Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003376.1 Hibiscus syriacus cultivar Beakdansim tig00007096_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: 106986
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:1051 original size:28 final size:28
Alignment explanation
Indices: 982--1095 Score: 210
Period size: 28 Copynumber: 4.0 Consensus size: 28
972 ATACAGTGGT
982 CTTGGAGGTCGCCATGGCATCCGGGCGA
1 CTTGGAGGTCGCCATGGCATCCGGGCGA
1010 CCTTGGAGGTCGCCATGGCATCCGGGCGA
1 -CTTGGAGGTCGCCATGGCATCCGGGCGA
1039 CTTGGAGGTCGCCATGGCATCCGGGCGA
1 CTTGGAGGTCGCCATGGCATCCGGGCGA
*
1067 CTTGGAGGTCACCATGGCATCCGGGCGA
1 CTTGGAGGTCGCCATGGCATCCGGGCGA
1095 C
1 C
1096 CTGTGTGATT
Statistics
Matches: 84, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
28 56 0.67
29 28 0.33
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.18
Consensus pattern (28 bp):
CTTGGAGGTCGCCATGGCATCCGGGCGA
Found at i:1179 original size:14 final size:15
Alignment explanation
Indices: 1136--1215 Score: 80
Period size: 15 Copynumber: 5.4 Consensus size: 15
1126 ATGCAATCAA
1136 CATGGGACGTGGGAATG
1 CATGGGAC--GGGAATG
*
1153 CATGGGGA-GGGGATG
1 CAT-GGGACGGGAATG
1168 CATGGGACGGGAATG
1 CATGGGACGGGAATG
1183 CATGGG--GTGGAATG
1 CATGGGACG-GGAATG
1197 CATGGG--GGGAATG
1 CATGGGACGGGAATG
1210 CATGGG
1 CATGGG
1216 GGAGGGATGG
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
13 13 0.22
14 17 0.29
15 21 0.36
17 3 0.05
18 4 0.07
ACGTcount: A:0.23, C:0.10, G:0.51, T:0.16
Consensus pattern (15 bp):
CATGGGACGGGAATG
Found at i:1217 original size:14 final size:14
Alignment explanation
Indices: 1146--1217 Score: 92
Period size: 15 Copynumber: 5.1 Consensus size: 14
1136 CATGGGACGT
1146 GGGAATGCATGGGG
1 GGGAATGCATGGGG
* *
1160 AGGGGATGCATGGGAC
1 -GGGAATGCATGGG-G
1176 GGGAATGCATGGGG
1 GGGAATGCATGGGG
*
1190 TGGAATGCAT-GGG
1 GGGAATGCATGGGG
1203 GGGAATGCATGGGG
1 GGGAATGCATGGGG
1217 G
1 G
1218 AGGGATGGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
13 12 0.24
14 13 0.27
15 24 0.49
ACGTcount: A:0.22, C:0.08, G:0.54, T:0.15
Consensus pattern (14 bp):
GGGAATGCATGGGG
Found at i:1808 original size:21 final size:20
Alignment explanation
Indices: 1783--1825 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
1773 AATCTAGTTA
1783 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGT-TAAATT
*
1804 ATTAGTTTGTTAGTTAAGTT
1 ATTAGTTTGTTAGTTAAATT
1824 AT
1 AT
1826 ATTATATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTAGTTTGTTAGTTAAATT
Found at i:1826 original size:27 final size:27
Alignment explanation
Indices: 1796--1859 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
1786 AGTTTGTTAG
*
1796 TATAAATTATTAGTTTGTTAG-TTAAGT
1 TATAAATTATTAG-TTATTAGTTTAAGT
*
1823 TAT-ATTATATTAGTTATTAGTTTAAGT
1 TATAAAT-TATTAGTTATTAGTTTAAGT
*
1850 TATATATTAT
1 TATAAATTAT
1860 ATTATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
26 8 0.27
27 21 0.70
28 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (27 bp):
TATAAATTATTAGTTATTAGTTTAAGT
Found at i:2677 original size:26 final size:25
Alignment explanation
Indices: 2648--2706 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
2638 AAATCATGTT
*
2648 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
2674 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
2700 ATTATTA
1 ATTATTA
2707 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:5546 original size:22 final size:19
Alignment explanation
Indices: 5514--5562 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
5504 TATTTCTATG
*
5514 TATTTATTAATCATTATAAAA
1 TATTTAATAATCATT-T-AAA
*
5535 TGATTTAATAATGATTTAAA
1 T-ATTTAATAATCATTTAAA
5555 TATTTAAT
1 TATTTAAT
5563 GATTTGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 7 0.28
20 4 0.16
21 2 0.08
22 12 0.48
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
TATTTAATAATCATTTAAA
Found at i:5604 original size:26 final size:26
Alignment explanation
Indices: 5575--5996 Score: 303
Period size: 26 Copynumber: 17.2 Consensus size: 26
5565 TTTGATGATT
5575 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
5601 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
5627 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
5653 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * * *
5675 TA-AAAT--TTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
5699 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
5725 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
5751 TAATAATGATTAG-TAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
** *
5776 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
5798 TA--AAT--TTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
5821 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
5847 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
5873 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
* *
5899 TA-AAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
5920 TA--AAT-ATTTAATGATTGATGATT-
1 TAGTAATGATTTGAT-AATAATCATTA
*
5943 TAGTAATGA-TTGATAACAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
5968 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
5993 TAGT
1 TAGT
5997 TATTATTTAG
Statistics
Matches: 330, Mismatches: 36, Indels: 61
0.77 0.08 0.14
Matches are distributed among these distances:
19 3 0.01
20 10 0.03
21 7 0.02
22 17 0.05
23 40 0.12
24 18 0.05
25 65 0.20
26 160 0.48
27 10 0.03
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:5705 original size:19 final size:18
Alignment explanation
Indices: 5658--5713 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
5648 CATTATAAAA
5658 ATGATTTAATAATGATTT-
1 ATGATTT-ATAATGATTTG
**
5676 AAAATTT-TAATGATTTG
1 ATGATTTATAATGATTTG
5693 ATGATTTAGTAATGATTTG
1 ATGATTTA-TAATGATTTG
5712 AT
1 AT
5714 AATAATCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 9 0.29
17 5 0.16
18 5 0.16
19 12 0.39
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (18 bp):
ATGATTTATAATGATTTG
Found at i:5709 original size:98 final size:100
Alignment explanation
Indices: 5601--5780 Score: 294
Period size: 98 Copynumber: 1.8 Consensus size: 100
5591 ATAATCATTA
5601 TAGTAATGATTTGATAATAATCATTATAATAATGATTT-AGTAATAATCATTATAAAAATGATT-
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTGA-TAATAATCATTATAAAAATGATTA
*
5664 TAATAATGATT-TAAAATTTTAATGATTTGATGATT
65 TAATAATCATTATAAAATTTTAATGATTTGATGATT
* *
5699 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTAG
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTGATAATAATCATTATAAAAATGATTA-
5764 TAATAATCATTATAAAA
65 TAATAATCATTATAAAA
5781 ATGATTTAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
98 59 0.79
99 1 0.01
100 10 0.13
101 5 0.07
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (100 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGATTTGATAATAATCATTATAAAAATGATTAT
AATAATCATTATAAAATTTTAATGATTTGATGATT
Found at i:5879 original size:122 final size:123
Alignment explanation
Indices: 5521--5988 Score: 847
Period size: 122 Copynumber: 3.8 Consensus size: 123
5511 ATGTATTTAT
5521 TAATCATTATAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATT
1 TAATCATTATAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATT
5586 TGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
5644 TAATCATTATAAAAATGATTTAATAATGATTTAAA-ATTTTAATGATTTGATGATTTAGTAATGA
1 TAATCATTAT-AAAATGATTTAATAATGATTTAAATA-TTTAATGATTTGATGATTTAGTAATGA
5708 TTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGA-TTAGTAA
64 TTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
5767 TAATCATTATAAAAATGATTTAATAATGATTTAAAT-TTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTAT-AAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
5831 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
65 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
5890 TAATCATTATAAAATGATTTAATAATGATTTAAATATTTAATGA-TTGATGATTTAGTAATGA-T
1 TAATCATTATAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATT
* * *
5953 TGATAACAATCATTATAATAATGATTTTATAATAAT
66 TGATAATAATCATTATAGTAATGATTTGATAATAAT
5989 TATTTAGTTA
Statistics
Matches: 337, Mismatches: 3, Indels: 12
0.96 0.01 0.03
Matches are distributed among these distances:
121 34 0.10
122 122 0.36
123 78 0.23
124 103 0.31
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (123 bp):
TAATCATTATAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATT
TGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:5906 original size:96 final size:95
Alignment explanation
Indices: 5715--5989 Score: 280
Period size: 96 Copynumber: 2.9 Consensus size: 95
5705 TGATTTGATA
* * *
5715 ATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTAG-TAATAATCATTATAA
1 ATAATGATT-TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAA
* *
5779 AAATGATTTAATAATGATTTAAATTTTAATGA-TT
65 TAATGATTT-ATAATAATTTAAA---TAATGATTT
*
5813 -TGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAAT
1 ATAATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAAT
5877 AATGATTTAGTAATAATCATTATAA-AATGATTT
66 AATGATTTA-TAATAAT--TTA-AATAATGATTT
* * * * *
5910 AATAATGATTTA--AAT-ATTTAATGATTGATGATT-TAGTAATGA-TTGATAACAATCATTATA
1 -ATAATGATTTAGTAATGATTTGAT-AATAATCATTATAGTAATGATTTGATAATAATCATTATA
5970 ATAATGATTTTATAATAATT
64 ATAATGA-TTTATAATAATT
5990 ATTTAGTTAT
Statistics
Matches: 155, Mismatches: 12, Indels: 25
0.81 0.06 0.13
Matches are distributed among these distances:
93 1 0.01
95 31 0.20
96 62 0.40
97 47 0.30
99 12 0.08
100 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (95 bp):
ATAATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAAT
AATGATTTATAATAATTTAAATAATGATTT
Found at i:5916 original size:36 final size:35
Alignment explanation
Indices: 5521--5985 Score: 147
Period size: 37 Copynumber: 12.7 Consensus size: 35
5511 ATGTATTTAT
5521 TAATCATTATAAAATGATTTAATAATGATTTA-AA
1 TAATCATTATAAAATGATTTAATAATGATTTATAA
* * * *** *
5555 TATTTAATGATTTGATGATTTAGTAATGATTTGATAA
1 TA-ATCATTATAAAATGATTTAATAATGATTT-ATAA
* * *
5592 TAATCATTATAGTAATGATTTGATAATAATCATTATAA
1 TAATCATTATA-AAATGATTTAATAATGAT--TTATAA
* * *
5630 TAATGATTTAGTAATAATCATTATAAAAATGA-TT-TAA
1 TAATCA-TTA-TAA-AATGATT-TAATAATGATTTATAA
*
5667 TAATGATT-TAAAAT--TTTAATGATTTGATGATTTAGTAA
1 TAATCATTATAAAATGATTTAAT-A----ATGATTTA-TAA
* * *
5705 TGAT--TTGATAATAATCATTATAGTAATGATTTGATAA
1 TAATCATT-ATAA-AATGATT-TAATAATGATTT-ATAA
*
5742 TAATCATTATAATAATGATTAGTAATAATCA-TTATAA
1 TAATCATTATAA-AATGATT--TAATAATGATTTATAA
* * *
5779 AAATGATT-TAATAATGATTTAAATTTTAATGA-TT-TGA
1 TAATCATTATAA-AATGATTT-AA---TAATGATTTATAA
* * * *
5816 TGAT--TTAGT--AATGATTTGATAATAATCATTATAG
1 TAATCATTA-TAAAATGATTTAATAATGAT--TTATAA
* *
5850 TAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
1 TAATCA-TT-ATAA-AATGATT-TAATAATGATTTA-TAA
5890 TAATCATTATAAAATGATTTAATAATGATTTA-AA
1 TAATCATTATAAAATGATTTAATAATGATTTATAA
* * * ** * *
5924 TATTTAATGAT-TGATGATTTAGTAATGATTGATAA
1 TA-ATCATTATAAAATGATTTAATAATGATTTATAA
* *
5959 CAATCATTATAATAATGATTTTATAAT
1 TAATCATTATAA-AATGATTTAATAAT
5986 AATTATTTAG
Statistics
Matches: 319, Mismatches: 61, Indels: 100
0.66 0.13 0.21
Matches are distributed among these distances:
30 8 0.03
31 3 0.01
33 6 0.02
34 44 0.14
35 38 0.12
36 47 0.15
37 64 0.20
38 46 0.14
39 22 0.07
40 21 0.07
41 17 0.05
42 3 0.01
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (35 bp):
TAATCATTATAAAATGATTTAATAATGATTTATAA
Found at i:5931 original size:19 final size:22
Alignment explanation
Indices: 5713--5801 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 22
5703 AATGATTTGA
*
5713 TAATAATCATTATAGTAATGATTT
1 TAATAATCATTATA-AAATGA-TT
5737 GATAATAATCATTATAATAATGATT
1 --TAATAATCATTATAA-AATGATT
5762 AGTAATAATCATTATAAAAATGATT
1 --TAATAATCATTAT-AAAATGATT
*
5787 TAATAATGATT-TAAA
1 TAATAATCATTATAAA
5802 TTTTAATGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
21 3 0.05
22 1 0.02
23 10 0.18
25 22 0.39
26 21 0.37
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.40
Consensus pattern (22 bp):
TAATAATCATTATAAAATGATT
Found at i:6219 original size:17 final size:17
Alignment explanation
Indices: 6194--6226 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6184 ACTAAATATT
*
6194 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
6211 TAATGATTTGATACTA
1 TAATGATTTGATACTA
6227 AAATCATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:6219 original size:25 final size:23
Alignment explanation
Indices: 6140--6219 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
6130 GATTTATTGT
6140 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
6161 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
6188 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
6210 GTAATGATTT
1 -TAAT-ATTT
6220 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:8386 original size:15 final size:14
Alignment explanation
Indices: 8363--8393 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
8353 TACAACACTA
8363 AACTTTAATATAAT
1 AACTTTAATATAAT
8377 AACTTATAATATAAT
1 AACTT-TAATATAAT
8392 AA
1 AA
8394 AATAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:8898 original size:21 final size:21
Alignment explanation
Indices: 8874--8924 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
8864 TTCTTCTTAC
8874 TTTCCTTTCTCCCTTTCTTTA
1 TTTCCTTTCTCCCTTTCTTTA
*
8895 TTTCCTTTCTCCCTTTCTTTC
1 TTTCCTTTCTCCCTTTCTTTA
8916 TTT-CTTTCT
1 TTTCCTTTCT
8925 TTCTTTCTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 6 0.21
21 23 0.79
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTCCTTTCTCCCTTTCTTTA
Found at i:8916 original size:4 final size:4
Alignment explanation
Indices: 8859--8932 Score: 62
Period size: 4 Copynumber: 18.5 Consensus size: 4
8849 CCTTATCTCC
* ** * **
8859 CTTT C-TT C-TT CTTA CTTT CCTTT CTCC CTTT CTTT ATTT CCTTT CTCC
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT -CTTT CTTT
8907 CTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CT
8933 CGGCTGCAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
3 6 0.11
4 42 0.76
5 7 0.13
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (4 bp):
CTTT
Found at i:8966 original size:23 final size:23
Alignment explanation
Indices: 8936--8981 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8926 TCTTTCTCGG
8936 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
8959 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
8982 TCTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.39, G:0.04, T:0.48
Consensus pattern (23 bp):
CTGCAATCTCTTCTCCCTTTCTT
Found at i:9022 original size:25 final size:25
Alignment explanation
Indices: 8994--9045 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
8984 TTTCTTTTAT
8994 AACCGGCTGCCTCAATTATTTCACC
1 AACCGGCTGCCTCAATTATTTCACC
9019 AACCGGCTGCCTCAATTATTTCACC
1 AACCGGCTGCCTCAATTATTTCACC
9044 AA
1 AA
9046 TAATTGTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.35, G:0.12, T:0.27
Consensus pattern (25 bp):
AACCGGCTGCCTCAATTATTTCACC
Found at i:9235 original size:13 final size:13
Alignment explanation
Indices: 9217--9248 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
9207 GGCTGCATGT
9217 GAATGGATGATGG
1 GAATGGATGATGG
9230 GAATGGATGATGG
1 GAATGGATGATGG
9243 GAATGG
1 GAATGG
9249 CGCCGGGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.47, T:0.22
Consensus pattern (13 bp):
GAATGGATGATGG
Found at i:9281 original size:29 final size:29
Alignment explanation
Indices: 9249--9357 Score: 166
Period size: 29 Copynumber: 3.8 Consensus size: 29
9239 ATGGGAATGG
*
9249 CGCCGGGACTACATGGCGACCTACATGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
9278 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
*
9307 CGCCGGGACCACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
9336 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
9358 CTCTATTCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
29 72 0.97
30 2 0.03
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:9416 original size:26 final size:26
Alignment explanation
Indices: 9380--9435 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
9370 GCATGGCCAC
*
9380 CTCGCATGGGGAGAACGCTCGTATGG
1 CTCGCATGGGGAGAACGCTCGTATAG
9406 CTCGCATGGGGAGAACGCTCGTATAG
1 CTCGCATGGGGAGAACGCTCGTATAG
9432 CTCG
1 CTCG
9436 TATGCATGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.36, T:0.20
Consensus pattern (26 bp):
CTCGCATGGGGAGAACGCTCGTATAG
Found at i:9461 original size:35 final size:35
Alignment explanation
Indices: 9422--9509 Score: 158
Period size: 35 Copynumber: 2.5 Consensus size: 35
9412 TGGGGAGAAC
*
9422 GCTCGTATAGCTCGTATGCATGGGGAGAACCATTG
1 GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
*
9457 GCTCGTATGGCTCGTATGCATGGGGAGAACTATTG
1 GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
9492 GCTCGTATGGCTCGTATG
1 GCTCGTATGGCTCGTATG
9510 TCACCCCGTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (35 bp):
GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
Found at i:9521 original size:12 final size:12
Alignment explanation
Indices: 9504--9545 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
9494 TCGTATGGCT
9504 CGTATGTCACCC
1 CGTATGTCACCC
*
9516 CGTATGTCAACC
1 CGTATGTCACCC
9528 CGTATGTCACCC
1 CGTATGTCACCC
9540 CGTATG
1 CGTATG
9546 GCCACCTCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.26
Consensus pattern (12 bp):
CGTATGTCACCC
Found at i:9588 original size:30 final size:32
Alignment explanation
Indices: 9554--9619 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 32
9544 TGGCCACCTC
9554 GCATGGGGAGAA-C-GCTCGTATGGCTCGTAT
1 GCATGGGGAGAACCTGCTCGTATGGCTCGTAT
9584 GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
1 GCATGGGGAGAACC--T-GCTCGTATGGCTCGTAT
9619 G
1 G
9620 TATGTCGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 12 0.39
31 1 0.03
35 18 0.58
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (32 bp):
GCATGGGGAGAACCTGCTCGTATGGCTCGTAT
Found at i:10095 original size:10 final size:10
Alignment explanation
Indices: 10080--10107 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
10070 ACCTAAGCAT
10080 AAATGAAACA
1 AAATGAAACA
10090 AAATGAAACA
1 AAATGAAACA
10100 AAATGAAA
1 AAATGAAA
10108 TGGCTATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAATGAAACA
Found at i:10341 original size:12 final size:12
Alignment explanation
Indices: 10316--10365 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
10306 TATATATGCC
10316 CTTTTTCTTCTTT
1 CTTTTT-TTCTTT
*
10329 CTTTTTTTTTTT
1 CTTTTTTTCTTT
* **
10341 CATTTTTTCACT
1 CTTTTTTTCTTT
10353 CTTTTTTTCTTT
1 CTTTTTTTCTTT
10365 C
1 C
10366 CTCTCTCTCT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
12 23 0.79
13 6 0.21
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (12 bp):
CTTTTTTTCTTT
Found at i:10647 original size:3 final size:3
Alignment explanation
Indices: 10616--10669 Score: 54
Period size: 3 Copynumber: 16.7 Consensus size: 3
10606 TGAGCATTCT
* *
10616 TTC TTC CTC TCTC TCTC TCTC TCTC TTC TTC TTC TTC TTC TTA TTC TTC
1 TTC TTC TTC T-TC T-TC T-TC T-TC TTC TTC TTC TTC TTC TTC TTC TTC
10665 TTC TT
1 TTC TT
10670 TTTCGGGTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 31 0.67
4 15 0.33
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (3 bp):
TTC
Found at i:16933 original size:18 final size:19
Alignment explanation
Indices: 16912--16963 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 19
16902 TTGGTAACGG
16912 TTGGTATCTTTTTAA-CAA
1 TTGGTATCTTTTTAATCAA
16930 TTGGTATCCTTTTGTAATCAA
1 TTGGTAT-CTTTT-TAATCAA
16951 TTGGTATCTTTTT
1 TTGGTATCTTTTT
16964 CATTAAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.23
19 6 0.19
20 8 0.26
21 10 0.32
ACGTcount: A:0.21, C:0.12, G:0.13, T:0.54
Consensus pattern (19 bp):
TTGGTATCTTTTTAATCAA
Found at i:17252 original size:22 final size:22
Alignment explanation
Indices: 17216--17274 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
17206 AGACCCATAT
*
17216 CAATACCTCTTATGAACGGGTAC
1 CAATACC-CCTATGAACGGGTAC
* * *
17239 CGATACCCCTATGAATGGGTAT
1 CAATACCCCTATGAACGGGTAC
17261 CAATACCCC-ATGAA
1 CAATACCCCTATGAA
17275 GGCTCAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 5 0.16
22 20 0.65
23 6 0.19
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (22 bp):
CAATACCCCTATGAACGGGTAC
Found at i:20013 original size:123 final size:121
Alignment explanation
Indices: 19744--20030 Score: 353
Period size: 121 Copynumber: 2.4 Consensus size: 121
19734 GAAAAAAAAA
* * * * ** *
19744 TTAGGTACTAAAACGAAGAAAAACTAATAGTTTAGGTACTAAACTCGTTACGTTTTTAATGACGG
1 TTAGGTACTAAAAAGAAGAAAAACTGATAGTTTAGGTACTAAACGCGTTAAGTTTTTAACAACAG
* * **
19809 GTACTAAAATGAAATGAAAACTAAACGTTATGTATGATTTATAAAAAATTAAAAGT
66 GTACTAAAATGAAATAAAAACTAAAAGTTAAATATGATTTATAAAAAATTAAAAGT
* * *
19865 TTAGATACTAAAATA-AAGTAAAACTGATAATTTAGGTACTAAACGCGTTAAGTTTTTAACAACA
1 TTAGGTACTAAAA-AGAAGAAAAACTGATAGTTTAGGTACTAAACGCGTTAAGTTTTTAACAAC-
* * *
19929 ATGTACTAAAATGAAATAAAAAGTAAAAGTTAAATATGATTT-TGAAAAAAATTGAAAGT
64 AGGTACTAAAATGAAATAAAAACTAAAAGTTAAATATGATTTAT--AAAAAATTAAAAGT
**
19988 TTAGGTACTAAAAAGAACCAAAACTGATAGTTTAGGTACTAAA
1 TTAGGTACTAAAAAGAAGAAAAACTGATAGTTTAGGTACTAAA
20031 TGCATAATTT
Statistics
Matches: 140, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
121 54 0.39
122 36 0.26
123 50 0.36
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.30
Consensus pattern (121 bp):
TTAGGTACTAAAAAGAAGAAAAACTGATAGTTTAGGTACTAAACGCGTTAAGTTTTTAACAACAG
GTACTAAAATGAAATAAAAACTAAAAGTTAAATATGATTTATAAAAAATTAAAAGT
Found at i:20828 original size:34 final size:31
Alignment explanation
Indices: 20788--20920 Score: 108
Period size: 34 Copynumber: 4.1 Consensus size: 31
20778 AAAGTAAAAT
20788 TAAAAAAATAATAAATAAAAATATATACGTATAA
1 TAAAAAAATAAT-AATAAAAATATATA--TATAA
** * *
20822 TAAAAAAATGCGTAAGAAAAATATATATAAAA
1 TAAAAAAAT-AATAATAAAAATATATATATAA
* *
20854 TAAAAAAAATAAAAATATGAGTAATATATATAT-A
1 T-AAAAAAATAATAATA--A-AAATATATATATAA
*
20888 TAATAAAAATAGTAATAAAAATATA-ATATAA
1 TAA-AAAAATAATAATAAAAATATATATATAA
20919 TA
1 TA
20921 TAACATTAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
30 4 0.05
31 9 0.11
32 9 0.11
33 10 0.13
34 36 0.46
35 11 0.14
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (31 bp):
TAAAAAAATAATAATAAAAATATATATATAA
Found at i:20922 original size:37 final size:37
Alignment explanation
Indices: 20842--20922 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
20832 CGTAAGAAAA
*
20842 ATATATATAAAATAAAAAAAATAAAAATATGAGTAAT
1 ATATATATAAAATAAAAAAAATAAAAATATGAATAAT
* *
20879 ATATATATATAATAAAAATAGTAATAAAAATATAATATAAT
1 ATATATATAAAATAAAAA-A--AATAAAAATATGA-ATAAT
20920 ATA
1 ATA
20923 ACATTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 17 0.46
38 1 0.03
40 12 0.32
41 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (37 bp):
ATATATATAAAATAAAAAAAATAAAAATATGAATAAT
Found at i:20934 original size:67 final size:68
Alignment explanation
Indices: 20782--20923 Score: 161
Period size: 67 Copynumber: 2.1 Consensus size: 68
20772 ATGATGAAAG
* * *
20782 TAAAATTAAAAAAATAATAAATA--A-AAATATATACGTATAATAAAAAAATGCGTAAGAAAAAT
1 TAAAATAAAAAAAATAA-AAATATGAGTAATATATAC-TATAATAAAAAAATGAGTAAGAAAAAT
20844 ATATA
64 ATATA
*
20849 TAAAATAAAAAAAATAAAAATATGAGTAATATATA-TAT-ATAATAAAAAT-AGTAATAAAAATA
1 TAAAATAAAAAAAATAAAAATATGAGTAATATATACTATAATAA-AAAAATGAGTAAGAAAAATA
20911 TAATA
65 T-ATA
*
20916 TAATATAA
1 TAAAATAA
20924 CATTAATAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
66 21 0.32
67 35 0.54
68 1 0.02
69 8 0.12
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.27
Consensus pattern (68 bp):
TAAAATAAAAAAAATAAAAATATGAGTAATATATACTATAATAAAAAAATGAGTAAGAAAAATAT
ATA
Found at i:20940 original size:8 final size:8
Alignment explanation
Indices: 20901--20956 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 8
20891 TAAAAATAGT
20901 AATAA-AA
1 AATAATAA
*
20908 ATATAATAT
1 A-ATAATAA
20917 AAT-ATAA
1 AATAATAA
*
20924 CATTAATAA
1 -AATAATAA
20933 AATAATAA
1 AATAATAA
20941 AATAATAA
1 AATAATAA
20949 TAATAATA
1 -AATAATA
20957 GTTTAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 4 0.10
8 23 0.57
9 13 0.32
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (8 bp):
AATAATAA
Found at i:20947 original size:3 final size:3
Alignment explanation
Indices: 20887--20956 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
20877 ATATATATAT
* * * * *
20887 ATA ATA AAA ATA GTA ATA AAA AT- ATA AT- ATA AT- ATA ACA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20932 A-A ATA ATA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
20957 GTTTAAAATT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
2 10 0.19
3 42 0.81
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:22780 original size:65 final size:64
Alignment explanation
Indices: 22681--23135 Score: 333
Period size: 65 Copynumber: 6.7 Consensus size: 64
22671 GACAAAATTT
* * *
22681 TTTCAAGAGAAACTGTCTCGAGAGAGACGAAATTTGTTTAAAGGAAAACAGATTAAAAGATTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGGAAAACAGATTAAAAGATTTTG
* * *
22746 TTTCAAGGGAAACTGTCTCAAGAGAGACACAATTTGTTTCAAGGGAAATAGATTCAAAGATTTTT
1 TTTCAAGGGAAACTGTCTCAAGAGAGACA-AATTTGTTTCAAGGAAAACAGATTAAAAGA-TTTT
22811 G
64 G
* **** *
22812 TTTCAAGGGAATCTGTCTCAAGAGAGACAAAAAAATTT-AAGAGAAAATGTCTCAAGA-GAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAG-GAAAA-----C-AGATTA-A-A
*
22875 AAATTTTG
57 AGATTTTG
* ** * * * * * *
22883 TTTTAAAAGAAACTGTCTCAAGGGAGATGAAATTTGTTTTAAGGAAAACATATTCAACGATTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGA-CAAATTTGTTTCAAGGAAAACAGATTAAAAGATTTTG
* * *
22948 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTTTTTAAGAGAAAA-TG-TCTCAAGAGAGA
1 TTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAG-GAAAACAGAT-T-AA-A-AG-
*
23011 CAAAATTTG
59 ---ATTTTG
** * * * *
23020 TTTCTAAAAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGTTTT
1 TTTC-AAGGGAAACTGTCTCAAGAGAGAC-AAA-TTTGTTTCAAGGAAAACAGATTAAAAGATTT
23085 TG
63 TG
*
23087 TTTCAAGGGAAACCGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAA
1 TTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAG-GAAAA
23136 TATCTCAAGA
Statistics
Matches: 305, Mismatches: 56, Indels: 57
0.73 0.13 0.14
Matches are distributed among these distances:
64 5 0.02
65 116 0.38
66 71 0.23
67 10 0.03
68 1 0.00
71 33 0.11
72 24 0.08
73 34 0.11
74 10 0.03
75 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.28
Consensus pattern (64 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGAAAACAGATTAAAAGATTTTG
Found at i:22789 original size:36 final size:36
Alignment explanation
Indices: 22742--23198 Score: 309
Period size: 36 Copynumber: 13.2 Consensus size: 36
22732 ATTAAAAGAT
*
22742 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACACAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
**
22778 TTTGTTTCAAGGGAAA-TAGAT-TC-A-A-AG---ATT
1 TTTGTTTCAAGGGAAACT-G-TCTCAAGAGAGACAAAA
*
22808 TTTGTTTCAAGGGAATCTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*** * *
22844 -AAATTT-AAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* ** * **
22878 TTTTGTTTTAAAAGAAACTGTCTCAAGGGAGATGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * * *
22915 TTTGTTTTAAGGAAAACATAT-TC-----A-AC-GAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
22944 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
22980 TTTTTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
** *
23016 TTTGTTTCTAAAAGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTC-AAGGGAAACTGTCTCAAGAGAGACAAAA
* ** **
23053 CTTTGTTTCAAGGAAAACAAAT-TC-A-A-AG----TT
1 -TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
*
23083 TTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
23119 TTTGTTTCAAGAGAAAATATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
23155 TTTGTTTTAAGAGAAACCGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
23191 CTTTGTTT
1 -TTTGTTT
23199 TGAGTAAATT
Statistics
Matches: 327, Mismatches: 60, Indels: 67
0.72 0.13 0.15
Matches are distributed among these distances:
28 3 0.01
29 37 0.11
30 20 0.06
31 4 0.01
32 3 0.01
33 4 0.01
34 29 0.09
35 8 0.02
36 143 0.44
37 66 0.20
38 10 0.03
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:23030 original size:138 final size:138
Alignment explanation
Indices: 22754--23198 Score: 637
Period size: 139 Copynumber: 3.2 Consensus size: 138
22744 TGTTTCAAGG
* * * *
22754 GAAACTGTCTCAAGAGAGACACAA-TTTGTTTCAAGGGAAATAGATTCAAAGATTTTTGTTTCAA
1 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGA-TTTTGTTTCAA
* * *
22818 GGGAATCTGTCTCAAGAGAGACAAAA--AAATTTAAGAGAAAATGTCTCAAGAGAGACAAAATTT
65 GGGAAACTGTCTCAAGAGAGACAAAATTTATTTTAAGAGAAAATGTCTCAAGAGAGACAAAA-TT
22881 TGTTTTAAAA
129 TGTTTTAAAA
* ** * * *
22891 GAAACTGTCTCAAGGGAGATGAAA-TTTGTTTTAAGGAAAACATATTCAACGATTTTGTTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAG
*
22955 GGAAACTGTCTCAAGAGAGACAAAATTTTTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTG
66 GGAAACTGTCTCAAGAGAGACAAAATTTATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTG
23020 TTTCTAAAA
131 TTT-TAAAA
* *
23029 GAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGTTTTTGTTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAG
* * * *
23094 GGAAACCGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAATATCTCAAGAGAGACAAAATTTG
66 GGAAACTGTCTCAAGAGAGACAAAATTTATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTG
*
23159 TTTTAAGA
131 TTTTAAAA
*
23167 GAAACCGTCTCAAGAGAGACAAAACTTTGTTT
1 GAAACTGTCTCAAGAGAGACAAAACTTTGTTT
23199 TGAGTAAATT
Statistics
Matches: 276, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
136 36 0.13
137 50 0.18
138 90 0.33
139 100 0.36
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (138 bp):
GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTG
TTTTAAAA
Found at i:24425 original size:83 final size:88
Alignment explanation
Indices: 24316--24541 Score: 257
Period size: 95 Copynumber: 2.5 Consensus size: 88
24306 GACTAGCTAG
*
24316 ATCCATAAAGCCGGGGCGTTTTACCAATTGCTCTAGAGGGACAACTCA-T-TAT-GTA-AAT-AC
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCATTGTATAGTATAATCAC
* *
24376 CTTTATCAAGTTAGATGAATCTT
66 CTTTATCAAGCTAGATGAATATT
** *
24399 ATCCATAAAGCTAGGGCGTTTAACCAATTAC-CTTAGAGGGACAACTCAAGCTTTATTGTATAGT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTC-TAGAGGGACAACT----C---ATTGTATAGT
* *
24463 ATAATCACCTTTATCAGGCTAGTTGAATATT
58 ATAATCACCTTTATCAAGCTAGATGAATATT
*
24494 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCA
24542 AGCTTTATTG
Statistics
Matches: 117, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
82 1 0.01
83 40 0.34
87 1 0.01
88 1 0.01
90 1 0.01
91 2 0.02
92 3 0.03
93 3 0.03
94 3 0.03
95 62 0.53
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (88 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCATTGTATAGTATAATCAC
CTTTATCAAGCTAGATGAATATT
Found at i:24537 original size:95 final size:95
Alignment explanation
Indices: 24374--24555 Score: 292
Period size: 95 Copynumber: 1.9 Consensus size: 95
24364 TTATGTAAAT
* * *
24374 ACCTTTATCAAGTTAGATGAATCTTATCCATAAAGCTAGGGCGTTTAACCAATTACCTTAGAGGG
1 ACCTTTATCAAGCTAGATGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTACCTTAGAGGG
24439 ACAACTCAAGCTTTATTGTATAGTATAATC
66 ACAACTCAAGCTTTATTGTATAGTATAATC
* * * * *
24469 ACCTTTATCAGGCTAGTTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGG
1 ACCTTTATCAAGCTAGATGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTACCTTAGAGGG
24534 ACAACTCAAGCTTTATTGTATA
66 ACAACTCAAGCTTTATTGTATA
24556 TTAAATAATA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 79 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (95 bp):
ACCTTTATCAAGCTAGATGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTACCTTAGAGGG
ACAACTCAAGCTTTATTGTATAGTATAATC
Found at i:28437 original size:32 final size:30
Alignment explanation
Indices: 28401--28521 Score: 84
Period size: 34 Copynumber: 3.7 Consensus size: 30
28391 AAAGTAAAAT
28401 TAAAAAAAATAAATAAAAATATATACGTATAA
1 TAAAAAAAATAAATAAAAATATATA--TATAA
*
28433 T-AAAAAAATGCATAAGAAAAATATATATATAA
1 TAAAAAAAAT--A-AATAAAAATATATATATAA
*
28465 TAAAAATAAA-AATATGATTAATATATATATATATA
1 TAAAAA-AAATAA-AT-A--AAAATATATATATA-A
*
28500 TAATAAAAATAGTAATAAAAAT
1 TAAAAAAAATA--AATAAAAAT
28522 TTAATTTAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 25
0.70 0.05 0.25
Matches are distributed among these distances:
30 1 0.01
31 10 0.14
32 8 0.11
33 9 0.13
34 32 0.45
35 8 0.11
36 2 0.03
37 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (30 bp):
TAAAAAAAATAAATAAAAATATATATATAA
Found at i:28473 original size:38 final size:38
Alignment explanation
Indices: 28431--28510 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
28421 ATATACGTAT
28431 AATAAAAAAATGCA-TAAGAAAAATATATATATAATAAA
1 AATAAAAAAATG-ATTAAGAAAAATATATATATAATAAA
* * * *
28469 AATAAAAATATGATTAATATATATATATATATAATAAA
1 AATAAAAAAATGATTAAGAAAAATATATATATAATAAA
28507 AATA
1 AATA
28511 GTAATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (38 bp):
AATAAAAAAATGATTAAGAAAAATATATATATAATAAA
Found at i:28529 original size:5 final size:5
Alignment explanation
Indices: 28523--28584 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
28513 AATAAAAATT
* *
28523 TAATT TAATA TAATA TAATA TAATA TAGA-A TAA-A TAAAA TAATAA TAATAA
1 TAATA TAATA TAATA TAATA TAATA TA-ATA TAATA TAATA TAAT-A TAAT-A
28574 TAATAA TAATA
1 TAAT-A TAATA
28585 GTTCAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
4 5 0.10
5 29 0.56
6 18 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:28539 original size:38 final size:37
Alignment explanation
Indices: 28452--28585 Score: 111
Period size: 38 Copynumber: 3.6 Consensus size: 37
28442 GCATAAGAAA
*
28452 AATATATATATAATAAAAATA-AA-AATATGATTAATAT
1 AATATATATATAATAAAAATAGAATAA-A-AATTAATAT
*
28489 ATATATATATATAATAAAAATAGTAATAAAAATTTAATTT
1 A-ATATATATATAATAAAAATAG-AATAAAAA-TTAATAT
*
28529 AATATA-ATATAATATAATATAGAATAAATAA--AATAAT
1 AATATATATATAATA-AAAATAGAATAAA-AATTAAT-AT
*
28566 AATA-ATA-ATAATAATAATAG
1 AATATATATATAATAAAAATAG
28586 TTCAAAATTG
Statistics
Matches: 82, Mismatches: 6, Indels: 20
0.76 0.06 0.19
Matches are distributed among these distances:
35 5 0.06
36 10 0.12
37 7 0.09
38 34 0.41
39 14 0.17
40 10 0.12
41 2 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (37 bp):
AATATATATATAATAAAAATAGAATAAAAATTAATAT
Found at i:28546 original size:15 final size:15
Alignment explanation
Indices: 28452--28584 Score: 71
Period size: 15 Copynumber: 8.6 Consensus size: 15
28442 GCATAAGAAA
28452 AATATATATATAATA-
1 AATATA-ATATAATAT
*
28467 AAAATAA-A-AATAT
1 AATATAATATAATAT
*
28480 GAT-TAATATATATAT
1 AATATAATATA-ATAT
*
28495 ATATATAATAAAAATAGT
1 A-ATATAAT-ATAATA-T
* * *
28513 AATAAAAATTTAATTT
1 AAT-ATAATATAATAT
28529 AATATAATATAATAT
1 AATATAATATAATAT
28544 AATATAGA-ATAA-AT
1 AATATA-ATATAATAT
*
28558 AAAATAATAATAATAAT
1 AATATAAT-ATAAT-AT
28575 AATAATAATA
1 AAT-ATAATA
28585 GTTCAAAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
12 7 0.08
13 4 0.04
14 9 0.10
15 32 0.36
16 7 0.08
17 17 0.19
18 13 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
AATATAATATAATAT
Found at i:28568 original size:3 final size:3
Alignment explanation
Indices: 28528--28584 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
28518 AAATTTAATT
*
28528 TAA T-A TAA T-A TAA T-A TAA TATA GAA TAAA TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA TAA TAA
28571 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
28585 GTTCAAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 8 0.17
3 33 0.72
4 5 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:30973 original size:23 final size:23
Alignment explanation
Indices: 30947--30994 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
30937 ATAAAGTACA
*
30947 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
30970 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
30993 AT
1 AT
30995 TTACCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:31390 original size:20 final size:20
Alignment explanation
Indices: 31365--31403 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31355 TCAACAGTGA
* *
31365 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
31385 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
31404 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:31442 original size:23 final size:23
Alignment explanation
Indices: 31416--31478 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
31406 ATATAACCAC
31416 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
31439 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
31462 TACCTATTACATCATAT
1 TACCTATTACATTATAT
31479 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:31817 original size:20 final size:20
Alignment explanation
Indices: 31792--31830 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31782 TCCACAGTGA
* *
31792 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
31812 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
31831 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:31858 original size:21 final size:20
Alignment explanation
Indices: 31828--31897 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
31818 GATAGACACT
*
31828 TTACAATATAACCACTACCTA
1 TTACATTATAA-CACTACCTA
*
31849 TTACATTATATAAACGATACCTA
1 TTACATTATA-ACAC--TACCTA
*
31872 TTACATTATAAGCGCTACCTA
1 TTACATTATAA-CACTACCTA
31893 -TACAT
1 TTACAT
31898 CATATTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
20 5 0.12
21 17 0.41
22 2 0.05
23 17 0.41
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (20 bp):
TTACATTATAACACTACCTA
Found at i:31877 original size:427 final size:425
Alignment explanation
Indices: 31061--32107 Score: 1936
Period size: 427 Copynumber: 2.5 Consensus size: 425
31051 TATTACATTA
31061 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
31126 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
65 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
31191 TTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTA-TTAGAATTTTTAATTTAA
130 TTTGCACAAAAAATTATTTGATTATTTGATA-TTTATAAAATATTATTTAGAATTTTTAATTTAA
*
31255 -TA-A-T-AATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAAT
194 CAACATTAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAAT
31316 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACT
259 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACT
31381 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
324 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
31446 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
389 TACA-T-TATAAGCGCTACCTA-TACATCATATTTTTACC
31486 TATTATATTGAAAGTGTCCATACTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATT
1 TATTATATTGAAAGTGTCCATACTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATT
31551 TATGTTTCAATTTTTTTAATAGTG-TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAT
66 TATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAT
31615 TTGCACAAAAAATTATTTGATTATTTGATATTTATAAAATATTATTTAGAATTTTTAATTTAACA
131 TTGCACAAAAAATTATTTGATTATTTGATATTTATAAAATATTATTTAGAATTTTTAATTTAACA
31680 ACATTAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCT
196 ACATTAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCT
*
31745 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
261 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTT
31810 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
326 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
31875 CATTATAAGCGCTACCTATACATCATATTTTTACC
391 CATTATAAGCGCTACCTATACATCATATTTTTACC
31910 TATTATATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAA-
1 TATTATATTGAAAGTGTCCATA-CTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
31974 TTATATTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA-TAATTTAATAATTTCA
65 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
32037 TTTGCAC-AAAAATTATTTGATTA-TTGATATTTATAAAATATTATTTAGAATTTTTAATTTAAC
130 TTTGCACAAAAAATTATTTGATTATTTGATATTTATAAAATATTATTTAGAATTTTTAATTTAAC
32100 AACATTAA
195 AACATTAA
32108 CCAAAGATAA
Statistics
Matches: 612, Mismatches: 3, Indels: 18
0.97 0.00 0.03
Matches are distributed among these distances:
421 48 0.08
422 30 0.05
423 124 0.20
424 138 0.23
425 80 0.13
426 2 0.00
427 190 0.31
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (425 bp):
TATTATATTGAAAGTGTCCATACTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATT
TATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAT
TTGCACAAAAAATTATTTGATTATTTGATATTTATAAAATATTATTTAGAATTTTTAATTTAACA
ACATTAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCT
TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTT
ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
CATTATAAGCGCTACCTATACATCATATTTTTACC
Found at i:32367 original size:39 final size:39
Alignment explanation
Indices: 32313--32398 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
32303 CAAGTTGTAG
*
32313 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
32352 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
32391 ATTTTGAT
1 ATTTTGAT
32399 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:32679 original size:18 final size:18
Alignment explanation
Indices: 32656--32690 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32646 GAAATATATA
32656 TGAAATTCAAACTCAAAT
1 TGAAATTCAAACTCAAAT
* *
32674 TGAAATTTAAATTCAAA
1 TGAAATTCAAACTCAAA
32691 CTCCAATTAC
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:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (18 bp):
TGAAATTCAAACTCAAAT
Found at i:32709 original size:24 final size:25
Alignment explanation
Indices: 32653--32709 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
32643 GCCGAAATAT
32653 ATATGAAATTCAAACTCAAATTGAA
1 ATATGAAATTCAAACTCAAATTGAA
* * *
32678 AT-TTAAATTCAAACTCCAATT-AC
1 ATATGAAATTCAAACTCAAATTGAA
32701 ATATGAAAT
1 ATATGAAAT
32710 GAATTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (25 bp):
ATATGAAATTCAAACTCAAATTGAA
Found at i:33144 original size:28 final size:26
Alignment explanation
Indices: 33112--33173 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
33102 GATATATACT
*
33112 TTACAATATATTATATAAGCGCTACCTA
1 TTACAATATATTATA-AA-CGATACCTA
33140 TTAC-AT-TA-TATAAACGATACCTA
1 TTACAATATATTATAAACGATACCTA
*
33163 TTACATTATAT
1 TTACAATATAT
33174 ACTTGTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 12 0.41
24 3 0.10
25 6 0.21
26 2 0.07
27 2 0.07
28 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (26 bp):
TTACAATATATTATAAACGATACCTA
Found at i:33148 original size:23 final size:23
Alignment explanation
Indices: 33121--33174 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
33111 TTTACAATAT
* *
33121 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGATACCTATTAC
33144 ATTATATAAACGATACCTATTAC
1 ATTATATAAACGATACCTATTAC
33167 ATTATATA
1 ATTATATA
33175 CTTGTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (23 bp):
ATTATATAAACGATACCTATTAC
Found at i:34381 original size:196 final size:196
Alignment explanation
Indices: 34047--34467 Score: 774
Period size: 196 Copynumber: 2.1 Consensus size: 196
34037 AATCGGGGGC
34047 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAATGATTTTGGGAT
1 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAATGATTTTGGGAT
* *
34112 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTTAAATTA
66 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTGAAATAA
*
34177 GTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
131 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
34242 A
196 A
*
34243 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAATGATTTTGGGAT
34308 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTG-TTTCCATTCAT-TCTGGAAAT
66 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-GAAAT
34371 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
129 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
34436 ATA
194 ATA
34439 ATTGTACCGGTTAGATTGAAAAATTACAT
1 ATTGTACCGGTTAGATTGAAAAATTACAT
34468 CCTTTTGGCT
Statistics
Matches: 219, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
194 1 0.00
195 12 0.05
196 206 0.94
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (196 bp):
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTGAAATAA
ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
A
Found at i:34622 original size:19 final size:19
Alignment explanation
Indices: 34590--34637 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
34580 AATATATCAC
34590 ATACAAAA-TATAAATCGT
1 ATACAAAATTATAAATCGT
*
34608 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
34627 ATACAAAATTA
1 ATACAAAATTA
34638 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:36458 original size:32 final size:33
Alignment explanation
Indices: 36422--36486 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
36412 CATCTTAATA
*
36422 TCACCCCTTAACACCCCAACTTC-TTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* * *
36454 TCACCCCTCAACACCTCTATTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
36487 CCATCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:38840 original size:20 final size:19
Alignment explanation
Indices: 38786--38831 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
38776 TCCGGTATCA
38786 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
*
38805 TGATACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCAT-TT
38826 TTTACC
1 TTTACC
38832 TGTTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:39439 original size:219 final size:218
Alignment explanation
Indices: 39048--39486 Score: 660
Period size: 219 Copynumber: 2.0 Consensus size: 218
39038 TTTTAGGATT
39048 TATAACTGCTTTTAAAGTTATGTAATTTATGTTTCAATTTATTTATAGTGTTTCATGTTTTCCAC
1 TATAACTGCTTTTAAAGTTATGTAATTTATGTTTCAATTTATTTATAGTGTTTCATGTTTTCCAC
**
39113 CTACAATATTAATTAATAATTTAATTACACAAAATTTTATTTGATGTTTTGATATTTTATAAATA
66 CTACAATATTAATTAATAATTTAATTACACAAAAAATTATTTGATGTTTTGATATTTTATAAATA
* *
39178 TTATTTAGAATTTAATTTAACAATATTAACCAAATAAATAATAAATATGTTTTCAACAGTGAAAT
131 TTATTTAGAATTTAATTTAACAATATTAACCAAAGAAATAATAAATA--TATTC-ACAGTGAAAT
*
39243 AAGTATGGACAC-TTTATAAAAATGA
193 AAGTATGGACACTTTTATAAAAAGGA
*
39268 TATAACT-TTTTTGAAAGTTATGTAATTTATGTTTC-ATTT-TTTAATAGTGTTTCATGTTTTCC
1 TATAACTGCTTTT-AAAGTTATGTAATTTATGTTTCAATTTATTT-ATAGTGTTTCATGTTTTCC
*
39330 ACCTACAATATTAA-TAAT-ATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTA-A
64 ACCTACAATATTAATTAATAATTT-AATTACACAAAAAATTATTTGA-TGTTTTGATATTTTATA
* *
39392 AATA-TATTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTCACAGTGA
127 AATATTATTTAGAATTT-AATTTAACAATATTAACCAAAGA-AATAATAAATATATTCACAGTGA
39456 AATAAGTATGGACACTTTTATAAAAAGGA
190 AATAAGTATGGACACTTTTATAAAAAGGA
39485 TA
1 TA
39487 GATAATTTAC
Statistics
Matches: 203, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
216 22 0.11
217 33 0.16
218 52 0.26
219 67 0.33
220 29 0.14
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (218 bp):
TATAACTGCTTTTAAAGTTATGTAATTTATGTTTCAATTTATTTATAGTGTTTCATGTTTTCCAC
CTACAATATTAATTAATAATTTAATTACACAAAAAATTATTTGATGTTTTGATATTTTATAAATA
TTATTTAGAATTTAATTTAACAATATTAACCAAAGAAATAATAAATATATTCACAGTGAAATAAG
TATGGACACTTTTATAAAAAGGA
Found at i:40471 original size:12 final size:12
Alignment explanation
Indices: 40454--40478 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40444 TGAACTTATA
40454 AAATTTAAAGTG
1 AAATTTAAAGTG
40466 AAATTTAAAGTG
1 AAATTTAAAGTG
40478 A
1 A
40479 GGCCAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
AAATTTAAAGTG
Found at i:47977 original size:238 final size:238
Alignment explanation
Indices: 47636--48143 Score: 782
Period size: 238 Copynumber: 2.1 Consensus size: 238
47626 CAACAAAAAA
* * * *
47636 CTTCTTAGTTTTAGAACCAATTTCAACTTTACGGCGGAGAATATTGGACTTGAAACAATACATAC
1 CTTCCTAGTTTTAGAGCCAATTTCAACTTCACGGCGGAGAATATTGAACTTGAAACAATACATAC
*
47701 ATGGAATTAAACTTCACGACGAAGTATATTCAAGTCAAGGCTCAACTTCACGACAAAGGGGCCAT
66 ATGGAATTAAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACAAAGGGGCCAT
* **
47766 CTACGATTTCAACTCCACGACGGAGGATATCGTATTCACACATCCACGATTTCAACTCCACGACG
131 CTACGATTTCAACTCCACGACGAAGGATATCGTACCCACACATCCACGATTTCAACTCCACGACG
* *
47831 GAGGATATCGTGCAATTTGAGGCTCAACTTCATGACGAAGGGG
196 GAGGATATCGTGCAATTTGAGGCTCAACTTCACGACAAAGGGG
* * * * *
47874 TTTCCTAGTTTCAGAGCCAATTTCAACTTCACGGTGGAGGATATTGAACTTGGAACAATACATAC
1 CTTCCTAGTTTTAGAGCCAATTTCAACTTCACGGCGGAGAATATTGAACTTGAAACAATACATAC
* * * * *
47939 TTGGATTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCATGACGAAGGGGCCAT
66 ATGGAATTAAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACAAAGGGGCCAT
48004 CTACGATTTCAACTCCACGACGAAGGATATCGTACCCACACATCCACGATTTCAACTCCACGACG
131 CTACGATTTCAACTCCACGACGAAGGATATCGTACCCACACATCCACGATTTCAACTCCACGACG
* *
48069 GAGTATATCGTGCCATTTGAGGCTCAACTTCACGACAAAGGGG
196 GAGGATATCGTGCAATTTGAGGCTCAACTTCACGACAAAGGGG
* * * *
48112 CTTCCCATTTTTAGAGTCAATTTCAACATCAC
1 CTTCCTAGTTTTAGAGCCAATTTCAACTTCAC
48144 AGCGAAGGGG
Statistics
Matches: 242, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
238 242 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (238 bp):
CTTCCTAGTTTTAGAGCCAATTTCAACTTCACGGCGGAGAATATTGAACTTGAAACAATACATAC
ATGGAATTAAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACAAAGGGGCCAT
CTACGATTTCAACTCCACGACGAAGGATATCGTACCCACACATCCACGATTTCAACTCCACGACG
GAGGATATCGTGCAATTTGAGGCTCAACTTCACGACAAAGGGG
Found at i:48110 original size:112 final size:112
Alignment explanation
Indices: 47738--48112 Score: 344
Period size: 112 Copynumber: 3.2 Consensus size: 112
47728 ATTCAAGTCA
**
47738 AGGCTCAACTTCACGACAAAGGGGCCATCTACGATTTCAACTCCACGACGGAGGATATCGTATTC
1 AGGCTCAACTTCACGACAAAGGGGCCATCTACGATTTCAACTCCACGACGGAGGATATCGTACCC
47803 ACACATCCACGATTTCAACTCCACGACGGAGGATATCGTGCAATTTG
66 ACACATCCACGATTTCAACTCCACGACGGAGGATATCGTGCAATTTG
* * * * * **
47850 AGGCTCAACTTCATGACGAAGGGGTTTCCTAGTTTCAGAGCCAATTTCAACTTCACGGTGGAGGA
1 AGGCTCAACTTCACGACAAAGGGG---CC-A---TC-TA--CGATTTCAACTCCACGACGGAGGA
* * ** * * * * **
47915 TATTGAACTTGGA-ACAATACATACTTGGATTTCAACTTCACGACGAAGGATAT--T-CAAGTCA
56 TATCGTAC--CCACAC-AT-C-CAC---GATTTCAACTCCACGACGGAGGATATCGTGCAATTTG
* * *
47976 AGGCTCAACTTCATGACGAAGGGGCCATCTACGATTTCAACTCCACGACGAAGGATATCGTACCC
1 AGGCTCAACTTCACGACAAAGGGGCCATCTACGATTTCAACTCCACGACGGAGGATATCGTACCC
* *
48041 ACACATCCACGATTTCAACTCCACGACGGAGTATATCGTGCCATTTG
66 ACACATCCACGATTTCAACTCCACGACGGAGGATATCGTGCAATTTG
48088 AGGCTCAACTTCACGACAAAGGGGC
1 AGGCTCAACTTCACGACAAAGGGGC
48113 TTCCCATTTT
Statistics
Matches: 203, Mismatches: 38, Indels: 44
0.71 0.13 0.15
Matches are distributed among these distances:
109 23 0.11
111 1 0.00
112 50 0.25
113 1 0.00
114 3 0.01
115 4 0.02
116 26 0.13
118 1 0.00
119 4 0.02
120 1 0.00
122 26 0.13
123 4 0.02
124 3 0.01
125 1 0.00
126 30 0.15
127 1 0.00
129 24 0.12
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (112 bp):
AGGCTCAACTTCACGACAAAGGGGCCATCTACGATTTCAACTCCACGACGGAGGATATCGTACCC
ACACATCCACGATTTCAACTCCACGACGGAGGATATCGTGCAATTTG
Found at i:48789 original size:37 final size:37
Alignment explanation
Indices: 48720--48840 Score: 149
Period size: 37 Copynumber: 3.3 Consensus size: 37
48710 TTGAATATGT
* * *
48720 TTTC-CTTGAAACAAA-TTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAATAAAGTTTTGTCTCTCTTGAGACAG
* *
48755 TTTCTTTTGGAACT-AAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTT-GAAATAAAGTTTTGTCTCTCTTGAGACAG
* *
48792 TTTCCCTTGAAATAAAGTTTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAATAAAGTTTTGTCTCTCTTGAGACAG
48829 TTTCTCTTGAAA
1 TTTCTCTTGAAA
48841 CAAAAAAAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 4 0.06
36 8 0.11
37 60 0.83
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (37 bp):
TTTCTCTTGAAATAAAGTTTTGTCTCTCTTGAGACAG
Found at i:49028 original size:84 final size:84
Alignment explanation
Indices: 48886--49048 Score: 227
Period size: 84 Copynumber: 1.9 Consensus size: 84
48876 CCAAACCTTT
* * * *
48886 GAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAATATAGCTCAAGGCAAGAAGGGCTAT
1 GAGTTCGACTACGCTCAGCTACAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGACTAT
*
48951 TTGCCAACCAAAGATCTTC
66 ATGCCAACCAAAGATCTTC
* * * * * *
48970 GAGTTCGACTACGCTCAGCTACAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGATTGT
1 GAGTTCGACTACGCTCAGCTACAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGACTAT
49035 ATGCCAACCAAAGA
66 ATGCCAACCAAAGA
49049 CCTGACGAGT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 68 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (84 bp):
GAGTTCGACTACGCTCAGCTACAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGACTAT
ATGCCAACCAAAGATCTTC
Found at i:52870 original size:105 final size:108
Alignment explanation
Indices: 52676--52877 Score: 275
Period size: 105 Copynumber: 1.9 Consensus size: 108
52666 GATGGTGGTT
* ** **
52676 GCTCAACTTCACAGTGAAGGGGTGACTGACGGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGTGAAGGGGTGACTGACGGTCAACAAACAACTTCCCAG-TT-ATTCAGAACC
52741 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
64 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* **
52786 GCTCAACTTCACAGTGAA-GGGTGGCTGATTGTCAACAAACAACTTCCCAG-T-TTCAGAACCAA
1 GCTCAACTTCACAGTGAAGGGGTGACTGACGGTCAACAAACAACTTCCCAGTTATTCAGAACCAA
* *
52848 TTTCAACTTCACGGCGGAGGATATTGGACT
66 TTTCAACTTCACAGCGAAGGATATTGGACT
52878 TGAAACAATA
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
105 37 0.45
107 1 0.01
109 26 0.32
110 18 0.22
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (108 bp):
GCTCAACTTCACAGTGAAGGGGTGACTGACGGTCAACAAACAACTTCCCAGTTATTCAGAACCAA
TTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
Found at i:53166 original size:195 final size:195
Alignment explanation
Indices: 52829--53185 Score: 590
Period size: 195 Copynumber: 1.8 Consensus size: 195
52819 AACAAACAAC
*
52829 TTCCCAGTTTCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTTGAAACAATACATACT
1 TTCCCAGTTTCAGAACCAATTTCAACTTCACGGCGGAGGATATTGAACTTGAAACAATACATACT
*
52894 TGGAATTAAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATC
66 TAGAATTAAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATC
*
52959 TACGATTTCAACTCCACGACGGAGGATATCGTGCAATTTGAGGCTCAACTTCATGACGAAGGGGT
131 TAAGATTTCAACTCCACGACGGAGGATATCGTGCAATTTGAGGCTCAACTTCATGACGAAGGGGT
* * *
53024 TTCCTAGTTTCA-AAGCCAATTTCAACTTCACGGTGGAGGATATTGAACTTGGAACAATACATAC
1 TTCCCAGTTTCAGAA-CCAATTTCAACTTCACGGCGGAGGATATTGAACTTGAAACAATACATAC
* * * *
53088 TTAGATTTCAACTTCACTACGAAGGATATTCAAGTCAAGGCTCAACTTCATGACGAAGGGGCCAT
65 TTAGAATTAAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCAT
**
53153 CTAAGATTTCAACTCCACGTTGGAGGATATCGT
130 CTAAGATTTCAACTCCACGACGGAGGATATCGT
53186 ACCCACACAT
Statistics
Matches: 149, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
194 2 0.01
195 147 0.99
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (195 bp):
TTCCCAGTTTCAGAACCAATTTCAACTTCACGGCGGAGGATATTGAACTTGAAACAATACATACT
TAGAATTAAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCATC
TAAGATTTCAACTCCACGACGGAGGATATCGTGCAATTTGAGGCTCAACTTCATGACGAAGGGGT
Found at i:53981 original size:37 final size:37
Alignment explanation
Indices: 53940--54011 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
53930 TTTTGGAACT
53940 AAGTTTTATCTCTCTTGAGACAGTTTCCCTTGAAATA
1 AAGTTTTATCTCTCTTGAGACAGTTTCCCTTGAAATA
* * *
53977 AAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAA
1 AAGTTTTATCTCTCTTGAGACAGTTTCCCTTGAAA
54012 CAAAAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (37 bp):
AAGTTTTATCTCTCTTGAGACAGTTTCCCTTGAAATA
Found at i:54199 original size:84 final size:84
Alignment explanation
Indices: 54053--54219 Score: 262
Period size: 84 Copynumber: 2.0 Consensus size: 84
54043 AACACCAAAC
*
54053 CTTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAACATAGCTCAAGGAAAGAAGGG
1 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGAAAGAAGGG
*
54118 CTATTTGCCAACCAAAGAT
66 CTATCTGCCAACCAAAGAT
* * * ***
54137 CTTCGAGTTCGACTACTCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
1 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGAAAGAAGGG
54202 CTATCTGCCAACCAAAGA
66 CTATCTGCCAACCAAAGA
54220 CCTGACGAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (84 bp):
CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGAAAGAAGGG
CTATCTGCCAACCAAAGAT
Found at i:58839 original size:31 final size:31
Alignment explanation
Indices: 58804--58877 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
58794 TTCAAAAACA
* *
58804 TAAGTTTTGGTCACTTACGCCATTGTTTTAT
1 TAAGTTTTGGTCAATTACGCCATCGTTTTAT
**
58835 TAAGTTTTGGTCAATTACGTTATCGTTTTAT
1 TAAGTTTTGGTCAATTACGCCATCGTTTTAT
58866 TAAGTTTTGGTC
1 TAAGTTTTGGTC
58878 GCTTGGACGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.50
Consensus pattern (31 bp):
TAAGTTTTGGTCAATTACGCCATCGTTTTAT
Found at i:59385 original size:32 final size:32
Alignment explanation
Indices: 59361--59493 Score: 117
Period size: 32 Copynumber: 4.2 Consensus size: 32
59351 AACGCTCCTG
59361 TGCATTATCTGAATGCAACACTAACTCTGA-TA
1 TGCATTATCTGAATGCAACACTAACTCT-ACTA
* *
59393 TGCATTATCTGAATGCAATATTAACTCTACTA
1 TGCATTATCTGAATGCAACACTAACTCTACTA
* * * * * * * *
59425 TGCATTATCTAAATACAATATTGATTGTGCTA
1 TGCATTATCTGAATGCAACACTAACTCTACTA
* * *
59457 TGTATTATCTAAATGCAATACTAA-TACTACTA
1 TGCATTATCTGAATGCAACACTAACT-CTACTA
59489 TGCAT
1 TGCAT
59494 CACACAAGCT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
31 2 0.02
32 82 0.98
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (32 bp):
TGCATTATCTGAATGCAACACTAACTCTACTA
Found at i:67745 original size:30 final size:30
Alignment explanation
Indices: 67697--67775 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
67687 ATTGTTTTTT
* * *
67697 AATTTGGTGCCCAACCTTTGTCTCGGTTCT
1 AATTTGGTGCCTAACCTTTGTCTCAGTTCC
* *
67727 AGTTTGATGCCTAACCTTTGTCTCAGTTCC
1 AATTTGGTGCCTAACCTTTGTCTCAGTTCC
*
67757 AATTTGGTTCCTAACCTTT
1 AATTTGGTGCCTAACCTTT
67776 AATTATTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.42
Consensus pattern (30 bp):
AATTTGGTGCCTAACCTTTGTCTCAGTTCC
Found at i:77701 original size:21 final size:20
Alignment explanation
Indices: 77615--77772 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
77605 AAATGACCAA
**
77615 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
77634 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
77654 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
77674 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
77695 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
77716 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
77736 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
77757 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
77773 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:77801 original size:20 final size:20
Alignment explanation
Indices: 77739--78008 Score: 269
Period size: 20 Copynumber: 13.5 Consensus size: 20
77729 CGATTTTCCA
* ** *
77739 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
77759 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
77779 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
77799 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
77819 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
77839 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
77859 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
77879 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
77899 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
77919 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
77939 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
77959 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
77979 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
77999 AAATCACAAC
1 AAATCGCAAC
78009 ACTGAAATTT
Statistics
Matches: 210, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 206 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:78287 original size:30 final size:30
Alignment explanation
Indices: 78253--78315 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
78243 AGTGGTCATA
78253 CAAGGTTGACATGTGGATCACCAGTGCCAT
1 CAAGGTTGACATGTGGATCACCAGTGCCAT
78283 CAAGGTTGACATGTGGATCACCAGTGCCAT
1 CAAGGTTGACATGTGGATCACCAGTGCCAT
78313 CAA
1 CAA
78316 AATCATCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (30 bp):
CAAGGTTGACATGTGGATCACCAGTGCCAT
Found at i:78637 original size:19 final size:19
Alignment explanation
Indices: 78568--78794 Score: 295
Period size: 19 Copynumber: 12.7 Consensus size: 19
78558 GCAACGAGAG
78568 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
78587 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
78601 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
78621 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
78640 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
78659 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
78673 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
78692 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
78711 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
78730 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
78749 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
78763 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
78782 AATCGCATTGCGA
1 AATCGCAATGCGA
78795 TTCTCCCGTT
Statistics
Matches: 184, Mismatches: 8, Indels: 32
0.82 0.04 0.14
Matches are distributed among these distances:
14 32 0.17
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 122 0.66
20 16 0.09
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:78718 original size:71 final size:70
Alignment explanation
Indices: 78568--78794 Score: 298
Period size: 71 Copynumber: 3.2 Consensus size: 70
78558 GCAACGAGAG
*
78568 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAACGA-G-AAATCGCAATGC-GAAATGAAAATCGCAATGC
78632 GAAATGAA
63 GAAATGAA
78640 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAAATGAAAATCGCAATGCGA
78705 AATGAA
65 AATGAA
* * * * *
78711 AATCGCAATGCGAAATGAAAATCGCAATGCGAAAT-GAAAAT-CGCAACGAGAGAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAATCG-CAATGCGAAATGA-A-AATCGCAATGC
*
78774 GAAATTAA
63 GAAATGAA
*
78782 AATCGCATTGCGA
1 AATCGCAATGCGA
78795 TTCTCCCGTT
Statistics
Matches: 142, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
69 7 0.05
70 7 0.05
71 88 0.62
72 39 0.27
73 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
ATGAA
Found at i:78727 original size:90 final size:90
Alignment explanation
Indices: 78596--78794 Score: 371
Period size: 90 Copynumber: 2.2 Consensus size: 90
78586 AAATCCCAAC
78596 ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAA
78661 TCGCAACGAGAGAATCGCAATGCGAA
65 TCGCAACGAGAGAATCGCAATGCGAA
78687 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
78752 CGCAACGAGAGAATCGCAATGCGAA
66 CGCAACGAGAGAATCGCAATGCGAA
* *
78777 ATTAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
78795 TTCTCCCGTT
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
90 90 0.85
91 16 0.15
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.16
Consensus pattern (90 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
CGCAACGAGAGAATCGCAATGCGAA
Found at i:78843 original size:19 final size:19
Alignment explanation
Indices: 78803--78900 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
78793 GATTCTCCCG
78803 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
78823 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
78842 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
78856 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
78875 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
78894 TTGCGAT
1 TTGCGAT
78901 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:78897 original size:52 final size:53
Alignment explanation
Indices: 78784--78900 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
78774 GAAATTAAAA
78784 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
78837 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
78889 TCGCATTGCGAT
1 TCGCATTGCGAT
78901 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:79023 original size:13 final size:14
Alignment explanation
Indices: 79007--79042 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
78997 CATCAATTAC
79007 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
*
79020 ACAAATCATCTTTT
1 ACAAATCAACTTTT
79034 ACAAATCAA
1 ACAAATCAA
79043 TTAAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:80931 original size:14 final size:14
Alignment explanation
Indices: 80912--80965 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
80902 TCCATTCAAG
*
80912 TCGCAACGACAGAA
1 TCGCAACGAAAGAA
80926 TCGCAATGCGAAATGAAA
1 TCGCAA--CGAAA-G-AA
80944 TCGCAACGAAAGAA
1 TCGCAACGAAAGAA
80958 TCGCAACG
1 TCGCAACG
80966 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 16 0.46
15 1 0.03
16 9 0.26
17 1 0.03
18 8 0.23
ACGTcount: A:0.43, C:0.24, G:0.22, T:0.11
Consensus pattern (14 bp):
TCGCAACGAAAGAA
Found at i:80948 original size:32 final size:33
Alignment explanation
Indices: 80912--80982 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 33
80902 TCCATTCAAG
* *
80912 TCGCAACGACAGAATCGCAATGCGAAATG-AAA
1 TCGCAACGAAAGAATCGCAACGCGAAATGAAAA
80944 TCGCAACGAAAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAAAGAATCGCAACGCGAAATGAAAA
80977 TCGCAA
1 TCGCAA
80983 TGCGATTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 27 0.75
33 9 0.25
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (33 bp):
TCGCAACGAAAGAATCGCAACGCGAAATGAAAA
Found at i:80980 original size:19 final size:18
Alignment explanation
Indices: 80924--80987 Score: 82
Period size: 19 Copynumber: 3.7 Consensus size: 18
80914 GCAACGACAG
80924 AATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGA
80942 AATCGCAA--CGAAA-G-
1 AATCGCAATGCGAAATGA
*
80956 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATG-A
80975 AATCGCAATGCGA
1 AATCGCAATGCGA
80988 TTTTGGTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
14 8 0.20
15 1 0.03
16 10 0.25
17 1 0.03
18 8 0.20
19 12 0.30
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (18 bp):
AATCGCAATGCGAAATGA
Found at i:81005 original size:19 final size:18
Alignment explanation
Indices: 80983--81092 Score: 83
Period size: 19 Copynumber: 6.3 Consensus size: 18
80973 AAAATCGCAA
80983 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
81002 TGCGATCTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
81016 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
81035 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
81049 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
81068 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT--GTTTCGCGT
81088 TGCGA
1 TGCGA
81093 AAGTAAACTA
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
14 22 0.31
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 31 0.43
20 12 0.17
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.45
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:81025 original size:33 final size:33
Alignment explanation
Indices: 80983--81074 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
80973 AAAATCGCAA
80983 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
81016 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
81049 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
81075 TTAAGTTTCG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:81489 original size:93 final size:93
Alignment explanation
Indices: 81140--81604 Score: 877
Period size: 92 Copynumber: 5.1 Consensus size: 93
81130 ATGGATTGCA
81140 TTAC-TTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
81203 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
81231 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAATGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
81295 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
81323 TTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
81387 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
81415 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
81480 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
81508 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTG-TAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
81572 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
81600 TTACT
1 TTACT
81605 AAGCAATCTA
Statistics
Matches: 367, Mismatches: 3, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
91 29 0.08
92 192 0.52
93 146 0.40
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:83336 original size:33 final size:33
Alignment explanation
Indices: 83296--83371 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
83286 TCTTTTGGTT
*
83296 GAAATGAAAATCGCAATGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
83329 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
83362 GAAATGAAAA
1 GAAATGAAAA
83372 ATGCGATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.49, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:83342 original size:19 final size:19
Alignment explanation
Indices: 83318--83371 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
83308 GCAATGAGAG
83318 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
83337 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
83351 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
83370 AA
1 AA
83372 ATGCGATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 10 0.36
15 1 0.04
16 2 0.07
17 2 0.07
18 1 0.04
19 12 0.43
ACGTcount: A:0.48, C:0.20, G:0.22, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:83356 original size:14 final size:14
Alignment explanation
Indices: 83304--83360 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
83294 TTGAAATGAA
*
83304 AATCGCAATGAGAG
1 AATCGCAACGAGAG
*
83318 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
83337 AATCGCAACGAGAG
1 AATCGCAACGAGAG
83351 AATCGCAACG
1 AATCGCAACG
83361 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
15 1 0.03
16 1 0.03
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:83421 original size:33 final size:33
Alignment explanation
Indices: 83373--83453 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
83363 AAATGAAAAA
**
83373 TGCGATTTTGGTTTCGCGTTGCGATTCTCTAGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
*
83406 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
83439 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
83454 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
Found at i:83441 original size:14 final size:14
Alignment explanation
Indices: 83389--83445 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
83379 TTTGGTTTCG
83389 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
83403 AGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
83422 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
83436 CGTTGCGATT
1 CGTTGCGATT
83446 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:83486 original size:41 final size:41
Alignment explanation
Indices: 83429--83506 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
83419 TCGCGTTGCG
*
83429 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
83470 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
83507 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:83491 original size:20 final size:21
Alignment explanation
Indices: 83430--83505 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
83420 CGCGTTGCGA
83430 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
83451 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
83471 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
83492 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
83506 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:83629 original size:31 final size:32
Alignment explanation
Indices: 83591--83659 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
83581 AATACTAACT
83591 TGAAAATCGCAACG-AGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAAGAATAGCAACGCGAAA
* *
83622 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGA-AGAATAGCAACGCGAAA
83655 TGAAA
1 TGAAA
83660 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 14 0.41
33 20 0.59
ACGTcount: A:0.48, C:0.19, G:0.22, T:0.12
Consensus pattern (32 bp):
TGAAAATCGCAACGAAGAATAGCAACGCGAAA
Found at i:83893 original size:22 final size:22
Alignment explanation
Indices: 83841--83895 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
83831 TGGTTGTGAG
**
83841 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
83863 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
83885 GGATTTCTTCG
1 GGATTTCTTCG
83896 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:84068 original size:20 final size:20
Alignment explanation
Indices: 84043--84196 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
84033 CTTTAAATAT
84043 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
84063 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
84085 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
84104 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
84124 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
84144 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
84164 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
84184 CGCGTTGCGATTT
1 CGCGTTGCGATTT
84197 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:84170 original size:40 final size:40
Alignment explanation
Indices: 84042--84196 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
84032 GCTTTAAATA
*
84042 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
84083 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
84123 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
84163 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
84197 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:84213 original size:21 final size:21
Alignment explanation
Indices: 84183--84265 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
84173 ATTTTCATAT
*
84183 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
84204 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
84225 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
84246 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
84266 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:84256 original size:42 final size:43
Alignment explanation
Indices: 84163--84261 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
84153 ATTTATGTGT
* *
84163 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
84204 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
84246 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
84262 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:89999 original size:4 final size:4
Alignment explanation
Indices: 89990--90133 Score: 144
Period size: 4 Copynumber: 36.0 Consensus size: 4
89980 CAAATTAAAG
89990 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * * * * * *
90038 GTTT GTAT GTAT ATAT ATGT ATGT ATGT ATAT ATAT GTAT GTAT GTAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * *
90086 ATAT ATGT ATGT ATAT ATAT GTAT GTAT GTAT ATAT ATGT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
90134 GTATGTATGT
Statistics
Matches: 126, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 126 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (4 bp):
ATAT
Found at i:90138 original size:14 final size:14
Alignment explanation
Indices: 89990--90141 Score: 164
Period size: 14 Copynumber: 11.0 Consensus size: 14
89980 CAAATTAAAG
* *
89990 ATATATATATATAT
1 ATATATGTATGTAT
* *
90004 ATATATATATATAT
1 ATATATGTATGTAT
* *
90018 ATATATATATATAT
1 ATATATGTATGTAT
*
90032 ATATATGTTTGTAT
1 ATATATGTATGTAT
* *
90046 GTATATATATG--T
1 ATATATGTATGTAT
* *
90058 ATGTATGTATATAT
1 ATATATGTATGTAT
*
90072 ATGTATGTATGTAT
1 ATATATGTATGTAT
90086 ATATATGTATGTAT
1 ATATATGTATGTAT
90100 ATATATGTATGTAT
1 ATATATGTATGTAT
* *
90114 GTATATATATGTAT
1 ATATATGTATGTAT
90128 ATATATGTATGTAT
1 ATATATGTATGTAT
90142 GTATGGAGGA
Statistics
Matches: 120, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
12 8 0.07
14 112 0.93
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (14 bp):
ATATATGTATGTAT
Found at i:90145 original size:18 final size:18
Alignment explanation
Indices: 89990--90137 Score: 188
Period size: 18 Copynumber: 8.1 Consensus size: 18
89980 CAAATTAAAG
* *
89990 ATATATATATATATATAT
1 ATATATATATATGTATGT
* *
90008 ATATATATATATATATAT
1 ATATATATATATGTATGT
*
90026 ATATATATATATGTTTGT
1 ATATATATATATGTATGT
*
90044 ATGTATATATATGTATGT
1 ATATATATATATGTATGT
*
90062 ATGTATATATATGTATGT
1 ATATATATATATGTATGT
*
90080 ATGTATATATATGTATGT
1 ATATATATATATGTATGT
*
90098 ATATATATGTATGTATGT
1 ATATATATATATGTATGT
*
90116 ATATATATGTATATATATGT
1 ATATATA--TATATGTATGT
90136 AT
1 AT
90138 GTATGTATGG
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
18 108 0.91
20 11 0.09
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
ATATATATATATGTATGT
Found at i:93150 original size:22 final size:23
Alignment explanation
Indices: 93110--93157 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
93100 CATTGTAATT
*
93110 ATAGATTTTATTTAATAAAACTA
1 ATAGATTTTATTTAATAAAAATA
* *
93133 ATAGTTTTTATTT-GTAAAAATA
1 ATAGATTTTATTTAATAAAAATA
93155 ATA
1 ATA
93158 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (23 bp):
ATAGATTTTATTTAATAAAAATA
Found at i:93418 original size:41 final size:41
Alignment explanation
Indices: 93372--93495 Score: 171
Period size: 40 Copynumber: 3.0 Consensus size: 41
93362 AATCTCGTGT
*
93372 TTGTTTCACGTAATTCATTTTCCGGAAAATATTTTTCC-GTG
1 TTGTTTCACGTAATTCGTTTTCCGGAAAATA-TTTTCCAGTG
* * *
93413 TTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTCCTGTG
1 TTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCCAGTG
* *
93454 TT-TGTCACGTAATTCGTTTTCCGGAAAATGTTTTCCAGTG
1 TTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCCAGTG
93494 TT
1 TT
93496 TGGTTGAAGG
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 41 0.55
41 33 0.45
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (41 bp):
TTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCCAGTG
Found at i:93755 original size:26 final size:24
Alignment explanation
Indices: 93693--93755 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
93683 CAATTTAATC
93693 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
93717 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
93740 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
93756 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:93757 original size:22 final size:23
Alignment explanation
Indices: 93727--93773 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
93717 AAAATATATT
93727 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
93750 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
93772 TA
1 TA
93774 AAATTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:93833 original size:28 final size:29
Alignment explanation
Indices: 93745--93836 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 29
93735 TTTCTAATAA
93745 TATAATATTATATTTTTAATATTATAATAAAAT
1 TATAA-ATTATA-TTTTAATA-TATAAT-AAAT
* * *
93778 TATAAATTATAGTATAATATAT-AGAAAT
1 TATAAATTATATTTTAATATATAATAAAT
* *
93806 TAT-ATTTTTATTTTAATATATAATAAAT
1 TATAAATTATATTTTAATATATAATAAAT
93834 TAT
1 TAT
93837 TAATAAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
27 14 0.28
28 15 0.30
29 1 0.02
30 3 0.06
31 6 0.12
32 6 0.12
33 5 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
TATAAATTATATTTTAATATATAATAAAT
Found at i:94335 original size:14 final size:14
Alignment explanation
Indices: 94316--94371 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
94306 TCAGAAATGT
94316 AATTCATTTTCCAG
1 AATTCATTTTCCAG
*
94330 AATTCAATTTT-TAG
1 AATTC-ATTTTCCAG
*
94344 TAATTCATTTTCCAA
1 -AATTCATTTTCCAG
*
94359 AATTCAATTTCCA
1 AATTCATTTTCCA
94372 TAAAACCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 24 0.69
15 11 0.31
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.45
Consensus pattern (14 bp):
AATTCATTTTCCAG
Found at i:100053 original size:31 final size:32
Alignment explanation
Indices: 100009--100087 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 32
99999 ATAATTACTA
100009 AATATATC-ATTTTAAAATGTGTTAGT-AAAT
1 AATATATCAATTTTAAAATGTGTTAGTAAAAT
*
100039 AATATAACAATTTTAAAATGTGTTAGTAAAAT
1 AATATATCAATTTTAAAATGTGTTAGTAAAAT
100071 AATA-ATCAATTTTAAAA
1 AATATATCAATTTTAAAA
100088 AGTAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 7 0.16
31 30 0.67
32 8 0.18
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (32 bp):
AATATATCAATTTTAAAATGTGTTAGTAAAAT
Found at i:101933 original size:22 final size:22
Alignment explanation
Indices: 101899--101966 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
101889 CATATATAGT
* *
101899 ATACAGAGATCCTTCGGGACAA
1 ATACATAGGTCCTTCGGGACAA
* *
101921 ATACATAGGTCCTTCGAGACAG
1 ATACATAGGTCCTTCGGGACAA
* *
101943 ATACATAGGTCTTTCGGGATAA
1 ATACATAGGTCCTTCGGGACAA
101965 AT
1 AT
101967 TTCACATGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (22 bp):
ATACATAGGTCCTTCGGGACAA
Done.