Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 51 of 211
Found at i:15276707 original size:27 final size:28
Alignment explanation
Indices: 15276623--15276720 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
15276613 CATGAGATTG
* * * *
15276623 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
15276652 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
15276680 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
15276707 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
15276721 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:15276731 original size:27 final size:27
Alignment explanation
Indices: 15276651--15276733 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
15276641 TAAATTGTAC
* *
15276651 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
15276679 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
15276706 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
15276733 A
1 A
15276734 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:15278922 original size:12 final size:13
Alignment explanation
Indices: 15278906--15278956 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
15278896 AAAAGAAAAA
15278906 AAAAAGGAGAATG
1 AAAAAGGAGAATG
*
15278919 AAAAATGAGAATG
1 AAAAAGGAGAATG
* *
15278932 AAAAATGAAAAATG
1 AAAAA-GGAGAATG
15278946 AAAAATGGAGA
1 AAAAA-GGAGA
15278957 GGCTAAGGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
13 17 0.55
14 14 0.45
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.12
Consensus pattern (13 bp):
AAAAAGGAGAATG
Found at i:15278922 original size:13 final size:14
Alignment explanation
Indices: 15278905--15278956 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
15278895 AAAAAGAAAA
*
15278905 AAAAAAGGAGAATG
1 AAAAATGGAGAATG
15278919 AAAAAT-GAGAATG
1 AAAAATGGAGAATG
* *
15278932 AAAAATGAAAAATG
1 AAAAATGGAGAATG
15278946 AAAAATGGAGA
1 AAAAATGGAGA
15278957 GGCTAAGGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 13 0.41
14 19 0.59
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (14 bp):
AAAAATGGAGAATG
Found at i:15278925 original size:7 final size:7
Alignment explanation
Indices: 15278915--15278952 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
15278905 AAAAAAGGAG
15278915 AATGAAA
1 AATGAAA
*
15278922 AATG-AG
1 AATGAAA
15278928 AATGAAA
1 AATGAAA
15278935 AATGAAA
1 AATGAAA
15278942 AATGAAA
1 AATGAAA
15278949 AATG
1 AATG
15278953 GAGAGGCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (7 bp):
AATGAAA
Found at i:15280231 original size:43 final size:43
Alignment explanation
Indices: 15280181--15280264 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
15280171 GTGAATATTA
15280181 CGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATCTAAGCGG
1 CGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATCTAAGCGG
*
15280224 CGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGC
1 CGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATCTAAGC
15280265 CACCAGTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (43 bp):
CGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATCTAAGCGG
Found at i:15280275 original size:43 final size:43
Alignment explanation
Indices: 15280183--15280276 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
15280173 GAATATTACG
** *
15280183 AATCTTATCTTCCCCAGGAGTAGGGAAGCAGATCTAAGCGGCG
1 AATCTTATCTTCCCCAGGAGTAGGGAAGCAGATCTAAGCCACC
*
15280226 AATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACC
1 AATCTTATCTTCCCCAGGAGTAGGGAAGCAGATCTAAGCCACC
*
15280269 AGTCTTAT
1 AATCTTAT
15280277 GTCCCTGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (43 bp):
AATCTTATCTTCCCCAGGAGTAGGGAAGCAGATCTAAGCCACC
Found at i:15280450 original size:40 final size:40
Alignment explanation
Indices: 15280402--15280922 Score: 248
Period size: 43 Copynumber: 12.4 Consensus size: 40
15280392 AAATAGTAGA
*
15280402 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
15280442 TCTTATCTCCCTAAGCAGTAGCGGAGCAGA-CAGAAGAAATCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----G-AATCAAG
* * * * * **
15280485 TCCTATCTCCCTGAAGTTA-CAGTAGAGCGGATTAAAAT-AGTAG
1 TCTTATCTCCCT-AAG-CAGTAGTGGAGCAGA-TCGAATCA--AG
* *
15280528 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
15280569 TCTTA-CTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG----AATCAAG
* * *** * * ** *
15280610 TCCTATCTCCCCGAAATTGCAGTGGAGCGGATTAAAACCACAG
1 TCTTATCT-CCCTAAGCAGTAGTGGAGCAGA-TCGAATCA-AG
*
15280653 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
* * * * *
15280694 TCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAGAAGCAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-T--CGAATCAAG
* ** * * * *
15280737 TCTTATCTCCCTGAGGTTGCAATGGAGCAGATTGAAGTCGATAA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAA-TC-A-AG
* * ** ** *
15280781 TCCTATCTCCCCGAAATTA-TAGTGGAGCAGATTAAAACCACAG
1 TCTTATCT-CCC-TAAGCAGTAGTGGAGCAGA-TCGAATCA-AG
**
15280824 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCTCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
* * * *
15280865 TCTTATCTCCCTAAGCAGTAGTGGGGCAGACTGAAGAAGCAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-T--CGAATCAAG
15280908 TCTTATCTCCCTAAG
1 TCTTATCTCCCTAAG
15280923 GTTGCAGTGG
Statistics
Matches: 358, Mismatches: 82, Indels: 79
0.69 0.16 0.15
Matches are distributed among these distances:
38 2 0.01
39 25 0.07
40 92 0.26
41 22 0.06
42 24 0.07
43 112 0.31
44 72 0.20
45 9 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
Found at i:15280687 original size:125 final size:127
Alignment explanation
Indices: 15280311--15280769 Score: 692
Period size: 127 Copynumber: 3.6 Consensus size: 127
15280301 TTGGAAATTA
15280311 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
15280376 ACAGTGGAGCGGATTAAAATAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
66 ACAGTGGAGCGGATTAAAATAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
15280438 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
*
15280503 ACAGTAGAGCGGATTAAAATAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
66 ACAGTGGAGCGGATTAAAATAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
* * * * * *
15280565 CAAATCTTA-CTCCCTAAGCAGTAGTGGAGCAGAC-GAAAAAACCAATCCTATCTCCCCGAAATT
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
* * *
15280628 GCAGTGGAGCGGATTAAAACCA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
66 ACAGTGGAGCGGATTAAAA-TAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
* * * * * * *
15280690 CAAGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAG-AAGCAAATCTTATCTCCCTGAGGT
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATC-AATCCTATCTCCCTGAAGT
* * *
15280754 TGCAATGGAGCAGATT
65 TACAGTGGAGCGGATT
15280770 GAAGTCGATA
Statistics
Matches: 306, Mismatches: 22, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
125 89 0.29
126 51 0.17
127 166 0.54
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (127 bp):
CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
ACAGTGGAGCGGATTAAAATAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
Found at i:15280807 original size:171 final size:171
Alignment explanation
Indices: 15280608--15280993 Score: 664
Period size: 171 Copynumber: 2.3 Consensus size: 171
15280598 CGAAAAAACC
* *
15280608 AATCCTATCTCCCCGAAATTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
1 AATCCTATCTCCCCGAAATTGTAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
15280673 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAGAAGCAAAT
66 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAGAAGCAAAT
*
15280738 CTTATCTCCCTGAGGTTGCAATGGAGCAGATTGAAGTCGAT
131 CTTATCTCCCTAAGGTTGCAATGGAGCAGATTGAAGTCGAT
*
15280779 AATCCTATCTCCCCGAAATTATAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
1 AATCCTATCTCCCCGAAATTGTAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
* *
15280844 AGTGGAGCAGATCTCATCAAGTCTTATCTCCCTAAGCAGTAGTGGGGCAGACTGAAGAAGCAAAT
66 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAGAAGCAAAT
* *
15280909 CTTATCTCCCTAAGGTTGCAGTGGAGCAGGTTGAAGTCGAT
131 CTTATCTCCCTAAGGTTGCAATGGAGCAGATTGAAGTCGAT
* * * *
15280950 AATCCTATCTCCCTGAAGTTGTAGTGGAACAGATTAAATCCACA
1 AATCCTATCTCCCCGAAATTGTAGTGGAGCAGATTAAAACCACA
15280994 TCGGTGAATC
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
171 202 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (171 bp):
AATCCTATCTCCCCGAAATTGTAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAGAAGCAAAT
CTTATCTCCCTAAGGTTGCAATGGAGCAGATTGAAGTCGAT
Found at i:15281037 original size:50 final size:49
Alignment explanation
Indices: 15280959--15281115 Score: 151
Period size: 50 Copynumber: 3.2 Consensus size: 49
15280949 TAATCCTATC
* * * *
15280959 TCCCTGA-AGTTGTAGTGGAACAGATTAAATCCACATCGGTGAATCTTGCT
1 TCCCTGACA-TTGCAGTGGAAAAGATTAAAGCCACA-CGGCGAATCTTGCT
* * *
15281009 TCCCTGACATTGCAGTTTG-AAAGATTAAAGCTACA--GCGAATCTTACT
1 TCCCTGACATTGCAG-TGGAAAAGATTAAAGCCACACGGCGAATCTTGCT
* * * *
15281056 TCCCAGATAGTGCAGTGGAAAAAATTAAAGCCACAGCGGCGAATCTTGCT
1 TCCCTGACATTGCAGTGGAAAAGATTAAAGCCACA-CGGCGAATCTTGCT
15281106 TCCCTGACAT
1 TCCCTGACAT
15281116 CAGTTATGAG
Statistics
Matches: 84, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
46 2 0.02
47 36 0.43
50 43 0.51
51 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (49 bp):
TCCCTGACATTGCAGTGGAAAAGATTAAAGCCACACGGCGAATCTTGCT
Found at i:15281070 original size:47 final size:47
Alignment explanation
Indices: 15280999--15281093 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 47
15280989 CCACATCGGT
* * * * * *
15280999 GAATCTTGCTTCCCTGACATTGCAGTTTG-AAAGATTAAAGCTACAGC
1 GAATCTTACTTCCCAGACAGTGCAG-TGGAAAAAATTAAAGCCACAGC
*
15281046 GAATCTTACTTCCCAGATAGTGCAGTGGAAAAAATTAAAGCCACAGC
1 GAATCTTACTTCCCAGACAGTGCAGTGGAAAAAATTAAAGCCACAGC
15281093 G
1 G
15281094 GCGAATCTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 2 0.05
47 38 0.95
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (47 bp):
GAATCTTACTTCCCAGACAGTGCAGTGGAAAAAATTAAAGCCACAGC
Found at i:15287718 original size:53 final size:52
Alignment explanation
Indices: 15287660--15287774 Score: 151
Period size: 53 Copynumber: 2.2 Consensus size: 52
15287650 TATATCCCCG
* *
15287660 TACAATCCAACTGAACCTTCGTAAAGCAAAATATCATGCATATACATTCTCTA
1 TACAATCCAAC-GAACCTCCGCAAAGCAAAATATCATGCATATACATTCTCTA
* *
15287713 TACAATCTGC-ACGAACCTCCGCAAAGTAAAATATCATGCATATACATTCTCTG
1 TACAATC--CAACGAACCTCCGCAAAGCAAAATATCATGCATATACATTCTCTA
*
15287766 TACGATCCA
1 TACAATCCA
15287775 TTAGACCTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
51 1 0.02
53 50 0.93
54 2 0.04
55 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.27
Consensus pattern (52 bp):
TACAATCCAACGAACCTCCGCAAAGCAAAATATCATGCATATACATTCTCTA
Found at i:15296817 original size:5 final size:5
Alignment explanation
Indices: 15296774--15296898 Score: 50
Period size: 5 Copynumber: 25.2 Consensus size: 5
15296764 GCATTGCAAT
* * *
15296774 AATAA TAATAA ACT-A AATAT AATAA ATATAA AAGAAA AATAAA AATAA
1 AATAA -AATAA AATAA AATAA AATAA A-ATAA AA-TAA AAT-AA AATAA
* * * * *
15296822 AGTAA GTAAT-A GA-AA AATAA TAATAA GA-AA AATAA AGTAA AGTAA
1 AATAA --AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA
*
15296867 AAT-- AATAA AATAA AAT-A AAT-A AATAA TATAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA A
15296899 GAAAGAACAA
Statistics
Matches: 90, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
3 3 0.03
4 17 0.19
5 43 0.48
6 25 0.28
7 2 0.02
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:15296873 original size:41 final size:39
Alignment explanation
Indices: 15296774--15296873 Score: 107
Period size: 41 Copynumber: 2.6 Consensus size: 39
15296764 GCATTGCAAT
* * *
15296774 AATAATAATAAACTAAAT-ATA-ATAAATATAAAAGAAA
1 AATAAAAATAAAGTAAATAATAGAAAAATATAAAAGAAA
*
15296811 AATAAAAATAAAGTAAGTAATAGAAAAATAATAATAAGAAA
1 AATAAAAATAAAGTAAATAATAGAAAAAT-ATAA-AAGAAA
*
15296852 AAT-AAAGTAAAGTAAAATAATA
1 AATAAAAATAAAGT-AAATAATA
15296874 AAATAAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
37 15 0.29
38 3 0.06
39 5 0.10
40 13 0.25
41 16 0.31
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.22
Consensus pattern (39 bp):
AATAAAAATAAAGTAAATAATAGAAAAATATAAAAGAAA
Found at i:15296884 original size:40 final size:39
Alignment explanation
Indices: 15296789--15296885 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 39
15296779 TAATAAACTA
* *
15296789 AATATAATAAATATAAAAGAAAAATAAAAATAAAGTAAGT
1 AATAAAATAAA-ATAAAAGAAAAATAAAAATAAAGTAAAT
*
15296829 AATAGAAA-AATAATAATAAGAAAAAT-AAAGTAAAGTAAAAT
1 AATA-AAATAA-AATAA-AAGAAAAATAAAAATAAAGT-AAAT
15296870 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
15296886 TAAATAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
39 1 0.02
40 27 0.55
41 21 0.43
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (39 bp):
AATAAAATAAAATAAAAGAAAAATAAAAATAAAGTAAAT
Found at i:15296890 original size:13 final size:13
Alignment explanation
Indices: 15296850--15296898 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
15296840 AATAATAAGA
15296850 AAAATAAAGTAAAGT
1 AAAATAAA-TAAA-T
15296865 AAAAT-AATAAAAT
1 AAAATAAAT-AAAT
15296878 AAAATAAATAAAT
1 AAAATAAATAAAT
*
15296891 AATATAAA
1 AAAATAAA
15296899 GAAAGAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 18 0.58
14 8 0.26
15 5 0.16
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:15300775 original size:105 final size:101
Alignment explanation
Indices: 15300592--15300841 Score: 281
Period size: 105 Copynumber: 2.5 Consensus size: 101
15300582 AATTGACGGA
** * *
15300592 TAAGACCATGGTTGGACCATGATAGTGTTTAAATGTAAGACCATAGTTGGGCTATGACATTCTAA
1 TAAGACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGACATTCTAA
* **
15300657 TGAAAAGATCATAACTGGGTTATGGCACCT-TGAACG
66 TGAAAAGACCATAACTGGGTTATGGCA-CTACAAACG
* *
15300693 TAAGACCATGGTTGGACCATGGCAGTATATATATATGTGTAAGACCATAGCTGGGCTATGGCATT
1 TAAGACCATGGTTGGACCATGGCAGTAT-T-TA-A-ATGTAAGACCATAGCTGGGCTATGACATT
* * *
15300758 CTGATGATAAGACCATAACTGGGTTATGGCACTACAAATG
62 CTAATGAAAAGACCATAACTGGGTTATGGCACTACAAACG
* * ** *
15300798 TAAGACCATGGTAGGGCCATGGC--TATGCATATGTAAGACCATAG
1 TAAGACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAG
15300842 TTGGACTGTG
Statistics
Matches: 126, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
99 13 0.10
101 26 0.21
102 1 0.01
103 5 0.04
104 3 0.02
105 78 0.62
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGACATTCTAA
TGAAAAGACCATAACTGGGTTATGGCACTACAAACG
Found at i:15300802 original size:33 final size:32
Alignment explanation
Indices: 15300730--15300806 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
15300720 TATATATATG
* * **
15300730 TGTAAGACCATAGCTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGGCATACAAA
*
15300762 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGGCA-TACAAA
15300796 TGTAAGACCAT
1 TGTAAGACCAT
15300807 GGTAGGGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.82
34 5 0.13
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGGCATACAAA
Found at i:15326178 original size:12 final size:12
Alignment explanation
Indices: 15326157--15326186 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15326147 TCAGAGAGTT
*
15326157 ACACGTCCTAGC
1 ACACGGCCTAGC
15326169 ACACGGCCTAGC
1 ACACGGCCTAGC
15326181 ACACGG
1 ACACGG
15326187 GCTTGTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.40, G:0.23, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:15348031 original size:26 final size:26
Alignment explanation
Indices: 15348002--15348051 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
15347992 TCTCATCCCT
15348002 ATTTTACCCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
15348028 ATTTTACCCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
15348052 GAAAATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGATG
Found at i:15354886 original size:10 final size:10
Alignment explanation
Indices: 15354886--15354921 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
15354876 TAAGATTAAT
*
15354886 TTAATTAGGA
1 TTAATTAAGA
15354896 TTAATT-AGA
1 TTAATTAAGA
15354905 TTAATTAAGA
1 TTAATTAAGA
15354915 TTAATTA
1 TTAATTA
15354922 TATTTTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (10 bp):
TTAATTAAGA
Found at i:15354897 original size:15 final size:16
Alignment explanation
Indices: 15354865--15354920 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
15354855 ACTAAAGTTC
15354865 TTAATTTAAATTAAGA
1 TTAATTTAAATTAAGA
*
15354881 TTAATTT-AATTAGGA
1 TTAATTTAAATTAAGA
*
15354896 TTAATTAGATTAATTAAGA
1 TTAATT---TAAATTAAGA
15354915 TTAATT
1 TTAATT
15354921 ATATTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 13 0.38
16 7 0.21
18 1 0.03
19 13 0.38
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (16 bp):
TTAATTTAAATTAAGA
Found at i:15355259 original size:21 final size:22
Alignment explanation
Indices: 15355219--15355259 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15355209 CTTAGATATG
15355219 AAAAATGGCTAGTTTGTAAAGT
1 AAAAATGGCTAGTTTGTAAAGT
* *
15355241 AAAAATTGTTAGTTT-TAAA
1 AAAAATGGCTAGTTTGTAAA
15355260 CATAATAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (22 bp):
AAAAATGGCTAGTTTGTAAAGT
Found at i:15360235 original size:37 final size:37
Alignment explanation
Indices: 15360185--15360263 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
15360175 TTATTACGAA
* *
15360185 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
15360222 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
15360259 GTCTT
1 GTCTT
15360264 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:15360460 original size:47 final size:47
Alignment explanation
Indices: 15360382--15360872 Score: 793
Period size: 47 Copynumber: 10.4 Consensus size: 47
15360372 CCCTTCGGGA
* * * * * * *
15360382 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15360429 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15360476 CTTACCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15360523 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15360570 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15360617 CTTATCACATATATATACACTTCCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15360666 CTTATCACATATATACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15360713 CTTATCACATATATACACTTTCTCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15360760 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15360807 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15360854 CTTATCACATATATACACT
1 CTTATCACATATATACACT
15360873 GTCTTGGCTG
Statistics
Matches: 414, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 369 0.89
49 45 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15360853 original size:237 final size:237
Alignment explanation
Indices: 15360382--15360868 Score: 798
Period size: 237 Copynumber: 2.1 Consensus size: 237
15360372 CCCTTCGGGA
* * * ** * *
15360382 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCTTGTCACATATATAC
1 CTTATCACATATATATACACTTCCACATCCATCACATCAGCCACTAGGCCTTATCACATATATAC
*
15360445 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACATTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
* * *
15360510 TCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
15360575 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15360617 CTTATCACATATATATACACTTCCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTCCACATCCATCACATCAGCCACTAGGCCTTATCACATATATAC
* * *
15360682 ACTTTCTCATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCTCATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
*
15360747 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
15360812 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15360854 CTTATCACATATATA
1 CTTATCACATATATA
15360869 CACTGTCTTG
Statistics
Matches: 232, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
235 10 0.04
236 1 0.00
237 221 0.95
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (237 bp):
CTTATCACATATATATACACTTCCACATCCATCACATCAGCCACTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15367553 original size:30 final size:30
Alignment explanation
Indices: 15367518--15367604 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
15367508 CACGAGAATA
*
15367518 AGTTGCTCACACAAGATGACAATATATTAG
1 AGTTGCTCACACAAGATGACATTATATTAG
* * * * *
15367548 GGTTGCCCATACAA-ATTGACGTTATAATAG
1 AGTTGCTCACACAAGA-TGACATTATATTAG
* *
15367578 AATTGCTCACACAAGCTGACATTATAT
1 AGTTGCTCACACAAGATGACATTATAT
15367605 CGAGGTTACC
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
29 1 0.02
30 41 0.98
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (30 bp):
AGTTGCTCACACAAGATGACATTATATTAG
Found at i:15368705 original size:25 final size:26
Alignment explanation
Indices: 15368664--15368713 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
15368654 ATACTTTGAT
15368664 TAAACTTTAATTAATCTTA-ATTAAC
1 TAAACTTTAATTAATCTTACATTAAC
15368689 TAAACCTTTAATT-ATCTTACATTAA
1 TAAA-CTTTAATTAATCTTACATTAA
15368714 TCACCATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAACTTTAATTAATCTTACATTAAC
Found at i:15379649 original size:68 final size:72
Alignment explanation
Indices: 15379577--15379714 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 72
15379567 TTTAATAGAT
* *
15379577 TTAATATTAAATTGAATTTAATACTTATC-T-T-AAT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTGAATTTAATACTTATCTTGTAAATAAATATTCTATTAATTTAATATTAAAGT
15379638 GATTATC
66 GATTATC
* * *
15379645 TTAATATTAAATTTAATTTAGTGCTTATCTTGTAAATAAATATTCTATTAATTTAATATTAAAGT
1 TTAATATTAAATTGAATTTAATACTTATCTTGTAAATAAATATTCTATTAATTTAATATTAAAGT
15379710 GATTA
66 GATTA
15379715 AGTTTAATCA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 26 0.43
69 1 0.02
70 1 0.02
71 3 0.05
72 30 0.49
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (72 bp):
TTAATATTAAATTGAATTTAATACTTATCTTGTAAATAAATATTCTATTAATTTAATATTAAAGT
GATTATC
Found at i:15379672 original size:29 final size:30
Alignment explanation
Indices: 15379618--15379675 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
15379608 AATAGTATTT
15379618 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAATTTAATATT-AAGTGATTATCTTAA
*
15379649 TATTAAATTTAAT-TT-AGTGCTTATCTT
1 TATT-AATTTAATATTAAGTGATTATCTT
15379676 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 11 0.44
31 6 0.24
32 8 0.32
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (30 bp):
TATTAATTTAATATTAAGTGATTATCTTAA
Found at i:15388721 original size:24 final size:24
Alignment explanation
Indices: 15388694--15388745 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15388684 TTAGTAAGTC
*
15388694 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
15388718 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
15388742 AAAT
1 AAAT
15388746 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:15390692 original size:24 final size:24
Alignment explanation
Indices: 15390665--15390716 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15390655 TTAGTAAGTC
*
15390665 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
15390689 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
15390713 AAAT
1 AAAT
15390717 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:15394069 original size:6 final size:6
Alignment explanation
Indices: 15394058--15394094 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
15394048 ATTATCTCCC
*
15394058 CCTAAA CCTAAA TCTAAA CCTAAA CCTAAA CCTAAA C
1 CCTAAA CCTAAA CCTAAA CCTAAA CCTAAA CCTAAA C
15394095 TATAACTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (6 bp):
CCTAAA
Found at i:15397211 original size:29 final size:30
Alignment explanation
Indices: 15397172--15397233 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 30
15397162 ATGCCATATC
15397172 TTTATCCTTTTCTTTCTTTATATTT-ATTT-A
1 TTTATCCTTTT-TTTCTTT-TATTTGATTTGA
15397202 TTTA-CCTTTTTTTCTTTTATTTGATTTGA
1 TTTATCCTTTTTTTCTTTTATTTGATTTGA
15397231 TTT
1 TTT
15397234 GATTTTAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.17
28 11 0.37
29 10 0.33
30 4 0.13
ACGTcount: A:0.15, C:0.11, G:0.03, T:0.71
Consensus pattern (30 bp):
TTTATCCTTTTTTTCTTTTATTTGATTTGA
Found at i:15406771 original size:21 final size:21
Alignment explanation
Indices: 15406720--15406771 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 21
15406710 CCGCTCGTGT
15406720 GGTTGGCCATGTGATTGAACA
1 GGTTGGCCATGTGATTGAACA
*
15406741 ---TGGACATGTGATTG-ACGA
1 GGTTGGCCATGTGATTGAAC-A
15406759 GGTTGGCCATGTG
1 GGTTGGCCATGTG
15406772 CGAATCATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
17 2 0.08
18 14 0.56
21 9 0.36
ACGTcount: A:0.21, C:0.13, G:0.37, T:0.29
Consensus pattern (21 bp):
GGTTGGCCATGTGATTGAACA
Found at i:15411210 original size:14 final size:15
Alignment explanation
Indices: 15411174--15411211 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
15411164 CCAAAAAAGT
15411174 AAAT-CATTTTCTAG
1 AAATACATTTTCTAG
15411188 AAATA-ATTTTCTAG
1 AAATACATTTTCTAG
15411202 AAA-ACATTTT
1 AAATACATTTT
15411212 ATTGGCAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (15 bp):
AAATACATTTTCTAG
Found at i:15414737 original size:36 final size:36
Alignment explanation
Indices: 15414685--15414754 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
15414675 AACCACATAT
15414685 TTTAGATTTTAACTTTTATTTGATGTAAGTTTATAG
1 TTTAGATTTTAACTTTTATTTGATGTAAGTTTATAG
*
15414721 TTTAGATTTTACCTTTTATTTGATGTAAGTTTAT
1 TTTAGATTTTAACTTTTATTTGATGTAAGTTTAT
15414755 CCTTGATCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.57
Consensus pattern (36 bp):
TTTAGATTTTAACTTTTATTTGATGTAAGTTTATAG
Found at i:15424419 original size:51 final size:49
Alignment explanation
Indices: 15424359--15424493 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 49
15424349 TAGATAATGG
* *** *
15424359 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAAGGTTTTGA
1 TCAC-TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAAAG-TTTGA
* * *
15424410 TCACGTGTGTAGCACTATGTACAGGCTACTACGTGAACCAAAAAGTTTGA
1 TCAC-TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAAAGTTTGA
*
15424460 TCAC-GTGT-GTACTATGTGAAGGCTACTACGTGTA
1 TCACTGTGTAGTACTATGTGCAGGCTACTACGTGTA
15424494 TCGAATAATA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
47 22 0.31
48 4 0.06
50 9 0.13
51 36 0.51
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (49 bp):
TCACTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAAAGTTTGA
Found at i:15432123 original size:16 final size:17
Alignment explanation
Indices: 15432102--15432133 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15432092 TACTTCTCTT
15432102 TGGTTGATTAA-AATTA
1 TGGTTGATTAAGAATTA
15432118 TGGTTGATTAAGAATT
1 TGGTTGATTAAGAATT
15432134 TCTGTGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (17 bp):
TGGTTGATTAAGAATTA
Found at i:15434263 original size:50 final size:50
Alignment explanation
Indices: 15434157--15434349 Score: 217
Period size: 50 Copynumber: 3.7 Consensus size: 50
15434147 GGTAAGGAGA
*
15434157 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGATATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CG--A-TATGAGAGG
* *
15434213 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
* * **
15434263 TCCC-TCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
* * * *
15434313 TCCCATGAAAGACCATATCTGGGATATGACATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
15434350 GTATAGAAAA
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 1 0.01
50 79 0.66
51 2 0.02
53 1 0.01
55 1 0.01
56 36 0.30
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
Found at i:15445642 original size:3 final size:3
Alignment explanation
Indices: 15445634--15445679 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
15445624 CTTTTGAACA
15445634 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15445680 GCTACCATCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15447690 original size:15 final size:15
Alignment explanation
Indices: 15447660--15447688 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15447650 ACTATTAGTA
15447660 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
15447675 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
15447689 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:15450165 original size:16 final size:17
Alignment explanation
Indices: 15450144--15450191 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
15450134 ATAAATATCA
15450144 ATAATTTTAT-TTAAAT
1 ATAATTTTATATTAAAT
* *
15450160 ATAATTTAATATTAATT
1 ATAATTTTATATTAAAT
15450177 ATAATTATTATATTA
1 ATAATT-TTATATTA
15450192 TTTTAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 9 0.33
17 11 0.41
18 7 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAATTTTATATTAAAT
Found at i:15454247 original size:2 final size:2
Alignment explanation
Indices: 15454240--15454265 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15454230 GTGAAATTTG
15454240 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15454266 GATACTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15454697 original size:20 final size:20
Alignment explanation
Indices: 15454672--15454719 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
15454662 AATTGAAATG
15454672 AATGTGATATTGAGTTATGA
1 AATGTGATATTGAGTTATGA
*
15454692 AATGTGATATTGGGTTATGA
1 AATGTGATATTGAGTTATGA
15454712 AATGTGAT
1 AATGTGAT
15454720 TTTATTCGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (20 bp):
AATGTGATATTGAGTTATGA
Found at i:15456056 original size:17 final size:18
Alignment explanation
Indices: 15456034--15456077 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
15456024 TAGTAGTTAT
*
15456034 AATCCATAA-CTAATAAA
1 AATCCATAATCTAAGAAA
* *
15456051 AATCCAAAATTTAAGAAA
1 AATCCATAATCTAAGAAA
15456069 AATCCATAA
1 AATCCATAA
15456078 AGGTCATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.23
Consensus pattern (18 bp):
AATCCATAATCTAAGAAA
Found at i:15457791 original size:17 final size:17
Alignment explanation
Indices: 15457769--15457813 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
15457759 TTAGGAATTT
15457769 AAAAAT-AAA-AAAATAA
1 AAAAATAAAATAAAAT-A
15457785 CAAAAATAAAATAAAATA
1 -AAAAATAAAATAAAATA
15457803 AAAAATAAAAT
1 AAAAATAAAAT
15457814 TCAGCCCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.65
18 4 0.15
19 5 0.19
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAAATAAAATA
Found at i:15457800 original size:10 final size:9
Alignment explanation
Indices: 15457769--15457807 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
15457759 TTAGGAATTT
15457769 AAAAAT-AA
1 AAAAATAAA
*
15457777 AAAAATAAC
1 AAAAATAAA
15457786 AAAAATAAA
1 AAAAATAAA
15457795 ATAAAATAAA
1 A-AAAATAAA
15457805 AAA
1 AAA
15457808 TAAAATTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 6 0.22
9 12 0.44
10 9 0.33
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAATAAA
Found at i:15464759 original size:19 final size:18
Alignment explanation
Indices: 15464735--15464771 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
15464725 TTGAAAATAA
*
15464735 AAAATAACAAAAATAAAAT
1 AAAATAA-AAAAAGAAAAT
15464754 AAAATAAAAAAAGAAAAT
1 AAAATAAAAAAAGAAAAT
15464772 TCGGCCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAATAAAAAAAGAAAAT
Found at i:15470285 original size:13 final size:13
Alignment explanation
Indices: 15470267--15470293 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15470257 ACTTGTGAAC
15470267 TTTGATATATATA
1 TTTGATATATATA
15470280 TTTGATATATATA
1 TTTGATATATATA
15470293 T
1 T
15470294 GATACTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTTGATATATATA
Found at i:15472158 original size:40 final size:40
Alignment explanation
Indices: 15472074--15472297 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
15472064 TTGAATGATG
* * * *
15472074 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15472114 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
15472154 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15472192 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15472232 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15472273 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15472298 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 19 0.12
40 111 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15472292 original size:80 final size:80
Alignment explanation
Indices: 15472074--15472297 Score: 296
Period size: 78 Copynumber: 2.8 Consensus size: 80
15472064 TTGAATGATG
* * * * *
15472074 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
15472137 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
15472154 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
15472216 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
15472232 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
15472297 G
66 G
15472298 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 49 0.39
79 25 0.20
80 49 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:15480157 original size:40 final size:40
Alignment explanation
Indices: 15480073--15480296 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
15480063 TTGAATGATG
* * * *
15480073 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15480113 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
15480153 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15480191 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15480231 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15480272 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15480297 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 19 0.12
40 111 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15480291 original size:80 final size:80
Alignment explanation
Indices: 15480073--15480296 Score: 296
Period size: 78 Copynumber: 2.8 Consensus size: 80
15480063 TTGAATGATG
* * * * *
15480073 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
15480136 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
15480153 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
15480215 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
15480231 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
15480296 G
66 G
15480297 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 49 0.39
79 25 0.20
80 49 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:15487470 original size:40 final size:40
Alignment explanation
Indices: 15487386--15487609 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
15487376 TTGAATGATG
* * * *
15487386 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15487426 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
15487466 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15487504 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15487544 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15487585 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15487610 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 19 0.12
40 111 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15487604 original size:80 final size:80
Alignment explanation
Indices: 15487386--15487609 Score: 296
Period size: 78 Copynumber: 2.8 Consensus size: 80
15487376 TTGAATGATG
* * * * *
15487386 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
15487449 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
15487466 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
15487528 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
15487544 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
15487609 G
66 G
15487610 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 49 0.39
79 25 0.20
80 49 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:15495511 original size:40 final size:40
Alignment explanation
Indices: 15495365--15495587 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
15495355 TTGAATGAAG
* * * *
15495365 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
15495404 TCCGGACT-AGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15495443 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15495482 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15495522 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
15495563 -CCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15495588 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 18, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 60 0.38
40 96 0.60
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15495605 original size:80 final size:79
Alignment explanation
Indices: 15495437--15495610 Score: 210
Period size: 80 Copynumber: 2.2 Consensus size: 79
15495427 TGTGCGAGAT
* * * *
15495437 ACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
1 ACTAAATCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGCTAAGTCCCGAAGG
** *
15495502 CATTTGTGCGAGTT
66 CATTTGAACGAGTG
* *
15495516 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGAGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGAGCTAAGTCCCGAA
15495580 GGCATTTGAACGAG-G
64 GGCATTTGAACGAGTG
*
15495595 AGCTATATCC-GGTTAA
1 A-CTAAATCCGGGTTAA
15495611 ATTTCGAAGG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 22 0.27
80 58 0.71
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGCTAAGTCCCGAAGG
CATTTGAACGAGTG
Found at i:15497239 original size:20 final size:20
Alignment explanation
Indices: 15497214--15497261 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
15497204 AATTGAAATG
15497214 AATGTGATATTGAGTTATGA
1 AATGTGATATTGAGTTATGA
*
15497234 AATGTGATATTGGGTTATGA
1 AATGTGATATTGAGTTATGA
15497254 AATGTGAT
1 AATGTGAT
15497262 TTTATTTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (20 bp):
AATGTGATATTGAGTTATGA
Found at i:15497600 original size:74 final size:74
Alignment explanation
Indices: 15497463--15497603 Score: 194
Period size: 74 Copynumber: 1.9 Consensus size: 74
15497453 GCACTGGGCC
** * * **
15497463 CAAATATCGTTGGTAAACCAAACTAAAGCTGGGCTCACTATTTGTTTGTCAGTTTGTTTGACTAG
1 CAAATATCGTTGGTAAACCAAACTAAAGCTGGGCTCACTATTCATTCGTCAGTTTATCCGACTAG
15497528 TGATAGGTG
66 TGATAGGTG
* *
15497537 CAAATATCGTTGGTATAACC-AACTAAAGCTGGGCTCATTATTCATTCGTCGGTTTATCCGACTA
1 CAAATATCGTTGGTA-AACCAAACTAAAGCTGGGCTCACTATTCATTCGTCAGTTTATCCGACTA
15497601 GTG
65 GTG
15497604 CTGGGCGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 54 0.93
75 4 0.07
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (74 bp):
CAAATATCGTTGGTAAACCAAACTAAAGCTGGGCTCACTATTCATTCGTCAGTTTATCCGACTAG
TGATAGGTG
Found at i:15502857 original size:20 final size:20
Alignment explanation
Indices: 15502828--15502879 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
15502818 AGATAACTGA
15502828 AATG-AATGTGATATTGAGT
1 AATGAAATGTGATATTGAGT
*
15502847 AATGAAATGTGATATTGGGT
1 AATGAAATGTGATATTGAGT
*
15502867 TATGAAATGTGAT
1 AATGAAATGTGAT
15502880 TGTATTCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (20 bp):
AATGAAATGTGATATTGAGT
Found at i:15508074 original size:13 final size:11
Alignment explanation
Indices: 15508047--15508138 Score: 58
Period size: 11 Copynumber: 8.9 Consensus size: 11
15508037 ATTTTTTTAA
15508047 TTTTAAAATAT
1 TTTTAAAATAT
15508058 TTTTAAAATAAAT
1 TTTTAAAAT--AT
*
15508071 TTTT-TAAT-T
1 TTTTAAAATAT
*
15508080 TTTT----TAA
1 TTTTAAAATAT
*
15508087 TTTCAAAATAT
1 TTTTAAAATAT
*
15508098 TTTTAACATACT
1 TTTTAAAATA-T
15508110 TTTTAAAAT-T
1 TTTTAAAATAT
15508120 TTTT-AAA-AT
1 TTTTAAAATAT
15508129 TTTTAAAATA
1 TTTTAAAATA
15508139 AAAATGGACC
Statistics
Matches: 63, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
6 1 0.02
7 3 0.05
9 13 0.21
10 8 0.13
11 20 0.32
12 12 0.19
13 6 0.10
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:15508085 original size:40 final size:39
Alignment explanation
Indices: 15508030--15508125 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 39
15508020 ATGTCATACT
*
15508030 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAAA
1 TTTTTTAATTTTTTTAATTTCAAAATATTTTTAAAAT-AA
* *
15508070 TTTTTTAATTTTTTTAATTTCAAAATATTTTTAACATAC
1 TTTTTTAATTTTTTTAATTTCAAAATATTTTTAAAATAA
* *
15508109 TTTTTAAAATTTTTTAA
1 TTTTTTAATTTTTTTAA
15508126 AATTTTTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.31
40 35 0.69
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (39 bp):
TTTTTTAATTTTTTTAATTTCAAAATATTTTTAAAATAA
Found at i:15508563 original size:29 final size:29
Alignment explanation
Indices: 15508528--15508634 Score: 96
Period size: 29 Copynumber: 3.6 Consensus size: 29
15508518 AACTATCACT
15508528 GGTACATAGTACCTGATAATATAATCATC
1 GGTACATAGTACCTGATAATATAATCATC
* *
15508557 -G-ACACATTACGCCTGATACA-ACGTGAA-CATC
1 GGTACATAGTA--CCTGATA-ATA--T-AATCATC
* *
15508588 GGTACAAAGTACTTGATAATATAATCATC
1 GGTACATAGTACCTGATAATATAATCATC
15508617 GGTACATAGTACCTGATA
1 GGTACATAGTACCTGATA
15508635 CTTTAAACCT
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
27 6 0.10
28 3 0.05
29 29 0.48
30 2 0.03
31 12 0.20
32 3 0.05
33 6 0.10
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (29 bp):
GGTACATAGTACCTGATAATATAATCATC
Found at i:15514259 original size:25 final size:25
Alignment explanation
Indices: 15514216--15514428 Score: 216
Period size: 25 Copynumber: 8.6 Consensus size: 25
15514206 ACACAAATTA
* * *
15514216 TCTGTAAAGCCTTTATGGTGAACTC
1 TCTGAAAAGCCTTTGTGGTGAACCC
* *
15514241 TTTGAAAAGCTTTTGTGGTGAACCC
1 TCTGAAAAGCCTTTGTGGTGAACCC
* * **
15514266 TCTGCAAAGCTTTTGTGGCAAACCC
1 TCTGAAAAGCCTTTGTGGTGAACCC
*
15514291 TCTGAAAAGCCTTTGTGG-AAACCC
1 TCTGAAAAGCCTTTGTGGTGAACCC
*
15514315 TCTAAAAAGCCTTTGTGGTGAACCC
1 TCTGAAAAGCCTTTGTGGTGAACCC
**
15514340 TCTGAAAAGCCTTTGTGGCAAACCC
1 TCTGAAAAGCCTTTGTGGTGAACCC
* * *
15514365 TCTGTAAAGCCTTTCTGGTGAACTC
1 TCTGAAAAGCCTTTGTGGTGAACCC
* * *
15514390 TCTGGAAAA-CCTTTATAGCT-AACTC
1 TCT-GAAAAGCCTTTGT-GGTGAACCC
15514415 TCTGAAAAGCCTTT
1 TCTGAAAAGCCTTT
15514429 TTGGCATATT
Statistics
Matches: 160, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
24 28 0.17
25 126 0.79
26 6 0.04
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (25 bp):
TCTGAAAAGCCTTTGTGGTGAACCC
Found at i:15522261 original size:13 final size:13
Alignment explanation
Indices: 15522243--15522268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15522233 TTAACAATAT
15522243 ATAAACATTGACC
1 ATAAACATTGACC
15522256 ATAAACATTGACC
1 ATAAACATTGACC
15522269 TTATTAACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
ATAAACATTGACC
Found at i:15522714 original size:30 final size:30
Alignment explanation
Indices: 15522649--15522836 Score: 145
Period size: 29 Copynumber: 6.4 Consensus size: 30
15522639 GGTCGTCATA
* * * **
15522649 ATCCCTTTTCATAATTTGATAACC-AAGTT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
15522678 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
* ** *
15522708 ATCCCTTTTCATAGTTCGATGGTTGTCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCC
* * * * *
15522738 ATCCGTTTTCATTGTT-GATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCC
* *
15522767 ATCCCTTTTCATA-ATCGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
* * *
15522796 ATCCCTTTTCGTA-TTCGATAGTCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
15522825 ATCCCTTTTCAT
1 ATCCCTTTTCAT
15522837 TTGTCGATGA
Statistics
Matches: 132, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
28 2 0.02
29 88 0.67
30 41 0.31
31 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATAGCCGAAGCC
Found at i:15529149 original size:12 final size:12
Alignment explanation
Indices: 15529132--15529161 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15529122 AGCCACACAC
15529132 CCGTGTGCTAGG
1 CCGTGTGCTAGG
15529144 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
15529156 CTGTGT
1 CCGTGT
15529162 AACAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:15530256 original size:30 final size:30
Alignment explanation
Indices: 15530222--15530360 Score: 95
Period size: 30 Copynumber: 4.7 Consensus size: 30
15530212 TCACCAAAGT
*
15530222 TATCCTTTTTCATAGTTCAACAGCCGAAGC
1 TATCCTTTTTCATAGTTCGACAGCCGAAGC
* * *** * *
15530252 TATCCCTTTTCATA-TTTGGTGGTCGTCA-C
1 TATCCTTTTTCATAGTTCGACAGCCG-AAGC
* * * *
15530281 CATCCTTTTTCATAATTTGACAACCGAAGC
1 TATCCTTTTTCATAGTTCGACAGCCGAAGC
* * *
15530311 TATCCCTTTTCATAGTTCTATAGCCGAAGC
1 TATCCTTTTTCATAGTTCGACAGCCGAAGC
*
15530341 CAT-CTCTTTTCATAGTTCGA
1 TATCCT-TTTTCATAGTTCGA
15530361 TGGTTGTCAC
Statistics
Matches: 79, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
29 20 0.25
30 59 0.75
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (30 bp):
TATCCTTTTTCATAGTTCGACAGCCGAAGC
Found at i:15530450 original size:29 final size:29
Alignment explanation
Indices: 15530418--15530500 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
15530408 TTCATAATTG
*
15530418 ATAGTTGAAGCTATCTCTTTTTGTATTCC
1 ATAGCTGAAGCTATCTCTTTTTGTATTCC
* * *
15530447 ATAGCCGAAGCTATCTCTTTTCGTATTCG
1 ATAGCTGAAGCTATCTCTTTTTGTATTCC
* *
15530476 ATAGCTAAAGCTTTC-CTTTTT-TATT
1 ATAGCTGAAGCTATCTCTTTTTGTATT
15530501 TTTCGATGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 4 0.09
28 5 0.11
29 37 0.80
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (29 bp):
ATAGCTGAAGCTATCTCTTTTTGTATTCC
Found at i:15533977 original size:27 final size:28
Alignment explanation
Indices: 15533911--15533998 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
15533901 CACAACAGTT
15533911 AAGAATAACCTTTGTGGCGAACTCTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* *
15533939 AAGAATAACCTTTTTGGCGAACTTTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* * *
15533967 AGGAAT-GCCTTTGTGGCAAACTCT-AA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
*
15533993 ATGAAT
1 AAGAAT
15533999 TTCTTTAGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.13
27 14 0.27
28 31 0.60
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (28 bp):
AAGAATAACCTTTGTGGCGAACTCTGAA
Found at i:15546865 original size:60 final size:60
Alignment explanation
Indices: 15546785--15546914 Score: 161
Period size: 60 Copynumber: 2.2 Consensus size: 60
15546775 TGACACCTCA
* * * * *
15546785 TGCTTGATACAATATAAACACCAGTACATAGTACCTGATAAAGTAATCATCGGCACATTG
1 TGCTTGATACAACACAAACACCAGTACAAAGTACCTGATAAAATAATCATCGGCACATAG
* ** * *
15546845 TGCTTGATACAACACGAACACTGGTACAAAGTACCTGATAAAATAATCATTGGTACATAG
1 TGCTTGATACAACACAAACACCAGTACAAAGTACCTGATAAAATAATCATCGGCACATAG
*
15546905 TACTTGATAC
1 TGCTTGATAC
15546915 TTTAAACCCT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (60 bp):
TGCTTGATACAACACAAACACCAGTACAAAGTACCTGATAAAATAATCATCGGCACATAG
Found at i:15554815 original size:13 final size:13
Alignment explanation
Indices: 15554797--15554824 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15554787 CAATTTCCCC
15554797 TTTCATATAACCA
1 TTTCATATAACCA
15554810 TTTCATATAACCA
1 TTTCATATAACCA
15554823 TT
1 TT
15554825 CCCGTTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCATATAACCA
Found at i:15557844 original size:13 final size:13
Alignment explanation
Indices: 15557828--15557895 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 13
15557818 TTATAATAAA
15557828 TTCATATAACCAT
1 TTCATATAACCAT
* *
15557841 TTCATGTAATCAT
1 TTCATATAACCAT
*
15557854 TTCTTAT-A-CAT
1 TTCATATAACCAT
**
15557865 TTGGTATAACCAT
1 TTCATATAACCAT
* *
15557878 TTCATCTAAACAT
1 TTCATATAACCAT
15557891 TTCAT
1 TTCAT
15557896 TTTATCATTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 8 0.19
12 2 0.05
13 33 0.77
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.44
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:15580684 original size:9 final size:9
Alignment explanation
Indices: 15580668--15580700 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
15580658 GAGTTAAACG
15580668 AATCGAGTT
1 AATCGAGTT
*
15580677 ATTCGAGTT
1 AATCGAGTT
15580686 AATCGAGTT
1 AATCGAGTT
15580695 AATCGA
1 AATCGA
15580701 ATCAACTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (9 bp):
AATCGAGTT
Found at i:15580971 original size:30 final size:31
Alignment explanation
Indices: 15580935--15580994 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
15580925 AAACCTTTTA
15580935 TTTTCCCCCAAAACTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
** *
15580965 TTTTCCCTTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
15580995 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:15581389 original size:18 final size:17
Alignment explanation
Indices: 15581366--15581435 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 17
15581356 CAATTTCACA
15581366 TTTTATTTTTAAAATATT
1 TTTTA-TTTTAAAATATT
*
15581384 TTTTA-TTAAAAATCATAT
1 TTTTATTTTAAAAT-AT-T
* *
15581402 TTTTACATTTAATATATT
1 TTTTA-TTTTAAAATATT
*
15581420 TTTTAATTCTAAAATA
1 TTTT-ATTTTAAAATA
15581436 CATAGTGACA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 7 0.17
17 2 0.05
18 23 0.56
19 3 0.07
20 6 0.15
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTATTTTAAAATATT
Found at i:15583395 original size:26 final size:26
Alignment explanation
Indices: 15583360--15583411 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15583350 AATGTAAAAG
*
15583360 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15583386 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15583412 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:15583527 original size:105 final size:104
Alignment explanation
Indices: 15583283--15583651 Score: 611
Period size: 103 Copynumber: 3.6 Consensus size: 104
15583273 TTGTATATAA
** *
15583283 AGGGGTTGCTGTGTGCTGATTCCCCGATTCA-TGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
15583347 TGAAATGT-AAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
15583385 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
15583450 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
15583490 AGGGGTTGCTAACTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
15583554 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
** *
15583593 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
15583652 ATAACGGTTA
Statistics
Matches: 252, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
102 29 0.12
103 99 0.39
104 49 0.19
105 74 0.29
106 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:15583603 original size:26 final size:26
Alignment explanation
Indices: 15583568--15583619 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15583558 AATGTGAAAG
*
15583568 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15583594 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15583620 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:15585506 original size:21 final size:21
Alignment explanation
Indices: 15585480--15585525 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
15585470 ATGTCATCAA
15585480 AGTGAGAAACTTTCTAGGTTT
1 AGTGAGAAACTTTCTAGGTTT
* * *
15585501 AGTGAGGAGCTTTCTGGGTTT
1 AGTGAGAAACTTTCTAGGTTT
15585522 AGTG
1 AGTG
15585526 GGGTACTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.09, G:0.33, T:0.37
Consensus pattern (21 bp):
AGTGAGAAACTTTCTAGGTTT
Found at i:15587752 original size:43 final size:43
Alignment explanation
Indices: 15587704--15587796 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
15587694 TGTTTTCGTA
* * *
15587704 TAAGACCATGTATGGGACATTGGC-TTCGA-ATTTTATATACATG
1 TAAGACCATGTATGGGACAGTGGCATT-GATATGTGAT-TACATG
* *
15587747 TAAGACCCTGTCTGGGACAGTGGCATTGATATGTGATTACATG
1 TAAGACCATGTATGGGACAGTGGCATTGATATGTGATTACATG
15587790 TAAGACC
1 TAAGACC
15587797 GCGTCTGGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
43 36 0.84
44 7 0.16
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
TAAGACCATGTATGGGACAGTGGCATTGATATGTGATTACATG
Found at i:15599833 original size:104 final size:104
Alignment explanation
Indices: 15599665--15599876 Score: 363
Period size: 104 Copynumber: 2.0 Consensus size: 104
15599655 GGGTTGTTGT
* *
15599665 GTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAA
1 GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAA
*
15599730 TGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
* *
15599769 GTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAA
1 GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCTTTGAAATGTGAA
15599833 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
65 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
15599873 GTGC
1 GTGC
15599877 GATATCCATT
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
104 101 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (104 bp):
GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAA
GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:15599928 original size:71 final size:72
Alignment explanation
Indices: 15599795--15599946 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
15599785 TCATTGGTGG
* *
15599795 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
15599860 GAGGGGT
66 GAGGGGT
***
15599867 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
15599931 GAGGGGT
66 GAGGGGT
15599938 TGCTAAGTG
1 TGCTAAGTG
15599947 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:15604165 original size:19 final size:19
Alignment explanation
Indices: 15604141--15604270 Score: 224
Period size: 19 Copynumber: 6.8 Consensus size: 19
15604131 AATCTTCAAG
*
15604141 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAT
*
15604160 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15604179 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
15604198 GATATGCAATCTTAGACAT
1 GATATGCAATCTTAGATAT
15604217 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
15604236 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15604255 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
15604271 AGATATGATT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 104 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15604306 original size:21 final size:23
Alignment explanation
Indices: 15604230--15604306 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 23
15604220 ATGCAATCTT
*
15604230 AGATATG-ATATGTAATCTT---
1 AGATATGAATTTGTAATCTTAGA
* *
15604249 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
15604271 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
15604293 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
15604307 GGTACCTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 18 0.38
21 8 0.17
22 12 0.25
23 10 0.21
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:15604563 original size:22 final size:23
Alignment explanation
Indices: 15604535--15604579 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15604525 AAAACAGGTT
*
15604535 TTTAGCGGC-GTTTTTTTGGGCC
1 TTTAGCGGCACTTTTTTTGGGCC
15604557 TTTAGCGGCACTTTTTTTGGGCC
1 TTTAGCGGCACTTTTTTTGGGCC
15604580 GCTAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.07, C:0.20, G:0.29, T:0.44
Consensus pattern (23 bp):
TTTAGCGGCACTTTTTTTGGGCC
Found at i:15604849 original size:43 final size:43
Alignment explanation
Indices: 15604667--15604831 Score: 258
Period size: 43 Copynumber: 3.8 Consensus size: 43
15604657 TTTTTAAAAT
*
15604667 AAACGCCGCTAAAGGCCATGATCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCCCCAC
15604710 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCCCCAC
* ** * *
15604753 AAACGCCACTAAAAACCATGACCTTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCCCCAC
* *
15604796 AAACGCCGCTAAAGGTCATGAGCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTT
15604832 CTATTACAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 110 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCCCCAC
Found at i:15606704 original size:41 final size:39
Alignment explanation
Indices: 15606621--15606704 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
15606611 GCACAATACA
**
15606621 ATATAAAAAGCATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGCATATATAAATATATGAATGTAGAGAAAT
* *
15606660 ATATAAAAAGCATATATAAATATATGTATGTCATAGAAACT
1 ATATAAAAAGCATATATAAATATATGAATGT-AGAGAAA-T
15606701 ATAT
1 ATAT
15606705 TCATTTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 30 0.77
40 4 0.10
41 5 0.13
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (39 bp):
ATATAAAAAGCATATATAAATATATGAATGTAGAGAAAT
Found at i:15608960 original size:21 final size:22
Alignment explanation
Indices: 15608928--15608969 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
15608918 AGGATACCAA
15608928 TTTTAGGGGGGAAAATTAGGGG
1 TTTTAGGGGGGAAAATTAGGGG
*
15608950 TTTTA-GGGGGAAATTTAGGG
1 TTTTAGGGGGGAAAATTAGGG
15608970 AAAAAAAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.31
Consensus pattern (22 bp):
TTTTAGGGGGGAAAATTAGGGG
Found at i:15609486 original size:21 final size:21
Alignment explanation
Indices: 15609462--15609501 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15609452 ATTTTAATTA
*
15609462 AACCACTAAACCCTAAACCCC
1 AACCACTAAACCATAAACCCC
* *
15609483 AACCATTAAATCATAAACC
1 AACCACTAAACCATAAACC
15609502 ATAAACAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (21 bp):
AACCACTAAACCATAAACCCC
Found at i:15609520 original size:14 final size:14
Alignment explanation
Indices: 15609503--15609542 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
15609493 TCATAAACCA
15609503 TAAACAATAATCCC
1 TAAACAATAATCCC
*
15609517 TAAACCCATAATCCC
1 TAAA-CAATAATCCC
*
15609532 TAAACTATAAT
1 TAAACAATAAT
15609543 GATAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACAATAATCCC
Found at i:15610705 original size:40 final size:41
Alignment explanation
Indices: 15610655--15610968 Score: 296
Period size: 41 Copynumber: 7.7 Consensus size: 41
15610645 AATATTTTTT
* * **
15610655 GCGGTGCTTTTTCAAAAACGGCGCTAAA-AATAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* * * * *
15610695 GCGGCGCTTTTTCAAAAACGTCACTAAACACCTGAACATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
15610736 GCGACGC-TTTTAAAAAACCGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTTTTCAAAAA-CGCCGCTAAAGACCAGAGCATTA
* * * * *
15610777 GCGGCGCTTTCTCAAAAACGTCGCTAAAGCCCCGAGCACTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
15610818 GCGGCGCTTTCTCAAAAACGCCGCTAAAG-CCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* ** * *
15610858 GCGGCACTTTTTCAAAAACGCCGCTAAATCCCCGACCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* * * *
15610899 GCGTCAC-TTTTCTAAAAACGCCGCTAAAGGCCCA-AGAATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAA-GACCAGAGCATTA
* *
15610940 GTGGCGCTTTTTAAAAAACGCCGCTAAAG
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG
15610969 CCCCGAAAAC
Statistics
Matches: 231, Mismatches: 36, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
40 76 0.33
41 140 0.61
42 15 0.06
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:15610763 original size:41 final size:40
Alignment explanation
Indices: 15610687--15610974 Score: 319
Period size: 41 Copynumber: 7.0 Consensus size: 40
15610677 GCTAAAAATA
* * *
15610687 GAGCATTAGCGGCGCTTTTTCAAAAACGTCACTAAA-CACCT
1 GAGCATTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGC-CCC
* * * *
15610728 GAACATTAGCGACGCTTTTAAAAAACCGCCGCTAAAGCCCA
1 GAGCATTAGCGGCGCTTTTCAAAAA-CGCCGCTAAAGCCCC
*
15610769 GAGCATTAGCGGCGCTTTCTCAAAAACGTCGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGCCCC
*
15610810 GAGCACTAGCGGCGCTTTCTCAAAAACGCCGCTAAAG-CCC
1 GAGCATTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGCCCC
* *
15610850 GAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAATCCCC
1 GAGCATTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGCCCC
* * * *
15610891 GACCATTAGCGTCACTTTTCTAAAAACGCCGCTAAAGGCCC
1 GAGCATTAGCGGCGCTTTTC-AAAAACGCCGCTAAAGCCCC
* * * *
15610932 AAGAATTAGTGGCGCTTTTTAAAAAACGCCGCTAAAGCCCC
1 GAGCATTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGCCCC
15610973 GA
1 GA
15610975 AAACTCAAAA
Statistics
Matches: 211, Mismatches: 29, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
40 47 0.22
41 153 0.73
42 11 0.05
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTTCAAAAACGCCGCTAAAGCCCC
Found at i:15610796 original size:82 final size:81
Alignment explanation
Indices: 15610686--15610975 Score: 352
Period size: 82 Copynumber: 3.6 Consensus size: 81
15610676 CGCTAAAAAT
* *
15610686 AGAGCATTAGCGGCGCTTTTTCAAAAACGTCACTAAA-CACCTGAACATTAGCGACGCTTTTAAA
1 AGAGCATTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGC-CCCGAACATTAGCGACGCTTTTAAA
15610750 AAACCGCCGCTAAAGCCC
65 AAA-CGCCGCTAAAGCCC
* * * * *
15610768 AGAGCATTAGCGGCGCTTTCTCAAAAACGTCGCTAAAGCCCCGAGCACTAGCGGCGCTTTCTCAA
1 AGAGCATTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGCCCCGAACATTAGCGACGCTTT-TAAA
15610833 AAACGCCGCTAAAGCCC
65 AAACGCCGCTAAAGCCC
* * * * * * *
15610850 -GAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAATCCCCGACCATTAGCGTCACTTTTCTAA
1 AGAGCATTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGCCCCGAACATTAGCGACGCTTTT-AAA
15610914 AAACGCCGCTAAAGGCCC
65 AAACGCCGCTAAA-GCCC
* * * *
15610932 A-AGAATTAGTGGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAA
1 AGAGCATTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGCCCCGAA
15610976 AACTCAAAAA
Statistics
Matches: 181, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
80 1 0.01
81 66 0.36
82 107 0.59
83 7 0.04
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (81 bp):
AGAGCATTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGCCCCGAACATTAGCGACGCTTTTAAAA
AACGCCGCTAAAGCCC
Found at i:15610871 original size:163 final size:163
Alignment explanation
Indices: 15610655--15610974 Score: 412
Period size: 163 Copynumber: 2.0 Consensus size: 163
15610645 AATATTTTTT
* * * * * *
15610655 GCGGTGCTTTTTCAAAAACGGCGCTAAAAATAGAGCATTAGCGGCGCTTTTTCAAAAACGTCACT
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAACAGAGCATTAGCGGCACTTTTTCAAAAACGCCACT
* * *
15610720 AAA-CACCTGAACATTAGCGACGCTTTT-AAAAAACCGCCGCTAAA-GCCCAGAGCATTAGCGGC
66 AAATC-CCCGAACATTAGCGACACTTTTCAAAAAA-CGCCGCTAAAGGCCCA-AGAATTAGCGGC
* *
15610782 GCTTTCTCAAAAACGTCGCTAAAGCCCCGAGCACTA
128 GCTTTCTAAAAAACGCCGCTAAAGCCCCGAGCACTA
** * *
15610818 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCGAGCATTAGCGGCACTTTTTCAAAAACGCCGCT
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAACAGAGCATTAGCGGCACTTTTTCAAAAACGCCACT
* * * *
15610883 AAATCCCCGACCATTAGCGTCACTTTTCTAAAAACGCCGCTAAAGGCCCAAGAATTAGTGGCGCT
66 AAATCCCCGAACATTAGCGACACTTTTCAAAAAACGCCGCTAAAGGCCCAAGAATTAGCGGCGCT
*
15610948 TTTTAAAAAACGCCGCTAAAGCCCCGA
131 TTCTAAAAAACGCCGCTAAAGCCCCGA
15610975 AAACTCAAAA
Statistics
Matches: 134, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
163 123 0.92
164 11 0.08
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (163 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAAACAGAGCATTAGCGGCACTTTTTCAAAAACGCCACT
AAATCCCCGAACATTAGCGACACTTTTCAAAAAACGCCGCTAAAGGCCCAAGAATTAGCGGCGCT
TTCTAAAAAACGCCGCTAAAGCCCCGAGCACTA
Found at i:15611439 original size:21 final size:21
Alignment explanation
Indices: 15611405--15611445 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15611395 ATATATTGTT
*
15611405 TTATATACAGTATACGTATGC
1 TTATATACAGTATACATATGC
* *
15611426 TTATATATATTATACATATG
1 TTATATACAGTATACATATG
15611446 TTTTTGTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
TTATATACAGTATACATATGC
Found at i:15616516 original size:14 final size:15
Alignment explanation
Indices: 15616490--15616522 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15616480 TCCCGAGCTG
15616490 GGAAGGACCTTATAT
1 GGAAGGACCTTATAT
*
15616505 GGAAGG-CCTTATTT
1 GGAAGGACCTTATAT
15616519 GGAA
1 GGAA
15616523 AAGAGTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATAT
Found at i:15618148 original size:175 final size:176
Alignment explanation
Indices: 15617852--15618340 Score: 755
Period size: 175 Copynumber: 2.8 Consensus size: 176
15617842 GTGAAGATAA
* * * * *
15617852 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTACATTCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
15617917 GTAGCGGAGTAGGTTAAAAATAGCAGATCTTGCATTCCTGCACCAACAGCGAAGCAGATCGAAGA
66 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
*
15617982 CACCAGCCTGGCCTCCCTGGGTTGCAGCGGAACAGGTT-AAAATAG
131 CACCAGCCTGGCCTCCCTGGGTTGCAGCGGAACAAGTTAAAAATAG
15618027 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
15618092 GTAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGTGAAGCAGATCGAAGA
66 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
* *
15618157 CACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAAGTTAAAAATAG
131 CACCAGCCTGGCCTCCCTGGGTTGCAGCGGAACAAGTTAAAAATAG
* * *
15618203 CAGATCTTACCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
** * * * *
15618268 GTAGCAAAGCAAGTTAAAAATATCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGATGA
66 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
*
15618333 CCCCAGCC
131 CACCAGCC
15618341 CTATCTCCCT
Statistics
Matches: 286, Mismatches: 27, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
175 154 0.54
176 132 0.46
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (176 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
CACCAGCCTGGCCTCCCTGGGTTGCAGCGGAACAAGTTAAAAATAG
Found at i:15618350 original size:88 final size:88
Alignment explanation
Indices: 15617852--15618340 Score: 737
Period size: 88 Copynumber: 5.6 Consensus size: 88
15617842 GTGAAGATAA
* * * * *
15617852 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTACATTCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
15617917 GTAGCGGAGTAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * *
15617940 CAGATCTTGCATTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTGGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
15618005 GCAGCGGAACAGGTT-AAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
15618027 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
15618092 GTAGTGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* *
15618115 CAGATCTTGCCTTCTTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
15618180 GCAGCGGAGCAAGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * *
15618203 CAGATCTTACCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
** * *
15618268 GTAGCAAAGCAAGTTAAAAATAT
66 GTAGCGGAGCAGGTTAAAAATAG
* * *
15618291 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
15618341 CTATCTCCCT
Statistics
Matches: 365, Mismatches: 35, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
87 81 0.22
88 284 0.78
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GTAGCGGAGCAGGTTAAAAATAG
Found at i:15618539 original size:50 final size:50
Alignment explanation
Indices: 15618485--15618588 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 50
15618475 ATCGCCTTGA
** * *
15618485 CGTTGCAATGGAAAAGATTGAAGCCACAACGACGAATCTTATTTCCCTGG
1 CGTTGCAACAGAAAAGATTGAAGCCACAACGACGAATCTTATCTCCCTAG
* * ** * *
15618535 CGTTGTAGCAGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAG
1 CGTTGCAACAGAAAAGATTGAAGCCACAACGACGAATCTTATCTCCCTAG
15618585 CGTT
1 CGTT
15618589 AAGGCTTGGA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (50 bp):
CGTTGCAACAGAAAAGATTGAAGCCACAACGACGAATCTTATCTCCCTAG
Found at i:15618878 original size:44 final size:44
Alignment explanation
Indices: 15618782--15619157 Score: 224
Period size: 44 Copynumber: 8.7 Consensus size: 44
15618772 AAGATGGTGA
* ** *
15618782 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-G
* * *
15618826 ATCCTATCTCCCTGAAGTCGTAGTGGAGCAGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * * * *
15618870 ATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-TCACATCTC-G
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * *
15618911 -TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCACAG
* * * * * **
15618955 -CCTTATC-CTTCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGC-G
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCACAG
* * * *
15618998 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTAATA-
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATCACAG
* * * **
15619043 ATCCTATATCGCTGAAGTTGCAGTGGAGTGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * ** *
15619087 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT-GCAT--CGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* *
15619127 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
15619158 TCCCAAGAAA
Statistics
Matches: 248, Mismatches: 66, Indels: 39
0.70 0.19 0.11
Matches are distributed among these distances:
40 42 0.17
41 13 0.05
42 10 0.04
43 21 0.08
44 133 0.54
45 26 0.10
46 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
Found at i:15618938 original size:84 final size:86
Alignment explanation
Indices: 15618830--15619035 Score: 206
Period size: 84 Copynumber: 2.4 Consensus size: 86
15618820 CCAATAATCC
* * * * *
15618830 TATCTCCCTGAAGTCGTAGTGGAGCAGATTAAAATCACAGATCTTAT-CTCTCTGAAGTTGCAGA
1 TATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAAGCA-AG-CCTTATCCT-TCTGAAGTTGCAGA
* * *
15618894 GA-GTAGA-T-CACATCTCG-TCT
63 GAGGCAGACTGAACATCGCGATCT
* * *
15618914 TATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGCCTTATCCTTCTGAAGTTGTAGTG
1 TATCTCCTTGAAGTTGCAGTGGAGCAGATTAA--AAGCAAGCCTTATCCTTCTGAAGTTGCAGAG
* *
15618979 AGGCAGACTGAAGATGGCGAATCT
64 AGGCAGACTGAACATCGCG-ATCT
15619003 TATCTCCTTGAAGTTGCAGTGGAGCAGATTAAA
1 TATCTCCTTGAAGTTGCAGTGGAGCAGATTAAA
15619036 GCTAATAATC
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
84 47 0.47
85 8 0.08
86 5 0.05
87 6 0.06
89 34 0.34
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (86 bp):
TATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAAGCAAGCCTTATCCTTCTGAAGTTGCAGAGAG
GCAGACTGAACATCGCGATCT
Found at i:15619030 original size:45 final size:44
Alignment explanation
Indices: 15618910--15619270 Score: 158
Period size: 44 Copynumber: 8.2 Consensus size: 44
15618900 ATCACATCTC
15618910 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* * * *
15618954 GCCTTATC-CTTCTGAAGTTGTAGT-GAGGCAGACTGAAG-ATGGCGAA
1 GTCTTATCTCCT-TGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGC-AA
* *
15619000 -TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTAA-TAA
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAA
* * ** * *
15619044 -TCCTATATCGC-TGAAGTTGCAGTGGAGTGGATTAA--AATCACA
1 GTCTTATCTC-CTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-A
* * * * **
15619086 GATCTTATCT-CTCTGAAGTTGCAG-AGAGCAGA-T-TG-CATCGG
1 G-TCTTATCTCCT-TGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* * * * * *
15619127 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGTCCCAAGAAAGCGA
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAG-ACTAAGTAAGCAA
* * * * * *
15619172 GTCTTA-CTCCCTGAAATTGTAGTGGAGTAGACTCAAGAAATCAA
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAA
* * * * * *
15619216 GTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAATAAACAA
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* *
15619260 ATCTCATCTCC
1 GTCTTATCTCC
15619271 CTAAATTTGT
Statistics
Matches: 240, Mismatches: 52, Indels: 50
0.70 0.15 0.15
Matches are distributed among these distances:
40 20 0.08
41 9 0.04
42 6 0.03
43 12 0.05
44 122 0.51
45 64 0.27
46 6 0.03
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
Found at i:15619147 original size:217 final size:217
Alignment explanation
Indices: 15618766--15619157 Score: 633
Period size: 217 Copynumber: 1.8 Consensus size: 217
15618756 GCAATTTAAA
*
15618766 AGACTGAAGATGGTGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* *
15618831 ATCTCCCTGAAGTCGTAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATATCCCTGAAGTCGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* * * *
15618896 GTAGATCACATCTCGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGCCTTAT
131 GCAGATCACATCGCGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGCCTTAT
15618961 CCTTCTGAAGTTGTAGTGAGGC
196 CCTTCTGAAGTTGTAGTGAGGC
*
15618983 AGACTGAAGATGGCGAATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTAATAATCC
1 AGACTGAAGATGGCGAATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCC
* * **
15619047 TATATCGCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
65 TATATCCCTGAAGTCGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
** *
15619112 AGCAGATTGCATCGGGTCTTATCTCCCTAAAGTTGCAGTGGAGCAG
130 AGCAGATCACATCGCGTCTTATCTCCCTAAAGTTGCAGTGGAGCAG
15619158 TCCCAAGAAA
Statistics
Matches: 159, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
216 3 0.02
217 156 0.98
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (217 bp):
AGACTGAAGATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
ATATCCCTGAAGTCGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCACATCGCGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGCCTTAT
CCTTCTGAAGTTGTAGTGAGGC
Found at i:15619196 original size:44 final size:45
Alignment explanation
Indices: 15619127--15619287 Score: 150
Period size: 44 Copynumber: 3.6 Consensus size: 45
15619117 ATTGCATCGG
* *
15619127 GTCTTATCTCCCT-AAAGTTGCAGTGGAGCAGTCCCAAGAAAGCGA
1 GTCTTATCTCCCTGAAA-TTGCAGTGGAGCAGACCCAAGAAAGCAA
* * * *
15619172 GTCTTA-CTCCCTGAAATTGTAGTGGAGTAGACTCAAGAAATCAA
1 GTCTTATCTCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGCAA
* * ** *
15619216 GTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAATAAA-CAA
1 GTCTTATCTCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGCAA
* * *
15619260 ATCTCATCTCCCT-AAATTTGTAGTGGAG
1 GTCTTATCTCCCTGAAA-TTGCAGTGGAG
15619288 TGGATTAGAA
Statistics
Matches: 96, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
43 3 0.03
44 56 0.58
45 37 0.39
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGCAA
Found at i:15619223 original size:217 final size:215
Alignment explanation
Indices: 15618780--15619252 Score: 592
Period size: 217 Copynumber: 2.2 Consensus size: 215
15618770 TGAAGATGGT
*
15618780 GAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTC
1 GAATCTTATC-TCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATATCCCTGAAGTC
* * *
15618845 GTAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCACATCTC
65 GCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCGC
* * * * *
15618910 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGCCTTATCCTTCTGAAGTTGT
130 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCAAGAAAGCAAGCCTTATCC-TCTGAAATTGT
* **
15618975 AGTGAGGCAGACTGAAGATGGC
194 AGTGAGGCAGACTCAAGAAAGC
* * *
15618997 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTAATAATCCTATATCGCTGAAGTT
1 GAATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATATCCCTGAAGTC
** ** *
15619062 GCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATCGG
65 GCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCGC
* * *
15619127 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGTCCCAAGAAAGCGAGTCTTACTCC-CTGAAATTG
130 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAG-ACCAAGAAAGCAAGCCTTA-TCCTCTGAAATTG
* *
15619191 TAGTG-GAGTAGACTCAAGAAATC
193 TAGTGAG-GCAGACTCAAGAAAGC
* * * *
15619214 -AAGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAA
1 GAA-TCTTAT-CTCCTGAAGTTGCAGTGGAGCAGATTAAA
15619253 TAAACAAATC
Statistics
Matches: 221, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
216 6 0.03
217 195 0.88
218 17 0.08
219 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (215 bp):
GAATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATATCCCTGAAGTCG
CAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCGCG
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCAAGAAAGCAAGCCTTATCCTCTGAAATTGTAG
TGAGGCAGACTCAAGAAAGC
Found at i:15619821 original size:19 final size:19
Alignment explanation
Indices: 15619797--15619888 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
15619787 AATCTTCAAG
15619797 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
15619816 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
15619835 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
15619854 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15619873 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
15619889 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15619841 original size:38 final size:38
Alignment explanation
Indices: 15619797--15619911 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
15619787 AATCTTCAAG
15619797 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
15619835 GATATGCAATCTTATATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
15619873 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
15619912 GATTTAATTT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 50 0.71
41 7 0.10
42 13 0.19
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:15619910 original size:23 final size:22
Alignment explanation
Indices: 15619797--15619911 Score: 92
Period size: 19 Copynumber: 5.7 Consensus size: 22
15619787 AATCTTCAAG
15619797 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
15619816 GATATGTAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
15619835 GATATGCAATCTT---ATATAT
1 GATATGCAATCTTAGAAGATAT
*
15619854 GATATGTAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
15619873 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
15619895 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
15619912 GATTTAATTT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 64 0.76
22 8 0.10
23 12 0.14
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:15619923 original size:23 final size:23
Alignment explanation
Indices: 15619880--15619922 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15619870 TATGATATGC
*
15619880 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATAATTTTGT
*
15619903 AATCTTAG-AGATTTAATTTT
1 AATCTTAGAAGATATAATTTT
15619923 TAGATACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
AATCTTAGAAGATATAATTTTGT
Found at i:15620140 original size:23 final size:23
Alignment explanation
Indices: 15620091--15620140 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
15620081 TGCGTTCTTA
* * *
15620091 ATTTGTTGATTTGTGTATAATTT
1 ATTTATTGATTTGTATATAATTG
**
15620114 ATTTATTGATTTGTATATTGTTG
1 ATTTATTGATTTGTATATAATTG
15620137 ATTT
1 ATTT
15620141 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
ATTTATTGATTTGTATATAATTG
Found at i:15620383 original size:13 final size:13
Alignment explanation
Indices: 15620365--15620394 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15620355 ATCTTGTATC
15620365 ATTATTATTATTT
1 ATTATTATTATTT
15620378 ATTATTATTATTT
1 ATTATTATTATTT
15620391 -TTAT
1 ATTAT
15620395 ATTCATGCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:15626145 original size:23 final size:23
Alignment explanation
Indices: 15626097--15626154 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
15626087 TTTTAAGTTA
* * *
15626097 TAAAATTTATTTGAGATATTACT
1 TAAAATTAATTTGAAATATTAAT
15626120 TAAAATTAATTATGAAATA-TAAT
1 TAAAATTAATT-TGAAATATTAAT
15626143 T-AAATT-ATTTGA
1 TAAAATTAATTTGA
15626155 TAAATACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 3 0.10
22 5 0.16
23 14 0.45
24 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (23 bp):
TAAAATTAATTTGAAATATTAAT
Found at i:15627972 original size:47 final size:47
Alignment explanation
Indices: 15627899--15627989 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
15627889 TAATAGGAAA
*
15627899 CCATAACTTTAGACTTAATGAGCAAGCACATATATGAATCATACATG
1 CCATAACTTTAGACTTAATGAACAAGCACATATATGAATCATACATG
15627946 CCATAACTTTAGACTTAATGAACAAGCACATATATGAATCATAC
1 CCATAACTTTAGACTTAATGAACAAGCACATATATGAATCATAC
15627990 GTTGTTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (47 bp):
CCATAACTTTAGACTTAATGAACAAGCACATATATGAATCATACATG
Found at i:15630100 original size:18 final size:17
Alignment explanation
Indices: 15630079--15630120 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
15630069 AGTTATTTTT
15630079 AAAATATAAGATATTTAA
1 AAAATATAAGAT-TTTAA
**
15630097 AAAATATATTATTTTAA
1 AAAATATAAGATTTTAA
15630114 AAAATAT
1 AAAATAT
15630121 GAATCTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
AAAATATAAGATTTTAA
Found at i:15639397 original size:18 final size:18
Alignment explanation
Indices: 15639371--15639405 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15639361 AGTTTTCAGG
* *
15639371 GTTCGCATATCAACATAC
1 GTTCACATAGCAACATAC
15639389 GTTCACATAGCAACATA
1 GTTCACATAGCAACATA
15639406 TAAGTGTTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (18 bp):
GTTCACATAGCAACATAC
Found at i:15641301 original size:33 final size:33
Alignment explanation
Indices: 15641264--15641327 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
15641254 CACACATGAC
15641264 GAGGTCATTGGACAAA-ATAGTTAGATGAATTGT
1 GAGGTCATTGGACAAAGA-AGTTAGATGAATTGT
15641297 GAGGTCATTGGACAAAGAAGTTAGATGAATT
1 GAGGTCATTGGACAAAGAAGTTAGATGAATT
15641328 ACTTTCATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (33 bp):
GAGGTCATTGGACAAAGAAGTTAGATGAATTGT
Found at i:15645660 original size:22 final size:22
Alignment explanation
Indices: 15645626--15645670 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
15645616 AAAAAATCCT
*
15645626 AGAAAACTGTAGAGAAAAACTAA
1 AGAAAACTATAGAG-AAAACTAA
15645649 AGAAAAC-ATAGAGAAAACTAA
1 AGAAAACTATAGAGAAAACTAA
15645670 A
1 A
15645671 CCTAAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
23 7 0.33
ACGTcount: A:0.64, C:0.09, G:0.16, T:0.11
Consensus pattern (22 bp):
AGAAAACTATAGAGAAAACTAA
Done.