Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008149.1 Hibiscus syriacus cultivar Beakdansim tig00110715_pilon, whole genome shotgun sequence
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: 174755
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:276 original size:8 final size:8
Alignment explanation
Indices: 263--290 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
253 AAGATCTCCC
263 ATATGTAT
1 ATATGTAT
271 ATATGTAT
1 ATATGTAT
279 ATATGTAT
1 ATATGTAT
287 ATAT
1 ATAT
291 ATCTTCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:3798 original size:8 final size:8
Alignment explanation
Indices: 3755--3805 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3745 AAAATGAGTG
3755 AAAATGAA
1 AAAATGAA
3763 AAAAT-AA
1 AAAATGAA
*
3770 AAAATAAA
1 AAAATGAA
*
3778 AAAAT-AG
1 AAAATGAA
3785 AAAATGAA
1 AAAATGAA
3793 AAAATGGAA
1 AAAAT-GAA
3802 AAAA
1 AAAA
3806 AAGAAGGGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
7 13 0.34
8 18 0.47
9 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (8 bp):
AAAATGAA
Found at i:3802 original size:15 final size:15
Alignment explanation
Indices: 3754--3803 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
3744 AAAAATGAGT
3754 GAAAATGAAAAAATA
1 GAAAATGAAAAAATA
* *
3769 AAAAATAAAAAAATA
1 GAAAATGAAAAAATA
*
3784 GAAAATGAAAAAATG
1 GAAAATGAAAAAATA
3799 GAAAA
1 GAAAA
3804 AAAAGAAGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
GAAAATGAAAAAATA
Found at i:4786 original size:52 final size:52
Alignment explanation
Indices: 4657--4864 Score: 281
Period size: 52 Copynumber: 3.9 Consensus size: 52
4647 GATTGTTCGA
*
4657 GTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTGTGG
1 GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGA-TGTGG
* *
4710 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATTGATGAAGATGTGG
1 GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATGTGG
* * * * * *
4762 GTCTTATACTCTCTGAAGATATAGGGGGCAGACACAATCGTTGAAGATCGTTCGA
1 GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGAT-G-T-GG
* *
4817 GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGAT
1 GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGAT
4865 ATTCGAGTTC
Statistics
Matches: 140, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
52 50 0.36
53 45 0.32
54 1 0.01
55 44 0.31
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (52 bp):
GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGATGAAGATGTGG
Found at i:4848 original size:55 final size:54
Alignment explanation
Indices: 4642--5061 Score: 297
Period size: 53 Copynumber: 7.9 Consensus size: 54
4632 CCCAACAATA
*
4642 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTG
1 TTGAAGA-TGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTG
* * * *
4697 ATGAAGAT-TGT-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATTG
1 TTGAAGATGT-TCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTG
* * * * * *
4750 ATGAAGATG-T-GGGTCTTATACTCTCTGAAGATATAGGGGGCAGACACAATCG
1 TTGAAGATGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTG
*
4802 TTGAAGATCGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
1 TTGAAGAT-GTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTG
* * * * *
4857 TTGAAGATATTCGAGT-TC-TATTCTCCTTAAAGAAAGAAGGGAGC-GA-ACCCA--G
1 TTGAAGATGTTCGAGTCTCATACTCT-C-TGAAGAAA-TAGGGAGCAGACA-CAATTG
* * * ***
4909 TTGAAGATGTTCGAGT-TCTATACTC-CTTAAAGAAAGAAGGAGC-GA-ACCCGT-
1 TTGAAGATGTTCGAGTCTC-ATACTCTC-TGAAGAAATAGGGAGCAGACACAATTG
* * * ***
4960 TTGAAGATGTTCGAGT-TCTATACTCAT-TAAAGAAAGAAGGAGC-GA-ACCCGT-
1 TTGAAGATGTTCGAGTCTC-ATACTC-TCTGAAGAAATAGGGAGCAGACACAATTG
*
5011 TTGAAGAGATGTTCGAGT-TCTATACTCTCTGAAGGAATAGGGAGCAGACAC
1 TTG-A-AGATGTTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAGCAGACAC
5062 GTTTTTAAAA
Statistics
Matches: 317, Mismatches: 28, Indels: 40
0.82 0.07 0.10
Matches are distributed among these distances:
50 2 0.01
51 61 0.19
52 83 0.26
53 85 0.27
54 27 0.09
55 59 0.19
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (54 bp):
TTGAAGATGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTG
Found at i:4951 original size:106 final size:103
Alignment explanation
Indices: 4802--5145 Score: 328
Period size: 106 Copynumber: 3.3 Consensus size: 103
4792 GACACAATCG
* *
4802 TTGAAGATCGTTCGAG-TCTCATACT-CTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGAT
1 TTGAAGAT-GTTCGAGTTCT-ATACTCCT-TAAAGAAAGA-GGAGCAGACACG-TT-TTGAAGAT
*
4865 ATTCGAGTTCTATTCTCCTTAAAGAAAGAAGGGAGCGAACCCAG-
60 ATTCGAGTTCTATACTCCTTAAAGAAAGAAGGGAGCGAACCC-GT
* *
4909 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGC-GAACCCG-TTTGAAGATGTTC
1 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAG-AGGAGCAG-ACACGTTTTGAAGATATTC
*
4972 GAGTTCTATACTCATTAAAGAAAGAA-GGAGCGAACCCGT
64 GAGTTCTATACTCCTTAAAGAAAGAAGGGAGCGAACCCGT
* * *
5011 TTGAAGAGATGTTCGAGTTCTATACTCTCTGAAGGAATAG-GGAGCAGACACGTTTTTAAAAGAT
1 TTG-A-AGATGTTCGAGTTCTATACTC-CTTAAAGAA-AGAGGAGCAGACACG-TTTT-GAAGAT
* * * *
5075 TTTCG-GTTCTATACTCCCTGAAGAAAG-AGGGAGAGAACCCGT
60 ATTCGAGTTCTATACTCCTTAAAGAAAGAAGGGAGCGAACCCGT
* *
5117 TTGCAGAAGATTTTCAAGTTCTATACTCC
1 TT---GAAGATGTTCGAGTTCTATACTCC
5146 CTGAAGTAAG
Statistics
Matches: 203, Mismatches: 17, Indels: 35
0.80 0.07 0.14
Matches are distributed among these distances:
101 1 0.00
102 14 0.07
103 36 0.18
104 31 0.15
105 10 0.05
106 67 0.33
107 42 0.21
108 1 0.00
109 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (103 bp):
TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAGGAGCAGACACGTTTTGAAGATATTCGA
GTTCTATACTCCTTAAAGAAAGAAGGGAGCGAACCCGT
Found at i:4972 original size:51 final size:51
Alignment explanation
Indices: 4857--5170 Score: 314
Period size: 51 Copynumber: 6.0 Consensus size: 51
4847 GACACGATTG
* *
4857 TTGAAGATATTCGAGTTCTATTCTCCTTAAAGAAAGAAGGGAGCGAACCCAG-
1 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAA-GGAGCGAACCC-GT
4909 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
1 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
*
4960 TTGAAGATGTTCGAGTTCTATACTCATTAAAGAAAGAAGGAGCGAACCCGT
1 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
* * *
5011 TTGAAGAGATGTTCGAGTTCTATACTCTCTGAAGGAATAG--GGAGC-AGACACGTTT
1 TTG-A-AGATGTTCGAGTTCTATACTC-CTTAAAGAA-AGAAGGAGCGA-ACCCG--T
* * * * * *
5066 TTAAAAGATTTTCG-GTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCCGT
1 TT-GAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
* * * * * *
5117 TTGCAGAAGATTTTCAAGTTCTATACTCCCTGAAGTAAGAGGGAGCGAACCCGT
1 TT---GAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
5171 AAGCAAAAGA
Statistics
Matches: 228, Mismatches: 19, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
50 1 0.00
51 69 0.30
52 43 0.19
53 59 0.26
54 50 0.22
55 6 0.03
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (51 bp):
TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
Found at i:5157 original size:54 final size:53
Alignment explanation
Indices: 4804--5221 Score: 336
Period size: 54 Copynumber: 7.9 Consensus size: 53
4794 CACAATCGTT
* * * * *
4804 GAAGATCGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGAT-GTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTG-A
* * * *
4859 GAAGATATTCGAGTTCTATTCTCCTTAAAGAAAGAAGGGAGCGAACCCAG-TT--
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAG-AGGGAGCGAACCC-GTTTGA
* * *
4911 GAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTT--
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGA
** * *
4962 GAAGATGTTCGAGTTCTATACTCATTAAAGAAAGAAGGAGCGAACCCGTTTGA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGA
* * * * *
5015 -AGAGATGTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGC-AGACACGTTTTTA
1 GA-AGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGA-ACCCG-TTTGA
* * *
5069 AAAGATTTTCG-GTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCCGTTTGCA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG-A
* * * **
5122 GAAGATTTTCAAGTTCTATACTCCCTGAAGTAAGAGGGAGCGAACCCGTAAGCA
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG-A
* * * * * *
5176 AAAGATTGTACGAGTT-TCTACTCCATGAAGGAATAGGGAGCGAACC
1 GAAGA-TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACC
5222 TGTTGTCTGA
Statistics
Matches: 308, Mismatches: 40, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
50 1 0.00
51 64 0.21
52 37 0.12
53 76 0.25
54 99 0.32
55 29 0.09
56 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (53 bp):
GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGA
Found at i:9694 original size:45 final size:45
Alignment explanation
Indices: 9621--9761 Score: 146
Period size: 45 Copynumber: 3.1 Consensus size: 45
9611 TTGAAAGAGG
* *
9621 AGTCAACCTTTTAGTATTGTC-TTCCTTGACTTTATCTTGTAGAAGA
1 AGTCAATCTTTTAGTGTTGTCATT-CTTGACTTT-TCTTGTAGAAGA
* * *
9667 A-TCGATCTTTTAGTGTTGTCATTCTTGAC-TTTCTCGTAAAGAGA
1 AGTCAATCTTTTAGTGTTGTCATTCTTGACTTTTCTTGTAGA-AGA
* * *
9711 AGTCAATCTTTCAGTGTTGTGATTCTTGACTTTCTCGTGTAGAAG-
1 AGTCAATCTTTTAGTGTTGTCATTCTTGACTTT-TCTTGTAGAAGA
9756 AGTCAA
1 AGTCAA
9762 CTAGTTTGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
43 7 0.09
44 6 0.08
45 53 0.67
46 7 0.09
47 6 0.08
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.42
Consensus pattern (45 bp):
AGTCAATCTTTTAGTGTTGTCATTCTTGACTTTTCTTGTAGAAGA
Found at i:10579 original size:82 final size:82
Alignment explanation
Indices: 10442--10937 Score: 504
Period size: 82 Copynumber: 6.1 Consensus size: 82
10432 TCTTATCTCA
* * * *
10442 CTGAATGAATAGTAGAGCAGACATGTCTTCCAAAATAGATATGTCTACCCG-AAAGAGAGGCACA
1 CTGAATGAATAGTAGAGCAGACA-CTCTTTCAAAATAGATCTGTCTACCCGAAAAAAGAGGCACA
* *
10506 TATCAAGTCTAATTTTCC
65 TATCAAGTCTGATTTCCC
* * * *
10524 CTGAATGAATAGTGGAGCATACA-TCTTTCAAAATAGATCTGTCTACCCG-AAAAAGAGGTACAG
1 CTGAATGAATAGTAGAGCAGACACTCTTTCAAAATAGATCTGTCTACCCGAAAAAAGAGGCACAT
*
10587 ATCAAGTCTGATTTTCC
66 ATCAAGTCTGATTTCCC
* * *
10604 CTGAATGAATAGTAGAGCAGACACTTCTTCCAAAATATATATGTCTACCC-AAAAAAGAGGCACA
1 CTGAATGAATAGTAGAGCAGACAC-TCTTTCAAAATAGATCTGTCTACCCGAAAAAAGAGGCACA
*
10668 TATCAAGTCTTATTTCCC
65 TATCAAGTCTGATTTCCC
* * * *
10686 CTGAATGAATAGTGGAGTAAACACGTCTTTCAAAATAGATCTGTCTACCTGAAAAAAGAGGCACA
1 CTGAATGAATAGTAGAGCAGACAC-TCTTTCAAAATAGATCTGTCTACCCGAAAAAAGAGGCACA
*
10751 AATCAAGTCTGATTTCCC
65 TATCAAGTCTGATTTCCC
* * * * * * *
10769 CTGAATGAATAGTAGAGTATACACGTC-TTCTAAAATTGATCTGACTACCTG-AAAAAGAAGAAC
1 CTGAATGAATAGTAGAGCAGACAC-TCTTTC-AAAATAGATCTGTCTACCCGAAAAAAGAGGCAC
*
10832 ATATCAAGTCTGATCTCCC
64 ATATCAAGTCTGATTTCCC
** * * * * * * * * *
10851 CTGAAAAAAGAGTGGAACAGACTCATC-TTCTAAATTTGATCCGACTACCCG-AAAAAGAGGAAC
1 CTGAATGAATAGTAGAGCAGACAC-TCTTTC-AAAATAGATCTGTCTACCCGAAAAAAGAGGCAC
* *
10914 ATATCAAGTTTGATTTACC
64 ATATCAAGTCTGATTTCCC
10933 CTGAA
1 CTGAA
10938 AGAAAAGCGG
Statistics
Matches: 358, Mismatches: 51, Indels: 10
0.85 0.12 0.02
Matches are distributed among these distances:
80 72 0.20
82 213 0.59
83 73 0.20
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (82 bp):
CTGAATGAATAGTAGAGCAGACACTCTTTCAAAATAGATCTGTCTACCCGAAAAAAGAGGCACAT
ATCAAGTCTGATTTCCC
Found at i:10826 original size:165 final size:162
Alignment explanation
Indices: 10442--10993 Score: 615
Period size: 165 Copynumber: 3.4 Consensus size: 162
10432 TCTTATCTCA
* * *
10442 CTGAATGAATAGTAGAGCAGACATGTCTTCCAAAATAGATATGTCTACCCGAAAGAGAGGCACAT
1 CTGAATGAATAGTAGAGCAGACACGTCTTCCAAAATTGATATGTCTACCCGAAAAAGAGGCACAT
* *
10507 ATCAAGTCTAATTTTCCCTGAATGAATAGTGGAGCATACATCTTTCAAAATAGATCTGTCTACCC
66 ATCAAGTCTAATTTCCCCTGAATGAATAGTGGAGCAAACATCTTTCAAAATAGATCTGTCTACCC
* * *
10572 GAAAAAGAGGTACAGATCAAGTCTGATTTTCC
131 GAAAAAGAGGCACAAATCAAGTCTGATTTCCC
* *
10604 CTGAATGAATAGTAGAGCAGACACTTCTTCCAAAATAT-ATATGTCTACCCAAAAAAGAGGCACA
1 CTGAATGAATAGTAGAGCAGACACGTCTTCCAAAAT-TGATATGTCTACCCGAAAAAGAGGCACA
* *
10668 TATCAAGTCTTATTTCCCCTGAATGAATAGTGGAGTAAACACGTCTTTCAAAATAGATCTGTCTA
65 TATCAAGTCTAATTTCCCCTGAATGAATAGTGGAGCAAACA--TCTTTCAAAATAGATCTGTCTA
*
10733 CCTGAAAAAAGAGGCACAAATCAAGTCTGATTTCCC
128 CCCG-AAAAAGAGGCACAAATCAAGTCTGATTTCCC
* * * * * * * *
10769 CTGAATGAATAGTAGAGTATACACGTCTTCTAAAATTGATCTGACTACCTGAAAAAGAAGAACAT
1 CTGAATGAATAGTAGAGCAGACACGTCTTCCAAAATTGATATGTCTACCCGAAAAAGAGGCACAT
* * ** * * * * * * *
10834 ATCAAGTCTGATCTCCCCTGAAAAAAGAGTGGAACAGAC-TCATCTTCTAAATTTGATCCGACTA
66 ATCAAGTCTAATTTCCCCTGAATGAATAGTGGAGCAAACATC-T-TTC-AAAATAGATCTGTCTA
* * * *
10898 CCCGAAAAAGAGGAACATATCAAGTTTGATTTACC
128 CCCGAAAAAGAGGCACAAATCAAGTCTGATTTCCC
* * ** * * *
10933 CTGAAAGAAAAGCGGAGC-GAACCCGTCTTCCAAAATTGATATGGCTACCCAAAAAAAGAGG
1 CTGAATGAATAGTAGAGCAG-ACACGTCTTCCAAAATTGATATGTCTACCC-GAAAAAGAGG
10994 AACCTAAATT
Statistics
Matches: 327, Mismatches: 53, Indels: 17
0.82 0.13 0.04
Matches are distributed among these distances:
162 97 0.30
163 1 0.00
164 94 0.29
165 135 0.41
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (162 bp):
CTGAATGAATAGTAGAGCAGACACGTCTTCCAAAATTGATATGTCTACCCGAAAAAGAGGCACAT
ATCAAGTCTAATTTCCCCTGAATGAATAGTGGAGCAAACATCTTTCAAAATAGATCTGTCTACCC
GAAAAAGAGGCACAAATCAAGTCTGATTTCCC
Found at i:10908 original size:247 final size:245
Alignment explanation
Indices: 10442--10993 Score: 635
Period size: 247 Copynumber: 2.2 Consensus size: 245
10432 TCTTATCTCA
* * * *
10442 CTGAATGAATAGTAGAGCAGACATGTCTTCCAAAATAGATATGTCTACCCG-AAAGAGAGGCACA
1 CTGAATGAATAGTGGAGCAAACACGTCTTCCAAAATAGATATGTCTACCCGAAAAAAGAGGCACA
* * * *
10506 TATCAAGTCTAATTTTCCCTGAATGAATAGTGGAGCATACATCTTTCAAAATAGATCTGTCTACC
66 AATCAAGTCTAATTTCCCCTGAATGAATAGTAGAGCATACATCTTTCAAAATAGATCTGACTACC
* * * * ** * * *
10571 CGAAAAAGAGGTACAGATCAAGTCTGATTTTCCCTGAATGAATAGTAGAGCAGACACTTCTTCCA
131 CGAAAAAGAAGAACAGATCAAGTCTGATCTCCCCTGAAAAAAGAGTAGAACAGACACATCTTCCA
* * * *
10636 AAATATATATGTCTACCCAAAAAAGAGGCACATATCAAGTCTT-ATTTCCC
196 AAATATATACGACTACCCAAAAAAGAGGAACATATCAAGT-TTGATTTACC
* * * *
10686 CTGAATGAATAGTGGAGTAAACACGTCTTTCAAAATAGATCTGTCTACCTGAAAAAAGAGGCACA
1 CTGAATGAATAGTGGAGCAAACACGTCTTCCAAAATAGATATGTCTACCCGAAAAAAGAGGCACA
* * *
10751 AATCAAGTCTGATTTCCCCTGAATGAATAGTAGAGTATACA-CGTCTTCTAAAATTGATCTGACT
66 AATCAAGTCTAATTTCCCCTGAATGAATAGTAGAGCATACATC-T-TTC-AAAATAGATCTGACT
* * * *
10815 ACCTGAAAAAGAAGAACATATCAAGTCTGATCTCCCCTGAAAAAAGAGTGGAACAGACTCATCTT
128 ACCCGAAAAAGAAGAACAGATCAAGTCTGATCTCCCCTGAAAAAAGAGTAGAACAGACACATCTT
* * * *
10880 -CTAAATTTGATCCGACTACCCGAAAAAGAGGAACATATCAAGTTTGATTTACC
193 CCAAAATAT-ATACGACTACCCAAAAAAGAGGAACATATCAAGTTTGATTTACC
* * * * * * * *
10933 CTGAAAGAAAAGCGGAGCGAACCCGTCTTCCAAAATTGATATGGCTACCCAAAAAAAGAGG
1 CTGAATGAATAGTGGAGCAAACACGTCTTCCAAAATAGATATGTCTACCCGAAAAAAGAGG
10994 AACCTAAATT
Statistics
Matches: 254, Mismatches: 48, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
244 45 0.18
245 49 0.19
246 11 0.04
247 149 0.59
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (245 bp):
CTGAATGAATAGTGGAGCAAACACGTCTTCCAAAATAGATATGTCTACCCGAAAAAAGAGGCACA
AATCAAGTCTAATTTCCCCTGAATGAATAGTAGAGCATACATCTTTCAAAATAGATCTGACTACC
CGAAAAAGAAGAACAGATCAAGTCTGATCTCCCCTGAAAAAAGAGTAGAACAGACACATCTTCCA
AAATATATACGACTACCCAAAAAAGAGGAACATATCAAGTTTGATTTACC
Found at i:10962 original size:82 final size:82
Alignment explanation
Indices: 10442--10996 Score: 458
Period size: 82 Copynumber: 6.8 Consensus size: 82
10432 TCTTATCTCA
* * * * * * * * * *
10442 CTGAATGAATAGTAGAGCAGACATGTCTTCCAAAATAGATATGTCTACCCGAAAGAGAGGCACAT
1 CTGAAAGAAAAGTGGAGCAGACACGTCTTCTAAAATTGATCTGACTACCCGAAAAAGAGGAACAT
* *
10507 ATCAAGTCTAATTTTCC
66 ATCAAGTCTGATTTCCC
* * * * * *
10524 CTGAATGAATAGTGGAGCATACA--TCTT-TCAAAATAGATCTGTCTACCCGAAAAAGAGGTACA
1 CTGAAAGAAAAGTGGAGCAGACACGTCTTCT-AAAATTGATCTGACTACCCGAAAAAGAGGAACA
* *
10586 GATCAAGTCTGATTTTCC
65 TATCAAGTCTGATTTCCC
* * * * * * * * *
10604 CTGAATGAATAGTAGAGCAGACACTTCTTCCAAAATAT-ATATGTCTACCCAAAAAAGAGGCACA
1 CTGAAAGAAAAGTGGAGCAGACACGTCTTCTAAAAT-TGATCTGACTACCCGAAAAAGAGGAACA
*
10668 TATCAAGTCTTATTTCCC
65 TATCAAGTCTGATTTCCC
* * * * * * * *
10686 CTGAATGAATAGTGGAGTAAACACGTCTT-TCAAAATAGATCTGTCTACCTGAAAAAAGAGGCAC
1 CTGAAAGAAAAGTGGAGCAGACACGTCTTCT-AAAATTGATCTGACTACCCG-AAAAAGAGGAAC
*
10750 AAATCAAGTCTGATTTCCC
64 ATATCAAGTCTGATTTCCC
* * * * * * *
10769 CTGAATGAATAGTAGAGTATACACGTCTTCTAAAATTGATCTGACTACCTGAAAAAGAAGAACAT
1 CTGAAAGAAAAGTGGAGCAGACACGTCTTCTAAAATTGATCTGACTACCCGAAAAAGAGGAACAT
*
10834 ATCAAGTCTGATCTCCC
66 ATCAAGTCTGATTTCCC
* * * * *
10851 CTGAAA-AAAGAGTGGAACAGACTCATCTTCTAAATTTGATCCGACTACCCGAAAAAGAGGAACA
1 CTGAAAGAAA-AGTGGAGCAGACACGTCTTCTAAAATTGATCTGACTACCCGAAAAAGAGGAACA
* *
10915 TATCAAGTTTGATTTACC
65 TATCAAGTCTGATTTCCC
* * * * * *
10933 CTGAAAGAAAAGCGGAGC-GAACCCGTCTTCCAAAATTGATATGGCTACCCAAAAAAAGAGGAAC
1 CTGAAAGAAAAGTGGAGCAG-ACACGTCTTCTAAAATTGATCTGACTACCC-GAAAAAGAGGAAC
10997 CTAAATTGAT
Statistics
Matches: 398, Mismatches: 62, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
80 71 0.18
81 3 0.01
82 234 0.59
83 89 0.22
84 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (82 bp):
CTGAAAGAAAAGTGGAGCAGACACGTCTTCTAAAATTGATCTGACTACCCGAAAAAGAGGAACAT
ATCAAGTCTGATTTCCC
Found at i:16817 original size:23 final size:23
Alignment explanation
Indices: 16784--16841 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
16774 GTTCGCGAAT
* * *
16784 ATATTCATTTAATGTTTGTGAAC
1 ATATTCGTTTAATATTTGTCAAC
*
16807 ATGTTCGTTTAATATTTGTCAAC
1 ATATTCGTTTAATATTTGTCAAC
*
16830 GTATTCGTTTAA
1 ATATTCGTTTAA
16842 AGTTCACGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (23 bp):
ATATTCGTTTAATATTTGTCAAC
Found at i:16931 original size:34 final size:34
Alignment explanation
Indices: 16888--16981 Score: 114
Period size: 34 Copynumber: 3.0 Consensus size: 34
16878 TTTATTTAAC
16888 GTTTATTTAGTATTCGTTTATCTTTCGTTTATAT
1 GTTTATTTAGTATTCGTTTATCTTTCGTTTATAT
*
16922 GTTTATTTAGTATTCGTTTA----T--ATT-T-T
1 GTTTATTTAGTATTCGTTTATCTTTCGTTTATAT
*
16948 GTTTATTTAGTATTAGTTTATCTTTCGTTTATAT
1 GTTTATTTAGTATTCGTTTATCTTTCGTTTATAT
16982 CTTAAACTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
26 20 0.41
27 1 0.02
28 2 0.04
30 2 0.04
32 2 0.04
33 1 0.02
34 21 0.43
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.63
Consensus pattern (34 bp):
GTTTATTTAGTATTCGTTTATCTTTCGTTTATAT
Found at i:16937 original size:23 final size:24
Alignment explanation
Indices: 16911--16968 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 24
16901 TCGTTTATCT
16911 TTCGTTTATA-TGTTTATTTAGTA
1 TTCGTTTATATTGTTTATTTAGTA
16934 TTCGTTTATATTTTGTTTATTTAGTA
1 TTCGTTTATA--TTGTTTATTTAGTA
*
16960 TTAGTTTAT
1 TTCGTTTAT
16969 CTTTCGTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 10 0.32
26 21 0.68
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.64
Consensus pattern (24 bp):
TTCGTTTATATTGTTTATTTAGTA
Found at i:16957 original size:26 final size:26
Alignment explanation
Indices: 16921--16979 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
16911 TTCGTTTATA
*
16921 TGTTTATTTAGTATTCGTTTATATTT
1 TGTTTATTTAGTATTAGTTTATATTT
*
16947 TGTTTATTTAGTATTAGTTTATCTTT
1 TGTTTATTTAGTATTAGTTTATATTT
*
16973 CGTTTAT
1 TGTTTAT
16980 ATCTTAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.64
Consensus pattern (26 bp):
TGTTTATTTAGTATTAGTTTATATTT
Found at i:23455 original size:49 final size:47
Alignment explanation
Indices: 23396--23493 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 47
23386 TCTTTTGTCC
23396 TGTGGCTTGTGGTGCATGTATCACGAATAAACTTCATTTTGTTAAATAA
1 TGTGGCTTGTGGTGCATGTATCACGAAT-AACTTCA-TTTGTTAAATAA
23445 TGTGGCTTGTGGTGCATGTATCACGAATAACTTCATTTGTTAAATAA
1 TGTGGCTTGTGGTGCATGTATCACGAATAACTTCATTTGTTAAATAA
23492 TG
1 TG
23494 CAAAACCATT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 14 0.29
48 7 0.14
49 28 0.57
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (47 bp):
TGTGGCTTGTGGTGCATGTATCACGAATAACTTCATTTGTTAAATAA
Found at i:28052 original size:215 final size:216
Alignment explanation
Indices: 27675--28582 Score: 1515
Period size: 215 Copynumber: 4.2 Consensus size: 216
27665 ATTTAAGAAT
* * * *
27675 TAAATTGAAGAAATATGAAATTACAAAT-AAAATTTAAATAAATTAAACAATACACATTGTTAAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * *
27739 GGATCAAATCGAAATAATTTTAGATTGTGAGATTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACCAAATTATAC
*
27804 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGTGTCAATTTTAGA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGA
*
27869 TGCAAATAAAATTTGGAGGCC
196 TGCAAATAAAATTTGGAGGAC
* **
27890 TAAATTGAACAAATATGGACCTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
27955 GGATCAAATAGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAA-TACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACCAAATTATAC
*
28019 CCATTTAAAAAGTTATGGGCCAATTATAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGA
28084 TGCAAATAAAATTTGGAGGAC
196 TGCAAATAAAATTTGGAGGAC
*
28105 TAAATTGAACAAATATAAAATTACAAATAAAAATTTAAAT-AATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
*
28169 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACCAAATTATAT
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACCAAATTATAC
* *
28234 CAATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGA
28299 TGCAAATAAAATTTGGAGGAC
196 TGCAAATAAAATTTGGAGGAC
*
28320 TAAATTGAACAAATATGAAATTACAAATAAAAAATTAAATAAATTAAA-AACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
28384 GTATTAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACCAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACCAAATTATAC
* *
28449 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAG-AACAAGTATGGGTC-ACTTTAGA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGA
28512 TGCAAATAAAATTTGGAGGAC
196 TGCAAATAAAATTTGGAGGAC
* * * *
28533 TAAATTGAAAAAATTTAAAATTACAAAT-AAAATTTAAGTAAATTAAACAA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAA
28583 AACAAAGGGA
Statistics
Matches: 652, Mismatches: 37, Indels: 10
0.93 0.05 0.01
Matches are distributed among these distances:
212 17 0.03
213 54 0.08
214 87 0.13
215 406 0.62
216 88 0.13
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.28
Consensus pattern (216 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACCAAATTATAC
CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGA
TGCAAATAAAATTTGGAGGAC
Found at i:28933 original size:2 final size:2
Alignment explanation
Indices: 28924--29125 Score: 155
Period size: 2 Copynumber: 99.0 Consensus size: 2
28914 TATAGTTTAC
28924 AT AT -T AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
*
28965 AT AT AT AT AT AT AT AT AT A- AA AT AT AT AT AT AT ACT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * *
29006 AT AT AT AA AT AT AT AGT TT AT AT TT AT AT ACT AC AT ACT AT AGT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT A-T AT A-T
* * * * *
29050 TT AT AT -T AT AA AT -T TT AT AT ACT AT AT -T TT AT ACT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT
* * *
29091 AT AA ACT AT AGT TT AT AT TT AT AT ACT AT AT AT AT
1 AT AT A-T AT A-T AT AT AT AT AT AT A-T AT AT AT AT
29126 GATGTCGAAA
Statistics
Matches: 161, Mismatches: 23, Indels: 32
0.75 0.11 0.15
Matches are distributed among these distances:
1 6 0.04
2 139 0.86
3 16 0.10
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29099 original size:25 final size:24
Alignment explanation
Indices: 29061--29107 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
29051 TATATTATAA
* *
29061 ATTTTATATACTATATTTTATACT
1 ATTTTATAAACTATAGTTTATACT
29085 ATTTATATAAACTATAGTTTATA
1 ATTT-TATAAACTATAGTTTATA
29108 TTTATATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTTTATAAACTATAGTTTATACT
Found at i:32156 original size:55 final size:55
Alignment explanation
Indices: 32059--32504 Score: 743
Period size: 55 Copynumber: 8.1 Consensus size: 55
32049 ATATCTTCGT
* * *
32059 CAATCGTGTCTGCTCCCTATTT-TTCAGAGAGTATAAGACTCGAACGAT-TCTCGA
1 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCT-TCAA
* *
32113 TAATCGTGCCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
1 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
* *
32168 CAATCGTGTCTGTTCCCTATTTGTTCAGAGAGTATGAGACTCGAACAATCTTCAA
1 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
32223 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
1 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
32278 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
1 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
* *
32333 CAATTGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTTAA
1 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
* *
32388 CAATCGTGTCTGCTCCCTATTTCTTCAAAGAGTATGAGACTCGAATAATCTTCAA
1 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
* * *
32443 CAATTGTGTTTGCTCCCTATTTCTTAAGAGAGTATGAGACTCGAACAATCTTCAA
1 CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
32498 CAATCGT
1 CAATCGT
32505 TGGGAAACCT
Statistics
Matches: 367, Mismatches: 23, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
54 20 0.05
55 346 0.94
56 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (55 bp):
CAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
Found at i:33464 original size:18 final size:18
Alignment explanation
Indices: 33443--33479 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
33433 CATTTTTCCA
*
33443 TTTTTTATTTTTTTATTT
1 TTTTTTATTTTTTCATTT
33461 TTTTTTATTTTTTCATTT
1 TTTTTTATTTTTTCATTT
33479 T
1 T
33480 CACTCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTATTTTTTCATTT
Found at i:37004 original size:8 final size:8
Alignment explanation
Indices: 36991--37018 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
36981 AAAAGAAGAT
36991 ATATATAC
1 ATATATAC
36999 ATATATAC
1 ATATATAC
37007 ATATATAC
1 ATATATAC
37015 ATAT
1 ATAT
37019 GGGAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:47084 original size:18 final size:18
Alignment explanation
Indices: 47061--47184 Score: 105
Period size: 18 Copynumber: 6.8 Consensus size: 18
47051 ATCGAGCATC
47061 TACATATGAACTATAGTT
1 TACATATGAACTATAGTT
47079 TACATATGAACTATA-TAT
1 TACATATGAACTATAGT-T
**
47097 ATAC-TAT-ATTTGATA-TT
1 -TACATATGAACT-ATAGTT
*
47114 TATATATGAACTATAGTT
1 TACATATGAACTATAGTT
*
47132 TACATATAAACTATATAGTT
1 TACATATGAAC--TATAGTT
*
47152 TATATACT-AACTATAGTT
1 TACATA-TGAACTATAGTT
*
47170 TACATATAAACTATA
1 TACATATGAACTATA
47185 TTTGATATTT
Statistics
Matches: 87, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.02
17 11 0.13
18 55 0.63
19 3 0.03
20 15 0.17
21 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (18 bp):
TACATATGAACTATAGTT
Found at i:47164 original size:38 final size:38
Alignment explanation
Indices: 47112--47241 Score: 137
Period size: 38 Copynumber: 3.4 Consensus size: 38
47102 ATATTTGATA
47112 TTTATATATGAACTATAGTTTACATATAAACTATATAG
1 TTTATATATGAACTATAGTTTACATATAAACTATATAG
*
47150 TTTATATACT-AACTATAGTTTACATATAAACTATATTTGATA
1 TTTATATA-TGAACTATAGTTTACATATAAACTATA--T-A-G
*
47192 TTTACATATGAACTATA---T--ATATAAACTATATAG
1 TTTATATATGAACTATAGTTTACATATAAACTATATAG
* *
47225 TTTACATATGACCTATA
1 TTTATATATGAACTATA
47242 TATATAGTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 17
0.80 0.04 0.17
Matches are distributed among these distances:
33 16 0.20
34 1 0.01
35 1 0.01
37 12 0.15
38 33 0.40
39 2 0.02
40 1 0.01
41 2 0.02
42 14 0.17
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (38 bp):
TTTATATATGAACTATAGTTTACATATAAACTATATAG
Found at i:47231 original size:57 final size:60
Alignment explanation
Indices: 47125--47267 Score: 161
Period size: 57 Copynumber: 2.4 Consensus size: 60
47115 ATATATGAAC
* * *
47125 TATAGTTTACATATAAACTATATAGTTTATATACTAACTATAGTTTACATATAAACTATATT
1 TATAGTTTACATATGAACTATATA--TTATAAACTAACTATAGTTTACATATAAACTATATA
* *
47187 TGATA-TTTACATATGAACTATATA-TATAAACT-A-TATAGTTTACATATGACCTATATA
1 T-ATAGTTTACATATGAACTATATATTATAAACTAACTATAGTTTACATATAAACTATATA
*
47244 TATAGTTTA-TTAGTGAACTATATA
1 TATAGTTTACATA-TGAACTATATA
47268 AACAATTTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
56 5 0.07
57 37 0.51
58 1 0.01
59 7 0.10
62 19 0.26
63 3 0.04
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (60 bp):
TATAGTTTACATATGAACTATATATTATAAACTAACTATAGTTTACATATAAACTATATA
Found at i:47264 original size:24 final size:24
Alignment explanation
Indices: 47218--47267 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
47208 ATATATAAAC
*
47218 TATATAGTTTACATATGACCTATA
1 TATATAGTTTACATATGAACTATA
*
47242 TATATAGTTTA-TTAGTGAACTATA
1 TATATAGTTTACATA-TGAACTATA
47266 TA
1 TA
47268 AACAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (24 bp):
TATATAGTTTACATATGAACTATA
Found at i:47279 original size:57 final size:57
Alignment explanation
Indices: 47163--47282 Score: 136
Period size: 57 Copynumber: 2.1 Consensus size: 57
47153 ATATACTAAC
* * *
47163 TATAGTTTACATATAAACTATATTTGATATTTACATATGAACTATATATATAAACTA
1 TATAGTTTACATATAAACTATATATGATATTTACATATGAACTATATAAACAAACTA
* * * **
47220 TATAGTTTACATATGACCTATATAT-ATAGTTTA-TTAGTGAACTATATAAACAATTTA
1 TATAGTTTACATATAAACTATATATGATA-TTTACATA-TGAACTATATAAACAAACTA
47277 TATAGT
1 TATAGT
47283 ATATAATATA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
56 5 0.09
57 48 0.91
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (57 bp):
TATAGTTTACATATAAACTATATATGATATTTACATATGAACTATATAAACAAACTA
Found at i:47280 original size:2 final size:2
Alignment explanation
Indices: 47275--47702 Score: 96
Period size: 2 Copynumber: 208.5 Consensus size: 2
47265 ATAAACAATT
* * *
47275 TA TA TA GTA TA TA -A TA TA TA TA TA AA CTA TA T- TT TA TA TT TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
47317 TG TA CTA CA TA CTA TA GTT TA TA TT TA TA TA CTA TA TA TA T- TA
1 TA TA -TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
47360 TA TA TA TA AA CTA TA TA TA -A TA TA TA GTA TA -A TT TA CA TA TGA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA T-A
* * *
47403 -A CTA TA TA TA AA AA CTA TA TA AA CTA TA TA T- TA TA GT- TGA TA
1 TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA T-A TA
* *
47445 TT TA TA TA CTA TA TA CTA TA -A TT TA TA T- TA TA T- TA TA TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
47486 AA CTA TA TA -A TA TA TA TA AA CTA TA TA T- TA TA TA GT- TCA T-
1 TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA T-A TA
* * * *
47526 TA GTA TA TA TA AA CTA TA TGG TA TA TA TA -A AA CTA TA CA T- TA
1 TA -TA TA TA TA TA -TA TA T-A TA TA TA TA TA TA -TA TA TA TA TA
* * *
47568 TA TA GTT TA T- TA GTA TA TA TA AA CTA TA TA -A TA TA TA TA AA
1 TA TA -TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
47609 CTA TA CA T- TA TA TA TA TT TCA T- TA T- TA TA TA TA AA CTA TA
1 -TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA -TA TA
*
47649 TA T- TA TA TA GT- TCA T- TA GTA TA TA TA AA CTA TA TA GTA TA TA
1 TA TA TA TA TA -TA T-A TA TA -TA TA TA TA TA -TA TA TA -TA TA TA
*
47691 TA AA CTA TA TA T
1 TA TA -TA TA TA T
47703 TGAAAAGATC
Statistics
Matches: 311, Mismatches: 54, Indels: 122
0.64 0.11 0.25
Matches are distributed among these distances:
1 25 0.08
2 239 0.77
3 47 0.15
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:47287 original size:7 final size:6
Alignment explanation
Indices: 47275--47702 Score: 96
Period size: 7 Copynumber: 69.5 Consensus size: 6
47265 ATAAACAATT
* * * *
47275 TATATA GTATATA -ATATA TATATA AACTATA T-TTTA TATTTA TGTACTA
1 TATATA -TATATA TATATA TATATA TA-TATA TATATA TATATA TATA-TA
* * * *
47324 CATACTA TAGTTTA TATTTA TATACTA TATATA T-TATA TATATA AACTATA
1 TATA-TA TA-TATA TATATA TATA-TA TATATA TATATA TATATA TA-TATA
* * * *
47375 TATA-A TATATA GTATA-A TTTACA TATGA-A CTATATA TAAAAA CTATATA
1 TATATA TATATA -TATATA TATATA TAT-ATA -TATATA TATATA -TATATA
* * *
47424 AACTATA TAT-TA TAGT-TGA TATTTA TATACTA TATACTA TA-ATT TATAT-
1 TA-TATA TATATA TA-TAT-A TATATA TATA-TA TATA-TA TATATA TATATA
* *
47473 TATAT- TATATA TAAACTA TATA-A TATATA TAAACTA TATAT- TATATA
1 TATATA TATATA TATA-TA TATATA TATATA TATA-TA TATATA TATATA
* * * *
47520 GT-TCAT- TAGTATA TATAAA CTATATGG TATATA TA-AAA CTATACA
1 -TAT-ATA TA-TATA TATATA -TATAT-A TATATA TATATA -TATATA
* * *
47565 T-TATA TAGTTTA T-TAGTA TATATA AACTATA TA-ATA TATATA AACTATA
1 TATATA TA-TATA TATA-TA TATATA TA-TATA TATATA TATATA TA-TATA
* * *
47614 CAT-TA TATATA TTTCAT- TAT-TA TATATA AACTATA TAT-TA TATAGT-
1 TATATA TATATA TAT-ATA TATATA TATATA TA-TATA TATATA TATA-TA
* *
47660 TCAT-TA GTATATA TAAACTA TATAGTA TATATA AACTATA TAT
1 T-ATATA -TATATA TATA-TA TATA-TA TATATA TA-TATA TAT
47703 TGAAAAGATC
Statistics
Matches: 317, Mismatches: 49, Indels: 111
0.66 0.10 0.23
Matches are distributed among these distances:
4 1 0.00
5 75 0.24
6 102 0.32
7 138 0.44
8 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (6 bp):
TATATA
Found at i:47356 original size:9 final size:8
Alignment explanation
Indices: 47275--47702 Score: 96
Period size: 9 Copynumber: 52.1 Consensus size: 8
47265 ATAAACAATT
47275 TATATAGTA
1 TATATA-TA
47284 TATA-ATA
1 TATATATA
47291 TATATATA
1 TATATATA
*
47299 AACTATAT-
1 TA-TATATA
* *
47307 TTTATATT
1 TATATATA
*
47315 TATGTACTA
1 TATATA-TA
*
47324 CATACTATA
1 TATA-TATA
* *
47333 GTTTATATT
1 -TATATATA
47342 TATATACTA
1 TATATA-TA
47351 TATATAT-
1 TATATATA
47358 TATATATA
1 TATATATA
*
47366 TAAACTATA
1 TATA-TATA
47375 TATA-ATA
1 TATATATA
47382 TATAGTATA
1 TATA-TATA
* *
47391 -ATTTACA
1 TATATATA
47398 TATGA-ACTA
1 TAT-ATA-TA
*
47407 TATATAAA
1 TATATATA
*
47415 AACTATATA
1 TA-TATATA
*
47424 AACTATATA
1 TA-TATATA
47433 T-TATAGT-
1 TATATA-TA
*
47440 TGATATTTA
1 T-ATATATA
47449 TATACTATA
1 TATA-TATA
47458 TACTATA-A
1 TA-TATATA
*
47466 TTTATAT-
1 TATATATA
47473 TATAT-TA
1 TATATATA
*
47480 TATATAAA
1 TATATATA
47488 CTATATA-A
1 -TATATATA
47496 TATATATA
1 TATATATA
*
47504 AACTATATA
1 TA-TATATA
47513 T-TATATA
1 TATATATA
47520 GT-TCAT-TA
1 -TAT-ATATA
47528 GTATATATA
1 -TATATATA
* *
47537 AACTATATGG
1 TA-TATAT-A
47547 TATATATA
1 TATATATA
*
47555 -AAACTATA
1 TATA-TATA
*
47563 CAT-TATA
1 TATATATA
*
47570 TAGTTTAT-
1 TA-TATATA
47578 TAGTATATA
1 TA-TATATA
*
47587 TAAACTATA
1 TATA-TATA
47596 TA-ATATA
1 TATATATA
*
47603 TATAAACTA
1 TATATA-TA
*
47612 TACAT-TA
1 TATATATA
*
47619 TATATATT
1 TATATATA
47627 TCAT-TAT-
1 T-ATATATA
47634 TATATATA
1 TATATATA
*
47642 AACTATATA
1 TA-TATATA
47651 T-TATATA
1 TATATATA
47658 GT-TCAT-TA
1 -TAT-ATATA
47666 GTATATATA
1 -TATATATA
*
47675 AACTATATA
1 TA-TATATA
47684 GTATATATA
1 -TATATATA
*
47693 AACTATATA
1 TA-TATATA
47702 T
1 T
47703 TGAAAAGATC
Statistics
Matches: 315, Mismatches: 50, Indels: 108
0.67 0.11 0.23
Matches are distributed among these distances:
6 3 0.01
7 87 0.28
8 78 0.25
9 139 0.44
10 8 0.03
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (8 bp):
TATATATA
Found at i:47360 original size:22 final size:22
Alignment explanation
Indices: 47282--47513 Score: 109
Period size: 22 Copynumber: 10.2 Consensus size: 22
47272 ATTTATATAG
*
47282 TATATAATATATATATAAACTA
1 TATATATTATATATATAAACTA
* **
47304 TAT-T-TTATATTTATGTACTACA
1 TATATATTATATATATAAACT--A
* *
47326 TACTATAGTTTATATTTATATACTA
1 TA-TATA--TTATATATATAAACTA
47351 TATATATTATATATATAAACTA
1 TATATATTATATATATAAACTA
* **
47373 TATATAATATATAGTATAATTTA
1 TATATATTATATA-TATAAACTA
* * *
47396 CATATGAACTATATATAAAAACTA
1 TATAT--ATTATATATATAAACTA
* * * *
47420 TATAAACTATATAT-TATAGT-
1 TATATATTATATATATAAACTA
*
47440 TGATAT-TTATATACTATATACTA
1 T-ATATATTATATA-TATAAACTA
*
47463 TAATTTATATTATAT-TATATA-TA
1 T-A--TATATTATATATATAAACTA
* *
47486 AACTATATAATATATATAAACTA
1 TA-TATATTATATATATAAACTA
47509 TATAT
1 TATAT
47514 TATATAGTTC
Statistics
Matches: 162, Mismatches: 29, Indels: 38
0.71 0.13 0.17
Matches are distributed among these distances:
20 18 0.11
21 17 0.10
22 55 0.34
23 19 0.12
24 20 0.12
25 13 0.08
26 6 0.04
27 14 0.09
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (22 bp):
TATATATTATATATATAAACTA
Found at i:47517 original size:18 final size:18
Alignment explanation
Indices: 47473--47703 Score: 184
Period size: 18 Copynumber: 13.3 Consensus size: 18
47463 TAATTTATAT
47473 TATATTATATATAAACTA
1 TATATTATATATAAACTA
*
47491 TATAATATATATAAACTA
1 TATATTATATATAAACTA
*
47509 TATATTATATAGT--TC-A
1 TATATTATATA-TAAACTA
*
47525 T-TAGTATATATAAACTA
1 TATATTATATATAAACTA
**
47542 TATGGTATATATAAAACTA
1 TATATTATATAT-AAACTA
* *
47561 TACATTATATAGT---TTA
1 TATATTATATA-TAAACTA
*
47577 T-TAGTATATATAAACTA
1 TATATTATATATAAACTA
*
47594 TATAATATATATAAACTA
1 TATATTATATATAAACTA
* **
47612 TACATTATATAT-ATTTCA
1 TATATTATATATAAACT-A
47630 T-TATTATATATAAACTA
1 TATATTATATATAAACTA
*
47647 TATATTATATAGT--TC-A
1 TATATTATATA-TAAACTA
*
47663 T-TAGTATATATAAACTA
1 TATATTATATATAAACTA
*
47680 TATAGTATATATAAACTA
1 TATATTATATATAAACTA
47698 TATATT
1 TATATT
47704 GAAAAGATCA
Statistics
Matches: 169, Mismatches: 25, Indels: 38
0.73 0.11 0.16
Matches are distributed among these distances:
14 3 0.02
15 23 0.14
16 9 0.05
17 22 0.13
18 95 0.56
19 16 0.09
20 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (18 bp):
TATATTATATATAAACTA
Found at i:47538 original size:33 final size:32
Alignment explanation
Indices: 47496--47691 Score: 142
Period size: 33 Copynumber: 5.8 Consensus size: 32
47486 AACTATATAA
47496 TATATATAAACTATATATTATATAGTTCATTAG
1 TATATATAAACTATATATTATATA-TTCATTAG
** ** *
47529 TATATATAAACTATATGGTATATATAAAACTA-
1 TATATATAAACTATATATTATATAT-TCATTAG
* * * * ** *
47561 TACATTATATAGTTTATTAGTATATATAAACTATATAA
1 TATA-TATAAACTATA-TA-T-TATATATTC-AT-TAG
* *
47599 TATATATAAACTATACATTATATATATTTCATTAT
1 TATATATAAACTATATA-T-TATATA-TTCATTAG
47634 TATATATAAACTATATATTATATAGTTCATTAG
1 TATATATAAACTATATATTATATA-TTCATTAG
*
47667 TATATATAAACTATATAGTATATAT
1 TATATATAAACTATATATTATATAT
47692 AAACTATATA
Statistics
Matches: 127, Mismatches: 27, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
32 5 0.04
33 69 0.54
34 2 0.02
35 19 0.15
36 18 0.14
37 11 0.09
38 3 0.02
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (32 bp):
TATATATAAACTATATATTATATATTCATTAG
Found at i:47666 original size:86 final size:84
Alignment explanation
Indices: 47546--47737 Score: 269
Period size: 86 Copynumber: 2.2 Consensus size: 84
47536 AAACTATATG
* *
47546 GTATATATAAAACTATACATTATATAGTTTATTAGTATATATAAACTATATAATATATATAAACT
1 GTATATAT-AAACTATATATTATATAGTTCATTAGTATATATAAACTATATAATATATATAAACT
**
47611 ATACATT-ATATATATTTCATTA
65 ATACATTGA-A-A-AGATCATTA
* *
47633 TTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTA
1 GTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAATATATATAAACTA
*
47698 TATATTGAAAAGATCATTA
66 TACATTGAAAAGATCATTA
*
47717 GTATATATAACCTATATATTA
1 GTATATATAAACTATATATTA
47738 ATTTATTAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
84 26 0.27
85 1 0.01
86 60 0.63
87 8 0.08
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (84 bp):
GTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAATATATATAAACTA
TACATTGAAAAGATCATTA
Found at i:47689 original size:51 final size:51
Alignment explanation
Indices: 47634--47734 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
47624 ATTTCATTAT
* *
47634 TATATATAAACTATATATT-ATATAGTTCATTAGTATATATAAACTATATAG
1 TATATATAAACTATATATTGA-AAAGATCATTAGTATATATAAACTATATAG
*
47685 TATATATAAACTATATATTGAAAAGATCATTAGTATATATAACCTATATA
1 TATATATAAACTATATATTGAAAAGATCATTAGTATATATAAACTATATA
47735 TTAATTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 45 0.98
52 1 0.02
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.41
Consensus pattern (51 bp):
TATATATAAACTATATATTGAAAAGATCATTAGTATATATAAACTATATAG
Found at i:48392 original size:102 final size:103
Alignment explanation
Indices: 48257--48469 Score: 299
Period size: 102 Copynumber: 2.1 Consensus size: 103
48247 TGTTCTTCAT
** *
48257 TTGTTCATCCAGTTCTTCCCTAAAACCCTCATTTGATCTTCAAAAACA-CTAAAACACAAACCAT
1 TTGTTCATCCAAATCTTCCCCAAAACCCTCATTTGATCTTCAAAAACATC-AAAACACAAACCAT
**
48321 TTCATATTTTTT-CGATCAAACACCCA-AATATTCATCC-
65 TAAATATTTTTTCCGATCAAACACCCACAA-ATTCATCCA
* *
48358 TTGTTCATCCCAAATCTTCCCCAAAACCCTCATTTGATCTTCAAAAACATCGAAACCCAAACCAT
1 TTGTTCAT-CCAAATCTTCCCCAAAACCCTCATTTGATCTTCAAAAACATCAAAACACAAACCAT
*
48423 TAAATGTTTTTTCCGATCAAACACCCACAAATTCATCCA
65 TAAATATTTTTTCCGATCAAACACCCACAAATTCATCCA
48462 TTGTTCAT
1 TTGTTCAT
48470 TCGTGTTCTT
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
101 8 0.08
102 58 0.59
103 23 0.23
104 10 0.10
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (103 bp):
TTGTTCATCCAAATCTTCCCCAAAACCCTCATTTGATCTTCAAAAACATCAAAACACAAACCATT
AAATATTTTTTCCGATCAAACACCCACAAATTCATCCA
Found at i:48621 original size:12 final size:12
Alignment explanation
Indices: 48605--48661 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
48595 CTCTAAACTT
48605 GAACCCAAACCC
1 GAACCCAAACCC
* *
48617 TAACCTAAACCC
1 GAACCCAAACCC
* *
48629 -AAACAAAACCC
1 GAACCCAAACCC
**
48640 GAACCGGAACCC
1 GAACCCAAACCC
48652 GAACCCAAAC
1 GAACCCAAAC
48662 TGGAACCTGG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.46, C:0.42, G:0.09, T:0.04
Consensus pattern (12 bp):
GAACCCAAACCC
Found at i:48666 original size:18 final size:18
Alignment explanation
Indices: 48635--48687 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
48625 ACCCAAACAA
* *
48635 AACCCGAACCGGAACCCG
1 AACCCAAACTGGAACCCG
*
48653 AACCCAAACTGGAACCTG
1 AACCCAAACTGGAACCCG
* *
48671 GACCCAAACTCGAACCC
1 AACCCAAACTGGAACCC
48688 AAATCCGAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.36, C:0.42, G:0.17, T:0.06
Consensus pattern (18 bp):
AACCCAAACTGGAACCCG
Found at i:48705 original size:18 final size:18
Alignment explanation
Indices: 48684--48718 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48674 CCAAACTCGA
*
48684 ACCCAAATCCGAACCCAT
1 ACCCAAACCCGAACCCAT
*
48702 ACCCATACCCGAACCCA
1 ACCCAAACCCGAACCCA
48719 AACTATTTGA
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:0.49, G:0.06, T:0.09
Consensus pattern (18 bp):
ACCCAAACCCGAACCCAT
Found at i:48827 original size:18 final size:17
Alignment explanation
Indices: 48804--48840 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
48794 TTCTCATTCC
48804 TTTTTTTCATTTTTTATT
1 TTTTTTTCA-TTTTTATT
*
48822 TTTTTTTTATTTTTATT
1 TTTTTTTCATTTTTATT
48839 TT
1 TT
48841 AATATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTCATTTTTATT
Found at i:48949 original size:2 final size:2
Alignment explanation
Indices: 48942--48988 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
48932 TTCCTTTCTT
48942 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48984 TA TA T
1 TA TA T
48989 TGGTATAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:49064 original size:61 final size:62
Alignment explanation
Indices: 48999--49118 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 62
48989 TGGTATAAAT
*
48999 CTATTGATGTAAATGATATAATGTC-AAGCATTTAATGTAAACTAACCCTAGTTTTTTATTG
1 CTATTGATGTAAATGATATAATGTCAAAGCATTTAATGTAAACTAACCATAGTTTTTTATTG
* *
49060 CTATTGATGTAAATGATATATTGTCAGAAGCATTTAATGTAAACTAACCATGGTTTTTT
1 CTATTGATGTAAATGATATAATGTCA-AAGCATTTAATGTAAACTAACCATAGTTTTTT
49119 TTTTTTTTGC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 24 0.44
63 30 0.56
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (62 bp):
CTATTGATGTAAATGATATAATGTCAAAGCATTTAATGTAAACTAACCATAGTTTTTTATTG
Found at i:50650 original size:20 final size:20
Alignment explanation
Indices: 50612--50650 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50602 TATGTTTTAT
* **
50612 ATTGTTTGCTTCTGTTTGAC
1 ATTGCTTGCTTCTACTTGAC
50632 ATTGCTTGCTTCTACTTGA
1 ATTGCTTGCTTCTACTTGA
50651 TATTTGTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.18, G:0.18, T:0.51
Consensus pattern (20 bp):
ATTGCTTGCTTCTACTTGAC
Found at i:55589 original size:16 final size:16
Alignment explanation
Indices: 55556--55604 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
55546 TCCGTATCCA
* *
55556 ATCCGAAAAAATCAGAT
1 ATCC-AAAAATTCGGAT
55573 ATCCAAAAATTCGGAT
1 ATCCAAAAATTCGGAT
*
55589 ATCCAAAATTTCGGAT
1 ATCCAAAAATTCGGAT
55605 CGGATATCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.24
Consensus pattern (16 bp):
ATCCAAAAATTCGGAT
Found at i:55624 original size:21 final size:22
Alignment explanation
Indices: 55583--55635 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
55573 ATCCAAAAAT
*
55583 TCGGATATCC-AAAATTTCGGA
1 TCGGATATCCGAAAATTCCGGA
*
55604 TCGGATATCCGAATA-TCCGGA
1 TCGGATATCCGAAAATTCCGGA
*
55625 TCCGA-ATCCGA
1 TCGGATATCCGA
55636 TTTTAGTCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.21
21 19 0.68
22 3 0.11
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (22 bp):
TCGGATATCCGAAAATTCCGGA
Found at i:56537 original size:21 final size:21
Alignment explanation
Indices: 56511--56569 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
56501 TAAAAAATGA
56511 ATTGGATATCCGATTTTTTAG
1 ATTGGATATCCGATTTTTTAG
*
56532 ATTGGATATCCAATTTTTTAG
1 ATTGGATATCCGATTTTTTAG
*
56553 ATCGGATATCCGATTTT
1 ATTGGATATCCGATTTT
56570 CAGATCGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (21 bp):
ATTGGATATCCGATTTTTTAG
Found at i:56574 original size:20 final size:21
Alignment explanation
Indices: 56514--56579 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
56504 AAAATGAATT
*
56514 GGATATCCGATTTTTTAGATT
1 GGATATCCGATTTTTTAGATC
*
56535 GGATATCCAATTTTTTAGATC
1 GGATATCCGATTTTTTAGATC
*
56556 GGATATCCGA-TTTTCAGATC
1 GGATATCCGATTTTTTAGATC
56576 GGAT
1 GGAT
56580 CAATGGATCG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 13 0.32
21 28 0.68
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.41
Consensus pattern (21 bp):
GGATATCCGATTTTTTAGATC
Found at i:56590 original size:13 final size:14
Alignment explanation
Indices: 56572--56606 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
56562 CCGATTTTCA
56572 GATCGGATCAAT-G
1 GATCGGATCAATCG
*
56585 GATCGGATCGATCG
1 GATCGGATCAATCG
56599 GATCGGAT
1 GATCGGAT
56607 TTTTTTGCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.26, C:0.17, G:0.34, T:0.23
Consensus pattern (14 bp):
GATCGGATCAATCG
Found at i:57782 original size:18 final size:18
Alignment explanation
Indices: 57740--57808 Score: 88
Period size: 18 Copynumber: 3.8 Consensus size: 18
57730 TTGATTTACG
57740 GAATGTAAGATTACTAATGA
1 GAATGTAAGATTACTAA--A
*
57760 GAATGTAAGATTACCAAA
1 GAATGTAAGATTACTAAA
*
57778 GAATGTAATATTACTAAA
1 GAATGTAAGATTACTAAA
57796 GAA--TAAGATTACT
1 GAATGTAAGATTACT
57809 GAGAATGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.20
18 20 0.44
20 16 0.36
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (18 bp):
GAATGTAAGATTACTAAA
Found at i:58025 original size:37 final size:37
Alignment explanation
Indices: 57952--58026 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
57942 GTTGGAAAAT
* *
57952 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
57989 ATTTATATAATTTTTTTTATAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
58026 A
1 A
58027 AAGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:59097 original size:4 final size:4
Alignment explanation
Indices: 59088--59112 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
59078 ATAAAAAACG
59088 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
59113 TAACAATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:59529 original size:33 final size:33
Alignment explanation
Indices: 59487--59559 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
59477 TCAAAATGCT
* * *
59487 TTGGTTTTAGTGTTTTAATATGACTCAAATACG
1 TTGGTTTTAGTGATTCAATAAGACTCAAATACG
*
59520 TTGGTTTTAGTGATTCAGTAAGACTCAAATACG
1 TTGGTTTTAGTGATTCAATAAGACTCAAATACG
59553 TTGGTTT
1 TTGGTTT
59560 ATTTTCTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.44
Consensus pattern (33 bp):
TTGGTTTTAGTGATTCAATAAGACTCAAATACG
Found at i:59630 original size:20 final size:21
Alignment explanation
Indices: 59605--59668 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 21
59595 GCGAGGCCTG
59605 TAAAAATAATATAATAA-AAT
1 TAAAAATAATATAATAATAAT
59625 TAAAAA-AATAATAATAATAAT
1 TAAAAATAAT-ATAATAATAAT
*
59646 AAATAAATAA-ATAAATATATAAT
1 TAA-AAATAATAT-AATA-ATAAT
59669 ATAGTAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
19 3 0.08
20 13 0.35
21 7 0.19
22 7 0.19
23 7 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAAAATAATATAATAATAAT
Found at i:60164 original size:84 final size:83
Alignment explanation
Indices: 59982--60889 Score: 824
Period size: 84 Copynumber: 11.0 Consensus size: 83
59972 GCAACGTGGT
* * * *
59982 TGATATGCCCTCG-AGCTGAATGGAATCGAACTCGAAGGTCTTTG--GCAAATAACCCTTCTTA-
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGCAGATAACCCTTC-TAG
* *
60043 CCTTGAGCTATACTGCAAA
65 CCTTGAGTTATGCTGCAAA
* * * * *
60062 TGATGGTTCCTTTG-AGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTA
1 TGAT-GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTG-CAGATAACCCTTCTA
* *
60126 GCCTTGATTTATGCTGTAAA
64 GCCTTGAGTTATGCTGCAAA
* * * * * *
60146 TTATGTGCCCTCGAAGCTGAATGTAATCGAACTCGAGGGTC-TT-TAGCAGATAACCCTTCTCGA
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGCAGATAACCCTTCTAGC
* *
60209 CTTAAGCTATGCTGCAAA
66 CTTGAGTTATGCTGCAAA
* * * * * * * *
60227 TGATGTGCCTTGGAA-CAGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTACTC
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTT-GCAGATAACCCTTCTA
* * *
60291 GACTTAAGTTATGATGCAAA
64 GCCTTGAGTTATGCTGCAAA
* * * * * * * **
60311 TGATATG-CCTTGGAGCTGAGCGTAGTCAAACTCGAGGGTCTTTTGGTCACAGATAACCCTTCTA
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTT-GTTGCAGATAACCCTTCTA
* *
60375 GCCTTGAGTTATGTTGTAAA
64 GCCTTGAGTTATGCTGCAAA
* * * * * *
60395 TGATATTCCTTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGTTGACAGATAACCGTTCTAG
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTG-CAGATAACCCTTCTAG
* *
60460 CCTTGAGTTATGCCGTAAA
65 CCTTGAGTTATGCTGCAAA
* * * * *
60479 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTG--GCATATAGCCCTTCTCGA
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGCAGATAACCCTTCTAGC
* *
60542 CTTAAGCTATGCTGCAAA
66 CTTGAGTTATGCTGCAAA
* * * *
60560 TGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGCAGATAACCCTTCTAG
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGCAGATAACCCTTCTAG
**
60624 CCTTGAGTTATGCTATAAA
65 CCTTGAGTTATGCTGCAAA
* * * * *
60643 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTG--GCAGAGAGCCCTTCTCGA
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGCAGATAACCCTTCTAGC
* * *
60706 CTTAAGCTATACTGCAAA
66 CTTGAGTTATGCTGCAAA
* * * *
60724 TGATGTG-CCTTGAAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTA
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTT-GCAGATAACCCTTCTA
* *
60788 GCGTTGAGTTATGCTGTAAA
64 GCCTTGAGTTATGCTGCAAA
* * * * * *
60808 TGATGTGCCCTCGAAGCTGAGTGTAATCAAATTCGAGGGTCTTTG--GCAGATAGCCCTTCTCGA
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGCAGATAACCCTTCTAGC
* *
60871 CTTAAGCTATGCTGCAAA
66 CTTGAGTTATGCTGCAAA
60889 T
1 T
60890 AGTTTCTTTA
Statistics
Matches: 673, Mismatches: 132, Indels: 45
0.79 0.16 0.05
Matches are distributed among these distances:
80 85 0.13
81 176 0.26
82 3 0.00
83 54 0.08
84 292 0.43
85 63 0.09
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (83 bp):
TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGCAGATAACCCTTCTAGC
CTTGAGTTATGCTGCAAA
Found at i:60543 original size:249 final size:247
Alignment explanation
Indices: 59982--60768 Score: 935
Period size: 249 Copynumber: 3.2 Consensus size: 247
59972 GCAACGTGGT
* * * *
59982 TGATATGCCCTCG-AGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAAATAACCCTTCT-TACC
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAACCCTTCTCGA-C
* * * * * *
60045 TTGAGCTAT-ACTGCAAATGATGGTTCCTTTGAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTT
65 TTAAGCTATGA-TGCAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
* * * *
60109 GACAGATAACCCTTCTAGCCTTGATTTATGCTGTAAATTATGTGCCCTCGAAGCTGAATGTAATC
128 CACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
* *
60174 GAACTCGAGGGTC-TT-TAGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAA
193 GAACTCGAGGGTCTTTGTAGCAGATAACCCTTCTAGACTTAAGCTATGCCGCAAA
* * * * * * * *
60227 TGATGTGCCTTGGAA-CAGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTACTC
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGGCAAATAACCCTTCTC
* * * *
60291 GACTTAAGTTATGATGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAGGGTCTTTTG
62 GACTTAAGCTATGATGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTG
* * * *
60356 GTCACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATTCCTTCGAAGCTGAGTGTAA
126 GTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
* * * * * * *
60421 TCAAACTCGAGGGTCTTTGTTGACAGATAACCGTTCTAGCCTTGAGTTATGCCGTAAA
191 TCGAACTCGAGGGTCTTTGTAG-CAGATAACCCTTCTAGACTTAAGCTATGCCGCAAA
* * *
60479 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCATATAGCCCTTCTCGACT
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAACCCTTCTCGACT
* **
60544 TAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGC
66 TAAGCTATGATGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCAC
*
60609 AGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
131 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
* * * * *
60674 CTCGAGGGTCTTTG--GCAGAGAGCCCTTCTCGACTTAAGCTATACTGCAAA
196 CTCGAGGGTCTTTGTAGCAGATAACCCTTCTAGACTTAAGCTATGCCGCAAA
* * * *
60724 TGATGTG-CCTTGAAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
60769 TTGGCAGATA
Statistics
Matches: 453, Mismatches: 77, Indels: 25
0.82 0.14 0.05
Matches are distributed among these distances:
244 33 0.07
245 61 0.13
246 2 0.00
247 1 0.00
248 109 0.24
249 179 0.40
250 4 0.01
251 3 0.01
252 41 0.09
253 20 0.04
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (247 bp):
TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAACCCTTCTCGACT
TAAGCTATGATGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCAC
AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
CTCGAGGGTCTTTGTAGCAGATAACCCTTCTAGACTTAAGCTATGCCGCAAA
Found at i:60614 original size:164 final size:164
Alignment explanation
Indices: 59982--60889 Score: 1160
Period size: 165 Copynumber: 5.5 Consensus size: 164
59972 GCAACGTGGT
* * * * * *
59982 TGATATGCCCTCG-AGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAAATAACCCTTCT-TACC
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGA-C
* * * * * *
60045 TTGAGCTATACTGCAAATGATGGTTCCTTTGAGCTGAGTGGAGTCGAACTCGAAGGTCTTT-GTT
65 TTAAGCTATGCTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT
*
60109 GACAGATAACCCTTCTAGCCTTGATTTATGCTGTAAA
129 G-CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* * *
60146 TTATGTGCCCTCGAAGCTGAATGTAATCGAACTCGAGGGTCTTTAGCAGATAACCCTTCTCGACT
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACT
* * *
60211 TAAGCTATGCTGCAAATGATGTGCCTTGGAACAGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGG
66 TAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT-G
* * * * * *
60276 CAGATAACCCTACTCGACTTAAGTTATGATGCAAA
130 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* * * * * * *
60311 TGATATG-CCTTGGAGCTGAGCGTAGTCAAACTCGAGGGTCTTTTGGTCACAGATAACCCTTCTA
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-TTTGG---CAGATAACCCTTCTC
* * * * * * * * * * * *
60375 GCCTTGAGTTATGTTGTAAATGATATTCCTTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTT-
62 GACTTAAGCTATGCTGCAAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
* *
60439 GTTGACAGATAACCGTTCTAGCCTTGAGTTATGCCGTAAA
126 GTTG-CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* *
60479 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCATATAGCCCTTCTCGACT
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACT
60544 TAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGC
66 TAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGC
*
60609 AGATAACCCTTCTAGCCTTGAGTTATGCTATAAA
131 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* *
60643 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGAGAGCCCTTCTCGACT
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACT
* * *
60708 TAAGCTATACTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGG
66 TAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT-G
*
60773 CAGATAACCCTTCTAGCGTTGAGTTATGCTGTAAA
130 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* * *
60808 TGATGTGCCCTCGAAGCTGAGTGTAATCAAATTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACT
1 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACT
60873 TAAGCTATGCTGCAAAT
66 TAAGCTATGCTGCAAAT
60890 AGTTTCTTTA
Statistics
Matches: 642, Mismatches: 89, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
164 252 0.39
165 254 0.40
166 2 0.00
167 1 0.00
168 79 0.12
169 54 0.08
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (164 bp):
TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACT
TAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGC
AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
Found at i:60663 original size:333 final size:330
Alignment explanation
Indices: 59982--60889 Score: 1229
Period size: 333 Copynumber: 2.7 Consensus size: 330
59972 GCAACGTGGT
** * * *
59982 TGATATGCCCTCG-AGCTGAATGGAATCGAACTCGAAGGTCTTTGGCA-A-ATAACCCTTCTTA-
1 TGATATG-CCTCGAAGCTGAGCGTAATCAAACTCGAGGGTCTTTGGCACAGATAACCCTTC-TAG
*
60043 CCTTGAGCTATACTGCAAATGATGGTTCCTTTG-AGCTGAGTGGAGTCGAACTCGAAGGTCTTTG
64 CCTTGAGCTATACTGCAAATGAT-GTTCC-TTGAAGCTGAGTGTAGTCGAACTCGAAGGTCTTTG
* * *
60107 TTGACAGATAACCCTTCTAGCCTTGATTTATGCTGTAAATTATGTGCCCTCGAAGCTGAATGTAA
127 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
* *
60172 TCGAACTCGAGGGTCTTTAGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
192 TCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
*
60237 TGGAACAGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTACTCGACTTAAGTTA
257 TGGAACAGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTACTAGACTTAAGTTA
*
60302 TGATGCAAA
322 TGATACAAA
* * *
60311 TGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAGGGTCTTTTGGTCACAGATAACCCTTCTAG
1 TGATATGCCTCGAAGCTGAGCGTAATCAAACTCGAGGGTC-TTTGG-CACAGATAACCCTTCTAG
* ** * * * * *
60376 CCTTGAGTTATGTTGTAAATGATATTCCTTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGT
64 CCTTGAGCTATACTGCAAATGATGTTCCTT-GAAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGT
* *
60441 TGACAGATAACCGTTCTAGCCTTGAGTTATGCCGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
128 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
*
60506 CGAACTCGAGGGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
193 CGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* * * * * *
60571 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT-GCAGATAACCCTTCTAGCCTTGAGTTAT
258 GGAACAGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTACTAGACTTAAGTTAT
* *
60635 GCTATAAA
323 GATACAAA
* * * * * * *
60643 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGG--CAGAGAGCCCTTCTCGA
1 TGATATG-CCTCGAAGCTGAGCGTAATCAAACTCGAGGGTCTTTGGCACAGATAACCCTTCTAGC
* * * *
60706 CTTAAGCTATACTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTT
65 CTTGAGCTATACTGCAAATGATGTTCCTTGAAGCTGAGTGTAGTCGAACTCGAAGGTCTTT-GTT
* *
60771 GGCAGATAACCCTTCTAGCGTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
129 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
* *
60836 AAATTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
194 GAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
60890 AGTTTCTTTA
Statistics
Matches: 506, Mismatches: 63, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
328 31 0.06
329 178 0.35
330 5 0.01
331 4 0.01
332 48 0.09
333 240 0.47
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (330 bp):
TGATATGCCTCGAAGCTGAGCGTAATCAAACTCGAGGGTCTTTGGCACAGATAACCCTTCTAGCC
TTGAGCTATACTGCAAATGATGTTCCTTGAAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGA
CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
ACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGA
ACAGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTACTAGACTTAAGTTATGAT
ACAAA
Found at i:64331 original size:19 final size:19
Alignment explanation
Indices: 64287--64331 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
64277 TCCGTTAGTG
64287 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
* *
64306 AAGGCAAAGAAAATAACTA
1 AATGCAAAGAAAATAACAA
64325 AATGCAA
1 AATGCAA
64332 CATGTCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:66860 original size:18 final size:19
Alignment explanation
Indices: 66833--66868 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
66823 TTTATTTTGG
*
66833 TTTGCTGTTTT-TTGGTAT
1 TTTGCGGTTTTGTTGGTAT
66851 TTTGCGGTTTTGTTGGTA
1 TTTGCGGTTTTGTTGGTA
66869 ATGGATTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.06, C:0.06, G:0.28, T:0.61
Consensus pattern (19 bp):
TTTGCGGTTTTGTTGGTAT
Found at i:67319 original size:20 final size:19
Alignment explanation
Indices: 67287--67365 Score: 56
Period size: 19 Copynumber: 4.0 Consensus size: 19
67277 GACATGGAAA
*
67287 AAAT-AATAAA-AAAAT-G
1 AAATAAATAAATAAAATAT
*
67303 AAATTAATAAAATAAAATAT
1 AAATAAAT-AAATAAAATAT
67323 AAATAAATAAATAAATAATAAT
1 AAATAAATAAAT-AA-AAT-AT
*
67345 AATAAAAATAGAATAAAATAT
1 AA-ATAAATA-AATAAAATAT
67366 TTTCCAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
16 4 0.08
17 3 0.06
18 3 0.06
19 9 0.18
20 9 0.18
21 5 0.10
22 7 0.14
23 8 0.16
24 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATAAATAAATAAAATAT
Found at i:67335 original size:24 final size:24
Alignment explanation
Indices: 67286--67364 Score: 83
Period size: 24 Copynumber: 3.2 Consensus size: 24
67276 GGACATGGAA
* *
67286 AAAATAATAAAAAAATGAAATTAAT
1 AAAATAATAATAAAAT-AAATAAAT
67311 AAAATAA-AATATAAATAAATAAAT
1 AAAATAATAATA-AAATAAATAAAT
67335 -AAATAATAATAATAA-AAATAGAAT
1 AAAATAATAATAA-AATAAATA-AAT
67359 AAAATA
1 AAAATA
67365 TTTTCCAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
23 12 0.26
24 19 0.40
25 16 0.34
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (24 bp):
AAAATAATAATAAAATAAATAAAT
Found at i:67359 original size:11 final size:10
Alignment explanation
Indices: 67285--67362 Score: 52
Period size: 11 Copynumber: 7.4 Consensus size: 10
67275 TGGACATGGA
*
67285 AAAAATAATAA
1 AAAAATAA-AT
67296 AAAAATGAAAT
1 AAAAAT-AAAT
* *
67307 TAATA-AAAT
1 AAAAATAAAT
67316 AAAATATAAAT
1 AAAA-ATAAAT
67327 AAATAAATAAAT
1 -AA-AAATAAAT
*
67339 AATAAT-AAT
1 AAAAATAAAT
67348 AAAAATAGAAT
1 AAAAATA-AAT
67359 AAAA
1 AAAA
67363 TATTTTCCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
9 14 0.26
10 4 0.08
11 23 0.43
12 10 0.19
13 2 0.04
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:67360 original size:32 final size:33
Alignment explanation
Indices: 67291--67362 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
67281 TGGAAAAAAT
67291 AATAAAAAAATGAAATTAATAAAATAAAATATA
1 AATAAAAAAATGAAATTAATAAAATAAAATATA
*
67324 AATAAATAAAT-AAA-TAATAATAATAAAA-ATA
1 AATAAAAAAATGAAATTAATAA-AATAAAATATA
67355 GAATAAAA
1 -AATAAAA
67363 TATTTTCCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 9 0.26
32 16 0.46
33 10 0.29
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (33 bp):
AATAAAAAAATGAAATTAATAAAATAAAATATA
Found at i:67427 original size:37 final size:37
Alignment explanation
Indices: 67380--67902 Score: 292
Period size: 37 Copynumber: 14.4 Consensus size: 37
67370 CAAAAACCTT
* *
67380 TATATAATATATATTTTCAAAAAGTATTTTAAAAATC
1 TATATTATATATATTTTCAAAAAGTATTTTAAAAATA
* * *
67417 TATATTATATATATTTTTTTGAAAAA-TGTTTT---CA-A
1 TATATTATATATA---TTTTCAAAAAGTATTTTAAAAATA
** *
67452 -A-ATTATAT-GGTTTT-AAAAA--ATGTTTAAAACTA
1 TATATTATATATATTTTCAAAAAGTAT-TTTAAAAATA
** * * *
67484 TATATTAT--AGGTCTTCAAAAA-TGATTTCAAAACTA
1 TATATTATATATATTTTCAAAAAGT-ATTTTAAAAATA
* *
67519 TATAATATATATATTTTCAAAAA-TGTTTTAAAAACTA
1 TATATTATATATATTTTCAAAAAGTATTTTAAAAA-TA
* * * * *
67556 TATTTTATATTTATTTTCAAAATG-ATTTCAAAACTA
1 TATATTATATATATTTTCAAAAAGTATTTTAAAAATA
* *
67592 TATAATATATATATTTTCAAAAATGT-TTTAAAAAACTA
1 TATATTATATATATTTTCAAAAA-GTATTTTAAAAA-TA
* * * *
67630 TATATTATATTTATTTTCAAAATG-ATTTCAAAACTA
1 TATATTATATATATTTTCAAAAAGTATTTTAAAAATA
* * * *
67666 TATAGTATATATATTTTCAAAAATGT-TTTGAAAACTT
1 TATATTATATATATTTTCAAAAA-GTATTTTAAAAATA
* * *
67703 TATATTATATTTATTTT-TAAAA-TGTTTTAAAAACTA
1 TATATTATATATATTTTCAAAAAGTATTTTAAAAA-TA
67739 TATA--ATATATATTTTCAAAAATGT-TTTTAAAAATTA
1 TATATTATATATATTTTCAAAAA-GTATTTTAAAAA-TA
*
67775 TATATTATATAATATTTTC-AAAA-TGTTTTAAAAACTA
1 TATATTATAT-ATATTTTCAAAAAGTATTTTAAAAA-TA
* * * * *
67812 TATAATATATAAATGTTTTCAAACATGT-TTTCAAAACTA
1 TAT-AT-TATATATATTTTCAAA-AAGTATTTTAAAAATA
* * * *
67851 TATATTATATATATGTTT-TAAAAGTGTTTTTAAACTA
1 TATATTATATATAT-TTTCAAAAAGTATTTTAAAAATA
67888 TATATATATATATAT
1 TATAT-TATATATAT
67903 ATATATATGG
Statistics
Matches: 382, Mismatches: 63, Indels: 81
0.73 0.12 0.15
Matches are distributed among these distances:
27 1 0.00
28 8 0.02
29 4 0.01
32 1 0.00
33 13 0.03
34 22 0.06
35 27 0.07
36 81 0.21
37 130 0.34
38 53 0.14
39 24 0.06
40 17 0.04
41 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.46
Consensus pattern (37 bp):
TATATTATATATATTTTCAAAAAGTATTTTAAAAATA
Found at i:67454 original size:39 final size:41
Alignment explanation
Indices: 67379--67459 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 41
67369 CCAAAAACCT
67379 TTATATAATATATATTTTCAAAAAGTATTTTAAAAATCTATA
1 TTATATAATATATATTTTCAAAAAGTATTTTAAAAAT-TATA
* * * *
67421 TTATAT-ATAT-TTTTTTGAAAAA-TGTTTTCAAAATTATA
1 TTATATAATATATATTTTCAAAAAGTATTTTAAAAATTATA
67459 T
1 T
67460 GGTTTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
38 5 0.14
39 10 0.29
40 10 0.29
41 4 0.11
42 6 0.17
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (41 bp):
TTATATAATATATATTTTCAAAAAGTATTTTAAAAATTATA
Found at i:67487 original size:29 final size:30
Alignment explanation
Indices: 67423--67522 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 30
67413 AATCTATATT
** *
67423 ATATATATTTTTTTGAAAAATGTTTTCAAA
1 ATATATATGGTTTTAAAAAATGTTTTCAAA
*
67453 AT-TATATGGTTTTAAAAAATG-TTTAAAA
1 ATATATATGGTTTTAAAAAATGTTTTCAAA
* * *
67481 CTATATATTATAGGTCTTCAAAAATGATTTCAAA
1 --ATATA-TAT-GGTTTTAAAAAATGTTTTCAAA
67515 ACTATATA
1 A-TATATA
67523 ATATATATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
28 6 0.11
29 16 0.29
30 4 0.07
31 2 0.04
32 6 0.11
33 16 0.29
34 6 0.11
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (30 bp):
ATATATATGGTTTTAAAAAATGTTTTCAAA
Found at i:67585 original size:73 final size:73
Alignment explanation
Indices: 67462--67902 Score: 554
Period size: 73 Copynumber: 6.0 Consensus size: 73
67452 AATTATATGG
* ** *
67462 TTTTAAAAAATG-TTT-AAAACTATATATTATA--GGTCTTCAAAAATGATTTCAAAACTATATA
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTC-AAAATGATTTCAAAACTATATA
67523 ATATATATA
65 ATATATATA
*
67532 TTTTCAAAAATGTTTTAAAAACTATATTTTATATTTATTTTCAAAATGATTTCAAAACTATATAA
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAATGATTTCAAAACTATATAA
67597 TATATATA
66 TATATATA
67605 TTTTCAAAAATGTTTTAAAAAACTATATATTATATTTATTTTCAAAATGATTTCAAAACTATATA
1 TTTTCAAAAATGTTTT-AAAAACTATATATTATATTTATTTTCAAAATGATTTCAAAACTATATA
*
67670 GTATATATA
65 ATATATATA
* * * * *
67679 TTTTCAAAAATGTTTTGAAAACTTTATATTATATTTATTTTTAAAATGTTTTAAAAACTATAT-A
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAATGATTTCAAAACTATATAA
67743 -ATATATA
66 TATATATA
* * * *
67750 TTTTCAAAAATGTTTTTAAAAATTATATATTATATAATATTTTCAAAATGTTTTAAAAACTATAT
1 TTTTCAAAAATG-TTTTAAAAACTATATATTATAT-TTATTTTCAAAATGATTTCAAAACTATAT
*
67815 AATATATAAATG
64 AATATAT--ATA
* * * * **
67827 TTTTCAAACATGTTTTCAAAACTATATATTATATATATGTTTTAAAAGTG-TTTTTAAACTATAT
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATTTAT-TTTCAAAA-TGATTTCAAAACTATAT
67891 ATATATATATA
64 A-ATATATATA
67902 T
1 T
67903 ATATATATGG
Statistics
Matches: 331, Mismatches: 26, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
70 11 0.03
71 22 0.07
72 34 0.10
73 116 0.35
74 76 0.23
75 11 0.03
76 40 0.12
77 21 0.06
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (73 bp):
TTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAATGATTTCAAAACTATATAA
TATATATA
Found at i:67589 original size:36 final size:36
Alignment explanation
Indices: 67468--67902 Score: 470
Period size: 37 Copynumber: 11.9 Consensus size: 36
67458 ATGGTTTTAA
** *
67468 AAAATG-TTT-AAAACTATATA-T-TATAGGTCTTC
1 AAAATGTTTTAAAAACTATATATTATATATATTTTC
* * *
67500 AAAAATGATTTCAAAACTATATAATATATATATTTTC
1 -AAAATGTTTTAAAAACTATATATTATATATATTTTC
* *
67537 AAAAATGTTTTAAAAACTATATTTTATATTTATTTTC
1 -AAAATGTTTTAAAAACTATATATTATATATATTTTC
* * *
67574 AAAATGATTTCAAAACTATATAATATATATATTTTC
1 AAAATGTTTTAAAAACTATATATTATATATATTTTC
*
67610 AAAAATGTTTTAAAAAACTATATATTATATTTATTTTC
1 -AAAATGTTTT-AAAAACTATATATTATATATATTTTC
* * *
67648 AAAATGATTTCAAAACTATATAGTATATATATTTTC
1 AAAATGTTTTAAAAACTATATATTATATATATTTTC
* * * *
67684 AAAAATGTTTTGAAAACTTTATATTATATTTATTTTT
1 -AAAATGTTTTAAAAACTATATATTATATATATTTTC
67721 AAAATGTTTTAAAAACTATATA--ATATATATTTTC
1 AAAATGTTTTAAAAACTATATATTATATATATTTTC
*
67755 AAAAATGTTTTTAAAAATTATATATTATATAATATTTTC
1 -AAAATG-TTTTAAAAACTATATATTATAT-ATATTTTC
* *
67794 AAAATGTTTTAAAAACTATATAATATATAAATGTTTTC
1 AAAATGTTTTAAAAACTATAT-AT-TATATATATTTTC
* *
67832 AAACATGTTTTCAAAACTATATATTATATATATGTTTT
1 AAA-ATGTTTTAAAAACTATATATTATATATAT-TTTC
*
67870 AAAAGTGTTTT-TAAACTATATATATATATATAT
1 AAAA-TGTTTTAAAAACTATATAT-TATATATAT
67903 ATATATATGG
Statistics
Matches: 344, Mismatches: 40, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
33 6 0.02
34 13 0.04
35 17 0.05
36 90 0.26
37 121 0.35
38 68 0.20
39 29 0.08
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (36 bp):
AAAATGTTTTAAAAACTATATATTATATATATTTTC
Found at i:67893 original size:2 final size:2
Alignment explanation
Indices: 67886--67910 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
67876 GTTTTTAAAC
67886 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
67911 GGGACGAAAA
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:68850 original size:31 final size:31
Alignment explanation
Indices: 68812--68876 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
68802 ACGTCTAAGA
*
68812 GACTAAAATTGAACGGATCTATAACATTAGG
1 GACTAAAATTGAACGGATCAATAACATTAGG
* **
68843 GACTAAAATTGAATGGATCAATAATGTTAGG
1 GACTAAAATTGAACGGATCAATAACATTAGG
68874 GAC
1 GAC
68877 CATTTCCCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.26
Consensus pattern (31 bp):
GACTAAAATTGAACGGATCAATAACATTAGG
Found at i:71088 original size:30 final size:30
Alignment explanation
Indices: 71054--71113 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
71044 GTAATGACTA
71054 CAGCGGATTTTATTCCACAAACTATTCTTT
1 CAGCGGATTTTATTCCACAAACTATTCTTT
* *
71084 CAGCGGATTTTATTCCACGAAGTATTCTTT
1 CAGCGGATTTTATTCCACAAACTATTCTTT
71114 GTTTTCTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (30 bp):
CAGCGGATTTTATTCCACAAACTATTCTTT
Found at i:72509 original size:57 final size:59
Alignment explanation
Indices: 72362--72533 Score: 226
Period size: 57 Copynumber: 2.9 Consensus size: 59
72352 GTAGTCGTAT
* *
72362 AGAATGATCTTTACCTTTTGAAGATGAACTTGAAATCTCTAAAGAAATA--TAATTGTATTGA
1 AGAA-GATC-TTACCTTTTGAAGATGAACTCGAAATCTCTAAAGAAATATCTAA--GTATAGA
*
72423 ATGAAGATCTTACCTTTTGAAGAGGAACTCGAAATCTCTAAAGAAATATCTAAGTA-AGA
1 A-GAAGATCTTACCTTTTGAAGATGAACTCGAAATCTCTAAAGAAATATCTAAGTATAGA
* *
72482 A-ACGATCTTACCTTTTGAAGATGAACTCGAAATTTCTAAAGAAATATCTAAG
1 AGAAGATCTTACCTTTTGAAGATGAACTCGAAATCTCTAAAGAAATATCTAAG
72534 AACCCAGACG
Statistics
Matches: 102, Mismatches: 6, Indels: 10
0.86 0.05 0.08
Matches are distributed among these distances:
57 48 0.47
59 3 0.03
60 40 0.39
61 5 0.05
62 6 0.06
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (59 bp):
AGAAGATCTTACCTTTTGAAGATGAACTCGAAATCTCTAAAGAAATATCTAAGTATAGA
Found at i:77001 original size:60 final size:60
Alignment explanation
Indices: 76876--76988 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
76866 AAGTACACAA
* * *
76876 GACTATAAAATATTGTTTTGTTGAGTCCTCTGACTATCAAAAGTTTCAAAATGATCCCCT
1 GACTATAAAACATTGCTTTGTTGAGTCCTCTGACTATCAAAAGTTACAAAATGATCCCCT
* *
76936 GACTATAAGACATTGCTTTGTTGAGTTTCC-C-GACTATTAAAAGTTACAAAATG
1 GACTATAAAACATTGCTTTGTTGAG--TCCTCTGACTATCAAAAGTTACAAAATG
76989 GTCGTCTGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 42 0.91
61 1 0.02
62 3 0.07
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (60 bp):
GACTATAAAACATTGCTTTGTTGAGTCCTCTGACTATCAAAAGTTACAAAATGATCCCCT
Found at i:78803 original size:57 final size:57
Alignment explanation
Indices: 78695--78836 Score: 144
Period size: 57 Copynumber: 2.4 Consensus size: 57
78685 AAATTTAAGT
* * **
78695 ATTTTAATTTCATCCCTAAACTATAACTATTATTGTAAATTAATCTTCAAACTTAAC
1 ATTTTAATTTCATCCCTAAAATATAACTATTATTATAAATTAATCCCCAAACTTAAC
* * *
78752 ATTTTAGTTTCATCCCTAAAATATGCACT-TTATTATAAATTAGTCCCCAAACCTTTTGAAC
1 ATTTTAATTTCATCCCTAAAATAT-AACTATTATTATAAATTAATCCCCAAA-C--TT-AAC
* *
78813 ATTTTGATTTCATCCC-AAATTATA
1 ATTTTAATTTCATCCCTAAAATATA
78837 CGTATATGCC
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
57 40 0.58
58 4 0.06
60 8 0.12
61 17 0.25
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (57 bp):
ATTTTAATTTCATCCCTAAAATATAACTATTATTATAAATTAATCCCCAAACTTAAC
Found at i:79664 original size:13 final size:13
Alignment explanation
Indices: 79642--79690 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 13
79632 TTTGGGAAAC
*
79642 TTTAATAATATTT
1 TTTAAAAATATTT
79655 TTTAAAAATA--T
1 TTTAAAAATATTT
79666 TTTAAAAAGTATCTT
1 TTTAAAAA-TAT-TT
79681 TTTAAAAATA
1 TTTAAAAATA
79691 AAAATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 9 0.29
12 2 0.06
13 9 0.29
14 2 0.06
15 9 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (13 bp):
TTTAAAAATATTT
Found at i:83415 original size:48 final size:48
Alignment explanation
Indices: 83339--83439 Score: 166
Period size: 48 Copynumber: 2.1 Consensus size: 48
83329 CTTCAGATGT
* *
83339 ATCTCGTTCAGATCGGGTCACATCATTGATAGATAAAATTCAAGTTGG
1 ATCTCGTTCAGATCGGGTCACATCATTGACAGATAAAATTCAAGTCGG
* *
83387 ATCTTGTTCATATCGGGTCACATCATTGACAGATAAAATTCAAGTCGG
1 ATCTCGTTCAGATCGGGTCACATCATTGACAGATAAAATTCAAGTCGG
83435 ATCTC
1 ATCTC
83440 TATCATATAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (48 bp):
ATCTCGTTCAGATCGGGTCACATCATTGACAGATAAAATTCAAGTCGG
Found at i:84102 original size:20 final size:20
Alignment explanation
Indices: 84066--84114 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
84056 ATTATATATT
**
84066 AACTATATATATTATGTATA
1 AACTATATATACCATGTATA
84086 AACTATATATACCATGTATA
1 AACTATATATACCATGTATA
*
84106 AATTATATA
1 AACTATATA
84115 GTTTATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (20 bp):
AACTATATATACCATGTATA
Found at i:84114 original size:2 final size:2
Alignment explanation
Indices: 83977--84096 Score: 83
Period size: 2 Copynumber: 61.5 Consensus size: 2
83967 AAAACAATTA
*
83977 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA ACT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * * *
84019 A- AT AA AT AT AT AT AA AT -T AT AT AGT TT AC AT TT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* *
84059 AT AT AT -T A- ACT AT AT AT AT -T AT GT AT AA ACT AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT A
84097 CCATGTATAA
Statistics
Matches: 91, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
1 7 0.08
2 80 0.88
3 4 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:84218 original size:22 final size:22
Alignment explanation
Indices: 84191--84232 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
84181 TATATACTAT
84191 ATATAAATTATATAGTTTATTA
1 ATATAAATTATATAGTTTATTA
84213 ATATAAATTATATAGTTTAT
1 ATATAAATTATATAGTTTAT
84233 AGATAGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
ATATAAATTATATAGTTTATTA
Found at i:92260 original size:23 final size:23
Alignment explanation
Indices: 92208--92266 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
92198 TTCTGAATGC
* *
92208 ATGATGATTGCTGAATTGATGCA
1 ATGATGCTTGCTGAATTGATACA
* *
92231 ATAATGCTTGCTGAATTGATATA
1 ATGATGCTTGCTGAATTGATACA
*
92254 GTGATGCTTGCTG
1 ATGATGCTTGCTG
92267 GTTGCTGTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (23 bp):
ATGATGCTTGCTGAATTGATACA
Found at i:92875 original size:19 final size:19
Alignment explanation
Indices: 92844--92890 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
92834 AATAAAATTT
*
92844 ATAATAT-AAGAATTATAA
1 ATAATATAAAGAATTAGAA
92862 ATAATATAAAGAATTAGAA
1 ATAATATAAAGAATTAGAA
*
92881 TTAATATAAA
1 ATAATATAAA
92891 AACCAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (19 bp):
ATAATATAAAGAATTAGAA
Found at i:92925 original size:18 final size:17
Alignment explanation
Indices: 92845--92937 Score: 78
Period size: 18 Copynumber: 5.1 Consensus size: 17
92835 ATAAAATTTA
* *
92845 TAATATAAGAATTATAAA
1 TAATATAAAAATTA-AAT
92863 TAATATAAAGAATTAGAAT
1 TAATATAAA-AATTA-AAT
**
92882 TAATATAAAAACCAAATTT
1 TAATATAAAAATTAAA--T
*
92901 ATAATATACAAATTATAAT
1 -TAATATAAAAATTA-AAT
92920 TAATATAAAAATTAAAT
1 TAATATAAAAATTAAAT
92937 T
1 T
92938 TCAAAAAGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
17 6 0.10
18 24 0.39
19 18 0.30
20 11 0.18
21 2 0.03
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
TAATATAAAAATTAAAT
Found at i:95601 original size:25 final size:25
Alignment explanation
Indices: 95565--95630 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
95555 CTATAACAAG
* **
95565 AACCCTATTTCCCTGTTTAGGAATC
1 AACCCTAATTCCCCATTTAGGAATC
*
95590 AACCCTAATTCCCCCATTTGGGAATC
1 AACCCTAATT-CCCCATTTAGGAATC
*
95616 AACCCCAATTCCCCA
1 AACCCTAATTCCCCA
95631 AAATATACCC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 14 0.40
26 21 0.60
ACGTcount: A:0.27, C:0.36, G:0.09, T:0.27
Consensus pattern (25 bp):
AACCCTAATTCCCCATTTAGGAATC
Found at i:96844 original size:20 final size:19
Alignment explanation
Indices: 96819--96858 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
96809 CGTCCAGTTT
96819 TTATTATTATATTTATATTA
1 TTATTATTA-ATTTATATTA
*
96839 TTATTATTAATTTTTATTA
1 TTATTATTAATTTATATTA
96858 T
1 T
96859 AGTTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATTAATTTATATTA
Found at i:100279 original size:21 final size:21
Alignment explanation
Indices: 100238--100346 Score: 78
Period size: 21 Copynumber: 5.0 Consensus size: 21
100228 TCGAGGGTTT
* *
100238 TATGTGGTCCTTCGAG-ACAAA
1 TATGTGGTACTTCG-GTGCAAA
100259 TATGTGGTACTTCGGTGCAAA
1 TATGTGGTACTTCGGTGCAAA
* * * *
100280 CCTATGTGGCACTTTGGTACAACC
1 --TATGTGGTACTTCGGTGCAA-A
* *
100304 TATATGGTACTTCGG-GACAAT
1 TATGTGGTACTTCGGTG-CAAA
*
100325 TATGTGGCACTTCGGTGCAAA
1 TATGTGGTACTTCGGTGCAAA
100346 T
1 T
100347 TACGAGATGT
Statistics
Matches: 68, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
20 1 0.01
21 34 0.50
22 16 0.24
23 17 0.25
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (21 bp):
TATGTGGTACTTCGGTGCAAA
Found at i:100306 original size:22 final size:22
Alignment explanation
Indices: 100259--100340 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
100249 TCGAGACAAA
* *
100259 TATGTGGTACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTAC-AACC
*
100282 TATGTGGCACTTTGGTACAACC
1 TATGTGGCACTTCGGTACAACC
* * * *
100304 TATATGGTACTTCGGGACAA-T
1 TATGTGGCACTTCGGTACAACC
100325 TATGTGGCACTTCGGT
1 TATGTGGCACTTCGGT
100341 GCAAATTACG
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 13 0.27
22 20 0.42
23 15 0.31
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (22 bp):
TATGTGGCACTTCGGTACAACC
Found at i:100347 original size:22 final size:22
Alignment explanation
Indices: 100255--100345 Score: 80
Period size: 21 Copynumber: 4.2 Consensus size: 22
100245 TCCTTCGAGA
*
100255 CAAA-TATGTGGTACTTCGGTG
1 CAAACTATGTGGCACTTCGGTG
* *
100276 CAAACCTATGTGGCACTTTGGTA
1 CAAA-CTATGTGGCACTTCGGTG
* * *
100299 CAACCTATATGGTACTTCGG-G
1 CAAACTATGTGGCACTTCGGTG
*
100320 -ACAATTATGTGGCACTTCGGTG
1 CA-AACTATGTGGCACTTCGGTG
100342 CAAA
1 CAAA
100346 TTACGAGATG
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
20 1 0.02
21 18 0.34
22 16 0.30
23 18 0.34
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (22 bp):
CAAACTATGTGGCACTTCGGTG
Found at i:102890 original size:18 final size:18
Alignment explanation
Indices: 102867--102902 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
102857 ATATTGAAGT
102867 AATGTCAGAATCAACACC
1 AATGTCAGAATCAACACC
102885 AATGTCAGAATCAACACC
1 AATGTCAGAATCAACACC
102903 GATTTCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.17
Consensus pattern (18 bp):
AATGTCAGAATCAACACC
Found at i:107103 original size:21 final size:21
Alignment explanation
Indices: 107077--107176 Score: 148
Period size: 21 Copynumber: 4.8 Consensus size: 21
107067 GTCGAGGGTT
* *
107077 TTATGTGGTCCTTCAGGATAA
1 TTATGTGGTCATTCGGGATAA
107098 TTATGTGGTCATTCGGGATAA
1 TTATGTGGTCATTCGGGATAA
107119 TTATGTGGTCATTCGGGATAA
1 TTATGTGGTCATTCGGGATAA
*
107140 TTATGTGGTCATTCGGGACAA
1 TTATGTGGTCATTCGGGATAA
*
107161 ATATGTGG-CACTTCGG
1 TTATGTGGTCA-TTCGG
107177 TGCAAACCTA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
20 2 0.03
21 72 0.97
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (21 bp):
TTATGTGGTCATTCGGGATAA
Found at i:107192 original size:23 final size:22
Alignment explanation
Indices: 107162--107244 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
107152 TCGGGACAAA
107162 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTG-AAACC
* *
107185 TATGTGGCACTTCAGTGTAACC
1 TATGTGGCACTTCGGTGAAACC
*
107207 TATGTGGTC-CTTCGG-GACAA-T
1 TATGTGG-CACTTCGGTGA-AACC
*
107228 TATATGGCACTTCGGTG
1 TATGTGGCACTTCGGTG
107245 CAAATTACGA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.02
21 13 0.26
22 19 0.38
23 17 0.34
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (22 bp):
TATGTGGCACTTCGGTGAAACC
Found at i:107209 original size:22 final size:23
Alignment explanation
Indices: 107162--107213 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
107152 TCGGGACAAA
*
107162 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCAGTGCAAACC
*
107185 TATGTGGCACTTCAGTG-TAACC
1 TATGTGGCACTTCAGTGCAAACC
107207 TATGTGG
1 TATGTGG
107214 TCCTTCGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
TATGTGGCACTTCAGTGCAAACC
Found at i:107251 original size:22 final size:22
Alignment explanation
Indices: 107141--107248 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 22
107131 TCGGGATAAT
107141 TATGTGGTCA-TTCGG-GACAAA-
1 TATGTGG-CACTTCGGTG-CAAAC
107162 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAA-C
* * *
107185 TATGTGGCACTTCAGTGTAACC
1 TATGTGGCACTTCGGTGCAAAC
*
107207 TATGTGGTC-CTTCGG-G-ACAAT
1 TATGTGG-CACTTCGGTGCA-AAC
*
107228 TATATGGCACTTCGGTGCAAA
1 TATGTGGCACTTCGGTGCAAA
107249 TTACGAGTTG
Statistics
Matches: 71, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
20 4 0.06
21 30 0.42
22 17 0.24
23 20 0.28
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (22 bp):
TATGTGGCACTTCGGTGCAAAC
Found at i:116153 original size:258 final size:258
Alignment explanation
Indices: 115656--116223 Score: 847
Period size: 258 Copynumber: 2.2 Consensus size: 258
115646 TTCTTACTTA
* * *
115656 GTAAGTTCTTCGGGCCATCAGTAAGTCATTT-GAGTATGA-AATTAAATCCTTCGGGTCATCAGT
1 GTAAGTCCTTCGGGCCATCAGTAAGTC-TTTCGAGTATGATGATTAAATCCTTCAGGTCATCAGT
* * *
115719 CAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATTTGTAAGACCTTCGGGCAGGATGTTTTC
65 CAGTCTTTCGAGCAAGATGAAAAGTCCTTCGGGCCATCTATAAGACCTTCGGGCAGGATGTTTTC
*
115784 ACATGATTTTCGAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAATATTTTCAAAAGATGA
130 ACATGATTTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAAAAGATGA
*
115849 AATATTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTATTACCTAGTAAATTATTTCCAAAATTT
195 AATATTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTATTACCTAGTAAATTATTTCCAAAATTG
* * * *
115913 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTAGGTCATCTGTT
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGTATGATGATTAAATCCTTCAGGTCATCAGTC
* * *
115978 AGTCTTTCGAGTAAGGTGAAAAGTCCTTCGGGCCATCTATAAGACCTTTGGGCAAGGATGTTTTC
66 AGTCTTTCGAGCAAGATGAAAAGTCCTTCGGGCCATCTATAAGACCTTCGGGC-AGGATGTTTTC
* * *
116043 ACATGATTTTC-AAACATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTGTTTTCAGAAA-ATG
130 ACATGATTTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCA-AAAGATG
* ** *
116106 AAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAATTATTTCCAAAATTG
194 AAATATTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTATTACCTAGTAAATTATTTCCAAAATTG
* * * *
116171 GTAAGTCCTTCGGGACATCAGTAAATCTTTCGAGTATGATGATAAAACCCTTC
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGTATGATGATTAAATCCTTC
116224 GGGGTATATG
Statistics
Matches: 279, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
256 3 0.01
257 33 0.12
258 218 0.78
259 25 0.09
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (258 bp):
GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGTATGATGATTAAATCCTTCAGGTCATCAGTC
AGTCTTTCGAGCAAGATGAAAAGTCCTTCGGGCCATCTATAAGACCTTCGGGCAGGATGTTTTCA
CATGATTTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAAAAGATGAA
ATATTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTATTACCTAGTAAATTATTTCCAAAATTG
Found at i:116371 original size:3 final size:3
Alignment explanation
Indices: 116363--116400 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
116353 CGTCCCGTTT
116363 TTA TTA TTA -TA TT- TATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
116401 ATTTTTACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 3 0.09
3 28 0.88
4 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:117944 original size:24 final size:24
Alignment explanation
Indices: 117912--117979 Score: 93
Period size: 23 Copynumber: 2.9 Consensus size: 24
117902 GTCGAGGGTT
117912 CTATGTGGTCCTTTGGGACAAAAC
1 CTATGTGGTCCTTTGGGACAAAAC
**
117936 CTATGTGGTCCTTCAGGAC-AAAC
1 CTATGTGGTCCTTTGGGACAAAAC
* *
117959 TTATATGGTCCTTTGGGACAA
1 CTATGTGGTCCTTTGGGACAA
117980 TTATGTGGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (24 bp):
CTATGTGGTCCTTTGGGACAAAAC
Found at i:117967 original size:23 final size:24
Alignment explanation
Indices: 117912--117971 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
117902 GTCGAGGGTT
* **
117912 CTATGTGGTCCTTTGGGACAAAAC
1 CTATATGGTCCTTCAGGACAAAAC
*
117936 CTATGTGGTCCTTCAGGAC-AAAC
1 CTATATGGTCCTTCAGGACAAAAC
*
117959 TTATATGGTCCTT
1 CTATATGGTCCTT
117972 TGGGACAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (24 bp):
CTATATGGTCCTTCAGGACAAAAC
Found at i:124836 original size:24 final size:24
Alignment explanation
Indices: 124792--124881 Score: 114
Period size: 23 Copynumber: 3.8 Consensus size: 24
124782 TCGAGGGTTC
*
124792 TATGTGGT-CTTTCGGGA-AAAAAT
1 TATGTGGTCCTTT-GGGACAAAACT
*
124815 TATGTGGTCCTTTGGGACAAAACC
1 TATGTGGTCCTTTGGGACAAAACT
* *
124839 TACGTGGTCCTTCGGGAC-AAACT
1 TATGTGGTCCTTTGGGACAAAACT
124862 TATGTGGTCCTTTGGGACAA
1 TATGTGGTCCTTTGGGACAA
124882 TTATGTGGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
23 32 0.56
24 25 0.44
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (24 bp):
TATGTGGTCCTTTGGGACAAAACT
Found at i:124879 original size:23 final size:23
Alignment explanation
Indices: 124792--124897 Score: 112
Period size: 23 Copynumber: 4.7 Consensus size: 23
124782 TCGAGGGTTC
* *
124792 TATGTGGT-CTTTCGGGAAAAAAT
1 TATGTGGTCCTTT-GGGACAAACT
*
124815 TATGTGGTCCTTTGGGACAAAACC
1 TATGTGGTCCTTTGGGAC-AAACT
* *
124839 TACGTGGTCCTTCGGGACAAACT
1 TATGTGGTCCTTTGGGACAAACT
124862 TATGTGGTCCTTTGGGAC-AA-T
1 TATGTGGTCCTTTGGGACAAACT
124883 TATGTGG-CACTTTGG
1 TATGTGGTC-CTTTGG
124898 TGCAAATTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.01
21 14 0.19
22 2 0.03
23 32 0.44
24 23 0.32
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (23 bp):
TATGTGGTCCTTTGGGACAAACT
Found at i:124908 original size:22 final size:21
Alignment explanation
Indices: 124811--124908 Score: 83
Period size: 23 Copynumber: 4.4 Consensus size: 21
124801 TTTCGGGAAA
124811 AAATTATGTGGTCCTTTGGGAC
1 AAATTATGTGGTCCTTTGGG-C
* * *
124833 AAAACCTACGTGGTCCTTCGGGAC
1 -AAA-TTATGTGGTCCTTTGGG-C
124857 AAACTTATGTGGTCCTTTGGG-
1 AAA-TTATGTGGTCCTTTGGGC
124878 ACAATTATGTGG-CACTTTGGTGC
1 A-AATTATGTGGTC-CTTTGG-GC
124901 AAATTATG
1 AAATTATG
124909 AGCTGTGGTG
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.02
21 15 0.23
22 10 0.16
23 22 0.34
24 16 0.25
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (21 bp):
AAATTATGTGGTCCTTTGGGC
Found at i:130241 original size:10 final size:10
Alignment explanation
Indices: 130228--130278 Score: 61
Period size: 9 Copynumber: 5.2 Consensus size: 10
130218 TTTGACCAGT
130228 TTTGAACCGG
1 TTTGAACCGG
130238 TTTG-ACCGG
1 TTTGAACCGG
*
130247 TTCGAACCGG
1 TTTGAACCGG
130257 TTTG-ACCGG
1 TTTGAACCGG
*
130266 TCTGAACCAGG
1 TTTGAACC-GG
130277 TT
1 TT
130279 GACCCGACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
9 16 0.47
10 15 0.44
11 3 0.09
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (10 bp):
TTTGAACCGG
Found at i:130247 original size:9 final size:9
Alignment explanation
Indices: 130213--130266 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
130203 CTACTGGAAA
*
130213 ACCGATTTG
1 ACCGGTTTG
*
130222 ACCAGTTTTG
1 ACC-GGTTTG
130232 AACCGGTTTG
1 -ACCGGTTTG
*
130242 ACCGGTTCG
1 ACCGGTTTG
130251 AACCGGTTTG
1 -ACCGGTTTG
130261 ACCGGT
1 ACCGGT
130267 CTGAACCAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 17 0.45
10 18 0.47
11 3 0.08
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:130255 original size:19 final size:19
Alignment explanation
Indices: 130212--130266 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
130202 GCTACTGGAA
* * *
130212 AACCGATTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTCG
130232 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
130251 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
130267 CTGAACCAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:130272 original size:19 final size:18
Alignment explanation
Indices: 130229--130282 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
130219 TTGACCAGTT
130229 TTGAACCGGTTTGACCGG
1 TTGAACCGGTTTGACCGG
130247 TTCGAACCGGTTTGACCGG
1 TT-GAACCGGTTTGACCGG
130266 TCTGAACCAGG-TTGACC
1 T-TGAACC-GGTTTGACC
130283 CGACCCGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.06
19 28 0.85
20 3 0.09
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.26
Consensus pattern (18 bp):
TTGAACCGGTTTGACCGG
Found at i:130298 original size:17 final size:17
Alignment explanation
Indices: 130276--130333 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
130266 TCTGAACCAG
*
130276 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
130293 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
*
130310 GTTGACCCGACCCGGCC
1 GTTGACCCGACCCGACC
130327 GTTGACC
1 GTTGACC
130334 GTGACCGTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.16, C:0.43, G:0.26, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:137528 original size:20 final size:19
Alignment explanation
Indices: 137503--137554 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
137493 GCTGCTGGAA
* *
137503 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
137523 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
137542 AACCGGGTTGACC
1 AACCGGTTTGACC
137555 CGACCCGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:137532 original size:10 final size:10
Alignment explanation
Indices: 137503--137552 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
137493 GCTGCTGGAA
137503 AACCGGTTTG
1 AACCGGTTTG
*
137513 -ACCAGTTTTG
1 AACC-GGTTTG
137523 AACCGGTTTG
1 AACCGGTTTG
*
137533 -ACCGGTCTG
1 AACCGGTTTG
*
137542 AACCGGGTTG
1 AACCGGTTTG
137552 A
1 A
137553 CCCGACCCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
9 11 0.34
10 18 0.56
11 3 0.09
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:137570 original size:17 final size:17
Alignment explanation
Indices: 137548--137605 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
137538 TCTGAACCGG
*
137548 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
*
137565 GTTGACCCGACCAGACC
1 GTTGACCCGACCCGACC
137582 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
137599 GTTGACC
1 GTTGACC
137606 GTTGACCGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.19, C:0.41, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:137605 original size:7 final size:7
Alignment explanation
Indices: 137595--137631 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
137585 GACCCGACCC
137595 GACCGTT
1 GACCGTT
137602 GACCGTT
1 GACCGTT
137609 GACCG-T
1 GACCGTT
137615 GACCGTT
1 GACCGTT
137622 GACCGTT
1 GACCGTT
137629 GAC
1 GAC
137632 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:137619 original size:13 final size:13
Alignment explanation
Indices: 137595--137627 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
137585 GACCCGACCC
137595 GACCGTTGACCGTT
1 GACCG-TGACCGTT
137609 GACCGTGACCGTT
1 GACCGTGACCGTT
137622 GACCGT
1 GACCGT
137628 TGACTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:142466 original size:17 final size:17
Alignment explanation
Indices: 142444--142484 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
142434 TAAACTTTCA
142444 TATGTTTCAAAATTATT
1 TATGTTTCAAAATTATT
142461 TATGTTTCAAAATTATT
1 TATGTTTCAAAATTATT
142478 TATGTTT
1 TATGTTT
142485 TATTTTGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (17 bp):
TATGTTTCAAAATTATT
Found at i:143539 original size:20 final size:20
Alignment explanation
Indices: 143473--143681 Score: 123
Period size: 20 Copynumber: 10.5 Consensus size: 20
143463 AATGACCAAG
*
143473 AAATCCGCAACGCG-A-TCTC
1 AAATTCGCAACGCGAATTC-C
*
143492 AAATTCGCAACGTG-A-TCTC
1 AAATTCGCAACGCGAATTC-C
143511 AAATTCGCAACGCGAATTCC
1 AAATTCGCAACGCGAATTCC
* * *
143531 AATTTCGCAACTC-AGTTTCC
1 AAATTCGCAACGCGA-ATTCC
*
143551 AAATTCGCAACGCGATTTTCC
1 AAATTCGCAACGCGA-ATTCC
* *
143572 AAATTCGCAATGCGAAAGT-C
1 AAATTCGCAACGCG-AATTCC
* *
143592 AAATTCGCAATGCGAAAGT-C
1 AAATTCGCAACGCG-AATTCC
**
143612 AAATTCGCAACGCGAATTTGT
1 AAATTCGCAACGCGAA-TTCC
* * *
143633 AAA-TCGCAACACATAAGT-C
1 AAATTCGCAACGC-GAATTCC
*
143652 AAATTCGCAACGCGATAGT-C
1 AAATTCGCAACGCGA-ATTCC
143672 AAATTCGCAA
1 AAATTCGCAA
143682 ATCGAAAGTC
Statistics
Matches: 159, Mismatches: 21, Indels: 19
0.80 0.11 0.10
Matches are distributed among these distances:
19 37 0.23
20 94 0.59
21 27 0.17
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (20 bp):
AAATTCGCAACGCGAATTCC
Found at i:143627 original size:40 final size:39
Alignment explanation
Indices: 143571--143695 Score: 139
Period size: 40 Copynumber: 3.1 Consensus size: 39
143561 CGCGATTTTC
*
143571 CAAATTCGCAATGCGAAAGTCAAATTCGCAATGCGAAAGT
1 CAAATTCGCAACGCGAAAGTCAAATTCGCAAT-CGAAAGT
* *
143611 CAAATTCGCAACGCGAATTTGT-AAA-TCGCAA-CACATAAGT
1 CAAATTCGCAACGCGAA--AGTCAAATTCGCAATC-GA-AAGT
*
143651 CAAATTCGCAACGCGATAGTCAAATTCGCAAATCGAAAGT
1 CAAATTCGCAACGCGAAAGTCAAATTCGC-AATCGAAAGT
143691 CAAAT
1 CAAAT
143696 GTTTTTACGC
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
38 3 0.04
39 4 0.06
40 55 0.77
41 6 0.08
42 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.21
Consensus pattern (39 bp):
CAAATTCGCAACGCGAAAGTCAAATTCGCAATCGAAAGT
Found at i:143672 original size:60 final size:61
Alignment explanation
Indices: 143550--143681 Score: 178
Period size: 60 Copynumber: 2.2 Consensus size: 61
143540 ACTCAGTTTC
* ** *
143550 CAAATTCGCAACGCGATTTTCCAAATTCGCAATGCGAAAGTCAAATTCGCAATGCGAAAGT
1 CAAATTCGCAACGCGAATTTCCAAATTCGCAACACGAAAGTCAAATTCGCAACGCGAAAGT
** *
143611 CAAATTCGCAACGCGAATTTGTAAA-TCGCAACAC-ATAAGTCAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAATTTCCAAATTCGCAACACGA-AAGTCAAATTCGCAACGCGAAAGT
143671 CAAATTCGCAA
1 CAAATTCGCAA
143682 ATCGAAAGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 1 0.02
60 40 0.63
61 22 0.35
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (61 bp):
CAAATTCGCAACGCGAATTTCCAAATTCGCAACACGAAAGTCAAATTCGCAACGCGAAAGT
Found at i:143691 original size:20 final size:20
Alignment explanation
Indices: 143571--143695 Score: 100
Period size: 20 Copynumber: 6.2 Consensus size: 20
143561 CGCGATTTTC
143571 CAAATTCGC-AATGCGAAAGT
1 CAAATTCGCAAAT-CGAAAGT
143591 CAAATTCGC-AATGCGAAAGT
1 CAAATTCGCAAAT-CGAAAGT
** *
143611 CAAATTCGCAACGCGAATTTGT
1 CAAATTCGCAAATCGAA--AGT
143633 -AAA-TCGCAACA-C-ATAAGT
1 CAAATTCGCAA-ATCGA-AAGT
** *
143651 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAAATCGAAAGT
143671 CAAATTCGCAAATCGAAAGT
1 CAAATTCGCAAATCGAAAGT
143691 CAAAT
1 CAAAT
143696 GTTTTTACGC
Statistics
Matches: 86, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
18 2 0.02
19 4 0.05
20 73 0.85
21 5 0.06
22 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAAATCGAAAGT
Found at i:143854 original size:22 final size:22
Alignment explanation
Indices: 143829--143871 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
143819 CGACACCCGT
143829 CCCCATCTCCGACGAAATCCGA
1 CCCCATCTCCGACGAAATCCGA
*
143851 CCCCATTTCCGACGAAATCCG
1 CCCCATCTCCGACGAAATCCG
143872 TCTATCTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.44, G:0.14, T:0.16
Consensus pattern (22 bp):
CCCCATCTCCGACGAAATCCGA
Found at i:144169 original size:19 final size:20
Alignment explanation
Indices: 144131--144171 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
144121 CACCAAATTT
144131 GCAACGCGAAAATGAAAATC
1 GCAACGCGAAAATGAAAATC
*
144151 GCAACGCGAAACT-AAAATC
1 GCAACGCGAAAATGAAAATC
144170 GC
1 GC
144172 GTTGCGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (20 bp):
GCAACGCGAAAATGAAAATC
Found at i:146358 original size:21 final size:21
Alignment explanation
Indices: 146332--146406 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
146322 GATGCACCTA
*
146332 TCATCATTCAAGAGGCCCCTC
1 TCATCATTCAAGAAGCCCCTC
*
146353 TCATCATTGAAGAAGCCCCTC
1 TCATCATTCAAGAAGCCCCTC
* * * *
146374 CCACCATTCAAGATGCCCCTG
1 TCATCATTCAAGAAGCCCCTC
*
146395 TCATCGTTCAAG
1 TCATCATTCAAG
146407 TGGTCTCGCC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.25, C:0.36, G:0.15, T:0.24
Consensus pattern (21 bp):
TCATCATTCAAGAAGCCCCTC
Found at i:147996 original size:20 final size:20
Alignment explanation
Indices: 147965--148025 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
147955 AGACTTGTTG
147965 AAGTACAAATTCGCAACGCGA
1 AAGT-CAAATTCGCAACGCGA
*
147986 AAGTTAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
148006 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
148026 TTTTCGGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 34 0.89
21 4 0.11
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (20 bp):
AAGTCAAATTCGCAACGCGA
Done.