Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 62 of 187
Found at i:18247403 original size:127 final size:127
Alignment explanation
Indices: 18247177--18247843 Score: 1145
Period size: 127 Copynumber: 5.3 Consensus size: 127
18247167 GCTATCATTA
* * *
18247177 GTCTGCTCCACTGTAACTTTAGGGAGATAAGACTGGATGCGATCTGCTCTCTACAACCTCAGAAA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACCTCAGAAA
* * * * *
18247242 AATAAGATCTGGATGTTAATCCGCTCCACTGCAACTTCAGGGGGATAGGATTGATTTCTTCT
66 GATAAGATCTGGATGTTAATCCACTCCGCTGCAACTTCAGGGAGATAGGATTGATTTATTCT
*
18247304 GTCTGCTCCATTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACCTCAGAAA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACCTCAGAAA
* *
18247369 GATAAAATCTGGATGTTAATCCACTCCGCTGCAACTTCAAGGAGATAGGATTGATTTATTCT
66 GATAAGATCTGGATGTTAATCCACTCCGCTGCAACTTCAGGGAGATAGGATTGATTTATTCT
* * *
18247431 GCCTGCTCCTCTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTTTCTGCAACCTCAGAAA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACCTCAGAAA
18247496 GATAAGATCTGGATGTTAATCCACTCCGCTGCAACTTCAGGGAGATAGGATTGATTTATTCT
66 GATAAGATCTGGATGTTAATCCACTCCGCTGCAACTTCAGGGAGATAGGATTGATTTATTCT
* * *
18247558 GCCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGCGATCTGTTCTCTGCAACCTCAGAAA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACCTCAGAAA
*
18247623 GATAAGATCTGGATGTTAATCCACTCCGCTGCAACTTCAGGGAGATCGGATTGATTTATTCT
66 GATAAGATCTGGATGTTAATCCACTCCGCTGCAACTTCAGGGAGATAGGATTGATTTATTCT
18247685 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACCTCAGAAA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACCTCAGAAA
* *
18247750 GATAAGATCTGGATGTTAATCCACTCCGCTGTAACTTCAGGGAGATAGGATTGATTTCTTCT
66 GATAAGATCTGGATGTTAATCCACTCCGCTGCAACTTCAGGGAGATAGGATTGATTTATTCT
*
18247812 GTCTGCTTCACTGCAACTTCAGGGAGATAAGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA
18247844 TTGATTTCTT
Statistics
Matches: 511, Mismatches: 29, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 511 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (127 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACCTCAGAAA
GATAAGATCTGGATGTTAATCCACTCCGCTGCAACTTCAGGGAGATAGGATTGATTTATTCT
Found at i:18247447 original size:44 final size:44
Alignment explanation
Indices: 18247392--18247931 Score: 285
Period size: 44 Copynumber: 12.6 Consensus size: 44
18247382 TGTTAATCCA
* * *
18247392 CTCCGCTGCAACTTCAAGGAGATAGGATTGATTTATTCTGCCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTCTGCCTG
* * **
18247436 CTCCTCTGCAACTTCAGGGAGATAAGACTGGATGCGA-TCTG-CT-
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGAT-TTATTCTGCCTG
* * ** * *
18247479 -T--TCTGCAACCTCAGAAAGATAAGATCTGGATGTTA--AT-CC-A
1 CTCCACTGCAACTTCAGGGAGATAAGAT-T-GAT-TTATTCTGCCTG
* *
18247519 CTCCGCTGCAACTTCAGGGAGATAGGATTGATTTATTCTGCCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTCTGCCTG
* * **
18247563 CTCCACTACAACTTCAGGGAGATAAGACTGGATGCGA-TCTG--T-
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGAT-TTATTCTGCCTG
* * ** * *
18247605 -T-CTCTGCAACCTCAGAAAGATAAGATCTGGATGTTA--AT-CC-A
1 CTCCACTGCAACTTCAGGGAGATAAGAT-T-GAT-TTATTCTGCCTG
* ** *
18247646 CTCCGCTGCAACTTCAGGGAGATCGGATTGATTTATTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTCTGCCTG
* **
18247690 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA-TCTG-CT-
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGAT-TTATTCTGCCTG
* ** * *
18247733 CT---CTGCAACCTCAGAAAGATAAGATCTGGATGTTA--AT-CC-A
1 CTCCACTGCAACTTCAGGGAGATAAGAT-T-GAT-TTATTCTGCCTG
* * * * *
18247773 CTCCGCTGTAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTCTGCCTG
* * * *
18247817 CTTCACTGCAACTTCAGGGAGATAAGATTGATTTCTTTTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTCTGCCTG
* * *
18247861 CTCCACTGCAACTTCAGGGAGGTAAGATTGATTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTCTGCCTG
*
18247905 CTCCACTGTAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
18247932 CTGAAGTTTC
Statistics
Matches: 381, Mismatches: 76, Indels: 78
0.71 0.14 0.15
Matches are distributed among these distances:
39 3 0.01
40 73 0.19
41 26 0.07
42 8 0.02
43 63 0.17
44 181 0.48
45 24 0.06
46 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTCTGCCTG
Found at i:18249121 original size:5 final size:5
Alignment explanation
Indices: 18249106--18249209 Score: 94
Period size: 5 Copynumber: 20.8 Consensus size: 5
18249096 TGGCCTCTCA
*
18249106 TTTTCC TTTTC TTTTC -TTTC -TTTC TTTCTTC TTTT- TTTTAT TTTTC
1 TTTT-C TTTTC TTTTC TTTTC TTTTC -TT-TTC TTTTC TTTT-C TTTTC
*
18249152 TTTTC -TTTC -TTTC TTTCTT TTTTC TTTTC TTTTC TTTTC TTTTC TTTTTC
1 TTTTC TTTTC TTTTC TTT-TC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC
18249202 TTTT- TTTT
1 TTTTC TTTT
18249210 AAGAAAAATA
Statistics
Matches: 87, Mismatches: 3, Indels: 18
0.81 0.03 0.17
Matches are distributed among these distances:
4 24 0.28
5 40 0.46
6 20 0.23
7 3 0.03
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:18249127 original size:4 final size:4
Alignment explanation
Indices: 18249113--18249198 Score: 72
Period size: 4 Copynumber: 20.8 Consensus size: 4
18249103 TCATTTTCCT
*
18249113 TTTC TTTTC TTTC TTTC TTTC -TTC TTT- TTT- TTATT TTTC TTTTC TTTC
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TTTC -TTTC TTTC
18249161 TTTC TTTC TTT- TTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTC TTTC TTTC TTTC -TTTC -TTTC -TTTC -TTTC TTT
18249199 TTCTTTTTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
3 11 0.15
4 34 0.46
5 29 0.39
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:18249158 original size:35 final size:35
Alignment explanation
Indices: 18249106--18249210 Score: 141
Period size: 35 Copynumber: 3.1 Consensus size: 35
18249096 TGGCCTCTCA
*
18249106 TTTTCCTTTTCTTTTCTTTCTTTCTTTCTTCTTTT
1 TTTTACTTTTCTTTTCTTTCTTTCTTTCTTCTTTT
*
18249141 TTTTATTTTTCTTTTCTTTCTTTCTTTCTT-TTTT
1 TTTTACTTTTCTTTTCTTTCTTTCTTTCTTCTTTT
18249175 CTTTT-CTTTTCTTTTC--T-TTTCTTT-TTCTTTT
1 -TTTTACTTTTCTTTTCTTTCTTTCTTTCTTCTTTT
18249206 TTTTA
1 TTTTA
18249211 AGAAAAATAT
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
30 6 0.09
31 11 0.17
32 1 0.02
34 14 0.22
35 32 0.50
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (35 bp):
TTTTACTTTTCTTTTCTTTCTTTCTTTCTTCTTTT
Found at i:18249177 original size:39 final size:40
Alignment explanation
Indices: 18249105--18249209 Score: 139
Period size: 39 Copynumber: 2.7 Consensus size: 40
18249095 TTGGCCTCTC
* *
18249105 ATTTTCCTTTTCTTTTCTTTCTTTCTTTCTTCTTTT-TTTT
1 ATTTTTCTTTTC-TTTCTTTCTTTCTTTTTTCTTTTCTTTT
18249145 ATTTTTCTTTTCTTTCTTTCTTTCTTTTTTCTTTTCTTTT
1 ATTTTTCTTTTCTTTCTTTCTTTCTTTTTTCTTTTCTTTT
*
18249185 -CTTTTCTTTTC-TT-TTTCTTT-TTTTT
1 ATTTTTCTTTTCTTTCTTTCTTTCTTTTT
18249210 AAGAAAAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
36 5 0.08
37 7 0.11
38 2 0.03
39 32 0.52
40 15 0.25
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (40 bp):
ATTTTTCTTTTCTTTCTTTCTTTCTTTTTTCTTTTCTTTT
Found at i:18252763 original size:25 final size:25
Alignment explanation
Indices: 18252728--18252789 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
18252718 ATTATGAAAT
*
18252728 GAAT-AAAGAATGATGTA-GAAAAAA
1 GAATAAAAGAATAAT-TACGAAAAAA
**
18252752 GAATAAAAGAATAATTACTCAAAAA
1 GAATAAAAGAATAATTACGAAAAAA
18252777 GAATAAAAGAATA
1 GAATAAAAGAATA
18252790 CTGGCTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.18
25 27 0.82
ACGTcount: A:0.65, C:0.03, G:0.15, T:0.18
Consensus pattern (25 bp):
GAATAAAAGAATAATTACGAAAAAA
Found at i:18252797 original size:25 final size:25
Alignment explanation
Indices: 18252747--18252801 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
18252737 ATGATGTAGA
*
18252747 AAAAAGAATAAAAGAATAATTACTC
1 AAAAAGAATAAAAGAATAATGACTC
* *
18252772 AAAAAGAATAAAAGAATACTGGCTC
1 AAAAAGAATAAAAGAATAATGACTC
18252797 AAAAA
1 AAAAA
18252802 TGCATACGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.16
Consensus pattern (25 bp):
AAAAAGAATAAAAGAATAATGACTC
Found at i:18256269 original size:51 final size:51
Alignment explanation
Indices: 18256206--18256311 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
18256196 ACAGAGTTCT
18256206 TTCCCTTATCTTTCCCTTCGGTCAACAATCGCGTTAAGTTTGTCATCATAC
1 TTCCCTTATCTTTCCCTTCGGTCAACAATCGCGTTAAGTTTGTCATCATAC
18256257 TTCCCTTATCTTTCCCTTCGGTCAACAATCGCGTTAAGTTTGTCATCATAC
1 TTCCCTTATCTTTCCCTTCGGTCAACAATCGCGTTAAGTTTGTCATCATAC
18256308 TTCC
1 TTCC
18256312 TTGTGATTCC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.40
Consensus pattern (51 bp):
TTCCCTTATCTTTCCCTTCGGTCAACAATCGCGTTAAGTTTGTCATCATAC
Found at i:18260182 original size:2 final size:2
Alignment explanation
Indices: 18260177--18260213 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
18260167 ATAATAAAGT
18260177 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18260214 AAATATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18260265 original size:15 final size:17
Alignment explanation
Indices: 18260247--18260283 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
18260237 ATATAGAAAT
*
18260247 AAATACAAATA-AA-CA
1 AAATAAAAATATAAGCA
18260262 AAATAAAAATATAAGCA
1 AAATAAAAATATAAGCA
18260279 AAATA
1 AAATA
18260284 TATTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 10 0.53
16 2 0.11
17 7 0.37
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.16
Consensus pattern (17 bp):
AAATAAAAATATAAGCA
Found at i:18262204 original size:25 final size:26
Alignment explanation
Indices: 18262173--18262221 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
18262163 AGAGAAAAAG
*
18262173 AAAGAAATAGATAAAA-CTCTAGAGA
1 AAAGAAAGAGATAAAATCTCTAGAGA
18262198 AAAGAAAGAGATAAAATCTCTAGA
1 AAAGAAAGAGATAAAATCTCTAGA
18262222 AAGCTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.59, C:0.08, G:0.16, T:0.16
Consensus pattern (26 bp):
AAAGAAAGAGATAAAATCTCTAGAGA
Found at i:18263049 original size:16 final size:16
Alignment explanation
Indices: 18263028--18263078 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
18263018 CGAATTATTG
18263028 ATTATAGCTCTATTCC
1 ATTATAGCTCTATTCC
* *
18263044 ATTATAACTGTATTCC
1 ATTATAGCTCTATTCC
*
18263060 ATTATAGCCCTATTCC
1 ATTATAGCTCTATTCC
18263076 ATT
1 ATT
18263079 CCTCCCAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:18263991 original size:15 final size:15
Alignment explanation
Indices: 18263971--18264049 Score: 56
Period size: 15 Copynumber: 5.1 Consensus size: 15
18263961 ACTACAAAAC
18263971 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
18263986 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
18264005 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
18264020 ATTAATT-TTGAATA-
1 ATTTATTATT-AATAT
*
18264034 ATTT-TTAATAATAT
1 ATTTATTATTAATAT
18264048 AT
1 AT
18264050 GAAGAATATT
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
13 6 0.12
14 8 0.16
15 18 0.36
16 1 0.02
17 7 0.14
18 1 0.02
19 9 0.18
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:18265268 original size:5 final size:6
Alignment explanation
Indices: 18265242--18265267 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18265232 AATTGTACTT
18265242 AAATTA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AA
18265268 TAATTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATTA
Found at i:18267340 original size:11 final size:11
Alignment explanation
Indices: 18267317--18267350 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
18267307 AACAAATCTT
18267317 CTCTCATATTTC
1 CTCTCA-ATTTC
18267329 CTCTCAATTTC
1 CTCTCAATTTC
18267340 CTCTCAATTTC
1 CTCTCAATTTC
18267351 TTTCCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.18, C:0.35, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:18267365 original size:22 final size:22
Alignment explanation
Indices: 18267315--18267390 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
18267305 CAAACAAATC
*
18267315 TTCTCTCATATTTCC-TCTC-AAT
1 TTCTCTCA-ATTTCCAT-TCAAAA
*
18267337 TTCCTCTCAATTT-CTTTCCAAAA
1 TT-CTCTCAATTTCCATT-CAAAA
18267360 TTCTCTCAATTTCCATTCAAAA
1 TTCTCTCAATTTCCATTCAAAA
18267382 TTCTCTCAA
1 TTCTCTCAA
18267391 ATCCATATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
21 2 0.04
22 32 0.68
23 13 0.28
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (22 bp):
TTCTCTCAATTTCCATTCAAAA
Found at i:18269249 original size:18 final size:18
Alignment explanation
Indices: 18269223--18269257 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18269213 AGGTGCGTTT
*
18269223 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
18269241 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
18269258 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:18269767 original size:25 final size:25
Alignment explanation
Indices: 18269729--18269866 Score: 137
Period size: 25 Copynumber: 5.7 Consensus size: 25
18269719 TATTTTGATA
18269729 TTATTTGATGTAATAAAATAAAAGT
1 TTATTTGATGTAATAAAATAAAAGT
* *
18269754 TTATTTGATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAAAAGT
18269779 TTATTTGATGTAATAAAATAGAAA-T
1 TTATTTGATGTAATAAAATA-AAAGT
*** * *
18269804 TT-TTTCGA-GT--TATTTTGATA--
1 TTATTT-GATGTAATAAAATAAAAGT
*
18269824 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAAAAGT
18269849 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
18269867 ACCCTAACCT
Statistics
Matches: 90, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
20 4 0.04
21 7 0.08
22 3 0.03
23 4 0.04
24 5 0.06
25 65 0.72
26 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAAAAGT
Found at i:18269828 original size:45 final size:44
Alignment explanation
Indices: 18269675--18269856 Score: 199
Period size: 45 Copynumber: 4.0 Consensus size: 44
18269665 ATATTTTGAA
* *
18269675 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTGAGT
18269719 TATTTTGATATTATTTGATGTAATAAAATA-AAAGTTTATTTGA-T
1 TATTTTGATATTATTTGATGTAATAAAATAGAAA-TTT-TTTGAGT
* *
18269763 ATAATAAAATAGA-AGTTTATTTGATGTAATAAAATAGAAATTTTTTCGAGT
1 -T-AT---TTTGATA--TTATTTGATGTAATAAAATAGAAATTTTTT-GAGT
*
18269814 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTT-TTTGA
18269857 TGTAATAAAA
Statistics
Matches: 117, Mismatches: 7, Indels: 27
0.77 0.05 0.18
Matches are distributed among these distances:
43 3 0.03
44 32 0.27
45 34 0.29
46 8 0.07
47 1 0.01
48 1 0.01
49 8 0.07
50 26 0.22
51 4 0.03
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.47
Consensus pattern (44 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTGAGT
Found at i:18269832 original size:95 final size:94
Alignment explanation
Indices: 18269685--18269866 Score: 319
Period size: 95 Copynumber: 1.9 Consensus size: 94
18269675 TATTTTGATA
*
18269685 TTATTTTATGTAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAA
1 TTATTTGATGTAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAA
18269750 AAGTTTATTTGATATAATAAAATAGAAGT
66 AAGTTTATTTGATATAATAAAATAGAAGT
*
18269779 TTATTTGATGTAATAAAATAGAAATTTTTTCGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAAAAAAATAGAAATTTTTT-GAGTTATTTTGATATTATTTGATGTAATAAAATA
* *
18269844 GAAGTTTATTTGATGTAATAAAA
65 AAAGTTTATTTGATATAATAAAA
18269867 ACCCTAACCT
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
94 28 0.34
95 55 0.66
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.45
Consensus pattern (94 bp):
TTATTTGATGTAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAA
AAGTTTATTTGATATAATAAAATAGAAGT
Found at i:18269914 original size:23 final size:23
Alignment explanation
Indices: 18269862--18270090 Score: 156
Period size: 23 Copynumber: 9.6 Consensus size: 23
18269852 TTTGATGTAA
*
18269862 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
***
18269885 CCTAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
18269908 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
18269937 TAAAAACCCTAAACC----TTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
18269958 TAAAAACCCTAAACCTTAA-CT--T
1 TAAAAACCCT-AACC-TAATTTAAT
*
18269980 TAAAAACCCTAAACCTTAA-CT--T
1 TAAAAACCCT-AACC-TAATTTAAT
18270002 TAAAAACCCTAACCTAATTTAA-
1 TAAAAACCCTAACCTAATTTAAT
18270024 TACAAAACCCTAACCTAATTTAAT
1 TA-AAAACCCTAACCTAATTTAAT
18270048 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
18270077 TAAAAACCCTAACC
1 TAAAAACCCTAACC
18270091 CTAACCTAAT
Statistics
Matches: 174, Mismatches: 9, Indels: 46
0.76 0.04 0.20
Matches are distributed among these distances:
20 7 0.04
21 21 0.12
22 35 0.20
23 55 0.32
24 5 0.03
25 4 0.02
26 1 0.01
27 6 0.03
29 40 0.23
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:18269922 original size:29 final size:29
Alignment explanation
Indices: 18269882--18270207 Score: 213
Period size: 29 Copynumber: 12.0 Consensus size: 29
18269872 AACCTAATTT
18269882 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
18269912 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
18269941 AACCCT-A----AACC----TTAACTTAAA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
* *
18269962 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
18269984 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
18270006 AACCCT-A-----ACCTAATTTAA-TACAA
1 AACCCTAACCCTAACCTAATTTAATTA-AA
18270029 AACCCTAA-CCT-----AATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
18270052 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
18270081 AACCCTAACCCTAACCTAATTTAATAATTTAATTAAA
1 AACCCTAACCCTAACC--------TAATTTAATTAAA
*
18270118 AACCCTACCCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
18270147 AACCCTAAACCCTAACTTAATTTAATTTAAA
1 AACCCT-AACCCTAACCTAATTTAA-TTAAA
18270178 AA-CCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
18270207 A
1 A
18270208 CTCGGAATCT
Statistics
Matches: 253, Mismatches: 6, Indels: 75
0.76 0.02 0.22
Matches are distributed among these distances:
20 7 0.03
21 13 0.05
22 36 0.14
23 25 0.10
24 10 0.04
25 1 0.00
28 1 0.00
29 82 0.32
30 43 0.17
31 7 0.03
37 28 0.11
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:18270016 original size:21 final size:22
Alignment explanation
Indices: 18269936--18270013 Score: 149
Period size: 22 Copynumber: 3.6 Consensus size: 22
18269926 CCTAATTTAA
18269936 TTAAAAACCCTAAACCTTAAC-
1 TTAAAAACCCTAAACCTTAACT
18269957 TTAAAAACCCTAAACCTTAACT
1 TTAAAAACCCTAAACCTTAACT
18269979 TTAAAAACCCTAAACCTTAACT
1 TTAAAAACCCTAAACCTTAACT
18270001 TTAAAAACCCTAA
1 TTAAAAACCCTAA
18270014 CCTAATTTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 21 0.38
22 35 0.62
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAAAACCCTAAACCTTAACT
Found at i:18270016 original size:43 final size:41
Alignment explanation
Indices: 18269936--18270023 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 41
18269926 CCTAATTTAA
18269936 TTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACT
1 TTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACC-TAA-T
18269979 TTAAAAACCCTAAACCTTAACTTTAAAAACCCT-AACCTAAT
1 TTAAAAACCCTAAACCTTAAC-TTAAAAACCCTAAACCTAAT
18270020 TTAA
1 TTAA
18270024 TACAAAACCC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
41 5 0.11
42 3 0.07
43 25 0.57
44 11 0.25
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (41 bp):
TTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCTAAT
Found at i:18270114 original size:37 final size:37
Alignment explanation
Indices: 18270068--18270142 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
18270058 AACCCTAACC
18270068 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
*
18270105 TAATTTAATTAAAAACCCTACCCCTAACCTAATTTAA
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
18270142 T
1 T
18270143 TAAAAACCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (37 bp):
TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
Found at i:18270117 original size:66 final size:64
Alignment explanation
Indices: 18270039--18270207 Score: 242
Period size: 66 Copynumber: 2.7 Consensus size: 64
18270029 AACCCTAACC
18270039 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTT
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAA-TT
* *
18270103 AATAATTTAATTAAAAACCCTACCCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACTTAAT
1 --TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAAT
18270168 T
64 T
18270169 TAA--T--TTAAAAA-CCTAAACCCTAACCTAATTTAATTAAAA
1 TAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAA
18270208 CTCGGAATCT
Statistics
Matches: 98, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
59 3 0.03
60 30 0.31
62 1 0.01
64 3 0.03
66 49 0.50
67 12 0.12
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (64 bp):
TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATT
Found at i:18270389 original size:43 final size:41
Alignment explanation
Indices: 18270329--18270445 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 41
18270319 NNNNNNNNNN
* *
18270329 ACCTTAACTTTAAAAACCCTAAACTAATTTAACTAACCCT-A
1 ACCTTAACTTTAAAAACCCTAAACTAACTTAA-AAACCCTAA
* *
18270370 A-CTTAATTTAATTAAAAACCCTAACCCTAACTTAAAAACCCTAA
1 ACCTTAA-CT--TTAAAAACCCTAA-ACTAACTTAAAAACCCTAA
*
18270414 ACCTTAACTTTAAAAACCCTAAACTAAGTTAA
1 ACCTTAACTTTAAAAACCCTAAACTAACTTAA
18270446 TAATTTTACA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
40 5 0.08
41 10 0.16
42 13 0.21
43 19 0.30
44 11 0.17
45 5 0.08
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (41 bp):
ACCTTAACTTTAAAAACCCTAAACTAACTTAAAAACCCTAA
Found at i:18270406 original size:20 final size:21
Alignment explanation
Indices: 18270333--18270435 Score: 88
Period size: 20 Copynumber: 4.9 Consensus size: 21
18270323 NNNNNNACCT
*
18270333 TAACTTTAAAAACCCTAA-AC
1 TAACTTTAAAAACCCTAACCC
* *
18270353 TAA-TTTAACTAACCCTAA-CT
1 TAACTTTAA-AAACCCTAACCC
*
18270373 TAATTTAATTAAAAACCCTAACCC
1 TAA-CT--TTAAAAACCCTAACCC
*
18270397 TAAC-TTAAAAACCCTAAACCT
1 TAACTTTAAAAACCCT-AACCC
18270418 TAACTTTAAAAACCCTAA
1 TAACTTTAAAAACCCTAA
18270436 ACTAAGTTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
19 5 0.07
20 25 0.37
21 10 0.15
22 12 0.18
23 8 0.12
24 8 0.12
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
TAACTTTAAAAACCCTAACCC
Found at i:18270416 original size:21 final size:22
Alignment explanation
Indices: 18270381--18270437 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
18270371 CTTAATTTAA
18270381 TTAAAAACCCT-AACCCTAAC-
1 TTAAAAACCCTAAACCCTAACT
*
18270401 TTAAAAACCCTAAACCTTAACT
1 TTAAAAACCCTAAACCCTAACT
18270423 TTAAAAACCCTAAAC
1 TTAAAAACCCTAAAC
18270438 TAAGTTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 11 0.32
21 8 0.24
22 15 0.44
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (22 bp):
TTAAAAACCCTAAACCCTAACT
Found at i:18270651 original size:116 final size:116
Alignment explanation
Indices: 18270447--18270667 Score: 406
Period size: 116 Copynumber: 1.9 Consensus size: 116
18270437 CTAAGTTAAT
* * *
18270447 AATTTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTTCTACTAACAATTAATAATT
1 AATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGCTACTAACAATTAATAATT
18270512 TTATATAATTTGATAATTTTACTAACCATTAATACAATTTCTAGAGCTAAC
66 TTATATAATTTGATAATTTTACTAACCATTAATACAATTTCTAGAGCTAAC
*
18270563 AATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATT
1 AATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGCTACTAACAATTAATAATT
18270628 TTATATAATTTGATAATTTTACTAACCATTAATACAATTT
66 TTATATAATTTGATAATTTTACTAACCATTAATACAATTT
18270668 TTTAAGTTAA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 101 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (116 bp):
AATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGCTACTAACAATTAATAATT
TTATATAATTTGATAATTTTACTAACCATTAATACAATTTCTAGAGCTAAC
Found at i:18270696 original size:17 final size:17
Alignment explanation
Indices: 18270655--18270696 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
18270645 TTTACTAACC
* *
18270655 ATTAATACAATTTTTTA
1 ATTAATACAATTTATCA
18270672 AGTTAATACAATTTATCA
1 A-TTAATACAATTTATCA
18270690 ATTAATA
1 ATTAATA
18270697 ATTGCACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTAATACAATTTATCA
Found at i:18274000 original size:126 final size:126
Alignment explanation
Indices: 18273707--18274183 Score: 798
Period size: 126 Copynumber: 3.8 Consensus size: 126
18273697 CCCAAACATG
*
18273707 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTTTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
* * *
18273772 TAGAAGCGATTTTATACTATTTGCTTAGAAACGTC--AAAAA-AATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
* * *
18273830 CTATTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCACCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
* *
18273895 TAGCAGCGATTTTATTCTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
*
18273956 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
*
18274021 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTTAAAAAAATAATTATTTCTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
* * *
18274082 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATGGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
*
18274147 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
18274184 CTCGAAATTA
Statistics
Matches: 331, Mismatches: 20, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
123 93 0.28
125 5 0.02
126 233 0.70
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
Found at i:18274377 original size:42 final size:42
Alignment explanation
Indices: 18274276--18274377 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
18274266 AAAAACGGCA
* *
18274276 AAATCGCTTCCACGTCAGCGCGATGTCAGGGTACACGTCAGG
1 AAATCGCATCCACGTCAGCGCGAAGTCAGGGTACACGTCAGG
* *
18274318 AAATCCCATCCACGTCAGCGCGAAGTCAGGGTATACGTCAGG
1 AAATCGCATCCACGTCAGCGCGAAGTCAGGGTACACGTCAGG
* *
18274360 AAATCGCGTCCATGTCAG
1 AAATCGCATCCACGTCAG
18274378 GGTACCCATA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (42 bp):
AAATCGCATCCACGTCAGCGCGAAGTCAGGGTACACGTCAGG
Found at i:18275490 original size:47 final size:47
Alignment explanation
Indices: 18275436--18275529 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
18275426 CACCCAACTT
18275436 GCCCTAGCCCGTGTGGCCTACACGGCTACACTCACACCATTATATTA
1 GCCCTAGCCCGTGTGGCCTACACGGCTACACTCACACCATTATATTA
18275483 GCCCTAGCCCGTGTGGCCTACACGGCTACACTCACACCATTATATTA
1 GCCCTAGCCCGTGTGGCCTACACGGCTACACTCACACCATTATATTA
18275530 CCGTCTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.23
Consensus pattern (47 bp):
GCCCTAGCCCGTGTGGCCTACACGGCTACACTCACACCATTATATTA
Found at i:18281843 original size:22 final size:22
Alignment explanation
Indices: 18281805--18281851 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
18281795 ATAAAAAGAC
18281805 AAAGAAACAAAAGAAGA-ACAGA
1 AAAGAAACAAAAGAAGAGAC-GA
*
18281827 AAAGAAAC-AGAGAAAGAGACGA
1 AAAGAAACAAAAG-AAGAGACGA
18281849 AAA
1 AAA
18281852 CAGGGGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 3 0.14
22 17 0.77
23 2 0.09
ACGTcount: A:0.70, C:0.09, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAGAAACAAAAGAAGAGACGA
Found at i:18282493 original size:24 final size:23
Alignment explanation
Indices: 18282466--18282512 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
18282456 TAATCATGGG
18282466 ACATTT-AAAGTAAGGTAAGTAATA
1 ACATTTGAAAGTAA-GTAAG-AATA
*
18282490 ACATTTGAAATTAAGTAAGAATA
1 ACATTTGAAAGTAAGTAAGAATA
18282513 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTGAAAGTAAGTAAGAATA
Found at i:18287375 original size:13 final size:13
Alignment explanation
Indices: 18287347--18287385 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
18287337 TTACATATAC
18287347 AGATA-ACAGAATT
1 AGATATACAGAA-T
18287360 AGATATACAGAAT
1 AGATATACAGAAT
*
18287373 AGATATAGAGAAT
1 AGATATACAGAAT
18287386 CCTACCTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.54, C:0.05, G:0.18, T:0.23
Consensus pattern (13 bp):
AGATATACAGAAT
Found at i:18287588 original size:2 final size:2
Alignment explanation
Indices: 18287581--18287609 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18287571 CACTCCAAAC
18287581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18287610 GAATACAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18289420 original size:26 final size:26
Alignment explanation
Indices: 18289384--18289439 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
18289374 ATATTTTCTC
* *
18289384 AAAATTTTACTAGGGGCAAAATCGTT
1 AAAACTTTACTAAGGGCAAAATCGTT
*
18289410 AAAACTTTACTAAGGGTAAAATCGTT
1 AAAACTTTACTAAGGGCAAAATCGTT
18289436 AAAA
1 AAAA
18289440 TGTTGTTGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (26 bp):
AAAACTTTACTAAGGGCAAAATCGTT
Found at i:18293014 original size:22 final size:20
Alignment explanation
Indices: 18292972--18293023 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
18292962 GATTTTTAAA
18292972 ATAAAAAAA-T-TAAAAATT
1 ATAAAAAAATTCTAAAAATT
* *
18292990 ATATATAAATTCTAAAAAGTAT
1 ATAAAAAAATTCTAAAAA-T-T
18293012 ATAAAAAAATTC
1 ATAAAAAAATTC
18293024 AAGCTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.27
19 1 0.04
20 6 0.23
21 1 0.04
22 11 0.42
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAAAAAAATTCTAAAAATT
Found at i:18295073 original size:23 final size:23
Alignment explanation
Indices: 18295022--18295074 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
18295012 AAGTGTGTTA
*
18295022 TAATTCATCCTAGATATGGAAAT
1 TAATTTATCCTAGATATGGAAAT
18295045 TAATTTATCCTAGATATGGAAAT
1 TAATTTATCCTAGATATGGAAAT
18295068 TAATTTA
1 TAATTTA
18295075 ACTATGTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (23 bp):
TAATTTATCCTAGATATGGAAAT
Found at i:18299719 original size:20 final size:22
Alignment explanation
Indices: 18299696--18299744 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
18299686 ACTTGTATTA
* *
18299696 GTACTTCTCC-AA-ATGTAGTT
1 GTACTTCTCCTAAGAAGTACTT
18299716 GTACTTCTCCTAAGAAGTACTT
1 GTACTTCTCCTAAGAAGTACTT
18299738 GTACTTC
1 GTACTTC
18299745 ACTAGAGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 2 0.08
22 13 0.52
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (22 bp):
GTACTTCTCCTAAGAAGTACTT
Found at i:18304446 original size:57 final size:58
Alignment explanation
Indices: 18304326--18304449 Score: 162
Period size: 57 Copynumber: 2.2 Consensus size: 58
18304316 CAAAACAACT
* * *
18304326 TTTTCTCTGGTTCTTTCAACTTTTGTAGTAGTTCTTTGAACTACTTTCCCAACTTTTC
1 TTTTCTTTGGTTCTTTCAACTTTTGTAGCAGTTCTTTAAACTACTTTCCCAACTTTTC
* * **
18304384 CTTTCTTTGGTTC-TTCAACTTTTGTAGCAGTTCTTTAAACTATTTTCCCTTC-TTTC
1 TTTTCTTTGGTTCTTTCAACTTTTGTAGCAGTTCTTTAAACTACTTTCCCAACTTTTC
18304440 ATTTTCTTTG
1 -TTTTCTTTG
18304450 AATAGAAGTC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 4 0.07
57 42 0.74
58 11 0.19
ACGTcount: A:0.15, C:0.22, G:0.10, T:0.54
Consensus pattern (58 bp):
TTTTCTTTGGTTCTTTCAACTTTTGTAGCAGTTCTTTAAACTACTTTCCCAACTTTTC
Found at i:18306976 original size:41 final size:40
Alignment explanation
Indices: 18306917--18307062 Score: 136
Period size: 41 Copynumber: 3.6 Consensus size: 40
18306907 CAGACTTATT
**
18306917 GTCTAGCAGGCTGGATGCCGGTGATATAATTCAGGCTATG
1 GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGGCTATG
* * * *
18306957 TGCCTAGCAGGCTTAATGCCGGTGA-ATTAATTCAGACTTTAC
1 -GTCTAGCAGGCTTAATGCCGGTGATA-TAATTCAGGCTAT-G
* * *
18306999 GTCTAGCAGGCTTAATACCGGTGATACATTTC-GGACTATAG
1 GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGG-CTAT-G
18307040 GTCTAGCAGGCTATAA-GCCGGTG
1 GTCTAGCAGGCT-TAATGCCGGTG
18307063 TATCGAATCA
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
40 2 0.02
41 80 0.93
42 4 0.05
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGGCTATG
Found at i:18313386 original size:13 final size:13
Alignment explanation
Indices: 18313359--18313400 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
18313349 CAAATTTATT
18313359 TTTTTAATAAGCAC
1 TTTTTAATAA-CAC
*
18313373 TTTTTCATAACAC
1 TTTTTAATAACAC
*
18313386 TTTTTAAAAACAC
1 TTTTTAATAACAC
18313399 TT
1 TT
18313401 CTCACTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (13 bp):
TTTTTAATAACAC
Found at i:18314639 original size:22 final size:22
Alignment explanation
Indices: 18314614--18314657 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18314604 ATTCATCATG
18314614 ATTTGAATAATAA-TAATAATAT
1 ATTTGAAT-ATAACTAATAATAT
*
18314636 ATTTTAATATAACTAATAATAT
1 ATTTGAATATAACTAATAATAT
18314658 TAATAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTGAATATAACTAATAATAT
Found at i:18316108 original size:20 final size:20
Alignment explanation
Indices: 18316083--18316120 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18316073 TAACAATAAT
*
18316083 ATTTTAATTTTAGGATATGC
1 ATTTTAATTTTAAGATATGC
*
18316103 ATTTTACTTTTAAGATAT
1 ATTTTAATTTTAAGATAT
18316121 AGCTATATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (20 bp):
ATTTTAATTTTAAGATATGC
Found at i:18325149 original size:25 final size:25
Alignment explanation
Indices: 18325115--18325164 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
18325105 AGTAGAGACA
18325115 ATAAAATTGCATGTTATCCATATAC
1 ATAAAATTGCATGTTATCCATATAC
*
18325140 ATAAAATTGCATTTTATCCATATAC
1 ATAAAATTGCATGTTATCCATATAC
18325165 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (25 bp):
ATAAAATTGCATGTTATCCATATAC
Found at i:18328666 original size:31 final size:31
Alignment explanation
Indices: 18328621--18328735 Score: 203
Period size: 31 Copynumber: 3.7 Consensus size: 31
18328611 TTTAGGGTTG
*
18328621 AAACATGTTGCCTATTCAAAGTGATTTTAGC
1 AAACAAGTTGCCTATTCAAAGTGATTTTAGC
*
18328652 AAACAAGTTACCTATTCAAAGTGATTTTAGC
1 AAACAAGTTGCCTATTCAAAGTGATTTTAGC
18328683 AAACAAGTTGCCTATTCAAAGTGATTTTAGC
1 AAACAAGTTGCCTATTCAAAGTGATTTTAGC
18328714 AAACAAGTTGCCTATTCTAAAG
1 AAACAAGTTGCCTATTC-AAAG
18328736 CTTTTCCGTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
31 76 0.95
32 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (31 bp):
AAACAAGTTGCCTATTCAAAGTGATTTTAGC
Found at i:18330349 original size:18 final size:17
Alignment explanation
Indices: 18330327--18330461 Score: 86
Period size: 18 Copynumber: 8.0 Consensus size: 17
18330317 AATATTAAGA
18330327 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
18330344 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
18330360 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
18330374 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* * *
18330393 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
*
18330409 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
18330427 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
18330444 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
18330462 TTAATCATAA
Statistics
Matches: 90, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 8 0.09
16 10 0.11
17 18 0.20
18 41 0.46
19 2 0.02
20 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:18330428 original size:41 final size:40
Alignment explanation
Indices: 18330264--18330446 Score: 109
Period size: 41 Copynumber: 4.6 Consensus size: 40
18330254 TATTTTAAAT
18330264 TATATTTTA-AGTATTATATATTATAATTTTAGTAAATTCA
1 TATATTTTATAGTATTATATATTATAATTTTAGTAAATT-A
*** * *
18330304 TATA-AGAATA-T-TTA-ATATTAAGAATTTTATTAAATTA
1 TATATTTTATAGTATTATATATT-ATAATTTTAGTAAATTA
**
18330341 TATATTTT-T-GTTAAATTATAT-TTAATAATAATTATTTTAAA-T-
1 TATATTTTATAG-T--ATTATATATT-ATAAT--TT-TAGTAAATTA
*
18330383 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAGTATTATATATTATAATTTTAGTAAATT-A
*
18330424 TATATTTTATTA-AATTATATATT
1 TATATTTTA-TAGTATTATATATT
18330447 TTTATTAAAT
Statistics
Matches: 110, Mismatches: 14, Indels: 37
0.68 0.09 0.23
Matches are distributed among these distances:
37 11 0.10
38 23 0.21
39 5 0.05
40 5 0.05
41 40 0.36
42 14 0.13
43 5 0.05
44 7 0.06
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (40 bp):
TATATTTTATAGTATTATATATTATAATTTTAGTAAATTA
Found at i:18330651 original size:39 final size:41
Alignment explanation
Indices: 18330608--18330709 Score: 100
Period size: 44 Copynumber: 2.4 Consensus size: 41
18330598 TTTCTTTATG
*
18330608 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TA-
1 CTATTACACCTCTATTCCATTCAACCAAACAAAAGAATTAC
* * *
18330647 CTATTACGTCTGTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTAC-AC----CTCTATTCCATTCAACCAAACAAAAGAATTAC
*
18330693 CTATTACGCCTCTATTC
1 CTATTACACCTCTATTC
18330710 TATTACGCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
39 7 0.14
40 1 0.02
41 6 0.12
44 25 0.51
45 3 0.06
46 7 0.14
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.30
Consensus pattern (41 bp):
CTATTACACCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:18330688 original size:44 final size:46
Alignment explanation
Indices: 18330621--18330709 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 46
18330611 TTACACCTCT
* * *
18330621 ATTCCATTCAACCAAACACAAGAA-TA-CTATTACGTCTGTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
18330665 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTC
18330710 TATTACGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 23 0.57
45 2 0.05
46 15 0.38
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.29
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:18330714 original size:16 final size:16
Alignment explanation
Indices: 18330695--18330747 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
18330685 AGAATTACCT
*
18330695 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
*
18330711 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
18330727 ATTACTCCTCTATTCC
1 ATTACGCCTCTATTCC
18330743 ATTAC
1 ATTAC
18330748 AGCGAATCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.23, C:0.32, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:18332188 original size:9 final size:9
Alignment explanation
Indices: 18332174--18332201 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
18332164 TGAGTTTTCG
18332174 AATTCGAAT
1 AATTCGAAT
18332183 AATTCGAAT
1 AATTCGAAT
18332192 AATTCGAAT
1 AATTCGAAT
18332201 A
1 A
18332202 TCAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:18341703 original size:16 final size:15
Alignment explanation
Indices: 18341677--18341706 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18341667 AGGTGCTCAT
18341677 GGGTTGGGCCAGGCC
1 GGGTTGGGCCAGGCC
18341692 GGGTTCGGGCCAGGC
1 GGGTT-GGGCCAGGC
18341707 TAAACTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.07, C:0.27, G:0.53, T:0.13
Consensus pattern (15 bp):
GGGTTGGGCCAGGCC
Found at i:18342018 original size:30 final size:30
Alignment explanation
Indices: 18341984--18342046 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
18341974 ACTTAACAAG
*
18341984 CAAATGCCTCTAAAATAATATCAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
18342014 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
18342044 CAA
1 CAA
18342047 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:18342101 original size:22 final size:22
Alignment explanation
Indices: 18342076--18342118 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18342066 TATCCAAAAA
18342076 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
18342098 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
18342119 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:18351819 original size:34 final size:35
Alignment explanation
Indices: 18351776--18351841 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
18351766 CCCAAATCAA
18351776 CATCATTTGTTGTAT-CCTTTTCAATAGTTTACAG
1 CATCATTTGTTGTATCCCTTTTCAATAGTTTACAG
18351810 CATCATTTGTTGTATCCCTTTTCAATAGTTTA
1 CATCATTTGTTGTATCCCTTTTCAATAGTTTA
18351842 ACGGTACACC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 15 0.48
35 16 0.52
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (35 bp):
CATCATTTGTTGTATCCCTTTTCAATAGTTTACAG
Found at i:18352293 original size:21 final size:21
Alignment explanation
Indices: 18352267--18352322 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
18352257 AACAGTGGTG
*
18352267 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
18352288 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
18352309 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
18352323 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:18360718 original size:20 final size:19
Alignment explanation
Indices: 18360693--18360748 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
18360683 GAATATCATT
18360693 ATATTTGTAAAAATTTATAA
1 ATATTT-TAAAAATTTATAA
*
18360713 ATATTTTTAATAATTTA-AA
1 ATA-TTTTAAAAATTTATAA
*
18360732 AT-TTTTAAAAATATATA
1 ATATTTTAAAAATTTATA
18360749 TTAGGATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 11 0.35
18 1 0.03
19 4 0.13
20 12 0.39
21 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATATTTTAAAAATTTATAA
Found at i:18372804 original size:20 final size:20
Alignment explanation
Indices: 18372763--18372799 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
18372753 AAAGATAAAG
18372763 AAATTAATAACTATAAAATA
1 AAATTAATAACTATAAAATA
18372783 AAATTAA-AA-TATAAAAT
1 AAATTAATAACTATAAAAT
18372800 TTAAAGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATTAATAACTATAAAATA
Found at i:18372828 original size:8 final size:8
Alignment explanation
Indices: 18372815--18372840 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18372805 GCACAATAAA
18372815 AAAATTGT
1 AAAATTGT
18372823 AAAATTGT
1 AAAATTGT
18372831 AAAATTGT
1 AAAATTGT
18372839 AA
1 AA
18372841 GAAGAGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.35
Consensus pattern (8 bp):
AAAATTGT
Found at i:18374991 original size:2 final size:2
Alignment explanation
Indices: 18374986--18375014 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18374976 TATGAATAGG
18374986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18375015 CGTATTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18377680 original size:6 final size:6
Alignment explanation
Indices: 18377669--18377702 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
18377659 GTAGTACCAT
18377669 TATTAG TATTAG TATTAG TATTAG TATTAG TATT
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATT
18377703 GCCTCCACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (6 bp):
TATTAG
Found at i:18377681 original size:18 final size:18
Alignment explanation
Indices: 18377650--18377700 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
18377640 TTTCCTAAGC
* *
18377650 TTATTTGTAGTAGTACCA
1 TTATTAGTATTAGTACCA
**
18377668 TTATTAGTATTAGTATTA
1 TTATTAGTATTAGTACCA
*
18377686 GTATTAGTATTAGTA
1 TTATTAGTATTAGTA
18377701 TTGCCTCCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (18 bp):
TTATTAGTATTAGTACCA
Found at i:18378611 original size:3 final size:3
Alignment explanation
Indices: 18378603--18378648 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
18378593 TGAAGGCATC
18378603 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18378649 TGAGATGAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18383759 original size:20 final size:19
Alignment explanation
Indices: 18383734--18383788 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
18383724 TCTTCTGCTA
18383734 TTTCTGTTATTTCTTTTCTT
1 TTTCTGTTATTTCTTTT-TT
* *
18383754 TTTCTGCTATTT-TGTTTT
1 TTTCTGTTATTTCTTTTTT
*
18383772 TTTCTCTT-TTTCTTTTT
1 TTTCTGTTATTTCTTTTT
18383789 CTATTTGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 3 0.10
18 12 0.41
19 3 0.10
20 11 0.38
ACGTcount: A:0.04, C:0.15, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTCTGTTATTTCTTTTTT
Found at i:18383763 original size:29 final size:26
Alignment explanation
Indices: 18383726--18383784 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
18383716 CCAAAATCTC
*
18383726 TTCTGCTATTTCTGTTATTTCTTTTCTTT
1 TTCTGCTATTT-TGTT-TTT-TTCTCTTT
18383755 TTCTGCTATTTTGTTTTTTTCTCTTT
1 TTCTGCTATTTTGTTTTTTTCTCTTT
18383781 TTCT
1 TTCT
18383785 TTTTCTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 11 0.38
27 3 0.10
28 4 0.14
29 11 0.38
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.71
Consensus pattern (26 bp):
TTCTGCTATTTTGTTTTTTTCTCTTT
Found at i:18383782 original size:16 final size:18
Alignment explanation
Indices: 18383752--18383788 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
18383742 ATTTCTTTTC
*
18383752 TTTTTCTGCTATTTTGTT
1 TTTTTCTGCTATTTTCTT
18383770 TTTTTCT-CT-TTTTCTT
1 TTTTTCTGCTATTTTCTT
18383786 TTT
1 TTT
18383789 CTATTTGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.03, C:0.14, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTTCTGCTATTTTCTT
Found at i:18384910 original size:214 final size:215
Alignment explanation
Indices: 18384624--18385060 Score: 653
Period size: 214 Copynumber: 2.0 Consensus size: 215
18384614 GCTTCCTCAG
* * * * * *
18384624 TCTGCCCCACTGTGACTTCAGGGGGTAAGAATTGTCATCTTCGATCTGCCCTATTGCAACTTCAG
1 TCTGCTCCACTGTAACTTCAGGGGATAAGAATTGCCATCTTCGATCTGCCCCACTGCAACTTCAG
* *
18384689 GGGGATAAGACCTACTTACTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGACGCGAT
66 GGGGATAAGACCTACTTACTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTAACGCGAT
**
18384754 CCACTCTACTGTAACTTCAGAGAGATAAGATC-TA-TTTAATCCGCTCCACTACAACTTCAGGGA
131 CCACTCTACTACAACTTCAGAGAGATAAGATCTTACTTTAATCCGCTCCACTACAACTTCAGGGA
18384817 GATAGGATTATCAGCTTCAA
196 GATAGGATTATCAGCTTCAA
* *
18384837 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTTGATCTGCCCCACTGCAACTTCA
1 TCTGCTCCACTGTAACTTCAGGG-GATAAGAATTGCCATCTTCGATCTGCCCCACTGCAACTTCA
** * * *
18384902 GGGGGATAAGACCTGTTTACTCAGTCTGCTCCTCTGCAACTTCAAGGATATAAGACCTAATGCGA
65 GGGGGATAAGACCTACTTACTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTAACGCGA
*
18384967 TCCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTTAG
130 TCCACTCTACTACAACTTCAGAGAGATAAGATC--TTACTTTAATCCGCTCCACTACAACTTCAG
*
18385032 GGAGATAGGATTATCGGCTTCAA
193 GGAGATAGGATTATCAGCTTCAA
*
18385055 TTTGCT
1 TCTGCT
18385061 TCCTTACACT
Statistics
Matches: 199, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
213 21 0.11
214 124 0.62
217 2 0.01
218 52 0.26
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (215 bp):
TCTGCTCCACTGTAACTTCAGGGGATAAGAATTGCCATCTTCGATCTGCCCCACTGCAACTTCAG
GGGGATAAGACCTACTTACTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTAACGCGAT
CCACTCTACTACAACTTCAGAGAGATAAGATCTTACTTTAATCCGCTCCACTACAACTTCAGGGA
GATAGGATTATCAGCTTCAA
Found at i:18385027 original size:44 final size:44
Alignment explanation
Indices: 18384495--18385038 Score: 197
Period size: 44 Copynumber: 12.6 Consensus size: 44
18384485 AATGCGATCT
* * * *
18384495 GCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
* * * * *
18384539 GCTCCAGTACAACCTCAGGGAGGTAGGAT-TATTGACTTCAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATT-ACTTCAATCC
* * * ** * * * * *
18384583 TCTCCACTGCAACCTCAGTAAGATAAGATTTGCTT-CCTCAGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCT-ATTACTTCAATCC
* *** * * * * *
18384627 GCCCCACTGTGACTTCAGGG-GGTAAGAAT-TGTCATCTTCGATCT
1 GCTCCACTACAACTTCAGGGAGATAAG-ATCTATTA-CTTCAATCC
* * * * * *
18384671 GC-CCTATTGCAACTTCAGGGGGATAAGACCTACTTAC-TCAGTCT
1 GCTCC-ACTACAACTTCAGGGAGATAAGATCTA-TTACTTCAATCC
* * * * * *
18384715 GCTCCGCTGCAACTTCAGGGAGATAAGA-C-CTGAC-GCGATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
* * ** *
18384756 ACTCTACTGTAACTTCAGAGAGATAAGATCTA-T--TT-AATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
* * *
18384796 GCTCCACTACAACTTCAGGGAGATAGGAT-TATCAGCTTCAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTA-CTTCAATCC
** * *** ** *
18384840 GCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTTGATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTA-CTTCAATCC
* * * * * * *
18384885 GCCCCACTGCAACTTCAGGGGGATAAGACCTGTTTAC-TCAGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCT-ATTACTTCAATCC
* * * * * * *
18384929 GCTCCTCTGCAACTTCAAGGATATAAGACCTA--A-TGCGATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
* * * *
18384970 ACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
*
18385014 GCTCCACTACAACTTTAGGGAGATA
1 GCTCCACTACAACTTCAGGGAGATA
18385039 GGATTATCGG
Statistics
Matches: 364, Mismatches: 111, Indels: 50
0.69 0.21 0.10
Matches are distributed among these distances:
39 2 0.01
40 27 0.07
41 57 0.16
42 2 0.01
43 16 0.04
44 208 0.57
45 47 0.13
46 5 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
Found at i:18385222 original size:128 final size:128
Alignment explanation
Indices: 18385030--18385773 Score: 1184
Period size: 128 Copynumber: 5.8 Consensus size: 128
18385020 CTACAACTTT
* * * * * *
18385030 AGGGAGATAGGA-TTATCGGCTTCAATTTGCTTCCTTACACTTGAAGATAAGATTCGTCATCTTC
1 AGGGACATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
18385094 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTC
65 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTC
* * *
18385158 AGGGACATAGGACTTGTGGCTTAAATTTGCATCCTTACACTTGAAGATAAGATTCGTCGTCTTCG
1 AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
* * * *
18385223 ATCTGCTCTGCTACTTCTTAAGGAGACAAGATCTGCAATTTCCAACCTATTCCATTGCTGGTC
66 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTC
* * *
18385286 AGGGACATAGTACCTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG
1 AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
* * *
18385351 ATCTGCTCCGCTACTGCTTAGGGAGACAAAATCTGTAATTTCCAACCTATTCCACTACTGGTC
66 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTC
* * * * *
18385414 AGGGTCATTGGACTTGTGGCTTAAATCTTCTTCTTTACACTTGAAGATAAGATTCGTCGTCTTCG
1 AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
* *
18385479 ATCTGCTCCGCTACTGCTTAGGGGGACAAGATCTGCAATTTCCAACCTATTCCACTACTGGTC
66 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTC
18385542 AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
1 AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
* * *
18385607 ATCTGCTCCGCTACTTCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCTACTGCTGGTC
66 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTC
18385670 AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
1 AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
* *
18385735 ATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTACAAT
66 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAAT
18385774 ATTCACTGAT
Statistics
Matches: 567, Mismatches: 48, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
128 564 0.99
129 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (128 bp):
AGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
ATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTC
Found at i:18386996 original size:16 final size:17
Alignment explanation
Indices: 18386967--18386999 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18386957 TTAGCCTCTC
*
18386967 CATTTTTACTTTTTCAT
1 CATTTTTACATTTTCAT
18386984 CATTTTT-CATTTTCAT
1 CATTTTTACATTTTCAT
18387000 TTTCCATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (17 bp):
CATTTTTACATTTTCAT
Found at i:18393888 original size:24 final size:24
Alignment explanation
Indices: 18393851--18393896 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
18393841 GACTGTGGAC
*
18393851 ATTTTAAAATTTGGTTTTATTTTT
1 ATTTTAAAATTTGGGTTTATTTTT
18393875 ATTTATAAAA-TTGGGTTTATTT
1 ATTT-TAAAATTTGGGTTTATTT
18393897 GCTAAGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (24 bp):
ATTTTAAAATTTGGGTTTATTTTT
Found at i:18394301 original size:16 final size:16
Alignment explanation
Indices: 18394280--18394311 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18394270 TGTCCATGGG
18394280 TCGGGTCGGGCCGGGT
1 TCGGGTCGGGCCGGGT
18394296 TCGGGTCGGGCCGGGT
1 TCGGGTCGGGCCGGGT
18394312 CCGGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.25, G:0.56, T:0.19
Consensus pattern (16 bp):
TCGGGTCGGGCCGGGT
Found at i:18395966 original size:10 final size:10
Alignment explanation
Indices: 18395935--18395968 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18395925 TTGAAAGGGG
18395935 TTTTTGAATT
1 TTTTTGAATT
* *
18395945 TTTTTTAGTT
1 TTTTTGAATT
18395955 TTTTTGAATT
1 TTTTTGAATT
18395965 TTTT
1 TTTT
18395969 AATGGAACCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (10 bp):
TTTTTGAATT
Found at i:18396265 original size:14 final size:15
Alignment explanation
Indices: 18396240--18396269 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18396230 CTTTATAGTT
18396240 ATATACCATATATAC
1 ATATACCATATATAC
18396255 ATATA-CATATATAC
1 ATATACCATATATAC
18396269 A
1 A
18396270 ACAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATACCATATATAC
Found at i:18396856 original size:4 final size:4
Alignment explanation
Indices: 18396847--18396873 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18396837 ACATAAGTGT
18396847 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
18396874 TATATATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:18401892 original size:17 final size:19
Alignment explanation
Indices: 18401858--18401897 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
18401848 TTATTAAAAA
18401858 TATTTATTTTAAATTAATT
1 TATTTATTTTAAATTAATT
*
18401877 TATTT-TTTTTAA-TAATT
1 TATTTATTTTAAATTAATT
18401894 TATT
1 TATT
18401898 AACCAATGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTATTTTAAATTAATT
Found at i:18404250 original size:31 final size:31
Alignment explanation
Indices: 18404212--18404287 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
18404202 TTGGCTTGGT
* *
18404212 TCAATTATATACATAAAAGTTTGATTTTGAA
1 TCAATTATATACATAAAAATTTAATTTTGAA
* * *
18404243 TCAATTATGTATATAAAAATTTAATTTTGAT
1 TCAATTATATACATAAAAATTTAATTTTGAA
*
18404274 TCAATTGTATACAT
1 TCAATTATATACAT
18404288 GACATAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.45
Consensus pattern (31 bp):
TCAATTATATACATAAAAATTTAATTTTGAA
Found at i:18405936 original size:5 final size:5
Alignment explanation
Indices: 18405926--18405950 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18405916 TGATTGATTT
18405926 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
18405951 GATTCGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:18411288 original size:22 final size:22
Alignment explanation
Indices: 18411257--18411326 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 22
18411247 AATCAAAGTC
*
18411257 AAAATGAAAATGAAAAAAATCA
1 AAAATAAAAATGAAAAAAATCA
*
18411279 AAAATAAAAAT-AAAAAAAACA
1 AAAATAAAAATGAAAAAAATCA
*
18411300 AAAAGAAGAAA-GAAGAAAAAATCA
1 AAAATAA-AAATG-A-AAAAAATCA
18411324 AAA
1 AAA
18411327 TCAAGATCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 15 0.38
22 13 0.32
23 1 0.03
24 11 0.28
ACGTcount: A:0.79, C:0.04, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAATAAAAATGAAAAAAATCA
Found at i:18411302 original size:27 final size:27
Alignment explanation
Indices: 18411238--18411344 Score: 64
Period size: 27 Copynumber: 4.1 Consensus size: 27
18411228 GAAGAAAAAG
* * *
18411238 AAAAATCAAAATCAAAGTCAAAATGAA
1 AAAAAACAAAATCAAAATAAAAATGAA
*
18411265 AATGAAA-AAAATCAAAAATAAAAAT-AA
1 AA-AAAACAAAATC-AAAATAAAAATGAA
* *
18411292 AAAAAACAAAA--AGAAGAAAGAA-G-A
1 AAAAAACAAAATCAAAATAAA-AATGAA
* * *
18411316 AAAAATCAAAATCAAGATCAAAATGAA
1 AAAAAACAAAATCAAAATAAAAATGAA
18411343 AA
1 AA
18411345 TGAGAAAAAG
Statistics
Matches: 59, Mismatches: 12, Indels: 18
0.66 0.13 0.20
Matches are distributed among these distances:
24 17 0.29
25 4 0.07
26 8 0.14
27 19 0.32
28 11 0.19
ACGTcount: A:0.73, C:0.07, G:0.08, T:0.11
Consensus pattern (27 bp):
AAAAAACAAAATCAAAATAAAAATGAA
Found at i:18413571 original size:43 final size:43
Alignment explanation
Indices: 18413506--18413771 Score: 365
Period size: 43 Copynumber: 6.2 Consensus size: 43
18413496 CGTGTTCACC
* * *
18413506 AGGGAAACAGATCCAAGATACGAATCTTATCTTCCGCAAGAGT
1 AGGGAAACAGATCCAAGCTACGAATCTTATCTTCCCCAGGAGT
*
18413549 AGGGAAACAAATCCAAGCTACGAATCTTATCTTCCCCAGGAGT
1 AGGGAAACAGATCCAAGCTACGAATCTTATCTTCCCCAGGAGT
*
18413592 AGGGAAACAGATCCAAGCTACGAATCTTATCTTCCCTAGGAGT
1 AGGGAAACAGATCCAAGCTACGAATCTTATCTTCCCCAGGAGT
* *
18413635 AGAGAAACAGATCTAAGC-ACGAATCTTATCTTCCCCAGGAGT
1 AGGGAAACAGATCCAAGCTACGAATCTTATCTTCCCCAGGAGT
* * **
18413677 AGGGAAATAGATCTAAGCGGCGAATCTTATCTTCCCCAGGAGT
1 AGGGAAACAGATCCAAGCTACGAATCTTATCTTCCCCAGGAGT
* * ** *
18413720 AGGGAAGCAGATCGAAGACGGCGAATCTTAT-TTTCCCAGGAGT
1 AGGGAAACAGATCCAAG-CTACGAATCTTATCTTCCCCAGGAGT
18413763 AGGGAAACA
1 AGGGAAACA
18413772 AATTTAAGCC
Statistics
Matches: 204, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
42 39 0.19
43 152 0.75
44 13 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (43 bp):
AGGGAAACAGATCCAAGCTACGAATCTTATCTTCCCCAGGAGT
Found at i:18413761 original size:128 final size:128
Alignment explanation
Indices: 18413509--18413780 Score: 366
Period size: 128 Copynumber: 2.1 Consensus size: 128
18413499 GTTCACCAGG
* * * *
18413509 GAAACAGATCCAAGATACGAATCTTATCTTCCGCAAGAGTAGGGAAACAAATCCAAGCTACGAAT
1 GAAACAGATCTAAG-CACGAATCTTATCTTCCCCAAGAGTAGGGAAACAAATCCAAGCGACGAAT
*
18413574 CTTATCTTCCCCAGGAGTAGGGAAACAGATCCAAGCTACGAATCTTATCTTCCCTAGGAGTAGA
65 CTTATCTTCCCCAGGAGTAGGGAAACAGATCCAAGCGACGAATCTTATCTTCCCTAGGAGTAGA
* * * * *
18413638 GAAACAGATCTAAGCACGAATCTTATCTTCCCCAGGAGTAGGGAAATAGATCTAAGCGGCGAATC
1 GAAACAGATCTAAGCACGAATCTTATCTTCCCCAAGAGTAGGGAAACAAATCCAAGCGACGAATC
* * * * *
18413703 TTATCTTCCCCAGGAGTAGGGAAGCAGATCGAAGACGGCGAATCTTATTTTCCC-AGGAGTAGG
66 TTATCTTCCCCAGGAGTAGGGAAACAGATCCAAG-CGACGAATCTTATCTTCCCTAGGAGTAGA
* *
18413766 GAAACAAATTTAAGC
1 GAAACAGATCTAAGC
18413781 CACAAGTCCT
Statistics
Matches: 125, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
128 96 0.77
129 29 0.23
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (128 bp):
GAAACAGATCTAAGCACGAATCTTATCTTCCCCAAGAGTAGGGAAACAAATCCAAGCGACGAATC
TTATCTTCCCCAGGAGTAGGGAAACAGATCCAAGCGACGAATCTTATCTTCCCTAGGAGTAGA
Found at i:18413981 original size:44 final size:44
Alignment explanation
Indices: 18413918--18414251 Score: 190
Period size: 44 Copynumber: 7.1 Consensus size: 44
18413908 CTGATAATCC
18413918 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATCT
** * **
18413962 TATCTCTTTGAAGTTACAGTAGAGTAGATTGCATCCGATTGAAGCCAGAA--ATCT
1 TATCTCCCTGAAGTTACAGT---G--GA--G---CGGATT-AAAACA-AATGATCT
* * * ** * *
18414016 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATCT
*
18414060 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATCT
* * * * *
18414104 TATTTCTCTGAAGTTACAGTAGAGTAGATAGCATCCGATTGAAGCTAGAA--ATCT
1 TATCTCCCTGAAGTTACAGT---G--G--AG---CGGATTAAAAC-A-AATGATCT
* * * * ** * *
18414158 TATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGCCGATAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATCT
18414202 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATCT
18414246 TATCTC
1 TATCTC
18414252 TTTGAAGTAG
Statistics
Matches: 220, Mismatches: 42, Indels: 56
0.69 0.13 0.18
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 135 0.61
47 5 0.02
49 6 0.03
51 5 0.02
54 56 0.25
55 5 0.02
56 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATCT
Found at i:18414072 original size:98 final size:98
Alignment explanation
Indices: 18413900--18414079 Score: 245
Period size: 98 Copynumber: 1.8 Consensus size: 98
18413890 TAAGGAAGCA
* * * *
18413900 GATTGAAGCTGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATCTTAT
1 GATTGAAGCAGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAATAATCCTAT
**
18413965 CTCTTTGAAGTTACAGTAGAGTAGATTGCATCC
66 CTCCCTGAAGTTACAGTAGAGTAGATTGCATCC
* * * **
18413998 GATTGAAGCCAGA-AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAATCCTA
1 GATTGAAG-CAGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAATAATCCTA
18414062 TCTCCCTGAAGTTACAGT
65 TCTCCCTGAAGTTACAGT
18414080 GGAGCGGATT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
98 67 0.96
99 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (98 bp):
GATTGAAGCAGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAATAATCCTAT
CTCCCTGAAGTTACAGTAGAGTAGATTGCATCC
Found at i:18414154 original size:142 final size:141
Alignment explanation
Indices: 18413896--18414414 Score: 716
Period size: 142 Copynumber: 3.7 Consensus size: 141
18413886 AGTGTAAGGA
*
18413896 AGCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATC
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATC
* *
18413961 TTATCTCTTTGAAGTTACAGTAGAGTAGATTGCATCCGATTGAAGCCAGAAATCTTATCTCCCTG
66 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCGATTGAAG-CAGAAATCTTATCTCCCTG
18414026 AAGTTACAGTGG
130 AAGTTACAGTGG
*
18414038 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAAGGATC
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATC
* * *
18414103 TTATTTCTCTGAAGTTACAGTAGAGTAGATAGCATCCGATTGAAGCTAGAAATCTTATCTCCCTA
66 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCGATTGAAGC-AGAAATCTTATCTCCCTG
18414168 AAGTTACAGTGG
130 AAGTTACAGTGG
18414180 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATC
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATC
* * *
18414245 TTATCTCTTTGAAG-T--AG-A-A-TAGATCGCATTCGATTGAAGACAGAGATCTTATCTCCCTG
66 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCGATTGAAG-CAGAAATCTTATCTCCCTG
** *
18414304 -AGATTACAACGA
130 AAG-TTACAGTGG
* * * * **
18414316 AGTAGATCGAAGAC-ACT-ATCCTATCTCCCTAAAGTTACAGTGGAGCGGATT-AAAGTAATAGA
1 AGCAGATTGAAGCCGA-TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAAT-GA
** *
18414378 TCTTATCTCTCTGAAGTTGTAGTAGAGTGGATCGCAT
64 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
18414415 TAGGTCTTAT
Statistics
Matches: 342, Mismatches: 24, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
134 6 0.02
135 53 0.15
136 53 0.15
137 2 0.01
138 3 0.01
139 3 0.01
140 1 0.00
141 11 0.03
142 210 0.61
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (141 bp):
AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAATGATC
TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCGATTGAAGCAGAAATCTTATCTCCCTGA
AGTTACAGTGG
Found at i:18414213 original size:98 final size:98
Alignment explanation
Indices: 18414042--18414221 Score: 227
Period size: 98 Copynumber: 1.8 Consensus size: 98
18414032 CAGTGGAGCA
* * * * *
18414042 GATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAAGGATCTTAT
1 GATTGAAGCAGATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAAAGAATCCTAT
* *
18414107 TTCTCTGAAGTTACAGTAGAGTAGATAGCATCC
66 CTCCCTGAAGTTACAGTAGAGTAGATAGCATCC
* * * ** *
18414140 GATTGAAGCTAGA-AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGCCGATAATCCTA
1 GATTGAAGC-AGATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAAAGAATCCTA
18414204 TCTCCCTGAAGTTACAGT
65 TCTCCCTGAAGTTACAGT
18414222 GGAGCGGATT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
98 66 0.97
99 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (98 bp):
GATTGAAGCAGATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAAAGAATCCTAT
CTCCCTGAAGTTACAGTAGAGTAGATAGCATCC
Found at i:18414493 original size:44 final size:44
Alignment explanation
Indices: 18414418--18414537 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 44
18414408 ATCGCATTAG
* * *
18414418 GTCTTATCTCCCTGATGTTGCAGCGGAGCAGACTG-AGAAAACAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAAG-AAACAA
* * *
18414462 GTCTTATC-CCTCTGAAGTTACAGTGGGGCAGACCGAAGAAGCAA
1 GTCTTATCTCC-CTGAAGTTGCAGTGGAGCAGACCGAAGAAACAA
* *
18414506 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
18414538 TTGAAGTCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
43 2 0.03
44 57 0.90
45 4 0.06
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAAGAAACAA
Found at i:18415215 original size:5 final size:5
Alignment explanation
Indices: 18415205--18415229 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18415195 TTGTTTGATT
18415205 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
18415230 GATTCGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:18416554 original size:13 final size:13
Alignment explanation
Indices: 18416536--18416560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18416526 TTCATTTAAG
18416536 ATTAGTTTAGTTC
1 ATTAGTTTAGTTC
18416549 ATTAGTTTAGTT
1 ATTAGTTTAGTT
18416561 TAGTTCATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (13 bp):
ATTAGTTTAGTTC
Found at i:18422552 original size:35 final size:34
Alignment explanation
Indices: 18422513--18422625 Score: 86
Period size: 35 Copynumber: 3.1 Consensus size: 34
18422503 AACATATACT
18422513 TAATATTAAATTTAAGTATTTAAGAAGTAAAAGAA
1 TAATATTAAATTTAAGTATTTAA-AAGTAAAAGAA
* ** * * *
18422548 TAATAAATAAGTAAATAAATCA-ATAAAA-CAAATATGAA
1 TAAT-ATTAA--ATTTAAGT-ATTTAAAAGTAAA-A-GAA
18422586 TAATATTAAATTTAAGTATTTAAAAAGTAAAAGAA
1 TAATATTAAATTTAAGTATTT-AAAAGTAAAAGAA
18422621 TAATA
1 TAATA
18422626 AATAAATAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 18
0.66 0.14 0.21
Matches are distributed among these distances:
34 1 0.02
35 18 0.32
36 12 0.21
37 10 0.18
38 15 0.26
39 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (34 bp):
TAATATTAAATTTAAGTATTTAAAAGTAAAAGAA
Found at i:18422614 original size:73 final size:72
Alignment explanation
Indices: 18422445--18422720 Score: 376
Period size: 73 Copynumber: 3.8 Consensus size: 72
18422435 AAGTATTATC
* *
18422445 AAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAGATAGATAGATAA-AACATA
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATA-A-AACAA-ATA
*
18422509 TACTTAATATT
63 TA-ATAATATT
* *
18422520 AAATTTAAGTATTTAAGAAGTAAAAGAATAATAAATAAGTAAATAAATCA-ATAAAACAAATATG
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAT-AGATAAAACAAATAT-
18422584 AATAATATT
64 AATAATATT
*
18422593 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATATAACAAATATAA
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAAACAAATAT-A
18422658 ATAATATT
65 ATAATATT
* * ** *
18422666 AAATTTAGGCATTTAAAAAGTAAAAGGGTAATAAATAAATAAATAAATAAATAAA
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAA
18422721 TAAATAAAAC
Statistics
Matches: 182, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
72 1 0.01
73 129 0.71
74 4 0.02
75 47 0.26
76 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (72 bp):
AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAAACAAATATAA
TAATATT
Found at i:18422704 original size:4 final size:4
Alignment explanation
Indices: 18422695--18422728 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
18422685 GTAAAAGGGT
18422695 AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
18422729 ACAAATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:18424447 original size:21 final size:21
Alignment explanation
Indices: 18424423--18424463 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18424413 TTTATTGGAC
18424423 TTTA-TTATTATTTTTGGTTTA
1 TTTATTTATT-TTTTTGGTTTA
18424444 TTTATTTATTTTTTTGGTTT
1 TTTATTTATTTTTTTGGTTT
18424464 CTTATTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.76
Consensus pattern (21 bp):
TTTATTTATTTTTTTGGTTTA
Found at i:18424778 original size:95 final size:96
Alignment explanation
Indices: 18424660--18424892 Score: 315
Period size: 95 Copynumber: 2.4 Consensus size: 96
18424650 GGAATTGTCG
* ** *
18424660 CTTCAATTTGCTCCACTGTAACTTCAATGAGATAAAATTTGTAACTTGTAGCTTTAATATGTTCC
1 CTTCAATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGTAACTTGTAGCTTCAATATGTTCC
* *
18424725 ACTATAACTTCAGAGAAATAAGATTGGC-AT
66 ACTACAAATTCAGAGAAATAAGATTGGCTAT
* * * *
18424755 CTTTAATTTGCTCCACTACAACTTCAGGGAGATAATATTTGTAACTTGTAGCTTCAATCTGTTCC
1 CTTCAATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGTAACTTGTAGCTTCAATATGTTCC
* * *
18424820 ACTGCAAATTCAGGGAAATAAGATTTGCTAT
66 ACTACAAATTCAGAGAAATAAGATTGGCTAT
* * *
18424851 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT
1 CTTCAATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGT
18424893 TTTAATCTGC
Statistics
Matches: 119, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
95 80 0.67
96 39 0.33
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (96 bp):
CTTCAATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGTAACTTGTAGCTTCAATATGTTCC
ACTACAAATTCAGAGAAATAAGATTGGCTAT
Found at i:18424870 original size:45 final size:45
Alignment explanation
Indices: 18424730--18425118 Score: 358
Period size: 45 Copynumber: 8.5 Consensus size: 45
18424720 GTTCCACTAT
* * * * * *
18424730 AACTTCAGAGAAATAAGATTGGC-ATCTTTAATTTGCTCCACTAC
1 AACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
* * *
18424774 AACTTCAGGGAGATAATATTTGTAACTTGTAGCTTCAATCTGTTCCACTGC
1 AACTTCAGGGAGATAAGATTTG---C---TATCTTCAATCTGCTCCACTGC
* * *
18424825 AAATTCAGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTGC
1 AACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
* *
18424870 AACTTCAGGGAGATAAGATTTG-T-T-TT-AATCTGCTACACTAC
1 AACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
* * * *
18424911 AACTTCAGGGAGATAAGATTTG-TAACTTGTAGCGTTAATATGTTCCATTGC
1 AACTTCAGGGAGATAAGATTTGCTATC-T-T--C---AATCTGCTCCACTGC
* * * *
18424962 AACTTCAGGGAAATAAGATTTGCTATCTTCAATTTGTTCCACTGT
1 AACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
* * *
18425007 AACTTCAGGGAGATAAGATTTGTTATCTTCAATCTGCCCCACTAC
1 AACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
* * *
18425052 AACTTCAAGGAGATAAGATTTTCTATATTCAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
*
18425097 AACTTCAGGGGGATAAGATTTG
1 AACTTCAGGGAGATAAGATTTG
18425119 TGACTTTACT
Statistics
Matches: 280, Mismatches: 47, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
41 35 0.12
42 2 0.01
43 1 0.00
44 20 0.07
45 148 0.53
47 1 0.00
48 2 0.01
50 1 0.00
51 67 0.24
52 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (45 bp):
AACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
Found at i:18424920 original size:137 final size:139
Alignment explanation
Indices: 18424756--18425118 Score: 492
Period size: 137 Copynumber: 2.7 Consensus size: 139
18424746 GATTGGCATC
* *
18424756 TTTAATTTGCTCCACTACAACTTCAGGGAGATAATATTTGTAACTTGTAGCTTCAATCTGTTCCA
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCA
*
18424821 CTGCAAATTCAGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
66 CTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
18424886 GATTTG-T-
131 GATTTGTTA
* *
18424893 TTTAATCTGCTACACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCGTT-AATATGTTCC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGC-TTCAATCTGTTCC
* * ** *
18424957 ATTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATTTGTTCCACTGTAACTTCAGGGAGATA
65 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATA
18425022 AGATTTGTTA
130 AGATTTGTTA
* * * *
18425032 TCTTCAATCTGCCCCACTACAACTTCAAGGAGATAAGATTT-T--C-TATA--TTCAATCTGCTC
1 T-TT-AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTC
**
18425091 CACTGCAACTTCAGGGGGATAAGATTTG
64 CACTGCAACTTCAGGGAAATAAGATTTG
18425119 TGACTTTACT
Statistics
Matches: 201, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
134 2 0.01
135 32 0.16
137 126 0.63
138 4 0.02
139 1 0.00
140 3 0.01
141 33 0.16
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (139 bp):
TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCA
CTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
GATTTGTTA
Found at i:18428529 original size:18 final size:17
Alignment explanation
Indices: 18428484--18428539 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 17
18428474 ATCAAAGAAA
18428484 AATAA-AAT-CAATAAT
1 AATAATAATGCAATAAT
*
18428499 AAT-ACAATG-AATAAT
1 AATAATAATGCAATAAT
*
18428514 AATAATAATAGCAATAAC
1 AATAATAAT-GCAATAAT
18428532 AATAATAA
1 AATAATAA
18428540 AATAAACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 1 0.03
15 15 0.44
16 4 0.12
17 1 0.03
18 13 0.38
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.25
Consensus pattern (17 bp):
AATAATAATGCAATAAT
Found at i:18429672 original size:15 final size:16
Alignment explanation
Indices: 18429648--18429680 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18429638 GCTTTCTTCC
18429648 TTTTTATATT-TTTCT
1 TTTTTATATTCTTTCT
*
18429663 TTTTTTTATTCTTTCT
1 TTTTTATATTCTTTCT
18429679 TT
1 TT
18429681 AAAAGAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATATTCTTTCT
Found at i:18429715 original size:9 final size:9
Alignment explanation
Indices: 18429701--18429725 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18429691 AAAACAATAT
18429701 AAAAATAAA
1 AAAAATAAA
18429710 AAAAATAAA
1 AAAAATAAA
18429719 AAAAATA
1 AAAAATA
18429726 GGAAGCTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:18430448 original size:41 final size:43
Alignment explanation
Indices: 18430344--18430458 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 43
18430334 CACTACCTTC
* * * *
18430344 AATCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTTGCTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGAT-AGGTGTGTTGCTAT
*
18430388 AATC-GACTCCACTGTAACTTCAGAGAGATAGG-GT-TTGCTAT
1 AATCTG-CTCCACTGCAACTTCAGAGAGATAGGTGTGTTGCTAT
* *
18430429 GATCTGCTCTACTGCAACTTCAGAGAGATA
1 AATCTGCTCCACTGCAACTTCAGAGAGATA
18430459 AGATTTGTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 31 0.51
42 2 0.03
43 3 0.05
44 25 0.41
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAGGTGTGTTGCTAT
Found at i:18430587 original size:89 final size:89
Alignment explanation
Indices: 18430473--18430650 Score: 266
Period size: 89 Copynumber: 2.0 Consensus size: 89
18430463 TTGTAATTTA
** * * *
18430473 TAGCTTCAATCTATTCCACTTCAACTTCAGGGAAATGAGATTTGCTATCTTCAGTCTACTCCACT
1 TAGCTTCAATCTACCCCACTACAACTTCAGGGAAATAAGATCTGCTATCTTCAGTCTACTCCACT
18430538 GCAACCTCAGGGAGATAAGACTTG
66 GCAACCTCAGGGAGATAAGACTTG
** *
18430562 TAGCTTCAATCTACCCCACTACAACTTCAGGGGGATAAGATCTGCTATCTTCAGTCTGCTCCACT
1 TAGCTTCAATCTACCCCACTACAACTTCAGGGAAATAAGATCTGCTATCTTCAGTCTACTCCACT
* *
18430627 GTAACTTCAGGGAGATAAGACTTG
66 GCAACCTCAGGGAGATAAGACTTG
18430651 ATATGATTTG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (89 bp):
TAGCTTCAATCTACCCCACTACAACTTCAGGGAAATAAGATCTGCTATCTTCAGTCTACTCCACT
GCAACCTCAGGGAGATAAGACTTG
Found at i:18430720 original size:44 final size:43
Alignment explanation
Indices: 18430525--18430817 Score: 179
Period size: 44 Copynumber: 6.7 Consensus size: 43
18430515 TGCTATCTTC
* ** *
18430525 AGTCTACTCCACTGCAACCTCAGGGAGATAAGA-CTTGTAGCTTC
1 AGTCTACTCCACTGCAACTTCAGGGAGATAA-ATC-TGTAATTTT
* * * * *
18430569 AATCTACCCCACTACAACTTCAGGGGGATAAGATCTGCT-ATCTTC
1 AGTCTACTCCACTGCAACTTCAGGGAGATAA-ATCTG-TAAT-TTT
* * * * *
18430614 AGTCTGCTCCACTGTAACTTCAGGGAGATAAGA-CT-TGATATG
1 AGTCTACTCCACTGCAACTTCAGGGAGATAA-ATCTGTAATTTT
* * * * *
18430656 A-TTTGCTCTACTGTAACTTCAGAGAGATAATATCTGTAATTTT
1 AGTCTACTCCACTGCAACTTCAGGGAGATAA-ATCTGTAATTTT
* * * *
18430699 AATCTATTCCACTGCAACTTCAGGGAAATAAATCTGCT-ATCTTC
1 AGTCTACTCCACTGCAACTTCAGGGAGATAAATCTG-TAAT-TTT
* *
18430743 AGTCTGCTCCACTGAAACTTCAGGGAGATAAGA-CT-TACGATTTT
1 AGTCTACTCCACTGCAACTTCAGGGAGATAA-ATCTGTA--ATTTT
* *
18430787 AGTCTCCTCCACTGCAATTTCAGGGAGATAA
1 AGTCTACTCCACTGCAACTTCAGGGAGATAA
18430818 GAGTTGTTAT
Statistics
Matches: 197, Mismatches: 39, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
41 27 0.14
42 6 0.03
43 14 0.07
44 115 0.58
45 35 0.18
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
AGTCTACTCCACTGCAACTTCAGGGAGATAAATCTGTAATTTT
Found at i:18431076 original size:182 final size:182
Alignment explanation
Indices: 18430888--18431368 Score: 411
Period size: 182 Copynumber: 2.6 Consensus size: 182
18430878 TTTAATCCGC
* * * * * * *
18430888 TCCACTGCAACTTCAGGGAGATAGGATT-AGTAGCTTCAACCTGCTCCATTGCAGCTTTAGGGAG
1 TCCACTGCAACTTCAGAGAAATAAGATTCACTAGCTTCAACCTGCTCCACTGCAACTTCAGGGAG
** * * * * *
18430952 ATAAGGTTGGT-TCATTTTTAACCTGCTCCAT-GGTAACTTCA-GAGAGATAAGGTTTGATATGA
66 ATAAGACTGGTGGC---TTCAACCTGCTCC-TCCGCAACTTCAGGAGAGATAAGATTTGATATGA
* * * **
18431014 TCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGCACTTTATATTTTCAATCTGT
127 TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGT
* * ** * *
18431070 TCCACTGCAA-TGCCAGAGAAATAAGATTCACTATCTTCAGTCTGTTCCGCTGCAACTTCAGGGA
1 TCCACTGCAACT-TCAGAGAAATAAGATTCACTAGCTTCAACCTGCTCCACTGCAACTTCAGGGA
* * * *
18431134 GATAATACTGGTGGCTTCAATCTGCTCCTCCGCAACTTCAGGAGGGATAAGATTTGATATGATTT
65 GATAAGACTGGTGGCTTCAACCTGCTCCTCCGCAACTTCAGGAGAGATAAGATTTGATATGATCT
* *
18431199 ACTCTACTGCAACTTTAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGT
130 ACTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGT
* * * * * ** *
18431252 TCCACTGCAACTTTAAAGAAATGAGATTTGA-TATCTTCAGTCTGCTTCACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGAGAAATAAGA-TTCACTAGCTTCAACCTGCTCCACTGCAACTTCAGGGA
* *** * * * * *
18431316 -AGTAAGACTTGCATCTTCAATCTGCCCCACTGCAACTTCA-GAGGGATAAGATT
65 GA-TAAGACTGGTGGCTTCAACCTGCTCCTCCGCAACTTCAGGAGAGATAAGATT
18431369 AGTGGCTTTA
Statistics
Matches: 244, Mismatches: 47, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
180 1 0.00
181 34 0.14
182 169 0.69
183 39 0.16
184 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (182 bp):
TCCACTGCAACTTCAGAGAAATAAGATTCACTAGCTTCAACCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTGGTGGCTTCAACCTGCTCCTCCGCAACTTCAGGAGAGATAAGATTTGATATGATCTA
CTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTCAATCTGT
Found at i:18431340 original size:44 final size:43
Alignment explanation
Indices: 18431241--18431408 Score: 140
Period size: 44 Copynumber: 3.8 Consensus size: 43
18431231 TAATTTATAG
* * * * * * *
18431241 CTTCAATCTGTTCCACTGCAACTTTAAAGAAATGAGATTTGATAT
1 CTTCAATCTGCTCCACTGCAAC-TTCAGGGAATAAGATTAG-CAT
* *
18431286 CTTCAGTCTGCTTCACTGCAACTTCAGGGAAGTAAGACTT-GCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAA-TAAGA-TTAGCAT
* * ***
18431330 CTTCAATCTGCCCCACTGCAACTTCAGAGGGATAAGATTAGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAG-GGAATAAGATTAGCAT
*
18431374 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGA-ATAA
18431409 TATTCGCCAT
Statistics
Matches: 100, Mismatches: 18, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
43 4 0.04
44 67 0.67
45 27 0.27
46 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAATAAGATTAGCAT
Found at i:18431368 original size:89 final size:88
Alignment explanation
Indices: 18431241--18431403 Score: 200
Period size: 89 Copynumber: 1.8 Consensus size: 88
18431231 TAATTTATAG
** * * * * * *
18431241 CTTCAATCTGTTCCACTGCAACTTTAAAGAAATGAGATTTGATATCTTCAGTCTGCTTCACTGCA
1 CTTCAATCTGCCCCACTGCAACTTCAAAGAAATAAGATTAG-TAGCTTCAATCTGCTCCACTGCA
18431306 ACTTCAGGGAAGTAAGACTTGCAT
65 ACTTCAGGGAAGTAAGACTTGCAT
* ** * *
18431330 CTTCAATCTGCCCCACTGCAACTTCAGAGGGATAAGATTAGTGGCTTTAATCTGCTCCACTGCAA
1 CTTCAATCTGCCCCACTGCAACTTCAAAGAAATAAGATTAGTAGCTTCAATCTGCTCCACTGCAA
18431395 CTTCAGGGA
66 CTTCAGGGA
18431404 GATAATATTC
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
88 28 0.46
89 33 0.54
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (88 bp):
CTTCAATCTGCCCCACTGCAACTTCAAAGAAATAAGATTAGTAGCTTCAATCTGCTCCACTGCAA
CTTCAGGGAAGTAAGACTTGCAT
Found at i:18432314 original size:7 final size:6
Alignment explanation
Indices: 18432280--18432334 Score: 60
Period size: 7 Copynumber: 9.0 Consensus size: 6
18432270 TTGGCCTCTC
*
18432280 CTTTTT CTTTTT C-TTTT CTTCTTT CTTTTT CCTTTTA CTTTTT CCTTTTT
1 CTTTTT CTTTTT CTTTTT CTT-TTT CTTTTT -CTTTTT CTTTTT -CTTTTT
18432330 -TTTTT
1 CTTTTT
18432335 ATTTATGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
5 10 0.23
6 16 0.37
7 17 0.40
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (6 bp):
CTTTTT
Found at i:18432327 original size:24 final size:24
Alignment explanation
Indices: 18432280--18432333 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
18432270 TTGGCCTCTC
* *
18432280 CTTTTTCTTTTTCTTTTCTTCTTT
1 CTTTTTCTTTTACTTTTCTCCTTT
18432304 CTTTTTCCTTTTACTTTT-TCCTTT
1 CTTTTT-CTTTTACTTTTCTCCTTT
*
18432328 TTTTTT
1 CTTTTT
18432334 TATTTATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (24 bp):
CTTTTTCTTTTACTTTTCTCCTTT
Found at i:18432334 original size:13 final size:13
Alignment explanation
Indices: 18432280--18432334 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
18432270 TTGGCCTCTC
18432280 CTTTTT-CTTTTT
1 CTTTTTCCTTTTT
18432292 C-TTTT-CTTCTTT
1 CTTTTTCCTT-TTT
*
18432304 CTTTTTCCTTTTA
1 CTTTTTCCTTTTT
18432317 CTTTTTCCTTTTT
1 CTTTTTCCTTTTT
18432330 -TTTTT
1 CTTTTT
18432335 ATTTATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
11 7 0.18
12 10 0.26
13 18 0.47
14 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (13 bp):
CTTTTTCCTTTTT
Found at i:18437265 original size:15 final size:16
Alignment explanation
Indices: 18437247--18437276 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18437237 AAATAAAATC
18437247 AATAATAATA-CAATG
1 AATAATAATAGCAATG
18437262 AATAATAATAGCAAT
1 AATAATAATAGCAAT
18437277 AGAAATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (16 bp):
AATAATAATAGCAATG
Found at i:18438419 original size:15 final size:14
Alignment explanation
Indices: 18438389--18438416 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18438379 TGCTTTCTTC
18438389 CTTTTTATATTTTT
1 CTTTTTATATTTTT
18438403 CTTTTTATATTTTT
1 CTTTTTATATTTTT
18438417 TCTGTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (14 bp):
CTTTTTATATTTTT
Found at i:18444967 original size:4 final size:4
Alignment explanation
Indices: 18444958--18444986 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
18444948 GTTATTATTA
18444958 AATT AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT AATT A
18444987 TTATCATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:18445110 original size:28 final size:27
Alignment explanation
Indices: 18445079--18445132 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
18445069 CCTTTTTTAT
18445079 TTTAATTCTTTATTTATTCATTTATTCA
1 TTTAATTCTTTATTTATTCA-TTATTCA
* *
18445107 TTTACTTGTTTATTTATTCATTATTC
1 TTTAATTCTTTATTTATTCATTATTC
18445133 CTTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTAATTCTTTATTTATTCATTATTCA
Found at i:18445138 original size:28 final size:28
Alignment explanation
Indices: 18445078--18445138 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
18445068 CCCTTTTTTA
18445078 TTTTAATTCTTTATTTATTCATTTATTC
1 TTTTAATTCTTTATTTATTCATTTATTC
* * *
18445106 ATTTACTTGTTTATTTATTCA-TTATTCC
1 TTTTAATTCTTTATTTATTCATTTATT-C
18445134 TTTTA
1 TTTTA
18445139 TTTTATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTTAATTCTTTATTTATTCATTTATTC
Found at i:18445440 original size:3 final size:3
Alignment explanation
Indices: 18445434--18445492 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
18445424 CTTCTTCTTC
18445434 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18445482 TTA TTA TTA TT
1 TTA TTA TTA TT
18445493 TATGTTAGTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18448625 original size:17 final size:19
Alignment explanation
Indices: 18448603--18448637 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
18448593 TCCTCCCTCA
18448603 TCTTTTC-TTTTT-TTCTT
1 TCTTTTCATTTTTCTTCTT
18448620 TCTTTTCATTTTTCTTCT
1 TCTTTTCATTTTTCTTCT
18448638 CTTGTTGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (19 bp):
TCTTTTCATTTTTCTTCTT
Done.