Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009427.1 Hibiscus syriacus cultivar Beakdansim tig00113405_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: 146478
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:292 original size:14 final size:14
Alignment explanation
Indices: 273--299 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
263 TACATTTTCA
273 TTCTTCATTCTTTG
1 TTCTTCATTCTTTG
287 TTCTTCATTCTTT
1 TTCTTCATTCTTT
300 ACATTCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (14 bp):
TTCTTCATTCTTTG
Found at i:3814 original size:8 final size:8
Alignment explanation
Indices: 3801--3885 Score: 84
Period size: 8 Copynumber: 12.0 Consensus size: 8
3791 AAAGAGAATG
3801 AATGAAAA
1 AATGAAAA
3809 AATGAAAA
1 AATGAAAA
*
3817 AGTG-AAA
1 AATGAAAA
3824 AA-GAAAA
1 AATGAAAA
3831 AAT---AA
1 AATGAAAA
3836 AA--AAAA
1 AATGAAAA
3842 AATGAAAA
1 AATGAAAA
3850 AATG--AA
1 AATGAAAA
3856 AA--AAAA
1 AATGAAAA
3862 AATGAAAA
1 AATGAAAA
3870 AATGAAAA
1 AATGAAAA
3878 AATGAAAA
1 AATGAAAA
3886 GAAAAAAGAA
Statistics
Matches: 65, Mismatches: 2, Indels: 20
0.75 0.02 0.23
Matches are distributed among these distances:
5 4 0.06
6 13 0.20
7 9 0.14
8 39 0.60
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.11
Consensus pattern (8 bp):
AATGAAAA
Found at i:3822 original size:20 final size:20
Alignment explanation
Indices: 3797--3898 Score: 100
Period size: 20 Copynumber: 5.0 Consensus size: 20
3787 AAAAAAAGAG
3797 AATGAATGAAAAAATGAAAA
1 AATGAATGAAAAAATGAAAA
* *
3817 AGTGAAAAAGAAAAAAT-AAAA
1 AATG--AATGAAAAAATGAAAA
**
3838 AAAAAATGAAAAAATGAAAA
1 AATGAATGAAAAAATGAAAA
**
3858 AAAAAATGAAAAAATGAAAA
1 AATGAATGAAAAAATGAAAA
*
3878 AATGAAAAGAAAAAA-GAAAA
1 AATG-AATGAAAAAATGAAAA
3898 A
1 A
3899 TGAGGGTTCG
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
19 10 0.14
20 35 0.51
21 14 0.20
22 10 0.14
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (20 bp):
AATGAATGAAAAAATGAAAA
Found at i:3879 original size:28 final size:27
Alignment explanation
Indices: 3805--3898 Score: 122
Period size: 28 Copynumber: 3.5 Consensus size: 27
3795 AGAATGAATG
* *
3805 AAAAAATGAAAAAGTG-AAAAA-GAAA
1 AAAAAAAGAAAAAATGAAAAAATGAAA
3830 AAATAAAA-AAAAAATGAAAAAATGAAA
1 AAA-AAAAGAAAAAATGAAAAAATGAAA
3857 AAAAAAATGAAAAAATGAAAAAATGAAA
1 AAAAAAA-GAAAAAATGAAAAAATGAAA
3885 AGAAAAAAGAAAAA
1 A-AAAAAAGAAAAA
3899 TGAGGGTTCG
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
25 10 0.16
26 12 0.20
27 7 0.11
28 26 0.43
29 6 0.10
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.09
Consensus pattern (27 bp):
AAAAAAAGAAAAAATGAAAAAATGAAA
Found at i:5514 original size:105 final size:105
Alignment explanation
Indices: 4807--5499 Score: 1161
Period size: 105 Copynumber: 6.6 Consensus size: 105
4797 TCAACAACAA
* * *
4807 TCAAATCCACCACAGAAGGAGGTGACCCAATATTTCTAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
4872 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATATTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
* *
4912 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATAAGAAGAACTCGT
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
* *
4977 CCTAAAGGAGAAGGTTCGTAATGAGAAGAACTTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
* *
5017 TTAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
* *
5082 CTTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
*
5122 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
5187 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
* * *
5227 TTAAATCCACCGCAGAAGGAGGTGAACCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
* *
5292 CTTAAAGGAGAAGGTTCGTAATGAGAAGAGTATGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
*
5332 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
5397 CTTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
* * * *
5437 TCAAATTCACCCCAGAAGGAGGTGAATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
5500 ATCCGACAAA
Statistics
Matches: 561, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 561 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (105 bp):
TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
Found at i:16023 original size:48 final size:48
Alignment explanation
Indices: 15971--16089 Score: 186
Period size: 48 Copynumber: 2.5 Consensus size: 48
15961 TTCGATTTGA
15971 ATTTTGATCTGATACTTGACATGGATTCTGATCTGATA-TCTGACATGG
1 ATTTTGATCTGATACTTGACATGGATTCTGATCTGATACT-TGACATGG
* * *
16019 ATTTTGATCTGATACTCGACTTGGATTCTGATCTGATACTTGACCTGG
1 ATTTTGATCTGATACTTGACATGGATTCTGATCTGATACTTGACATGG
*
16067 ATTTTGATATGATACTTGACATG
1 ATTTTGATCTGATACTTGACATG
16090 AATTATGTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 63 0.98
49 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (48 bp):
ATTTTGATCTGATACTTGACATGGATTCTGATCTGATACTTGACATGG
Found at i:16080 original size:72 final size:71
Alignment explanation
Indices: 15948--16089 Score: 187
Period size: 72 Copynumber: 2.0 Consensus size: 71
15938 CCACATGAAT
** * * *
15948 ATTTTATCTGATTTTCGATTTGAATTTTGATCTGATACTTGACATGGATTCTGATCTGATA-TCT
1 ATTTTATCTGATACTCGACTTGAATTCTGATCTGATACTTGACATGGATTCTGATATGATACT-T
16012 GACATGG
65 GACATGG
* * *
16019 ATTTTGATCTGATACTCGACTTGGATTCTGATCTGATACTTGACCTGGATTTTGATATGATACTT
1 ATTTT-ATCTGATACTCGACTTGAATTCTGATCTGATACTTGACATGGATTCTGATATGATACTT
16084 GACATG
65 GACATG
16090 AATTATGTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
71 5 0.08
72 55 0.90
73 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (71 bp):
ATTTTATCTGATACTCGACTTGAATTCTGATCTGATACTTGACATGGATTCTGATATGATACTTG
ACATGG
Found at i:16103 original size:24 final size:24
Alignment explanation
Indices: 15975--16089 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
15965 ATTTGAATTT
15975 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACATGGATTC
*
15999 TGATCTGATA-TCTGACATGGATTT
1 TGATCTGATACT-TGACATGGATTC
* *
16023 TGATCTGATACTCGACTTGGATTC
1 TGATCTGATACTTGACATGGATTC
* *
16047 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGACATGGATTC
*
16071 TGATATGATACTTGACATG
1 TGATCTGATACTTGACATG
16090 AATTATGTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 1 0.01
24 78 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTC
Found at i:16266 original size:43 final size:43
Alignment explanation
Indices: 16205--16299 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
16195 GAGCCTTACT
*
16205 TGGTGTGTTGGTGGGTGTATGGTTCTGGGGAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
*
16248 TGGTGTGTTTGTGGGTGTATGGTTCTGGGAAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
16291 TGGTGTGTT
1 TGGTGTGTT
16300 CGGTTGGAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.16, C:0.11, G:0.36, T:0.38
Consensus pattern (43 bp):
TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
Found at i:18691 original size:20 final size:20
Alignment explanation
Indices: 18667--18837 Score: 175
Period size: 20 Copynumber: 8.6 Consensus size: 20
18657 TATGTATTAT
18667 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
18687 TGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATACG
* **
18707 CATTGCGATTTACCCATACG
1 CGTTGCGATTTACGGATACG
* *
18727 CGTTACGATTTACGGATACA
1 CGTTGCGATTTACGGATACG
18747 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
18767 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* *
18787 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* ** *
18807 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATACG
18827 CGTTGCGATTT
1 CGTTGCGATTT
18838 TGGAAAATCG
Statistics
Matches: 129, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
20 128 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:18811 original size:60 final size:60
Alignment explanation
Indices: 18642--18837 Score: 196
Period size: 60 Copynumber: 3.2 Consensus size: 60
18632 TAAGGCTTAT
* ** * *
18642 TACGCTTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACGTGTTGCGATATACGGA
1 TACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGA
* *** * * *
18703 TACGCATTGCGATTTACCCATACGCGTTACGATTTACGGATACACGTTGCGATTTACGGA
1 TACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGA
* * * * **
18763 TACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTATGTG-TTCGCGTTGCGATTTTCATA
1 TACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACG-GATACGCGTTGCGATTTACGGA
*
18823 TTCGCGTTGCGATTT
1 TACGCGTTGCGATTT
18838 TGGAAAATCG
Statistics
Matches: 109, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
60 97 0.89
61 12 0.11
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (60 bp):
TACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGA
Found at i:18854 original size:21 final size:21
Alignment explanation
Indices: 18824--18941 Score: 82
Period size: 21 Copynumber: 5.7 Consensus size: 21
18814 ATTTTCATAT
*
18824 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
18845 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
18866 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
* *
18887 TCGCGTTGCGATTTTGGAAAC
1 TCGCATTGCGATTTTGGAAAA
* *
18908 T-G-ATTTGCGATTCTGG-AGA
1 TCGCA-TTGCGATTTTGGAAAA
*
18927 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
18942 TATTTCGCGT
Statistics
Matches: 72, Mismatches: 20, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.03
20 23 0.32
21 45 0.62
22 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:18897 original size:42 final size:43
Alignment explanation
Indices: 18804--18902 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
18794 ATTTATGTGT
* *
18804 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
18845 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
18887 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
18903 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:21452 original size:24 final size:24
Alignment explanation
Indices: 21425--21543 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
21415 TTCGATTTGA
21425 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
21449 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
21473 ATTTTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
21497 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* * *
21521 ATTTTTATATGATACTTGACATG
1 ATTCTGATCTGATACTTGACATG
21544 AATTATGTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 83 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:21720 original size:43 final size:43
Alignment explanation
Indices: 21659--21753 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
21649 GAGCCTTACT
*
21659 TGGTGTGTTGGTGGGTGTATAGTTCTGGGGAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATAGTTCTGGGAAACCTACACATTA
*
21702 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATAGTTCTGGGAAACCTACACATTA
21745 TGGTGTGTT
1 TGGTGTGTT
21754 CGGTTGGAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.17, C:0.11, G:0.36, T:0.37
Consensus pattern (43 bp):
TGGTGTGTTGGTGGGTGTATAGTTCTGGGAAACCTACACATTA
Found at i:25836 original size:23 final size:23
Alignment explanation
Indices: 25810--25857 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
25800 ATAAAGTACA
*
25810 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
25833 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
25856 AT
1 AT
25858 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:26367 original size:23 final size:23
Alignment explanation
Indices: 26332--26404 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
26322 ATACTTTACA
*
26332 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
26355 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
26378 ATTTAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
26401 ATAT
1 ATAT
26405 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:26802 original size:23 final size:23
Alignment explanation
Indices: 26776--26834 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
26766 AACCACTACC
26776 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
26799 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
26822 TATTACATCATAT
1 TATTACATTATAT
26835 TTTTATCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:26986 original size:430 final size:430
Alignment explanation
Indices: 26165--27041 Score: 1616
Period size: 430 Copynumber: 2.0 Consensus size: 430
26155 TATGTTTATT
*
26165 ATTTTTGATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
1 ATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
26230 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
66 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
* *
26295 GTATGGACACTTTTATAAAAATAATAGATACTTTACAATATAAGCACTACCTATTACATTATATA
131 GTATAGACACTTTTATAAAAATAATAGATACTTTACAATATAACCACTACCTATTACATTATATA
* * *
26360 AACGCTACCTATTACATTATTTAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
196 AACGATACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
26425 GTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATT
261 GTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATT
*
26490 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
26555 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGA
391 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGA
26595 ATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
1 ATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
26660 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
66 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
*
26725 GTATAGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATA
131 GTATAGACACTTTTATAAAAATAATAGATACTTTACAATATAACCACTACCTATTACATTATATA
*
26790 AACGATACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTATCTATTATATTGAAA
196 AACGATACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
26855 GTGTCCATACTTTTTATAAAAAGGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAAT
261 GTGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAA-
26919 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAA
324 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
26983 AATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGA
389 AATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGA
* *
27025 A-TTTAAATTTAACAATA
1 ATTTTTAATTTAATAATA
27042 TTAACCAAAG
Statistics
Matches: 434, Mismatches: 11, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
429 15 0.03
430 359 0.83
431 60 0.14
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.41
Consensus pattern (430 bp):
ATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
GTATAGACACTTTTATAAAAATAATAGATACTTTACAATATAACCACTACCTATTACATTATATA
AACGATACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
GTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGA
Found at i:27285 original size:23 final size:23
Alignment explanation
Indices: 27250--27322 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
27240 ATACTTTACA
* *
27250 ATATAAGCACTACCCATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
27273 ATATAAACGCTACCTACTACATT
1 ATATAAGCGCTACCTATTACATT
*
27296 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
27319 ATAT
1 ATAT
27323 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:27512 original size:488 final size:490
Alignment explanation
Indices: 26596--28637 Score: 3854
Period size: 488 Copynumber: 4.2 Consensus size: 490
26586 ATATTTAGAA
*
26596 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
26661 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
26726 TATAGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
* * *
26791 ACGATACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTATCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
26856 TGTCCATACTTTTTATAAAAAGGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATT
26920 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAA
325 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
26984 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCA
390 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCA
27049 AAGATAATAATAAATATGTAATATATATGTTTATT-
455 AAGATAATAATAAATATGTAATATATATGTTTATTG
27084 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
27149 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
27214 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCCATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
*
27279 ACGCTACCTACTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
27344 TGTACATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
27408 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
27473 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
391 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
27538 AGATAATAATAAATATGTAATATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
*
27573 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
27638 AAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
27702 TATAGACACTTTTAT-AAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
*
27766 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACATATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
27831 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
27895 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
27960 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAATAATATTAACCAA
391 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
28025 AGATAATAATAAATATGTAATATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
*
28060 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
28125 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
28190 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
28255 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
28320 TGCCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
28385 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
28450 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
391 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
28515 AGATAATAATAAATATGTAATATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
28550 TTTTTAATTTAATAAT-ATATAT--CGTAACGTAAAAAATAAATCATTAGAC-CCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
28611 AAATTAATATCTTAAAACTCACTCAAA
66 AAATTAATATCTTAAAACTCACTCAAA
28638 GATGTATATA
Statistics
Matches: 1524, Mismatches: 24, Indels: 14
0.98 0.02 0.01
Matches are distributed among these distances:
486 38 0.02
487 513 0.34
488 522 0.34
489 269 0.18
490 182 0.12
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (490 bp):
TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
AGATAATAATAAATATGTAATATATATGTTTATTG
Found at i:27772 original size:23 final size:23
Alignment explanation
Indices: 27737--27809 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
27727 ATACTTTACA
*
27737 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
27760 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
27783 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
27806 ATAT
1 ATAT
27810 TTTTACATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:27832 original size:487 final size:490
Alignment explanation
Indices: 26596--28637 Score: 3854
Period size: 487 Copynumber: 4.2 Consensus size: 490
26586 ATATTTAGAA
26596 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
26661 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
26726 TATAGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
* * *
26791 ACGATACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTATCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
26856 TGTCCATACTTTTTATAAAAAGGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATT
26920 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAA
325 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
26984 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCA
390 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCA
27049 AAGATAATAATAAATATGTAATATATATGTTTATT-
455 AAGATAATAATAAATATGTAATATATATGTTTATTG
*
27084 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
27149 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
27214 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCCATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
*
27279 ACGCTACCTACTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
27344 TGTACATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
27408 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
27473 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
391 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
27538 AGATAATAATAAATATGTAATATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
27573 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
27638 AAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
27702 TATAGACACTTTTAT-AAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
*
27766 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACATATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
27831 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
27895 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
27960 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAATAATATTAACCAA
391 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
28025 AGATAATAATAAATATGTAATATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
* *
28060 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
28125 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
28190 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
28255 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
28320 TGCCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
28385 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
28450 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
391 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
28515 AGATAATAATAAATATGTAATATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
28550 TTTTTAA-TT--TAATAATATATATCGTAACGTAAAAAATAAATCATTAGAC-CCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
28611 AAATTAATATCTTAAAACTCACTCAAA
66 AAATTAATATCTTAAAACTCACTCAAA
28638 GATGTATATA
Statistics
Matches: 1523, Mismatches: 25, Indels: 14
0.98 0.02 0.01
Matches are distributed among these distances:
486 38 0.02
487 525 0.34
488 522 0.34
489 265 0.17
490 173 0.11
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (490 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
AGATAATAATAAATATGTAATATATATGTTTATTG
Found at i:28261 original size:23 final size:23
Alignment explanation
Indices: 28226--28298 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
28216 ATACTTTACA
*
28226 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
28249 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
28272 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
28295 ATAT
1 ATAT
28299 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:28668 original size:25 final size:25
Alignment explanation
Indices: 28640--28704 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
28630 CACTCAAAGA
*
28640 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
*
28665 TGTACATACTTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
28690 TGTACATACCTAAAT
1 TGTACATACCTAAAT
28705 TTAATGATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:31471 original size:183 final size:183
Alignment explanation
Indices: 31163--32102 Score: 1672
Period size: 183 Copynumber: 5.1 Consensus size: 183
31153 TACTTAAAAT
*
31163 TACCGACACAATATTA-AACGTGTCGATATAGGTTGTAAGACCTATTCGCTCATAAAACCGGTAT
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGT-AGACCTATTCGCTCATAAAACCGGTAT
31227 ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATG
65 ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATG
31292 TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
130 TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
31346 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACATATTCACTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
31411 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
31476 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
31529 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
31594 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
31659 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
31712 TACCAACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
31777 TTTATACTGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
31842 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
31895 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * *
31960 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGTAAA
*
32025 --TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAG
128 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
32079 TACAGACACAATATTAAAAAGTGT
1 TACCGACACAATATTAGAAAGTGT
32103 GAAAACTTTG
Statistics
Matches: 728, Mismatches: 23, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
182 3 0.00
183 624 0.86
184 97 0.13
186 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:33318 original size:9 final size:9
Alignment explanation
Indices: 33304--33393 Score: 81
Period size: 9 Copynumber: 10.0 Consensus size: 9
33294 ACTTGTTTGG
33304 ATCATCATC
1 ATCATCATC
33313 ATCATCATC
1 ATCATCATC
33322 ATCATCATC
1 ATCATCATC
*
33331 GTCATCATC
1 ATCATCATC
* *
33340 TTCATCGTC
1 ATCATCATC
* *
33349 AGCTTCATC
1 ATCATCATC
* *
33358 GTCACCATC
1 ATCATCATC
*
33367 ATCGTCATC
1 ATCATCATC
* *
33376 ATCTTCGTC
1 ATCATCATC
*
33385 ATCTTCATC
1 ATCATCATC
33394 GTCAGCTTCA
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 64 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (9 bp):
ATCATCATC
Found at i:33321 original size:12 final size:12
Alignment explanation
Indices: 33308--33397 Score: 99
Period size: 12 Copynumber: 7.2 Consensus size: 12
33298 GTTTGGATCA
*
33308 TCATCATCATCA
1 TCATCATCATCG
33320 TCATCATCATCG
1 TCATCATCATCG
33332 TCATCATCTTCATCG
1 TCATCA---TCATCG
* *
33347 TCAGCTTCATCG
1 TCATCATCATCG
*
33359 TCACCATCATCG
1 TCATCATCATCG
*
33371 TCATCATCTTCG
1 TCATCATCATCG
*
33383 TCATCTTCATCG
1 TCATCATCATCG
33395 TCA
1 TCA
33398 GCTTCATCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
12 56 0.85
15 10 0.15
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCATCATCG
Found at i:33402 original size:12 final size:12
Alignment explanation
Indices: 33339--33405 Score: 80
Period size: 12 Copynumber: 5.6 Consensus size: 12
33329 TCGTCATCAT
33339 CTTCATCGTCAG
1 CTTCATCGTCAG
*
33351 CTTCATCGTCAC
1 CTTCATCGTCAG
* *
33363 CATCATCGTCAT
1 CTTCATCGTCAG
* * *
33375 CATCTTCGTCAT
1 CTTCATCGTCAG
33387 CTTCATCGTCAG
1 CTTCATCGTCAG
33399 CTTCATC
1 CTTCATC
33406 TTCATTGACC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 48 1.00
ACGTcount: A:0.18, C:0.36, G:0.10, T:0.36
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:33404 original size:18 final size:18
Alignment explanation
Indices: 33309--33410 Score: 60
Period size: 18 Copynumber: 5.7 Consensus size: 18
33299 TTTGGATCAT
* * *
33309 CATCATCATCATCATCAT
1 CATCATCTTCATCGTCAC
* * * *
33327 CATCGTCATCATCTTCAT
1 CATCATCTTCATCGTCAC
* *
33345 CGTCAGCTTCATCGTCAC
1 CATCATCTTCATCGTCAC
* * **
33363 CATCATCGTCATCATCTT
1 CATCATCTTCATCGTCAC
* *
33381 CGTCATCTTCATCGTCAG
1 CATCATCTTCATCGTCAC
*
33399 CTTCATCTTCAT
1 CATCATCTTCAT
33411 TGACCGCTTG
Statistics
Matches: 64, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.36
Consensus pattern (18 bp):
CATCATCTTCATCGTCAC
Found at i:33410 original size:6 final size:6
Alignment explanation
Indices: 33304--33393 Score: 81
Period size: 6 Copynumber: 15.0 Consensus size: 6
33294 ACTTGTTTGG
* * * *
33304 ATCATC ATCATC ATCATC ATCATC ATCGTC ATCATC TTCATC GTCAGC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * * * *
33352 TTCATC GTCACC ATCATC GTCATC ATCTTC GTCATC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
33394 GTCAGCTTCA
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (6 bp):
ATCATC
Found at i:35353 original size:200 final size:200
Alignment explanation
Indices: 34874--35649 Score: 1473
Period size: 200 Copynumber: 3.9 Consensus size: 200
34864 TTTAAATTAG
34874 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
34939 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
35004 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
35068 AAAAA
196 AAAAA
35073 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
35138 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
35203 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
35268 AAAAA
196 AAAAA
*
35273 TATCGACACAAACTAAAAAAATGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
35338 CTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
35403 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
35468 AAAAA
196 AAAAA
35473 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
35538 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTTGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* * * *
35603 TCAACACTTTTTATATATGGTTCAACACTTTATTGTTGCACCCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
35650 GGCCATATTG
Statistics
Matches: 566, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
199 136 0.24
200 430 0.76
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAA
Found at i:35792 original size:19 final size:19
Alignment explanation
Indices: 35768--35812 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
35758 TTATATTCAC
35768 ATACAAAAATATAAATCGT
1 ATACAAAAATATAAATCGT
* *
35787 ATACAAAATTATAAATCTT
1 ATACAAAAATATAAATCGT
35806 ATACAAA
1 ATACAAA
35813 TTAACCCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (19 bp):
ATACAAAAATATAAATCGT
Found at i:37643 original size:33 final size:33
Alignment explanation
Indices: 37606--37671 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
37596 CATCTTAATA
*
37606 TCACCCCTTAACACCCCAACTTATTTCACCACT
1 TCACCCCTCAACACCCCAACTTATTTCACCACT
* * *
37639 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTATTTCACCACT
37672 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTATTTCACCACT
Found at i:37732 original size:21 final size:21
Alignment explanation
Indices: 37707--37772 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
37697 CCCCTTATGC
* *
37707 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
37728 CTCTCAAAGTTTCTCTTCGACT
1 CTCTC-AAGTTTCTCTTCGACT
*
37750 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
37771 CT
1 CT
37773 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 23 0.56
22 18 0.44
ACGTcount: A:0.18, C:0.30, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:39824 original size:24 final size:24
Alignment explanation
Indices: 39787--39839 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
39777 CCGTTCTATC
39787 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
39811 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
39835 TATTT
1 TATTT
39840 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:40050 original size:20 final size:20
Alignment explanation
Indices: 39987--40041 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
39977 GGTATCCTTT
39987 TACCGGTTTTATCATTTTGA
1 TACCGGTTTTATCATTTTGA
40007 TACCGGTTTTATCATTTTGA
1 TACCGGTTTTATCATTTTGA
40027 TACCGGTTTTATCAT
1 TACCGGTTTTATCAT
40042 ATTTTTACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (20 bp):
TACCGGTTTTATCATTTTGA
Found at i:40292 original size:161 final size:162
Alignment explanation
Indices: 40027--40364 Score: 507
Period size: 161 Copynumber: 2.1 Consensus size: 162
40017 ATCATTTTGA
* * *
40027 TACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCG
1 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
* * * *
40092 ACACATTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCTATCCTTATA-TAAAG
66 ACACATTATAAGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
* * *
40156 TATCGACACTTTTAATATATCCGGTAACGTTT
131 TACCGACACTTTAAATATATCCGGTAACGCTT
*
40188 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCG
1 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
* ** * *
40253 ACACTTTATAAGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTTTCGATCCTTATATTAAAG
66 ACACATTATAAGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
* *
40318 TACCGACACTTTAAATGTATCCGGTAGCGCTT
131 TACCGACACTTTAAATATATCCGGTAACGCTT
40350 TACCGGTTTTATCAT
1 TACCGGTTTTATCAT
40365 TTCTATACCG
Statistics
Matches: 158, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
161 111 0.70
162 47 0.30
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (162 bp):
TACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
ACACATTATAAGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
TACCGACACTTTAAATATATCCGGTAACGCTT
Found at i:51223 original size:28 final size:29
Alignment explanation
Indices: 51183--51240 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
51173 TCCAACAAAC
51183 TGGTGGATTCAACTG-AACGCATTTTCTT
1 TGGTGGATTCAACTGAAACGCATTTTCTT
51211 TGGTGGATTCAACTGAAACGCATTTTCTT
1 TGGTGGATTCAACTGAAACGCATTTTCTT
51240 T
1 T
51241 TTCAGATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (29 bp):
TGGTGGATTCAACTGAAACGCATTTTCTT
Found at i:51989 original size:76 final size:76
Alignment explanation
Indices: 51863--52020 Score: 298
Period size: 76 Copynumber: 2.1 Consensus size: 76
51853 ACTTTTATAG
*
51863 TATTTTAACTTAATTAATGATAAATTGTCTATTTGGTCACCCACCTATTCTCGTGTTTTTGTTTT
1 TATTTTAACTTAATTAATGATAAATTGCCTATTTGGTCACCCACCTATTCTCGTGTTTTTGTTTT
51928 TGTTATCCAAC
66 TGTTATCCAAC
*
51939 TATTTTAACTTAATTAATGATAAATTGCCTATTTGGTCACCCACCTATTCTCTTGTTTTTGTTTT
1 TATTTTAACTTAATTAATGATAAATTGCCTATTTGGTCACCCACCTATTCTCGTGTTTTTGTTTT
52004 TGTTATCCAAC
66 TGTTATCCAAC
52015 TATTTT
1 TATTTT
52021 TTTTAAAATC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.50
Consensus pattern (76 bp):
TATTTTAACTTAATTAATGATAAATTGCCTATTTGGTCACCCACCTATTCTCGTGTTTTTGTTTT
TGTTATCCAAC
Found at i:55308 original size:52 final size:53
Alignment explanation
Indices: 55221--55362 Score: 191
Period size: 52 Copynumber: 2.7 Consensus size: 53
55211 TCCTGAGCCA
* *
55221 GGGGTGTATCGGTACATC-AGACAGTGTATCGGTACACAAAATGCATTCGATGTT
1 GGGGTGTATCGATA-ATCAAG-TAGTGTATCGGTACACAAAATGCATTCGATGTT
* *
55275 GGGGGTGTATCGAT-ATCAAG-AGTGTATCAGTACACTAAATGCATTCGATGTT
1 -GGGGTGTATCGATAATCAAGTAGTGTATCGGTACACAAAATGCATTCGATGTT
55327 GGGGTGTATCGATACATCAAGTAGTGTATCGGTACA
1 GGGGTGTATCGATA-ATCAAGTAGTGTATCGGTACA
55363 TCTCATTGTA
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
51 13 0.16
52 30 0.38
53 9 0.11
54 15 0.19
55 12 0.15
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
GGGGTGTATCGATAATCAAGTAGTGTATCGGTACACAAAATGCATTCGATGTT
Found at i:57437 original size:12 final size:13
Alignment explanation
Indices: 57415--57452 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
57405 TCCTAATGGG
*
57415 CAATATTTGAAAA
1 CAATGTTTGAAAA
*
57428 CTAT-TTTGAAAA
1 CAATGTTTGAAAA
57440 CAATGTTTGAAAA
1 CAATGTTTGAAAA
57453 ATTATAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (13 bp):
CAATGTTTGAAAA
Found at i:57913 original size:20 final size:21
Alignment explanation
Indices: 57888--57942 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
57878 AAACCCGATG
* *
57888 AGTGTATTGGTACACTA-CAT
1 AGTGTATCGATACACTATCAT
57908 AGTGTATCGATACACTATCAT
1 AGTGTATCGATACACTATCAT
57929 AGTGTATCGATACA
1 AGTGTATCGATACA
57943 TAGCGAGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (21 bp):
AGTGTATCGATACACTATCAT
Found at i:59153 original size:13 final size:14
Alignment explanation
Indices: 59128--59157 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
59118 AATTTATCTA
59128 TTACTTATTTCACT
1 TTACTTATTTCACT
59142 TTACTT-TTTCACT
1 TTACTTATTTCACT
59155 TTA
1 TTA
59158 AAAATAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (14 bp):
TTACTTATTTCACT
Found at i:61551 original size:16 final size:17
Alignment explanation
Indices: 61526--61560 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
61516 TACTATTCAC
61526 GTGAAAAGTG-AATTTT
1 GTGAAAAGTGAAATTTT
*
61542 GTGAATAGTGAAATTTT
1 GTGAAAAGTGAAATTTT
61559 GT
1 GT
61561 CGGCGATACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (17 bp):
GTGAAAAGTGAAATTTT
Found at i:68702 original size:55 final size:54
Alignment explanation
Indices: 68642--68764 Score: 165
Period size: 55 Copynumber: 2.2 Consensus size: 54
68632 CATCAGACAG
* * *
68642 TGTATCGGTACATAAAATGCATTCGATATTGGGGGTGTATTGATACATTAAGGAC
1 TGTATCGGTACAT-AAATGCATTCCATATTGGGGGTGTATCGATACATCAAGGAC
* * *
68697 TGTATCGGTACACTAAATGCATTCCATGTTGGGGGTGTATCGATACATCAAGTAG
1 TGTATCGGTACA-TAAATGCATTCCATATTGGGGGTGTATCGATACATCAAGGAC
*
68752 TGTATCGATACAT
1 TGTATCGGTACAT
68765 CTCATCGTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
54 1 0.02
55 58 0.97
56 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (54 bp):
TGTATCGGTACATAAATGCATTCCATATTGGGGGTGTATCGATACATCAAGGAC
Found at i:69652 original size:23 final size:24
Alignment explanation
Indices: 69591--69640 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
69581 TCGAAAATAA
**
69591 TAAATTAAAAAGTTAGTAAATTAG
1 TAAATTACCAAGTTAGTAAATTAG
**
69615 TAAATTACCAA-TTAGTATGTTAG
1 TAAATTACCAAGTTAGTAAATTAG
69638 TAA
1 TAA
69641 GTTAGAAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (24 bp):
TAAATTACCAAGTTAGTAAATTAG
Found at i:70167 original size:88 final size:88
Alignment explanation
Indices: 70046--70235 Score: 233
Period size: 88 Copynumber: 2.2 Consensus size: 88
70036 TCTATGATAA
* *
70046 AATCTAGCAAAAGAGTG-ATGTTGATCCAACTCCTTATGTGATGGAATCAAACAGAATG-GTAAT
1 AATCTAGCAAAA-AGGGCATGTTGATCCAACTCCTTATGTGATGGAATCAAACA-AAAGAGTAAT
* *
70109 GTTGCTCCAACTCTTTATGTGATGG
64 GATGCTCCAACTCCTTATGTGATGG
* * * * * *
70134 AA-CTGAGCAAAAAGGGCATGTTGATCGACCTCCTTCTGTGATGGAATCGAACAAAAGATTGATG
1 AATCT-AGCAAAAAGGGCATGTTGATCCAACTCCTTATGTGATGGAATCAAACAAAAGAGTAATG
*
70198 ATGGTCCAACTCCTTATGTGATGG
65 ATGCTCCAACTCCTTATGTGATGG
70222 AATCTAGCAAAAAG
1 AATCTAGCAAAAAG
70236 AAAACAATCT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
87 8 0.09
88 77 0.89
89 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (88 bp):
AATCTAGCAAAAAGGGCATGTTGATCCAACTCCTTATGTGATGGAATCAAACAAAAGAGTAATGA
TGCTCCAACTCCTTATGTGATGG
Found at i:70233 original size:44 final size:44
Alignment explanation
Indices: 70046--70233 Score: 193
Period size: 44 Copynumber: 4.3 Consensus size: 44
70036 TCTATGATAA
70046 AATCTAGCAAAAGAGTGATGTTGATCCAACTCCTTATGTGATGG
1 AATCTAGCAAAAGAGTGATGTTGATCCAACTCCTTATGTGATGG
* * * * * *
70090 AATCAAACAGAATG-GTAATGTTGCTCCAACTCTTTATGTGATGG
1 AATCTAGCA-AAAGAGTGATGTTGATCCAACTCCTTATGTGATGG
* * * *
70134 AA-CTGAGCAAAA-AGGGCATGTTGATCGACCTCCTTCTGTGATGG
1 AATCT-AGCAAAAGAGTG-ATGTTGATCCAACTCCTTATGTGATGG
* * * * *
70178 AATCGAACAAAAGATTGATGATGGTCCAACTCCTTATGTGATGG
1 AATCTAGCAAAAGAGTGATGTTGATCCAACTCCTTATGTGATGG
70222 AATCTAGCAAAA
1 AATCTAGCAAAA
70234 AGAAAACAAT
Statistics
Matches: 111, Mismatches: 27, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
43 4 0.04
44 101 0.91
45 6 0.05
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTAGCAAAAGAGTGATGTTGATCCAACTCCTTATGTGATGG
Found at i:70455 original size:44 final size:44
Alignment explanation
Indices: 70407--70578 Score: 132
Period size: 44 Copynumber: 3.9 Consensus size: 44
70397 TAAAATCTAG
* *
70407 CAAAAAAGTGACGATGATCCAACTCCTTATGTGATGGAATAGAA
1 CAAAAAAGTGATGATGATCCAACTCCTTATGTGATGGAATCGAA
** * ** * * * *
70451 CAAAATGGTGATGCTGGGCTAACTCCTTATGTGATGAAACCGAG
1 CAAAAAAGTGATGATGATCCAACTCCTTATGTGATGGAATCGAA
* * ** * * *
70495 C-AAAAAG-GCATGTTGATCCACCTTTTTCTATTATGGAATCGAA
1 CAAAAAAGTG-ATGATGATCCAACTCCTTATGTGATGGAATCGAA
* **
70538 CAAAAGAGTGATGATGATCCAACTATTTATGTGATGGAATC
1 CAAAAAAGTGATGATGATCCAACTCCTTATGTGATGGAATC
70579 TAGAAAAAAA
Statistics
Matches: 92, Mismatches: 33, Indels: 6
0.70 0.25 0.05
Matches are distributed among these distances:
42 1 0.01
43 26 0.28
44 64 0.70
45 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (44 bp):
CAAAAAAGTGATGATGATCCAACTCCTTATGTGATGGAATCGAA
Found at i:70717 original size:349 final size:350
Alignment explanation
Indices: 69902--70746 Score: 1062
Period size: 354 Copynumber: 2.4 Consensus size: 350
69892 TACCACTAGA
* * * * *
69902 AATGTTGATCCACCTCATTCTGTGATGGAAT-AGCCAA-AGTAGAACAA-TATCTTCTCATTAGG
1 AATGTTGATCCAACTCCTTATGTGATGG-ATGAGCCAAGACT-GAACAAGT-TCTTCTCATTATG
* * * *
69964 AACTTATTCTCCCTCATCAGACGAGTTCTTCTCATTATGAACCTTTCAATTGGGAATGTTGATAC
63 AACTTATTCTCCCTCATCGGACGAGTTCTTCTCATTATGAACATTT-TATT-GGAATGTTGATCC
* * * *
70029 ACCTCATTCTATGATAAAATCTAGCAAAAGAGTGATGTTGATCCAACTCCTTATGTGATGGAATC
126 ACCTCCTTCTATGATAAAATCTAGCAAAAAAGTGACGATGATCCAACTCCTTATGTGATGGAATC
* * * * * *
70094 AAACAGAATGGTAATGTTGCTCCAACTCTTTATGTGATGGAACTGAGCAAAAAGGGCATGTTGAT
191 AAACAAAATGGTAATGCTGCGCCAACTCCTTATGTGATGAAACCGAGCAAAAAGGGCATGTTGAT
* * * * *
70159 CGACCTCCTTCTGTGATGGAATCGAACAAAAGATTGATGATGGTCCAACTCCTTATGTGATGGAA
256 CCACCTCCTTCTATGATGGAATCGAACAAAAGAGTGATGATGATCCAACTACTTATGTGATGGAA
*
70224 TCTAGCAAAAAGAAAACAATCTCCAGTGAGAT
321 TCTAG--AAAAGAAAACAATATCCAGTGAGAT
* * *
70256 AATGCTT-ATCCAACTCCTTGTGTGATGGATGAGCCAATG-TTAAACAAGTTCTTCTCATTATGA
1 AATG-TTGATCCAACTCCTTATGTGATGGATGAGCCAA-GACTGAACAAGTTCTTCTCATTATGA
* * * * * *
70319 ACTTTTTCTCCCTCATCGAACGAGTTTTTCTTATTATAAACCTTTTTATTAGGAATGTTGATCCA
64 ACTTATTCTCCCTCATCGGACGAGTTCTTCTCATTATGAA-CATTTTATT-GGAATGTTGATCCA
* *
70384 CCACCTTTTATGATAAAATCTAGCAAAAAAGTGACGATGATCCAACTCCTTATGTGATGGAAT-A
127 CCTCCTTCTATGATAAAATCTAGCAAAAAAGTGACGATGATCCAACTCCTTATGTGATGGAATCA
* * *
70448 GAACAAAATGGTGATGCTGGGCTAACTCCTTATGTGATGAAACCGAGCAAAAA-GGCATGTTGAT
192 -AACAAAATGGTAATGCTGCGCCAACTCCTTATGTGATGAAACCGAGCAAAAAGGGCATGTTGAT
** * *
70512 CCACCTTTTTCTATTATGGAATCGAACAAAAGAGTGATGATGATCCAACTATTTATGTGATGGAA
256 CCACCTCCTTCTATGATGGAATCGAACAAAAGAGTGATGATGATCCAACTACTTATGTGATGGAA
70577 TCTAG-AAA-AAAACAATATCCAGTGAGAT
321 TCTAGAAAAGAAAACAATATCCAGTGAGAT
70605 AATGTTGATCCAACTCCTTATGTGATGGATGAGCCAAGACTGAACAAGTTCTTCTCATTATGAAC
1 AATGTTGATCCAACTCCTTATGTGATGGATGAGCCAAGACTGAACAAGTTCTTCTCATTATGAAC
* * *
70670 TTCTTCTCCC-CTATCGGACGAGTTCTTCTCACTATGAATCATTTTATTGAAAGTGTTGATCCAC
66 TTATTCTCCCTC-ATCGGACGAGTTCTTCTCATTATGAA-CATTTTATTGGAA-TGTTGATCCAC
*
70734 CTCCTTCTGTGAT
128 CTCCTTCTATGAT
70747 GGACGAGCCA
Statistics
Matches: 424, Mismatches: 56, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
348 7 0.02
349 135 0.32
350 3 0.01
353 75 0.18
354 196 0.46
355 8 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (350 bp):
AATGTTGATCCAACTCCTTATGTGATGGATGAGCCAAGACTGAACAAGTTCTTCTCATTATGAAC
TTATTCTCCCTCATCGGACGAGTTCTTCTCATTATGAACATTTTATTGGAATGTTGATCCACCTC
CTTCTATGATAAAATCTAGCAAAAAAGTGACGATGATCCAACTCCTTATGTGATGGAATCAAACA
AAATGGTAATGCTGCGCCAACTCCTTATGTGATGAAACCGAGCAAAAAGGGCATGTTGATCCACC
TCCTTCTATGATGGAATCGAACAAAAGAGTGATGATGATCCAACTACTTATGTGATGGAATCTAG
AAAAGAAAACAATATCCAGTGAGAT
Found at i:70811 original size:116 final size:115
Alignment explanation
Indices: 70605--70958 Score: 442
Period size: 116 Copynumber: 3.1 Consensus size: 115
70595 CCAGTGAGAT
* *
70605 AATGTTGATCCAACTCCTTATGTGATGGATGAGCCAAGACTGAACAAGTTCTTCTCATTATGAAC
1 AATGTTGATCCAACTCCTTCTGTGATGGATGAGCCAAG-GTGAACAAGTTCTTCTCATTATGAAC
* * * ** *
70670 TTCTTCTCCC-CTATCGGACGAGTTCTTCTCACTATGAATCATTTTA-TTGA
65 TTCTTCTCCCTC-ATCGAATGAGTTCTTCTCACTATGAACCATTCCACTGGA
* * *
70720 AAGTGTTGATCCACCTCCTTCTGTGATGGACGAGCCAAGGTAGAACAAGTTCTTCTCATTAGGAA
1 AA-TGTTGATCCAACTCCTTCTGTGATGGATGAGCCAAGGT-GAACAAGTTCTTCTCATTATGAA
* *
70785 TTTCTTCTCCCTCATCGAATGAGTTCTTCTCATTATGAACCATTCCACTGGA
64 CTTCTTCTCCCTCATCGAATGAGTTCTTCTCACTATGAACCATTCCACTGGA
* * *
70837 AATGTTGATCCAACTCCTTCTGTTATAGATGAGCCAAGGTTGAACAAGTTCTTCTCATTATTAAC
1 AATGTTGATCCAACTCCTTCTGTGATGGATGAGCCAAGG-TGAACAAGTTCTTCTCATTATGAAC
* * * * * * *
70902 TTATTCTCTCTCATCGAATGAGTTCTTTTTATTATGAACCCTTCCACTTGA
65 TTCTTCTCCCTCATCGAATGAGTTCTTCTCACTATGAACCATTCCACTGGA
70953 AATGTT
1 AATGTT
70959 TGGTCTATCT
Statistics
Matches: 208, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
115 3 0.01
116 198 0.95
117 7 0.03
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (115 bp):
AATGTTGATCCAACTCCTTCTGTGATGGATGAGCCAAGGTGAACAAGTTCTTCTCATTATGAACT
TCTTCTCCCTCATCGAATGAGTTCTTCTCACTATGAACCATTCCACTGGA
Found at i:71727 original size:6 final size:6
Alignment explanation
Indices: 71718--71776 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
71708 CAACATCAAC
* * * * *
71718 ATCATT ATCATT ATTATG ATC-TCT ATCATT ATCAAT ATCAAT ATCAAT
1 ATCATT ATCATT ATCATT ATCAT-T ATCATT ATCATT ATCATT ATCATT
71766 ATCATT ATCAT
1 ATCATT ATCAT
71777 GTAATACATT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
5 1 0.02
6 43 0.96
7 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.02, T:0.44
Consensus pattern (6 bp):
ATCATT
Found at i:71762 original size:12 final size:12
Alignment explanation
Indices: 71712--71775 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
71702 CCTTATCAAC
*
71712 ATCAACATCATT
1 ATCAATATCATT
* * *
71724 ATCATTATTATG
1 ATCAATATCATT
**
71736 ATCTCTATCATT
1 ATCAATATCATT
*
71748 ATCAATATCAAT
1 ATCAATATCATT
71760 ATCAATATCATT
1 ATCAATATCATT
71772 ATCA
1 ATCA
71776 TGTAATACAT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.41
Consensus pattern (12 bp):
ATCAATATCATT
Found at i:79456 original size:7 final size:7
Alignment explanation
Indices: 79441--79478 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
79431 TACAAACGTA
79441 AAAATGC
1 AAAATGC
*
79448 AAGATGC
1 AAAATGC
*
79455 AAAATAC
1 AAAATGC
79462 AAAATGC
1 AAAATGC
79469 -AAATGC
1 AAAATGC
79475 AAAA
1 AAAA
79479 GGTGTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAATGC
Found at i:83579 original size:13 final size:13
Alignment explanation
Indices: 83561--83608 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
83551 ATCAGAATAA
83561 AAAGAGAAAAAAC
1 AAAGAGAAAAAAC
83574 AAAGAGAAAATAA-
1 AAAGAGAAAA-AAC
83587 AAAGAGAAAAAAC
1 AAAGAGAAAAAAC
83600 AAAG-GAAAA
1 AAAGAGAAAA
83609 TTGAAGAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.21
13 24 0.73
14 2 0.06
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAAAAC
Found at i:83588 original size:26 final size:25
Alignment explanation
Indices: 83556--83609 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 25
83546 ATTCAATCAG
83556 AATAAAAAGAGAAAAAACAAAGAGAA
1 AATAAAAAGAGAAAAAACAAAG-GAA
83582 AATAAAAAGAGAAAAAACAAAGGAA
1 AATAAAAAGAGAAAAAACAAAGGAA
83607 AAT
1 AAT
83610 TGAAGAAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.76, C:0.04, G:0.15, T:0.06
Consensus pattern (25 bp):
AATAAAAAGAGAAAAAACAAAGGAA
Found at i:85320 original size:37 final size:38
Alignment explanation
Indices: 85259--85333 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
85249 GAAGATTTTA
* * *
85259 TCTCGCTTGAGATAGCTTCCCTTGAAACA-AAATATTG
1 TCTCCCTTGAGACAGCTTCCCTTGAAACATAAACATTG
* *
85296 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
1 TCTCCCTTGAGACAGCTTCCCTTGAAACATAAACATTG
85334 AAAACATTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 25 0.78
38 7 0.22
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (38 bp):
TCTCCCTTGAGACAGCTTCCCTTGAAACATAAACATTG
Found at i:85387 original size:36 final size:37
Alignment explanation
Indices: 85340--85531 Score: 128
Period size: 36 Copynumber: 5.5 Consensus size: 37
85330 ATTGAAAACA
* * *
85340 TTTCCCTTGAAACG-AATTTTGTCTATCTTGAGATAG
1 TTTCCCTTGAAACGAAATTTTGTCTACCTTAAGACAG
*
85376 TTTCCCTTGAAACGAAATTTTGTCTCCCTTAAGACAG
1 TTTCCCTTGAAACGAAATTTTGTCTACCTTAAGACAG
* * *
85413 TTTCTCTTGAAAC-AAA-------AACATTGAA-ATCA-
1 TTTCCCTTGAAACGAAATTTTGTCTACCTT-AAGA-CAG
* * * *
85442 TTTCACTTGAAA-TAAATTTTGTAT-CTCTTGAGACAG
1 TTTCCCTTGAAACGAAATTTTGTCTAC-CTTAAGACAG
*
85478 TTTCCCTTGAAAC-AAATTTTGTCT-CTCTTGAGACAG
1 TTTCCCTTGAAACGAAATTTTGTCTAC-CTTAAGACAG
85514 TTTCCCTTGAAAC-AAATT
1 TTTCCCTTGAAACGAAATT
85532 ATTTGAATAT
Statistics
Matches: 127, Mismatches: 14, Indels: 30
0.74 0.08 0.18
Matches are distributed among these distances:
29 18 0.14
30 4 0.03
35 4 0.03
36 71 0.56
37 30 0.24
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (37 bp):
TTTCCCTTGAAACGAAATTTTGTCTACCTTAAGACAG
Found at i:85432 original size:102 final size:101
Alignment explanation
Indices: 85264--85529 Score: 397
Period size: 102 Copynumber: 2.6 Consensus size: 101
85254 TTTTATCTCG
* * *
85264 CTTGAGATAGCTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
1 CTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAAA
* * *
85329 CATTGAAAACATTTCCCTTGAAACGAATTTTGTCTAT
65 CATTGAAAACATTTCACTTGAAACAAATTTTGTATAT
*
85366 CTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACAAAAA
1 CTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAAA
* * *
85431 CATTGAAATCATTTCACTTGAAATAAATTTTGTATCT
65 CATTGAAAACATTTCACTTGAAACAAATTTTGTATAT
* * *
85468 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 CTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAA
85530 TTATTTGAAT
Statistics
Matches: 149, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 36 0.24
102 113 0.76
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (101 bp):
CTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAAAC
ATTGAAAACATTTCACTTGAAACAAATTTTGTATAT
Found at i:85553 original size:101 final size:99
Alignment explanation
Indices: 85253--85610 Score: 376
Period size: 102 Copynumber: 3.5 Consensus size: 99
85243 TAAAAAGAAG
* * * * *
85253 ATTTTATCTCGCTTGAGATAGCTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* * *
85318 TGAAACATAAACATTGAAAACATTTCCCTTGAAACGA
66 TGAAACA-AAA-ATTG-AAATATTTCACTTGAAACAA
* * * *
85355 ATTTTGTCTATCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTCCCTTAAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
85420 TGAAACAAAAACATTGAAATCATTTCACTTGAAATAA
66 TGAAAC-AAAA-ATTGAAAT-ATTTCACTTGAAACAA
* * *
85457 ATTTTGTATCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* * * *
85521 TGAAACAAATTATTTGAATATGTTTTATTTGAAACAA
66 TGAAACAAA--AATTGAA-ATATTTCACTTGAAACAA
* * ** * * * *
85558 ATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGA
85611 AACAAATTTC
Statistics
Matches: 221, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
100 3 0.01
101 81 0.37
102 136 0.62
103 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (99 bp):
ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
TGAAACAAAAATTGAAATATTTCACTTGAAACAA
Found at i:85618 original size:123 final size:123
Alignment explanation
Indices: 85483--85706 Score: 340
Period size: 123 Copynumber: 1.8 Consensus size: 123
85473 GACAGTTTCC
* * * * *
85483 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTATTTGAATATGTTTTA
1 CTTGAAACAAATTTCGTCTCTCATGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCA
** *
85548 TTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
66 CCTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
* * *
85606 CTTGAAACAAATTTCGTCTCTCATGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCC
1 CTTGAAACAAATTTCGTCTCTCATGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCA
*
85671 CCTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCT
66 CCTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCT
85707 CTTAAAACAC
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
123 89 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (123 bp):
CTTGAAACAAATTTCGTCTCTCATGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCA
CCTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
Found at i:85715 original size:65 final size:67
Alignment explanation
Indices: 85610--85772 Score: 206
Period size: 65 Copynumber: 2.4 Consensus size: 67
85600 GTCTCTCTTG
* * * * *
85610 AAACAAATTTCGTCTCTCATGAGACAGTTTCCCTT-GAA-ACAAAATCTT-TGAATTTATTTCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACACAAAATCTTCAG-ATTTATTTCCC
85672 CTA
65 CTA
* *
85675 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACACAAAATCTTCAGATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACACAAAATCTTCAGATTTATTTCCCC
85740 TA
66 TA
* *
85742 AAACAAAATTTTGTTTCCCTTGAGACCGTTT
1 AAAC-AAATTTTGTCTCCCTTGAGACAGTTT
85773 TCATGAAACA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 31 0.36
66 2 0.02
67 27 0.32
68 25 0.29
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACACAAAATCTTCAGATTTATTTCCCC
TA
Found at i:85782 original size:67 final size:67
Alignment explanation
Indices: 85610--85782 Score: 192
Period size: 67 Copynumber: 2.6 Consensus size: 67
85600 GTCTCTCTTG
* * * * ** *
85610 AAACAAATTTCGTCTCTCATGAGACAGTTTC-CCTTGAA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATAAAACACAAAATCTTAGAATTTATTTCCCC
85673 TA
66 TA
*
85675 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACACAAAATCTTCAG-ATTTATTTCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATAAAACACAAAATCTT-AGAATTTATTTCCC
*
85739 TTA
65 CTA
* * *
85742 AAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACA
1 AAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCATAAAACA
85783 ACATATATCT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
65 28 0.30
66 4 0.04
67 35 0.38
68 25 0.27
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATAAAACACAAAATCTTAGAATTTATTTCCCC
TA
Found at i:86258 original size:14 final size:14
Alignment explanation
Indices: 86239--86265 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
86229 TCGAAGCCAA
86239 ACTTCATAATAAAG
1 ACTTCATAATAAAG
86253 ACTTCATAATAAA
1 ACTTCATAATAAA
86266 TGGGTCATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.30
Consensus pattern (14 bp):
ACTTCATAATAAAG
Found at i:86709 original size:110 final size:110
Alignment explanation
Indices: 86511--86768 Score: 330
Period size: 110 Copynumber: 2.4 Consensus size: 110
86501 GTTTCCCAGT
* * * *
86511 TTCAGAGCCAATTTCAACTTCACAGTGAGGGATATTGGACTCAAGACATCACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
*
86576 CAACGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCA
66 CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA
* * *
86621 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACCCAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* * *
86686 CAGCGAAGGGGCGACTGGCTGTCAACAAACAA-TTTCCCAG-TTC-
66 CAACGAAGGGGCGACTGACTGTCAACAAACAACTTT-TCAGTTTCA
* * *
86729 --CATAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
1 TTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGAACTC
86769 GGAACAATAC
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
105 1 0.01
106 34 0.26
109 6 0.05
110 90 0.69
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA
Found at i:88011 original size:2 final size:2
Alignment explanation
Indices: 88006--88070 Score: 105
Period size: 2 Copynumber: 33.0 Consensus size: 2
87996 TTTACTTTAG
* *
88006 TA TA TA TA TA TA TA TA TA TA TA TT TA GA T- 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
88047 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
88071 AATTTTTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:88139 original size:37 final size:36
Alignment explanation
Indices: 88018--88168 Score: 103
Period size: 37 Copynumber: 4.1 Consensus size: 36
88008 TATATATATA
* * * * *
88018 TATATATATATTTAGATTATATATATATATATATATAT
1 TATATATATATATATATTATATTTATTTTTA-AT-TAT
* * * *
88056 ATATATATATATATAAATT-T-TTTATTATCAGTT-T
1 -TATATATATATATATATTATATTTATTTTTAATTAT
*
88090 TATTAATTTATATATATATTTACTATTT-TTTTTAATTAT
1 TA-T-ATATATATATATA-TTA-TATTTATTTTTAATTAT
*
88129 TATATATATATATATATTATTTTTACTTTTTAATTAT
1 TATATATATATATATATTATATTTA-TTTTTAATTAT
88166 TAT
1 TAT
88169 TTTATTTATT
Statistics
Matches: 88, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
33 2 0.02
34 2 0.02
35 16 0.18
36 6 0.07
37 31 0.35
38 9 0.10
39 22 0.25
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (36 bp):
TATATATATATATATATTATATTTATTTTTAATTAT
Found at i:88188 original size:18 final size:19
Alignment explanation
Indices: 88165--88222 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
88155 TTTTTAATTA
88165 TTATTT-TATTTATTTGTT-
1 TTATTTATATTTATTT-TTC
*
88183 TTATTTATATTTCTTTTTC
1 TTATTTATATTTATTTTTC
*
88202 TT-TTTATATTTATTTTAC
1 TTATTTATATTTATTTTTC
88220 TTA
1 TTA
88223 CTATTTTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 24 0.71
19 10 0.29
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (19 bp):
TTATTTATATTTATTTTTC
Found at i:88211 original size:24 final size:23
Alignment explanation
Indices: 88135--88214 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 23
88125 TTATTATATA
* *
88135 TATATATATATTATTTTTACTTTT
1 TATATTTATATT-TTTTTTCTTTT
* *
88159 TA-A-TTATTATTTTATTTATTTGT
1 TATATTTA-TATTTTTTTTCTTT-T
*
88182 TTTATTTATATTTCTTTTTCTTTT
1 TATATTTATATTT-TTTTTCTTTT
88206 TATATTTAT
1 TATATTTAT
88215 TTTACTTACT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
22 9 0.21
23 7 0.16
24 17 0.40
25 10 0.23
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (23 bp):
TATATTTATATTTTTTTTCTTTT
Found at i:88272 original size:27 final size:26
Alignment explanation
Indices: 88238--88288 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
88228 TTATCTTATC
* *
88238 TTTTATTTAATTTGTTTTTTTCTTCA
1 TTTTATTTAATTTATTTATTTCTTCA
*
88264 TTTTAATTTTATTTATTTATTTCTT
1 TTTT-ATTTAATTTATTTATTTCTT
88289 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTATTTAATTTATTTATTTCTTCA
Found at i:90242 original size:21 final size:21
Alignment explanation
Indices: 90216--90290 Score: 150
Period size: 21 Copynumber: 3.6 Consensus size: 21
90206 CTGCCCATGA
90216 CATGGTGCATCGGTGCACTAT
1 CATGGTGCATCGGTGCACTAT
90237 CATGGTGCATCGGTGCACTAT
1 CATGGTGCATCGGTGCACTAT
90258 CATGGTGCATCGGTGCACTAT
1 CATGGTGCATCGGTGCACTAT
90279 CATGGTGCATCG
1 CATGGTGCATCG
90291 ATACCCCTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (21 bp):
CATGGTGCATCGGTGCACTAT
Found at i:90245 original size:13 final size:13
Alignment explanation
Indices: 90227--90287 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
90217 ATGGTGCATC
90227 GGTGCACTATCAT
1 GGTGCACTATCAT
90240 GGTG--C-ATC--
1 GGTGCACTATCAT
90248 GGTGCACTATCAT
1 GGTGCACTATCAT
90261 GGTG--C-ATC--
1 GGTGCACTATCAT
90269 GGTGCACTATCAT
1 GGTGCACTATCAT
90282 GGTGCA
1 GGTGCA
90288 TCGATACCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 20
0.66 0.00 0.34
Matches are distributed among these distances:
8 8 0.21
10 8 0.21
11 8 0.21
13 14 0.37
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.28
Consensus pattern (13 bp):
GGTGCACTATCAT
Found at i:90361 original size:21 final size:21
Alignment explanation
Indices: 90337--90420 Score: 116
Period size: 21 Copynumber: 4.0 Consensus size: 21
90327 CTAGCCGTTG
* *
90337 CAGCCTTCATGCATGGATGCA
1 CAGCCTTGATGCATCGATGCA
**
90358 CAG-CAGGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
90378 CAGCCTTGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
*
90399 CAACCTTGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
90420 C
1 C
90421 TAAGTGCATT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.29
21 39 0.71
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (21 bp):
CAGCCTTGATGCATCGATGCA
Found at i:90384 original size:41 final size:42
Alignment explanation
Indices: 90337--90420 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
90327 CTAGCCGTTG
* *
90337 CAGCCTTCATGCATGGATGCAC-AGCAGGATGCATCGATGCA
1 CAGCCTTCATGCATCGATGCACAACCAGGATGCATCGATGCA
* **
90378 CAGCCTTGATGCATCGATGCACAACCTTGATGCATCGATGCA
1 CAGCCTTCATGCATCGATGCACAACCAGGATGCATCGATGCA
90420 C
1 C
90421 TAAGTGCATT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 20 0.54
42 17 0.46
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (42 bp):
CAGCCTTCATGCATCGATGCACAACCAGGATGCATCGATGCA
Found at i:90465 original size:21 final size:21
Alignment explanation
Indices: 90441--90496 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
90431 CGAAATGGAG
*
90441 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTACAGGGA
*
90462 TGCATGGATGCACTACAGGGG
1 TGCATGGATGCACTACAGGGA
90483 TGCATGGATGCACT
1 TGCATGGATGCACT
90497 TTGACACCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (21 bp):
TGCATGGATGCACTACAGGGA
Found at i:90597 original size:29 final size:29
Alignment explanation
Indices: 90576--90633 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
90566 AAACTTTGAA
90576 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
*
90605 TAAATTCAATTCAAGTCTAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
90634 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:90627 original size:30 final size:30
Alignment explanation
Indices: 90576--90635 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
90566 AAACTTTGAA
90576 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
90605 TAAATTCAATTCAAGTCTAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
90636 CCTTAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:93953 original size:21 final size:21
Alignment explanation
Indices: 93929--94005 Score: 145
Period size: 21 Copynumber: 3.7 Consensus size: 21
93919 CGAAATGGAG
93929 TGCATGGATGCACTGTAGGGA
1 TGCATGGATGCACTGTAGGGA
93950 TGCATGGATGCACTGTAGGGA
1 TGCATGGATGCACTGTAGGGA
*
93971 TGCATGGATGCACTGTAGGGG
1 TGCATGGATGCACTGTAGGGA
93992 TGCATGGATGCACT
1 TGCATGGATGCACT
94006 TTGACACCCT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.25
Consensus pattern (21 bp):
TGCATGGATGCACTGTAGGGA
Found at i:94106 original size:29 final size:29
Alignment explanation
Indices: 94074--94136 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
94064 GAAACCCTTT
94074 AAAATTTTGAATAAATTCAATT-AAGTCCAA
1 AAAATTTTG--TAAATTCAATTCAAGTCCAA
*
94104 AAACATTTTGTAAATTTAATTCAAGTCCAA
1 AAA-ATTTTGTAAATTCAATTCAAGTCCAA
94134 AAA
1 AAA
94137 CCATTTTGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 10 0.33
30 14 0.47
31 6 0.20
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (29 bp):
AAAATTTTGTAAATTCAATTCAAGTCCAA
Found at i:94132 original size:30 final size:30
Alignment explanation
Indices: 94085--94144 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
94075 AAATTTTGAA
94085 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
94114 TAAATTTAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
94145 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 11 0.39
31 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:95721 original size:20 final size:20
Alignment explanation
Indices: 95696--95770 Score: 87
Period size: 20 Copynumber: 3.5 Consensus size: 20
95686 CATTTAAATG
*
95696 ATAAACGAACATAAACGAAC
1 ATAAACGAACGTAAACGAAC
95716 ATAAACGAACGTAAACGAACAC
1 ATAAACGAACGTAAACG-A-AC
*
95738 AAATGAACGAACGTAAACGAAC
1 --ATAAACGAACGTAAACGAAC
*
95760 ACAAACGAACG
1 ATAAACGAACG
95771 AACATAAACG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
20 25 0.53
21 1 0.02
22 4 0.09
23 1 0.02
24 16 0.34
ACGTcount: A:0.56, C:0.21, G:0.15, T:0.08
Consensus pattern (20 bp):
ATAAACGAACGTAAACGAAC
Found at i:95726 original size:24 final size:24
Alignment explanation
Indices: 95699--95828 Score: 118
Period size: 24 Copynumber: 5.8 Consensus size: 24
95689 TTAAATGATA
*
95699 AACGAACATAAACGAACATAAACG
1 AACGAACATAAACGAACACAAACG
*
95723 AACG----TAAACGAACACAAATG
1 AACGAACATAAACGAACACAAACG
*
95743 AACGAACGTAAACGAACACAAACG
1 AACGAACATAAACGAACACAAACG
*
95767 AACGAACATAAACGAACATAATA--
1 AACGAACATAAACGAACACAA-ACG
*
95790 AATG-A-ATAAACGAACACAATA--
1 AACGAACATAAACGAACACAA-ACG
*
95811 ACCGAACATAAACGAACA
1 AACGAACATAAACGAACA
95829 ACACAAACAC
Statistics
Matches: 90, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
20 18 0.20
21 17 0.19
22 2 0.02
23 14 0.16
24 38 0.42
25 1 0.01
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (24 bp):
AACGAACATAAACGAACACAAACG
Found at i:95759 original size:14 final size:13
Alignment explanation
Indices: 95719--95783 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 13
95709 AACGAACATA
95719 AACGAACGTAAACG
1 AACGAAC-TAAACG
*
95733 AAC--AC-AAATG
1 AACGAACTAAACG
95743 AACGAACGTAAACG
1 AACGAAC-TAAACG
95757 AAC--AC-AAACG
1 AACGAACTAAACG
95767 AACGAACATAAACG
1 AACGAAC-TAAACG
95781 AAC
1 AAC
95784 ATAATAAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
10 15 0.37
12 8 0.20
14 18 0.44
ACGTcount: A:0.55, C:0.23, G:0.15, T:0.06
Consensus pattern (13 bp):
AACGAACTAAACG
Found at i:95781 original size:34 final size:34
Alignment explanation
Indices: 95699--95787 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 34
95689 TTAAATGATA
**
95699 AACGAACATAAACGAACATAAACGAACGTAAACG
1 AACGAACATAAACGAACATAAACGAACACAAACG
* * *
95733 AAC-ACAAATGAACGAACGTAAACGAACACAAACG
1 AACGA-ACATAAACGAACATAAACGAACACAAACG
95767 AACGAACATAAACGAACATAA
1 AACGAACATAAACGAACATAA
95788 TAAATGAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
33 1 0.02
34 43 0.96
35 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.13, T:0.08
Consensus pattern (34 bp):
AACGAACATAAACGAACATAAACGAACACAAACG
Found at i:95787 original size:10 final size:10
Alignment explanation
Indices: 95696--95769 Score: 76
Period size: 10 Copynumber: 7.0 Consensus size: 10
95686 CATTTAAATG
95696 ATAAACGAAC
1 ATAAACGAAC
95706 ATAAACGAAC
1 ATAAACGAAC
95716 ATAAACGAAC
1 ATAAACGAAC
*
95726 GTAAACGAACAC
1 ATAAACG-A-AC
*
95738 AAATGAACGAAC
1 --ATAAACGAAC
*
95750 GTAAACGAAC
1 ATAAACGAAC
*
95760 ACAAACGAAC
1 ATAAACGAAC
95770 GAACATAAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
10 42 0.79
11 1 0.02
12 4 0.08
13 1 0.02
14 5 0.09
ACGTcount: A:0.57, C:0.22, G:0.14, T:0.08
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:96107 original size:10 final size:10
Alignment explanation
Indices: 96092--96161 Score: 74
Period size: 10 Copynumber: 7.2 Consensus size: 10
96082 CCTTTGTTCG
96092 AACATAAATA
1 AACATAAATA
*
96102 AACATAAATG
1 AACATAAATA
96112 AACA-AACAT-
1 AACATAA-ATA
*
96121 AA-ATAAACA
1 AACATAAATA
**
96130 AACATAAACG
1 AACATAAATA
96140 AACATAAATA
1 AACATAAATA
96150 AACATAAATA
1 AACATAAATA
96160 AA
1 AA
96162 TGAATATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
8 2 0.04
9 8 0.16
10 41 0.80
ACGTcount: A:0.69, C:0.13, G:0.03, T:0.16
Consensus pattern (10 bp):
AACATAAATA
Found at i:96120 original size:14 final size:14
Alignment explanation
Indices: 96101--96143 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
96091 GAACATAAAT
96101 AAACATAAATGAAC
1 AAACATAAATGAAC
*
96115 AAACATAAATAAAC
1 AAACATAAATGAAC
*
96129 AAACATAAACGAAC
1 AAACATAAATGAAC
96143 A
1 A
96144 TAAATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.67, C:0.16, G:0.05, T:0.12
Consensus pattern (14 bp):
AAACATAAATGAAC
Found at i:96121 original size:24 final size:24
Alignment explanation
Indices: 96092--96193 Score: 109
Period size: 24 Copynumber: 4.2 Consensus size: 24
96082 CCTTTGTTCG
*
96092 AACATAAATAAACATAAATGAACA
1 AACATAAATAAACATAAATAAACA
*
96116 AACATAAATAAACA-AACATAAACG
1 AACATAAATAAACATAA-ATAAACA
**
96140 AACATAAATAAACATAAATAAATG
1 AACATAAATAAACATAAATAAACA
* * *
96164 AATATAAATGAACA-AATATAAACG
1 AACATAAATAAACATAA-ATAAACA
96188 AACATA
1 AACATA
96194 TAATCGAATG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 4 0.06
24 62 0.91
25 2 0.03
ACGTcount: A:0.66, C:0.12, G:0.05, T:0.18
Consensus pattern (24 bp):
AACATAAATAAACATAAATAAACA
Found at i:99100 original size:45 final size:39
Alignment explanation
Indices: 99004--99094 Score: 173
Period size: 39 Copynumber: 2.3 Consensus size: 39
98994 CTTTAAAAGT
99004 AAGCTCAACTCGACTCAAACTCACGAACTAAAAATTATC
1 AAGCTCAACTCGACTCAAACTCACGAACTAAAAATTATC
99043 AAGCTCAACTCGACTCAAACTCACGAACTAAAAATTATC
1 AAGCTCAACTCGACTCAAACTCACGAACTAAAAATTATC
*
99082 AAGTTCAACTCGA
1 AAGCTCAACTCGA
99095 ACTCGAAATA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.43, C:0.27, G:0.09, T:0.21
Consensus pattern (39 bp):
AAGCTCAACTCGACTCAAACTCACGAACTAAAAATTATC
Found at i:108647 original size:30 final size:30
Alignment explanation
Indices: 108613--108672 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
108603 CACCATTCTA
* *
108613 AAATTTCTAGCAATCTAATTCCTTCTTTTC
1 AAATTTCCAGCAACCTAATTCCTTCTTTTC
*
108643 AAATTTCCAGCTACCTAATTCCTTCTTTTC
1 AAATTTCCAGCAACCTAATTCCTTCTTTTC
108673 TTCATCCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.03, T:0.45
Consensus pattern (30 bp):
AAATTTCCAGCAACCTAATTCCTTCTTTTC
Found at i:110520 original size:18 final size:19
Alignment explanation
Indices: 110486--110527 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
110476 CAACTTGCGC
110486 AAAGAAGAAAGGAGAAGAA
1 AAAGAAGAAAGGAGAAGAA
110505 AAAGAAGAAA-GAGAAGAA
1 AAAGAAGAAAGGAGAAGAA
*
110523 GAAGA
1 AAAGA
110528 GTCGGTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
AAAGAAGAAAGGAGAAGAA
Found at i:113369 original size:116 final size:116
Alignment explanation
Indices: 113156--113374 Score: 291
Period size: 116 Copynumber: 1.9 Consensus size: 116
113146 AATCACCAAG
* * * *
113156 GTTGAACAAGTTCTTCTTATTATGAACTTTTTCTCCCTTATCGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGAATGAGTTCTTCTCAATATGAA
* * *
113221 CTCTCTACTGGAAATGTTGATATACCTTCTTCTGTGATAACATCGAACAAA
66 CTCTCTACTGGAAATGTTGATACACCTCCTTCTATGATAACATCGAACAAA
*
113272 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTCGAATTG-GTTCTTCTCAATATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGAA-TGAGTTCTTCTCAATATGA
* * *
113336 AC-CTTTTCACT-GAAATGTTGGTCCACCTCCTTCTATGAT
65 ACTC-TCT-ACTGGAAATGTTGATACACCTCCTTCTATGAT
113375 GGTTGACCCA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
115 1 0.01
116 83 0.93
117 5 0.06
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (116 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGAATGAGTTCTTCTCAATATGAA
CTCTCTACTGGAAATGTTGATACACCTCCTTCTATGATAACATCGAACAAA
Found at i:113761 original size:139 final size:139
Alignment explanation
Indices: 113505--114008 Score: 770
Period size: 139 Copynumber: 3.6 Consensus size: 139
113495 GATAGAAACA
*
113505 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGGTGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
113570 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
66 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
*
113635 GACGAATCG
131 GATGAATCG
113644 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
* * ** ** * *
113709 TTATGAACTCTCCACTGGAAATGTTGATCCCTTGAGTGAAGCATCACAGATTCGA----A-ATGT
66 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
113769 CG-TGAATCG
131 -GATGAATCG
* * *
113778 AG-TGATAGGTCGAATAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTC
1 AGCT-A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-ATCGGATGAGTTCTTC
113842 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATA
63 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATA
*
113907 TGTGATGAATTG
128 TGTGATGAATCG
*
113919 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCATCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
* *
113984 TTATGAACTCTCCATTTGAAATGTT
66 TTATGAACTCTCCACTGGAAATGTT
114009 TATTGGTTCA
Statistics
Matches: 326, Mismatches: 28, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
133 1 0.00
134 13 0.04
135 40 0.12
136 66 0.20
139 153 0.47
140 39 0.12
141 13 0.04
142 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (139 bp):
AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
GATGAATCG
Found at i:114859 original size:54 final size:54
Alignment explanation
Indices: 114745--114913 Score: 161
Period size: 54 Copynumber: 3.2 Consensus size: 54
114735 ATTTACAGTT
** ** *
114745 ATCAAGAAACCCCT-AAAATTAGGCTTAGCTTCTTTCAAAAATTCA---A-AAAA
1 ATCAAGAAACCCCTAAAAACCAGGCTTAATTTCTTT-GAAAATTCATTTAGAAAA
* *
114795 ATCAAGAAACCCCTGAAAACCATGCTTAATTTCTTTGAAAATTCATTT-GAAAA
1 ATCAAGAAACCCCTAAAAACCAGGCTTAATTTCTTTGAAAATTCATTTAGAAAA
** **
114848 CATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAACGTTCATTTAAGAAAA
1 -ATCAAGAAACCCCTAAAAACCAGGCTTAATTTCTTTGAAAATTCATTT-AGAAAA
*
114904 ATAAAGAAAC
1 ATCAAGAAAC
114914 TTTCGAAAAT
Statistics
Matches: 98, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
50 22 0.22
51 16 0.16
53 4 0.04
54 42 0.43
55 9 0.09
56 5 0.05
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.28
Consensus pattern (54 bp):
ATCAAGAAACCCCTAAAAACCAGGCTTAATTTCTTTGAAAATTCATTTAGAAAA
Found at i:114972 original size:24 final size:24
Alignment explanation
Indices: 114940--114990 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
114930 TAGTTTCTTT
114940 AAAACACATTTGAAAAGCGTCAAG
1 AAAACACATTTGAAAAGCGTCAAG
*
114964 AAAACACATTTGAAAAGTGTCAAG
1 AAAACACATTTGAAAAGCGTCAAG
114988 AAA
1 AAA
114991 CTTATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.18
Consensus pattern (24 bp):
AAAACACATTTGAAAAGCGTCAAG
Found at i:115029 original size:55 final size:54
Alignment explanation
Indices: 114983--115232 Score: 304
Period size: 54 Copynumber: 4.6 Consensus size: 54
114973 TTGAAAAGTG
* *
114983 TCAAGAAACTTATAAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCA
* * * * *
115037 TCATGAAACTTCTGAAAATCAAACTTAGTTTCGTTGAAAACTTATTTGAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCA
* *
115091 TCAAGAAACTTCTGAAAACCAGACTTAGTTTCTTTAAAAACTCACTTGAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG-AAATCA
* * * **
115146 TCATGAAACTTCTGAAAATCAGACTTAGCTTCTTTAAAAACT-AATAAAAATACCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAAT--CA
* *
115201 TGTCAAGAAACCTCTGAAAATCAGACGTAGTT
1 --TCAAGAAACTTCTGAAAATCAGACTTAGTT
115233 CCTAAAAACA
Statistics
Matches: 167, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
53 4 0.02
54 90 0.54
55 47 0.28
57 26 0.16
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (54 bp):
TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCA
Found at i:117152 original size:7 final size:7
Alignment explanation
Indices: 117140--117193 Score: 83
Period size: 7 Copynumber: 7.9 Consensus size: 7
117130 ATCTGTCTAT
*
117140 TTTCTTC
1 TTTCTTA
*
117147 TTTCTTC
1 TTTCTTA
117154 TTTCTTA
1 TTTCTTA
117161 TTTCTTA
1 TTTCTTA
117168 TTTCTT-
1 TTTCTTA
117174 TTTCTTA
1 TTTCTTA
117181 TTTCTTA
1 TTTCTTA
117188 TTTCTT
1 TTTCTT
117194 TTTTTTTCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
6 6 0.13
7 39 0.87
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTCTTA
Found at i:117179 original size:20 final size:20
Alignment explanation
Indices: 117140--117212 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
117130 ATCTGTCTAT
*
117140 TTTCTTCTTTCTTCTTTCTTA
1 TTTCTTATTTCTT-TTTCTTA
117161 TTTCTTATTTCTTTTTCTTA
1 TTTCTTATTTCTTTTTCTTA
117181 TTTCTTATTTC-TTTT-TT-
1 TTTCTTATTTCTTTTTCTTA
*
117198 TTTCTTTTTTCTTTT
1 TTTCTTATTTCTTTT
117213 GTTTTTCTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
17 10 0.20
18 5 0.10
19 4 0.08
20 18 0.37
21 12 0.24
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTCTTATTTCTTTTTCTTA
Found at i:117205 original size:7 final size:7
Alignment explanation
Indices: 117139--117238 Score: 64
Period size: 7 Copynumber: 14.1 Consensus size: 7
117129 GATCTGTCTA
117139 TTTTCTT
1 TTTTCTT
*
117146 CTTTCTT
1 TTTTCTT
*
117153 CTTTCTT
1 TTTTCTT
*
117160 ATTTCTT
1 TTTTCTT
*
117167 ATTTC-T
1 TTTTCTT
117173 TTTTCTT
1 TTTTCTT
*
117180 ATTTCTT
1 TTTTCTT
*
117187 ATTTCTT
1 TTTTCTT
117194 TTTT-TT
1 TTTTCTT
117200 TCTTT-TT
1 T-TTTCTT
117207 TCTTT-TGT
1 T-TTTCT-T
*
117215 TTTTCTC
1 TTTTCTT
117222 TTTTCTGT
1 TTTTCT-T
117230 TTTTACTT
1 TTTT-CTT
117238 T
1 T
117239 CTTTTTCTGT
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
6 8 0.10
7 61 0.76
8 9 0.11
9 2 0.03
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (7 bp):
TTTTCTT
Found at i:117232 original size:26 final size:25
Alignment explanation
Indices: 117151--117246 Score: 69
Period size: 24 Copynumber: 3.9 Consensus size: 25
117141 TTCTTCTTTC
*
117151 TTCTTTCTTA-TTTCTTATTTCT-TT
1 TTCTTTTTTACTTTCTT-TTTCTCTT
* *
117175 TTCTTATTT-CTTAT-TTCTTT-TTTT
1 TTCTTTTTTACTT-TCTT-TTTCTCTT
*
117199 TTCTTTTTT-CTTTTGTTTTTCTCTT
1 TTCTTTTTTAC-TTTCTTTTTCTCTT
117224 TTCTGTTTTTACTTTCTTTTTCT
1 TTCT-TTTTTACTTTCTTTTTCT
117247 GTGTGTTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
23 1 0.02
24 29 0.50
25 12 0.21
26 15 0.26
27 1 0.02
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (25 bp):
TTCTTTTTTACTTTCTTTTTCTCTT
Found at i:117239 original size:13 final size:11
Alignment explanation
Indices: 117139--117244 Score: 65
Period size: 11 Copynumber: 9.3 Consensus size: 11
117129 GATCTGTCTA
117139 TTTTC-TTCTT
1 TTTTCTTTCTT
*
117149 TCTTCTTTCTT
1 TTTTCTTTCTT
* *
117160 ATTTCTTATTTCT
1 TTTTCTT-TCT-T
*
117173 TTTTC-TTATT
1 TTTTCTTTCTT
* *
117183 TCTTATTTCTT
1 TTTTCTTTCTT
117194 TTTT-TTTCTT
1 TTTTCTTTCTT
*
117204 TTTTCTTTTGTT
1 TTTTC-TTTCTT
117216 TTTCTCTTTTCTGT
1 TTT-TC-TTTCT-T
117230 TTTTACTTTCTT
1 TTTT-CTTTCTT
117242 TTT
1 TTT
117245 CTGTGTGTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
10 18 0.24
11 19 0.25
12 15 0.20
13 18 0.24
14 5 0.07
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:120132 original size:10 final size:11
Alignment explanation
Indices: 120119--120150 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
120109 ATACAATGAT
120119 ATAAAATAA-A
1 ATAAAATAATA
120129 ATAAAATAATA
1 ATAAAATAATA
120140 A-AAAATAATA
1 ATAAAATAATA
120150 A
1 A
120151 AAGAATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 19 0.90
11 2 0.10
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:120351 original size:11 final size:11
Alignment explanation
Indices: 120335--120364 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
120325 TGGGGATTTC
*
120335 TTTTGAAAAGG
1 TTTTGAAAAGA
120346 TTTTGAAAAGA
1 TTTTGAAAAGA
120357 TTTTGAAA
1 TTTTGAAA
120365 TGTTTTGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (11 bp):
TTTTGAAAAGA
Found at i:131503 original size:16 final size:14
Alignment explanation
Indices: 131482--131527 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
131472 CATTTATATC
131482 TAATTTAATAATAAAA
1 TAATTT-AT-ATAAAA
131498 TAATTTATATAAAA
1 TAATTTATATAAAA
131512 T-A-TTATA-AAAA
1 TAATTTATATAAAA
131523 TAATT
1 TAATT
131528 ATGAGTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
11 5 0.18
12 6 0.21
13 2 0.07
14 7 0.25
15 2 0.07
16 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATTTATATAAAA
Found at i:131519 original size:27 final size:27
Alignment explanation
Indices: 131454--131527 Score: 66
Period size: 27 Copynumber: 2.9 Consensus size: 27
131444 ATATTTAATT
* * *
131454 TAAAA-ATAATAATATAATCATTTATA
1 TAAAATATTATAATAAAATAATTTATA
**
131480 TCTAAT-TTAATAATAAAATAATTTATA
1 TAAAATATT-ATAATAAAATAATTTATA
131507 TAAAATATTAT-A-AAAATAATT
1 TAAAATATTATAATAAAATAATT
131528 ATGAGTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
25 9 0.24
26 5 0.13
27 22 0.58
28 2 0.05
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (27 bp):
TAAAATATTATAATAAAATAATTTATA
Found at i:131528 original size:12 final size:13
Alignment explanation
Indices: 131492--131529 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
131482 TAATTTAATA
131492 ATAAAATAATTTAT
1 ATAAAATAA-TTAT
131506 ATAAAAT-ATTAT
1 ATAAAATAATTAT
131518 A-AAAATAATTAT
1 ATAAAATAATTAT
131530 GAGTATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.22
12 10 0.43
13 1 0.04
14 7 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAAAATAATTAT
Found at i:132689 original size:25 final size:25
Alignment explanation
Indices: 132661--132708 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
132651 CCAAATCATG
*
132661 GTGCCATTACTGGGCACTAATAACA
1 GTGCCATTACTGGGCACCAATAACA
* *
132686 GTGCCATTATTGTGCACCAATAA
1 GTGCCATTACTGGGCACCAATAA
132709 TGCATGTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
GTGCCATTACTGGGCACCAATAACA
Found at i:132918 original size:26 final size:28
Alignment explanation
Indices: 132882--132934 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
132872 TTCTAATAAG
*
132882 TTTAATGTAAATT-TTAT-TTTTTTTAT
1 TTTAATATAAATTATTATATTTTTTTAT
132908 TTTAATATAAATTAATTATATTTTTTT
1 TTTAATATAAATT-ATTATATTTTTTT
132935 TTATTGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
28 4 0.17
29 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTAATATAAATTATTATATTTTTTTAT
Found at i:132953 original size:29 final size:31
Alignment explanation
Indices: 132889--132960 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 31
132879 AAGTTTAATG
* *
132889 TAAATTTTATTTTTTTTATTTTAATATAAAT
1 TAAATTATATTTTTTTTATATTAATATAAAT
* *
132920 T-AATTATATTTTTTTT-TATT-GTATAGAT
1 TAAATTATATTTTTTTTATATTAATATAAAT
132948 TAAATTATATTTT
1 TAAATTATATTTT
132961 CGTGGTTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.19
29 14 0.39
30 14 0.39
31 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (31 bp):
TAAATTATATTTTTTTTATATTAATATAAAT
Found at i:142986 original size:27 final size:27
Alignment explanation
Indices: 142954--143053 Score: 155
Period size: 27 Copynumber: 3.7 Consensus size: 27
142944 ATTAATATCC
*
142954 ATCACATTCATTCAAATATTGATATTA
1 ATCACATTAATTCAAATATTGATATTA
*
142981 ATCACATTAATTCAACTATTGATATTA
1 ATCACATTAATTCAAATATTGATATTA
*
143008 ATCACATTAATTCAACTATTGATATTA
1 ATCACATTAATTCAAATATTGATATTA
* *
143035 ATCACATTCATTAAAATAT
1 ATCACATTAATTCAAATAT
143054 AGCATCAACA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (27 bp):
ATCACATTAATTCAAATATTGATATTA
Found at i:146129 original size:26 final size:25
Alignment explanation
Indices: 146098--146159 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 25
146088 AATATATAAC
*
146098 AATATTATTTTTATAAATAATGATTA
1 AATATTATTATTAT-AATAATGATTA
146124 AATATTATGATATTATAATAATGATTA
1 AATATTAT--TATTATAATAATGATTA
146151 AAT-TTATTA
1 AATATTATTA
146160 CTTCGAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 2 0.06
26 12 0.36
27 14 0.42
28 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (25 bp):
AATATTATTATTATAATAATGATTA
Done.