Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 171 of 213
Found at i:51357356 original size:44 final size:44
Alignment explanation
Indices: 51357293--51357665 Score: 225
Period size: 44 Copynumber: 8.0 Consensus size: 44
51357283 TAGATCGCAT
* * * *
51357293 CAGATTGAAGCCAAAAATCTCATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
*
51357337 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATT-CTAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTAC-AGTGGAG
* ** * *
51357381 CGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGCTACAGTAGTGTAG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGT-G-G-AG
* * *
51357428 ATCACATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAA
1 -------CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* * *
51357479 CAGATTGAAGCTAGTAATCCTAACTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* ** ** * * *
51357523 CGGATT-AAAATAAGGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCAT
1 CAGATTGAAGCT-AGAAATCTTATCTCCCTG-AG--AT--TACAGT-G---G-AG
* *
51357577 CAGATTGAAGCCAGAAATCTTATCTCCCTGATATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* * *
51357621 CAGATTGAAGCTAGTAATCCTAACTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
51357665 C
1 C
51357666 GGAGTAAAAT
Statistics
Matches: 249, Mismatches: 50, Indels: 60
0.69 0.14 0.17
Matches are distributed among these distances:
42 1 0.00
43 9 0.04
44 157 0.63
45 5 0.02
46 1 0.00
47 4 0.02
48 1 0.00
49 10 0.04
50 1 0.00
51 3 0.01
52 1 0.00
53 3 0.01
54 45 0.18
55 6 0.02
56 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
Found at i:51357913 original size:50 final size:50
Alignment explanation
Indices: 51357767--51358924 Score: 406
Period size: 50 Copynumber: 23.1 Consensus size: 50
51357757 AAGAATTACA
* * * * *
51357767 AATCTTACCTCTCAGGCGATGTAGTGGAACAGATTAAAGCCACATCGGTG
1 AATCTTACCTCCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
* * * ** * **
51357817 AATCTTGCTTCCTC-GAC-ATTGCAGTTCAAAAAGATTAAAGCTACAACAGCA
1 AATCTTACCTCC-CAGGCGA-TGCAG-TGGAAAAGATTAAAGCCACAACAGTG
* *
51357868 AATCTTGCCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAAC-GATG
1 AATCTTACCTCCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAG-TG
* * * * * * *
51357918 AATCTTGCCTCTCTGAC-AT-TA-TGGTTAAAAAGATTAAAGCTACAGCAGTG
1 AATCTTACCTCCCAGGCGATGCAGTGG---AAAAGATTAAAGCCACAACAGTG
* * * *
51357968 AATTTTACCTCCCAAGCGGTGCAGTGGAATAGATTAAAGCCACAACAGTG
1 AATCTTACCTCCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
* * * ** * * ***
51358018 AATCTTACCTCCCTGAC-ATTGCGGTCAAAAAAGATTAAAGCTACAGCAACA
1 AATCTTACCTCCCAGGCGA-TGCAGT-GGAAAAGATTAAAGCCACAACAGTG
* *
51358069 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAAC-GATG
1 AATCTTACCTCCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAG-TG
*** * ** * * *
51358119 AATCTTACCTCCCTCAC-ATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
1 AATCTTACCTCCCAGGCGA-TGCAGTGGAAAAGATTAAAGCCACAACAGTG
* * * * * * * *
51358169 TATCTTACCTCCTAGGCGGTGCATTGGAATAGATTAAAGCCATATCGGTG
1 AATCTTACCTCCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
*** * ** *
51358219 AATCTTGTTTCCCCGGC-ATTGCAGTTAAAAAGATTAAAGCTACAACAGTG
1 AATCTTACCTCCCAGGCGA-TGCAGTGGAAAAGATTAAAGCCACAACAGTG
* ** * *
51358269 AATCTTA-TTCCCCAGGCGATGCAGTGGAGCAGATTAAAGCCACAGCGGTG
1 AATCTTACCT-CCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
* * * * ** * * * * *
51358319 AATCTTGCTGTTCC-GAC-ATTGCAGTTAAAAAGGTTAAAGCTATAGCA-TCA
1 AATCTTAC-CTCCCAGGCGA-TGCAGTGGAAAAGATTAAAGCCACAACAGT-G
* * * * *
51358369 AATCTTACCTCTCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTG
1 AATCTTACCTCCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
*** * * ** * * * **
51358419 AATCTTGTTTCCCCGG-TATTGCAGTTAAAAAAATTAAAGCCACAGCGGCA
1 AATCTTACCTCCCAGGCGA-TGCAGTGGAAAAGATTAAAGCCACAACAGTG
* * * * * ** * *
51358469 AATCCTGCTTCCCTA-GCGGTGCAGTAGAGCAGATTAAAGCCACATCGGTG
1 AATCTTACCTCCC-AGGCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
* * ** ** * **
51358519 AATCTTACTTCCC-CGATATTGCAGTTAAAAAGATTAAAGCTACAACAACG
1 AATCTTACCTCCCAGGCGA-TGCAGTGGAAAAGATTAAAGCCACAACAGTG
** *
51358569 AATCTTA-CTCCCCAGGCGATGCAGTGGAGCAGATTAAAGCCACAACGGTG
1 AATCTTACCT-CCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
* * * * * * * * **
51358619 AATCTT-GCTATCCTGAC-ATTGCAGCT-AAAAAGGTTAAAGCTACAGCAGCA
1 AATCTTACCT-CCCAGGCGA-TGCAG-TGGAAAAGATTAAAGCCACAACAGTG
* * * *
51358669 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTG
1 AATCTTACCTCCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
*** * * ** * * *
51358719 AATCTTGTTTCCCCGGC-ATTGCAATTAAAAAGATTAAAGCCACAGCGGCG
1 AATCTTACCTCCCAGGCGA-TGCAGTGGAAAAGATTAAAGCCACAACAGTG
* * * * * ** ***
51358769 AATCCTACTTCCTTAGTG-G-TGTAGTAGAGCAGATTAAAGCCACATTGGTG
1 AATCTTACCTCC-CAG-GCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
* ** ** * *
51358819 AATCTTACTTCCCCA--AAATTGCAGTTAAAAAGATTAAAGCCACAGCAGCG
1 AATCTTACCT-CCCAGGCGA-TGCAGTGGAAAAGATTAAAGCCACAACAGTG
* * * * * * *
51358869 AATCTTACCTCCCTGGTGATGTAGTGGAACAGATGAAAGCCACATCGGTG
1 AATCTTACCTCCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
51358919 AATCTT
1 AATCTT
51358925 GCTTCCCCGA
Statistics
Matches: 783, Mismatches: 272, Indels: 106
0.67 0.23 0.09
Matches are distributed among these distances:
47 3 0.00
48 1 0.00
49 17 0.02
50 665 0.85
51 90 0.11
52 4 0.01
53 3 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (50 bp):
AATCTTACCTCCCAGGCGATGCAGTGGAAAAGATTAAAGCCACAACAGTG
Found at i:51359030 original size:100 final size:100
Alignment explanation
Indices: 51357767--51359008 Score: 1364
Period size: 100 Copynumber: 12.4 Consensus size: 100
51357757 AAGAATTACA
* * * *
51357767 AATCTTACCTCTCAGGCGATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
51357832 ACATTGCAGTTCAAAAAGATTAAAGCTACAACAGCA
66 ACATTGCAGTT-AAAAAGATTAAAGCTACAGCAGCG
* * * * * * *
51357868 AATCTTGCCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGATGAATCTTGCCTCTCTG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
*** *
51357933 ACATTATGGTTAAAAAGATTAAAGCTACAGCAGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * * * *
51357968 AATTTTACCTCCCAAGCGGTGCAGTGGAATAGATTAAAGCCACAACAGTGAATCTTACCTCCCTG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * *
51358033 ACATTGCGGTCAAAAAAGATTAAAGCTACAGCAACA
66 ACATTGCAGT-TAAAAAGATTAAAGCTACAGCAGCG
* * * *
51358069 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGATGAATCTTACCTCCCTC
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCC-C
*
51358134 -ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * *
51358169 TATCTTACCTCCTAGGCGGTGCATTGGAATAGATTAAAGCCATATCGGTGAATCTTGTTTCCCCG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * *
51358234 GCATTGCAGTTAAAAAGATTAAAGCTACAACAGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * *
51358269 AATCTTA-TTCCCCAGGCGATGCAGTGGAGCAGATTAAAGCCACAGCGGTGAATCTTGCTGT-TC
1 AATCTTACCT-CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT-TCCC
* * * *
51358332 CGACATTGCAGTTAAAAAGGTTAAAGCTATAGCATCA
64 CGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* *
51358369 AATCTTACCTCTCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGTTTCCCCG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
** * * * *
51358434 GTATTGCAGTTAAAAAAATTAAAGCCACAGCGGCA
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * *
51358469 AATCCTGCTTCCCTA-GCGGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTACTTCCCC
1 AATCTTACCTCCC-AGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* * *
51358533 GATATTGCAGTTAAAAAGATTAAAGCTACAACAACG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * *
51358569 AATCTTA-CTCCCCAGGCGATGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCTAT-CC
1 AATCTTACCT-CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT-TCCC
* * * *
51358632 TGACATTGCAGCTAAAAAGGTTAAAGCTACAGCAGCA
64 CGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
*
51358669 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGTTTCCCCG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * *
51358734 GCATTGCAATTAAAAAGATTAAAGCCACAGCGGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * * * * *
51358769 AATCCTACTTCCTTA-GTGGTGTAGTAGAGCAGATTAAAGCCACATTGGTGAATCTTACTTCCCC
1 AATCTTACCTCC-CAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* * *
51358833 AAAATTGCAGTTAAAAAGATTAAAGCCACAGCAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * *
51358869 AATCTTACCTCCCTGGTGATGTAGTGGAACAGATGAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * ** *
51358934 ATATTGCAGTTAAAAAGATTAAAGCCACAGTGGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * * *
51358969 AATCATACTTCTCTGGCGGTGCAATGGAATAGATTGAAGC
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGC
51359009 TACAACAACG
Statistics
Matches: 959, Mismatches: 167, Indels: 31
0.83 0.14 0.03
Matches are distributed among these distances:
99 6 0.01
100 793 0.83
101 160 0.17
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
Found at i:51360589 original size:16 final size:16
Alignment explanation
Indices: 51360565--51360595 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51360555 TTTATTTTTG
*
51360565 ATATTTTCATATATAC
1 ATATATTCATATATAC
51360581 ATATATTCATATATA
1 ATATATTCATATATA
51360596 TATTCGTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATATTCATATATAC
Found at i:51391217 original size:2 final size:2
Alignment explanation
Indices: 51391210--51391250 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
51391200 GAGAGCTTCT
*
51391210 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
51391251 TTCTTTTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:51391321 original size:13 final size:12
Alignment explanation
Indices: 51391303--51391336 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
51391293 TCTAAACATT
51391303 TTCTCTCTCAAAA
1 TTCTCTCT-AAAA
51391316 TTCTCTCTAAAA
1 TTCTCTCTAAAA
51391328 -TCTCTCTAA
1 TTCTCTCTAA
51391337 CTAATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 4 0.19
13 8 0.38
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (12 bp):
TTCTCTCTAAAA
Found at i:51400218 original size:50 final size:50
Alignment explanation
Indices: 51400143--51400325 Score: 267
Period size: 50 Copynumber: 3.6 Consensus size: 50
51400133 TACACGGAAT
* * * * *
51400143 CACTTATCATTTATCTCTTCTCACTGATCAGATAAGTGTAGCTAAGTTAC
1 CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAGCTAC
* * *
51400193 CACTTATCACTTATCACTTTTCACTGATCAGATAAATGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAGCTAC
*
51400243 CACTTATCACTTATCACTTGTCACTAATCAAATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCT-AAGCTAC
*
51400294 CACTTATCACTTGTCACTTGTCACTAATCAGA
1 CACTTATCACTTATCACTTGTCACTAATCAGA
51400326 AGTACTCAAA
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 84 0.69
51 37 0.31
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (50 bp):
CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAGCTAC
Found at i:51410900 original size:24 final size:24
Alignment explanation
Indices: 51410873--51410918 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
51410863 AGAACAATCC
* *
51410873 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
51410897 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
51410919 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:51412136 original size:20 final size:20
Alignment explanation
Indices: 51412090--51412136 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
51412080 AGCTCGTTTC
*
51412090 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
51412110 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
51412130 CAGCTCA
1 CAGCTCA
51412137 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:51420046 original size:40 final size:40
Alignment explanation
Indices: 51419977--51420119 Score: 148
Period size: 40 Copynumber: 3.6 Consensus size: 40
51419967 GTGGCGTTTG
* *
51419977 TACAAAAAATGCCACTAAAAATCGAGCATTAGCGGCGCTT
1 TACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTT
* *
51420017 TACATAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTT
1 TACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTT
* * * * *
51420057 T-CAGGAAATCGCCGCCAAAAAT-GAGCATTAGCGTCGTTTTT
1 TACA-AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG--CTT
*
51420098 TAGAAAAAACGCCGC-AAAAATC
1 TACAAAAAACGCCGCTAAAAATC
51420120 CTAAGCCCAA
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
39 15 0.18
40 57 0.67
41 12 0.14
42 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (40 bp):
TACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTT
Found at i:51420212 original size:41 final size:41
Alignment explanation
Indices: 51420155--51420307 Score: 256
Period size: 41 Copynumber: 3.7 Consensus size: 41
51420145 ACCTTTTGGG
51420155 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGA
1 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGA
* *
51420196 GCTTTAGCGGCGTTTTTGAAGAAGCGTCGCTAATGCTCAAA
1 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGA
51420237 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAG-
1 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGA
51420277 GCTTTTAGCGGCGTTTTTGATA-AAGCGCCGC
1 GC-TTTAGCGGCGTTTTTGA-AGAAGCGCCGC
51420308 AACAACATCT
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
40 2 0.02
41 103 0.97
42 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (41 bp):
GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGA
Found at i:51421058 original size:15 final size:15
Alignment explanation
Indices: 51421035--51421064 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51421025 ATTGTAAAAG
51421035 AGGGGTTAGGGGTTA
1 AGGGGTTAGGGGTTA
*
51421050 AGGGTTTAGGGGTTA
1 AGGGGTTAGGGGTTA
51421065 TGTCTTATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.50, T:0.30
Consensus pattern (15 bp):
AGGGGTTAGGGGTTA
Found at i:51421445 original size:14 final size:14
Alignment explanation
Indices: 51421416--51421466 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
51421406 ACTTAGTTTT
*
51421416 TTTATAAAAATTTAA
1 TTTATAAAAA-ATAA
51421431 TTTATAAAAAATAA
1 TTTATAAAAAATAA
* *
51421445 -TAATAAAAAATAT
1 TTTATAAAAAATAA
51421458 TTTATAAAA
1 TTTATAAAA
51421467 TCACTTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 11 0.35
14 10 0.32
15 10 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TTTATAAAAAATAA
Found at i:51425596 original size:43 final size:43
Alignment explanation
Indices: 51425548--51425642 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
51425538 TTCAGGATAC
* * * *
51425548 TTTATTACCAAGATTTCCTTGATTAAGTAAATGTATTATATCT
1 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
*
51425591 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATAT
1 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
51425634 TTTATTACC
1 TTTATTACC
51425643 TTGCATATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (43 bp):
TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
Found at i:51425967 original size:43 final size:43
Alignment explanation
Indices: 51425919--51426101 Score: 226
Period size: 43 Copynumber: 4.3 Consensus size: 43
51425909 GATAAGTTTT
* * **
51425919 TAGCGGCGTTTTTGTGAAAAGCATCGCTAAAGGT-CATGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAC-TGGTCTA
51425962 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTCTA
* * * * *
51426005 TAGCGACGTTTGTGGGAAAAGTGCCGCTAAAAGTATTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTCTA
* * *
51426048 TAGTGGCGTTTGTGGGAAAAGCGTCGCTAAAGGT-CATGGTTTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAC-TGGTCTA
51426091 TAGCGGCGTTT
1 TAGCGGCGTTT
51426102 ATTTCAAAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
43 119 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTCTA
Found at i:51426123 original size:86 final size:86
Alignment explanation
Indices: 51425955--51426124 Score: 218
Period size: 86 Copynumber: 2.0 Consensus size: 86
51425945 CTAAAGGTCA
*
51425955 TGGTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTCTATAGCGACGTTTGTGG
1 TGGTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTCTATAGCGACGTTTGTGC
* *
51426020 GAAAAGTGCCGCTAAAAGTAT
66 AAAAAATGCCGCTAAAAGTAT
* * * * * *
51426041 TGGTCTTTAGTGGCGTTTGTGGGAAAAGCGTCGCTAAAGGT-CATGGTTTATAGCGGCGTTTATT
1 TGGTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAC-TGGTCTATAGCGACGTTT-GT
*
51426105 TCAAAAAATGCCGC-AAAAGT
64 GCAAAAAATGCCGCTAAAAGT
51426125 TAGCGACGCG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
85 1 0.01
86 60 0.83
87 11 0.15
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (86 bp):
TGGTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTCTATAGCGACGTTTGTGC
AAAAAATGCCGCTAAAAGTAT
Found at i:51426322 original size:45 final size:45
Alignment explanation
Indices: 51426266--51426553 Score: 185
Period size: 45 Copynumber: 6.6 Consensus size: 45
51426256 TCTTATCCTT
* *
51426266 CTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATTTTATCTCC
1 CTGAAGTTGCAGTGAGGCAGATTAAAGATGGCAAATCTTATCTCC
** * * *
51426311 CTGAAGTTGCAGTG-GAGCAGATTAAAGCCGG-TAATCCTATCTCG
1 CTGAAGTTGCAGTGAG-GCAGATTAAAGATGGCAAATCTTATCTCC
* * * * *
51426355 CTGAAGTTGCAGTGA-GCGGATTAAAACAT--TAGATCTTATCTCT
1 CTGAAGTTGCAGTGAGGCAGATT-AAAGATGGCAAATCTTATCTCC
* * * **
51426398 CTGAAGTTGCAGAGA-GCAGA-T--CGCAT--CTAGCCTTATCTCC
1 CTGAAGTTGCAGTGAGGCAGATTAAAG-ATGGCAAATCTTATCTCC
* * * *
51426438 TTGAAGTTGCAGTG-GAGCAAAAT-AAG-TGGGCAAGTCTTATC-CTC
1 CTGAAGTTGCAGTGAG-GCAGATTAAAGAT-GGCAAATCTTATCTC-C
* *
51426482 CTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTCATCTCC
1 CTGAAGTTGCAGTGAGGCAGATTAAAGATGGCAAATCTTATCTCC
*
51426527 CTGAAGTTGTAGTG-GAGCAGATTAAAG
1 CTGAAGTTGCAGTGAG-GCAGATTAAAG
51426554 CCGATAATCC
Statistics
Matches: 187, Mismatches: 38, Indels: 36
0.72 0.15 0.14
Matches are distributed among these distances:
40 22 0.12
41 5 0.03
42 2 0.01
43 35 0.19
44 56 0.30
45 65 0.35
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (45 bp):
CTGAAGTTGCAGTGAGGCAGATTAAAGATGGCAAATCTTATCTCC
Found at i:51426395 original size:43 final size:43
Alignment explanation
Indices: 51426266--51426635 Score: 175
Period size: 44 Copynumber: 8.5 Consensus size: 43
51426256 TCTTATCCTT
* ** * *
51426266 CTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATTTTATCTCC
1 CTGAAGTTGCAGTGA-GCAGATTAAAGACAG-TAATCTTATCTCC
* * * *
51426311 CTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCG
1 CTGAAGTTGCAGT-GAGCAGATTAAAGACAGTAATCTTATCTCC
* * *
51426355 CTGAAGTTGCAGTGAGCGGATTAAA-ACATTAGATCTTATCTCT
1 CTGAAGTTGCAGTGAGCAGATTAAAGACAGTA-ATCTTATCTCC
* * * **
51426398 CTGAAGTTGCAGAGAGCAGA-T--CG-CATCTAGCCTTATCTCC
1 CTGAAGTTGCAGTGAGCAGATTAAAGACA-GTAATCTTATCTCC
* * * *** *
51426438 TTGAAGTTGCAGTGGAGCAAAAT-AAGTGGGCAAGTCTTATC-CTC
1 CTGAAGTTGCAGT-GAGCAGATTAAAGACAGTAA-TCTTATCTC-C
* ** * *
51426482 CTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTCATCTCC
1 CTGAAGTTGCAGTGA-GCAGATTAAAGACAG-TAATCTTATCTCC
* * * *
51426527 CTGAAGTTGTAGTGGAGCAGATTAAAG-CCGATAATCCTATCTTC
1 CTGAAGTTGCAGT-GAGCAGATTAAAGACAG-TAATCTTATCTCC
* * ** * *
51426571 CTAAAGTTACAGTAGAGTC-GATTAAA-ACCTTGGATCTTATCTCT
1 CTGAAGTTGCAGT-GAG-CAGATTAAAGACAGT-AATCTTATCTCC
*
51426615 CTGAAGTTGCAGAGAGCAGAT
1 CTGAAGTTGCAGTGAGCAGAT
51426636 CGTATTTAGT
Statistics
Matches: 248, Mismatches: 58, Indels: 40
0.72 0.17 0.12
Matches are distributed among these distances:
40 21 0.08
41 8 0.03
42 6 0.02
43 50 0.20
44 96 0.39
45 60 0.24
46 7 0.03
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
CTGAAGTTGCAGTGAGCAGATTAAAGACAGTAATCTTATCTCC
Found at i:51427320 original size:21 final size:24
Alignment explanation
Indices: 51427289--51427334 Score: 71
Period size: 21 Copynumber: 2.0 Consensus size: 24
51427279 TACTTGTATT
51427289 TCTATTTTATTTTT-TCA-TTATA
1 TCTATTTTATTTTTATCATTTATA
51427311 TCTA-TTTATTTTTATCATTTATA
1 TCTATTTTATTTTTATCATTTATA
51427334 T
1 T
51427335 AAATAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 7 0.32
23 6 0.27
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTATTTTATTTTTATCATTTATA
Found at i:51434569 original size:41 final size:43
Alignment explanation
Indices: 51434459--51434575 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 43
51434449 CTACTTAAGA
* * * *
51434459 CTTAGTTTTCTCGATTGCAATCTTATTTCAGTTCATTTCTTTC
1 CTTAGGTTTCTCAATTGCAATTTTATTTCAGTTCACTTCTTTC
** *
51434502 CTTAGGTTTCTCAATTGTGATTTTATTTCAGTTTACTTCATTT-
1 CTTAGGTTTCTCAATTGCAATTTTATTTCAGTTCACTTC-TTTC
* *
51434545 TTTTGG-TT-TCAATTGCAATTTTATTTCAGTT
1 CTTAGGTTTCTCAATTGCAATTTTATTTCAGTT
51434576 GATTTACGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 21 0.34
42 2 0.03
43 36 0.58
44 3 0.05
ACGTcount: A:0.18, C:0.15, G:0.11, T:0.56
Consensus pattern (43 bp):
CTTAGGTTTCTCAATTGCAATTTTATTTCAGTTCACTTCTTTC
Found at i:51440218 original size:59 final size:59
Alignment explanation
Indices: 51440116--51440229 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 59
51440106 TTTTCATCAT
*
51440116 TTAACTACTGGATTTTTCGATTTAGTCACTTAGTTTCTCAAAATTAAATATTCTAGTCG
1 TTAACTACTGGATTTTTCGATTTAGTCACTTAATTTCTCAAAATTAAATATTCTAGTCG
* * * *
51440175 TTAACTATTGGATTTTTCGATTTAGTCAGTTAATTTTTTAAAATTAAATATTCTA
1 TTAACTACTGGATTTTTCGATTTAGTCACTTAATTTCTCAAAATTAAATATTCTA
51440230 TTCGCTATTG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (59 bp):
TTAACTACTGGATTTTTCGATTTAGTCACTTAATTTCTCAAAATTAAATATTCTAGTCG
Found at i:51441716 original size:25 final size:25
Alignment explanation
Indices: 51441674--51441860 Score: 144
Period size: 25 Copynumber: 7.5 Consensus size: 25
51441664 AGAGCTTTTA
* * * *
51441674 TGGCAATTTCTTTGGAAAGTCTTTG
1 TGGCAAATTCTCTAGAAAGCCTTTG
* **
51441699 TTGCAAATTCTCTAGAAAGATTTTG
1 TGGCAAATTCTCTAGAAAGCCTTTG
*
51441724 TGG-AGAATTCTTTAGAAAGCCTTTG
1 TGGCA-AATTCTCTAGAAAGCCTTTG
* ** * * *
51441749 TAGTGAACTATCTGGAAAGCCTTTG
1 TGGCAAATTCTCTAGAAAGCCTTTG
** * * *
51441774 TGGTGAATTCTTTGGAAAACCTTTG
1 TGGCAAATTCTCTAGAAAGCCTTTG
* *
51441799 TGGGAAACTCTCTAGAAAGCCTTTG
1 TGGCAAATTCTCTAGAAAGCCTTTG
*
51441824 T-GCAAACTCTCTAGAAAGCCTTTG
1 TGGCAAATTCTCTAGAAAGCCTTTG
*
51441848 TGGCGAATTCTCT
1 TGGCAAATTCTCT
51441861 TAAATGCTTT
Statistics
Matches: 129, Mismatches: 30, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
24 24 0.19
25 105 0.81
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (25 bp):
TGGCAAATTCTCTAGAAAGCCTTTG
Found at i:51441767 original size:50 final size:50
Alignment explanation
Indices: 51441681--51441850 Score: 164
Period size: 50 Copynumber: 3.4 Consensus size: 50
51441671 TTATGGCAAT
* * * * * * **
51441681 TTCTTTGGAAAGTCTTTGTTGCAAATTCTCTAGAAAGATTTTGTGGAGAA
1 TTCTTTAGAAAGCCTTTGTGGGAAACTATCTAGAAAGCCTTTGTGGAGAA
* * *
51441731 TTCTTTAGAAAGCCTTTGTAGTG-AACTATCTGGAAAGCCTTTGTGGTGAA
1 TTCTTTAGAAAGCCTTTGT-GGGAAACTATCTAGAAAGCCTTTGTGGAGAA
* * * *
51441781 TTCTTTGGAAAACCTTTGTGGGAAACTCTCTAGAAAGCCTTTGTGCA-AA
1 TTCTTTAGAAAGCCTTTGTGGGAAACTATCTAGAAAGCCTTTGTGGAGAA
* *
51441830 CTCTCTAGAAAGCCTTTGTGG
1 TTCTTTAGAAAGCCTTTGTGG
51441851 CGAATTCTCT
Statistics
Matches: 96, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
49 21 0.22
50 75 0.78
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (50 bp):
TTCTTTAGAAAGCCTTTGTGGGAAACTATCTAGAAAGCCTTTGTGGAGAA
Found at i:51441941 original size:25 final size:24
Alignment explanation
Indices: 51441899--51442001 Score: 71
Period size: 25 Copynumber: 4.2 Consensus size: 24
51441889 AAATCCTTTG
* * *
51441899 TGGCATATCATTTGGAAAGTCTTCA
1 TGGCATATCATCTAGAAAGCCTT-A
51441924 TGGCATATCATCTAGAAAGCCTTA
1 TGGCATATCATCTAGAAAGCCTTA
** * *
51441948 TGGTGTGTCAACTAGAAAGCCTATA
1 TGGCATATCATCTAGAAAGCCT-TA
* ** * *
51441973 CGGCGGATCACCTGGAAAGCCTATA
1 TGGCATATCATCTAGAAAGCCT-TA
51441998 TGGC
1 TGGC
51442002 GAATTCTGTA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
24 19 0.30
25 44 0.70
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (24 bp):
TGGCATATCATCTAGAAAGCCTTA
Found at i:51458066 original size:32 final size:32
Alignment explanation
Indices: 51458025--51458089 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
51458015 TGCTCCTTCA
51458025 AGTGACAAAGTTTCCTCCTACAAGAGTACAAT
1 AGTGACAAAGTTTCCTCCTACAAGAGTACAAT
51458057 AGTGACAAAGTTTCCTCCTACAAGAGTACAAT
1 AGTGACAAAGTTTCCTCCTACAAGAGTACAAT
51458089 A
1 A
51458090 ACTCGTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (32 bp):
AGTGACAAAGTTTCCTCCTACAAGAGTACAAT
Found at i:51463150 original size:41 final size:41
Alignment explanation
Indices: 51463105--51463203 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 41
51463095 TTATATAGTG
*
51463105 GCGTTTTTCATATAAACACCACAAAAGGTAAAGCAATAGCA
1 GCGTTTTTCACATAAACACCACAAAAGGTAAAGCAATAGCA
* * * ** * *
51463146 GCGTTTTACCCATTAACGTCACAAAAGGTAAAGTAATAGTA
1 GCGTTTTTCACATAAACACCACAAAAGGTAAAGCAATAGCA
* *
51463187 GTGTTTTTCCCATAAAC
1 GCGTTTTTCACATAAAC
51463204 GCCATGAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (41 bp):
GCGTTTTTCACATAAACACCACAAAAGGTAAAGCAATAGCA
Found at i:51473073 original size:21 final size:21
Alignment explanation
Indices: 51473044--51473096 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
51473034 CTACAACTTA
* *
51473044 AAGCGGAGGCAGTAGCGAGGG
1 AAGCAGAGGCAGTAGCAAGGG
51473065 AAGCAGAGGCAGTAGCAAGGG
1 AAGCAGAGGCAGTAGCAAGGG
*
51473086 TAGCAGAGGCA
1 AAGCAGAGGCA
51473097 ACAAGAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.45, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCAGTAGCAAGGG
Found at i:51473640 original size:43 final size:43
Alignment explanation
Indices: 51473538--51473664 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 43
51473528 AACTTTCTTA
* * * * *
51473538 CGACGTTTGTAA-AAAAACGTTGCTAAAAATCATGTTCTTTAT
1 CGACATTTGTAAGAAAAGCGTTGCTAAAGATCATGTTCTATAC
* * *
51473580 CGGCGTTTGTAATAAAAGCGTTGCTAAAGATCATGTTCTATAC
1 CGACATTTGTAAGAAAAGCGTTGCTAAAGATCATGTTCTATAC
* * ***
51473623 CGACATTTTTAGGAAAAGCGCCACTAAAGATCATGTTCTATA
1 CGACATTTGTAAGAAAAGCGTTGCTAAAGATCATGTTCTATA
51473665 GTGGTGTTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 11 0.15
43 60 0.85
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (43 bp):
CGACATTTGTAAGAAAAGCGTTGCTAAAGATCATGTTCTATAC
Found at i:51478518 original size:24 final size:24
Alignment explanation
Indices: 51478491--51478546 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
51478481 GCCAAGGAGT
*
51478491 CCACTCAAGTTGCTACTAAAGCAC
1 CCACTCAACTTGCTACTAAAGCAC
* * *
51478515 CCACTCAACTTGCTGCTGAGGCAC
1 CCACTCAACTTGCTACTAAAGCAC
*
51478539 CTACTCAA
1 CCACTCAA
51478547 ACTGCTAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (24 bp):
CCACTCAACTTGCTACTAAAGCAC
Found at i:51484698 original size:28 final size:28
Alignment explanation
Indices: 51484658--51484715 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
51484648 TCATTTGATC
51484658 CTTGGTTTAATATCCATTTAAGACATTG
1 CTTGGTTTAATATCCATTTAAGACATTG
51484686 CTTGGTTTAATATCCATTTAAGACATTG
1 CTTGGTTTAATATCCATTTAAGACATTG
51484714 CT
1 CT
51484716 CAATTCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (28 bp):
CTTGGTTTAATATCCATTTAAGACATTG
Found at i:51486078 original size:27 final size:26
Alignment explanation
Indices: 51486036--51486092 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
51486026 TAATTTTTTT
* *
51486036 AACCTGAACTTTAAATCTCAAACCCTG
1 AACCTGAACATCAAAT-TCAAACCCTG
*
51486063 AACCTGAACATCAAATTTAAACCCTG
1 AACCTGAACATCAAATTCAAACCCTG
51486089 AACC
1 AACC
51486093 AAAAGGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.40, C:0.30, G:0.07, T:0.23
Consensus pattern (26 bp):
AACCTGAACATCAAATTCAAACCCTG
Found at i:51486152 original size:20 final size:19
Alignment explanation
Indices: 51486129--51486177 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
51486119 TTAAGGTTCA
51486129 AGGTTT-GGATTCAAAGTTTG
1 AGGTTTAGGA-TCAAA-TTTG
51486149 AGGTTTAAGGATCAAATTTG
1 AGGTTT-AGGATCAAATTTG
51486169 AGGTTTAGG
1 AGGTTTAGG
51486178 GTTTAAGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
21 5 0.19
22 3 0.11
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.37
Consensus pattern (19 bp):
AGGTTTAGGATCAAATTTG
Found at i:51488621 original size:17 final size:17
Alignment explanation
Indices: 51488601--51488635 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
51488591 TAGTAGCTAA
51488601 AATGCTATAGTACAAGG
1 AATGCTATAGTACAAGG
51488618 AATGCTATAGTACAAGG
1 AATGCTATAGTACAAGG
51488635 A
1 A
51488636 CTAAGTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (17 bp):
AATGCTATAGTACAAGG
Found at i:51495135 original size:26 final size:26
Alignment explanation
Indices: 51495106--51495182 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
51495096 AAATATACTG
* *
51495106 TACTGGTAGCTTTGCTGCGATATTGT
1 TACTGGCAGCTTTGCTGCAATATTGT
* *
51495132 TACTGGCAGCTTTGCTGCAATACTAT
1 TACTGGCAGCTTTGCTGCAATATTGT
*
51495158 TATTGGCAGCTTTGCTGCAATATTG
1 TACTGGCAGCTTTGCTGCAATATTG
51495183 GTGTGTTGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.39
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCAATATTGT
Found at i:51497999 original size:27 final size:27
Alignment explanation
Indices: 51497956--51498086 Score: 136
Period size: 27 Copynumber: 4.9 Consensus size: 27
51497946 GGCATTTTGT
* *
51497956 TAGCCTTTTTGACGAACTCTGAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
* * * *
51497983 TAGTCTTTATGGTGAACTTTGAAAAAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
*** * * *
51498010 TATTATTTGTGGCGAGCTTTGAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
*
51498037 TAGCCTTTATGGCAAACTCTGAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
*
51498064 TAGCCTTTGTGGCGAACTCTGAA
1 TAGCCTTTATGGCGAACTCTGAA
51498087 TGGACTAACT
Statistics
Matches: 83, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (27 bp):
TAGCCTTTATGGCGAACTCTGAAAGAA
Found at i:51498073 original size:54 final size:54
Alignment explanation
Indices: 51497956--51498086 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
51497946 GGCATTTTGT
* * * ** *
51497956 TAGCCTTTTTGACGAACTCTGAAAGAATAGTCTTTATGGTGAACTTTGAAAAAA
1 TAGCCTTTGTGGCGAACTCTGAAAGAATAGCCTTTATGGCAAACTCTGAAAAAA
*** * * *
51498010 TATTATTTGTGGCGAGCTTTGAAAGAATAGCCTTTATGGCAAACTCTGAAAGAA
1 TAGCCTTTGTGGCGAACTCTGAAAGAATAGCCTTTATGGCAAACTCTGAAAAAA
51498064 TAGCCTTTGTGGCGAACTCTGAA
1 TAGCCTTTGTGGCGAACTCTGAA
51498087 TGGACTAACT
Statistics
Matches: 60, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (54 bp):
TAGCCTTTGTGGCGAACTCTGAAAGAATAGCCTTTATGGCAAACTCTGAAAAAA
Found at i:51501424 original size:30 final size:30
Alignment explanation
Indices: 51501383--51501452 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
51501373 TCGATTATGT
* *
51501383 AAAGGAAGGTGACGACCAGCCAACTATTAA
1 AAAGGATGGTGACGACCAGCCAACTATGAA
* * * *
51501413 AAGGGATGGTGACTACCATCGAACTATGAA
1 AAAGGATGGTGACGACCAGCCAACTATGAA
51501443 AAAGGATGGT
1 AAAGGATGGT
51501453 TTCGGCTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.27, T:0.17
Consensus pattern (30 bp):
AAAGGATGGTGACGACCAGCCAACTATGAA
Found at i:51501467 original size:30 final size:30
Alignment explanation
Indices: 51501433--51501571 Score: 104
Period size: 30 Copynumber: 4.6 Consensus size: 30
51501423 GACTACCATC
*
51501433 GAACTATGAAAAAGGATGGTTTCGGCTATT
1 GAACTATGAAAAAGGATGGCTTCGGCTATT
** **
51501463 GAACTATG-AAAAGAGATAACTTCAACTATT
1 GAACTATGAAAAAG-GATGGCTTCGGCTATT
* *
51501493 -AATTTATGAAAAGGGATGGCTTCGGCTA-T
1 GAA-CTATGAAAAAGGATGGCTTCGGCTATT
* * * *
51501522 CAATCTATGAAAAAGGATAGCTTCAGCTATC
1 GAA-CTATGAAAAAGGATGGCTTCGGCTATT
* * *
51501553 AAATTATGAAAAGGGATGG
1 GAACTATGAAAAAGGATGG
51501572 TGACGACCAT
Statistics
Matches: 84, Mismatches: 20, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
29 8 0.10
30 70 0.83
31 6 0.07
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (30 bp):
GAACTATGAAAAAGGATGGCTTCGGCTATT
Found at i:51501501 original size:60 final size:61
Alignment explanation
Indices: 51501437--51501663 Score: 198
Period size: 60 Copynumber: 3.8 Consensus size: 61
51501427 ACCATCGAAC
* * *
51501437 TATGAAAAAGGATGGTTTCGGCTATTGAACTATGAAAAGA-GATAACTTCAACTATTAATT
1 TATGAAAAGGGATGGTTTCGGCTATTGAACTATGAAAAGAGGATAACTTCAACTATCAAAT
* * * *
51501497 TATGAAAAGGGATGGCTTCGGCTA-TCAATCTATGAAAA-AGGATAGCTTCAGCTATCAAAT
1 TATGAAAAGGGATGGTTTCGGCTATTGAA-CTATGAAAAGAGGATAACTTCAACTATCAAAT
** * * * ** * *
51501557 TATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAG-GGAT-GGTGACGACTATCAAAT
1 TATGAAAAGGGATGGTTTCGGCTATTGAACTATGAAAAGAGGATAACT-TCAACTATCAAAT
* * * * *
51501617 TATGAAAAGGGATAGCTTCGCCCATCGAACTATG-AAAG-GGATAACTT
1 TATGAAAAGGGATGGTTTCGGCTATTGAACTATGAAAAGAGGATAACTT
51501664 TGGTTATCGA
Statistics
Matches: 135, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
59 14 0.10
60 119 0.88
61 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (61 bp):
TATGAAAAGGGATGGTTTCGGCTATTGAACTATGAAAAGAGGATAACTTCAACTATCAAAT
Found at i:51501591 original size:30 final size:30
Alignment explanation
Indices: 51501557--51501658 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
51501547 GCTATCAAAT
51501557 TATGAAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
* * *
51501587 TATGAAAAGGGATGGTGACGACTATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCGAAC
* * *
51501617 TATGAAAAGGGATAGCT-TCGCCCATCGAAC
1 TATGAAAAGGGAT-GGTGACGACCATCGAAC
51501647 TATG-AAAGGGAT
1 TATGAAAAGGGAT
51501659 AACTTTGGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 8 0.13
30 52 0.84
31 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCGAAC
Found at i:51501651 original size:90 final size:89
Alignment explanation
Indices: 51501353--51501658 Score: 255
Period size: 90 Copynumber: 3.4 Consensus size: 89
51501343 TCAACGAATG
* * * * *
51501353 AAAAGGAATAGCTTCGGCTATCG-ATTATGTAAA-GGAAGGTGACGACCAGCCAACTATTAAAAG
1 AAAAGG-ATAGCTTCGGCTATCGAACTATGAAAAGGGATGGTGACGACCATCCAACTATGAAAAG
* * *
51501416 GGATGGTGACTACCATCGAACTATGA
65 GGATGGTGACGACTATC-AATTATGA
* * * * ** * * * * *
51501442 AAAAGGATGGTTTCGGCTATTGAACTATGAAAAGAGATAACT-TCAACTAT-TAATTTATGAAAA
1 AAAAGGATAGCTTCGGCTATCGAACTATGAAAAGGGAT-GGTGACGACCATCCAA-CTATGAAAA
* *
51501505 GGGATGGCT-TCGGCTATCAATCTATGA
64 GGGATGG-TGACGACTATCAAT-TATGA
* * * *
51501532 AAAAGGATAGCTTCAGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGG
1 AAAAGGATAGCTTCGGCTATCGAACTATGAAAAGGGATGGTGACGACCATCCAACTATGAAAAGG
51501597 GATGGTGACGACTATCAAATTATGA
66 GATGGTGACGACTATC-AATTATGA
* * *
51501622 AAAGGGATAGCTTCGCCCATCGAACTATG-AAAGGGAT
1 AAAAGGATAGCTTCGGCTATCGAACTATGAAAAGGGAT
51501659 AACTTTGGTT
Statistics
Matches: 164, Mismatches: 43, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
88 13 0.08
89 28 0.17
90 116 0.71
91 7 0.04
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (89 bp):
AAAAGGATAGCTTCGGCTATCGAACTATGAAAAGGGATGGTGACGACCATCCAACTATGAAAAGG
GATGGTGACGACTATCAATTATGA
Found at i:51512090 original size:41 final size:41
Alignment explanation
Indices: 51512033--51512110 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
51512023 AATTGAGTTG
*
51512033 TTATGGCGGTGTATTGTATTGGGCCTTG-GACCTAGCAAGCT
1 TTATGGCGGTGTATTGTATAGGGCCTTGAG-CCTAGCAAGCT
* *
51512074 TTATGTCGGTGTATTGTGTAGGGCCTTGAGCCTAGCA
1 TTATGGCGGTGTATTGTATAGGGCCTTGAGCCTAGCA
51512111 GGCCTCGTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.35
Consensus pattern (41 bp):
TTATGGCGGTGTATTGTATAGGGCCTTGAGCCTAGCAAGCT
Found at i:51512143 original size:38 final size:38
Alignment explanation
Indices: 51512099--51512233 Score: 128
Period size: 38 Copynumber: 3.5 Consensus size: 38
51512089 GTGTAGGGCC
* *
51512099 TTGAGCCTAGCAGGCCTCGTACCAGTGTTTATCAGGCT
1 TTGAGCCTAGCAGGCTTCGTACCAGTGTTAATCAGGCT
* * * * ** *
51512137 TTGAGCCTAGCAAGCTTCATGCTAGTGACCAATCGGGCT
1 TTGAGCCTAGCAGGCTTCGTACCAGTG-TTAATCAGGCT
* * * *
51512176 TTGAGCCTAGTAGGCTTCGTACCAATGTTCATCTGGC-
1 TTGAGCCTAGCAGGCTTCGTACCAGTGTTAATCAGGCT
51512213 TTGATGCCTAGCAGGCTTCGT
1 TTGA-GCCTAGCAGGCTTCGT
51512234 GCTGGTGTAA
Statistics
Matches: 75, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
37 4 0.05
38 43 0.57
39 28 0.37
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (38 bp):
TTGAGCCTAGCAGGCTTCGTACCAGTGTTAATCAGGCT
Found at i:51512196 original size:77 final size:77
Alignment explanation
Indices: 51512094--51512236 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 77
51512084 GTATTGTGTA
* *
51512094 GGGCCTTGAGCCTAGCAGGCCTCGTACCAGTGTTTATCAGGCTTTGA-GCCTAGCAAGCTTCATG
1 GGGCCTTGAGCCTAGCAGGCCTCGTACCAATGTTCATCAGGC-TTGATGCCTAGCAAGCTTCATG
51512158 CTAGTGACCAATC
65 CTAGTGACCAATC
* * * * * *
51512171 GGGCTTTGAGCCTAGTAGGCTTCGTACCAATGTTCATCTGGCTTGATGCCTAGCAGGCTTCGTGC
1 GGGCCTTGAGCCTAGCAGGCCTCGTACCAATGTTCATCAGGCTTGATGCCTAGCAAGCTTCATGC
51512236 T
66 T
51512237 GGTGTAACGA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 4 0.07
77 53 0.93
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (77 bp):
GGGCCTTGAGCCTAGCAGGCCTCGTACCAATGTTCATCAGGCTTGATGCCTAGCAAGCTTCATGC
TAGTGACCAATC
Found at i:51515821 original size:27 final size:27
Alignment explanation
Indices: 51515783--51515853 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
51515773 CAGAACAACC
* * *
51515783 ACTATGCAAACAAGTCATTATGTATCG
1 ACTAAGCAAACAAGTCATTATGCATCA
51515810 ACTAAGCAAACAAGTCATTATGCATCA
1 ACTAAGCAAACAAGTCATTATGCATCA
*
51515837 ACTAAGCAAACATGTCA
1 ACTAAGCAAACAAGTCA
51515854 CATATTCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (27 bp):
ACTAAGCAAACAAGTCATTATGCATCA
Found at i:51516415 original size:35 final size:36
Alignment explanation
Indices: 51516372--51516447 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 36
51516362 TATTCACTGT
* * *
51516372 ATATTTACTGTTC-CATGGTATGAA-AACATACCCAC
1 ATATTTACT-ATCACATGGCATGAATAACATACCAAC
*
51516407 ATATTTACTATCACATGGCATGAATATCATACCAAC
1 ATATTTACTATCACATGGCATGAATAACATACCAAC
51516443 ATATT
1 ATATT
51516448 CTCTTTCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 2 0.06
35 19 0.54
36 14 0.40
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (36 bp):
ATATTTACTATCACATGGCATGAATAACATACCAAC
Found at i:51520637 original size:13 final size:13
Alignment explanation
Indices: 51520628--51520663 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
51520618 TCATTTCGTA
51520628 TAACCATTTCATC
1 TAACCATTTCATC
*
51520641 TAAACATTTCATC
1 TAACCATTTCATC
*
51520654 TTACCATTTC
1 TAACCATTTC
51520664 GTTTACACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.42
Consensus pattern (13 bp):
TAACCATTTCATC
Found at i:51536642 original size:34 final size:34
Alignment explanation
Indices: 51536604--51536670 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
51536594 TCAACCACAT
* *
51536604 AATAACTCATCATTTGCACCACACTCAGCCATAG
1 AATAACGCATCATTTGCACAACACTCAGCCATAG
* *
51536638 AATAACGCATCATTTGTACAACACTCGGCCATA
1 AATAACGCATCATTTGCACAACACTCAGCCATA
51536671 CATACCTAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.36, C:0.30, G:0.10, T:0.24
Consensus pattern (34 bp):
AATAACGCATCATTTGCACAACACTCAGCCATAG
Found at i:51542284 original size:16 final size:17
Alignment explanation
Indices: 51542263--51542295 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51542253 GTGTTGCAAC
51542263 TTTC-TTTTTCTTTTTT
1 TTTCTTTTTTCTTTTTT
51542279 TTTCTTTTTTCTTTTTT
1 TTTCTTTTTTCTTTTTT
51542296 GGAATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTCTTTTTTCTTTTTT
Found at i:51552416 original size:24 final size:25
Alignment explanation
Indices: 51552381--51552470 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 25
51552371 GTACATGTAT
51552381 GCTCATACGAGCT--ATAAACGGTAA
1 GCTCATACGAGCTGAAT-AACGGTAA
*
51552405 GCTCAT-CTGAGCTGAATAATGGTAA
1 GCTCATAC-GAGCTGAATAACGGTAA
* * *
51552430 GCTCATGCAAGCT-AAGTATCGGTAA
1 GCTCATACGAGCTGAA-TAACGGTAA
* *
51552455 CCTCATAAGAGCTGAA
1 GCTCATACGAGCTGAA
51552471 ATCGGTAGCC
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
23 1 0.02
24 13 0.25
25 33 0.63
26 5 0.10
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:51555287 original size:23 final size:23
Alignment explanation
Indices: 51555255--51555403 Score: 154
Period size: 23 Copynumber: 6.5 Consensus size: 23
51555245 CTCAAGGGCA
* * * *
51555255 TTACAAAATATGCTACAGAGCCT
1 TTACAGAATATGCCACAAAGGCT
**
51555278 TTACAGAATACACCACAAAGGCT
1 TTACAGAATATGCCACAAAGGCT
* * *
51555301 TAACAGAACATGCCACAAAGGAT
1 TTACAGAATATGCCACAAAGGCT
51555324 TTACAGAATATGCCACAAAGGCT
1 TTACAGAATATGCCACAAAGGCT
* *
51555347 TAACAGTATATGCCACAAAGGCT
1 TTACAGAATATGCCACAAAGGCT
* * *
51555370 GTATAGAATGTGCCACAAAGGCT
1 TTACAGAATATGCCACAAAGGCT
* *
51555393 TAATAGAATAT
1 TTACAGAATAT
51555404 TACATGTTTA
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 102 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (23 bp):
TTACAGAATATGCCACAAAGGCT
Found at i:51557183 original size:17 final size:16
Alignment explanation
Indices: 51557142--51557174 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51557132 CATGGATATT
*
51557142 ACCTTTCGTGAAAACC
1 ACCTTTCTTGAAAACC
51557158 ACCTTTCTTGAAAACC
1 ACCTTTCTTGAAAACC
51557174 A
1 A
51557175 ATCTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.27
Consensus pattern (16 bp):
ACCTTTCTTGAAAACC
Found at i:51560084 original size:17 final size:17
Alignment explanation
Indices: 51560043--51560085 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
51560033 ATTAGGTTAA
* *
51560043 TTTAGGTTAAGTAATTT
1 TTTAGTTTAAGTAATAT
*
51560060 TCTTAGTTTAATTAATAT
1 T-TTAGTTTAAGTAATAT
51560078 TTTAGTTT
1 TTTAGTTT
51560086 GGATTCACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (17 bp):
TTTAGTTTAAGTAATAT
Found at i:51567431 original size:4 final size:4
Alignment explanation
Indices: 51567422--51567453 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
51567412 TGATACCTAC
51567422 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
51567454 GAAAAGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:51575396 original size:18 final size:20
Alignment explanation
Indices: 51575368--51575404 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
51575358 GATAAATATA
51575368 TACATTATAAA-AAAATAAT
1 TACATTATAAATAAAATAAT
51575387 TACA-TATAAATAAAATAA
1 TACATTATAAATAAAATAA
51575405 AATAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
TACATTATAAATAAAATAAT
Found at i:51575414 original size:30 final size:28
Alignment explanation
Indices: 51575378--51575438 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
51575368 TACATTATAA
51575378 AAAAATAATTACATATAAATAAAATAAAAT
1 AAAAATAATTACAT-TAAATAAAA-AAAAT
* *
51575408 AAAAATAATTACATTATATTAAAAAAAT
1 AAAAATAATTACATTAAATAAAAAAAAT
51575436 AAA
1 AAA
51575439 TATGCGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.28
29 7 0.24
30 14 0.48
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAATAATTACATTAAATAAAAAAAAT
Found at i:51575542 original size:17 final size:17
Alignment explanation
Indices: 51575509--51575546 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
51575499 ATTAAATATG
51575509 AAAAATAAAAATTAATAA
1 AAAAATAAAAA-TAATAA
51575527 AAAAATAAAGAA-AATAA
1 AAAAATAAA-AATAATAA
51575544 AAA
1 AAA
51575547 GGACTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 9 0.47
19 2 0.11
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAATAATAA
Found at i:51579658 original size:14 final size:14
Alignment explanation
Indices: 51579639--51579676 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
51579629 GTGGTTCGAC
51579639 ATAACCTTTCTATG
1 ATAACCTTTCTATG
51579653 ATAACCTTTCTATG
1 ATAACCTTTCTATG
*
51579667 ATAACTTTTC
1 ATAACCTTTC
51579677 ATGTATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (14 bp):
ATAACCTTTCTATG
Found at i:51598612 original size:7 final size:7
Alignment explanation
Indices: 51598600--51598628 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
51598590 AGTGAGCCAT
51598600 TTATTGA
1 TTATTGA
51598607 TTATTGA
1 TTATTGA
51598614 TTATTGA
1 TTATTGA
51598621 TTATTGA
1 TTATTGA
51598628 T
1 T
51598629 CATAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (7 bp):
TTATTGA
Found at i:51600854 original size:25 final size:26
Alignment explanation
Indices: 51600818--51600866 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
51600808 AAATTAAAAT
**
51600818 ATATATATAATTTTTAAAAAAATAAA
1 ATATATATAATTAGTAAAAAAATAAA
51600844 ATATATA-AATTAGTAAAAAAATA
1 ATATATATAATTAGTAAAAAAATA
51600867 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
ATATATATAATTAGTAAAAAAATAAA
Found at i:51601024 original size:15 final size:14
Alignment explanation
Indices: 51601004--51601037 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51600994 AATTCATAAA
51601004 ATTTTAGTTCTTTAT
1 ATTTTA-TTCTTTAT
*
51601019 ATTTTATTTTTTAT
1 ATTTTATTCTTTAT
51601033 ATTTT
1 ATTTT
51601038 TAATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (14 bp):
ATTTTATTCTTTAT
Found at i:51601033 original size:14 final size:14
Alignment explanation
Indices: 51601004--51601054 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
51600994 AATTCATAAA
*
51601004 ATTTTAGTTCTTTAT
1 ATTTTA-TTTTTTAT
51601019 ATTTTATTTTTTAT
1 ATTTTATTTTTTAT
51601033 ATTTTTAATTTTTATAT
1 A-TTTT-ATTTTT-TAT
51601050 ATTTT
1 ATTTT
51601055 TTAAAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 8 0.25
15 10 0.31
16 10 0.31
17 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (14 bp):
ATTTTATTTTTTAT
Found at i:51601038 original size:15 final size:16
Alignment explanation
Indices: 51601014--51601055 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
51601004 ATTTTAGTTC
51601014 TTTATA-TTTT-ATTT
1 TTTATATTTTTAATTT
51601028 TTTATATTTTTAATTT
1 TTTATATTTTTAATTT
51601044 TTATATATTTTT
1 TT-TATATTTTT
51601056 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.24
15 4 0.16
16 6 0.24
17 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATATTTTTAATTT
Found at i:51604592 original size:34 final size:34
Alignment explanation
Indices: 51604515--51604596 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
51604505 TTTTATGTAT
* * *
51604515 ATGTATGTAAAAATTATGTATTTAAAATATAGAG
1 ATGTATTTAAAAATTAAGTATTTAAAATACAGAG
* *
51604549 GTGTGTTTAAAAATTAAGTATTTAAAATACATG-G
1 ATGTATTTAAAAATTAAGTATTTAAAATACA-GAG
51604583 ATGTATTTAAAAAT
1 ATGTATTTAAAAAT
51604597 AACACATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 39 0.98
35 1 0.03
ACGTcount: A:0.45, C:0.01, G:0.15, T:0.39
Consensus pattern (34 bp):
ATGTATTTAAAAATTAAGTATTTAAAATACAGAG
Found at i:51605684 original size:67 final size:70
Alignment explanation
Indices: 51605596--51605728 Score: 182
Period size: 70 Copynumber: 1.9 Consensus size: 70
51605586 ATACACAATA
* **
51605596 TAATGGTTTTGCCTTTCAAC-TTA-ATGA-GTAAACATTTATCAAAACAACGTAATTTTGCCTTT
1 TAATGGTTTTGACTTTCAACTTTAGAAAAGGTAAACATTTATCAAAACAACGTAATTTTGCCTTT
51605658 TAACT
66 TAACT
* * * *
51605663 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAGCATTTATCAAAACGACGTAGTTTTGCCTTT
1 TAATGGTTTTGACTTTCAACTTTAGAAAAGGTAAACATTTATCAAAACAACGTAATTTTGCCTTT
51605728 T
66 T
51605729 CTTATTCGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 18 0.32
68 3 0.05
69 2 0.04
70 33 0.59
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (70 bp):
TAATGGTTTTGACTTTCAACTTTAGAAAAGGTAAACATTTATCAAAACAACGTAATTTTGCCTTT
TAACT
Found at i:51619890 original size:20 final size:20
Alignment explanation
Indices: 51619857--51619904 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
51619847 TTTAGCTTGG
* * *
51619857 TTCAGCTTAGATGAGTTTAA
1 TTCAGCTCACATGAGCTTAA
*
51619877 TTTAGCTCACATGAGCTTAA
1 TTCAGCTCACATGAGCTTAA
51619897 TTCAGCTC
1 TTCAGCTC
51619905 GTTTGAGCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (20 bp):
TTCAGCTCACATGAGCTTAA
Found at i:51621505 original size:10 final size:10
Alignment explanation
Indices: 51621490--51621527 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
51621480 AGCCATTGTG
51621490 AAAAAAATTC
1 AAAAAAATTC
51621500 AAAAAAATTC
1 AAAAAAATTC
51621510 AAAAAAAATTC
1 -AAAAAAATTC
51621521 AAAAAAA
1 AAAAAAA
51621528 GAGTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:51621506 original size:11 final size:11
Alignment explanation
Indices: 51621490--51621527 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
51621480 AGCCATTGTG
51621490 AAAAAAATTC-
1 AAAAAAATTCA
51621500 AAAAAAATTCA
1 AAAAAAATTCA
51621511 AAAAAAATTCA
1 AAAAAAATTCA
51621522 AAAAAA
1 AAAAAA
51621528 GAGTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:51622653 original size:36 final size:36
Alignment explanation
Indices: 51622606--51622712 Score: 153
Period size: 36 Copynumber: 2.9 Consensus size: 36
51622596 AGAAATGAAA
*
51622606 GAAAAAAAAGATGAGTGTGAGAATGAAAAGAAAATT
1 GAAAAAGAAGATGAGTGTGAGAATGAAAAGAAAATT
*
51622642 GAAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATT
1 GAAAAAGAAGATGAGTGTGAGAATGAAAAGAAAATT
* *
51622678 GAAAAAGAAGGTGAGTTTGGAGAAATG-AAAGAAAA
1 GAAAAAGAAGATGAGTGT-GAG-AATGAAAAGAAAA
51622713 CGACATTGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
36 50 0.78
37 11 0.17
38 3 0.05
ACGTcount: A:0.56, C:0.01, G:0.28, T:0.15
Consensus pattern (36 bp):
GAAAAAGAAGATGAGTGTGAGAATGAAAAGAAAATT
Found at i:51622728 original size:18 final size:18
Alignment explanation
Indices: 51622705--51622762 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
51622695 TGGAGAAATG
* *
51622705 AAAGAAAACGACATTGAA
1 AAAGAAAAAGAAATTGAA
*
51622723 AAAGAAAAAGAAATTGCA
1 AAAGAAAAAGAAATTGAA
*
51622741 AAAGAAAAGGAAATTGAA
1 AAAGAAAAAGAAATTGAA
51622759 AAAG
1 AAAG
51622763 CGAGTGAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.66, C:0.05, G:0.19, T:0.10
Consensus pattern (18 bp):
AAAGAAAAAGAAATTGAA
Found at i:51622799 original size:29 final size:29
Alignment explanation
Indices: 51622726--51622805 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
51622716 CATTGAAAAA
51622726 GAAAAAGAAATTGCAAAAGAAAAGGAAATT
1 GAAAAAGAAATTG-AAAAGAAAAGGAAATT
** * *
51622756 GAAAAAGCGAGTGAAAAGGAAAA-GAGATT
1 GAAAAAGAAATTGAAAA-GAAAAGGAAATT
51622785 GAAAAAGAAATTGAAAGAGAA
1 GAAAAAGAAATTGAAA-AGAA
51622806 GAAAAAGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
29 25 0.61
30 16 0.39
ACGTcount: A:0.61, C:0.03, G:0.25, T:0.11
Consensus pattern (29 bp):
GAAAAAGAAATTGAAAAGAAAAGGAAATT
Found at i:51628392 original size:16 final size:16
Alignment explanation
Indices: 51628371--51628401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51628361 CCACATTACC
51628371 AAAAATAAAAAATTTA
1 AAAAATAAAAAATTTA
*
51628387 AAAAATAAAATATTT
1 AAAAATAAAAAATTT
51628402 TTAAATAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATAAAAAATTTA
Found at i:51630414 original size:23 final size:23
Alignment explanation
Indices: 51630384--51630429 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
51630374 TCCACTTTTC
51630384 TCACCAACCAAATAAAAGTCAAA
1 TCACCAACCAAATAAAAGTCAAA
51630407 TCACCAACCAAATAAAAGTCAAA
1 TCACCAACCAAATAAAAGTCAAA
51630430 AATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.26, G:0.04, T:0.13
Consensus pattern (23 bp):
TCACCAACCAAATAAAAGTCAAA
Found at i:51636600 original size:16 final size:16
Alignment explanation
Indices: 51636579--51636646 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
51636569 GATTAGCTAT
*
51636579 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
51636595 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51636611 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51636627 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51636643 TACA
1 TACA
51636647 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:51648896 original size:5 final size:6
Alignment explanation
Indices: 51648844--51648877 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
51648834 TAAATCAATC
* *
51648844 AATATA TATTTA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATATA AATA
51648878 CAATACAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AATATA
Found at i:51655315 original size:38 final size:38
Alignment explanation
Indices: 51655260--51655500 Score: 347
Period size: 38 Copynumber: 6.3 Consensus size: 38
51655250 AATTGTACTA
*
51655260 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
**
51655298 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCACTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
* * *
51655336 TTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
*
51655374 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTTGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
* * * * * *
51655412 TTATTCAAGCTTTGTGCCTAGTAGGTTTAGTTTCAGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
*
51655450 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
*
51655488 TTATTCAGACTTA
1 TTATTCAGGCTTA
51655501 TTGCTGGTGT
Statistics
Matches: 176, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 176 1.00
ACGTcount: A:0.17, C:0.18, G:0.28, T:0.37
Consensus pattern (38 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
Found at i:51655324 original size:16 final size:16
Alignment explanation
Indices: 51655303--51655405 Score: 62
Period size: 16 Copynumber: 5.7 Consensus size: 16
51655293 CGGTGTTATT
51655303 CAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCTAG
*
51655319 CAGGCTTAGTGTCACTGTTATT
1 CAGGCTTAGTG-C-C---TA-G
*
51655341 CAGGCTTTGTGCCTAG
1 CAGGCTTAGTGCCTAG
* *
51655357 TAGGCTTAGTGCCGGTGTTATT
1 CAGGCTTAGTGCC-----TA-G
51655379 CAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCTAG
51655395 CAGGCTTAGTG
1 CAGGCTTAGTG
51655406 TTGGTGTTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
16 33 0.49
17 5 0.07
18 1 0.01
20 1 0.01
21 5 0.07
22 22 0.33
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (16 bp):
CAGGCTTAGTGCCTAG
Found at i:51655386 original size:76 final size:76
Alignment explanation
Indices: 51655260--51655495 Score: 382
Period size: 76 Copynumber: 3.1 Consensus size: 76
51655250 AATTGTACTA
*
51655260 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
1 TTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
**
51655325 TAGTGTCACTG
66 TAGTGTCGGTG
*
51655336 TTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
1 TTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
*
51655401 TAGTGTTGGTG
66 TAGTGTCGGTG
* * * *
51655412 TTATTCAAGCTTTGTGCCTAGTAGGTTTAGTTTCAGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
1 TTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
*
51655477 TAGTGCCGGTG
66 TAGTGTCGGTG
51655488 TTATTCAG
1 TTATTCAG
51655496 ACTTATTGCT
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 147 1.00
ACGTcount: A:0.16, C:0.18, G:0.29, T:0.37
Consensus pattern (76 bp):
TTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
TAGTGTCGGTG
Found at i:51655390 original size:22 final size:20
Alignment explanation
Indices: 51655281--51655392 Score: 78
Period size: 22 Copynumber: 5.7 Consensus size: 20
51655271 TTGTGCCTAG
*
51655281 CAGGCTTAGTGTCGGTGTTATT
1 CAGGCTTAGTG-C-CTGTTATT
*
51655303 CAGGCTTAGTGCC---TA-G
1 CAGGCTTAGTGCCTGTTATT
51655319 CAGGCTTAGTGTCACTGTTATT
1 CAGGCTTAGTG-C-CTGTTATT
* *
51655341 CAGGCTTTGTGCC---TAGT
1 CAGGCTTAGTGCCTGTTATT
51655358 -AGGCTTAGTGCCGGTGTTATT
1 CAGGCTTAGTGCC--TGTTATT
51655379 CAGGCTTAGTGCCT
1 CAGGCTTAGTGCCT
51655393 AGCAGGCTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 26
0.68 0.07 0.25
Matches are distributed among these distances:
16 22 0.31
17 6 0.08
18 1 0.01
20 2 0.03
21 7 0.10
22 33 0.46
ACGTcount: A:0.15, C:0.20, G:0.29, T:0.36
Consensus pattern (20 bp):
CAGGCTTAGTGCCTGTTATT
Found at i:51655460 original size:114 final size:114
Alignment explanation
Indices: 51655260--51655500 Score: 383
Period size: 114 Copynumber: 2.1 Consensus size: 114
51655250 AATTGTACTA
* *
51655260 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCT
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAAGCTTAGTGCCTAGCAGGCT
* *
51655325 TAGTGTCACTGTTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGTG
66 TAGTGTCACTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
* * * *
51655374 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTTGGTGTTATTCAAGCTTTGTGCCTAGTAGGTT
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAAGCTTAGTGCCTAGCAGGCT
* *
51655439 TAGTTTCAGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
66 TAGTGTCACTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
*
51655488 TTATTCAGACTTA
1 TTATTCAGGCTTA
51655501 TTGCTGGTGT
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.17, C:0.18, G:0.28, T:0.37
Consensus pattern (114 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTGTTATTCAAGCTTAGTGCCTAGCAGGCT
TAGTGTCACTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
Found at i:51656431 original size:13 final size:13
Alignment explanation
Indices: 51656413--51656437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51656403 ATTTTGGGAC
51656413 AGTATGCATGTAT
1 AGTATGCATGTAT
51656426 AGTATGCATGTA
1 AGTATGCATGTA
51656438 CTATGAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
AGTATGCATGTAT
Found at i:51662200 original size:43 final size:42
Alignment explanation
Indices: 51662086--51662229 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 42
51662076 TGCCATATCT
* * *
51662086 CAGATATGGTCTTACATGTAATCTCGTATTGATGCCAATAGCC
1 CAGACATGGTCTTACAT-AAATCTCATATTGATGCCAATAGCC
* * * *
51662129 CAGCCATGGCCTTACACGAAATCACATATTGATGCCAAT-GTCC
1 CAGACATGGTCTTACA-TAAATCTCATATTGATGCCAATAG-CC
* * *
51662172 TAGACATGGTCTTACATAAAGTCTCATATCGATGCC-ATATCC
1 CAGACATGGTCTTACATAAA-TCTCATATTGATGCCAATAGCC
* *
51662214 CATATATGGTCTTACA
1 CAGACATGGTCTTACA
51662230 CGTAATCTCG
Statistics
Matches: 80, Mismatches: 17, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
42 21 0.26
43 59 0.74
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
CAGACATGGTCTTACATAAATCTCATATTGATGCCAATAGCC
Found at i:51668213 original size:34 final size:34
Alignment explanation
Indices: 51668175--51668244 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
51668165 GTTATTGTTT
51668175 TATACTAATGAAAATTAAGATTTACCGTTATAAA
1 TATACTAATGAAAATTAAGATTTACCGTTATAAA
51668209 TATACTAATGAAAATTAAGATTTACCGTTATAAA
1 TATACTAATGAAAATTAAGATTTACCGTTATAAA
51668243 TA
1 TA
51668245 ACATTAGACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (34 bp):
TATACTAATGAAAATTAAGATTTACCGTTATAAA
Found at i:51670132 original size:17 final size:17
Alignment explanation
Indices: 51670070--51670142 Score: 60
Period size: 16 Copynumber: 4.2 Consensus size: 17
51670060 TATTTTATAT
*
51670070 AAAATTATTTATAATTTTTT
1 AAAATT-TTT-TAA-TTTTA
**
51670090 AAAATTTTAAAATTTTA
1 AAAATTTTTTAATTTTA
**
51670107 ATGA-TTTTTAATTTTA
1 AAAATTTTTTAATTTTA
51670123 AAAATTTTTT-ATTTTA
1 AAAATTTTTTAATTTTA
51670139 AAAA
1 AAAA
51670143 ATTAATTAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
16 22 0.51
17 11 0.26
18 2 0.05
19 2 0.05
20 6 0.14
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (17 bp):
AAAATTTTTTAATTTTA
Found at i:51670145 original size:17 final size:16
Alignment explanation
Indices: 51670085--51670142 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
51670075 TATTTATAAT
* *
51670085 TTTTTAAAATTTTAAAA
1 TTTTAAAAATTTT-TAA
**
51670102 TTTTAATGATTTTTAA
1 TTTTAAAAATTTTTAA
*
51670118 TTTTAAAAATTTTTTA
1 TTTTAAAAATTTTTAA
51670134 TTTTAAAAA
1 TTTTAAAAA
51670143 ATTAATTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 24 0.71
17 10 0.29
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTTAAAAATTTTTAA
Found at i:51674581 original size:41 final size:40
Alignment explanation
Indices: 51674511--51674704 Score: 148
Period size: 41 Copynumber: 4.8 Consensus size: 40
51674501 AATGGTCAGG
* * *
51674511 GGTTTTAGTGGCGTTTTTAAT-CAACCGCCGCTAAAGTTAA
1 GGTTTTAGCGGCGTTTTT-ATGTAAGCGCCGCTAAAGTTAA
* *
51674551 GGTATTTAGCGGCGATTTCTT-TG-AAGCGCCGCGAATA-TT-T
1 GGT-TTTAGCGGCG-TTT-TTATGTAAGCGCCGCTAA-AGTTAA
* *
51674591 GGTCTTAGTCGGCGTTTTTATGTAAGCGACGCTAAAGTTAA
1 GGTTTTAG-CGGCGTTTTTATGTAAGCGCCGCTAAAGTTAA
* * * *
51674632 GATTTTTAGCGGCATTTTTATGATAAACGCCGCTAATGTTAA
1 G-GTTTTAGCGGCGTTTTTATG-TAAGCGCCGCTAAAGTTAA
* *
51674674 GGTTTTAGCGGTGTTTTTGT-TGAAGCGCCGC
1 GGTTTTAGCGGCGTTTTTATGT-AAGCGCCGC
51674705 AAAAAAATAT
Statistics
Matches: 122, Mismatches: 19, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
38 2 0.02
39 11 0.09
40 31 0.25
41 50 0.41
42 26 0.21
43 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (40 bp):
GGTTTTAGCGGCGTTTTTATGTAAGCGCCGCTAAAGTTAA
Found at i:51675506 original size:29 final size:29
Alignment explanation
Indices: 51675468--51675565 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
51675458 ATGATTATTA
* * *
51675468 GGGTTTGGGATATAAG-GTTTAGGGGTTAG
1 GGGTTAGGGAT-TAAGTGGTTAGGAGTTAG
*
51675497 GGGTTAGGGATTTAGTGGTTAGGAGTTAG
1 GGGTTAGGGATTAAGTGGTTAGGAGTTAG
* * * * *
51675526 GGGTTAAGAATTTAGGGGCTAGGAGATTTAG
1 GGGTTAGGGATTAAGTGGTTAGGAG--TTAG
51675557 GGGTTAGGG
1 GGGTTAGGG
51675566 GTTAGGGATT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 3 0.05
29 42 0.75
31 11 0.20
ACGTcount: A:0.22, C:0.01, G:0.45, T:0.32
Consensus pattern (29 bp):
GGGTTAGGGATTAAGTGGTTAGGAGTTAG
Found at i:51675510 original size:22 final size:22
Alignment explanation
Indices: 51675485--51675587 Score: 125
Period size: 22 Copynumber: 4.6 Consensus size: 22
51675475 GGATATAAGG
51675485 TTTAGGGGTTAGGGGTTAGGGA
1 TTTAGGGGTTAGGGGTTAGGGA
* * *
51675507 TTTAGTGGTTAGGAGTTAGGGG
1 TTTAGGGGTTAGGGGTTAGGGA
* *** *
51675529 TTAAGAATTTAGGGGCTAGGAGA
1 TTTAGGGGTTAGGGGTTAGG-GA
51675552 TTTAGGGGTTAGGGGTTAGGGA
1 TTTAGGGGTTAGGGGTTAGGGA
51675574 TTTAGGGGTTAGGG
1 TTTAGGGGTTAGGG
51675588 TGTCAATTAA
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
22 49 0.75
23 16 0.25
ACGTcount: A:0.21, C:0.01, G:0.46, T:0.32
Consensus pattern (22 bp):
TTTAGGGGTTAGGGGTTAGGGA
Found at i:51675580 original size:8 final size:7
Alignment explanation
Indices: 51675486--51675587 Score: 78
Period size: 7 Copynumber: 13.9 Consensus size: 7
51675476 GATATAAGGT
51675486 TTAGGGG
1 TTAGGGG
51675493 TTAGGGG
1 TTAGGGG
*
51675500 TTAGGGAT
1 TTAGGG-G
*
51675508 TTAGTGG
1 TTAGGGG
*
51675515 TTAGGAG
1 TTAGGGG
51675522 TTAGGGG
1 TTAGGGG
***
51675529 TTAAGAAT
1 TT-AGGGG
51675537 TTAGGGG
1 TTAGGGG
* *
51675544 CTAGGAGAT
1 TTAGG-G-G
51675553 TTAGGGG
1 TTAGGGG
51675560 TTAGGGG
1 TTAGGGG
*
51675567 TTAGGGAT
1 TTAGGG-G
51675575 TTAGGGG
1 TTAGGGG
51675582 TTAGGG
1 TTAGGG
51675588 TGTCAATTAA
Statistics
Matches: 72, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
7 51 0.71
8 17 0.24
9 4 0.06
ACGTcount: A:0.22, C:0.01, G:0.46, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:51675587 original size:15 final size:15
Alignment explanation
Indices: 51675493--51675565 Score: 85
Period size: 15 Copynumber: 4.9 Consensus size: 15
51675483 GGTTTAGGGG
51675493 TTAGGGGTTAGGGAT
1 TTAGGGGTTAGGGAT
* *
51675508 TTAGTGGTTA-GGAG
1 TTAGGGGTTAGGGAT
* *
51675522 TTAGGGGTTAAGAAT
1 TTAGGGGTTAGGGAT
*
51675537 TTAGGGGCTAGGAGAT
1 TTAGGGGTTAGG-GAT
51675553 TTAGGGGTTAGGG
1 TTAGGGGTTAGGG
51675566 GTTAGGGATT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
14 12 0.26
15 22 0.47
16 13 0.28
ACGTcount: A:0.23, C:0.01, G:0.44, T:0.32
Consensus pattern (15 bp):
TTAGGGGTTAGGGAT
Found at i:51676109 original size:21 final size:21
Alignment explanation
Indices: 51676085--51676130 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
51676075 GGATAGGATC
*
51676085 AAAATATATGAAA-AAATAAAA
1 AAAATATA-AAAAGAAATAAAA
51676106 AAAATATAAAAATGAAATAAAA
1 AAAATATAAAAA-GAAATAAAA
51676128 AAA
1 AAA
51676131 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 8 0.36
22 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAATATAAAAAGAAATAAAA
Found at i:51677801 original size:13 final size:15
Alignment explanation
Indices: 51677768--51677808 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
51677758 AATAATTTAA
51677768 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
51677784 ATAACTTACAT-T-C
1 ATAACTTACATATAC
51677797 ATAACTTACATA
1 ATAACTTACATA
51677809 AACGTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:51677939 original size:9 final size:9
Alignment explanation
Indices: 51677927--51678043 Score: 95
Period size: 9 Copynumber: 13.6 Consensus size: 9
51677917 ATACATAGCA
51677927 TACATAACT
1 TACATAACT
51677936 TACATAA--
1 TACATAACT
* *
51677943 TGCAAAACT
1 TACATAACT
51677952 TACATAACT
1 TACATAACT
* *
51677961 TAAATATCT
1 TACATAACT
*
51677970 TACACAACT
1 TACATAACT
*
51677979 TACATAACC
1 TACATAACT
51677988 TACATAA--
1 TACATAACT
51677995 TACATAACT
1 TACATAACT
*
51678004 TACATAATACA
1 TACAT-A-ACT
51678015 TA-ATAACT
1 TACATAACT
51678023 TAC--AACT
1 TACATAACT
*
51678030 TACATAACA
1 TACATAACT
51678039 TACAT
1 TACAT
51678044 TAATTTGGTA
Statistics
Matches: 85, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
7 19 0.22
8 4 0.05
9 55 0.65
10 3 0.04
11 4 0.05
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (9 bp):
TACATAACT
Found at i:51677992 original size:52 final size:51
Alignment explanation
Indices: 51677927--51678071 Score: 141
Period size: 52 Copynumber: 2.8 Consensus size: 51
51677917 ATACATAGCA
* * * *
51677927 TACATAACTTACATAATGCAAAACTTACAT-A-ACTTAAATATCTTACACAACT
1 TACATAACATACATAATACAAAACTTACATAATACAT-AATAACTT--ACAACT
* *
51677979 TACATAACCTACATAATACATAACTTACATAATACATAATAACTTACAACT
1 TACATAACATACATAATACAAAACTTACATAATACATAATAACTTACAACT
***
51678030 TACATAACATACATTAATTTGGTAAACTTACATAATACATAA
1 TACATAACATACA-TAA--TACAAAACTTACATAATACATAA
51678072 AAATATATCA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
51 18 0.23
52 30 0.38
53 8 0.10
54 22 0.28
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (51 bp):
TACATAACATACATAATACAAAACTTACATAATACATAATAACTTACAACT
Found at i:51678036 original size:16 final size:16
Alignment explanation
Indices: 51677732--51678017 Score: 123
Period size: 16 Copynumber: 17.4 Consensus size: 16
51677722 ACACATAGCA
* *
51677732 ACATGACTTATATAAT
1 ACATAACTTACATAAT
* *
51677748 ACACAACTTAAATAATTT
1 ACATAACTTACATAA--T
*
51677766 AAATAACTTACATAAT
1 ACATAACTTACATAAT
51677782 ACATAACTTACAT--T
1 ACATAACTTACATAAT
51677796 -CATAACTTACATAA-
1 ACATAACTTACATAAT
51677810 ACGTATATGTTACCTTACATAAT
1 AC--ATA----A-CTTACATAAT
*
51677833 ACATAACTTATATAAAATTTTT
1 ACATAACTTACAT--AA----T
*
51677855 ATATAAACTTACATAAT
1 ACAT-AACTTACATAAT
*
51677872 ACATTACTTACAT-AT
1 ACATAACTTACATAAT
*
51677887 ---TAACTTACATTAT
1 ACATAACTTACATAAT
*
51677900 ACATAAC-AAC-T--T
1 ACATAACTTACATAAT
*
51677912 ACATTA--TACATAGCAT
1 ACATAACTTACATA--AT
51677928 ACATAACTTACATAAT
1 ACATAACTTACATAAT
* *
51677944 GCAAAACTTACATAACTT
1 ACATAACTTACATAA--T
* * *
51677962 AAATATCTTACACAACTT
1 ACATAACTTACATAA--T
*
51677980 ACATAACCTACATAAT
1 ACATAACTTACATAAT
51677996 ACATAACTTACATAAT
1 ACATAACTTACATAAT
51678012 ACATAA
1 ACATAA
51678018 TAACTTACAA
Statistics
Matches: 208, Mismatches: 29, Indels: 66
0.69 0.10 0.22
Matches are distributed among these distances:
11 2 0.01
12 16 0.08
13 14 0.07
14 2 0.01
15 5 0.02
16 86 0.41
17 8 0.04
18 46 0.22
21 6 0.03
22 13 0.06
23 10 0.05
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.34
Consensus pattern (16 bp):
ACATAACTTACATAAT
Found at i:51683629 original size:21 final size:21
Alignment explanation
Indices: 51683605--51683661 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
51683595 GCAGAGTTTA
*
51683605 CAGCAAAAGAAGCAGATGCCG
1 CAGCAAGAGAAGCAGATGCCG
51683626 CAGCAAGAGAAGCAGATGCCG
1 CAGCAAGAGAAGCAGATGCCG
51683647 CAGCAAGAGAAGCAG
1 CAGCAAGAGAAGCAG
51683662 CGAGAGAAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.42, C:0.23, G:0.32, T:0.04
Consensus pattern (21 bp):
CAGCAAGAGAAGCAGATGCCG
Found at i:51684253 original size:42 final size:42
Alignment explanation
Indices: 51684152--51684416 Score: 332
Period size: 42 Copynumber: 6.2 Consensus size: 42
51684142 TTTGTAGATA
* * *
51684152 AAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTCTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTCT
* * *
51684195 AAGCGCCGCTAAAGAACACGATCATTAGTGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
* ** * * *
51684237 TAGTTCAGCTAAAGAACATGATCTTTAGTGGCATTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
* * * *
51684279 TAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTGCAC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-T
*
51684322 AAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
*
51684364 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC--T
51684408 AAGCGCCGC
1 AAGCGCCGC
51684417 AAAAAGTTAG
Statistics
Matches: 191, Mismatches: 28, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
42 112 0.59
43 69 0.36
44 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
Found at i:51684304 original size:127 final size:129
Alignment explanation
Indices: 51684152--51684416 Score: 376
Period size: 127 Copynumber: 2.1 Consensus size: 129
51684142 TTTGTAGATA
* * *
51684152 AAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTCTTT-CCCAAGCGCCGCTAAAGAACACGA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTT-TTTGCACAAGCGCCGCTAAAGAACACGA
* * ** * *
51684216 TCA-TTAGTGGCGTTTTTTTCTTAGTTCAGCTAAAGAACATGATCTTTAGTGGCATTTTTTTCT-
65 T-ATTTAGCGGCGTTTTTTTCTAAGCGCAGCTAAAGAACATGACCTTTAGCGGCATTTTTTTCTG
51684279 T
129 T
*
51684280 -AGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTGCACAAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTGCACAAGCGCCGCTAAAGAACACGAT
* *
51684344 ATTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTGT
66 ATTTAGCGGCGTTTTTTTCTAAGCGCAGCTAAAGAACATGACCTTTAGCGGCATTTTTTTCTGT
51684408 AAGCGCCGC
1 AAGCGCCGC
51684417 AAAAAGTTAG
Statistics
Matches: 121, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
126 4 0.03
127 108 0.89
128 1 0.01
129 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (129 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTGCACAAGCGCCGCTAAAGAACACGAT
ATTTAGCGGCGTTTTTTTCTAAGCGCAGCTAAAGAACATGACCTTTAGCGGCATTTTTTTCTGT
Found at i:51684333 original size:85 final size:84
Alignment explanation
Indices: 51684152--51684402 Score: 322
Period size: 85 Copynumber: 3.0 Consensus size: 84
51684142 TTTGTAGATA
* * * *
51684152 AAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTCTTTCCCAAGCGCCGCTAAAGAACACGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTCTAAGCGCCGCTAAAGAACATGAT
* * * *
51684217 CATTAGTGGCGTTTTTTTCT
65 CTTTAGCGGCGTTTTTTGCC
* ** * * * *
51684237 TAGTTCAGCTAAAGAACATGATCTTTAGTGGCATTTTTTTCTTAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
*
51684302 TTTAGCAGCGTTTTTTGCAC
66 TTTAGCGGCGTTTTTTGC-C
* *
51684322 AAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGACC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
51684387 TTTAGCGGCGTTTTTT
66 TTTAGCGGCGTTTTTT
51684403 TCTGTAAGCG
Statistics
Matches: 139, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
84 39 0.28
85 100 0.72
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTGCC
Found at i:51689446 original size:50 final size:48
Alignment explanation
Indices: 51689355--51689453 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 48
51689345 AAGAGTTTGC
*
51689355 TCAGTTCAACAGCCTTTCAGATCTATTCTGACTAATGTGCTCAACTCTGT
1 TCAGTTCAACAGCCTTTCAGATCTATTCTGACTAATATGCTC--CTCTGT
* * *
51689405 TCAGTTCAATAGCCTTTCAGATCTATTTTGATTGAA-ATGCTCCTCTGT
1 TCAGTTCAACAGCCTTTCAGATCTATTCTGACT-AATATGCTCCTCTGT
51689453 T
1 T
51689454 TTGATTGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
48 7 0.16
50 35 0.80
51 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (48 bp):
TCAGTTCAACAGCCTTTCAGATCTATTCTGACTAATATGCTCCTCTGT
Found at i:51709730 original size:13 final size:13
Alignment explanation
Indices: 51709708--51709762 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
51709698 AAAATCAATC
51709708 AAAATC-AAAATA
1 AAAATCAAAAATA
51709720 AAAATCAAAAAATA
1 AAAATC-AAAAATA
** *
51709734 AAAAGAAAAAAGA
1 AAAATCAAAAATA
*
51709747 AAAA-GAAAAATA
1 AAAATCAAAAATA
51709759 AAAA
1 AAAA
51709763 GGAGAGGCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 16 0.44
13 10 0.28
14 10 0.28
ACGTcount: A:0.82, C:0.04, G:0.05, T:0.09
Consensus pattern (13 bp):
AAAATCAAAAATA
Found at i:51712126 original size:128 final size:128
Alignment explanation
Indices: 51711919--51712299 Score: 584
Period size: 128 Copynumber: 3.0 Consensus size: 128
51711909 GCCCCCTGAC
* * *
51711919 CAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGGGGAGCAGATTGAAG
1 CAGCAGTGGAGTAGGTTGGAAATTAAAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAG
* * * *
51711984 ACGGCGAATCTTATCTTCTAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCTTGGT
66 ACGGCGAATCTTATCTTCAAGTGTAAGGAAGAAGATTTAAGCCACAAGTCCTATCTCCCTGGT
* *
51712047 CAGTAGTGGAGTAGGTTGGAAATTAAAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAG
1 CAGCAGTGGAGTAGGTTGGAAATTAAAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAG
* *
51712112 ACGGTGAATCTTATCTTCAAGTGTAAGGAAGAAGATTTTAGCCACAAGTCCTATCTCCCTGGT
66 ACGGCGAATCTTATCTTCAAGTGTAAGGAAGAAGATTTAAGCCACAAGTCCTATCTCCCTGGT
* ** * *
51712175 TAGCAGTGGAACAGGTTGGAAATTACAA-ATCTTGTCTCCCTAAGTAGTAGCAGAGCAGATCGAA
1 CAGCAGTGGAGTAGGTTGGAAATTA-AAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAA
* *
51712239 GACGGCAAATCTTATCTTCAAGTGTAAGGAAGAAGATTTAAGCCATAAGTCCTATCTCCCT
65 GACGGCGAATCTTATCTTCAAGTGTAAGGAAGAAGATTTAAGCCACAAGTCCTATCTCCCT
51712300 AAGATTACAG
Statistics
Matches: 230, Mismatches: 22, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
128 228 0.99
129 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (128 bp):
CAGCAGTGGAGTAGGTTGGAAATTAAAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAG
ACGGCGAATCTTATCTTCAAGTGTAAGGAAGAAGATTTAAGCCACAAGTCCTATCTCCCTGGT
Found at i:51712377 original size:44 final size:44
Alignment explanation
Indices: 51712325--51712877 Score: 361
Period size: 44 Copynumber: 12.8 Consensus size: 44
51712315 TAAACCAAAG
* * *
51712325 AATCTTATCTCCCTGAGGTTACAGCGGAGTAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* *
51712369 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * ** ***
51712413 AATCCTATTTCCCTGAGATTATAGTGGAGTGGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * * *
51712455 AGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCA-CCAG-
1 A--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* ** **
51712499 -GTCTTATCTCCCTGAGATTACAGTGGAATAGACCG-A---AG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* **
51712537 AATCTTATCTCCCTGAGGTTACAACGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * *
51712581 AATCTTATCTCTCTGAGATTACAGCGGAGCAGATT-AAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * ***
51712624 AATCCTATTTCCCTGAGATTACAGTGGAGCGGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * * * * *
51712666 AGGATTTTATCTCTCTAAAATTACAGTAGAGTAGA-T-CA--CATTA
1 A--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA-GA
** * * ** ** * *
51712709 GGTCTTATCTCACTGGGATTACAGTGGAATAGACCGAAG-AATTTCA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---GA
* *
51712755 AATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
51712799 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * *
51712842 TAATCCTATTTCCCTGAGATTACAGTGGAGCGGATT
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
51712878 AAAATAAAGG
Statistics
Matches: 396, Mismatches: 92, Indels: 42
0.75 0.17 0.08
Matches are distributed among these distances:
38 2 0.01
39 27 0.07
40 2 0.01
41 54 0.14
42 2 0.01
43 50 0.13
44 226 0.57
45 1 0.00
46 31 0.08
47 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:51712670 original size:211 final size:212
Alignment explanation
Indices: 51712291--51712969 Score: 1063
Period size: 211 Copynumber: 3.2 Consensus size: 212
51712281 CCATAAGTCC
* * *
51712291 TATCTCCCTAAGATTACAGTTGAATAAACCAAAGAATCTTATCTCCCTGAGGTTACAGCGGAGTA
1 TATCTCCCTAAGATTACAGTGGAATAGACCAAAGAATCTTATCTCCCTGAGGTTACAGCGGAGCA
51712356 GATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTAT
66 GATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTAT
* * *
51712421 TTCCCTGAGATTATAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAG
131 TTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAG
*
51712486 TAGATCGCACCAGGTCT
196 TAGATCGCATCAGGTCT
* * *
51712503 TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATCTTATCTCCCTGAGGTTACAACGGAGCA
1 TATCTCCCTAAGATTACAGTGGAATAGACCAAAGAATCTTATCTCCCTGAGGTTACAGCGGAGCA
*
51712568 GATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCGGAGCAGATT-AAGCCAGTAATCCTAT
66 GATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTAT
*
51712632 TTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTAAAATTACAGTAGAG
131 TTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAG
* *
51712697 TAGATCACATTAGGTCT
196 TAGATCGCATCAGGTCT
* ** * *
51712714 TATCTCACTGGGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTAAGGTTACAG
1 TATCTCCCTAAGATTACAGTGGAATAGACC--A-AA----GAATCTTATCTCCCTGAGGTTACAG
* * *
51712779 TGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAATA
59 CGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTA
51712844 ATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTAC
124 ATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTAC
*
51712909 AGTAGAATAGATCGCATCAGGTCT
189 AGTAGAGTAGATCGCATCAGGTCT
* *
51712933 TATCTCCCTAAGATTACAGGGGAATAGATCAAAGAAT
1 TATCTCCCTAAGATTACAGTGGAATAGACCAAAGAAT
51712970 TTCAAATCTT
Statistics
Matches: 425, Mismatches: 34, Indels: 16
0.89 0.07 0.03
Matches are distributed among these distances:
211 119 0.28
212 109 0.26
214 2 0.00
216 2 0.00
217 1 0.00
218 74 0.17
219 118 0.28
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (212 bp):
TATCTCCCTAAGATTACAGTGGAATAGACCAAAGAATCTTATCTCCCTGAGGTTACAGCGGAGCA
GATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTAT
TTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAG
TAGATCGCATCAGGTCT
Found at i:51712933 original size:219 final size:219
Alignment explanation
Indices: 51712325--51712980 Score: 1067
Period size: 219 Copynumber: 3.0 Consensus size: 219
51712315 TAAACCAAAG
*
51712325 AATCTTATCTCCCTGAGGTTACAGCGGAGTAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
* *
51712390 CAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTATAGTGGAGTGGATTAAAATAA
66 CAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
51712455 AGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGATTAC
131 AGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTAC
51712520 AGTGGAATAGACCGAAG-------
196 AGTGGAATAGACCGAAGAATTTCA
* *
51712537 AATCTTATCTCCCTGAGGTTACAACGGAGCAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTA
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
51712602 CAGCGGAGCAGATT-AAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
66 CAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * * * *
51712666 AGGATTTTATCTCTCTAAAATTACAGTAGAGTAGATCACATTAGGTCTTATCTCACTGGGATTAC
131 AGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTAC
51712731 AGTGGAATAGACCGAAGAATTTCA
196 AGTGGAATAGACCGAAGAATTTCA
* *
51712755 AATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
* *
51712820 CAGTGGAGCAGATTGAAGCCAATAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
66 CAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
51712885 AGGATCTTATCTCTCTAAAATTACAGTAGAATAGATCGCATCAGGTCTTATCTCCCTAAGATTAC
131 AGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTAC
* * *
51712950 AGGGGAATAGATCAAAGAATTTCA
196 AGTGGAATAGACCGAAGAATTTCA
51712974 AATCTTA
1 AATCTTA
51712981 CTTCCAAGGA
Statistics
Matches: 408, Mismatches: 28, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
211 123 0.30
212 76 0.19
218 74 0.18
219 135 0.33
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (219 bp):
AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
AGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTAC
AGTGGAATAGACCGAAGAATTTCA
Found at i:51713077 original size:50 final size:49
Alignment explanation
Indices: 51713023--51713186 Score: 186
Period size: 50 Copynumber: 3.3 Consensus size: 49
51713013 CCACATCGGT
* *
51713023 GAATCTTGCTTCTCCGACATTGTAGTTAAAAAGATTAAAGCTACAATAGC
1 GAATCTTACTTC-CCGACATTGCAGTTAAAAAGATTAAAGCTACAATAGC
* ** ** * * *
51713073 GAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCAC-ATCAGT
1 GAATCTTACTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACAAT-AGC
*
51713123 GAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
1 GAATCTTACTT-CCCGACATTGCAGTTAAAAAGATTAAAGCTACAATAGC
51713173 GAATCTTACTTCCC
1 GAATCTTACTTCCC
51713187 AGGCGGTGCA
Statistics
Matches: 91, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
49 7 0.08
50 80 0.88
51 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (49 bp):
GAATCTTACTTCCCGACATTGCAGTTAAAAAGATTAAAGCTACAATAGC
Found at i:51713150 original size:100 final size:100
Alignment explanation
Indices: 51712974--51713219 Score: 402
Period size: 100 Copynumber: 2.5 Consensus size: 100
51712964 AAGAATTTCA
* * * * * * * *
51712974 AATCTTACTTCCAAGGAGATGCAGTGGAATAGAGTAAAGCCACATCGGTGAATCTTGCTTCTCCG
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTACTTCCCCG
* *
51713039 ACATTGTAGTTAAAAAGATTAAAGCTACAATAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
51713074 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTACTTCCCCG
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTACTTCCCCG
51713139 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
51713174 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATC
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATC
51713220 GCGGAACAGA
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 136 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (100 bp):
AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTACTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
Found at i:51713197 original size:50 final size:50
Alignment explanation
Indices: 51713050--51713213 Score: 211
Period size: 50 Copynumber: 3.3 Consensus size: 50
51713040 CATTGTAGTT
*
51713050 AAAAAGATTAAAGCTACAATAGCGAATCTTACTTCCCAGGCGGTGCAGTG
1 AAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGGTGCAGTG
* * * * * * * ** *
51713100 GAACAGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTT
1 AAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGGTGCAGTG
51713150 AAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGGTGCAGTG
1 AAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGGTGCAGTG
* *
51713200 GAACAGATTAAAGC
1 AAAAAGATTAAAGC
51713214 CACATCGCGG
Statistics
Matches: 91, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 91 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (50 bp):
AAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGGTGCAGTG
Found at i:51713287 original size:50 final size:50
Alignment explanation
Indices: 51713226--51713384 Score: 169
Period size: 50 Copynumber: 3.2 Consensus size: 50
51713216 CATCGCGGAA
* *
51713226 CAGATTAAAGCCACGACGGCGTATCTTGCTTCCCCGACATCACAGTTAAG
1 CAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATCACAGTTAAG
* * * * * ** *
51713276 CAGATTAAAGCCACAACGGTGAATCTTACTTCCCTGGCGGT-GTAGTGGAA-
1 CAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGAC-ATCACAGT-TAAG
* * *
51713326 CGGATTAAAGCTACAATGGCGAATCTTGCTTCCCCGACATCACAGTTAAG
1 CAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATCACAGTTAAG
51713376 CAGATTAAA
1 CAGATTAAA
51713385 ATTGTGAGTT
Statistics
Matches: 83, Mismatches: 22, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
49 3 0.04
50 77 0.93
51 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (50 bp):
CAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATCACAGTTAAG
Found at i:51713323 original size:123 final size:123
Alignment explanation
Indices: 51713099--51713336 Score: 334
Period size: 123 Copynumber: 1.9 Consensus size: 123
51713089 GCGGTGCAGT
* **
51713099 GGAACAGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGC
1 GGAACAGATTAAAGCCACATCAGCGAATCTTACTTCCCCGACATCACAGTTAAAAAGATTAAAGC
*
51713164 TACAACAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGC
66 CACAACAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGC
* * * **
51713222 GGAACAGATTAAAGCCACGA-CGGCGTATCTTGCTTCCCCGACATCACAGTTAAGCAGATTAAAG
1 GGAACAGATTAAAGCCAC-ATCAGCGAATCTTACTTCCCCGACATCACAGTTAAAAAGATTAAAG
* * * * *
51713286 CCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACGGATTAAAGC
65 CCACAACAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGC
51713337 TACAATGGCG
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 99 0.99
124 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.21
Consensus pattern (123 bp):
GGAACAGATTAAAGCCACATCAGCGAATCTTACTTCCCCGACATCACAGTTAAAAAGATTAAAGC
CACAACAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGC
Found at i:51715112 original size:4 final size:4
Alignment explanation
Indices: 51715088--51715145 Score: 98
Period size: 4 Copynumber: 14.5 Consensus size: 4
51715078 TTGAAACTCT
* *
51715088 TACA TATA TACA TATA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
51715136 TACA TACA TA
1 TACA TACA TA
51715146 TATTATTTGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:51720709 original size:15 final size:15
Alignment explanation
Indices: 51720689--51720718 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51720679 AACTTTACAT
51720689 AGTTTCATATTAGCC
1 AGTTTCATATTAGCC
51720704 AGTTTCATATTAGCC
1 AGTTTCATATTAGCC
51720719 CCTAAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
AGTTTCATATTAGCC
Found at i:51741771 original size:9 final size:9
Alignment explanation
Indices: 51741757--51741787 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
51741747 GATCAAGTAA
51741757 AATTAAATT
1 AATTAAATT
51741766 AATTAAATT
1 AATTAAATT
51741775 AATTAAAATT
1 AATT-AAATT
51741785 AAT
1 AAT
51741788 ATGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:51742003 original size:25 final size:25
Alignment explanation
Indices: 51741965--51742017 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
51741955 AACCGATGGC
*
51741965 TGGACTGGACTGATTGAGTCATCAT
1 TGGACTGGACTGATCGAGTCATCAT
*
51741990 TGGACTGGATTGATCGAGTCATCAT
1 TGGACTGGACTGATCGAGTCATCAT
51742015 TGG
1 TGG
51742018 CCCAGGCCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (25 bp):
TGGACTGGACTGATCGAGTCATCAT
Found at i:51753891 original size:24 final size:25
Alignment explanation
Indices: 51753864--51753919 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
51753854 TGTATTACAT
*
51753864 GTTATTTTATAT-ATTTAATTTTTA
1 GTTATTTTATATAATGTAATTTTTA
* * *
51753888 GTTAATTTATATAATGTATTTTTTT
1 GTTATTTTATATAATGTAATTTTTA
51753913 GTTATTT
1 GTTATTT
51753920 ATTATTAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (25 bp):
GTTATTTTATATAATGTAATTTTTA
Found at i:51753910 original size:25 final size:24
Alignment explanation
Indices: 51753864--51753928 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
51753854 TGTATTACAT
* *
51753864 GTTATTTTATATATTTAATTTTTA
1 GTTAATTTATATATGTAATTTTTA
* *
51753888 GTTAATTTATATAATGTATTTTTTT
1 GTTAATTTATAT-ATGTAATTTTTA
51753913 GTT-ATTTAT-TAT-TAAT
1 GTTAATTTATATATGTAAT
51753929 AATGATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.09
22 2 0.06
23 1 0.03
24 17 0.49
25 12 0.34
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
GTTAATTTATATATGTAATTTTTA
Found at i:51753957 original size:29 final size:29
Alignment explanation
Indices: 51753898--51753960 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
51753888 GTTAATTTAT
* * *
51753898 ATAATGTATTTTTTTGTTATTTATTATTA
1 ATAATGTATTTTTTTCTTAATTATTAATA
*
51753927 ATAATG-ATTTTTTTCTTAATTCTT-A-A
1 ATAATGTATTTTTTTCTTAATTATTAATA
51753953 ATAATGTA
1 ATAATGTA
51753961 CAAAATTGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 7 0.24
27 1 0.03
28 15 0.52
29 6 0.21
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (29 bp):
ATAATGTATTTTTTTCTTAATTATTAATA
Found at i:51764461 original size:34 final size:34
Alignment explanation
Indices: 51764412--51764476 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
51764402 TCTCTAACTT
51764412 GGGTCACACAGCCAAGTCACACGCCCGTGTGTAA
1 GGGTCACACAGCCAAGTCACACGCCCGTGTGTAA
*
51764446 GGGTCACAC-GACCAAGTCACACGTCCGTGTG
1 GGGTCACACAG-CCAAGTCACACGCCCGTGTG
51764477 CCATGACACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.25, C:0.32, G:0.28, T:0.15
Consensus pattern (34 bp):
GGGTCACACAGCCAAGTCACACGCCCGTGTGTAA
Found at i:51765618 original size:73 final size:73
Alignment explanation
Indices: 51765541--51765695 Score: 197
Period size: 73 Copynumber: 2.1 Consensus size: 73
51765531 GGCTGTATAA
* * * *
51765541 CAGGAAGCTCAT-AAGAGCCATATTTAG-GAAGCTCATGCGAGCCAATAACGGGTAGCTCCGAAG
1 CAGGAAGCTC-TGAAGAGCCATATATAGAGAAGCTCAAGCGAGCC-ATAACGGGAAACTCCGAAG
51765604 AGCCATTAAT
64 AGCCATTAAT
* ** * *
51765614 CAGGAAGCTCTGAATAGCCATATATAGAGAATTTCAAGCGAGCCATATCGGGAAACTCCGGAGAG
1 CAGGAAGCTCTGAAGAGCCATATATAGAGAAGCTCAAGCGAGCCATAACGGGAAACTCCGAAGAG
51765679 CCATTAAT
66 CCATTAAT
51765687 CAGGAAGCT
1 CAGGAAGCT
51765696 TACAAAGAGC
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
72 1 0.01
73 57 0.80
74 13 0.18
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (73 bp):
CAGGAAGCTCTGAAGAGCCATATATAGAGAAGCTCAAGCGAGCCATAACGGGAAACTCCGAAGAG
CCATTAAT
Found at i:51769125 original size:12 final size:12
Alignment explanation
Indices: 51769110--51769134 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51769100 TCATAGGCAC
51769110 GACCATAATTGT
1 GACCATAATTGT
51769122 GACCATAATTGT
1 GACCATAATTGT
51769134 G
1 G
51769135 GACGTGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GACCATAATTGT
Done.