Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 299 of 325
Found at i:95143468 original size:12 final size:12
Alignment explanation
Indices: 95143451--95143483 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
95143441 TTGAAGAACC
95143451 ATTAATCATGTT
1 ATTAATCATGTT
95143463 ATTAATCATGTT
1 ATTAATCATGTT
95143475 ATTAATCAT
1 ATTAATCAT
95143484 ATATGCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (12 bp):
ATTAATCATGTT
Found at i:95151826 original size:89 final size:87
Alignment explanation
Indices: 95151697--95151857 Score: 216
Period size: 89 Copynumber: 1.8 Consensus size: 87
95151687 ATTCGACGGA
*
95151697 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATG-TTT-ACATCGAAGCAGATCCAAGATG
95151762 ATTTGGCATCCTTGCGTTTACAAT
64 ATTTGGCATCCTTGCGTTTACAAT
* ** * * * *
95151786 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TGTTTACTTTGAAGCAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCA-GATGTTTACATCGAAGCAGATCCAAGATGA
95151850 TTTGGCAT
65 TTTGGCAT
95151858 ATCTGTACTG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 27 0.43
88 3 0.05
89 32 0.51
90 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTACATCGAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTTACAAT
Found at i:95151962 original size:220 final size:220
Alignment explanation
Indices: 95151580--95152170 Score: 943
Period size: 220 Copynumber: 2.7 Consensus size: 220
95151570 CAGGCTAAAG
* * * * * **
95151580 CATAGCAGATTTGACCTTT-AGGTGTTTACGCTGAAACAGATCCAAGATAATTTAACATCTCTGT
1 CATAGCAGATTTG-GCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGT
* *
95151644 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
65 ACTGTCAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
95151709 GACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
130 GACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
*
95151774 TGCGTTTACAATGAGCAGATCGAAGA
195 TGCGTTTACAAGGAGCAGATCGAAGA
** *
95151800 CATAGCAGATTTGGCTTTCACGTGTTTACTTTGAAGCAGATCTAAGATGATTTGGCATATCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * *
95151865 CTGTCAGAGAACAAATTGAAGAAACATATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAA
66 CTGTCAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* *
95151930 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGTATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
95151995 GCGTTTACAAGGAGCAGATCGAAGA
196 GCGTTTACAAGGAGCAGATCGAAGA
*
95152020 CATAGCAGATTTTGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
*
95152085 CTGTTAGAGAACAAATCT-AAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
66 CTGTCAGAGAACAAAT-TGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
* * *
95152149 GACACAGTAGATCTGACCTTCA
130 GACATAGCAGATCTAACCTTCA
95152171 TTGAAGCAGA
Statistics
Matches: 339, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
219 4 0.01
220 334 0.99
221 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
CTGTCAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
GCGTTTACAAGGAGCAGATCGAAGA
Found at i:95152221 original size:78 final size:78
Alignment explanation
Indices: 95152111--95152405 Score: 394
Period size: 78 Copynumber: 3.8 Consensus size: 78
95152101 CTAAGAAACA
** * * **
95152111 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
95152176 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
95152189 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAACATATTTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
*
95152254 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
95152267 GATTTGGCATATCTTTATTAGACGGGGAGAAGATCGAAGACATAATAGAT-TAGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCT-GACCTTCATTGA
*
95152331 AGCAGCTCCAAGAT
65 AGCAGATCCAAGAT
* * * *
95152345 TATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCAT
95152406 GTGTTTACAT
Statistics
Matches: 189, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
77 1 0.01
78 187 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:95152498 original size:45 final size:46
Alignment explanation
Indices: 95152434--95152612 Score: 251
Period size: 45 Copynumber: 4.0 Consensus size: 46
95152424 ATCCAAAATG
*
95152434 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAG-AGATA
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATA
* * *
95152479 ACAGATTTGGCATATCTGTATTTGACGGGGAGCAGAT-TGAAGA-A
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATA
* *
95152523 GCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC-GAAGATA
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATA
* *
95152568 ACAGATATGGCGTCTCTGTATTAGACGGGGAGCAGATCA-AAGATA
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATA
95152613 GCATATATCG
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
44 40 0.33
45 80 0.67
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.25
Consensus pattern (46 bp):
ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATA
Found at i:95152554 original size:89 final size:89
Alignment explanation
Indices: 95152435--95152604 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 89
95152425 TCCAAAATGA
*
95152435 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATC-AGAGATAACAGATTTGGCATATCTGTA
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA-AGATAACAGATATGGCATATCTGTA
*
95152499 TTTGACGGGGAGCAGATTGAAGAAG
65 TTAGACGGGGAGCAGATTGAAGAAG
* * * *
95152524 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATATGGCGTCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATATGGCATATCTGTAT
95152589 TAGACGGGGAGCAGAT
66 TAGACGGGGAGCAGAT
95152605 CAAAGATAGC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 73 0.99
90 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (89 bp):
CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATATGGCATATCTGTAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:95152980 original size:17 final size:19
Alignment explanation
Indices: 95152958--95153035 Score: 85
Period size: 19 Copynumber: 4.4 Consensus size: 19
95152948 ATGGAAATAT
95152958 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
95152975 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
95152994 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
* *
95153011 AATCTTAGATATG-TTTGC
1 AATCTTACATATGATATGC
95153029 AATCTTA
1 AATCTTA
95153036 GAAGATATGA
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
16 1 0.02
17 20 0.36
18 9 0.16
19 25 0.45
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:95152990 original size:19 final size:19
Alignment explanation
Indices: 95152966--95153037 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
95152956 ATAATCTTCA
95152966 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
95152985 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
95153004 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95153021 ATG-TTTGCAATCTTAGA
1 ATGATATGCAATCTTAGA
95153038 AGATATGATT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
16 1 0.02
17 14 0.28
18 10 0.20
19 25 0.50
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:95153043 original size:21 final size:23
Alignment explanation
Indices: 95153017--95153060 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
95153007 ATACAATCTT
95153017 AGATATG-TTT-GCAATCTTAGA
1 AGATATGATTTCGCAATCTTAGA
*
95153038 AGATATGATTTCGTAATCTTAGA
1 AGATATGATTTCGCAATCTTAGA
95153061 GATTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (23 bp):
AGATATGATTTCGCAATCTTAGA
Found at i:95153347 original size:18 final size:19
Alignment explanation
Indices: 95153324--95153360 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
95153314 ATGTTTCCCT
*
95153324 ATTTTTTTATAT-ATTTTA
1 ATTTTTTTAAATAATTTTA
95153342 ATTTTTTTAAATAATTTTA
1 ATTTTTTTAAATAATTTTA
95153361 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTTTAAATAATTTTA
Found at i:95154558 original size:16 final size:18
Alignment explanation
Indices: 95154532--95154564 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
95154522 TAGAACTGGG
95154532 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
95154549 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
95154565 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:95155763 original size:29 final size:29
Alignment explanation
Indices: 95155723--95155780 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
95155713 GAATCTGGAG
95155723 TTTTGAACTGCAGTAAGTGAGAATTAGGT
1 TTTTGAACTGCAGTAAGTGAGAATTAGGT
95155752 TTTTGAACTGCAGTAAGTGAGAATTAGGT
1 TTTTGAACTGCAGTAAGTGAGAATTAGGT
95155781 GAGTCTCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (29 bp):
TTTTGAACTGCAGTAAGTGAGAATTAGGT
Found at i:95156526 original size:27 final size:27
Alignment explanation
Indices: 95156487--95156538 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
95156477 CTTGTCAGCC
*
95156487 TTTGTGGCGTACTCTATAT-AGATTATG
1 TTTGTGGCATACTCTA-ATCAGATTATG
*
95156514 TTTGTGTCATACTCTAATCAGATTA
1 TTTGTGGCATACTCTAATCAGATTA
95156539 CTTTAGAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (27 bp):
TTTGTGGCATACTCTAATCAGATTATG
Found at i:95157726 original size:8 final size:8
Alignment explanation
Indices: 95157713--95157744 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
95157703 AGATATATAT
95157713 ATAAAATA
1 ATAAAATA
95157721 ATAAAATA
1 ATAAAATA
95157729 ATAAAATA
1 ATAAAATA
*
95157737 ATAGAATA
1 ATAAAATA
95157745 TATATTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (8 bp):
ATAAAATA
Found at i:95157761 original size:37 final size:36
Alignment explanation
Indices: 95157697--95157769 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
95157687 AATTATGCAT
*
95157697 AATAATAGATATATATATAAAATAATAAAATAATAA
1 AATAATAGATATATATATAAAAGAATAAAATAATAA
*
95157733 AATAATAGA-ATATATATTATAAAGAATAAAGTAATAA
1 AATAATAGATATATATA-TA-AAAGAATAAAATAATAA
95157770 TATAGATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 7 0.21
36 11 0.33
37 15 0.45
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (36 bp):
AATAATAGATATATATATAAAAGAATAAAATAATAA
Found at i:95157767 original size:29 final size:27
Alignment explanation
Indices: 95157728--95157782 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
95157718 ATAATAAAAT
*
95157728 AATAAAATAATAGAATATATATTATAAAG
1 AATAAAATAAT--AATATAGATTATAAAG
*
95157757 AATAAAGTAATAATATAGATTATAAA
1 AATAAAATAATAATATAGATTATAAA
95157783 ATGAAGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 14 0.58
29 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (27 bp):
AATAAAATAATAATATAGATTATAAAG
Found at i:95157895 original size:34 final size:35
Alignment explanation
Indices: 95157845--95157991 Score: 119
Period size: 36 Copynumber: 4.3 Consensus size: 35
95157835 TTTCAAAATT
* *
95157845 ATATATAATAATATATAATAAAATATGAAATATCCT-
1 ATATAT-ATAATATATAATAAAATATAAAATAT-ATA
* *
95157881 AT-TATATAATATATATTAAAACATAAAATAATATA
1 ATATATATAATATATAATAAAATATAAAAT-ATATA
* *
95157916 ATATATATAACATTTAATAAAATATAAAATAATATA
1 ATATATATAATATATAATAAAATATAAAAT-ATATA
* * *
95157952 AAATA-AT-ATATGTTAATATAATAT-AAA-A-ATA
1 ATATATATAATAT-ATAATAAAATATAAAATATATA
95157983 ATATATATA
1 ATATATATA
95157992 CTTGGAAATG
Statistics
Matches: 93, Mismatches: 12, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
31 7 0.08
32 3 0.03
34 28 0.30
35 20 0.22
36 35 0.38
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (35 bp):
ATATATATAATATATAATAAAATATAAAATATATA
Found at i:95157917 original size:5 final size:5
Alignment explanation
Indices: 95157847--95157991 Score: 64
Period size: 5 Copynumber: 28.0 Consensus size: 5
95157837 TCAAAATTAT
* * * *
95157847 ATATA ATA-A TATATA ATAAA ATATGAA ATATC CTATT ATATA ATATA
1 ATATA ATATA -ATATA ATATA ATAT--A ATATA ATATA ATATA ATATA
* * * * *
95157894 TATTAAA ACATA AAATA ATATA ATAT- ATATAA CATTTA ATAAA ATATA
1 -A-TATA ATATA ATATA ATATA ATATA ATAT-A -ATATA ATATA ATATA
* * * *
95157942 AAATA ATATA AAATA ATAT- ATGTTA ATATA ATATAA AAATA ATAT- ATATA
1 ATATA ATATA ATATA ATATA AT-ATA ATATA ATAT-A ATATA ATATA ATATA
95157992 CTTGGAAATG
Statistics
Matches: 103, Mismatches: 24, Indels: 26
0.67 0.16 0.17
Matches are distributed among these distances:
4 11 0.11
5 71 0.69
6 10 0.10
7 11 0.11
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:95157934 original size:24 final size:22
Alignment explanation
Indices: 95157886--95157990 Score: 68
Period size: 22 Copynumber: 4.5 Consensus size: 22
95157876 ATCCTATTAT
95157886 ATAATATATATTAAAACATAAA
1 ATAATATATATTAAAACATAAA
* **
95157908 ATAATATAATATATATAACATTTA
1 ATAATAT-ATAT-TAAAACATAAA
* * *
95157932 ATAAAATATA-AAATAATATAAA
1 ATAATATATATTAA-AACATAAA
* *
95157954 ATAATATATGTTAATATAATATAAAA
1 ATAATATATATT-A-A-AACAT-AAA
95157980 ATAATATATAT
1 ATAATATATAT
95157991 ACTTGGAAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.02
22 20 0.32
23 7 0.11
24 15 0.24
25 7 0.11
26 13 0.21
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (22 bp):
ATAATATATATTAAAACATAAA
Found at i:95164033 original size:23 final size:22
Alignment explanation
Indices: 95163964--95164038 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 22
95163954 CTGAGCTGAT
* *
95163964 GCTGAAAGGGTAAGCTCTATTGA
1 GCTGAAA-GGTAAGCTCCAATGA
* *
95163987 GCTGAATA-GTAAACT-CATACGA
1 GCTGAA-AGGTAAGCTCCA-ATGA
95164009 GCTGAAACGGTAAGCTCCAATGA
1 GCTGAAA-GGTAAGCTCCAATGA
95164032 GCTGAAA
1 GCTGAAA
95164039 ACAGTATATC
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
21 2 0.05
22 14 0.34
23 22 0.54
24 3 0.07
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (22 bp):
GCTGAAAGGTAAGCTCCAATGA
Found at i:95166116 original size:130 final size:129
Alignment explanation
Indices: 95165922--95166250 Score: 381
Period size: 130 Copynumber: 2.5 Consensus size: 129
95165912 AAACAATCGA
* * * * * * * * *
95165922 GAAATTGCTACCCAACACGTTAGGGCACGATCCCACGGATTGCCAAATACCAGATATCGCCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCGA-GAATTGCGAAACATCAAATATCGTCTTCG
* * * *
95165987 TTTTAGGGATTTTAAAAGACACGAGCGAAATTTTAAAGTGATATTCGATTATTTTGAGCAAATAC
65 TTTTAGGGATTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCGATTATTTTGAGCAAATAC
* * *
95166052 GAAATTGCAACCCAACACGTTAGGGCACGATTTCGAGAATTGCGAAACATCATATCTCATCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGA-TTCGAGAATTGCGAAACATCAAATATCGTCTTCG
* *** * * * *
95166117 TTTAAGGGATTTTAAAAGATGTGAATGGAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGC
65 TTTTAGGGATTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCGATTATTTTGAGCAAATAC
* *
95166182 GAAATTGCAACCCAACACGTTAGGGCACGATTCTGCGAATTGCCG-AACATCAAATTTCGTCTTC
1 GAAATTGCAACCCAACACGTTAGGGCACGATTC-GAGAATTG-CGAAACATCAAATATCGTCTTC
95166246 GTTTT
64 GTTTT
95166251 GAAGAATTTT
Statistics
Matches: 168, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
129 3 0.02
130 160 0.95
131 5 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (129 bp):
GAAATTGCAACCCAACACGTTAGGGCACGATTCGAGAATTGCGAAACATCAAATATCGTCTTCGT
TTTAGGGATTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCGATTATTTTGAGCAAATAC
Found at i:95167272 original size:23 final size:23
Alignment explanation
Indices: 95167242--95167287 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
95167232 ATATAAACAT
95167242 GTATAAAAATAATTTAAACTTTA
1 GTATAAAAATAATTTAAACTTTA
95167265 GTATAAAAATAATTTAAACTTTA
1 GTATAAAAATAATTTAAACTTTA
95167288 CGCAGTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
GTATAAAAATAATTTAAACTTTA
Found at i:95169377 original size:43 final size:43
Alignment explanation
Indices: 95169321--95169513 Score: 136
Period size: 43 Copynumber: 4.4 Consensus size: 43
95169311 TCTCAGCCTA
* *
95169321 CTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTG
1 CTCCACTGCAACTTTAGGGAGCTAGATTAGTGACTTAAATCTG
* * * * * * **
95169364 CTTCACTGCAACTTCAGGAAGTCAAGATTCGTCATCTTCGATCTG
1 CTCCACTGCAACTTTAGGGAG-CTAGATTAGTGA-CTTAAATCTG
* * * * ** * * * *
95169409 CTCCACTACAACTTCAGGGAAACGAGATCTA-AAATTTCAACCTA
1 CTCCACTGCAACTTTAGGG-AGCTAGAT-TAGTGACTTAAATCTG
*
95169453 CTCCACTGCAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTG
1 CTCCACTGCAACTTTAGGGAGCTAGATTAGTGACTTAAATCTG
* *
95169496 GTTCACTGCAACTTTAGG
1 CTCCACTGCAACTTTAGG
95169514 AAGCCAAGAT
Statistics
Matches: 110, Mismatches: 35, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
42 2 0.02
43 45 0.41
44 31 0.28
45 30 0.27
46 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (43 bp):
CTCCACTGCAACTTTAGGGAGCTAGATTAGTGACTTAAATCTG
Found at i:95169409 original size:45 final size:44
Alignment explanation
Indices: 95169358--95169689 Score: 151
Period size: 45 Copynumber: 7.5 Consensus size: 44
95169348 TAGTGACTTA
*
95169358 AATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGAAG-CAAGATTCGTCATCTTC
* * * * *
95169403 GATCTGCTCCACTACAACTTCAGGGAAACGAGA-TC-TAAAAT-TTC
1 AATCTGCTCCACTGCAACTTCA-GGAAGCAAGATTCGT--CATCTTC
* * * * * * * * *
95169447 AACCTACTCCACTGCAACTTTAGGGAGCTAGGTTAGTGA-CTTA
1 AATCTGCTCCACTGCAACTTCAGGAAGCAAGATTCGTCATCTTC
* * * *
95169490 AATCTGGTTCACTGCAACTTTAGGAAGCCAAGATTCATCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGAAG-CAAGATTCGTCATCTTC
* * * * *
95169535 GATCTGCTCCACTGTAACTTCAGGGAAACAATA-TC-TAAAAT-TTC
1 AATCTGCTCCACTGCAACTTCA-GGAAGCAAGATTCGT--CATCTTC
* * * * * * * * ** *
95169579 AACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGT-TTT
1 AATCTGCTCCACTGCAACTTCAGGAAGCAAGATTCGTCATCTTC
* **
95169622 AATCTGC-CTCACTGCAACTTCAGGAAGCCAAGATCCGTCGCCTTC
1 AATCTGCTC-CACTGCAACTTCAGGAAG-CAAGATTCGTCATCTTC
* *
95169667 GATCTGCTCCATTGCAACTTCAG
1 AATCTGCTCCACTGCAACTTCAG
95169690 ATAAACAAGA
Statistics
Matches: 204, Mismatches: 66, Indels: 34
0.67 0.22 0.11
Matches are distributed among these distances:
42 1 0.00
43 61 0.30
44 59 0.29
45 74 0.36
46 9 0.04
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGAAGCAAGATTCGTCATCTTC
Found at i:95169508 original size:132 final size:132
Alignment explanation
Indices: 95169184--95169834 Score: 815
Period size: 132 Copynumber: 4.9 Consensus size: 132
95169174 CAATCGTCAG
* *
95169184 CCTACTCCACTACAACTTTAGGGAGCTAGGGCGATAGT--C-TAAATCTGCTTCACTGCAACATC
1 CCTACTCCACTACAACTTTAGGGAGCTA--G-GTTAGTGACTTAAATCTGCTTCACTGCAACTTC
* ** * * * * * * *
95169246 AGGAAGCCTAGATTCACCGTCTTTGATCTGTTCCACTACAA-TCCCAGGGAAACAAAATCTATAT
63 AGGAAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACT-TCAGGGAAACAAGATCTAAAA
*
95169310 TTCTCAG
127 TT-TCAA
95169317 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
* * * *
95169382 AAGTCAAGATTCGTCATCTTCGATCTGCTCCACTACAACTTCAGGGAAACGAGATCTAAAATTTC
66 AAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTC
95169447 AA
131 AA
* * *
95169449 CCTACTCCACTGCAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGGTTCACTGCAACTTTAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
* * * *
95169514 AAGCCAAGATTCATCATCTTCGATCTGCTCCACTGTAACTTCAGGGAAACAATATCTAAAATTTC
66 AAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTC
95169579 AA
131 AA
* ** * *
95169581 CCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGTTTTAATCTGCCTCACTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
* * * **
95169646 AAGCCAAGATCCGTCGCCTTCGATCTGCTCCATTGCAACTTCAGATAAACAAGATCTAAAATTTC
66 AAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTC
95169711 AA
131 AA
* * * * *
95169713 CCTACTCCATTACAACTTTAGGGAGCTAGGTTGGTGGCTTTAATCTGCCTCACTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
* * * * * * *
95169778 AAGCCTAGATTCGCCGTCTTTGATATGCTTCACTGTAACTTCAAGGAAACAAGATCT
66 AAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCT
95169835 GTAGGATCAG
Statistics
Matches: 459, Mismatches: 55, Indels: 9
0.88 0.11 0.02
Matches are distributed among these distances:
130 5 0.01
131 1 0.00
132 350 0.76
133 102 0.22
134 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (132 bp):
CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
AAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTC
AA
Found at i:95181690 original size:130 final size:130
Alignment explanation
Indices: 95181418--95181895 Score: 329
Period size: 130 Copynumber: 3.7 Consensus size: 130
95181408 AATAAAGACC
* * * * * * ** * * * *
95181418 TAAAGGAATACTCGATTATTTTGAATAAACAAGAAATCACAACCCAGCACGATAAGGCATGATTC
1 TAAAGGGATATTCGATTATTTTAAACAAATACGAAATTGCAACCCAACACGATAGGGCACGATCC
* * * ** * * *
95181483 C-CGAATTGTCAAACATCAAGTATTGCCCTCGTTTTAAAGGATTTTTAGAAGAGC-CGAG-TGAA
66 CACGAATTGCCAAACACCAAATATCACCTTCG-TTTAAGGGA-TTTTAAAAGA-CACGAGCT-AA
95181545 ATTT
127 ATTT
* * * * *
95181549 TGAAGGGATATTTGATTGTTTTAAAC-AAT-CGAGAAATTGCTACCCAACACGTTAGGGCACGAT
1 TAAAGGGATATTCGATTATTTTAAACAAATAC--GAAATTGCAACCCAACACGATAGGGCACGAT
* * * *
95181612 CCCACGAATTGCCAAATACCAGATATTACCTTCGTTTTAGGGATTTTAAAAGACACGAGCTAAAT
64 CCCACGAATTGCCAAACACCAAATATCACCTTCGTTTAAGGGATTTTAAAAGACACGAGCTAAAT
95181677 TT
129 TT
* * * * * **
95181679 TAAAGTGATATTCGATTATTTTGAGCAAATACGAAATTGCAACCCAACACGATAGTGCATGATTT
1 TAAAGGGATATTCGATTATTTTAAACAAATACGAAATTGCAACCCAACACGATAGGGCACGATCC
** * * * *** * *
95181744 TGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGATGTGA-ATGGAATT
66 CACGAATTGCCAAACACCAAATATCACCTTCGTTTAAGGGATTTTAAAAGACACGAGCT-AAATT
95181808 T
130 T
** * * * * * * *
95181809 CGAAGGAAAATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTC
1 TAAAGGGATATTCGATTATTTTAAACAAATACGAAATTGCAACCCAACACGATAGGGCACGATCC
* * *
95181874 CGCGAATTGCCGAACATCAAAT
66 CACGAATTGCCAAACACCAAAT
95181896 TTCGTCTTCG
Statistics
Matches: 274, Mismatches: 65, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
129 2 0.01
130 192 0.70
131 56 0.20
132 24 0.09
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (130 bp):
TAAAGGGATATTCGATTATTTTAAACAAATACGAAATTGCAACCCAACACGATAGGGCACGATCC
CACGAATTGCCAAACACCAAATATCACCTTCGTTTAAGGGATTTTAAAAGACACGAGCTAAATTT
Found at i:95181904 original size:130 final size:129
Alignment explanation
Indices: 95181581--95181908 Score: 374
Period size: 130 Copynumber: 2.5 Consensus size: 129
95181571 AAACAATCGA
* * * * * *
95181581 GAAATTGCTACCCAACACGTTAGGGCACGATCCCACGAATTGCCAAATACCAGATATTAC-CTTC
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCA-A-ATTTCTCTTC
* * * *
95181645 GTTTTAGGGATTTTAAAAGACACGAGCTAAATTTTAAAGTGATATTCGATTATTTTGAGCAAATA
64 GTTTAAGGGATTTTAAAAGACACGAGATAAATTTCAAAGTGAAATTCGATTATTTTGAGCAAATA
95181710 C
129 C
* * * ** *
95181711 GAAATTGCAACCCAACACGATAGTGCATGATTTTGCGAATTGCCAAACATCAAATCTCATCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATTTC-TCTTCG
*** * *
95181776 TTTAAGGGATTTTAAAAGATGTGA-ATGGAATTTCGAAG-GAAAATTCGATTATTTTGAGCAAAT
65 TTTAAGGGATTTTAAAAGACACGAGAT-AAATTTCAAAGTG-AAATTCGATTATTTTGAGCAAAT
*
95181839 GC
128 AC
*
95181841 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGAACATCAAATTTCGTCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATTTC-TCTTCG
95181906 TTT
65 TTT
95181909 TGAAGAATTT
Statistics
Matches: 164, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
128 3 0.02
129 3 0.02
130 158 0.96
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (129 bp):
GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATTTCTCTTCGT
TTAAGGGATTTTAAAAGACACGAGATAAATTTCAAAGTGAAATTCGATTATTTTGAGCAAATAC
Found at i:95185719 original size:16 final size:17
Alignment explanation
Indices: 95185698--95185756 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 17
95185688 ATATTTAGTC
95185698 ATATAATAAATTA-TTA
1 ATATAATAAATTATTTA
95185714 ATATAATAAATATAATTTA
1 ATATAATAAAT-T-ATTTA
95185733 TTATATTAATAAATTATTTA
1 --ATA-TAATAAATTATTTA
95185753 ATAT
1 ATAT
95185757 TTCAATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
16 11 0.30
17 2 0.05
18 4 0.11
19 3 0.08
20 5 0.14
21 4 0.11
22 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATAAATTATTTA
Found at i:95185728 original size:22 final size:22
Alignment explanation
Indices: 95185703--95185746 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
95185693 TAGTCATATA
95185703 ATAAATTATTA-ATATAATAAAT
1 ATAAATTATTATAT-TAATAAAT
*
95185725 ATAATTTATTATATTAATAAAT
1 ATAAATTATTATATTAATAAAT
95185747 TATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTATATTAATAAAT
Found at i:95185782 original size:13 final size:14
Alignment explanation
Indices: 95185766--95185807 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
95185756 TTTCAATTTT
95185766 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
95185779 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
95185794 ATTTTAAATAATAT
1 ATTTT-AATAATAT
95185808 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:95185792 original size:16 final size:16
Alignment explanation
Indices: 95185770--95185806 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
95185760 AATTTTATTT
95185770 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
95185787 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
95185802 TAATA
1 TAATA
95185807 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:95185859 original size:15 final size:15
Alignment explanation
Indices: 95185839--95185894 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
95185829 ATTCAATATT
95185839 AATATTTTAATAATA
1 AATATTTTAATAATA
*
95185854 AATATTTATTAAAATTATA
1 AATA-TT-TT--AATAATA
*
95185873 AATATATTAATAATA
1 AATATTTTAATAATA
95185888 AAT-TTTT
1 AATATTTT
95185895 TGTAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:95188837 original size:18 final size:18
Alignment explanation
Indices: 95188814--95188853 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
95188804 TACTCTAGGT
95188814 TTTACACA-AAAAAAAATA
1 TTTACACACAAAAAAAA-A
95188832 TTTACACACAAAAAAAAA
1 TTTACACACAAAAAAAAA
95188850 TTTA
1 TTTA
95188854 GATTGAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (18 bp):
TTTACACACAAAAAAAAA
Found at i:95191840 original size:21 final size:21
Alignment explanation
Indices: 95191812--95191860 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
95191802 TTTACTCCTC
*
95191812 TCTT-GTTCATTTTATAATTT
1 TCTTAGTTCATTTTACAATTT
95191832 TCTTAGTTCATTTTACAATTT
1 TCTTAGTTCATTTTACAATTT
*
95191853 TATTAGTT
1 TCTTAGTT
95191861 TATGAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.61
Consensus pattern (21 bp):
TCTTAGTTCATTTTACAATTT
Found at i:95192257 original size:16 final size:16
Alignment explanation
Indices: 95192238--95192270 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95192228 AATTAATGTA
95192238 TTATATCATT-TATATT
1 TTATAT-ATTATATATT
95192254 TTATATATTATATATT
1 TTATATATTATATATT
95192270 T
1 T
95192271 GAATTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATATATTATATATT
Found at i:95209025 original size:29 final size:32
Alignment explanation
Indices: 95208943--95209040 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 32
95208933 TAAGCCTGAC
* * *
95208943 TATATTATT-TTTTAATTTCTTTTAAAAA-TAT
1 TATA-TATTATTTTAATTTATATTAAAAATTTT
* *
95208974 T-TATATTATTTTAATTTAATATTTAATATTTT
1 TATATATTATTTTAATTT-ATATTAAAAATTTT
95209006 TATATATTATTTT-A-TT-TATTAAAAATTTT
1 TATATATTATTTTAATTTATATTAAAAATTTT
95209035 TATATA
1 TATATA
95209041 GTCATCTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
29 21 0.38
30 11 0.20
31 9 0.16
32 4 0.07
33 11 0.20
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (32 bp):
TATATATTATTTTAATTTATATTAAAAATTTT
Found at i:95209521 original size:34 final size:34
Alignment explanation
Indices: 95209478--95209545 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
95209468 CCTAAATTAT
95209478 GCTAATATCTCTCTTCAAGGCTAAAAATAACTAA
1 GCTAATATCTCTCTTCAAGGCTAAAAATAACTAA
*
95209512 GCTAATATCTCTCTTCAAGGTTAAAAATAACTAA
1 GCTAATATCTCTCTTCAAGGCTAAAAATAACTAA
95209546 CTCTAGGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (34 bp):
GCTAATATCTCTCTTCAAGGCTAAAAATAACTAA
Found at i:95211125 original size:21 final size:21
Alignment explanation
Indices: 95211100--95211144 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
95211090 TTAATTATAA
* *
95211100 ATTCTAAATTCTCACTTTTTG
1 ATTCTAAATTCTCAATTCTTG
* *
95211121 ATTCTCAATTGTCAATTCTTG
1 ATTCTAAATTCTCAATTCTTG
95211142 ATT
1 ATT
95211145 TTTTATTCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTCTAAATTCTCAATTCTTG
Found at i:95213005 original size:63 final size:63
Alignment explanation
Indices: 95212905--95213076 Score: 177
Period size: 63 Copynumber: 2.7 Consensus size: 63
95212895 ATTTTTTTGT
* * * ** *
95212905 CACAAACATCACAGCACACACACTTATTCCCCACATCATCACCTTCACAT-CC-GATTTATTTTA
1 CACAAACACCACAGCACACACAATCATTCCTTACATCAACACCTTCA-ATACCAG-TTTATTTTA
* * * * *
95212968 CACAACCACCACAGCACACACAATCATTCCTTGCATCAACACATTTAGTACCAGTTTATTTTA
1 CACAAACACCACAGCACACACAATCATTCCTTACATCAACACCTTCAATACCAGTTTATTTTA
* * * *
95213031 CACAAGCACCACAACACGCACAATCATTCCTTACATTAACACCTTC
1 CACAAACACCACAGCACACACAATCATTCCTTACATCAACACCTTC
95213077 TCTAAAGATA
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
62 1 0.01
63 87 0.98
64 1 0.01
ACGTcount: A:0.35, C:0.35, G:0.05, T:0.25
Consensus pattern (63 bp):
CACAAACACCACAGCACACACAATCATTCCTTACATCAACACCTTCAATACCAGTTTATTTTA
Found at i:95216844 original size:49 final size:49
Alignment explanation
Indices: 95216767--95216863 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
95216757 TACAATATTG
95216767 TATCAACATTTGTTATTAATGAAGTCAGGTTAATTTCAAATCACATGCA
1 TATCAACATTTGTTATTAATGAAGTCAGGTTAATTTCAAATCACATGCA
* *
95216816 TATCTACATTTGTTATTAATGAAGTCAGGTTAATTTCAAGTCACATGC
1 TATCAACATTTGTTATTAATGAAGTCAGGTTAATTTCAAATCACATGC
95216864 TTTCTATCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (49 bp):
TATCAACATTTGTTATTAATGAAGTCAGGTTAATTTCAAATCACATGCA
Found at i:95227126 original size:2 final size:2
Alignment explanation
Indices: 95227119--95227143 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
95227109 TGAGAACTTT
95227119 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
95227144 GAATAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:95229853 original size:21 final size:21
Alignment explanation
Indices: 95229801--95229855 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
95229791 CTTTCAATGG
* *
95229801 TATCGCGATATCCTTTTTGGA
1 TATCGTGATATCCTTTTAGGA
*
95229822 TATCGTAATATCCTCTTTAGG-
1 TATCGTGATATCCT-TTTAGGA
*
95229843 TATTGTGATATCC
1 TATCGTGATATCC
95229856 ACCCTTCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (21 bp):
TATCGTGATATCCTTTTAGGA
Found at i:95229896 original size:30 final size:30
Alignment explanation
Indices: 95229860--95229920 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
95229850 ATATCCACCC
*
95229860 TTCAAAGAGGA-CCTCAAGGTTCAACATTGA
1 TTCAAAGAGGACCCT-AAGGCTCAACATTGA
95229890 TTCAAAGAGGACCCTAAGGCTCAACATTGA
1 TTCAAAGAGGACCCTAAGGCTCAACATTGA
95229920 T
1 T
95229921 CGAGGTATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (30 bp):
TTCAAAGAGGACCCTAAGGCTCAACATTGA
Found at i:95232875 original size:15 final size:16
Alignment explanation
Indices: 95232855--95232887 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95232845 TCACAATTAT
95232855 TTTATA-AAGTAAATA
1 TTTATAGAAGTAAATA
*
95232870 TTTATAGAAGTTAATA
1 TTTATAGAAGTAAATA
95232886 TT
1 TT
95232888 CTTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
TTTATAGAAGTAAATA
Found at i:95238348 original size:8 final size:8
Alignment explanation
Indices: 95238335--95238360 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
95238325 TGAAGCGATT
95238335 ATTTGAAA
1 ATTTGAAA
95238343 ATTTGAAA
1 ATTTGAAA
95238351 ATTTGAAA
1 ATTTGAAA
95238359 AT
1 AT
95238361 GGAATTTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
ATTTGAAA
Found at i:95239012 original size:25 final size:26
Alignment explanation
Indices: 95238955--95239013 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
95238945 ATTAACAATG
95238955 TATATATGATAATAATAGTAATAATA
1 TATATATGATAATAATAGTAATAATA
* * *
95238981 CAAATATGA-AATAATAGTGAACATATA
1 TATATATGATAATAATAGT-AATA-ATA
95239008 TATATA
1 TATATA
95239014 AAACATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
25 9 0.35
26 10 0.38
27 7 0.27
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.34
Consensus pattern (26 bp):
TATATATGATAATAATAGTAATAATA
Found at i:95239244 original size:27 final size:25
Alignment explanation
Indices: 95239173--95239306 Score: 117
Period size: 25 Copynumber: 5.1 Consensus size: 25
95239163 AAGTATATAC
* *
95239173 ATAGTATTAGAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
** *
95239198 ATAGCGTTAAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
95239223 ATAGTTATTAAAAAATATATACATAAGAT
1 ATAG-TATT-AAAAATATATACAT-A-AT
** *
95239252 AATATGTAAGAAAAAATATATAAATAAT
1 -ATA-GT-ATTAAAAATATATACATAAT
*
95239280 ATAGTATT-AAAATATTTACATAAT
1 ATAGTATTAAAAATATATACATAAT
95239304 ATA
1 ATA
95239307 TACATATTAG
Statistics
Matches: 87, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
24 17 0.20
25 25 0.29
26 4 0.05
27 16 0.18
28 3 0.03
29 3 0.03
30 17 0.20
31 2 0.02
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.34
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:95239381 original size:21 final size:20
Alignment explanation
Indices: 95239355--95239404 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
95239345 ACATAAATAT
* *
95239355 ATATATATTAAAGATATATAC
1 ATATATAATAAA-ACATATAC
95239376 ATATATAATAAAACATATAC
1 ATATATAATAAAACATATAC
95239396 -TA-ATAATAA
1 ATATATAATAA
95239405 TAATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 7 0.26
19 2 0.07
20 7 0.26
21 11 0.41
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATATAATAAAACATATAC
Found at i:95239415 original size:15 final size:16
Alignment explanation
Indices: 95239390--95239438 Score: 66
Period size: 15 Copynumber: 3.1 Consensus size: 16
95239380 ATAATAAAAC
*
95239390 ATATACTAATAATAATA
1 ATATA-TAATAATAGTA
95239407 ATATA-AATAATAGTA
1 ATATATAATAATAGTA
95239422 A-ATATAATAATAGTA
1 ATATATAATAATAGTA
95239437 AT
1 AT
95239439 TAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.10
15 21 0.72
17 5 0.17
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (16 bp):
ATATATAATAATAGTA
Found at i:95239454 original size:16 final size:15
Alignment explanation
Indices: 95239433--95239462 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
95239423 ATATAATAAT
95239433 AGTAATTAATATTAAA
1 AGTAATTAAT-TTAAA
95239449 AGTAATTAATTTAA
1 AGTAATTAATTTAA
95239463 TAATAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
AGTAATTAATTTAAA
Found at i:95245618 original size:53 final size:53
Alignment explanation
Indices: 95245477--95245627 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
95245467 ATAAGTGCGC
* **
95245477 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
95245530 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
95245583 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
95245628 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:95252579 original size:53 final size:53
Alignment explanation
Indices: 95252500--95252655 Score: 208
Period size: 53 Copynumber: 3.0 Consensus size: 53
95252490 GACGAAAAAT
* **
95252500 ATGTGATAA-GTG-CGTCCGTTTAAGACCATAACTGGGATATGGCATCGGTGCA
1 ATGTGATAATGTGAC-TCCGTATAAGACCATAACTGGGATATGGCATCGGTAAA
* *
95252552 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAAA
1 ATGTGATAATGTGACTCCGTATAAGACCATAACTGGGATATGGCATCGGTAAA
* ** *
95252605 ATGTGATAATGTGATTCCGTATAAGACCATGTCTGGGATATGGCTTCGGTA
1 ATGTGATAATGTGACTCCGTATAAGACCATAACTGGGATATGGCATCGGTA
95252656 TGATATGTGA
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
52 9 0.10
53 82 0.89
54 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAACTGGGATATGGCATCGGTAAA
Found at i:95259781 original size:27 final size:27
Alignment explanation
Indices: 95259758--95259828 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
95259748 GAGTATGGTT
* *
95259758 TTGAGTTTAATGTTTAAGCTTATGGGC
1 TTGAATTTAAGGTTTAAGCTTATGGGC
95259785 TTGAATTTAAGGTTTAAGCTTATGGGC
1 TTGAATTTAAGGTTTAAGCTTATGGGC
* *
95259812 TCGAATTTAGGGTTTAA
1 TTGAATTTAAGGTTTAA
95259829 AAGTTTAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (27 bp):
TTGAATTTAAGGTTTAAGCTTATGGGC
Found at i:95260495 original size:28 final size:28
Alignment explanation
Indices: 95260449--95260511 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
95260439 CTATTTATAT
*
95260449 GTTTATGGTTTAGGACTTAGGACTTAGG
1 GTTTATGGTTTAAGACTTAGGACTTAGG
** *
95260477 GTTTATGGTTTAA-AGCTTAGGGTTTATG
1 GTTTATGGTTTAAGA-CTTAGGACTTAGG
95260505 GTTTATG
1 GTTTATG
95260512 ATTTTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.21, C:0.05, G:0.30, T:0.44
Consensus pattern (28 bp):
GTTTATGGTTTAAGACTTAGGACTTAGG
Found at i:95260537 original size:21 final size:20
Alignment explanation
Indices: 95260511--95260577 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
95260501 TATGGTTTAT
95260511 GATTTTATATTTTAGGGTTGA
1 GATTTTATA-TTTAGGGTTGA
* * *
95260532 GATTTTAGATTTAAGGTTTA
1 GATTTTATATTTAGGGTTGA
*
95260552 TGA-TTTATAGTTTATGGTTTGA
1 -GATTTTATA-TTTA-GGGTTGA
95260574 GATT
1 GATT
95260578 CATGGTTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
20 14 0.40
21 16 0.46
22 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.52
Consensus pattern (20 bp):
GATTTTATATTTAGGGTTGA
Found at i:95260652 original size:22 final size:21
Alignment explanation
Indices: 95260611--95260653 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
95260601 ATATTTATTA
*
95260611 ATTTTAGGGTTTATGGTTTAG
1 ATTTTAGGGTTTATGATTTAG
95260632 ATTTTAAGGGTTTAAT-ATTTAG
1 ATTTT-AGGGTTT-ATGATTTAG
95260654 TGTTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 12 0.63
23 2 0.11
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (21 bp):
ATTTTAGGGTTTATGATTTAG
Found at i:95262027 original size:16 final size:16
Alignment explanation
Indices: 95262006--95262036 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95261996 CTATGAATAC
*
95262006 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
95262022 AAAATACAAAAGACA
1 AAAATACAAAAGACA
95262037 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:95262309 original size:22 final size:22
Alignment explanation
Indices: 95262279--95262344 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
95262269 AGTATTTTAA
* *
95262279 TTTAGGGTTTATGATTATAGTG
1 TTTAAGGTTTATGATTATAGAG
*
95262301 TTTAAGG-TTAT-A-TATCTGAG
1 TTTAAGGTTTATGATTAT-AGAG
*
95262321 TTTAAGGTTTA-GATTATATAG
1 TTTAAGGTTTATGATTATAGAG
95262342 TTT
1 TTT
95262345 TTAGTTTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
19 3 0.09
20 10 0.29
21 13 0.37
22 9 0.26
ACGTcount: A:0.27, C:0.02, G:0.21, T:0.50
Consensus pattern (22 bp):
TTTAAGGTTTATGATTATAGAG
Found at i:95262887 original size:7 final size:7
Alignment explanation
Indices: 95262877--95262917 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
95262867 TATGTGTTTG
95262877 GGTTTAA
1 GGTTTAA
95262884 GGTTTAA
1 GGTTTAA
*
95262891 GATTTAA
1 GGTTTAA
*
95262898 GATTTAA
1 GGTTTAA
95262905 GGTTTAA
1 GGTTTAA
95262912 GGTTTA
1 GGTTTA
95262918 GAGTTTTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (7 bp):
GGTTTAA
Found at i:95262923 original size:14 final size:13
Alignment explanation
Indices: 95262878--95262923 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
95262868 ATGTGTTTGG
95262878 GTTTAAGGTTTAA
1 GTTTAAGGTTTAA
*
95262891 GATTTAAGATTTAA
1 G-TTTAAGGTTTAA
95262905 GGTTTAAGGTTTAGA
1 -GTTTAAGGTTTA-A
95262920 GTTT
1 GTTT
95262924 TATGTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 1 0.04
14 25 0.89
15 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (13 bp):
GTTTAAGGTTTAA
Found at i:95263182 original size:29 final size:29
Alignment explanation
Indices: 95263134--95263202 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
95263124 TTAGTTTATG
*
95263134 GTTTAAGGTTTAGGATTTATGA-TTA-TAA
1 GTTTAAGGTTTAGGACTTAT-ATTTATTAA
95263162 GTTTAAAGGTTTAGTG-CTTATATTTATTAA
1 GTTT-AAGGTTTAG-GACTTATATTTATTAA
95263192 GTTTAAGGTTT
1 GTTTAAGGTTT
95263203 GGGTTTAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 5 0.14
29 23 0.64
30 8 0.22
ACGTcount: A:0.29, C:0.01, G:0.20, T:0.49
Consensus pattern (29 bp):
GTTTAAGGTTTAGGACTTATATTTATTAA
Found at i:95263665 original size:20 final size:20
Alignment explanation
Indices: 95263591--95263667 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
95263581 AATTTAAGTG
* *
95263591 TAGGGTTTAAGCTTTATGTT
1 TAGGGTTTAAGGTTTATATT
* *
95263611 TATGGTTT-AGAGTTTGTAATT
1 TAGGGTTTAAG-GTTTAT-ATT
* *
95263632 CTA-GATTTATGGTTTATATT
1 -TAGGGTTTAAGGTTTATATT
95263652 TAGGGTTTAAGGTTTA
1 TAGGGTTTAAGGTTTA
95263668 AGATTTATGA
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
19 4 0.09
20 25 0.58
21 11 0.26
22 3 0.07
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (20 bp):
TAGGGTTTAAGGTTTATATT
Found at i:95263714 original size:20 final size:20
Alignment explanation
Indices: 95263637--95263844 Score: 66
Period size: 20 Copynumber: 10.6 Consensus size: 20
95263627 TAATTCTAGA
95263637 TTTATGGTTTATATTTAGGG
1 TTTATGGTTTATATTTAGGG
* *
95263657 TTTAAGG-TT-TA---A-GA
1 TTTATGGTTTATATTTAGGG
* **
95263671 TTTATGATTTA-ATTGTAGTT
1 TTTATGGTTTATATT-TAGGG
95263691 TTTATGGTTTATATTTAGGG
1 TTTATGGTTTATATTTAGGG
* * *
95263711 TTTATAGTTTATGGTTT-TGG
1 TTTATGGTTTAT-ATTTAGGG
*
95263731 TTT-TGGTATTATGTTTAGGG
1 TTTATGGT-TTATATTTAGGG
** * *
95263751 TTTAAAGTTTGTTATTTTA-GA
1 TTTATGGTTT-ATA-TTTAGGG
* *
95263772 TTTAGGGTTTA-AGTTTAGTG
1 TTTATGGTTTATA-TTTAGGG
* * *
95263792 TTTAT-ATTTATGGTTTATGG
1 TTTATGGTTTAT-ATTTAGGG
95263812 TTTAT-GTTTA-AGGTTTAGGG
1 TTTATGGTTTATA--TTTAGGG
95263832 TTTTATGGTTTAT
1 -TTTATGGTTTAT
95263845 GGTTTAAATT
Statistics
Matches: 133, Mismatches: 33, Indels: 41
0.64 0.16 0.20
Matches are distributed among these distances:
14 6 0.05
15 4 0.03
18 2 0.02
19 19 0.14
20 70 0.53
21 23 0.17
22 9 0.07
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.56
Consensus pattern (20 bp):
TTTATGGTTTATATTTAGGG
Found at i:95263720 original size:7 final size:7
Alignment explanation
Indices: 95263691--95263850 Score: 86
Period size: 7 Copynumber: 23.6 Consensus size: 7
95263681 AATTGTAGTT
95263691 TTTATGG
1 TTTATGG
*
95263698 TTTAT-A
1 TTTATGG
*
95263704 TTTAGGG
1 TTTATGG
*
95263711 TTTATAG
1 TTTATGG
95263718 TTTATGG
1 TTTATGG
95263725 TTT-TGG
1 TTTATGG
95263731 TTT-TGG
1 TTTATGG
95263737 TATTAT-G
1 T-TTATGG
*
95263744 TTTAGGG
1 TTTATGG
**
95263751 TTTAAAG
1 TTTATGG
* **
95263758 TTTGTTA
1 TTTATGG
*
95263765 TTT-TAGA
1 TTTAT-GG
*
95263772 TTTAGGG
1 TTTATGG
*
95263779 TTTA-AG
1 TTTATGG
95263785 TTTA-GTG
1 TTTATG-G
*
95263792 TTTAT-A
1 TTTATGG
95263798 TTTATGG
1 TTTATGG
95263805 TTTATGG
1 TTTATGG
95263812 TTTAT-G
1 TTTATGG
*
95263818 TTTAAGG
1 TTTATGG
*
95263825 TTTAGGG
1 TTTATGG
95263832 TTTTATGG
1 -TTTATGG
95263840 TTTATGG
1 TTTATGG
95263847 TTTA
1 TTTA
95263851 AATTCAGAGT
Statistics
Matches: 119, Mismatches: 23, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
6 33 0.28
7 79 0.66
8 7 0.06
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.56
Consensus pattern (7 bp):
TTTATGG
Found at i:95263820 original size:13 final size:13
Alignment explanation
Indices: 95263691--95263850 Score: 78
Period size: 13 Copynumber: 11.8 Consensus size: 13
95263681 AATTGTAGTT
*
95263691 TTTATGGTTTATA
1 TTTATGGTTTATG
*
95263704 TTTAGGGTTTATAG
1 TTTATGGTTTAT-G
95263718 TTTATGGTTT-TGG
1 TTTATGGTTTAT-G
95263731 TTT-TGGTATTATG
1 TTTATGGT-TTATG
* *
95263744 TTTAGGGTTTAAAG
1 TTTATGGTTT-ATG
* **
95263758 TTTGTTATTT-TAG
1 TTTATGGTTTAT-G
* *
95263771 ATTTAGGGTTTAAG
1 -TTTATGGTTTATG
*
95263785 TTTA-GTGTTTATA
1 TTTATG-GTTTATG
95263798 TTTATGGTTTATGG
1 TTTATGGTTTAT-G
*
95263812 TTTAT-GTTTAAGG
1 TTTATGGTTT-ATG
*
95263825 TTTAGGGTTTTATGG
1 TTTATGG-TTTAT-G
95263840 TTTATGGTTTA
1 TTTATGGTTTA
95263851 AATTCAGAGT
Statistics
Matches: 109, Mismatches: 23, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
12 5 0.05
13 53 0.49
14 41 0.38
15 10 0.09
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.56
Consensus pattern (13 bp):
TTTATGGTTTATG
Found at i:95263862 original size:28 final size:28
Alignment explanation
Indices: 95263805--95263862 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
95263795 ATATTTATGG
* * *
95263805 TTTATGGTTTATGTTTAAGGTTTAGGGT
1 TTTATGGTTTATGTTTAAGATTCAGAGT
95263833 TTTATGGTTTATGGTTTAA-ATTCAGAGT
1 TTTATGGTTTAT-GTTTAAGATTCAGAGT
95263861 TT
1 TT
95263863 ATTATTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.21, C:0.02, G:0.24, T:0.53
Consensus pattern (28 bp):
TTTATGGTTTATGTTTAAGATTCAGAGT
Found at i:95263908 original size:20 final size:20
Alignment explanation
Indices: 95263784--95263909 Score: 71
Period size: 20 Copynumber: 6.2 Consensus size: 20
95263774 TAGGGTTTAA
95263784 GTTTAGTGTTTATA-TTTATG
1 GTTTA-TGTTTATAGTTTATG
*
95263804 GTTTATGGTTTAT-GTTTAAG
1 GTTTAT-GTTTATAGTTTATG
* *
95263824 GTTTAGGGTTTTATGGTTTATG
1 GTTTA-TG-TTTATAGTTTATG
** * * *
95263846 GTTTAAATTCAGAGTTTATT
1 GTTTATGTTTATAGTTTATG
* * *
95263866 ATTTCAT-TATAATA-TTTAGG
1 GTTT-ATGT-TTATAGTTTATG
95263886 GTTTATGTTTATAGTTTATG
1 GTTTATGTTTATAGTTTATG
95263906 GTTT
1 GTTT
95263910 TAATTTTGTT
Statistics
Matches: 79, Mismatches: 18, Indels: 18
0.69 0.16 0.16
Matches are distributed among these distances:
19 7 0.09
20 52 0.66
21 9 0.11
22 11 0.14
ACGTcount: A:0.22, C:0.02, G:0.21, T:0.56
Consensus pattern (20 bp):
GTTTATGTTTATAGTTTATG
Found at i:95264023 original size:14 final size:13
Alignment explanation
Indices: 95263919--95264024 Score: 50
Period size: 14 Copynumber: 7.8 Consensus size: 13
95263909 TTAATTTTGT
*
95263919 TTTAGGGTTTAAGG
1 TTTAGGGTTTAA-A
**
95263933 TTTAGAATTTAAGA
1 TTTAGGGTTTAA-A
* *
95263947 TTTATGGTTTATA
1 TTTAGGGTTTAAA
* * *
95263960 TATAGGTTTTAAGG
1 TTTAGGGTTTAA-A
** * *
95263974 TTTTTGGTTTGAG
1 TTTAGGGTTTAAA
*
95263987 TTTAGGGTTTAAT
1 TTTAGGGTTTAAA
*
95264000 TTTAGTGTTTATAA
1 TTTAGGGTTTA-AA
95264014 TTTAGGGTTTA
1 TTTAGGGTTTA
95264025 GCGTTTATTG
Statistics
Matches: 66, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
13 29 0.44
14 37 0.56
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.52
Consensus pattern (13 bp):
TTTAGGGTTTAAA
Found at i:95264190 original size:7 final size:7
Alignment explanation
Indices: 95264174--95264246 Score: 62
Period size: 7 Copynumber: 10.7 Consensus size: 7
95264164 ATGGCTTATA
*
95264174 TTTAGGG
1 TTTAGAG
*
95264181 TTTATAG
1 TTTAGAG
95264188 TTT-GAG
1 TTTAGAG
95264194 TTTA-ATG
1 TTTAGA-G
*
95264201 TTTATAG
1 TTTAGAG
*
95264208 TTTAGGG
1 TTTAGAG
95264215 TTTAGAG
1 TTTAGAG
*
95264222 TTTAGTG
1 TTTAGAG
95264229 TTT-GAG
1 TTTAGAG
*
95264235 TTTAGGG
1 TTTAGAG
95264242 TTTAG
1 TTTAG
95264247 GATTTGTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
6 11 0.21
7 41 0.77
8 1 0.02
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.51
Consensus pattern (7 bp):
TTTAGAG
Found at i:95264211 original size:14 final size:14
Alignment explanation
Indices: 95264174--95264246 Score: 71
Period size: 14 Copynumber: 5.4 Consensus size: 14
95264164 ATGGCTTATA
*
95264174 TTTAGGGTTTA-TAG
1 TTTAGAGTTTAGT-G
*
95264188 TTT-GAGTTTAATG
1 TTTAGAGTTTAGTG
* *
95264201 TTTATAGTTTAGGG
1 TTTAGAGTTTAGTG
95264215 TTTAGAGTTTAGTG
1 TTTAGAGTTTAGTG
*
95264229 TTT-GAGTTTAGGG
1 TTTAGAGTTTAGTG
95264242 TTTAG
1 TTTAG
95264247 GATTTGTTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
13 22 0.45
14 27 0.55
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.51
Consensus pattern (14 bp):
TTTAGAGTTTAGTG
Found at i:95264236 original size:27 final size:28
Alignment explanation
Indices: 95264187--95264246 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
95264177 AGGGTTTATA
*
95264187 GTTT-GAGTTTAATGTTTATAGTTTAGG
1 GTTTAGAGTTTAATGTTTAGAGTTTAGG
*
95264214 GTTTAGAGTTTAGTGTTT-GAGTTTAGG
1 GTTTAGAGTTTAATGTTTAGAGTTTAGG
95264241 GTTTAG
1 GTTTAG
95264247 GATTTGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (28 bp):
GTTTAGAGTTTAATGTTTAGAGTTTAGG
Found at i:95264246 original size:20 final size:20
Alignment explanation
Indices: 95264174--95264245 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
95264164 ATGGCTTATA
95264174 TTTAGGGTTTATAGTTTGAG
1 TTTAGGGTTTATAGTTTGAG
** *
95264194 TTTAATGTTTATAGTTTAGGG
1 TTTAGGGTTTATAGTTT-GAG
*
95264215 TTTAGAGTTTAGT-GTTTGAG
1 TTTAGGGTTTA-TAGTTTGAG
95264235 TTTAGGGTTTA
1 TTTAGGGTTTA
95264246 GGATTTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 27 0.63
21 15 0.35
22 1 0.02
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (20 bp):
TTTAGGGTTTATAGTTTGAG
Found at i:95264263 original size:27 final size:27
Alignment explanation
Indices: 95264187--95264264 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
95264177 AGGGTTTATA
* *
95264187 GTTT-GAGTTTAATGTTTATAGTTTAGG
1 GTTTAGAGTTTAGTATTT-TAGTTTAGG
* *
95264214 GTTTAGAGTTTAGTGTTTGAGTTTAGG
1 GTTTAGAGTTTAGTATTTTAGTTTAGG
95264241 GTTTAG-GATTT-GTTATTTTAGTTT
1 GTTTAGAG-TTTAG-TATTTTAGTTT
95264265 TAAGGTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 2 0.05
27 30 0.68
28 12 0.27
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (27 bp):
GTTTAGAGTTTAGTATTTTAGTTTAGG
Found at i:95264355 original size:20 final size:20
Alignment explanation
Indices: 95264305--95264375 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
95264295 AATTATAGTA
*
95264305 TTTAAGGTTTATA-TTTAGGG
1 TTTAAGGTTTATAGTTT-GAG
* *
95264325 TTTATA-ATTTATAGTTTGTG
1 TTTA-AGGTTTATAGTTTGAG
95264345 TTTAAGGTTTAGT-GTTTGAG
1 TTTAAGGTTTA-TAGTTTGAG
95264365 TTT-AGGTTTAT
1 TTTAAGGTTTAT
95264376 GGGTTATGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.02
19 8 0.19
20 29 0.67
21 5 0.12
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (20 bp):
TTTAAGGTTTATAGTTTGAG
Found at i:95264406 original size:7 final size:7
Alignment explanation
Indices: 95264364--95264410 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
95264354 TAGTGTTTGA
95264364 GTTTA-G
1 GTTTATG
95264370 GTTTATG
1 GTTTATG
*
95264377 GGTTATG
1 GTTTATG
*
95264384 GTTTATA
1 GTTTATG
95264391 GTTTATG
1 GTTTATG
*
95264398 GTTTGTG
1 GTTTATG
95264405 GTTTAT
1 GTTTAT
95264411 ATATAGGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (7 bp):
GTTTATG
Found at i:95264500 original size:13 final size:13
Alignment explanation
Indices: 95264479--95264513 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
95264469 TAGTTTAGGA
95264479 TATGATTAGGGTT
1 TATGATTAGGGTT
*
95264492 TATGCTTAGGGTT
1 TATGATTAGGGTT
95264505 TATGATTAG
1 TATGATTAG
95264514 TAATTTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.46
Consensus pattern (13 bp):
TATGATTAGGGTT
Found at i:95264540 original size:13 final size:13
Alignment explanation
Indices: 95264305--95264540 Score: 54
Period size: 13 Copynumber: 17.3 Consensus size: 13
95264295 AATTATAGTA
* *
95264305 TTTAAGGTTTATA
1 TTTAGGGTTTATG
*
95264318 TTTAGGGTTTATAA
1 TTTAGGGTTTAT-G
** *
95264332 TTTATAGTTTGTG
1 TTTAGGGTTTATG
*
95264345 TTTAAGGTTTAGTG
1 TTTAGGGTTTA-TG
* *
95264359 TTT-GAGTTTAGG
1 TTTAGGGTTTATG
95264371 TTTATGGG-TTATGG
1 TTTA-GGGTTTAT-G
**
95264385 TTTATAGTTTATGG
1 TTTAGGGTTTAT-G
*
95264399 TTT-GTGGTTTATA
1 TTTAG-GGTTTATG
* *
95264412 TATAGGTTTTAGTG
1 TTTAGGGTTTA-TG
*
95264426 TTT-TGGTTTGAT-
1 TTTAGGGTTT-ATG
*
95264438 TTTAGGGTTTAATA
1 TTTAGGGTTT-ATG
*
95264452 TTTAGTGTTTGATG
1 TTTAGGGTTT-ATG
*
95264466 TTATAGTTTAGG-ATATG
1 TT-TAG----GGTTTATG
*
95264483 ATTAGGGTTTATG
1 TTTAGGGTTTATG
*
95264496 CTTAGGGTTTATG
1 TTTAGGGTTTATG
* **
95264509 ATTAGTAATTTTACT-
1 TTTAG--GGTTTA-TG
95264524 TTTAGGGTTTATG
1 TTTAGGGTTTATG
95264537 TTTA
1 TTTA
95264541 TAGTTTAGTA
Statistics
Matches: 161, Mismatches: 40, Indels: 44
0.66 0.16 0.18
Matches are distributed among these distances:
12 10 0.06
13 75 0.47
14 55 0.34
15 11 0.07
16 4 0.02
17 4 0.02
18 1 0.01
19 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.25, T:0.53
Consensus pattern (13 bp):
TTTAGGGTTTATG
Found at i:95264825 original size:7 final size:7
Alignment explanation
Indices: 95264813--95265016 Score: 108
Period size: 7 Copynumber: 29.9 Consensus size: 7
95264803 TTATACTTAG
95264813 GGTTTAA
1 GGTTTAA
95264820 GGTTTATA
1 GGTTTA-A
*
95264828 -ATTTAA
1 GGTTTAA
*
95264834 TGTTT-A
1 GGTTTAA
95264840 GGTTTAA
1 GGTTTAA
95264847 GGTTTAA
1 GGTTTAA
95264854 GGTTTATA
1 GGTTTA-A
*
95264862 -ATTTATA
1 GGTTTA-A
95264869 --TTTAA
1 GGTTTAA
*
95264874 CGTTTAA
1 GGTTTAA
95264881 GGTTT-A
1 GGTTTAA
* *
95264887 TGTTTAG
1 GGTTTAA
*
95264894 GGTTTAG
1 GGTTTAA
*
95264901 GGTTTAT
1 GGTTTAA
*
95264908 GGTTTAT
1 GGTTTAA
95264915 GGTTT-A
1 GGTTTAA
*
95264921 TGTTTAA
1 GGTTTAA
*
95264928 GGTATAA
1 GGTTTAA
95264935 GGTTTATA
1 GGTTTA-A
95264943 -GTTTATA
1 GGTTTA-A
*
95264950 -GTTTAG
1 GGTTTAA
*
95264956 GGTTTAT
1 GGTTTAA
*
95264963 GATTCT-A
1 GGTT-TAA
*
95264970 GTTTTAA
1 GGTTTAA
*
95264977 GGTTTAT
1 GGTTTAA
95264984 GGTTTAA
1 GGTTTAA
95264991 GGTTTATA
1 GGTTTA-A
95264999 --TTTAA
1 GGTTTAA
*
95265004 GGTTTAG
1 GGTTTAA
95265011 GGTTTA
1 GGTTTA
95265017 TGATTTAATT
Statistics
Matches: 159, Mismatches: 23, Indels: 30
0.75 0.11 0.14
Matches are distributed among these distances:
5 2 0.01
6 24 0.15
7 128 0.81
8 5 0.03
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.50
Consensus pattern (7 bp):
GGTTTAA
Found at i:95264844 original size:27 final size:27
Alignment explanation
Indices: 95264809--95265016 Score: 136
Period size: 27 Copynumber: 7.4 Consensus size: 27
95264799 AGGGTTATAC
95264809 TTAGGGTTTAAGGTTTATAATTTAATGT
1 TTAGGGTTTAAGGTTTAT-ATTTAATGT
*
95264837 TTAGGTTTAAGGTTTAAGGTTTATAATTT-ATAT
1 TTA-G-----GGTTTAAGGTTTAT-ATTTAATGT
** * **
95264870 TTAACGTTTAAGGTTTATGTTTAGGGT
1 TTAGGGTTTAAGGTTTATATTTAATGT
* *
95264897 TTAGGGTTTATGGTTTATGGTTT-ATGT
1 TTAGGGTTTAAGGTTTAT-ATTTAATGT
* *
95264924 TTAAGGTATAAGGTTTATAGTTT-ATAGT
1 TTAGGGTTTAAGGTTTATA-TTTAAT-GT
* * *
95264952 TTAGGGTTTATGATTCTAGT-TTTAAGGT
1 TTAGGGTTTAAGGTT-TA-TATTTAATGT
* *
95264980 TTATGGTTTAAGGTTTATATTTAAGGT
1 TTAGGGTTTAAGGTTTATATTTAATGT
95265007 TTAGGGTTTA
1 TTAGGGTTTA
95265017 TGATTTAATT
Statistics
Matches: 141, Mismatches: 25, Indels: 29
0.72 0.13 0.15
Matches are distributed among these distances:
26 4 0.03
27 70 0.50
28 37 0.26
29 4 0.03
30 1 0.01
33 6 0.04
34 19 0.13
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.50
Consensus pattern (27 bp):
TTAGGGTTTAAGGTTTATATTTAATGT
Found at i:95264856 original size:34 final size:35
Alignment explanation
Indices: 95264813--95265016 Score: 138
Period size: 34 Copynumber: 6.0 Consensus size: 35
95264803 TTATACTTAG
*
95264813 GGTTTAAGGTTTATAATTTAATGTTTA-GGTTTAA
1 GGTTTAAGGTTTATAATTTAAGGTTTATGGTTTAA
**
95264847 GGTTTAAGGTTTATAATTTATA--TTTAACGTTTAA
1 GGTTTAAGGTTTATAATTTA-AGGTTTATGGTTTAA
* *** * *
95264881 GGTTT-ATGTTTAGGGTTTAGGGTTTATGGTTTAT
1 GGTTTAAGGTTTATAATTTAAGGTTTATGGTTTAA
* * * *
95264915 GGTTT-ATGTTTA-AGGTATAAGGTTTATAGTTTATA
1 GGTTTAAGGTTTATA-ATTTAAGGTTTATGGTTTA-A
* * * * *
95264950 -GTTTAGGGTTTATGATTCT-AGTTTTAAGGTTTAT
1 GGTTTAAGGTTTATAATT-TAAGGTTTATGGTTTAA
*
95264984 GGTTTAAGGTTTAT-ATTTAAGGTTTAGGGTTTA
1 GGTTTAAGGTTTATAATTTAAGGTTTATGGTTTA
95265017 TGATTTAATT
Statistics
Matches: 133, Mismatches: 26, Indels: 22
0.73 0.14 0.12
Matches are distributed among these distances:
33 15 0.11
34 87 0.65
35 30 0.23
36 1 0.01
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.50
Consensus pattern (35 bp):
GGTTTAAGGTTTATAATTTAAGGTTTATGGTTTAA
Found at i:95265007 original size:20 final size:20
Alignment explanation
Indices: 95264686--95265024 Score: 139
Period size: 20 Copynumber: 17.2 Consensus size: 20
95264676 GAGTTTAAAG
* *
95264686 TTTAGGGTTTAAAGTTTA-A
1 TTTAAGGTTTAAGGTTTATA
* *
95264705 TCATAAGGTTTAAGATTTATA
1 T-TTAAGGTTTAAGGTTTATA
* * *
95264726 TTTAGGGTTTAAGATTTGTTA
1 TTTAAGGTTTAAGGTTT-ATA
* *
95264747 TTCT-AGTTTTAAGGTTTTAAGA
1 TT-TAAGGTTTAAGG-TTT-ATA
*
95264769 TTTAAGGTTT-AGG-ATATAA
1 TTTAAGGTTTAAGGTTTAT-A
*
95264788 TTCTAATGG-TT-AGGGTTATA
1 TT-TAA-GGTTTAAGGTTTATA
* *
95264808 CTTAGGGTTTAAGGTTTATAA
1 TTTAAGGTTTAAGGTTTAT-A
*
95264829 TTTAATGTTT-AGGTTTA-A
1 TTTAAGGTTTAAGGTTTATA
*
95264847 GGTTTAAGGTTTATA-ATTTATA
1 --TTTAAGGTTTA-AGGTTTATA
* *
95264869 TTTAACGTTTAAGGTTTATG
1 TTTAAGGTTTAAGGTTTATA
* *
95264889 TTTAGGGTTT-AGGGTT-TA
1 TTTAAGGTTTAAGGTTTATA
* *
95264907 --T--GGTTTATGGTTTATG
1 TTTAAGGTTTAAGGTTTATA
*
95264923 TTTAAGGTATAAGGTTTATA
1 TTTAAGGTTTAAGGTTTATA
*
95264943 GTTTATA-GTTTAGGGTTTATGA
1 -TTTA-AGGTTTAAGGTTTAT-A
*
95264965 TTCT-AGTTTTAAGG-TT-TA
1 TT-TAAGGTTTAAGGTTTATA
95264983 --T--GGTTTAAGGTTTATA
1 TTTAAGGTTTAAGGTTTATA
*
95264999 TTTAAGGTTTAGGGTTTATGA
1 TTTAAGGTTTAAGGTTTAT-A
95265020 TTTAA
1 TTTAA
95265025 TTGTAAGGTT
Statistics
Matches: 239, Mismatches: 44, Indels: 72
0.67 0.12 0.20
Matches are distributed among these distances:
14 13 0.05
15 7 0.03
16 4 0.02
18 8 0.03
19 16 0.07
20 111 0.46
21 63 0.26
22 17 0.07
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (20 bp):
TTTAAGGTTTAAGGTTTATA
Found at i:95265023 original size:27 final size:27
Alignment explanation
Indices: 95264842--95265035 Score: 154
Period size: 27 Copynumber: 7.4 Consensus size: 27
95264832 AATGTTTAGG
*
95264842 TTTAAGGTTTAAGGTTTATAATTTATA
1 TTTAAGGTTTAAGGTTTATGATTTATA
* **
95264869 TTTAACGTTTAAGGTTTATG-TTTAGGG
1 TTTAAGGTTTAAGGTTTATGATTTA-TA
* * * *
95264896 TTTAGGGTTTATGGTTTATGGTTTATG
1 TTTAAGGTTTAAGGTTTATGATTTATA
* *
95264923 TTTAAGGTATAAGGTTTAT-AGTT-TA
1 TTTAAGGTTTAAGGTTTATGATTTATA
*
95264948 --T-A-GTTTAGGGTTTATGATTCTAGT-
1 TTTAAGGTTTAAGGTTTATGATT-TA-TA
* * *
95264972 TTTAAGGTTTATGGTTTAAGGTTTATA
1 TTTAAGGTTTAAGGTTTATGATTTATA
*
95264999 TTTAAGGTTTAGGGTTTATGATTTA-A
1 TTTAAGGTTTAAGGTTTATGATTTATA
95265025 TTGTAAGGTTT
1 TT-TAAGGTTT
95265036 TTGGTTTGTG
Statistics
Matches: 132, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
21 11 0.08
22 3 0.02
23 2 0.02
25 2 0.02
26 11 0.08
27 85 0.64
28 18 0.14
ACGTcount: A:0.25, C:0.01, G:0.23, T:0.51
Consensus pattern (27 bp):
TTTAAGGTTTAAGGTTTATGATTTATA
Found at i:95265041 original size:27 final size:26
Alignment explanation
Indices: 95264815--95265053 Score: 134
Period size: 27 Copynumber: 9.1 Consensus size: 26
95264805 ATACTTAGGG
** *
95264815 TTTAAGGTTTATAATTTAATG-TTTAGG
1 TTTAAGGTTTATGGTTT-ATGATTTA-A
* *
95264842 TTTAAGGTTTAAGGTTTATAATTTATA
1 TTTAAGGTTTATGGTTTATGATTTA-A
* * *
95264869 TTTAACGTTTAAGGTTTATG-TTTAGGG
1 TTTAAGGTTTATGGTTTATGATTTA--A
* * *
95264896 TTTAGGGTTTATGGTTTATGGTTTATG
1 TTTAAGGTTTATGGTTTATGATTTA-A
* *
95264923 TTTAAGGTATAAGGTTTAT-AGTTT-A
1 TTTAAGGTTTATGGTTTATGA-TTTAA
* *
95264948 --T-A-GTTTAGGGTTTATGATTCTAGT
1 TTTAAGGTTTATGGTTTATGATT-TA-A
* *
95264972 TTTAAGGTTTATGGTTTAAGGTTTATA
1 TTTAAGGTTTATGGTTTATGATTTA-A
*
95264999 TTTAAGGTTTAGGGTTTATGATTTAA
1 TTTAAGGTTTATGGTTTATGATTTAA
* * *
95265025 TTGTAAGGTTTTTGGTTTGTGATTCAA
1 TT-TAAGGTTTATGGTTTATGATTTAA
95265052 TT
1 TT
95265054 AAATATCATT
Statistics
Matches: 165, Mismatches: 34, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
21 13 0.08
22 3 0.02
23 1 0.01
26 10 0.06
27 120 0.73
28 18 0.11
ACGTcount: A:0.25, C:0.01, G:0.23, T:0.51
Consensus pattern (26 bp):
TTTAAGGTTTATGGTTTATGATTTAA
Found at i:95265681 original size:3 final size:3
Alignment explanation
Indices: 95265673--95265734 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
95265663 TTCCATTTTC
95265673 TCT TCT TCT TCT T-T TCT TCT TCT TC- TCT AT-T TCT TC- TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT
* *
95265715 TCT T-T TTT TGT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT
95265735 ATTACCCAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
2 9 0.18
3 41 0.80
4 1 0.02
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:95265689 original size:11 final size:11
Alignment explanation
Indices: 95265670--95265734 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
95265660 TACTTCCATT
*
95265670 TTCTCTTCTTC
1 TTCTTTTCTTC
95265681 TTCTTTTCTTC
1 TTCTTTTCTTC
*
95265692 TTCTTCTCTAT-
1 TTCTTTTCT-TC
*
95265703 TTCTTCTCTTC
1 TTCTTTTCTTC
* *
95265714 TTCTTTTTTTG
1 TTCTTTTCTTC
95265725 TTCTTCTTCT
1 TTCTT-TTCT
95265735 ATTACCCAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
10 1 0.02
11 40 0.89
12 4 0.09
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.69
Consensus pattern (11 bp):
TTCTTTTCTTC
Found at i:95265692 original size:14 final size:14
Alignment explanation
Indices: 95265673--95265732 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
95265663 TTCCATTTTC
95265673 TCTTCTTCTTCTTT
1 TCTTCTTCTTCTTT
95265687 TCTTCTTCTTCTCTATT
1 TCTTCTTC-T-TCT-TT
95265704 TCTTCTCTTCTTCTTT
1 TC-T-TCTTCTTCTTT
* *
95265720 TTTTGTTCTTCTT
1 TCTTCTTCTTCTT
95265733 CTATTACCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 17 0.44
15 2 0.05
16 6 0.15
17 7 0.18
18 2 0.05
19 5 0.13
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.70
Consensus pattern (14 bp):
TCTTCTTCTTCTTT
Found at i:95268682 original size:15 final size:15
Alignment explanation
Indices: 95268653--95268698 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
95268643 GAAATGAATG
*
95268653 AAGTTTTGCTCAATTT
1 AAGTTTGGCT-AATTT
*
95268669 AAGTTTGGCTAATTC
1 AAGTTTGGCTAATTT
*
95268684 AAGTTTGGTTAATTT
1 AAGTTTGGCTAATTT
95268699 TGGTCCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (15 bp):
AAGTTTGGCTAATTT
Found at i:95280438 original size:64 final size:63
Alignment explanation
Indices: 95280336--95280454 Score: 202
Period size: 64 Copynumber: 1.9 Consensus size: 63
95280326 TTTACTAATA
*
95280336 CTAAAACTGCAGTTAGTCTTCACAGCAACATACGTACGAAAAAGTGCCTGGCAACCCAACCTAT
1 CTAAAACTGCAGTTAGTCTTCACAGCAACATACATACG-AAAAGTGCCTGGCAACCCAACCTAT
* *
95280400 CTAAAAGTGCAGTTAGTCTTCACAGCAACATACATACGAAAAGTGTCTGGCAACC
1 CTAAAACTGCAGTTAGTCTTCACAGCAACATACATACGAAAAGTGCCTGGCAACC
95280455 ACCACCGATA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 16 0.31
64 36 0.69
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (63 bp):
CTAAAACTGCAGTTAGTCTTCACAGCAACATACATACGAAAAGTGCCTGGCAACCCAACCTAT
Found at i:95286804 original size:52 final size:52
Alignment explanation
Indices: 95286742--95286847 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
95286732 AACTGAAATC
95286742 CAACCTAAGCAATCCATGCAATAATTCCAAAATATCATAAAGGAAAAATTCT
1 CAACCTAAGCAATCCATGCAATAATTCCAAAATATCATAAAGGAAAAATTCT
95286794 CAACCTAAGCAATCCATGCAATAATTCCAAAATATCATAAAGGAAAAATTCT
1 CAACCTAAGCAATCCATGCAATAATTCCAAAATATCATAAAGGAAAAATTCT
95286846 CA
1 CA
95286848 CGCCACAGTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.48, C:0.22, G:0.08, T:0.23
Consensus pattern (52 bp):
CAACCTAAGCAATCCATGCAATAATTCCAAAATATCATAAAGGAAAAATTCT
Found at i:95287350 original size:21 final size:22
Alignment explanation
Indices: 95287313--95287363 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
95287303 GGACAAACCA
*
95287313 CCACATAATTCTCGAT-AACAG
1 CCACATAATTCGCGATAAACAG
*
95287334 CCACATAA-TCGCAGATAAACTG
1 CCACATAATTCGC-GATAAACAG
95287356 CCACATAA
1 CCACATAA
95287364 CTTATACCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.12
21 11 0.42
22 12 0.46
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.20
Consensus pattern (22 bp):
CCACATAATTCGCGATAAACAG
Found at i:95288745 original size:15 final size:18
Alignment explanation
Indices: 95288715--95288752 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
95288705 TTTGTTTGTT
95288715 AAAAAGGAGATAAAAT-A
1 AAAAAGGAGATAAAATGA
95288732 AAAAAGGA-AT-AAATGA
1 AAAAAGGAGATAAAATGA
95288748 AAAAA
1 AAAAA
95288753 ATGAGAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAAAGGAGATAAAATGA
Found at i:95299510 original size:40 final size:40
Alignment explanation
Indices: 95299465--95299545 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
95299455 ATTATGCTTG
* * *
95299465 AAAAAAAGAAAATCAAGATGAAAACTCGAAAAGGGCATCTT
1 AAAAAAA-AGAATCAAGATGAAAACCCAAAAAGGGCATCTT
* *
95299506 AAAAAAAAGGATCAAGGTGAAAACCCAAAAAGGGCATCTT
1 AAAAAAAAGAATCAAGATGAAAACCCAAAAAGGGCATCTT
95299546 GATTAACACA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 28 0.80
41 7 0.20
ACGTcount: A:0.54, C:0.14, G:0.19, T:0.14
Consensus pattern (40 bp):
AAAAAAAAGAATCAAGATGAAAACCCAAAAAGGGCATCTT
Found at i:95300629 original size:90 final size:89
Alignment explanation
Indices: 95300380--95300705 Score: 485
Period size: 88 Copynumber: 3.6 Consensus size: 89
95300370 TCTGTTCGTC
* *
95300380 AAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATGTTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATGTTG
95300445 GCTTTTCAATTTCTGCTTTTC-AA
66 GCTTTTCAATTTCTGCTTTTCAAA
*
95300468 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATGTTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATGTTG
95300533 GCTTTTCAATTTCTGCTTTTCAAAA
66 GCTTTTCAATTTCTGCTTTTC-AAA
* * * * **
95300558 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTAGGACACACTGAGGTATTTTAAAATCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT-CAATGTT
* * *
95300623 -GTTTTTCAATTTATGTTTTTCAAA
65 GGCTTTTCAATTTCTGCTTTTCAAA
*
95300647 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTT
95300706 TAGTTTCTGC
Statistics
Matches: 216, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
88 83 0.38
89 40 0.19
90 73 0.34
91 20 0.09
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (89 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATGTTG
GCTTTTCAATTTCTGCTTTTCAAA
Found at i:95300879 original size:77 final size:77
Alignment explanation
Indices: 95300636--95300861 Score: 362
Period size: 79 Copynumber: 2.9 Consensus size: 77
95300626 TTTCAATTTA
95300636 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
1 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
95300701 ATTTTTAGTTTC
66 ATTTTTAGTTTC
* * * * *
95300713 TGCTTTTCAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCATCGGGTCACACACTAAG
1 TGTTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAG
95300778 GTATTTTTAGTTTC
64 GTATTTTTAGTTTC
* * *
95300792 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGGTGAGGT
1 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
95300857 ATTTT
66 ATTTT
95300862 CAAAATCTAT
Statistics
Matches: 134, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
77 62 0.46
79 72 0.54
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (77 bp):
TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
ATTTTTAGTTTC
Found at i:95301690 original size:14 final size:14
Alignment explanation
Indices: 95301671--95301697 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95301661 ACCCTAGCTC
95301671 CCCACTTGCCTCTT
1 CCCACTTGCCTCTT
95301685 CCCACTTGCCTCT
1 CCCACTTGCCTCT
95301698 GCCACCACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.52, G:0.07, T:0.33
Consensus pattern (14 bp):
CCCACTTGCCTCTT
Found at i:95302585 original size:19 final size:19
Alignment explanation
Indices: 95302548--95302586 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
95302538 TACTATTTTA
*
95302548 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
*
95302567 TGTATATTTCTAACCTCAT
1 TGTATATTTCTAACATCAT
95302586 T
1 T
95302587 ATTATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.51
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:95303073 original size:36 final size:31
Alignment explanation
Indices: 95303004--95303092 Score: 92
Period size: 36 Copynumber: 2.8 Consensus size: 31
95302994 ACATATATAC
95303004 ATATTTATTA-ATATATTGT-TATGTCATTA
1 ATATTTATTATATATATTGTGTATGTCATTA
* *
95303033 ATATTTATAATATATATTGTGTATGTTCATTTTC
1 ATATTTATTATATATATTGTGTATG-TCA--TTA
*
95303067 ATATATTATGTATATATATTATGTAT
1 ATAT-TTAT-TATATATATTGTGTAT
95303093 ATATTTTAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
29 9 0.18
30 9 0.18
31 4 0.08
32 3 0.06
34 6 0.12
35 4 0.08
36 14 0.29
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
ATATTTATTATATATATTGTGTATGTCATTA
Found at i:95303085 original size:13 final size:13
Alignment explanation
Indices: 95303067--95303096 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
95303057 GTTCATTTTC
95303067 ATATATTATGTAT
1 ATATATTATGTAT
95303080 ATATATTATGTAT
1 ATATATTATGTAT
95303093 ATAT
1 ATAT
95303097 TTTAGTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (13 bp):
ATATATTATGTAT
Found at i:95303163 original size:12 final size:12
Alignment explanation
Indices: 95303148--95303172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95303138 ATATACTTTA
95303148 ATATATATATCT
1 ATATATATATCT
95303160 ATATATATATCT
1 ATATATATATCT
95303172 A
1 A
95303173 GCATTATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATATATATCT
Found at i:95306667 original size:45 final size:45
Alignment explanation
Indices: 95306616--95306702 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
95306606 ATCAATGCCT
* * *
95306616 AAAATGAGTAAGACCATATCTAAAAGATGTTATGACATCATGATA
1 AAAATGAGTAAGACCATAGCTAAAAGACGCTATGACATCATGATA
* * *
95306661 AAAATGAGTAAGACTATAGCTGAAAGACGCTATGGCATCATG
1 AAAATGAGTAAGACCATAGCTAAAAGACGCTATGACATCATG
95306703 TGAAAACACG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.24
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTAAAAGACGCTATGACATCATGATA
Found at i:95319748 original size:6 final size:6
Alignment explanation
Indices: 95319739--95319827 Score: 135
Period size: 6 Copynumber: 14.8 Consensus size: 6
95319729 AGCATTAGCA
* *
95319739 TCAGCT TCAGCT TCAGCT TCAGCA TCAGCT TCAGCT TCAGCA TCAGCT
1 TCAGCT TCAGCT TCAGCT TCAGCT TCAGCT TCAGCT TCAGCT TCAGCT
*
95319787 TCAGCT TCAGAAT T-AGCT TCAGCT TCAGCT TCAGCT TCAGC
1 TCAGCT TCAG-CT TCAGCT TCAGCT TCAGCT TCAGCT TCAGC
95319828 ATTAGCATCA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
5 2 0.03
6 71 0.95
7 2 0.03
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.30
Consensus pattern (6 bp):
TCAGCT
Found at i:95322738 original size:193 final size:194
Alignment explanation
Indices: 95322402--95322771 Score: 636
Period size: 193 Copynumber: 1.9 Consensus size: 194
95322392 ATTCTTCACG
* *
95322402 CACACACGCACACACGCAATCTTGTTTTGCTAAAACATTTTGATAAGCCAAATGTAAGCAGAACC
1 CACACACACACACACACAATCTTGTTTTGCTAAAACATTTTGATAAGCCAAATGTAAGCAGAACC
95322467 TTGAAATGTTTAGCACAAACTCACAGGGAAATACAAATGCAAATCTAATGAAACAAGTTGATCAA
66 TTGAAATGTTTAGCACAAACTCACAGGGAAATACAAATGCAAATCTAATGAAACAAGTTGATCAA
* *
95322532 ACCAGACGTTTTATAGAAAAAA-AAAAGGTCCCAAAGATCAAGTCCAGAGTCCAGACATACACA
131 ACCAAACGTTTTATAGAAAAAAGAAAAGGTCCCAAAGATCAAATCCAGAGTCCAGACATACACA
* * *
95322595 CACACACACACACACACAATCTTGTTTTGCTAAACCATTTTGCTAAGCCAAATGTAAGTAGAACC
1 CACACACACACACACACAATCTTGTTTTGCTAAAACATTTTGATAAGCCAAATGTAAGCAGAACC
95322660 TTGAAATGTTTAGCACAAACTCACAGGGAAATACAAATGCAAATCTAATGAAACAAGCTT-ATCA
66 TTGAAATGTTTAGCACAAACTCACAGGGAAATACAAATGCAAATCTAATGAAACAAG-TTGATCA
* *
95322724 AACCAAAGGTTTTATAGAAAAAAGAACAGGTCCCAAAGATCAAATCCA
130 AACCAAACGTTTTATAGAAAAAAGAAAAGGTCCCAAAGATCAAATCCA
95322772 CCAAAAAAAG
Statistics
Matches: 166, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
193 142 0.86
194 24 0.14
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (194 bp):
CACACACACACACACACAATCTTGTTTTGCTAAAACATTTTGATAAGCCAAATGTAAGCAGAACC
TTGAAATGTTTAGCACAAACTCACAGGGAAATACAAATGCAAATCTAATGAAACAAGTTGATCAA
ACCAAACGTTTTATAGAAAAAAGAAAAGGTCCCAAAGATCAAATCCAGAGTCCAGACATACACA
Found at i:95323897 original size:14 final size:15
Alignment explanation
Indices: 95323878--95323906 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
95323868 TGATACAATT
95323878 AGAAAATTCA-AGAG
1 AGAAAATTCACAGAG
95323892 AGAAAATTCACAGAG
1 AGAAAATTCACAGAG
95323907 TAAAAAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.10, G:0.21, T:0.14
Consensus pattern (15 bp):
AGAAAATTCACAGAG
Found at i:95328734 original size:9 final size:9
Alignment explanation
Indices: 95328720--95328794 Score: 96
Period size: 9 Copynumber: 8.3 Consensus size: 9
95328710 ATAAGTATAA
95328720 AATTAACCG
1 AATTAACCG
*
95328729 AATTAATCG
1 AATTAACCG
95328738 AATTAACCG
1 AATTAACCG
* *
95328747 AATTACCCA
1 AATTAACCG
* *
95328756 AATTACCCA
1 AATTAACCG
95328765 AATTAACCG
1 AATTAACCG
95328774 AATTAACCG
1 AATTAACCG
*
95328783 AATTAATCG
1 AATTAACCG
95328792 AAT
1 AAT
95328795 AAATTTATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:95328822 original size:5 final size:6
Alignment explanation
Indices: 95328807--95328847 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
95328797 ATTTATATGT
*
95328807 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
95328848 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:95331192 original size:26 final size:26
Alignment explanation
Indices: 95331153--95331232 Score: 97
Period size: 26 Copynumber: 3.1 Consensus size: 26
95331143 CTATAACGCA
95331153 ATCTCACCTTGCAACACCACCTTGCG
1 ATCTCACCTTGCAACACCACCTTGCG
* ** *
95331179 ATCTCACCTCGCAACACTGCATTGCG
1 ATCTCACCTTGCAACACCACCTTGCG
* * *
95331205 ATCTCACGTTGCAATACCACCTCGCG
1 ATCTCACCTTGCAACACCACCTTGCG
95331231 AT
1 AT
95331233 ACTACTTAGC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.24, C:0.39, G:0.14, T:0.24
Consensus pattern (26 bp):
ATCTCACCTTGCAACACCACCTTGCG
Found at i:95335617 original size:17 final size:17
Alignment explanation
Indices: 95335595--95335636 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
95335585 TTGACAGGGT
*
95335595 AAAGAGAAAATAGAGGA
1 AAAGAGAAAATAGAGAA
*
95335612 AAAGAGAAAATCGAGAA
1 AAAGAGAAAATAGAGAA
95335629 AAAG-GAAA
1 AAAGAGAAA
95335637 TACTGAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.05
Consensus pattern (17 bp):
AAAGAGAAAATAGAGAA
Found at i:95339002 original size:22 final size:22
Alignment explanation
Indices: 95338977--95339018 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
95338967 TCAAAACTAT
*
95338977 TACCCATGTCGCGAA-ACCAATA
1 TACCAATGTCGC-AACACCAATA
95338999 TACCAATGTCGCAACACCAA
1 TACCAATGTCGCAACACCAA
95339019 AGACAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (22 bp):
TACCAATGTCGCAACACCAATA
Found at i:95340295 original size:20 final size:21
Alignment explanation
Indices: 95340258--95340296 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
95340248 TGCGAAAGGC
* *
95340258 ATATTTTATTATTGTAACTAA
1 ATATTTAATAATTGTAACTAA
95340279 ATATTTAATAATT-TAACT
1 ATATTTAATAATTGTAACT
95340297 GAGATGATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (21 bp):
ATATTTAATAATTGTAACTAA
Found at i:95348837 original size:20 final size:19
Alignment explanation
Indices: 95348814--95348863 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
95348804 AATATCCAAT
95348814 GATTTACCAATATTTCTAAG
1 GATTTACCAATATTTCT-AG
*
95348834 GATTTAACAATATTTCTAG
1 GATTTACCAATATTTCTAG
95348853 GACTTTACCAA
1 GA-TTTACCAA
95348864 AATATTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
GATTTACCAATATTTCTAG
Found at i:95354726 original size:22 final size:22
Alignment explanation
Indices: 95354686--95354728 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
95354676 TAAATTATTA
*
95354686 ATATAATTTTATAATTGAGTTT
1 ATATAATTTTATAAATGAGTTT
95354708 ATATATATTTT-TAAATGAGTT
1 ATATA-ATTTTATAAATGAGTT
95354729 AGTGGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
ATATAATTTTATAAATGAGTTT
Found at i:95354926 original size:23 final size:24
Alignment explanation
Indices: 95354882--95354926 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
95354872 GTAAAGTTTG
* * *
95354882 ATGTTTTTATTTTGAATTTAAACT
1 ATGTTTTTATTATAAATATAAACT
95354906 ATGTTTTTA-TATAAATATAAA
1 ATGTTTTTATTATAAATATAAA
95354927 AACAAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (24 bp):
ATGTTTTTATTATAAATATAAACT
Found at i:95362186 original size:11 final size:11
Alignment explanation
Indices: 95362162--95362197 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
95362152 TTATTTTAAC
*
95362162 TATTT-AAAAG
1 TATTTAAAAAT
95362172 TATTTAAAAAT
1 TATTTAAAAAT
95362183 TATTTAAAAAT
1 TATTTAAAAAT
95362194 TATT
1 TATT
95362198 CACAAATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
TATTTAAAAAT
Found at i:95362239 original size:31 final size:31
Alignment explanation
Indices: 95362204--95362277 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
95362194 TATTCACAAA
* *
95362204 TATCATTATA-TTGAATTATTTAAATATCATT-
1 TATCATTATATTTAAATT-TTAAAATATC-TTG
*
95362235 TATCATTGTATTTAAATTTTAAAATATCTTG
1 TATCATTATATTTAAATTTTAAAATATCTTG
95362266 TATCATTA-ATTT
1 TATCATTATATTT
95362278 TACAAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 6 0.16
31 25 0.68
32 6 0.16
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (31 bp):
TATCATTATATTTAAATTTTAAAATATCTTG
Found at i:95362572 original size:34 final size:34
Alignment explanation
Indices: 95362529--95362598 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
95362519 GAACTAAGCC
*
95362529 TTAGACTTAGTGTTGTCGAAGGTGCACTGTGCTG
1 TTAGACTTAGTGCTGTCGAAGGTGCACTGTGCTG
95362563 TTAGACTTAGTGCTGTCGAAGGTGCACTGTGCTG
1 TTAGACTTAGTGCTGTCGAAGGTGCACTGTGCTG
95362597 TT
1 TT
95362599 TTGGCTAGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.36
Consensus pattern (34 bp):
TTAGACTTAGTGCTGTCGAAGGTGCACTGTGCTG
Found at i:95367289 original size:20 final size:21
Alignment explanation
Indices: 95367264--95367324 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
95367254 TGTTGTGTGT
95367264 AATTACACAAAATATTATC-C-
1 AATTACACAAAATATTA-CACG
*
95367284 AATTACACAAATTATTACAACG
1 AATTACACAAAATATTAC-ACG
*
95367306 AATTACACAAAACATTACA
1 AATTACACAAAATATTACA
95367325 AATTATTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 1 0.03
20 16 0.46
21 2 0.06
22 16 0.46
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26
Consensus pattern (21 bp):
AATTACACAAAATATTACACG
Found at i:95367312 original size:22 final size:21
Alignment explanation
Indices: 95367264--95367325 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
95367254 TGTTGTGTGT
95367264 AATTACACAAAATATTATC--C
1 AATTACACAAAATATTA-CAAC
*
95367284 AATTACACAAATTATTACAAC
1 AATTACACAAAATATTACAAC
*
95367305 GAATTACACAAAACATTACAA
1 -AATTACACAAAATATTACAA
95367326 ATTATTACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 1 0.03
20 16 0.44
21 1 0.03
22 18 0.50
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (21 bp):
AATTACACAAAATATTACAAC
Found at i:95370409 original size:3 final size:3
Alignment explanation
Indices: 95370403--95370431 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
95370393 CAACAATGGC
95370403 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
95370432 GCATAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:95371332 original size:36 final size:36
Alignment explanation
Indices: 95371256--95371414 Score: 111
Period size: 36 Copynumber: 4.1 Consensus size: 36
95371246 TGGTAAAATT
* * * * * *
95371256 AACAATAAAATAAGAGTTATATAATATCCAAACAAT
1 AACAACAAAATAATAGTAATATAATAACAAAACAAC
95371292 AACAACAAAATAATAGTAATATAATAACAAAATAGCAAC
1 AACAACAAAATAATAGTAATATAATAAC-AAA-A-CAAC
* * * * *
95371331 AAACAATAACAATAAAATAAGAGTTATATAATATCCAAACAAT
1 -AAC---AAC---AAAATAATAGTAATATAATAACAAAACAAC
* *
95371374 AACAACAAAATAATAGTAATATAATAACAAAATAGC
1 AACAACAAAATAATAGTAATATAATAACAAAACAAC
95371410 AACAA
1 AACAA
95371415 ACAATAACAA
Statistics
Matches: 95, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
36 52 0.55
37 2 0.02
38 1 0.01
39 6 0.06
40 3 0.03
42 3 0.03
43 6 0.06
44 1 0.01
45 2 0.02
46 19 0.20
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (36 bp):
AACAACAAAATAATAGTAATATAATAACAAAACAAC
Found at i:95371344 original size:82 final size:82
Alignment explanation
Indices: 95371255--95371424 Score: 340
Period size: 82 Copynumber: 2.1 Consensus size: 82
95371245 GTGGTAAAAT
95371255 TAACAATAAAATAAGAGTTATATAATATCCAAACAATAACAACAAAATAATAGTAATATAATAAC
1 TAACAATAAAATAAGAGTTATATAATATCCAAACAATAACAACAAAATAATAGTAATATAATAAC
95371320 AAAATAGCAACAAACAA
66 AAAATAGCAACAAACAA
95371337 TAACAATAAAATAAGAGTTATATAATATCCAAACAATAACAACAAAATAATAGTAATATAATAAC
1 TAACAATAAAATAAGAGTTATATAATATCCAAACAATAACAACAAAATAATAGTAATATAATAAC
95371402 AAAATAGCAACAAACAA
66 AAAATAGCAACAAACAA
95371419 TAACAA
1 TAACAA
95371425 AACAATAGTA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 88 1.00
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (82 bp):
TAACAATAAAATAAGAGTTATATAATATCCAAACAATAACAACAAAATAATAGTAATATAATAAC
AAAATAGCAACAAACAA
Done.