTAGGG
11135104 TTT
1 TTT
11135107 GAACGGTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
14 13 0.30
15 24 0.56
16 6 0.14
ACGTcount: A:0.15, C:0.02, G:0.39, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Found at i:11135084 original size:22 final size:22
Alignment explanation
Indices: 11135043--11135106 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
11135033 TAAGAGTTAA
11135043 GATTTAGGGTTTAAGGGTTTAGG
1 GATTTAGGGTTT-AGGGTTTAGG
*
11135066 GGTTTAGGGTTTAGGGTTTAGG
1 GATTTAGGGTTTAGGGTTTAGG
**
11135088 GATTTCTGGTTTAGGGTTT
1 GATTTAGGGTTTAGGGTTT
11135107 GAACGGTAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 26 0.70
23 11 0.30
ACGTcount: A:0.16, C:0.02, G:0.39, T:0.44
Consensus pattern (22 bp):
GATTTAGGGTTTAGGGTTTAGG
Found at i:11145681 original size:44 final size:42
Alignment explanation
Indices: 11145633--11145725 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
11145623 CCTAGTCTAT
11145633 AGCGGCGCTTATACCAAAAAACGCC-GCTAAAGATATTACTCTTC
1 AGCGGCGCTTATA-C-AAAAACGCCAG-TAAAGATATTACTCTTC
* * * * *
11145677 AGCGGCGCTTCTACTAAAGCGCCAGTAAAGCTCTTACTCTTC
1 AGCGGCGCTTATACAAAAACGCCAGTAAAGATATTACTCTTC
11145719 AGCGGCG
1 AGCGGCG
11145726 TTTGTGATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
42 29 0.67
43 2 0.05
44 12 0.28
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (42 bp):
AGCGGCGCTTATACAAAAACGCCAGTAAAGATATTACTCTTC
Found at i:11145888 original size:21 final size:21
Alignment explanation
Indices: 11145863--11145906 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
11145853 TTCTGCGGCG
*
11145863 CTAAAAAGCACCGCTAAAGGC
1 CTAAAAAGCACCGCTAAAAGC
*
11145884 CTAAAAAGCGCCGCTAAAAGC
1 CTAAAAAGCACCGCTAAAAGC
11145905 CT
1 CT
11145907 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.30, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAGCACCGCTAAAAGC
Found at i:11148973 original size:16 final size:16
Alignment explanation
Indices: 11148952--11148982 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11148942 TTTTGACCCA
11148952 TACTTTATTCAATAAT
1 TACTTTATTCAATAAT
11148968 TACTTTATTCAATAA
1 TACTTTATTCAATAA
11148983 ACCTTAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (16 bp):
TACTTTATTCAATAAT
Found at i:11151113 original size:57 final size:57
Alignment explanation
Indices: 11151023--11151134 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 57
11151013 TTTAAATTTG
* * *
11151023 TTAAACTGTGCAGGAAGTGATACCAAAACCATAAGAACAAGCAAATACTCAGAAATC
1 TTAAACTGTGCAGGAAGCGATACCAAAAACATAAGAACAAACAAATACTCAGAAATC
* * *
11151080 TTAAATTGTGCAGGAAGCGATACCAAAAACATAAGAACAAACAATTCCTCAGAAA
1 TTAAACTGTGCAGGAAGCGATACCAAAAACATAAGAACAAACAAATACTCAGAAA
11151135 GCTCTATCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (57 bp):
TTAAACTGTGCAGGAAGCGATACCAAAAACATAAGAACAAACAAATACTCAGAAATC
Found at i:11153629 original size:10 final size:10
Alignment explanation
Indices: 11153609--11153641 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
11153599 AATGAAATTT
11153609 AAAAATATAAA
1 AAAAAT-TAAA
11153620 AAAAATTAAA
1 AAAAATTAAA
11153630 AAAAATTAAA
1 AAAAATTAAA
11153640 AA
1 AA
11153642 TTACAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:11153640 original size:17 final size:16
Alignment explanation
Indices: 11153620--11153663 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
11153610 AAAATATAAA
11153620 AAAAATTAAAAAAAATT
1 AAAAATTAAAAAAAA-T
* *
11153637 AAAAATTACAGAAAAT
1 AAAAATTAAAAAAAAT
11153653 AAAAA-TAAAAA
1 AAAAATTAAAAA
11153664 CAAAAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 4 0.17
16 6 0.26
17 13 0.57
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAAATTAAAAAAAAT
Done.