Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 63 of 120
Found at i:18640055 original size:54 final size:54
Alignment explanation
Indices: 18639973--18640080 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
18639963 AGAAAGCGCC
* *
18639973 GCTAAAGGTCAGAGCAATAGCGGCGCTTATG-GTCAAGCGCCGCTAAAGGTCAGA
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGAG-AAAGCACCGCTAAAGGTCAGA
*
18640027 GCTAAAGGTCAGATCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGA
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGA
18640081 TTAATAGCGG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 49 0.98
55 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.17
Consensus pattern (54 bp):
GCTAAAGGTCAGAGCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGA
Found at i:18640087 original size:41 final size:41
Alignment explanation
Indices: 18640027--18640281 Score: 336
Period size: 41 Copynumber: 6.2 Consensus size: 41
18640017 AAAGGTCAGA
* * *
18640027 GCTAAAGGTCAGATCAATAGCGGCGCTTATGAG-AAAGCACC
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATG-GTCAAGCGCC
**
18640068 GCTAAAGGTCAGATTAATAGCGGCGCTTATGAG-CAAGCGCC
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATG-GTCAAGCGCC
* *
18640109 GCTAAAAGTCGGAGCAATAGCGGCGCTTATGGTCAAGCGCC
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCC
18640150 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCC
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCC
* * **
18640191 GCTAAAGGTCAGACCAATAGCGGCACTTATGGAAAAGCGCC
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCC
* *
18640232 GCTAAATGTCATAGCAATAGCGGCGCTTATGAG-CAAGCGCC
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATG-GTCAAGCGCC
*
18640273 GTTAAAGGT
1 GCTAAAGGT
18640282 TAAAGCAGAA
Statistics
Matches: 192, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 1 0.01
41 190 0.99
42 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (41 bp):
GCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCC
Found at i:18640095 original size:95 final size:95
Alignment explanation
Indices: 18639932--18640203 Score: 324
Period size: 95 Copynumber: 3.0 Consensus size: 95
18639922 AGCAAGCGCC
* *
18639932 GCTAAAGGTCAGAGCAATAGTGGCGCTTATGAGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGC
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGAGCAATAGCGGC
*
18639997 GCTTATG-GTCAAGCGCCGCTAAAGGTCAGA
66 GCTTATGAG-CAAGCGCCGCTAAAAGTCAGA
* **
18640027 GCTAAAGGTCAGATCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGATTAATAGCGGC
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGAGCAATAGCGGC
18640092 GCTTATGAGCAAGCGCCGCTAAAAGT----
66 GCTTATGAGCAAGCGCCGCTAAAAGTCAGA
* *
18640118 -C-----G---GAGCAATAGCGGCGCTTATG-GTCAAGCGCCGCTAAAGGTCAGAGCAATAGCGG
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGAG-AAAGCACCGCTAAAGGTCAGAGCAATAGCGG
*
18640173 CGCTTATG-GTCAAGCGCCGCTAAAGGTCAGA
65 CGCTTATGAG-CAAGCGCCGCTAAAAGTCAGA
18640204 CCAATAGCGG
Statistics
Matches: 158, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
81 2 0.01
82 70 0.44
85 1 0.01
90 1 0.01
95 83 0.53
96 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.17
Consensus pattern (95 bp):
GCTAAAGGTCAGAGCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGAGCAATAGCGGC
GCTTATGAGCAAGCGCCGCTAAAAGTCAGA
Found at i:18640135 original size:136 final size:136
Alignment explanation
Indices: 18639891--18640164 Score: 476
Period size: 136 Copynumber: 2.0 Consensus size: 136
18639881 GAAAAGCGCC
* * *
18639891 GCTAAAGGTCAGATCAATAGCGGCGCTTATGAGCAAGCGCCGCTAAAGGTCAGAGCAATAGTGGC
1 GCTAAAGGTCAGATCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGAGCAATAGCGGC
*
18639956 GCTTATGAGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTAAAG
66 GCTTATGAGAAAGCGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTAAAG
18640021 GTCAGA
131 GTCAGA
**
18640027 GCTAAAGGTCAGATCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGATTAATAGCGGC
1 GCTAAAGGTCAGATCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGAGCAATAGCGGC
* *
18640092 GCTTATGAGCAAGCGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTAAAG
66 GCTTATGAGAAAGCGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTAAAG
18640157 GTCAGA
131 GTCAGA
18640163 GC
1 GC
18640165 AATAGCGGCG
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 130 1.00
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.17
Consensus pattern (136 bp):
GCTAAAGGTCAGATCAATAGCGGCGCTTATGAGAAAGCACCGCTAAAGGTCAGAGCAATAGCGGC
GCTTATGAGAAAGCGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTAAAG
GTCAGA
Found at i:18640149 original size:177 final size:177
Alignment explanation
Indices: 18639850--18640278 Score: 618
Period size: 177 Copynumber: 2.5 Consensus size: 177
18639840 GTAAAGCGCC
*
18639850 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCGCCGCTAAAGGTCAGATCAATAGCGGC
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCACCGCTAAAGGTCAGATCAATAGCGGC
* *
18639915 GCTTATGAGCAAGCGCCGCTAAAGGTCAGAGCAATAGTGGCGCTTATGAGAAAGCGCCGCTAAAG
66 GCTTATGAGCAAGCGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTATGAGAAAGCGCCGCTAAAG
18639980 GTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTAAAGGTCAGA
131 GTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTAAAGGTCAGA
* *
18640027 GCTAAAGGTCAGATCAATAGCGGCGCTTAT-GAGAAAGCACCGCTAAAGGTCAGATTAATAGCGG
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGGA-AAAGCACCGCTAAAGGTCAGATCAATAGCGG
* *
18640091 CGCTTATGAGCAAGCGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTATG-GTCAAGCGCCGCTAA
65 CGCTTATGAGCAAGCGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTATGAG-AAAGCGCCGCTAA
18640155 AGGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTAAAGGTC--A
129 AGGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTAAAGGTCAGA
* * * * *
18640202 G----A---C----CAATAGCGGCACTTATGGAAAAGCGCCGCTAAATGTCATAGCAATAGCGGC
1 GCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCACCGCTAAAGGTCAGATCAATAGCGGC
*
18640256 GCTTATGAGCAAGCGCCGTTAAA
66 GCTTATGAGCAAGCGCCGCTAAA
18640279 GGTTAAAGCA
Statistics
Matches: 235, Mismatches: 14, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
164 64 0.27
165 2 0.01
168 1 0.00
171 1 0.00
175 2 0.01
176 3 0.01
177 162 0.69
ACGTcount: A:0.31, C:0.23, G:0.30, T:0.17
Consensus pattern (177 bp):
GCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCACCGCTAAAGGTCAGATCAATAGCGGC
GCTTATGAGCAAGCGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTATGAGAAAGCGCCGCTAAAG
GTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTAAAGGTCAGA
Found at i:18640176 original size:24 final size:24
Alignment explanation
Indices: 18640144--18640214 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
18640134 CTTATGGTCA
*
18640144 AGCGCCGCTAAAGGTCAGAGCAAT
1 AGCGGCGCTAAAGGTCAGAGCAAT
* *
18640168 AGCGGCGCTTATGGTCA-AGC---
1 AGCGGCGCTAAAGGTCAGAGCAAT
*
18640188 -GC--CGCTAAAGGTCAGACCAAT
1 AGCGGCGCTAAAGGTCAGAGCAAT
18640209 AGCGGC
1 AGCGGC
18640215 ACTTATGGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
17 10 0.29
18 2 0.06
19 2 0.06
22 2 0.06
23 3 0.09
24 15 0.44
ACGTcount: A:0.28, C:0.27, G:0.31, T:0.14
Consensus pattern (24 bp):
AGCGGCGCTAAAGGTCAGAGCAAT
Found at i:18640201 original size:218 final size:218
Alignment explanation
Indices: 18639823--18640242 Score: 650
Period size: 218 Copynumber: 1.9 Consensus size: 218
18639813 AAAAGTGGAG
*
18639823 CAATAGCGGCGCTTATGGTAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGC
1 CAATAGCGGCGCTTATGGTAAAGCACCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGC
* * *
18639888 GCCGCTAAAGGTCAGATCAATAGCGGCGCTTATGAGCAAGCGCCGCTAAAGGTCAGAGCAATAGT
66 GCCGCTAAAAGTCAGAGCAATAGCGGCGCTTATGAGCAAGCGCCGCTAAAGGTCAGAGCAATAGC
* * **
18639953 GGCGCTTATGAGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGCCGCTA
131 GGCGCTTATGAGAAAGCGCCGCTAAAGGTCAGACCAATAGCGGCACTTATGGAAAAGCGCCGCTA
18640018 AAGGTCAGAGCTAAAGGTCAGAT
196 AAGGTCAGAGCTAAAGGTCAGAT
** *
18640041 CAATAGCGGCGCTTATGAG-AAAGCACCGCTAAAGGTCAGATTAATAGCGGCGCTTAT-GAGCAA
1 CAATAGCGGCGCTTATG-GTAAAGCACCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGA-AAA
*
18640104 GCGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTATG-GTCAAGCGCCGCTAAAGGTCAGAGCAAT
64 GCGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTATGAG-CAAGCGCCGCTAAAGGTCAGAGCAAT
*
18640168 AGCGGCGCTTATG-GTCAAGCGCCGCTAAAGGTCAGACCAATAGCGGCACTTATGGAAAAGCGCC
128 AGCGGCGCTTATGAG-AAAGCGCCGCTAAAGGTCAGACCAATAGCGGCACTTATGGAAAAGCGCC
*
18640232 GCTAAATGTCA
192 GCTAAAGGTCA
18640243 TAGCAATAGC
Statistics
Matches: 184, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
217 4 0.02
218 179 0.97
219 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.17
Consensus pattern (218 bp):
CAATAGCGGCGCTTATGGTAAAGCACCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGC
GCCGCTAAAAGTCAGAGCAATAGCGGCGCTTATGAGCAAGCGCCGCTAAAGGTCAGAGCAATAGC
GGCGCTTATGAGAAAGCGCCGCTAAAGGTCAGACCAATAGCGGCACTTATGGAAAAGCGCCGCTA
AAGGTCAGAGCTAAAGGTCAGAT
Found at i:18642900 original size:43 final size:42
Alignment explanation
Indices: 18642776--18643087 Score: 455
Period size: 43 Copynumber: 7.3 Consensus size: 42
18642766 TTTATTAATG
* *
18642776 TTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGACCATGTTCT
18642818 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGACCATGTTCT
*
18642860 TTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAA-AGCAATGTTCT
1 TTAGCGGCGTTTTT-GGGAAAGCGCCGCTAAAGA-CCATGTTCT
* * * * *
18642903 TTAGTGGCGTTTGTGTGAAAAGCGCCGCTGAAGATCATGTTCT
1 TTAGCGGCGTTTTTG-GGAAAGCGCCGCTAAAGACCATGTTCT
18642946 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGACCATGTTCT
* *
18642988 TTAGCGGCGTTTTTTGAGAAAGCGCCGCTAAAGACCATATTCT
1 TTAGCGGCG-TTTTTGGGAAAGCGCCGCTAAAGACCATGTTCT
* *
18643031 TTAGCGGCGTTTTTGTGAAAAGCGCCGCTAAAAACCATGTTCT
1 TTAGCGGCGTTTTTG-GGAAAGCGCCGCTAAAGACCATGTTCT
*
18643074 ATAGCGGCGTTTTT
1 TTAGCGGCGTTTTT
18643088 TCTAATAAAC
Statistics
Matches: 243, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
42 95 0.39
43 147 0.60
44 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (42 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGACCATGTTCT
Found at i:18643019 original size:128 final size:128
Alignment explanation
Indices: 18642776--18643087 Score: 511
Period size: 128 Copynumber: 2.4 Consensus size: 128
18642766 TTTATTAATG
18642776 TTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGGGAAAGC
1 TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGGGAAAGC
* *
18642840 GCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAA-AGCAATGTTCT
66 GCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGGAGAAAGCGCCGCTAAAGA-CAATATTCT
* * *
18642903 TTAGTGGCGTTTGTGTGAAAAGCGCCGCTGAAGATCATGTTCTTTAGCGGCGTTTTTGGGAAAGC
1 TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGGGAAAGC
* *
18642968 GCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTTGAGAAAGCGCCGCTAAAGACCATATTCT
66 GCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGGAGAAAGCGCCGCTAAAGACAATATTCT
* * *
18643031 TTAGCGGCGTTTTTGTGAAAAGCGCCGCTAAAAACCATGTTCTATAGCGGCGTTTTT
1 TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTT
18643088 TCTAATAAAC
Statistics
Matches: 170, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
127 14 0.08
128 155 0.91
129 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (128 bp):
TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGGGAAAGC
GCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGGAGAAAGCGCCGCTAAAGACAATATTCT
Found at i:18643087 original size:85 final size:84
Alignment explanation
Indices: 18642776--18643087 Score: 455
Period size: 85 Copynumber: 3.7 Consensus size: 84
18642766 TTTATTAATG
* * *
18642776 TTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGGGAAAGCG
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAAACCATGTTCTTTAGCGGCGTTTTTGAGAAAGCG
18642841 CCGCTAAAGACCATGTTCT
66 CCGCTAAAGACCATGTTCT
* * * *
18642860 TTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAAGCAATGTTCTTTAGTGGCGTTTGTGTGA-AAA
1 TTAGCGGCGTTTTT-GGAAAAGCGCCGCTAAAAACCATGTTCTTTAGCGGCGTTT-T-TGAGAAA
* *
18642924 GCGCCGCTGAAGATCATGTTCT
63 GCGCCGCTAAAGACCATGTTCT
* *
18642946 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTTGAGAAAGC
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAAACCATGTTCTTTAGCGGCG-TTTTTGAGAAAGC
*
18643011 GCCGCTAAAGACCATATTCT
65 GCCGCTAAAGACCATGTTCT
*
18643031 TTAGCGGCGTTTTTGTGAAAAGCGCCGCTAAAAACCATGTTCTATAGCGGCGTTTTT
1 TTAGCGGCGTTTTTG-GAAAAGCGCCGCTAAAAACCATGTTCTTTAGCGGCGTTTTT
18643088 TCTAATAAAC
Statistics
Matches: 203, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
84 16 0.08
85 111 0.55
86 74 0.36
87 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (84 bp):
TTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAAACCATGTTCTTTAGCGGCGTTTTTGAGAAAGCG
CCGCTAAAGACCATGTTCT
Found at i:18644203 original size:23 final size:24
Alignment explanation
Indices: 18644150--18644205 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 24
18644140 TGAACACAGG
18644150 AAACAAATGGAATGGTAGCAAATTGTT
1 AAACAAATGGAATGGTAGCAAA---TT
18644177 AAACAAATGGAATGGTAGCAAA-T
1 AAACAAATGGAATGGTAGCAAATT
18644200 AAACAA
1 AAACAA
18644206 TATCTAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.24
27 22 0.76
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.20
Consensus pattern (24 bp):
AAACAAATGGAATGGTAGCAAATT
Found at i:18648505 original size:19 final size:20
Alignment explanation
Indices: 18648471--18648509 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
18648461 TTTAATTTTC
18648471 TTTTATATATTCTTTAAAAT
1 TTTTATATATTCTTTAAAAT
*
18648491 TTTTATA-ATTTTTTAAAAT
1 TTTTATATATTCTTTAAAAT
18648510 ATAAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATATATTCTTTAAAAT
Found at i:18648543 original size:20 final size:19
Alignment explanation
Indices: 18648514--18648586 Score: 85
Period size: 21 Copynumber: 3.7 Consensus size: 19
18648504 TAAAATATAA
18648514 ATTTTGAAATTTTAATTAA-T
1 ATTTTGAAATTTTAA--AATT
*
18648534 ATTTTAAAATTTTAAAATT
1 ATTTTGAAATTTTAAAATT
*
18648553 ATTTTGAAATTTTTTAAAGTT
1 ATTTTGAAA--TTTTAAAATT
18648574 ATTTTGAAATTTT
1 ATTTTGAAATTTT
18648587 TCTGTTGAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
18 2 0.04
19 13 0.28
20 14 0.30
21 18 0.38
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTTTGAAATTTTAAAATT
Found at i:18648562 original size:11 final size:11
Alignment explanation
Indices: 18648542--18648584 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
18648532 ATATTTTAAA
*
18648542 ATTTTAAAATT
1 ATTTTGAAATT
18648553 ATTTTGAAATT
1 ATTTTGAAATT
18648564 -TTTT-AAAGTT
1 ATTTTGAAA-TT
18648574 ATTTTGAAATT
1 ATTTTGAAATT
18648585 TTTCTGTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 3 0.11
10 6 0.21
11 16 0.57
12 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (11 bp):
ATTTTGAAATT
Found at i:18648569 original size:21 final size:21
Alignment explanation
Indices: 18648497--18648587 Score: 84
Period size: 21 Copynumber: 4.3 Consensus size: 21
18648487 AAATTTTTAT
18648497 AATTTTTTAAAATATAAATTTTGA
1 AATTTTTTAAAAT-T--ATTTTGA
18648521 AA--TTTTAATTAA-TATTTT-A
1 AATTTTTTAA--AATTATTTTGA
*
18648540 AA-ATTTTAAAATTATTTTGA
1 AATTTTTTAAAATTATTTTGA
*
18648560 AATTTTTTAAAGTTATTTTGA
1 AATTTTTTAAAATTATTTTGA
18648581 AATTTTT
1 AATTTTT
18648588 CTGTTGAGAG
Statistics
Matches: 59, Mismatches: 2, Indels: 15
0.78 0.03 0.20
Matches are distributed among these distances:
18 2 0.03
19 9 0.15
20 14 0.24
21 23 0.39
22 7 0.12
24 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (21 bp):
AATTTTTTAAAATTATTTTGA
Found at i:18660883 original size:86 final size:83
Alignment explanation
Indices: 18660771--18661010 Score: 284
Period size: 86 Copynumber: 2.8 Consensus size: 83
18660761 TTATGAGGAA
* ** * *
18660771 AAACGCCGCTATAGAACATGACCTTTAGCAGCGCTTTTTGCACAAACGCCGCTAAAGAACATGGT
1 AAACGCCGCTAAAGAACATGGTCTTTAGC-GCACTTTTT-CACAAACGCTGCTAAAGAACATGGT
*
18660836 CTTTACCGACGCTTTTCTCAC
64 CTTTACCGACGCTTTAC-CAC
* *
18660857 AAACGCCACTAAAGAACATGGTCTTTAGCGGCACTTCTCTCACAAACGCTGCTAAAGAACATGGT
1 AAACGCCGCTAAAGAACATGGTCTTTAGC-GCACTT-TTTCACAAACGCTGCTAAAGAACATGGT
* *
18660922 CTTTAGCGGCGCTTTACCAC
64 CTTTACCGACGCTTTACCAC
** * *
18660942 AAACATCGCTAAATAACATGGTTTTTAGCG-ACTTTTTCTCACAAACGCTGCTAAAGAACATGGT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGCAC-TTTT-TCACAAACGCTGCTAAAGAACATGGT
18661006 CTTTA
64 CTTTA
18661011 ACAGCGTTTT
Statistics
Matches: 134, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
83 3 0.02
84 34 0.25
85 27 0.20
86 68 0.51
87 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (83 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGCACTTTTTCACAAACGCTGCTAAAGAACATGGTCT
TTACCGACGCTTTACCAC
Found at i:18661036 original size:43 final size:43
Alignment explanation
Indices: 18660771--18661039 Score: 253
Period size: 43 Copynumber: 6.3 Consensus size: 43
18660761 TTATGAGGAA
* * ** *
18660771 AAACGCCGCTATAGAACATGACCTTTAGCAGCGCTTTTT-GCAC
1 AAACGCTGCTAAAGAACATGGTCTTTAGCAGCG-TTTTTCTCAC
* * *
18660814 AAACGCCGCTAAAGAACATGGTCTTTA-CCGACGCTTTTCTCAC
1 AAACGCTGCTAAAGAACATGGTCTTTAGCAG-CGTTTTTCTCAC
** * ** *
18660857 AAACGCCACTAAAGAACATGGTCTTTAGCGGCACTTCTCTCAC
1 AAACGCTGCTAAAGAACATGGTCTTTAGCAGCGTTTTTCTCAC
* * *
18660900 AAACGCTGCTAAAGAACATGGTCTTTAGCGGCGCTTTAC-CAC
1 AAACGCTGCTAAAGAACATGGTCTTTAGCAGCGTTTTTCTCAC
* * *
18660942 AAAC-ATCGCTAAATAACATGGTTTTTAGC-GAC-TTTTTCTCAC
1 AAACGCT-GCTAAAGAACATGGTCTTTAGCAG-CGTTTTTCTCAC
* *
18660984 AAACGCTGCTAAAGAACATGGTCTTTAACAGCGTTTTTCCCAC
1 AAACGCTGCTAAAGAACATGGTCTTTAGCAGCGTTTTTCTCAC
*
18661027 AAACTCTGCTAAA
1 AAACGCTGCTAAA
18661040 ATTAATAAAT
Statistics
Matches: 191, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
41 6 0.03
42 61 0.32
43 122 0.64
44 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
AAACGCTGCTAAAGAACATGGTCTTTAGCAGCGTTTTTCTCAC
Found at i:18664913 original size:18 final size:18
Alignment explanation
Indices: 18664857--18664913 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
18664847 TAATTTAATT
*
18664857 TTTTTTAGTTTATGTAAG
1 TTTTTTAGTTTATATAAG
** * * *
18664875 TTTTAAAATTT-TAGAAT
1 TTTTTTAGTTTATATAAG
18664892 TTTTTTAGTTTATATAAG
1 TTTTTTAGTTTATATAAG
18664910 TTTT
1 TTTT
18664914 AAAATAATTG
Statistics
Matches: 27, Mismatches: 11, Indels: 2
0.68 0.28 0.05
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (18 bp):
TTTTTTAGTTTATATAAG
Found at i:18665015 original size:41 final size:40
Alignment explanation
Indices: 18664970--18665104 Score: 117
Period size: 41 Copynumber: 3.3 Consensus size: 40
18664960 AAAGCGTCGC
18664970 TAATGCTCTGATCTTTAGCGGCGCTTTCTCATAAACGCCGT
1 TAATGCTCTGATCTTTAGCGGCGCTTT-TCATAAACGCCGT
* * * * ** *
18665011 TAATGTTTTAATCTTTAGCGGCGTTTTTTTCATAAACATCGC
1 TAATGCTCTGATCTTTAGCGGCG--CTTTTCATAAACGCCGT
* * * ** *
18665053 TAGTGCTCTGATCTTTCGCAGTACTTTTCCATAAGCGCCGT
1 TAATGCTCTGATCTTTAGCGGCGCTTTT-CATAAACGCCGT
18665094 TAATGCTCTGA
1 TAATGCTCTGA
18665105 CTTGAAAAAG
Statistics
Matches: 70, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
40 4 0.06
41 38 0.54
42 25 0.36
43 3 0.04
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (40 bp):
TAATGCTCTGATCTTTAGCGGCGCTTTTCATAAACGCCGT
Found at i:18665067 original size:42 final size:41
Alignment explanation
Indices: 18664966--18665068 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
18664956 TGAGAAAGCG
*
18664966 TCGCTAATGCTCTGATCTTTAGCGGCGCTTTCTCATAAACG
1 TCGCTAATGCTCTGATCTTTAGCGGCGCTTTCTCATAAACA
* * * * * * *
18665007 CCGTTAATGTTTTAATCTTTAGCGGCGTTTTTTTCATAAACA
1 TCGCTAATGCTCTGATCTTTAGCGGCG-CTTTCTCATAAACA
*
18665049 TCGCTAGTGCTCTGATCTTT
1 TCGCTAATGCTCTGATCTTT
18665069 CGCAGTACTT
Statistics
Matches: 47, Mismatches: 14, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
41 22 0.47
42 25 0.53
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (41 bp):
TCGCTAATGCTCTGATCTTTAGCGGCGCTTTCTCATAAACA
Found at i:18665207 original size:41 final size:41
Alignment explanation
Indices: 18665120--18665214 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 41
18665110 AAAAGCGCCA
** *
18665120 CTAATGCTCTGACCTTTAATGGCGCTTTCTTATAAGCACCG
1 CTAATGCTCTGACCTTTAACAGCGCTTTCTCATAAGCACCG
* * ***
18665161 TTAATGCTCTGACCTTTAGCAGCGCTTTCTCATAAGTGTCG
1 CTAATGCTCTGACCTTTAACAGCGCTTTCTCATAAGCACCG
*
18665202 CTAATGCTTTGAC
1 CTAATGCTCTGAC
18665215 TTTTTGTGGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (41 bp):
CTAATGCTCTGACCTTTAACAGCGCTTTCTCATAAGCACCG
Found at i:18665263 original size:40 final size:40
Alignment explanation
Indices: 18665200--18665307 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
18665190 TCATAAGTGT
*
18665200 CGCTAATGCTTTGACTTTTTGTGGCGTTCATGGAAAAACGC
1 CGCTATTGCTTT-ACTTTTTGTGGCGTTCATGGAAAAACGC
* *
18665241 CGCTATTGCTTTACTTTTTGTGGCATTTATGGAAAAACGC
1 CGCTATTGCTTTACTTTTTGTGGCGTTCATGGAAAAACGC
* *
18665281 CGCTATTGTTTTA-TCTTTTGCGGCGTT
1 CGCTATTGCTTTACT-TTTTGTGGCGTT
18665308 TTTTATCCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 48 0.80
41 11 0.18
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (40 bp):
CGCTATTGCTTTACTTTTTGTGGCGTTCATGGAAAAACGC
Found at i:18681645 original size:23 final size:23
Alignment explanation
Indices: 18681616--18682084 Score: 661
Period size: 23 Copynumber: 20.4 Consensus size: 23
18681606 ATCTTAATTC
18681616 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18681639 TTTAAGCACAAATCGCATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18681662 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18681685 TTTGAGCACAAATCA-AGTTAATA
1 TTTAAGCACAAATCACA-TTAATA
*
18681708 TTTAAGCACAAATCACATTAACA
1 TTTAAGCACAAATCACATTAATA
*
18681731 TTTAAGCACAAATCACATTATTA
1 TTTAAGCACAAATCACATTAATA
*
18681754 TTTCAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18681777 TTTAAACATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18681800 TTTGAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATA
18681823 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18681846 TTTCAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
18681869 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* ** *
18681892 TTTGAGCACAAATCGTATTAATT
1 TTTAAGCACAAATCACATTAATA
*
18681915 TTTAAGCAAAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18681938 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18681961 TTTAAGTACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18681984 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18682007 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18682030 CTTAAGCGCAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
18682053 TTTAATCATAAATCATATAAATA
1 TTTAAGCACAAATCACATTAATA
18682076 TTTAAGCAC
1 TTTAAGCAC
18682085 GGATATAAGA
Statistics
Matches: 388, Mismatches: 56, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
22 1 0.00
23 386 0.99
24 1 0.00
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.33
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:18682400 original size:16 final size:16
Alignment explanation
Indices: 18682379--18682420 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
18682369 TCTTAAACTG
*
18682379 AAACCTTGAACCTAGT
1 AAACCTTAAACCTAGT
18682395 AAACCTTAAACCTAGT
1 AAACCTTAAACCTAGT
*
18682411 AAACTTTAAA
1 AAACCTTAAA
18682421 TTCTAATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.26
Consensus pattern (16 bp):
AAACCTTAAACCTAGT
Found at i:18693396 original size:190 final size:190
Alignment explanation
Indices: 18692999--18693396 Score: 442
Period size: 190 Copynumber: 2.1 Consensus size: 190
18692989 CTCCTGACAG
* * * *
18692999 CTTGTGTGAGCAGCATCGTGAGTCGATGAATTCTGAATGGATACTGTATTTTGACGATACGAACC
1 CTTGTGTGAGCAGCATCGTGAGTCAATGAATTCCGAATGAATACTGTATGTTGACGATACGAACC
* * * * *
18693064 CCTACGATGGCTAAGATCCTACATATGTTGCGGATTCTTGATAGTTTGTGTGAGCAGCATCGTGA
66 CCTACGATGGCTAAGATCCTACATATGTTACGGATTCTTGACAGCTTGTGTAAGCAACATCGTGA
* * * * * ** * * *
18693129 GCGGGTGATATAGACTGTAGCGATGGATGAGGACTTACATCTGTTGTGGGTTCTCATCAG
131 GCGAGTAATATAGACCGTAGCGATAGATGAGGACCTACATCTGTTACGGATTCTCAACAA
* * *
18693189 CTTGTGTGAGTAGCATCGTGAGTCAATGAATTCCGATTGAATACTG-AGTGTTGGCTG-TACGAA
1 CTTGTGTGAGCAGCATCGTGAGTCAATGAATTCCGAATGAATACTGTA-TGTTGAC-GATACGAA
* * * *
18693252 GCCCTATGATGGTTGAGATCCTACATATGTTACGGATTCTTGACAGCTTGTGTAAGCAACATCGT
64 CCCCTACGATGGCTAAGATCCTACATATGTTACGGATTCTTGACAGCTTGTGTAAGCAACATCGT
* * * * * * *
18693317 GAGTGAGTAATATGGACCGTATCGATAGCTTAGGTCCTGCATAC-GTTACGGATTCTCAACAA
129 GAGCGAGTAATATAGACCGTAGCGATAGATGAGGACCTACAT-CTGTTACGGATTCTCAACAA
*
18693379 CTTGTGCGAGCAGCATCG
1 CTTGTGTGAGCAGCATCG
18693397 CATACTGGTT
Statistics
Matches: 170, Mismatches: 35, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
189 1 0.01
190 167 0.98
191 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (190 bp):
CTTGTGTGAGCAGCATCGTGAGTCAATGAATTCCGAATGAATACTGTATGTTGACGATACGAACC
CCTACGATGGCTAAGATCCTACATATGTTACGGATTCTTGACAGCTTGTGTAAGCAACATCGTGA
GCGAGTAATATAGACCGTAGCGATAGATGAGGACCTACATCTGTTACGGATTCTCAACAA
Found at i:18697129 original size:45 final size:45
Alignment explanation
Indices: 18697073--18697178 Score: 149
Period size: 45 Copynumber: 2.3 Consensus size: 45
18697063 AAAAAACTTA
*
18697073 TAAATTTCGATTAATTAGATTAACCGATTAAATTAACTGAAATACT
1 TAAA-TTCGATTAATTAGATTAACCGACTAAATTAACTGAAATACT
** * * *
18697119 TAGGTTCGATTAATTCGATTAACCGACTGAATTAACTGAAATATT
1 TAAATTCGATTAATTAGATTAACCGACTAAATTAACTGAAATACT
18697164 TAAATTCGATTAATT
1 TAAATTCGATTAATT
18697179 TTTTTTTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 50 0.96
46 2 0.04
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (45 bp):
TAAATTCGATTAATTAGATTAACCGACTAAATTAACTGAAATACT
Found at i:18700421 original size:13 final size:14
Alignment explanation
Indices: 18700391--18700421 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18700381 CACATAAACT
18700391 AAAATATTACAACA
1 AAAATATTACAACA
*
18700405 AAAATATTAGAACA
1 AAAATATTACAACA
18700419 AAA
1 AAA
18700422 CAAATAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.10, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAATATTACAACA
Found at i:18701045 original size:18 final size:19
Alignment explanation
Indices: 18701010--18701045 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18701000 TTTAACTTTT
18701010 TTTTATATATTCTTTAAAC
1 TTTTATATATTCTTTAAAC
*
18701029 TTTTATA-ATTTTTTAAA
1 TTTTATATATTCTTTAAA
18701046 ATATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTATATATTCTTTAAAC
Found at i:18701077 original size:34 final size:34
Alignment explanation
Indices: 18701013--18701080 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
18701003 AACTTTTTTT
* *
18701013 TATATATTCTTTAAACTTTTATAATTTTTTAAAA
1 TATATATTCTTGAAACTTTTATAATATTTTAAAA
*
18701047 TATATATT-TTGAAATTTTTATTAATATTTTAAAA
1 TATATATTCTTGAAACTTTTA-TAATATTTTAAAA
18701081 GTTAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 10 0.33
34 20 0.67
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (34 bp):
TATATATTCTTGAAACTTTTATAATATTTTAAAA
Found at i:18701586 original size:31 final size:31
Alignment explanation
Indices: 18701546--18701605 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
18701536 TTTAATTTGA
** *
18701546 TCAAATTTAGTTTTTGCAGTTTTCAAATTGG
1 TCAAATTTAGTCCTTGCACTTTTCAAATTGG
* *
18701577 TCAATTTTAGTCCTTGCACTTTTTAAATT
1 TCAAATTTAGTCCTTGCACTTTTCAAATT
18701606 TTGAAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (31 bp):
TCAAATTTAGTCCTTGCACTTTTCAAATTGG
Found at i:18702492 original size:5 final size:5
Alignment explanation
Indices: 18702475--18702507 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
18702465 ATTTATGCAT
*
18702475 ATAT- ATATA ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
18702508 AACATTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (5 bp):
ATATG
Found at i:18709104 original size:49 final size:49
Alignment explanation
Indices: 18708970--18709086 Score: 225
Period size: 49 Copynumber: 2.4 Consensus size: 49
18708960 GCTTATTTAT
18708970 AGGTTGAAAAACCTTATTCCAATCAACAACTAATAGAAGTAACGTAGTA
1 AGGTTGAAAAACCTTATTCCAATCAACAACTAATAGAAGTAACGTAGTA
18709019 AGGTTGAAAAACCTTATTCCAATCAACAACTAATAGAAGTAACGTAGTA
1 AGGTTGAAAAACCTTATTCCAATCAACAACTAATAGAAGTAACGTAGTA
*
18709068 AGGTTGAAACACCTTATTC
1 AGGTTGAAAAACCTTATTC
18709087 TAATTAAAAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCCAATCAACAACTAATAGAAGTAACGTAGTA
Found at i:18717658 original size:24 final size:24
Alignment explanation
Indices: 18717597--18717659 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
18717587 TAGACTAATA
* *
18717597 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
18717621 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
18717645 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
18717660 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:18726191 original size:20 final size:21
Alignment explanation
Indices: 18726166--18726205 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18726156 TGCATTTTTA
*
18726166 GCATTTT-TAACTTAGTGATT
1 GCATTTTCTAACTCAGTGATT
18726186 GCATTTTCTAACTCAGTGAT
1 GCATTTTCTAACTCAGTGAT
18726206 GCTCGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGATT
Found at i:18728064 original size:23 final size:23
Alignment explanation
Indices: 18728032--18728632 Score: 745
Period size: 23 Copynumber: 26.2 Consensus size: 23
18728022 TAATTCTTTG
*
18728032 AGCACAAATCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* * *
18728055 ATCATAAATCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
*
18728078 AGCATAAATCACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* *
18728101 AGCATAAATCACATTAATATTTG
1 AGCACAAATCACATTAATATTTA
* *
18728124 AGCACAAATCATATTAATATTTG
1 AGCACAAATCACATTAATATTTA
* *
18728147 AGCACAAATTACATTAATATTTG
1 AGCACAAATCACATTAATATTTA
* *
18728170 ACCACAAATCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
18728193 AGCACAAATCACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
*
18728216 AGCACAAATCACAATAATATTTA
1 AGCACAAATCACATTAATATTTA
* *
18728239 AGCATAAATCACATTAATATTAA
1 AGCACAAATCACATTAATATTTA
* * *
18728262 AGCATAAATCATATTAGTATTTA
1 AGCACAAATCACATTAATATTTA
* *
18728285 AGTACAAATCAGATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* *
18728308 AGCATAAATCACATTAATACTTA
1 AGCACAAATCACATTAATATTTA
* *
18728331 AGCACAAATCAAATTAATATTTT
1 AGCACAAATCACATTAATATTTA
* * *
18728354 ATCATAAATCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
18728377 AGCACAAATCACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* *
18728400 AGCATAAATCACATTAATACTTA
1 AGCACAAATCACATTAATATTTA
*
18728423 AGCACAAATAACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* * *
18728446 ATCATAAATCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
*
18728469 AACACAAATCACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* * * * *
18728492 AGTATAAATCACAATAATTTTTT
1 AGCACAAATCACATTAATATTTA
* *
18728515 ACCACAAATCATATTAATA-TTA
1 AGCACAAATCACATTAATATTTA
* *
18728537 AGCACAAATCATATTAATATTTG
1 AGCACAAATCACATTAATATTTA
* *
18728560 AGCACAATTCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* **
18728583 AGCATAAATCACATTAATACCTA
1 AGCACAAATCACATTAATATTTA
*
18728606 AGGACAAATCACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
18728629 AGCA
1 AGCA
18728633 TAGATATACA
Statistics
Matches: 497, Mismatches: 80, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
22 20 0.04
23 477 0.96
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (23 bp):
AGCACAAATCACATTAATATTTA
Found at i:18732581 original size:14 final size:14
Alignment explanation
Indices: 18732553--18732589 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
18732543 AAAAAGTAAG
18732553 TCATTTT-CAGAAA
1 TCATTTTACAGAAA
*
18732566 TCATTTTACGGAAA
1 TCATTTTACAGAAA
18732580 TCATTTTACA
1 TCATTTTACA
18732590 CGCAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (14 bp):
TCATTTTACAGAAA
Found at i:18746218 original size:20 final size:21
Alignment explanation
Indices: 18746184--18746222 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18746174 ATTTTTTCTA
*
18746184 TTTACTTTTATTTGTTTCACT
1 TTTACTTGTATTTGTTTCACT
18746205 TTTACTTGTA-TTGTTTCA
1 TTTACTTGTATTTGTTTCA
18746223 AATTCCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.13, G:0.08, T:0.64
Consensus pattern (21 bp):
TTTACTTGTATTTGTTTCACT
Found at i:18748827 original size:26 final size:26
Alignment explanation
Indices: 18748791--18748852 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
18748781 TGGATAAATA
18748791 TGAATGAATGATGAGTCTGCTATTTT
1 TGAATGAATGATGAGTCTGCTATTTT
18748817 TGAATGAATGATGAGTCTGCTATTTT
1 TGAATGAATGATGAGTCTGCTATTTT
18748843 TGAATGAATG
1 TGAATGAATG
18748853 GATAATATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.40
Consensus pattern (26 bp):
TGAATGAATGATGAGTCTGCTATTTT
Found at i:18753301 original size:36 final size:36
Alignment explanation
Indices: 18753224--18753301 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
18753214 AATATAATCA
**
18753224 GTCACATGGCATGAAGAACATACCCACATATTTTCT
1 GTCACATGGCATGAAGAACATACCCACATATTCACT
*
18753260 GTCACATGGCATGAAGATCATACCCACATATTCACT
1 GTCACATGGCATGAAGAACATACCCACATATTCACT
*
18753296 TTCACA
1 GTCACA
18753302 ACAGTCATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (36 bp):
GTCACATGGCATGAAGAACATACCCACATATTCACT
Found at i:18753406 original size:23 final size:23
Alignment explanation
Indices: 18753371--18753714 Score: 463
Period size: 23 Copynumber: 15.0 Consensus size: 23
18753361 ATCTTAATTC
*
18753371 TTTAAGCACAAATCACATAAATA
1 TTTAAGCACAAATCACATTAATA
* * *
18753394 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18753417 TTAAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18753440 TTTAAGCACAATTCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18753463 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18753486 TTTGAGCACAAATCACTTTAATA
1 TTTAAGCACAAATCACATTAATA
*
18753509 TTTAAGTACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
** * *
18753532 TTTAATTACAAATCACATTATTG
1 TTTAAGCACAAATCACATTAATA
* * *
18753555 TTTAAGCACATATCACACTAAAA
1 TTTAAGCACAAATCACATTAATA
*
18753578 TTTAAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18753601 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
18753624 TTTGAGCACAAGTCATATTAATA
1 TTTAAGCACAAATCACATTAATA
18753647 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18753670 TTTGAGCACAAATCAGATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18753693 TTTAAGCCCAAATCACATTAAT
1 TTTAAGCACAAATCACATTAAT
18753715 CAAATCATAT
Statistics
Matches: 275, Mismatches: 46, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 275 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:18753432 original size:46 final size:46
Alignment explanation
Indices: 18753371--18753882 Score: 603
Period size: 46 Copynumber: 11.3 Consensus size: 46
18753361 ATCTTAATTC
* * *
18753371 TTTAAGCACAAATCACATAAATATTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * *
18753417 TTAAAGCACAAATCACATTAATATTTAAGCACAATTCACATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* *
18753463 TTTAAGCATAAATCACATTAATATTTGAGCACAAATCACT-TTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCA-TATTAATA
* ** * * *
18753509 TTTAAGTACAAATCACATTAATATTTAATTACAAATCACATTATTG
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * * *
18753555 TTTAAGCACATATCACACTAAAATTTAAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * *
18753601 TTTAAGCATAAATCACATTAATATTTGAGCACAAGTCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* *
18753647 TTTAAGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
*
18753693 TTTAAGCCCAAATCACATT-A-A--T-----CAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * * **
18753730 TTAAAGCATAAATCACATTAATATTTTAGTGCAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * * *
18753776 TTTAAGCATAAATGACATTTATATTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * *
18753822 TTTAAGCATAAATCACATTAATACTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* *
18753868 TTTAATCATAAATCA
1 TTTAAGCACAAATCA
18753883 TAAATCATAT
Statistics
Matches: 400, Mismatches: 55, Indels: 22
0.84 0.12 0.05
Matches are distributed among these distances:
37 30 0.08
38 1 0.00
39 1 0.00
41 1 0.00
42 1 0.00
44 1 0.00
45 1 0.00
46 364 0.91
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (46 bp):
TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
Found at i:18753483 original size:69 final size:69
Alignment explanation
Indices: 18753371--18753882 Score: 610
Period size: 69 Copynumber: 7.6 Consensus size: 69
18753361 ATCTTAATTC
* * * *
18753371 TTTAAGCACAAATCACATAAATATTTAATCATAAATCATATTAATATTAAAGCACAAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18753436 AATA
66 AATA
* * *
18753440 TTTAAGCACAATTCACATTAATATTTAAGCATAAATCACATTAATATTTGAGCACAAATCACTTT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18753505 AATA
66 AATA
* ** * * * * *
18753509 TTTAAGTACAAATCACATTAATATTTAATTACAAATCACATTATTGTTTAAGCACATATCACACT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
*
18753574 AAAA
66 AATA
* * * *
18753578 TTTAAGCACAAATCAAATTAATATTTAAGCATAAATCACATTAATATTTGAGCACAAGTCATATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18753643 AATA
66 AATA
* * * *
18753647 TTTAAGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCCCAAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18753712 -A-A
66 AATA
* * * ** *
18753714 --T-----CAAATCATATTAATATTAAAGCATAAATCACATTAATATTTTAGTGCAAATCATATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18753772 AATA
66 AATA
* * * * * * *
18753776 TTTAAGCATAAATGACATTTATATTTGAGCACAAATCATATTAATATTTAAGCATAAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18753841 AATA
66 AATA
* *
18753845 CTTAAGCACAAATCACATTAATATTTAATCATAAATCA
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCA
18753883 TAAATCATAT
Statistics
Matches: 365, Mismatches: 69, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
60 48 0.13
61 1 0.00
62 1 0.00
64 1 0.00
65 1 0.00
67 1 0.00
68 1 0.00
69 311 0.85
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (69 bp):
TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
AATA
Found at i:18753728 original size:37 final size:37
Alignment explanation
Indices: 18753678--18753751 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
18753668 TATTTGAGCA
* *
18753678 CAAATCAGATTAATATTTAAGCCCAAATCACATTAAT
1 CAAATCAGATTAATATTAAAGCACAAATCACATTAAT
* *
18753715 CAAATCATATTAATATTAAAGCATAAATCACATTAAT
1 CAAATCAGATTAATATTAAAGCACAAATCACATTAAT
18753752 ATTTTAGTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (37 bp):
CAAATCAGATTAATATTAAAGCACAAATCACATTAAT
Found at i:18753743 original size:23 final size:23
Alignment explanation
Indices: 18753716--18753882 Score: 199
Period size: 23 Copynumber: 7.3 Consensus size: 23
18753706 CACATTAATC
* *
18753716 AAATCATATTAATATTAAAGCAT
1 AAATCACATTAATATTTAAGCAT
* ***
18753739 AAATCACATTAATATTTTAGTGC
1 AAATCACATTAATATTTAAGCAT
*
18753762 AAATCATATTAATATTTAAGCAT
1 AAATCACATTAATATTTAAGCAT
* * * *
18753785 AAATGACATTTATATTTGAGCAC
1 AAATCACATTAATATTTAAGCAT
*
18753808 AAATCATATTAATATTTAAGCAT
1 AAATCACATTAATATTTAAGCAT
* *
18753831 AAATCACATTAATACTTAAGCAC
1 AAATCACATTAATATTTAAGCAT
*
18753854 AAATCACATTAATATTTAATCAT
1 AAATCACATTAATATTTAAGCAT
18753877 AAATCA
1 AAATCA
18753883 TAAATCATAT
Statistics
Matches: 117, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 117 1.00
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.35
Consensus pattern (23 bp):
AAATCACATTAATATTTAAGCAT
Found at i:18753750 original size:60 final size:60
Alignment explanation
Indices: 18753655--18753774 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
18753645 TATTTAAGCA
** *
18753655 CAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCCCAAATCACATTAAT
1 CAAATCACATTAATATTAAAGCACAAATCACATTAATATTTAAGCCCAAATCACATTAAT
* * * ** *
18753715 CAAATCATATTAATATTAAAGCATAAATCACATTAATATTTTAGTGCAAATCATATTAAT
1 CAAATCACATTAATATTAAAGCACAAATCACATTAATATTTAAGCCCAAATCACATTAAT
18753775 ATTTAAGCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (60 bp):
CAAATCACATTAATATTAAAGCACAAATCACATTAATATTTAAGCCCAAATCACATTAAT
Found at i:18753819 original size:129 final size:129
Alignment explanation
Indices: 18753586--18753843 Score: 408
Period size: 129 Copynumber: 2.0 Consensus size: 129
18753576 AATTTAAGCA
* *
18753586 CAAATCAAATTAATATTTAAGCATAAATCACATTAATATTTGAGCACAAGTCATATTAATATTTA
1 CAAATCAAATTAATATTAAAGCATAAATCACATTAATATTTGAGCACAAATCATATTAATATTTA
*
18753651 AGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCCCAAATCACATTAAT
66 AGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCACAAATCACATTAAT
* * **
18753715 CAAATCATATTAATATTAAAGCATAAATCACATTAATATTTTAGTGCAAATCATATTAATATTTA
1 CAAATCAAATTAATATTAAAGCATAAATCACATTAATATTTGAGCACAAATCATATTAATATTTA
* * * * *
18753780 AGCATAAATGACATTTATATTTGAGCACAAATCATATTAATATTTAAGCATAAATCACATTAAT
66 AGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCACAAATCACATTAAT
18753844 ACTTAAGCAC
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 117 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.34
Consensus pattern (129 bp):
CAAATCAAATTAATATTAAAGCATAAATCACATTAATATTTGAGCACAAATCATATTAATATTTA
AGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCACAAATCACATTAAT
Found at i:18753883 original size:69 final size:69
Alignment explanation
Indices: 18753715--18753908 Score: 208
Period size: 69 Copynumber: 2.7 Consensus size: 69
18753705 TCACATTAAT
* * * * ** * *
18753715 CAAATCATATTAATATTAAAGCATAAATCACATTAATATTTTAGTGCAAATCATATTAATATTTA
1 CAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCACAAATCACATTAATACTTA
18753780 AGCA
66 AGCA
* * * * * *
18753784 TAAATGACATTTATATTTGAGCACAAATCATATTAATATTTAAGCATAAATCACATTAATACTTA
1 CAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCACAAATCACATTAATACTTA
18753849 AGCA
66 AGCA
*
18753853 CAAATCACATTAATATTTAATCATAAATCATAAATCATATATATTTAAGCACAAAT
1 CAAATCACATTAATATTTAAGCATAAATCAT--AT--TA-ATATTTAAGCACAAAT
18753909 ATAAGAACAC
Statistics
Matches: 99, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
69 80 0.81
71 2 0.02
73 2 0.02
74 15 0.15
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.35
Consensus pattern (69 bp):
CAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCACAAATCACATTAATACTTA
AGCA
Found at i:18766311 original size:21 final size:21
Alignment explanation
Indices: 18766287--18766326 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18766277 AAATCAGGAA
18766287 ATAATATTTCAAAAAATAAAT
1 ATAATATTTCAAAAAATAAAT
* **
18766308 ATAATTTTTTTAAAAATAA
1 ATAATATTTCAAAAAATAA
18766327 TTTTTTGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATATTTCAAAAAATAAAT
Found at i:18766321 original size:15 final size:15
Alignment explanation
Indices: 18766303--18766332 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18766293 TTTCAAAAAA
*
18766303 TAAATATAATTTTTT
1 TAAAAATAATTTTTT
18766318 TAAAAATAATTTTTT
1 TAAAAATAATTTTTT
18766333 GGTTAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAAAATAATTTTTT
Found at i:18771294 original size:3 final size:3
Alignment explanation
Indices: 18771286--18771363 Score: 113
Period size: 3 Copynumber: 26.0 Consensus size: 3
18771276 TTTATATCGT
* *
18771286 TTC TTC TTC -TC CTC TTCC TTC TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
18771331 TTC TTC TTC TTC TTC TAC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
18771364 AAATCCCTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
2 2 0.03
3 63 0.93
4 3 0.04
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:18774547 original size:17 final size:17
Alignment explanation
Indices: 18774518--18774566 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
18774508 TTTATGAAAA
18774518 ATTTCTTTT-TTTTTC-C
1 ATTT-TTTTCTTTTTCTC
18774534 -TTTTTCTTCCTTTTTCTC
1 ATTTTT-TT-CTTTTTCTC
18774552 ATTTTTTTCTTTTTC
1 ATTTTTTTCTTTTTC
18774567 AAATGACTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 2 0.07
15 5 0.18
17 13 0.46
18 3 0.11
19 5 0.18
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTTCTTTTTCTC
Found at i:18783462 original size:21 final size:21
Alignment explanation
Indices: 18783432--18783491 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
18783422 GCAACTTCGA
*
18783432 GTATCGATACCTGCTAAAAGG
1 GTATCTATACCTGCTAAAAGG
* *
18783453 GTATCTATACATGCCAAAAGG
1 GTATCTATACCTGCTAAAAGG
18783474 GTATCTATACCTGCTAAA
1 GTATCTATACCTGCTAAA
18783492 TTGATTTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (21 bp):
GTATCTATACCTGCTAAAAGG
Found at i:18783515 original size:3 final size:3
Alignment explanation
Indices: 18783507--18783541 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
18783497 TTATATTGTC
18783507 TCT TCT TCT TC- TCT TCCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TC
18783542 AAATCCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:18793080 original size:12 final size:12
Alignment explanation
Indices: 18793065--18793115 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
18793055 GAAGGTGATC
*
18793065 AAGAGAAGGATG
1 AAGAGAAGGAAG
* *
18793077 AAGAAAAAAGAAG
1 AAG-AGAAGGAAG
18793090 AAG-GAAAGGAAG
1 AAGAG-AAGGAAG
18793102 AAGAGAAGGAAG
1 AAGAGAAGGAAG
18793114 AA
1 AA
18793116 ACTGAACCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (12 bp):
AAGAGAAGGAAG
Found at i:18793108 original size:17 final size:17
Alignment explanation
Indices: 18793065--18793116 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
18793055 GAAGGTGATC
18793065 AAGAGAAGGATGAAGAAAA
1 AAGAGAAGGA--AAGAAAA
* *
18793084 AAGAAGAAGGAAAGGAAG
1 AAG-AGAAGGAAAGAAAA
18793102 AAGAGAAGG-AAGAAA
1 AAGAGAAGGAAAGAAA
18793117 CTGAACCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 5 0.17
17 6 0.21
18 8 0.28
19 3 0.10
20 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (17 bp):
AAGAGAAGGAAAGAAAA
Found at i:18798286 original size:16 final size:19
Alignment explanation
Indices: 18798267--18798309 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18798257 AGAGAAGGAT
18798267 GAAGAAA-AAGAA-AGAA-
1 GAAGAAAGAAGAAGAGAAG
18798283 GAAGGAAAGAAGAAGAGAAG
1 GAA-GAAAGAAGAAGAGAAG
18798303 GAAGAAA
1 GAAGAAA
18798310 CTGAACCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 4 0.17
18 5 0.22
19 8 0.35
20 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
GAAGAAAGAAGAAGAGAAG
Found at i:18798292 original size:11 final size:12
Alignment explanation
Indices: 18798275--18798308 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
18798265 ATGAAGAAAA
18798275 AGAAAGAAGAAG
1 AGAAAGAAGAAG
18798287 -GAAAGAAGAAG
1 AGAAAGAAGAAG
*
18798298 AGAAGGAAGAA
1 AGAAAGAAGAA
18798309 ACTGAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
AGAAAGAAGAAG
Found at i:18798301 original size:23 final size:22
Alignment explanation
Indices: 18798259--18798308 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
18798249 GGTGATCAAG
18798259 AGAAGGATGAAGAAAAAGAAAGA
1 AGAAGGA-GAAGAAAAAGAAAGA
*
18798282 AGAAGGA-AAGAAGAAGAGAAGGA
1 AGAAGGAGAAGAA-AA-AGAAAGA
18798305 AGAA
1 AGAA
18798309 ACTGAACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 2 0.08
23 17 0.71
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (22 bp):
AGAAGGAGAAGAAAAAGAAAGA
Found at i:18815426 original size:11 final size:11
Alignment explanation
Indices: 18815390--18815425 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
18815380 TTATATTTAA
18815390 AAAATAATTTT
1 AAAATAATTTT
*
18815401 AAATTAATTTT
1 AAAATAATTTT
18815412 AAAAT-ATTTT
1 AAAATAATTTT
18815422 AAAA
1 AAAA
18815426 AAATAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:18819108 original size:22 final size:21
Alignment explanation
Indices: 18819058--18819109 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
18819048 TTTAGAAAAA
*
18819058 AATTTATTTTTAACTTTCTTT
1 AATTTATTTTTAAATTTCTTT
* *
18819079 TATATATTCTTTAAATTT-TTAT
1 AATTTATT-TTTAAATTTCTT-T
18819101 AATTTATTT
1 AATTTATTT
18819110 AAAAATATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTTATTTTTAAATTTCTTT
Found at i:18819294 original size:7 final size:7
Alignment explanation
Indices: 18819282--18819310 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
18819272 TACTCGAATC
18819282 AAACTCA
1 AAACTCA
18819289 AAACTC-
1 AAACTCA
18819295 AAACTCA
1 AAACTCA
18819302 AAACTCA
1 AAACTCA
18819309 AA
1 AA
18819311 CTACTTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACTCA
Found at i:18819298 original size:13 final size:13
Alignment explanation
Indices: 18819280--18819312 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
18819270 TCTACTCGAA
18819280 TCAAACTCAAAAC
1 TCAAACTCAAAAC
18819293 TCAAACTCAAAAC
1 TCAAACTCAAAAC
18819306 TCAAACT
1 TCAAACT
18819313 ACTTATTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (13 bp):
TCAAACTCAAAAC
Found at i:18825018 original size:24 final size:24
Alignment explanation
Indices: 18824990--18825048 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
18824980 TAGACTAATA
*
18824990 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* * *
18825014 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTCAAACAAATAAAC
18825038 AGAGTTTAACT
1 AGAGTTTAACT
18825049 TAAAGATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:18833609 original size:20 final size:21
Alignment explanation
Indices: 18833584--18833623 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18833574 TGCATTTTTA
*
18833584 GCATTTT-TAACTTAGTGATT
1 GCATTTTCTAACTCAGTGATT
18833604 GCATTTTCTAACTCAGTGAT
1 GCATTTTCTAACTCAGTGAT
18833624 GCTCGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGATT
Found at i:18835482 original size:23 final size:23
Alignment explanation
Indices: 18835450--18836050 Score: 736
Period size: 23 Copynumber: 26.2 Consensus size: 23
18835440 TAATTCTTTG
*
18835450 AGCACAAATCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* * *
18835473 ATCATAAATCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
*
18835496 AGCATAAATCACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* *
18835519 AGCATAAATCACATTAATATTTG
1 AGCACAAATCACATTAATATTTA
* *
18835542 AGCACAAATCATATTAATATTTG
1 AGCACAAATCACATTAATATTTA
* *
18835565 AGCACAAATTACATTAATATTTG
1 AGCACAAATCACATTAATATTTA
* *
18835588 ACCACAAATCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
18835611 AGCACAAATCACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
*
18835634 AGCACAAATCACAATAATATTTA
1 AGCACAAATCACATTAATATTTA
* *
18835657 AGCATAAATCACATTAATATTAA
1 AGCACAAATCACATTAATATTTA
* * *
18835680 AGCATAAATCATATTAGTATTTA
1 AGCACAAATCACATTAATATTTA
* *
18835703 AGTACAAATCAGATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* *
18835726 AGCATAAATCACATTAATACTTA
1 AGCACAAATCACATTAATATTTA
* *
18835749 AGCACAAATCAAATTAATATTTT
1 AGCACAAATCACATTAATATTTA
* * *
18835772 ATCATAAATCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
18835795 AGCACAAATCACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* *
18835818 AGCATAAATCACATTAATACTTA
1 AGCACAAATCACATTAATATTTA
*
18835841 AGCACAAATAACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* * *
18835864 ATCATAAATCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
*
18835887 AACACAAATCACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* * * * * *
18835910 AGTATAAATCAGAATAATTTTTG
1 AGCACAAATCACATTAATATTTA
* *
18835933 ACCACAAATCATATTAATA-TTA
1 AGCACAAATCACATTAATATTTA
* *
18835955 AGCACAAATCATATTAATATTTG
1 AGCACAAATCACATTAATATTTA
* *
18835978 AGCACAATTCATATTAATATTTA
1 AGCACAAATCACATTAATATTTA
* **
18836001 AGCATAAATCACATTAATACCTA
1 AGCACAAATCACATTAATATTTA
*
18836024 AGGACAAATCACATTAATATTTA
1 AGCACAAATCACATTAATATTTA
18836047 AGCA
1 AGCA
18836051 TAGATATACA
Statistics
Matches: 496, Mismatches: 81, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
22 20 0.04
23 476 0.96
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (23 bp):
AGCACAAATCACATTAATATTTA
Found at i:18848811 original size:26 final size:26
Alignment explanation
Indices: 18848775--18848836 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
18848765 TGGATAAATA
18848775 TGAATGAATGATGAGTCTGCTATTTT
1 TGAATGAATGATGAGTCTGCTATTTT
18848801 TGAATGAATGATGAGTCTGCTATTTT
1 TGAATGAATGATGAGTCTGCTATTTT
18848827 TGAATGAATG
1 TGAATGAATG
18848837 GATAATATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.40
Consensus pattern (26 bp):
TGAATGAATGATGAGTCTGCTATTTT
Found at i:18849126 original size:18 final size:18
Alignment explanation
Indices: 18849103--18849144 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
18849093 CTTGAAAAAT
18849103 GAAAATGAGAAA-AAGAAA
1 GAAAATGA-AAAGAAGAAA
18849121 GAAAATGAAAAGAAGAAA
1 GAAAATGAAAAGAAGAAA
18849139 -AAAATG
1 GAAAATG
18849145 TTTGCTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (18 bp):
GAAAATGAAAAGAAGAAA
Found at i:18850146 original size:26 final size:26
Alignment explanation
Indices: 18850108--18850272 Score: 142
Period size: 26 Copynumber: 6.3 Consensus size: 26
18850098 TCGACGCGAA
* *
18850108 GCCTGCTAATTATTCACCAGCTTGAG
1 GCCTGCTATTTATTCACCAGCTTAAG
18850134 GCCTGCTATTTATTCACCAG-TTCAAG
1 GCCTGCTATTTATTCACCAGCTT-AAG
* *
18850160 GCCTGCTATATT-TTCACCGGCTCAAG
1 GCCTGCTAT-TTATTCACCAGCTTAAG
*
18850186 GCCTGCTATTTATTCA-CAGGCTCAAG
1 GCCTGCTATTTATTCACCA-GCTTAAG
* * *
18850212 GCTTGCTATATT-TTCACCATCTCAAG
1 GCCTGCTAT-TTATTCACCAGCTTAAG
* * * *
18850238 GCCTACTGTATT-TTCACCGGCTCAAG
1 GCCTGCTAT-TTATTCACCAGCTTAAG
18850264 GCCTGCTAT
1 GCCTGCTAT
18850273 ATAATTTTTT
Statistics
Matches: 118, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
25 5 0.04
26 106 0.90
27 7 0.06
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (26 bp):
GCCTGCTATTTATTCACCAGCTTAAG
Found at i:18850176 original size:52 final size:52
Alignment explanation
Indices: 18850108--18850274 Score: 205
Period size: 52 Copynumber: 3.2 Consensus size: 52
18850098 TCGACGCGAA
** *
18850108 GCCTGCTA-ATTATTCACCAGCTTGAGGCCTGCTATTTATTCACCAGTTCAAG
1 GCCTGCTATATT-TTCACCAGCTCAAGGCCTGCTATTTATTCACCAGCTCAAG
*
18850160 GCCTGCTATATTTTCACCGGCTCAAGGCCTGCTATTTATTCA-CAGGCTCAAG
1 GCCTGCTATATTTTCACCAGCTCAAGGCCTGCTATTTATTCACCA-GCTCAAG
* * * * *
18850212 GCTTGCTATATTTTCACCATCTCAAGGCCTACTGTATT-TTCACCGGCTCAAG
1 GCCTGCTATATTTTCACCAGCTCAAGGCCTGCTAT-TTATTCACCAGCTCAAG
18850264 GCCTGCTATAT
1 GCCTGCTATAT
18850275 AATTTTTTAC
Statistics
Matches: 100, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
51 2 0.02
52 92 0.92
53 6 0.06
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (52 bp):
GCCTGCTATATTTTCACCAGCTCAAGGCCTGCTATTTATTCACCAGCTCAAG
Found at i:18850228 original size:78 final size:78
Alignment explanation
Indices: 18850108--18850272 Score: 228
Period size: 78 Copynumber: 2.1 Consensus size: 78
18850098 TCGACGCGAA
* ** *
18850108 GCCTGCTAATTATTCACCAGCTTGAGGCCTGCTATTTATTCACCAGT-TCAAGGCCTGCTATATT
1 GCCTGCTATTTATTCACCAGCTCAAGGCCTGCTATTTATTCACCA-TCTCAAGGCCTACTATATT
18850172 TTCACCGGCTCAAG
65 TTCACCGGCTCAAG
* *
18850186 GCCTGCTATTTATTCA-CAGGCTCAAGGCTTGCTATATT-TTCACCATCTCAAGGCCTACTGTAT
1 GCCTGCTATTTATTCACCA-GCTCAAGGCCTGCTAT-TTATTCACCATCTCAAGGCCTACTATAT
18850249 TTTCACCGGCTCAAG
64 TTTCACCGGCTCAAG
18850264 GCCTGCTAT
1 GCCTGCTAT
18850273 ATAATTTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
77 3 0.04
78 73 0.94
79 2 0.03
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (78 bp):
GCCTGCTATTTATTCACCAGCTCAAGGCCTGCTATTTATTCACCATCTCAAGGCCTACTATATTT
TCACCGGCTCAAG
Found at i:18854987 original size:52 final size:52
Alignment explanation
Indices: 18854895--18855290 Score: 489
Period size: 52 Copynumber: 7.7 Consensus size: 52
18854885 GGCAAGAATT
* * * ** * *
18854895 CTGCTATTTAATCACCGGCTCAAAGCTTGCTA-ATTATTCACTAGCTCGAGGC
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATT-TTCACCGGCTCAAAGC
* *
18854947 CTGCTATTTATTCACCGGCTCAAGGCCTGTTATATTTTCACCGACTCAAAGC
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATTTTCACCGGCTCAAAGC
*
18854999 CTGCTATTTATTCACCGGCTCAAGGCCTGTTATATTTTCACCGGCTCAAAGC
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATTTTCACCGGCTCAAAGC
* ** *
18855051 CTACTATTTATTCACC-GCTCAAGGCCTATTATATTTTCATCGGCTCAAAGC
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATTTTCACCGGCTCAAAGC
* *
18855102 CTGCTATTTATTCACCGGCTCAAGGCCTGTTATATTTTCACCGGCTCAAGGC
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATTTTCACCGGCTCAAAGC
* * * *
18855154 CTGCTATTTATTCATCGACTCAAGGCATGCTAT-TTATTCATCGGCTC-AAGC
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATT-TTCACCGGCTCAAAGC
** * * *
18855205 CTGCTACATATTCACCGGCTCAAGGCTTGCTATATATCCACCGGCTC-AAGC
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATTTTCACCGGCTCAAAGC
*
18855256 CTGCTATATT-TCCACCGGCTCAAGGCCTGCTATAT
1 CTGCTAT-TTATTCACCGGCTCAAGGCCTGCTATAT
18855291 AATTATTTAT
Statistics
Matches: 304, Mismatches: 35, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
51 123 0.40
52 178 0.59
53 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (52 bp):
CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATTTTCACCGGCTCAAAGC
Found at i:18855112 original size:103 final size:104
Alignment explanation
Indices: 18854895--18855290 Score: 498
Period size: 103 Copynumber: 3.8 Consensus size: 104
18854885 GGCAAGAATT
* * * ** * *
18854895 CTGCTATTTAATCACCGGCTCAAAGCTTGCTA-ATTATTCACTAGCTCGAGGCCTGCTATTTATT
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATT-TTCACCGGCTCAAAGCCTGCTATTTATT
* *
18854959 CACCGGCTCAAGGCCTGTTATATTTTCACCGACTCAAAGC
65 CACCGGCTCAAGGCCTGTTATATTTTCATCGGCTCAAAGC
* *
18854999 CTGCTATTTATTCACCGGCTCAAGGCCTGTTATATTTTCACCGGCTCAAAGCCTACTATTTATTC
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATTTTCACCGGCTCAAAGCCTGCTATTTATTC
*
18855064 ACC-GCTCAAGGCCTATTATATTTTCATCGGCTCAAAGC
66 ACCGGCTCAAGGCCTGTTATATTTTCATCGGCTCAAAGC
* *
18855102 CTGCTATTTATTCACCGGCTCAAGGCCTGTTATATTTTCACCGGCTCAAGGCCTGCTATTTATTC
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATTTTCACCGGCTCAAAGCCTGCTATTTATTC
* * * *
18855167 ATCGACTCAAGGCATGCTAT-TTATTCATCGGCTC-AAGC
66 ACCGGCTCAAGGCCTGTTATATT-TTCATCGGCTCAAAGC
** * * * *
18855205 CTGCTACATATTCACCGGCTCAAGGCTTGCTATATATCCACCGGCTC-AAGCCTGCTATATT-TC
1 CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATTTTCACCGGCTCAAAGCCTGCTAT-TTATT
*
18855268 CACCGGCTCAAGGCCTGCTATAT
65 CACCGGCTCAAGGCCTGTTATAT
18855291 AATTATTTAT
Statistics
Matches: 257, Mismatches: 30, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
102 29 0.11
103 147 0.57
104 78 0.30
105 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (104 bp):
CTGCTATTTATTCACCGGCTCAAGGCCTGCTATATTTTCACCGGCTCAAAGCCTGCTATTTATTC
ACCGGCTCAAGGCCTGTTATATTTTCATCGGCTCAAAGC
Found at i:18855290 original size:26 final size:27
Alignment explanation
Indices: 18854895--18855290 Score: 441
Period size: 26 Copynumber: 15.3 Consensus size: 27
18854885 GGCAAGAATT
* *
18854895 CTGCTAT-TTAATCACCGGCTCAAAGC
1 CTGCTATATTATTCACCGGCTCAAGGC
* ** *
18854921 TTGCTA-ATTATTCACTAGCTCGAGGC
1 CTGCTATATTATTCACCGGCTCAAGGC
18854947 CTGCTAT-TTATTCACCGGCTCAAGGC
1 CTGCTATATTATTCACCGGCTCAAGGC
* * *
18854973 CTGTTATATT-TTCACCGACTCAAAGC
1 CTGCTATATTATTCACCGGCTCAAGGC
18854999 CTGCTAT-TTATTCACCGGCTCAAGGC
1 CTGCTATATTATTCACCGGCTCAAGGC
* *
18855025 CTGTTATATT-TTCACCGGCTCAAAGC
1 CTGCTATATTATTCACCGGCTCAAGGC
*
18855051 CTACTAT-TTATTCACC-GCTCAAGGC
1 CTGCTATATTATTCACCGGCTCAAGGC
** * *
18855076 CTATTATATT-TTCATCGGCTCAAAGC
1 CTGCTATATTATTCACCGGCTCAAGGC
18855102 CTGCTAT-TTATTCACCGGCTCAAGGC
1 CTGCTATATTATTCACCGGCTCAAGGC
*
18855128 CTGTTATATT-TTCACCGGCTCAAGGC
1 CTGCTATATTATTCACCGGCTCAAGGC
* *
18855154 CTGCTAT-TTATTCATCGACTCAAGGC
1 CTGCTATATTATTCACCGGCTCAAGGC
* *
18855180 ATGCTAT-TTATTCATCGGCTCAA-GC
1 CTGCTATATTATTCACCGGCTCAAGGC
*
18855205 CTGCTACA-TATTCACCGGCTCAAGGC
1 CTGCTATATTATTCACCGGCTCAAGGC
* *
18855231 TTGCTATA-TATCCACCGGCTCAA-GC
1 CTGCTATATTATTCACCGGCTCAAGGC
*
18855256 CTGCTATATT-TCCACCGGCTCAAGGC
1 CTGCTATATTATTCACCGGCTCAAGGC
18855282 CTGCTATAT
1 CTGCTATAT
18855291 AATTATTTAT
Statistics
Matches: 314, Mismatches: 41, Indels: 30
0.82 0.11 0.08
Matches are distributed among these distances:
25 70 0.22
26 238 0.76
27 6 0.02
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (27 bp):
CTGCTATATTATTCACCGGCTCAAGGC
Found at i:18858710 original size:34 final size:34
Alignment explanation
Indices: 18858662--18858764 Score: 125
Period size: 34 Copynumber: 3.0 Consensus size: 34
18858652 AAGAATATGA
* * *
18858662 AAAGTTAAGAAAGATGAAAGGTTAAAGATCAAGG
1 AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
* * *
18858696 GAGGTTAAGGAAGATGGAAGGTTAAAGGTCAAAG
1 AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
* *
18858730 AAAGTTAAGGAAAATGGAAGGTTAAAAGATGAAAG
1 AAAGTTAAGGAAGATGGAAGGTT-AAAGATCAAAG
18858765 GTTGAACATC
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
34 48 0.84
35 9 0.16
ACGTcount: A:0.50, C:0.02, G:0.31, T:0.17
Consensus pattern (34 bp):
AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
Found at i:18858717 original size:17 final size:17
Alignment explanation
Indices: 18858665--18858767 Score: 54
Period size: 17 Copynumber: 6.2 Consensus size: 17
18858655 AATATGAAAA
* *
18858665 GTTAAGAAAGATGAAAG
1 GTTAAGGAAGATGGAAG
* ** * *
18858682 GTTAAAGATCAAGGGAG
1 GTTAAGGAAGATGGAAG
18858699 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
*
18858716 GTTAAAGGTCAA-A--GAAA
1 GTT-AAGG--AAGATGGAAG
*
18858733 GTTAAGGAAAATGGAAG
1 GTTAAGGAAGATGGAAG
*
18858750 GTTAA--AAGATGAAAG
1 GTTAAGGAAGATGGAAG
18858765 GTT
1 GTT
18858768 GAACATCCAT
Statistics
Matches: 64, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
14 2 0.03
15 12 0.19
16 4 0.06
17 39 0.61
18 4 0.06
19 1 0.02
20 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.32, T:0.19
Consensus pattern (17 bp):
GTTAAGGAAGATGGAAG
Found at i:18864207 original size:34 final size:34
Alignment explanation
Indices: 18864159--18864261 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 34
18864149 AAGAATATGA
* * *
18864159 AAAGTTAAGAAAGATGAAATGTTAAAGATCAAGG
1 AAAGTTAAGGAAGATGAAAGGTTAAAGATCAAAG
* * * *
18864193 GAGGTTAAGGAAGATGGAAGGTTAAAGGTCAAAG
1 AAAGTTAAGGAAGATGAAAGGTTAAAGATCAAAG
* *
18864227 AAAGTTAAGGAAAAT-AGAAGGTTAAAAGATGAAAG
1 AAAGTTAAGGAAGATGA-AAGGTT-AAAGATCAAAG
18864262 GTTGAACATC
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
34 45 0.83
35 9 0.17
ACGTcount: A:0.50, C:0.02, G:0.29, T:0.18
Consensus pattern (34 bp):
AAAGTTAAGGAAGATGAAAGGTTAAAGATCAAAG
Found at i:18866838 original size:20 final size:21
Alignment explanation
Indices: 18866813--18866858 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
18866803 AAAAATATAA
* *
18866813 ATTTTAAATTTTTTATAAA-T
1 ATTTTAAAATTTTTAAAAATT
18866833 ATTTTAAAATTTTTAAAAATT
1 ATTTTAAAATTTTTAAAAATT
18866854 ATTTT
1 ATTTT
18866859 GATTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTAAAATTTTTAAAAATT
Found at i:18868126 original size:20 final size:20
Alignment explanation
Indices: 18868101--18868140 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18868091 TTTAATTTTC
18868101 TTTTATATATTCTT-TAAAAT
1 TTTTATA-ATTCTTCTAAAAT
*
18868121 TTTTATAATTTTTCTAAAAT
1 TTTTATAATTCTTCTAAAAT
18868141 ATAAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATAATTCTTCTAAAAT
Found at i:18868187 original size:19 final size:19
Alignment explanation
Indices: 18868142--18868188 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
18868132 TTCTAAAATA
18868142 TAAATTTTGAAAATTTTAT
1 TAAATTTTGAAAATTTTAT
18868161 TAATATTTT-AAAATTATT-T
1 TAA-ATTTTGAAAATT-TTAT
18868180 TGAAATTTT
1 T-AAATTTT
18868189 TTAAAGTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
TAAATTTTGAAAATTTTAT
Found at i:18868192 original size:21 final size:21
Alignment explanation
Indices: 18868166--18868210 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18868156 TTTATTAATA
*
18868166 TTTTAAAATTATTTTGAAATT
1 TTTTAAAATTATTTTGAAAAT
* *
18868187 TTTTAAAGTTCTTTTGAAAAT
1 TTTTAAAATTATTTTGAAAAT
18868208 TTT
1 TTT
18868211 CTGTTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTTAAAATTATTTTGAAAAT
Found at i:18872589 original size:32 final size:32
Alignment explanation
Indices: 18872545--18872612 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
18872535 CTCTATCATC
*
18872545 ACACATTAGATACGCGGATCTCCAACACACCA
1 ACACATTAGATACGCGAATCTCCAACACACCA
*
18872577 ACACATTGGATACGCGAATCTCCAACACACCA
1 ACACATTAGATACGCGAATCTCCAACACACCA
18872609 ACAC
1 ACAC
18872613 TAGACTCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (32 bp):
ACACATTAGATACGCGAATCTCCAACACACCA
Found at i:18872982 original size:36 final size:36
Alignment explanation
Indices: 18872905--18872982 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
18872895 AATATAATCA
**
18872905 GTCACATGGCATAAAGAACATACCCACATATTTTCT
1 GTCACATGGCATAAAGAACATACCCACATATTCACT
* * *
18872941 GTCACATGGCATGAAGATCATACCCACGTATTCACT
1 GTCACATGGCATAAAGAACATACCCACATATTCACT
*
18872977 TTCACA
1 GTCACA
18872983 ACACTCATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (36 bp):
GTCACATGGCATAAAGAACATACCCACATATTCACT
Found at i:18873088 original size:23 final size:23
Alignment explanation
Indices: 18873051--18873457 Score: 562
Period size: 23 Copynumber: 17.7 Consensus size: 23
18873041 ATCTTAATTC
18873051 TTTAAGCACAAAATCACATTAATA
1 TTTAAGCAC-AAATCACATTAATA
* * *
18873075 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18873098 TTTAAGCACAAATCACGTTAATA
1 TTTAAGCACAAATCACATTAATA
18873121 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
18873144 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
18873167 TTTAAACATAAATCACATAAATA
1 TTTAAGCACAAATCACATTAATA
* *
18873190 TTTGAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATA
18873213 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18873236 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
18873259 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18873282 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18873305 TTTAAACATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18873328 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
18873351 TTTAAGTACAAATGACATTTATA
1 TTTAAGCACAAATCACATTAATA
* *
18873374 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18873397 TTTAAGCATAAATCACATTAGTA
1 TTTAAGCACAAATCACATTAATA
*
18873420 CTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18873443 TTTAATCATAAATCA
1 TTTAAGCACAAATCA
18873458 TAAATCATAT
Statistics
Matches: 331, Mismatches: 52, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
23 324 0.98
24 7 0.02
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.33
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:18879741 original size:26 final size:26
Alignment explanation
Indices: 18879712--18879765 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
18879702 TATTTTTTTT
18879712 TTTGAATCAAGTATAGT-GAAATGAAA
1 TTTGAATCAAGTATAGTCG-AATGAAA
* *
18879738 TTTGAGTCAAGTCTAGTCGAATGAAA
1 TTTGAATCAAGTATAGTCGAATGAAA
18879764 TT
1 TT
18879766 GTTTGAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (26 bp):
TTTGAATCAAGTATAGTCGAATGAAA
Found at i:18882389 original size:34 final size:31
Alignment explanation
Indices: 18882331--18882407 Score: 82
Period size: 34 Copynumber: 2.4 Consensus size: 31
18882321 ATTATTTTAG
**
18882331 AAAATTTTTATTTTTCTTTTATATATTCTTT
1 AAAATTTTTATTTTTCTTAAATATATTCTTT
*
18882362 AAAATTTTTAGTTTTTTCTTAAAATATATTTTTT
1 AAAATTTTTA--TTTTTCTT-AAATATATTCTTT
* *
18882396 GAATTTTTTATT
1 AAAATTTTTATT
18882408 CAAATTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 10 0.26
32 2 0.05
33 8 0.21
34 18 0.47
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.65
Consensus pattern (31 bp):
AAAATTTTTATTTTTCTTAAATATATTCTTT
Found at i:18882436 original size:21 final size:21
Alignment explanation
Indices: 18882412--18882456 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18882402 TTTATTCAAA
* *
18882412 TTTTAAAATTATTTTGAAAGT
1 TTTTAAAATTATTTTCAAAAT
*
18882433 TTTTAAAGTTATTTTCAAAAT
1 TTTTAAAATTATTTTCAAAAT
18882454 TTT
1 TTT
18882457 CTGTTGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTAAAATTATTTTCAAAAT
Found at i:18884630 original size:21 final size:21
Alignment explanation
Indices: 18884605--18884646 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18884595 GATACCCGAT
*
18884605 AAAAGGTATCGCTACTTTTTG
1 AAAAGGTATCGATACTTTTTG
18884626 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
18884647 TCATTGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:18885452 original size:49 final size:49
Alignment explanation
Indices: 18885163--18885475 Score: 209
Period size: 49 Copynumber: 6.4 Consensus size: 49
18885153 GGAAATGTCA
* * * * * * *
18885163 AATCCTATACTCTAAAGACGTGAAGGGAAAGATTAAGGCCGTAACTACA
1 AATCTTATACCCTAGAGATGTGAAGGGAAAGATTAAGGCCGCAACGACG
* * * **
18885212 AATCTCATACCCTAG-GAATGTGAAGGGAAAGATTGAGGCTGCAACGGTG
1 AATCTTATACCCTAGAG-ATGTGAAGGGAAAGATTAAGGCCGCAACGACG
* * * * **
18885261 AATCTTGTACCCTAGGGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTG
1 AATCTTATACCCTAGAGATGTGAAGGGAAAGATTAAGGCCGCAACGACG
* * * ** * ** * * *
18885310 AACCTTATACCTTAGAAATAAGAA-AGCCAGATTAAAGCTGCAACGATG
1 AATCTTATACCCTAGAGATGTGAAGGGAAAGATTAAGGCCGCAACGACG
* * * ** * * *
18885358 AATCTTGA-GCCCTAAAGATGTGAAGGGAAAGGTCGAGACCGCAACGGCA
1 AATCTT-ATACCCTAGAGATGTGAAGGGAAAGATTAAGGCCGCAACGACG
* **
18885407 AACCTTATACCCTAGAGATGTGAAGGGAAAGATTAAGGCTACAACGACG
1 AATCTTATACCCTAGAGATGTGAAGGGAAAGATTAAGGCCGCAACGACG
* *
18885456 AATCTTATACTCTAAAGATG
1 AATCTTATACCCTAGAGATG
18885476 AAGCAGACTG
Statistics
Matches: 195, Mismatches: 64, Indels: 10
0.72 0.24 0.04
Matches are distributed among these distances:
48 33 0.17
49 161 0.83
50 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (49 bp):
AATCTTATACCCTAGAGATGTGAAGGGAAAGATTAAGGCCGCAACGACG
Found at i:18885852 original size:76 final size:75
Alignment explanation
Indices: 18885719--18885897 Score: 259
Period size: 76 Copynumber: 2.4 Consensus size: 75
18885709 TGTAACGGTT
* ** * *
18885719 ATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCAACGAAGCGGAGCTCAGTATGAGTGAAAC
1 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGAAGCAAAACTCAATATGAGTGAAAC
* *
18885784 TTCAGATCTCC
66 TTCA-AGCCCC
* * *
18885795 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAAGGAAGCAAAACTTAATATGAGTGAAAT
1 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGAAGCAAAACTCAATATGAGTGAAAC
18885860 TTCAAGCCCC
66 TTCAAGCCCC
18885870 ATCTTCCTGATGAGATACAGAGAAGTGG
1 ATCTTCCTGATGAGATACAGAGAAGTGG
18885898 GTTAAAACAA
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
75 32 0.34
76 61 0.66
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (75 bp):
ATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAACGAAGCAAAACTCAATATGAGTGAAAC
TTCAAGCCCC
Found at i:18886013 original size:123 final size:123
Alignment explanation
Indices: 18885794--18886641 Score: 1092
Period size: 123 Copynumber: 6.9 Consensus size: 123
18885784 TTCAGATCTC
* * * * * * *
18885794 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAAGGAAGCAAAACTTAATATGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGCGAAGCTCAATGTGAGTGAAA
* * * *
18885859 TTTCAAGCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTTAAAACAATGAAGTGGT
66 CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGTGAT
* * * * * *
18885917 CATCTTCTTGATGAGATACAGAGAAGTGGACTAAATCAACGAAACGGAGATCAATGTGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGCGAAGCTCAATGTGAGTGAAA
* * * * * *
18885982 CTTCAAACCCTATCTTCCTAATGAGATACAGAGAAGTGGATCAAAATAATAAAGTGGT
66 CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGTGAT
* * * * *
18886040 CATCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAACGAAGTGAAGCTCAATGTGAGTGGAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGCGAAGCTCAATGTGAGTGAAA
* * *
18886105 CTTTAAACCCCATGTTCCTGATGGGATACAGAGAAGTGGGTCAAAACAATGAAGTGAT
66 CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGTGAT
* * * * * *
18886163 CATATTCCTGATGAGATAAAGAGAAGTAGACCAAAAT-AATAAAGCGAAGCTCAATGCGACTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGA-CTAAATCAATGAAGCGAAGCTCAATGTGAGTGAA
* * *
18886227 ACTTCAAACCCCATCTTCCTGATGAGATACAGATAAGTGGGTCAAAATAATGAA-TCAAT
65 ACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGT-GAT
* * * *
18886286 CATCTTTCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAATGCGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGCGAAGCTCAATGTGAGTGAAA
* * * *
18886351 CTTCAAACCCGATCTTCTTGATAAGATACAGAGAAGTGGGTCAAAACAATGAAGTGGT
66 CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGTGAT
*
18886409 CATCTTCCTGATGAGATACAGAGAAGTAGACGAAAAT-AATGAAGCGAAGCTCAATGCT-AGTGA
1 CATCTTCCTGATGAGATACAGAGAAGTAGAC-TAAATCAATGAAGCGAAGCTCAATG-TGAGTGA
* * * *
18886472 AACTTCAAAACCCATCTTCCTGATGAGATACAAAAAAGTGGGTCAAAACAATGAAGTAAT
64 AACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGTGAT
* * *
18886532 CATCTTTCTGATGAGATACAGAGAAGTAGACTAAAACAATGAAGCGAAGCTCAATGCGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGCGAAGCTCAATGTGAGTGAAA
* * * *
18886597 CTTCAAACCGCATCTTCCTGATGAGGTATAGAGAAGTGGGCCAAA
66 CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAA
18886642 TAAGTAACAA
Statistics
Matches: 629, Mismatches: 88, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
122 8 0.01
123 613 0.97
124 8 0.01
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (123 bp):
CATCTTCCTGATGAGATACAGAGAAGTAGACTAAATCAATGAAGCGAAGCTCAATGTGAGTGAAA
CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGTGAT
Found at i:18886568 original size:48 final size:48
Alignment explanation
Indices: 18886484--18886575 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
18886474 CTTCAAAACC
**
18886484 CATCTTCCTGATGAGATACAAAAAAGTGGGTCAAAACAATGAAGTAAT
1 CATCTTCCTGATGAGATACAAAAAAGTGACTCAAAACAATGAAGTAAT
* * *
18886532 CATCTTTCTGATGAGATACAGAGAAGTAGACT-AAAACAATGAAG
1 CATCTTCCTGATGAGATACAAAAAAGT-GACTCAAAACAATGAAG
18886576 CGAAGCTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 36 0.95
49 2 0.05
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAAAAAAGTGACTCAAAACAATGAAGTAAT
Found at i:18886778 original size:46 final size:45
Alignment explanation
Indices: 18886704--18886806 Score: 143
Period size: 46 Copynumber: 2.3 Consensus size: 45
18886694 CATCATCATT
* * * *
18886704 CAATCTTTTACCCCAAGTCAAGAGGGGCAGATTGAAGCCATCGTC
1 CAATCTTTTACCCCAAGTCAAGAAGGGCAGATTGAAGACACCATC
*
18886749 CAATCTTTTACCCTTAAGTCAAGAAGGGCAGATTGAAGACACCATC
1 CAATCTTTTACCC-CAAGTCAAGAAGGGCAGATTGAAGACACCATC
*
18886795 CAATCTCTTACC
1 CAATCTTTTACC
18886807 TAGATCATGG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 13 0.25
46 38 0.75
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (45 bp):
CAATCTTTTACCCCAAGTCAAGAAGGGCAGATTGAAGACACCATC
Found at i:18886855 original size:39 final size:39
Alignment explanation
Indices: 18886789--18886868 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
18886779 GATTGAAGAC
* * * *
18886789 ACCATCCAATCTCTTACCTAGATCATGGGTCAGAGTGAA
1 ACCATCAAATCTCATACCTAGACCATGGGGCAGAGTGAA
*
18886828 ACCATCAAATCTCATACC-ACGACCATGGGGCAGATTGAA
1 ACCATCAAATCTCATACCTA-GACCATGGGGCAGAGTGAA
18886867 AC
1 AC
18886869 ATTCATCCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (39 bp):
ACCATCAAATCTCATACCTAGACCATGGGGCAGAGTGAA
Found at i:18888311 original size:30 final size:29
Alignment explanation
Indices: 18888221--18888360 Score: 106
Period size: 31 Copynumber: 4.7 Consensus size: 29
18888211 ATGTTTTAAC
* *
18888221 CCCTT-AA-TTTCCAAAACTTTAGATTTGA
1 CCCTTAAACTTTCCAAAAATAT-GATTTGA
* * * *
18888249 CCCCTGAACTTTCAAAAAATTTATGTTTTGA
1 CCCTTAAACTTTCCAAAAA--TATGATTTGA
*
18888280 CCCTTGAACTTTCCAAAAATATGGATTTGA
1 CCCTTAAACTTTCCAAAAATAT-GATTTGA
* *
18888310 CCCTCAAACTTTCTAAAAAACTATG-TTTGAA
1 CCCTTAAACTTTC-CAAAAA-TATGATTTG-A
*
18888341 CCCTCAAACTTTCCAAAAAT
1 CCCTTAAACTTTCCAAAAAT
18888361 TCAGATTTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
28 4 0.04
29 6 0.07
30 34 0.37
31 43 0.47
32 5 0.05
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (29 bp):
CCCTTAAACTTTCCAAAAATATGATTTGA
Found at i:18888311 original size:61 final size:59
Alignment explanation
Indices: 18888185--18888441 Score: 193
Period size: 61 Copynumber: 4.3 Consensus size: 59
18888175 TAAATTGTGT
* ** * * * *
18888185 TTTGACCCCCAAACAGTCTAAAAATTATGTTTTAACCC-CTTAA-TTTCCAAAACTTTAGA
1 TTTGACCCCTAAACTTTCAAAAAATTATGTTTTGACCCTC-GAACTTTCCAAAA-ATTAGA
* * *
18888244 TTTGACCCCTGAACTTTCAAAAAATTTATGTTTTGACCCTTGAACTTTCCAAAAATATGGA
1 TTTGACCCCTAAACTTTCAAAAAA-TTATGTTTTGACCCTCGAACTTTCCAAAAAT-TAGA
* *
18888305 TTTGA-CCCTCAAACTTTCTAAAAAACTATG-TTTGAACCCTCAAACTTTCCAAAAATTCAGA
1 TTTGACCCCT-AAACTTTC-AAAAAATTATGTTTTG-ACCCTCGAACTTTCCAAAAATT-AGA
* * * * * *
18888366 TTTAACCCCCCCAAACTTTTCAAAAATTTAT-ATTTGGCCCTCGAACTTTCCAAAAATTATGT
1 TTTGA--CCCCTAAAC-TTTCAAAAAATTATGTTTTGACCCTCGAACTTTCCAAAAATTA-GA
*
18888428 TTTGGCCCC-AAACT
1 TTTGACCCCTAAACT
18888442 CTCCAAAATT
Statistics
Matches: 160, Mismatches: 24, Indels: 29
0.75 0.11 0.14
Matches are distributed among these distances:
58 1 0.01
59 23 0.14
60 29 0.18
61 54 0.34
62 30 0.19
63 16 0.10
64 7 0.04
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (59 bp):
TTTGACCCCTAAACTTTCAAAAAATTATGTTTTGACCCTCGAACTTTCCAAAAATTAGA
Found at i:18888373 original size:30 final size:30
Alignment explanation
Indices: 18888228--18888457 Score: 166
Period size: 30 Copynumber: 7.6 Consensus size: 30
18888218 AACCCCTTAA
* *
18888228 TTTCCAAAACTTTAGATTTGACCC-CTGAAC
1 TTTCCAAAAATTTAGATTTGACCCTC-AAAC
* * **
18888258 TTTCAAAAAATTTATGTTTTGACCCTTGAAC
1 TTTCCAAAAATTTA-GATTTGACCCTCAAAC
* *
18888289 TTTCCAAAAATATGGATTTGACCCTCAAAC
1 TTTCCAAAAATTTAGATTTGACCCTCAAAC
* **
18888319 TTTCTAAAAAACTATG-TTTGAACCCTCAAAC
1 TTTCCAAAAATTTA-GATTTG-ACCCTCAAAC
* * *
18888350 TTTCCAAAAATTCAGATTTAACCCCCCCAAAC
1 TTTCCAAAAATTTAGATTTGA--CCCTCAAAC
* * * *
18888382 TTTTCAAAAATTTATATTTGGCCCTCGAAC
1 TTTCCAAAAATTTAGATTTGACCCTCAAAC
* *
18888412 TTTCCAAAAA-TTATGTTTTGGCCC-CAAAC
1 TTTCCAAAAATTTA-GATTTGACCCTCAAAC
*
18888441 TCTCC-AAAATTTA-ATTT
1 TTTCCAAAAATTTAGATTT
18888458 TAACCCCATT
Statistics
Matches: 158, Mismatches: 33, Indels: 21
0.75 0.16 0.10
Matches are distributed among these distances:
27 3 0.02
28 4 0.03
29 14 0.09
30 65 0.41
31 48 0.30
32 24 0.15
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (30 bp):
TTTCCAAAAATTTAGATTTGACCCTCAAAC
Found at i:18888420 original size:29 final size:28
Alignment explanation
Indices: 18888374--18888457 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 28
18888364 GATTTAACCC
*
18888374 CCCCAAACTTTTCAAAAATTTATATTTGG
1 CCCCAAAC-TTTCCAAAATTTATATTTGG
* * *
18888403 CCCTCGAACTTTCCAAAAATTATGTTTTGG
1 CCC-CAAACTTTCCAAAATTTAT-ATTTGG
*
18888433 CCCCAAACTCTCCAAAATTTA-ATTT
1 CCCCAAACTTTCCAAAATTTATATTT
18888458 TAACCCCATT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
27 3 0.07
29 30 0.67
30 12 0.27
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (28 bp):
CCCCAAACTTTCCAAAATTTATATTTGG
Found at i:18889605 original size:24 final size:24
Alignment explanation
Indices: 18889537--18889611 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
18889527 AGTTTGACTC
* *
18889537 AAACAAATAAACAGAGATCAGTTG
1 AAACAAATAAACAGAGATTAATTG
* *
18889561 AAACAATTAAAC-GAAGTTTAATT-
1 AAACAAATAAACAG-AGATTAATTG
* *
18889584 AGAACAAATAAACAGAGCTTAACTG
1 A-AACAAATAAACAGAGATTAATTG
18889609 AAA
1 AAA
18889612 GATTATTTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.55, C:0.12, G:0.13, T:0.20
Consensus pattern (24 bp):
AAACAAATAAACAGAGATTAATTG
Found at i:18890244 original size:18 final size:18
Alignment explanation
Indices: 18890223--18890272 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
18890213 TATCAAAAGA
18890223 TATATTAATTAATAATAT
1 TATATTAATTAATAATAT
* *
18890241 TATAATAAATAATAATAT
1 TATATTAATTAATAATAT
* *
18890259 TTTATTATTTAATA
1 TATATTAATTAATA
18890273 TAATAAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATATTAATTAATAATAT
Found at i:18890265 original size:23 final size:24
Alignment explanation
Indices: 18890238--18890283 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
18890228 TAATTAATAA
18890238 TATTA-TAATA-AATAATAATATTT
1 TATTATTAATATAATAA-AATATTT
18890261 TATTATTTAATATAATAAAATAT
1 TATTA-TTAATATAATAAAATAT
18890284 AAGAGAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
25 10 0.50
26 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TATTATTAATATAATAAAATATTT
Found at i:18897428 original size:18 final size:18
Alignment explanation
Indices: 18897407--18897441 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18897397 AAAGATATAT
* *
18897407 TAATTAATAATATTATTA
1 TAATAAATAATAATATTA
18897425 TAATAAATAATAATATT
1 TAATAAATAATAATATT
18897442 TTATTATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAAATAATAATATTA
Found at i:18897454 original size:21 final size:21
Alignment explanation
Indices: 18897405--18897459 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
18897395 CAAAAGATAT
18897405 ATTAATTAATAATATTATTATA
1 ATTAA-TAATAATATTATTATA
*
18897427 ATAAATAATAATATT-TTATTA
1 ATTAATAATAATATTATTA-TA
*
18897448 TTTAAT-ATAATA
1 ATTAATAATAATA
18897460 AAATATAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 9 0.31
21 16 0.55
22 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAATAATAATATTATTATA
Found at i:18900377 original size:21 final size:21
Alignment explanation
Indices: 18900347--18900388 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18900337 GATACCTGAT
18900347 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
*
18900368 AAAAGTTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
18900389 TCATTGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:18902229 original size:20 final size:21
Alignment explanation
Indices: 18902204--18902251 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
18902194 AAAAATAGTT
*
18902204 AATTTTTATAAA-TATTTTAA
1 AATTTTTAAAAATTATTTTAA
*
18902224 AATTTTTAAAAATTATTTTGA
1 AATTTTTAAAAATTATTTTAA
*
18902245 ATTTTTT
1 AATTTTT
18902252 TGTTGAGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
AATTTTTAAAAATTATTTTAA
Found at i:18902947 original size:14 final size:14
Alignment explanation
Indices: 18902928--18902956 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18902918 TGAGATATTG
18902928 TTTTTATTATTTTA
1 TTTTTATTATTTTA
18902942 TTTTTATTATTTTA
1 TTTTTATTATTTTA
18902956 T
1 T
18902957 CGAGTGGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTATTATTTTA
Found at i:18903561 original size:21 final size:22
Alignment explanation
Indices: 18903535--18903581 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
18903525 TTTATTAATA
18903535 TTTTAAAATTAATTTG-AAATT
1 TTTTAAAATTAATTTGAAAATT
* *
18903556 TTTTAAAGTTATTTTGAAAATT
1 TTTTAAAATTAATTTGAAAATT
18903578 TTTT
1 TTTT
18903582 GTTGAAAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (22 bp):
TTTTAAAATTAATTTGAAAATT
Found at i:18908326 original size:36 final size:36
Alignment explanation
Indices: 18908249--18908326 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
18908239 AATATAATCA
**
18908249 GTCACATGGCATGAAGAACATACCCACATATTTTCT
1 GTCACATGGCATGAAGAACATACCCACATATTCACT
*
18908285 GTCACATGGCATGAAGATCATACCCACATATTCACT
1 GTCACATGGCATGAAGAACATACCCACATATTCACT
*
18908321 TTCACA
1 GTCACA
18908327 ACAGTCATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (36 bp):
GTCACATGGCATGAAGAACATACCCACATATTCACT
Found at i:18908431 original size:23 final size:23
Alignment explanation
Indices: 18908396--18908739 Score: 463
Period size: 23 Copynumber: 15.0 Consensus size: 23
18908386 ATCTTAATTC
* *
18908396 TTTAAGCGCAAATCACATAAATA
1 TTTAAGCACAAATCACATTAATA
* * *
18908419 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18908442 TTAAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
18908465 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18908488 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18908511 TTTGAGCACAAATCACTTTAATA
1 TTTAAGCACAAATCACATTAATA
*
18908534 TTTAAGTACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
** * *
18908557 TTTAATTACAAATCACATTATTG
1 TTTAAGCACAAATCACATTAATA
* * *
18908580 TTTAAGCACATATCACACTAAAA
1 TTTAAGCACAAATCACATTAATA
*
18908603 TTTAAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18908626 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
18908649 TTTGAGCACAAGTCATATTAATA
1 TTTAAGCACAAATCACATTAATA
18908672 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
18908695 TTTGAGCACAAATCAGATTAATA
1 TTTAAGCACAAATCACATTAATA
*
18908718 TTTAAGCCCAAATCACATTAAT
1 TTTAAGCACAAATCACATTAAT
18908740 CAAATCATAT
Statistics
Matches: 276, Mismatches: 45, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 276 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:18908457 original size:46 final size:46
Alignment explanation
Indices: 18908396--18908907 Score: 594
Period size: 46 Copynumber: 11.3 Consensus size: 46
18908386 ATCTTAATTC
* * * *
18908396 TTTAAGCGCAAATCACATAAATATTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* *
18908442 TTAAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* *
18908488 TTTAAGCATAAATCACATTAATATTTGAGCACAAATCACT-TTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCA-TATTAATA
* ** * * *
18908534 TTTAAGTACAAATCACATTAATATTTAATTACAAATCACATTATTG
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * * *
18908580 TTTAAGCACATATCACACTAAAATTTAAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * *
18908626 TTTAAGCATAAATCACATTAATATTTGAGCACAAGTCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* *
18908672 TTTAAGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
*
18908718 TTTAAGCCCAAATCACATT-A-A--T-----CAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * * * **
18908755 TTAAAGCATAAATCAAATTAATATTTGAGTGCAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * * *
18908801 TTTAAGCATAAATGACATTTATATTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * *
18908847 TTTAAGCATAAATCACATTAATACTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* *
18908893 TTTAATCATAAATCA
1 TTTAAGCACAAATCA
18908908 TAAATCATAT
Statistics
Matches: 400, Mismatches: 55, Indels: 22
0.84 0.12 0.05
Matches are distributed among these distances:
37 29 0.07
38 1 0.00
39 1 0.00
41 1 0.00
42 1 0.00
44 1 0.00
45 1 0.00
46 365 0.91
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (46 bp):
TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
Found at i:18908508 original size:69 final size:69
Alignment explanation
Indices: 18908396--18908907 Score: 601
Period size: 69 Copynumber: 7.6 Consensus size: 69
18908386 ATCTTAATTC
* * * * *
18908396 TTTAAGCGCAAATCACATAAATATTTAATCATAAATCATATTAATATTAAAGCACAAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18908461 AATA
66 AATA
* *
18908465 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTGAGCACAAATCACTTT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18908530 AATA
66 AATA
* ** * * * * *
18908534 TTTAAGTACAAATCACATTAATATTTAATTACAAATCACATTATTGTTTAAGCACATATCACACT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
*
18908599 AAAA
66 AATA
* * * *
18908603 TTTAAGCACAAATCAAATTAATATTTAAGCATAAATCACATTAATATTTGAGCACAAGTCATATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18908668 AATA
66 AATA
* * * *
18908672 TTTAAGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCCCAAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18908737 -A-A
66 AATA
* * * * ** *
18908739 --T-----CAAATCATATTAATATTAAAGCATAAATCAAATTAATATTTGAGTGCAAATCATATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18908797 AATA
66 AATA
* * * * * * *
18908801 TTTAAGCATAAATGACATTTATATTTGAGCACAAATCATATTAATATTTAAGCATAAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
18908866 AATA
66 AATA
* *
18908870 CTTAAGCACAAATCACATTAATATTTAATCATAAATCA
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCA
18908908 TAAATCATAT
Statistics
Matches: 366, Mismatches: 68, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
60 48 0.13
61 1 0.00
62 1 0.00
64 1 0.00
65 1 0.00
67 1 0.00
68 1 0.00
69 312 0.85
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (69 bp):
TTTAAGCACAAATCACATTAATATTTAAGCATAAATCACATTAATATTTAAGCACAAATCACATT
AATA
Found at i:18908753 original size:37 final size:37
Alignment explanation
Indices: 18908703--18908776 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
18908693 TATTTGAGCA
* * *
18908703 CAAATCAGATTAATATTTAAGCCCAAATCACATTAAT
1 CAAATCAGATTAATATTAAAGCACAAATCAAATTAAT
* *
18908740 CAAATCATATTAATATTAAAGCATAAATCAAATTAAT
1 CAAATCAGATTAATATTAAAGCACAAATCAAATTAAT
18908777 ATTTGAGTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (37 bp):
CAAATCAGATTAATATTAAAGCACAAATCAAATTAAT
Found at i:18908768 original size:23 final size:23
Alignment explanation
Indices: 18908741--18908909 Score: 194
Period size: 23 Copynumber: 7.3 Consensus size: 23
18908731 CACATTAATC
*
18908741 AAATCATATTAATATTAAAGCAT
1 AAATCATATTAATATTTAAGCAT
* * ***
18908764 AAATCAAATTAATATTTGAGTGC
1 AAATCATATTAATATTTAAGCAT
18908787 AAATCATATTAATATTTAAGCAT
1 AAATCATATTAATATTTAAGCAT
* * * * *
18908810 AAATGACATTTATATTTGAGCAC
1 AAATCATATTAATATTTAAGCAT
18908833 AAATCATATTAATATTTAAGCAT
1 AAATCATATTAATATTTAAGCAT
* * *
18908856 AAATCACATTAATACTTAAGCAC
1 AAATCATATTAATATTTAAGCAT
* *
18908879 AAATCACATTAATATTTAATCAT
1 AAATCATATTAATATTTAAGCAT
18908902 AAATCATA
1 AAATCATA
18908910 AATCATATAT
Statistics
Matches: 118, Mismatches: 28, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 118 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (23 bp):
AAATCATATTAATATTTAAGCAT
Found at i:18908775 original size:60 final size:60
Alignment explanation
Indices: 18908680--18908799 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
18908670 TATTTAAGCA
** *
18908680 CAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCCCAAATCACATTAAT
1 CAAATCACATTAATATTAAAGCACAAATCAAATTAATATTTAAGCCCAAATCACATTAAT
* * * ** *
18908740 CAAATCATATTAATATTAAAGCATAAATCAAATTAATATTTGAGTGCAAATCATATTAAT
1 CAAATCACATTAATATTAAAGCACAAATCAAATTAATATTTAAGCCCAAATCACATTAAT
18908800 ATTTAAGCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.33
Consensus pattern (60 bp):
CAAATCACATTAATATTAAAGCACAAATCAAATTAATATTTAAGCCCAAATCACATTAAT
Found at i:18908844 original size:129 final size:129
Alignment explanation
Indices: 18908611--18908868 Score: 408
Period size: 129 Copynumber: 2.0 Consensus size: 129
18908601 AATTTAAGCA
* * *
18908611 CAAATCAAATTAATATTTAAGCATAAATCACATTAATATTTGAGCACAAGTCATATTAATATTTA
1 CAAATCAAATTAATATTAAAGCATAAATCAAATTAATATTTGAGCACAAATCATATTAATATTTA
*
18908676 AGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCCCAAATCACATTAAT
66 AGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCACAAATCACATTAAT
* **
18908740 CAAATCATATTAATATTAAAGCATAAATCAAATTAATATTTGAGTGCAAATCATATTAATATTTA
1 CAAATCAAATTAATATTAAAGCATAAATCAAATTAATATTTGAGCACAAATCATATTAATATTTA
* * * * *
18908805 AGCATAAATGACATTTATATTTGAGCACAAATCATATTAATATTTAAGCATAAATCACATTAAT
66 AGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCACAAATCACATTAAT
18908869 ACTTAAGCAC
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 117 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (129 bp):
CAAATCAAATTAATATTAAAGCATAAATCAAATTAATATTTGAGCACAAATCATATTAATATTTA
AGCACAAATCACATTAATATTTGAGCACAAATCAGATTAATATTTAAGCACAAATCACATTAAT
Found at i:18908908 original size:69 final size:69
Alignment explanation
Indices: 18908740--18908933 Score: 208
Period size: 69 Copynumber: 2.7 Consensus size: 69
18908730 TCACATTAAT
* * * * ** * *
18908740 CAAATCATATTAATATTAAAGCATAAATCAAATTAATATTTGAGTGCAAATCATATTAATATTTA
1 CAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCACAAATCACATTAATACTTA
18908805 AGCA
66 AGCA
* * * * * *
18908809 TAAATGACATTTATATTTGAGCACAAATCATATTAATATTTAAGCATAAATCACATTAATACTTA
1 CAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCACAAATCACATTAATACTTA
18908874 AGCA
66 AGCA
*
18908878 CAAATCACATTAATATTTAATCATAAATCATAAATCATATATATTTAAGCACAAAT
1 CAAATCACATTAATATTTAAGCATAAATCAT--AT--TA-ATATTTAAGCACAAAT
18908934 ATAAGAACAC
Statistics
Matches: 99, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
69 80 0.81
71 2 0.02
73 2 0.02
74 15 0.15
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (69 bp):
CAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCACAAATCACATTAATACTTA
AGCA
Found at i:18919258 original size:32 final size:32
Alignment explanation
Indices: 18919175--18919275 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 32
18919165 TTAGTTATCC
*
18919175 AAAAATAT-TATTTTAGAAATTTTTAATTTTCTT
1 AAAAATATAT-TTTTTGAAATTTTTAATTTT-TT
** * *
18919208 --TTATATATTCTTTAAAATTTTTAATTTTTT
1 AAAAATATATTTTTTGAAATTTTTAATTTTTT
*
18919238 AAAAATATATTTTTTGAAATTTTATTAATATTTT
1 AAAAATATATTTTTTGAAA-TTT-TTAATTTTTT
18919272 AAAA
1 AAAA
18919276 TTTTAAAATT
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
30 2 0.04
31 21 0.40
32 14 0.26
33 3 0.06
34 13 0.25
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (32 bp):
AAAAATATATTTTTTGAAATTTTTAATTTTTT
Found at i:18919266 original size:34 final size:32
Alignment explanation
Indices: 18919210--18919275 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
18919200 ATTTTCTTTT
*
18919210 ATATATTCTTTAAAATTTTTAATTTTTTAAAA
1 ATATATTCTTTAAAATTTTTAATATTTTAAAA
* *
18919242 ATATATTTTTTGAAATTTTATTAATATTTTAAAA
1 ATATATTCTTT-AAAATTT-TTAATATTTTAAAA
18919276 TTTTAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.34
33 6 0.21
34 13 0.45
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (32 bp):
ATATATTCTTTAAAATTTTTAATATTTTAAAA
Found at i:18919302 original size:21 final size:21
Alignment explanation
Indices: 18919266--18919320 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
18919256 ATTTTATTAA
18919266 TATTTT-AAAA-TTTTAAAAT
1 TATTTTGAAAATTTTTAAAAT
* *
18919285 TATTTTGAAAGTTTTTAAAGT
1 TATTTTGAAAATTTTTAAAAT
18919306 TATTTTGAAAATTTT
1 TATTTTGAAAATTTT
18919321 CTGTTGAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 6 0.19
20 3 0.10
21 22 0.71
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (21 bp):
TATTTTGAAAATTTTTAAAAT
Found at i:18921400 original size:21 final size:21
Alignment explanation
Indices: 18921371--18921412 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18921361 GATACCCGAT
*
18921371 AAAATGTATCAATACCTTTTG
1 AAAAGGTATCAATACCTTTTG
*
18921392 AAAAGGTATCGATACCTTTTG
1 AAAAGGTATCAATACCTTTTG
18921413 TCATTGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
AAAAGGTATCAATACCTTTTG
Found at i:18921778 original size:33 final size:32
Alignment explanation
Indices: 18921733--18921795 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
18921723 TAGATTGCTC
*
18921733 CCCCTTAATAAAAGA-CATTTTGAATTTAAGCT
1 CCCCTTAATAAAA-ATCATTTTCAATTTAAGCT
*
18921765 CCCCTTATCTAAAAATCATTTTCAATTTAAG
1 CCCCTTA-ATAAAAATCATTTTCAATTTAAG
18921796 GCATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (32 bp):
CCCCTTAATAAAAATCATTTTCAATTTAAGCT
Done.