Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 170 of 444
Found at i:46857850 original size:98 final size:97
Alignment explanation
Indices: 46857713--46858381 Score: 1029
Period size: 98 Copynumber: 6.8 Consensus size: 97
46857703 GGTCATTCGG
* * * *
46857713 CCACAATATACACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTACGACATATACATAT
1 CCACAATAT--ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
*
46857778 CTCATACATATTTCACATTAACCATTCGGCTTTA
64 CTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
46857812 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATATC
1 CCACA-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
*
46857877 TCATACATATTTCACAGTAGCCATTCGGCTTTA
65 TCATACATATTTCACATTAGCCATTCGGCTTTA
*
46857910 CCGC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
46857974 CATACATATTTCACATTAGCCATTCGGCTTTA
66 CATACATATTTCACATTAGCCATTCGGCTTTA
* * *
46858006 CCACATATATACATTTCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACATATATACATT
1 CCACA-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATA
*
46858071 TCTCATGCATATTTCACATTAGCCATTCGGCTTTA
63 TCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * *
46858106 CCACAA-ATACATATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATATATATCT
1 CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
*
46858170 CATGCATATTTCACATTAGCCATTCGGCTTTA
66 CATACATATTTCACATTAGCCATTCGGCTTTA
* * *
46858202 CCACATATATACATATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACATATC
1 CCACA-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
* *
46858267 TCATACATATTTCACAGTAGCCATTCGGCTTTG
65 TCATACATATTTCACATTAGCCATTCGGCTTTA
*
46858300 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTT
1 CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATAT
46858364 CTCATACATATTTCACAT
64 CTCATACATATTTCACAT
46858382 ATTCACTACA
Statistics
Matches: 528, Mismatches: 33, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
96 184 0.35
97 1 0.00
98 286 0.54
99 6 0.01
100 51 0.10
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (97 bp):
CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
CATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:46858016 original size:146 final size:147
Alignment explanation
Indices: 46857713--46858381 Score: 1012
Period size: 146 Copynumber: 4.6 Consensus size: 147
46857703 GGTCATTCGG
* * * * *
46857713 CCACAATATACACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTACGAC-ATATACATA
1 CCAC-ATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAATATACATA
* *
46857777 TCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATATACATTTCTCATACATATTTC
65 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATCTCATACATATTTC
*
46857842 ACATTAGCCATTCGGCTTTA
128 ACAGTAGCCATTCGGCTTTA
* * *
46857862 CCGC--ATATACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCGC-ATATACATAT
1 CCACATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAATATACATAT
46857924 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
66 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
*
46857989 TTAGCCATTCGGCTTTA
131 GTAGCCATTCGGCTTTA
* * *
46858006 CCACATATATACATTTCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACATATATACATT
1 CCACATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA-ATATACATA
* * *
46858071 TCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACAAATACATATCTCATATATATTTCAC
65 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
46858136 AGTAGCCATTCGGCTTTA
130 AGTAGCCATTCGGCTTTA
*
46858154 CCACATATAT--ATATCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACATATATACATA
1 CCACATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA-ATATACATA
* * *
46858217 TCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACATATCTCATACATATTTCAC
65 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
*
46858282 AGTAGCCATTCGGCTTTG
130 AGTAGCCATTCGGCTTTA
*
46858300 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATT
1 CCACATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA-ATATACATA
46858363 TCTCATACATATTTCACAT
65 TCTCATACATATTTCACAT
46858382 ATTCACTACA
Statistics
Matches: 482, Mismatches: 32, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
144 50 0.10
146 332 0.69
148 97 0.20
149 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (147 bp):
CCACATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAATATACATAT
CTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
GTAGCCATTCGGCTTTA
Found at i:46861165 original size:39 final size:39
Alignment explanation
Indices: 46861111--46861340 Score: 406
Period size: 39 Copynumber: 5.9 Consensus size: 39
46861101 TATCAACACA
* *
46861111 AAGCCTGCGGGACTTTAACTCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
46861150 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
46861189 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
46861228 AAGCCTGCGGGACTTTGGCCCGGATATATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
46861267 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
46861306 AAGCCTGTGGGACTTTAGCCCGGATACATTTCCAG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
46861341 TGTCTTGCAT
Statistics
Matches: 182, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 182 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:46864351 original size:53 final size:53
Alignment explanation
Indices: 46864169--46864375 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
46864159 ATTAGGGTTT
* * * * *
46864169 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
46864223 AAGAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTATGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TCATAAGGC
* * * *
46864278 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
46864331 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
46864376 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
53 47 0.38
54 36 0.29
55 40 0.33
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:46872608 original size:30 final size:30
Alignment explanation
Indices: 46872572--46872758 Score: 219
Period size: 28 Copynumber: 6.4 Consensus size: 30
46872562 GACAAGATTG
* * * *
46872572 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATACA
*
46872602 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATACA
*
46872630 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATACA
*
46872658 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACA
*
46872687 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACA
*
46872717 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACA
46872746 GCACTAAGTGTGC
1 GCACTAAGTGTGC
46872759 AGATTCACTA
Statistics
Matches: 147, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.01
28 51 0.35
29 47 0.32
30 45 0.31
31 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACA
Found at i:46872729 original size:59 final size:59
Alignment explanation
Indices: 46872572--46872758 Score: 249
Period size: 59 Copynumber: 3.2 Consensus size: 59
46872562 GACAAGATTG
* * * * * *
46872572 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG--ATTATACA
1 GCACTAAGTGTGCGAGTTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAAATATATA
46872630 GCACTAAGTGTGCGAGTTTG---ATTATACAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAG-TTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAAATATATA
* *
46872687 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAAATATATA
46872746 GCACTAAGTGTGC
1 GCACTAAGTGTGC
46872759 AGATTCACTA
Statistics
Matches: 115, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
55 2 0.02
56 25 0.22
57 22 0.19
58 15 0.13
59 51 0.44
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGTTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:46874903 original size:40 final size:39
Alignment explanation
Indices: 46874735--46874905 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
46874725 AGAAATTGAA
* *
46874735 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
46874775 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
46874815 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
46874855 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
46874895 TGATATCCGGG
1 TGATATCCGGG
46874906 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:46882812 original size:39 final size:38
Alignment explanation
Indices: 46882765--46882862 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 38
46882755 AAATTGAATG
* **
46882765 ATATCCGGGCTAAGCCCCGAGACAATTATGCT-GAAATTT
1 ATATCCGGGCTAAGACCCGAGACAATT-TGCTAG-AAGCT
* * *
46882804 ATATCCGGGTTAAGACCCGAAGGCAATTTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCG-AGACAATTTGCTAGAAGCT
46882843 ATATCCGGGCTAAGACCCGA
1 ATATCCGGGCTAAGACCCGA
46882863 AGGCATTCGT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 41 0.82
40 8 0.16
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAGACAATTTGCTAGAAGCT
Found at i:46882863 original size:39 final size:38
Alignment explanation
Indices: 46882803--46882911 Score: 146
Period size: 40 Copynumber: 2.8 Consensus size: 38
46882793 TGCTGAAATT
* *
46882803 TATATCCGGGTTAAGACCCGAAGGCAATTTGCTAGTAGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTTGCAAGTAGC
* *
46882842 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGT
1 TATATCCGGGCTAAGACCCGAAGGCATT--TGCAAGTAGC
*
46882882 TAAATCCGGGCTAAGACCCGAAGGCATTTG
1 TATATCCGGGCTAAGACCCGAAGGCATTTG
46882912 TGCAAATCGT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 5 0.08
39 24 0.38
40 34 0.54
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGCAAGTAGC
Found at i:46882929 original size:40 final size:39
Alignment explanation
Indices: 46882763--46882931 Score: 141
Period size: 40 Copynumber: 4.3 Consensus size: 39
46882753 AGAAATTGAA
* *
46882763 TGATATCCGGGCTAAGCCCCG-AGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
46882802 TTATATCCGGGTTAAGACCCGAAGGCAATT-TGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
46882841 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
46882881 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
46882921 TGATATCCGGG
1 TGATATCCGGG
46882932 TAAAGTCCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 17
0.75 0.12 0.12
Matches are distributed among these distances:
36 2 0.02
37 2 0.02
38 1 0.01
39 47 0.45
40 51 0.49
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:46890433 original size:40 final size:40
Alignment explanation
Indices: 46890341--46890490 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
46890331 AAATTGAATG
* * * * *
46890341 ATATCC-GGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46890379 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46890419 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
46890459 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
46890491 AAATCGTGAT
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
38 6 0.06
39 25 0.26
40 62 0.65
41 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:46890505 original size:40 final size:38
Alignment explanation
Indices: 46890337--46890507 Score: 152
Period size: 40 Copynumber: 4.4 Consensus size: 38
46890327 TGAGAAATTG
* *
46890337 AATG-ATATCC-GGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
46890375 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
46890412 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
46890452 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
46890492 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
46890508 TAAAGTCCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 11 0.10
39 16 0.15
40 74 0.69
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:46899489 original size:30 final size:30
Alignment explanation
Indices: 46899453--46899612 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
46899443 GACAAGATTG
* * * * *
46899453 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
46899483 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
46899511 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
46899540 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
46899570 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
46899599 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46899613 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:46899581 original size:59 final size:57
Alignment explanation
Indices: 46899453--46899612 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
46899443 GACAAGATTG
* * * * * *
46899453 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
46899511 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
46899570 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
46899613 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:46901238 original size:27 final size:28
Alignment explanation
Indices: 46901208--46901307 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
46901198 ATAGTGTGTC
46901208 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
46901235 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
46901263 CGCACACTTAGTGCTGTATAAGTTTTAAACC
1 CGCACACTTAGTGCTATATAA---TCAAACT
46901294 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46901308 CATTCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
31 19 0.31
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46901271 original size:28 final size:27
Alignment explanation
Indices: 46901208--46901277 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
46901198 ATAGTGTGTC
*
46901208 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
46901235 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
46901263 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46901278 GTATAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:46907253 original size:27 final size:27
Alignment explanation
Indices: 46907223--46907276 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
46907213 ATACAACCTT
*
46907223 ACTATAATCCTATAGACATTAAAATAA
1 ACTATAATCCCATAGACATTAAAATAA
46907250 ACTATAATCCCATAGACATTAAAATAA
1 ACTATAATCCCATAGACATTAAAATAA
46907277 TAAAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.28
Consensus pattern (27 bp):
ACTATAATCCCATAGACATTAAAATAA
Found at i:46909214 original size:26 final size:26
Alignment explanation
Indices: 46909159--46909216 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
46909149 TATTAATTGT
*
46909159 TAAAATTGTAAGTTTAAAACAAAGGA
1 TAAAATTGTAAGTTTAAAACAAAGAA
*
46909185 TAAAATTGTAA-TTATAAAATAAA-AA
1 TAAAATTGTAAGTT-TAAAACAAAGAA
46909210 CTAAAAT
1 -TAAAAT
46909217 GAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (26 bp):
TAAAATTGTAAGTTTAAAACAAAGAA
Found at i:46909970 original size:20 final size:20
Alignment explanation
Indices: 46909939--46910037 Score: 69
Period size: 20 Copynumber: 5.0 Consensus size: 20
46909929 CAATTATTTA
*
46909939 TGTTTTCACATCGATGCCCC
1 TGTTTGCACATCGATGCCCC
* * *
46909959 TGCTTGCACATCGGTACCCC
1 TGTTTGCACATCGATGCCCC
* *
46909979 TATTTGCACATATG-TGCCCC
1 TGTTTGCACAT-CGATGCCCC
* *
46909999 TGATTGAACAT--ATGCACCC
1 TGTTTGCACATCGATGC-CCC
*
46910018 TTGTTTGCACATCGGTGCCC
1 -TGTTTGCACATCGATGCCC
46910038 AGCACATCTG
Statistics
Matches: 59, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
18 3 0.05
19 3 0.05
20 47 0.80
21 3 0.05
22 3 0.05
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.31
Consensus pattern (20 bp):
TGTTTGCACATCGATGCCCC
Found at i:46910036 original size:40 final size:40
Alignment explanation
Indices: 46909939--46910037 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
46909929 CAATTATTTA
* * * * * *
46909939 TGTTTTCACATCGATGCCCCTGCTTGCACATCGGTACCCC
1 TGTTTGCACATCGGTGCCCCTGATTGAACATAGGCACCCC
* ** * *
46909979 TATTTGCACATATGTGCCCCTGATTGAACATATGCACCCT
1 TGTTTGCACATCGGTGCCCCTGATTGAACATAGGCACCCC
46910019 TGTTTGCACATCGGTGCCC
1 TGTTTGCACATCGGTGCCC
46910038 AGCACATCTG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.31
Consensus pattern (40 bp):
TGTTTGCACATCGGTGCCCCTGATTGAACATAGGCACCCC
Found at i:46910925 original size:5 final size:5
Alignment explanation
Indices: 46910908--46910939 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
46910898 GTTTATTTAG
*
46910908 TTTGT TTTAT TTTGT TTTGT TTTGT TTTGT TT
1 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TT
46910940 GCTTGAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.03, C:0.00, G:0.16, T:0.81
Consensus pattern (5 bp):
TTTGT
Found at i:46910928 original size:15 final size:15
Alignment explanation
Indices: 46910899--46910939 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
46910889 GTTTTTCTAG
*
46910899 TTTATTTAG-TTTGT
1 TTTATTTTGTTTTGT
46910913 TTTATTTTGTTTTGT
1 TTTATTTTGTTTTGT
*
46910928 TTTGTTTTGTTT
1 TTTATTTTGTTT
46910940 GCTTGAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (15 bp):
TTTATTTTGTTTTGT
Found at i:46914226 original size:66 final size:66
Alignment explanation
Indices: 46914116--46914248 Score: 187
Period size: 66 Copynumber: 2.0 Consensus size: 66
46914106 TATTGAAATG
* * *
46914116 TGAGAAATAAATTTGTACTATTGTTTGAGCATTATTCGCCTGTTGT-ACGCTGTGATTGACAGGA
1 TGAGAAATAAATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGA-GCTGTGAGTGACAGGA
46914180 AC
65 AC
** * *
46914182 TGAGAAATTGATTTGTACTATTGTTTGAGCATTACTCACTTGTTGTGAGTTGTGAGTGACAGGAA
1 TGAGAAATAAATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGCTGTGAGTGACAGGAA
46914247 C
66 C
46914248 T
1 T
46914249 TTATTAGTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 58 0.98
67 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (66 bp):
TGAGAAATAAATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGCTGTGAGTGACAGGAA
C
Found at i:46919327 original size:12 final size:12
Alignment explanation
Indices: 46919310--46919342 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
46919300 AAAAAATTGA
46919310 AGTAAATAAGTG
1 AGTAAATAAGTG
46919322 AGTAAATAAGTG
1 AGTAAATAAGTG
46919334 AGTAAATAA
1 AGTAAATAA
46919343 CTAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (12 bp):
AGTAAATAAGTG
Found at i:46920147 original size:12 final size:13
Alignment explanation
Indices: 46920118--46920146 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46920108 TCATATTTGA
46920118 TTTTT-TTTAATT
1 TTTTTATTTAATT
46920130 TTTTTATTTAATT
1 TTTTTATTTAATT
46920143 TTTT
1 TTTT
46920147 AAAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTATTTAATT
Found at i:46923381 original size:21 final size:21
Alignment explanation
Indices: 46923355--46923422 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
46923345 TTCTAGGTTG
46923355 TGTGAAGAAGGCACATGCCCA
1 TGTGAAGAAGGCACATGCCCA
* *
46923376 TGTGAA-AGAGGCACACGACCA
1 TGTGAAGA-AGGCACATGCCCA
*
46923397 TGTGAAG-GGAGCACATGCCCA
1 TGTGAAGAAG-GCACATGCCCA
46923418 TGTGA
1 TGTGA
46923423 CCGAGTTACA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.32, C:0.22, G:0.31, T:0.15
Consensus pattern (21 bp):
TGTGAAGAAGGCACATGCCCA
Found at i:46924920 original size:26 final size:26
Alignment explanation
Indices: 46924891--46924998 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
46924881 TGGTACAAAT
46924891 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
46924917 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
46924943 TGATAATAGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
46924969 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46924995 TGAT
1 TGAT
46924999 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46926484 original size:28 final size:26
Alignment explanation
Indices: 46926453--46926516 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
46926443 AATTACTATA
* *
46926453 ATACCCCTATGTATGGAAAATTACTGCT
1 ATACCCCTA-G-ATGCAAAATTACCGCT
* *
46926481 ATACCCCTAGGTGCAAAATTACCGTT
1 ATACCCCTAGATGCAAAATTACCGCT
46926507 ATACCCCTAG
1 ATACCCCTAG
46926517 GGTTAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCGCT
Found at i:46926707 original size:54 final size:53
Alignment explanation
Indices: 46926621--46926761 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
46926611 AGGAAGCATC
* *
46926621 CTGGTGGCTATGCCACAATTATCTAATTTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
46926675 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
46926729 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
46926762 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 74 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:46926772 original size:27 final size:27
Alignment explanation
Indices: 46926621--46926779 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
46926611 AGGAAGCATC
* *
46926621 CTGGTGGCTATGCCACAATTATCT-AAT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
46926648 TTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
46926675 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
46926702 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
46926729 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
46926756 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
46926780 GCAGCCTCGC
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:46927983 original size:18 final size:18
Alignment explanation
Indices: 46927960--46927994 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46927950 ACCGATCCCG
46927960 ACCGAATTAATTCAGTTA
1 ACCGAATTAATTCAGTTA
46927978 ACCGAATTAATTCAGTT
1 ACCGAATTAATTCAGTT
46927995 TTACCCGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
ACCGAATTAATTCAGTTA
Found at i:46928650 original size:36 final size:34
Alignment explanation
Indices: 46928613--46928846 Score: 137
Period size: 35 Copynumber: 6.5 Consensus size: 34
46928603 CCGACATTTA
* * *
46928613 AAAAAGGTTGAGATAAACCCATCTGAAACAACCTT
1 AAAAAGATTGAGATAGACCCGTCT-AAACAACCTT
* *
46928648 AAAAAGATTAAGATAGACCCGTCTAAGACAACTTT
1 AAAAAGATTGAGATAGACCCGTCTAA-ACAACCTT
* * **
46928683 AAAAAAATTGAAATAGACCTTATCTAAAACAACCTTT
1 AAAAAGATTGAGATAGACC-CGTCT-AAACAACC-TT
* * *
46928720 AAAAAAAATTAAGATAGGCCCGTCTAAAACAACCTT
1 -AAAAAGATTGAGATAGACCCGTCT-AAACAACCTT
* * * *
46928756 AGAAAGGTTG-GAATAAACCTTGTCTAAAGCAACCTT
1 AAAAAGATTGAG-ATAGACC-CGTCTAAA-CAACCTT
* * * **
46928792 AAAAAGGTTAAAATAGACATGTCTAAAGCAACCTTT
1 AAAAAGATTGAGATAGACCCGTCTAAA-CAACC-TT
* *
46928828 AAAACAGGTTGGGATAGAC
1 AAAA-AGATTGAGATAGAC
46928847 TTGTCTATCC
Statistics
Matches: 157, Mismatches: 31, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
34 3 0.02
35 71 0.45
36 40 0.25
37 27 0.17
38 16 0.10
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.23
Consensus pattern (34 bp):
AAAAAGATTGAGATAGACCCGTCTAAACAACCTT
Found at i:46928662 original size:35 final size:35
Alignment explanation
Indices: 46928613--46928761 Score: 138
Period size: 35 Copynumber: 4.2 Consensus size: 35
46928603 CCGACATTTA
* * * *
46928613 AAAAAGGTTGAGATAAACCCATCTGAAACAACCTT
1 AAAAAGATTAAGATAGACCCATCTAAAACAACCTT
* * *
46928648 AAAAAGATTAAGATAGACCCGTCTAAGACAACTTT
1 AAAAAGATTAAGATAGACCCATCTAAAACAACCTT
* *
46928683 AAAAAAATTGAA-ATAGACCTTATCTAAAACAACCTTT
1 AAAAAGATT-AAGATAGACC-CATCTAAAACAACC-TT
* * *
46928720 AAAAAAAATTAAGATAGGCCCGTCTAAAACAACCTT
1 -AAAAAGATTAAGATAGACCCATCTAAAACAACCTT
*
46928756 AGAAAG
1 AAAAAG
46928762 GTTGGAATAA
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
35 47 0.51
36 14 0.15
37 16 0.17
38 15 0.16
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.21
Consensus pattern (35 bp):
AAAAAGATTAAGATAGACCCATCTAAAACAACCTT
Found at i:46928735 original size:73 final size:72
Alignment explanation
Indices: 46928610--46928831 Score: 207
Period size: 73 Copynumber: 3.1 Consensus size: 72
46928600 ATGCCGACAT
* * * * *
46928610 TTAAAAAAGGTTGAGATAAACC-CATCTGAAACAACCTT-AAAAAGATTAAGATAGACCCGTCTA
1 TTAAAAAA-ATTGAAATAAACCTTATCTAAAACAACCTTAAAAAAAATTAAGATAGACCCGTCTA
* *
46928673 AGACAACT
65 AAACAACC
* *
46928681 TTAAAAAAATTGAAATAGACCTTATCTAAAACAACCTTTAAAAAAAATTAAGATAGGCCCGTCTA
1 TTAAAAAAATTGAAATAAACCTTATCTAAAACAACC-TTAAAAAAAATTAAGATAGACCCGTCTA
46928746 AAACAACC
65 AAACAACC
* ** * * * ** * **
46928754 TTAGAAAGGTTGGAATAAACCTTGTCTAAAGCAACCTT-AAAAAGGTTAAAATAGACATGTCTAA
1 TTAAAAAAATTGAAATAAACCTTATCTAAAACAACCTTAAAAAAAATTAAGATAGACCCGTCTAA
*
46928818 AGCAACC
66 AACAACC
*
46928825 TTTAAAA
1 TTAAAAA
46928832 CAGGTTGGGA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
70 10 0.08
71 51 0.41
72 4 0.03
73 58 0.47
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (72 bp):
TTAAAAAAATTGAAATAAACCTTATCTAAAACAACCTTAAAAAAAATTAAGATAGACCCGTCTAA
AACAACC
Found at i:46928822 original size:35 final size:35
Alignment explanation
Indices: 46928641--46928831 Score: 150
Period size: 35 Copynumber: 5.3 Consensus size: 35
46928631 CCATCTGAAA
* *
46928641 CAACCTTAAAAAGATTAAGATAGACCCGTCT-AAG
1 CAACCTTAAAAAGATTAAAATAGACCTGTCTAAAG
* * * * *
46928675 ACAACTTTAAAAAAATTGAAATAGACCTTATCTAAAA
1 -CAACCTTAAAAAGATTAAAATAGACC-TGTCTAAAG
* * * * *
46928712 CAACCTTTAAAAAAAATTAAGATAGGCCCGTCTAAAA
1 CAACC-TT-AAAAAGATTAAAATAGACCTGTCTAAAG
* * ** *
46928749 CAACCTTAGAAAGGTTGGAATAAACCTTGTCTAAAG
1 CAACCTTAAAAAGATTAAAATAGACC-TGTCTAAAG
* *
46928785 CAACCTTAAAAAGGTTAAAATAGACATGTCTAAAG
1 CAACCTTAAAAAGATTAAAATAGACCTGTCTAAAG
*
46928820 CAACCTTTAAAA
1 CAACCTTAAAAA
46928832 CAGGTTGGGA
Statistics
Matches: 122, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
35 53 0.43
36 37 0.30
37 16 0.13
38 16 0.13
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (35 bp):
CAACCTTAAAAAGATTAAAATAGACCTGTCTAAAG
Found at i:46928837 original size:73 final size:72
Alignment explanation
Indices: 46928638--46928853 Score: 233
Period size: 73 Copynumber: 3.0 Consensus size: 72
46928628 AACCCATCTG
** *
46928638 AAACAACCTTAAAAAGATTAAGATAGACCCGTCT-AAGACAA-CTTTAAAAAAATTGAAATAGAC
1 AAACAACCTTAAAAAGATTAAGATAGACCCGTCTAAAG-CAACCTTTAAAAAGGTTGGAATAGAC
*
46928701 CTTATCTA
65 CTTGTCTA
* * * * *
46928709 AAACAACCTTTAAAAAAAATTAAGATAGGCCCGTCTAAAACAACC-TTAGAAAGGTTGGAATAAA
1 AAACAACC-TT-AAAAAGATTAAGATAGACCCGTCTAAAGCAACCTTTAAAAAGGTTGGAATAGA
46928773 CCTTGTCTA
64 CCTTGTCTA
* * * ** *
46928782 AAGCAACCTTAAAAAGGTTAAAATAGACATGTCTAAAGCAACCTTTAAAACAGGTTGGGATAGA-
1 AAACAACCTTAAAAAGATTAAGATAGACCCGTCTAAAGCAACCTTTAAAA-AGGTTGGAATAGAC
46928846 CTTGTCTA
65 CTTGTCTA
46928854 TCCTAATCTT
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
71 34 0.29
72 17 0.14
73 65 0.55
74 3 0.03
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (72 bp):
AAACAACCTTAAAAAGATTAAGATAGACCCGTCTAAAGCAACCTTTAAAAAGGTTGGAATAGACC
TTGTCTA
Found at i:46928846 original size:37 final size:35
Alignment explanation
Indices: 46928741--46928853 Score: 136
Period size: 36 Copynumber: 3.1 Consensus size: 35
46928731 AGATAGGCCC
* * *
46928741 GTCTAAAACAACCTTAGAAAGGTTGGAATAAACCTT
1 GTCTAAAGCAACCTTAAAAAGGTTGGAATAGA-CTT
** *
46928777 GTCTAAAGCAACCTTAAAAAGGTTAAAATAGACAT
1 GTCTAAAGCAACCTTAAAAAGGTTGGAATAGACTT
*
46928812 GTCTAAAGCAACCTTTAAAACAGGTTGGGATAGACTT
1 GTCTAAAGCAACC-TTAAAA-AGGTTGGAATAGACTT
46928849 GTCTA
1 GTCTA
46928854 TCCTAATCTT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
35 15 0.23
36 33 0.51
37 17 0.26
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (35 bp):
GTCTAAAGCAACCTTAAAAAGGTTGGAATAGACTT
Found at i:46932092 original size:10 final size:10
Alignment explanation
Indices: 46932077--46932124 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
46932067 TAACATATTG
46932077 AATTTTGATT
1 AATTTTGATT
*
46932087 AATTTTATAATT
1 AA-TTT-TGATT
*
46932099 AATTCTGATT
1 AATTTTGATT
46932109 AATTTTGATT
1 AATTTTGATT
*
46932119 TATTTT
1 AATTTT
46932125 TGACATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 20 0.65
11 5 0.16
12 6 0.19
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.60
Consensus pattern (10 bp):
AATTTTGATT
Found at i:46933057 original size:25 final size:24
Alignment explanation
Indices: 46933010--46933057 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
46933000 AAGAAAATGA
*
46933010 AGAACAATGGAAGGGAATGAAGAG
1 AGAACAATGGAAGAGAATGAAGAG
46933034 AGAA-AATGGAGAGAGAAGTGAAGA
1 AGAACAATGGA-AGAGAA-TGAAGA
46933058 AATGAGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 9 0.43
25 6 0.29
ACGTcount: A:0.52, C:0.02, G:0.38, T:0.08
Consensus pattern (24 bp):
AGAACAATGGAAGAGAATGAAGAG
Found at i:46935822 original size:10 final size:10
Alignment explanation
Indices: 46935789--46935845 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
46935779 CCCTTTGTGC
*
46935789 AAATTTATCA
1 AAATTAATCA
*
46935799 AAAATAATCA
1 AAATTAATCA
46935809 AAATTAATCA
1 AAATTAATCA
46935819 AAATTTGATAT-A
1 AAA-TT-A-ATCA
*
46935831 AAATTAATTA
1 AAATTAATCA
46935841 AAATT
1 AAATT
46935846 CAACATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 2 0.05
10 27 0.68
11 4 0.10
12 5 0.12
13 2 0.05
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (10 bp):
AAATTAATCA
Found at i:46939884 original size:5 final size:5
Alignment explanation
Indices: 46939874--46939901 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
46939864 TTTTCCTTAC
46939874 AATTT AATTT AATTT AATTT AATTT AAT
1 AATTT AATTT AATTT AATTT AATTT AAT
46939902 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:46945859 original size:27 final size:27
Alignment explanation
Indices: 46945775--46945928 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
46945765 GACGAGAATG
* * *
46945775 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
46945804 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
46945833 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
46945860 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
46945888 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
46945915 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46945929 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:46945896 original size:55 final size:55
Alignment explanation
Indices: 46945825--46945928 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
46945815 GCGAGCTCAA
46945825 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
46945880 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
46945929 GATTCACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:46952974 original size:2 final size:2
Alignment explanation
Indices: 46952967--46952996 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
46952957 AGCATAGTTG
*
46952967 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46952997 TCGACCATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:46953714 original size:27 final size:27
Alignment explanation
Indices: 46953630--46953783 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
46953620 GACGAGAATG
* * *
46953630 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
46953659 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
46953688 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
46953715 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
46953743 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
46953770 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46953784 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:46953751 original size:55 final size:55
Alignment explanation
Indices: 46953680--46953783 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
46953670 GCGAGCTCAA
46953680 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
46953735 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
46953784 GATTCACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:46957750 original size:40 final size:40
Alignment explanation
Indices: 46957680--46957844 Score: 219
Period size: 40 Copynumber: 4.2 Consensus size: 40
46957670 TGGATGATAA
* *
46957680 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
46957720 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
46957760 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * * *
46957800 CGAAGACATTTGAGCTAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
46957839 CGAAGG
1 CGAAGG
46957845 TACTTGGTTT
Statistics
Matches: 113, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 15 0.13
40 97 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:46963573 original size:40 final size:39
Alignment explanation
Indices: 46963507--46963657 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
46963497 AAATTGAATG
* * *
46963507 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
46963546 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
46963586 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
46963626 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
46963658 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:46963671 original size:40 final size:39
Alignment explanation
Indices: 46963544--46963673 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
46963534 ATGCTGGAAA
* *
46963544 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
46963584 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
46963624 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
46963664 TTATATCCGG
1 TTATATCCGG
46963674 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:46969308 original size:39 final size:40
Alignment explanation
Indices: 46969179--46969309 Score: 203
Period size: 40 Copynumber: 3.3 Consensus size: 40
46969169 TGGATGATAA
* *
46969179 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
46969219 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
46969259 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
46969298 CGAAGACATTTG
1 CGAAGGCATTTG
46969310 AGCTAGTAGC
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
39 16 0.19
40 69 0.80
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:46978260 original size:46 final size:46
Alignment explanation
Indices: 46978150--46978361 Score: 166
Period size: 46 Copynumber: 4.5 Consensus size: 46
46978140 TCATTTGTGA
* * * *
46978150 AAGCTAGTGTAAGACCATATCTGGGACATGGCATTGGCATTGAGATG-
1 AAGCAAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TCGAGATGT
* *
46978197 -AGTACTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGT
1 AAG--CAAGTGTAAGACCATGTCTGGGACATGCATCGG-CTCGAGATGT
* *
46978244 AAGCAAGTGTAAGA-CATGTCTGGGATATGCGTCGGCTACGAGATG-
1 AAGCAAGTGTAAGACCATGTCTGGGACATGCATCGGCT-CGAGATGT
* * * * *
46978289 ATAGTAAGTAG-AAGACCATGTCTAGGACATGGCTTCGACTTGAGATGT
1 A-AGCAAGT-GTAAGACCATGTCTGGGACAT-GCATCGGCTCGAGATGT
* *
46978337 AAGCCAGTGTAAGACCGTGTCTGGG
1 AAGCAAGTGTAAGACCATGTCTGGG
46978362 GCACGACATC
Statistics
Matches: 135, Mismatches: 18, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
45 3 0.02
46 60 0.44
47 51 0.38
48 21 0.16
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
AAGCAAGTGTAAGACCATGTCTGGGACATGCATCGGCTCGAGATGT
Found at i:46986374 original size:55 final size:55
Alignment explanation
Indices: 46986284--46986387 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 55
46986274 TGCGACATGG
* * *
46986284 CCGTGGGAAAACCTGTCAAAAAAATACAGGAGTGCGACACGCCCTTGCCTTGAAA
1 CCGTGGGAAAACCTGTCAAAAAAATACAGAAGTGCGACACACCCGTGCCTTGAAA
* ** *
46986339 CCGTGGGCAAACCTGTCAAATTAGTAC-GAACGTGCGACACACCCGTGCC
1 CCGTGGGAAAACCTGTCAAAAAAATACAGAA-GTGCGACACACCCGTGCC
46986388 CATCACTCGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 2 0.05
55 39 0.95
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (55 bp):
CCGTGGGAAAACCTGTCAAAAAAATACAGAAGTGCGACACACCCGTGCCTTGAAA
Found at i:46993277 original size:40 final size:40
Alignment explanation
Indices: 46993218--46993386 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
46993208 CGGGACTTTA
* * *
46993218 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
46993258 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
46993298 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
46993338 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
46993378 CCCGGATAT
1 CCCGGATAT
46993387 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:47001289 original size:40 final size:40
Alignment explanation
Indices: 47001230--47001398 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
47001220 CGGGACTTTA
* * *
47001230 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
47001270 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
47001310 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
47001350 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
47001390 CCCGGATAT
1 CCCGGATAT
47001399 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:47011861 original size:40 final size:40
Alignment explanation
Indices: 47011816--47011982 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
47011806 CGGAATATAA
47011816 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47011856 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
47011896 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47011936 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47011975 CCGGATAT
1 CCGGATAT
47011983 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47017779 original size:27 final size:27
Alignment explanation
Indices: 47017738--47017883 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
47017728 TGGATAAGTT
47017738 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
47017765 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
47017792 ATAGAATCACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
47017819 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * * *
47017846 GTAAAATTGCCGAGATACCCATGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
47017873 GTAAAATTACC
1 GTAGAATTACC
47017884 ATTTTGCCCT
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:47019766 original size:28 final size:28
Alignment explanation
Indices: 47019701--47019801 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
47019691 ATAGTGAATC
*
47019701 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
47019730 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
47019758 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
47019788 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47019802 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47019850 original size:29 final size:29
Alignment explanation
Indices: 47019789--47019919 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
47019779 TTTTAAACCC
*** *
47019789 GCACACTTAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
47019817 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
47019847 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
47019876 GCACACTTAGTGCCATATATTTTCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47019905 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
47019920 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:47027687 original size:28 final size:28
Alignment explanation
Indices: 47027622--47027722 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
47027612 ATAGTGAATC
*
47027622 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
47027651 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
47027679 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
47027709 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47027723 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47027771 original size:29 final size:29
Alignment explanation
Indices: 47027710--47027840 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
47027700 TTTTAAACCC
*** *
47027710 GCACACTTAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
47027738 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
47027768 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
47027797 GCACACTTAGTGCCATATATTTTCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47027826 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
47027841 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:47029626 original size:27 final size:26
Alignment explanation
Indices: 47029582--47029632 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
47029572 CTCGTTGCAA
*
47029582 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
47029609 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
47029633 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:47035193 original size:27 final size:27
Alignment explanation
Indices: 47035161--47035305 Score: 157
Period size: 27 Copynumber: 5.4 Consensus size: 27
47035151 GGATAAGTTG
* *
47035161 TAGAATTACCGAAATACCCCTATAAGA
1 TAGAATTACCGAAATACCCCTGTAGGA
47035188 TAGAATTACCGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTAGGA
* * * *
47035215 TAGAATTATCGAAATACACTTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGA
* * *
47035242 TAGAAATATCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGA
* * *
47035269 TAGAATTACC-AAGATACCCTTGTGGGG
1 TAGAATTACCGAA-ATACCCCTGTAGGA
*
47035296 TAAAATTACC
1 TAGAATTACC
47035306 ATTTTGCCCC
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
26 2 0.02
27 101 0.98
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGA
Found at i:47036046 original size:2 final size:2
Alignment explanation
Indices: 47036039--47036068 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
47036029 GCTTCGCCAC
*
47036039 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47036069 CTGTTCTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:47038039 original size:29 final size:29
Alignment explanation
Indices: 47038003--47038174 Score: 152
Period size: 29 Copynumber: 5.9 Consensus size: 29
47037993 ATCGACACCT
* *
47038003 ATCGAATATG-AAAGAGGATGGTTTCGACT
1 ATCGAATATGAAAAG-GGATGGTTTCAACC
* *
47038032 ATCGAATATGAAAAGGGATGGCTTAAACC
1 ATCGAATATGAAAAGGGATGGTTTCAACC
* * *
47038061 ATCGATTAAAGAAAAAGGATGGTTTCAACC
1 ATCGAAT-ATGAAAAGGGATGGTTTCAACC
* **
47038091 ATC-AATTATGAAAAAGGATGGTGACAACC
1 ATCGAA-TATGAAAAGGGATGGTTTCAACC
* **
47038120 ATCGAATATGAAAAGGGATAGTTTTGACC
1 ATCGAATATGAAAAGGGATGGTTTCAACC
*
47038149 ATC-AATTAAAGAAAAGGGATGGTTTC
1 ATCGAA-T-ATGAAAAGGGATGGTTTC
47038175 GACTATCTTT
Statistics
Matches: 115, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
28 2 0.02
29 70 0.61
30 43 0.37
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTTTCAACC
Found at i:47038081 original size:30 final size:29
Alignment explanation
Indices: 47038041--47038173 Score: 117
Period size: 30 Copynumber: 4.5 Consensus size: 29
47038031 TATCGAATAT
* *
47038041 GAAAAGGGATGGCTTAAACCATCGATTAAA
1 GAAAAGGGATGGTTTAAACCATCAATT-AA
* * *
47038071 GAAAAAGGATGGTTTCAACCATCAATTAT
1 GAAAAGGGATGGTTTAAACCATCAATTAA
* * *
47038100 GAAAAAGGATGG-TGACAACCATCGAA-TAT
1 GAAAAGGGATGGTTTA-AACCATC-AATTAA
* **
47038129 GAAAAGGGATAGTTTTGACCATCAATTAAA
1 GAAAAGGGATGGTTTAAACCATCAATT-AA
47038159 GAAAAGGGATGGTTT
1 GAAAAGGGATGGTTT
47038174 CGACTATCTT
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
28 3 0.04
29 40 0.48
30 41 0.49
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.23
Consensus pattern (29 bp):
GAAAAGGGATGGTTTAAACCATCAATTAA
Found at i:47038101 original size:59 final size:58
Alignment explanation
Indices: 47038003--47038171 Score: 180
Period size: 59 Copynumber: 2.9 Consensus size: 58
47037993 ATCGACACCT
* * * *
47038003 ATCGAATATGAAAGAGGATGGTTTCGACTATCGAA-TATGAAAAGGGATGGCTTA-AACC
1 ATCGAATAAGAAAAAGGATGGTTTCGACCATC-AATTATGAAAAGGGATGG-TGACAACC
* * *
47038061 ATCGATTAAAGAAAAAGGATGGTTTCAACCATCAATTATGAAAAAGGATGGTGACAACC
1 ATCGAAT-AAGAAAAAGGATGGTTTCGACCATCAATTATGAAAAGGGATGGTGACAACC
* * * * *
47038120 ATCGAATATGAAAAGGGATAGTTTTGACCATCAATTAAAGAAAAGGGATGGT
1 ATCGAATAAGAAAAAGGATGGTTTCGACCATCAATT-ATGAAAAGGGATGGT
47038172 TTCGACTATC
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
58 34 0.37
59 58 0.63
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (58 bp):
ATCGAATAAGAAAAAGGATGGTTTCGACCATCAATTATGAAAAGGGATGGTGACAACC
Found at i:47038158 original size:88 final size:88
Alignment explanation
Indices: 47038009--47038174 Score: 233
Period size: 88 Copynumber: 1.9 Consensus size: 88
47037999 ACCTATCGAA
* ** * * * *
47038009 TATGAAAGAGGATGGTTTCGACTATCGAATATGAAAAGGGATGGCTTAAACCATCGATTAAAGAA
1 TATGAAAAAGGATGGTGACAACCATCGAATATGAAAAGGGATAGCTTAAACCATCAATTAAAGAA
47038074 AAAGGATGGTTTCAACCATCAAT
66 AAAGGATGGTTTCAACCATCAAT
* **
47038097 TATGAAAAAGGATGGTGACAACCATCGAATATGAAAAGGGATAGTTTTGACCATCAATTAAAGAA
1 TATGAAAAAGGATGGTGACAACCATCGAATATGAAAAGGGATAGCTTAAACCATCAATTAAAGAA
*
47038162 AAGGGATGGTTTC
66 AAAGGATGGTTTC
47038175 GACTATCTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.25
Consensus pattern (88 bp):
TATGAAAAAGGATGGTGACAACCATCGAATATGAAAAGGGATAGCTTAAACCATCAATTAAAGAA
AAAGGATGGTTTCAACCATCAAT
Found at i:47048810 original size:40 final size:40
Alignment explanation
Indices: 47048755--47049002 Score: 329
Period size: 40 Copynumber: 6.2 Consensus size: 40
47048745 TGAATGATAC
* * *
47048755 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
47048795 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
47048835 CCGGGTTAAGACTCGAAGGCATTTGTGTGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
47048875 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
47048915 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
47048955 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
47048995 CC-GGCTAA
1 CCGGGCTAA
47049003 ATTCCGAAGA
Statistics
Matches: 185, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
39 5 0.03
40 178 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:47048972 original size:120 final size:120
Alignment explanation
Indices: 47048755--47048981 Score: 375
Period size: 120 Copynumber: 1.9 Consensus size: 120
47048745 TGAATGATAC
* *
47048755 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
* * *
47048820 TGCGAGTTGCTATATCCGGGTTAAGACTCGAAGGCATTTGTGTGAGTTGATATAT
66 TGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGTGAGTTGATATAT
* *
47048875 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTT
47048939 GTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTG
65 GTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTG
47048982 CTTGTGGTTA
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
120 97 0.98
121 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGTGAGTTGATATAT
Found at i:47052843 original size:235 final size:237
Alignment explanation
Indices: 47052410--47052880 Score: 869
Period size: 235 Copynumber: 2.0 Consensus size: 237
47052400 TATGGTCTAC
*
47052410 AGTTTTATGGAATTGTTTTGTGAAAATTTAGTTCGAAAATTTTGACGTTTTGGCACTCAATTTAG
1 AGTTTTATGGAATTGTTTTGTGAAAATTTAGTTCGAAAATTTTGACGATTTGGCACTCAATTTAG
47052475 TCAAAAGGACTAAATTGTAAAAAGTGCAAAACTTGAGTTCTATATGCTAGAGGTGTCCAATTGTT
66 TCAAAAGGACTAAATTGTAAAAAGTGCAAAACTTGAGTTCTATATGCTAGAGGTGTCCAATTGTT
47052540 ATGAAATTTTAAATTGGAAGTCCTTAAATGGTAATTAGACCACTGGTTAATTTTTTAGACAAAAA
131 ATGAAATTTTAAATTGGAAGTCCTTAAATGGTAATTAGACCACTGGTTAATTTTTTAGACAAAAA
47052605 TGGACATGAAATAGGTGAAATAGAATATTTTTAAGTTAGGAA
196 TGGACATGAAATAGGTGAAATAGAATATTTTTAAGTTAGGAA
*
47052647 AGTTTTATGGAATTGTTTTGTGAAAATTTCGTTCGAAAATTTTGAC-ATTTGGACACTCAATTTA
1 AGTTTTATGGAATTGTTTTGTGAAAATTTAGTTCGAAAATTTTGACGATTTGG-CACTCAATTTA
47052711 GTCAAAAGGACTAAATTGT-AAAAGTGCAAAACTTGAGTTCTATATGCT-GAGGTGTCCAATTGT
65 GTCAAAAGGACTAAATTGTAAAAAGTGCAAAACTTGAGTTCTATATGCTAGAGGTGTCCAATTGT
*
47052774 TATGAAATTTTAAATTGGAGGT-CTGTAAATGGTAATTAGACCACTGGTTAATTTTTTAGACAAA
130 TATGAAATTTTAAATTGGAAGTCCT-TAAATGGTAATTAGACCACTGGTTAATTTTTTAGACAAA
47052838 AATGGACATGAAATAGGTGAAATAGAATATTTTTAAGTTAGGA
194 AATGGACATGAAATAGGTGAAATAGAATATTTTTAAGTTAGGA
47052881 GCATTTTGGT
Statistics
Matches: 229, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
234 2 0.01
235 118 0.52
236 34 0.15
237 75 0.33
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (237 bp):
AGTTTTATGGAATTGTTTTGTGAAAATTTAGTTCGAAAATTTTGACGATTTGGCACTCAATTTAG
TCAAAAGGACTAAATTGTAAAAAGTGCAAAACTTGAGTTCTATATGCTAGAGGTGTCCAATTGTT
ATGAAATTTTAAATTGGAAGTCCTTAAATGGTAATTAGACCACTGGTTAATTTTTTAGACAAAAA
TGGACATGAAATAGGTGAAATAGAATATTTTTAAGTTAGGAA
Found at i:47055656 original size:49 final size:50
Alignment explanation
Indices: 47055576--47055821 Score: 291
Period size: 49 Copynumber: 4.9 Consensus size: 50
47055566 ATCTGTTGTG
*
47055576 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
47055626 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * **
47055676 CGATCACGTGTGTAGTTA-TAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAG-TACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
47055726 AGGTCACGTGTGTAGTACTAAGTGCAGGCCACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
47055776 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATATGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
47055822 GTTTTGGCTA
Statistics
Matches: 165, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
49 84 0.51
50 44 0.27
51 35 0.21
52 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:47058209 original size:27 final size:27
Alignment explanation
Indices: 47058171--47058225 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
47058161 CGGGCGTGTG
47058171 ACCCCTATTTTGGCAAAAATTTTCTAA
1 ACCCCTATTTTGGCAAAAATTTTCTAA
*
47058198 ACCCCTATTTTGGTAAAAATTTTCTAA
1 ACCCCTATTTTGGCAAAAATTTTCTAA
47058225 A
1 A
47058226 TGTTGTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (27 bp):
ACCCCTATTTTGGCAAAAATTTTCTAA
Found at i:47058724 original size:23 final size:23
Alignment explanation
Indices: 47058688--47058746 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
47058678 GTTTCAACCT
*
47058688 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCATGTGGAGGCAATG
*
47058711 CACACACCCATGTGGAGGCAATG
1 CACACGCCCATGTGGAGGCAATG
47058734 CACACGCCCATGT
1 CACACGCCCATGT
47058747 TCATTGGGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.25, C:0.34, G:0.27, T:0.14
Consensus pattern (23 bp):
CACACGCCCATGTGGAGGCAATG
Found at i:47060278 original size:43 final size:43
Alignment explanation
Indices: 47060215--47060296 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
47060205 CATGAATCGC
* * *
47060215 ATCCATTATGAACTCAGACCTCTCAACGAGCTTGGATGCTTGT
1 ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGCTTGT
* * *
47060258 ATCCATAATGAACTCGGACCTTTCTACAAGCTCGGATGC
1 ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
47060297 CACATATCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGCTTGT
Found at i:47063625 original size:42 final size:43
Alignment explanation
Indices: 47063514--47063637 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
47063504 ACATGAATCG
* * * * *
47063514 CATCCATTATGAACTCGGACCTCTCAATGAGCTCAGATGCTCT
1 CATCCATAATGAACTCGGACCACTCAATGAGCTCGGATACTCA
*
47063557 CATCCATAATGAACTCGGA-TATCTCAATGAGCTCGGATAC-CA
1 CATCCATAATGAACTCGGACCA-CTCAATGAGCTCGGATACTCA
* * *
47063599 CATATC-TCATGAACTCGGACCACTCAACGAGCTCGGATA
1 CAT-CCATAATGAACTCGGACCACTCAATGAGCTCGGATA
47063638 TCTTAGTTCC
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCACTCAATGAGCTCGGATACTCA
Found at i:47065255 original size:24 final size:25
Alignment explanation
Indices: 47065228--47065329 Score: 66
Period size: 25 Copynumber: 4.1 Consensus size: 25
47065218 GTACATGTTT
*
47065228 GCTCATACGAGTTG-TAAATGGTAA
1 GCTCATACGAGCTGATAAATGGTAA
* * *
47065252 GCTCCTCCGAGCTGATTAATGGTAA
1 GCTCATACGAGCTGATAAATGGTAA
* * * * *
47065277 GCACCTCCAAGCTGA-ATAACGGTAA
1 GCTCATACGAGCTGATA-AATGGTAA
* *
47065302 GCTCATACTAGCTGAGTATA-GGTAA
1 GCTCATACGAGCTGA-TAAATGGTAA
47065327 GCT
1 GCT
47065330 AAGAGCTAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
24 11 0.18
25 48 0.79
26 1 0.02
27 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGATAAATGGTAA
Found at i:47065276 original size:25 final size:25
Alignment explanation
Indices: 47065244--47065305 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
47065234 ACGAGTTGTA
* *
47065244 AATGGTAAGCTCCTCCGAGCTGATT
1 AATGGTAAGCTCCTCCAAGCTGAAT
*
47065269 AATGGTAAGCACCTCCAAGCTGAAT
1 AATGGTAAGCTCCTCCAAGCTGAAT
*
47065294 AACGGTAAGCTC
1 AATGGTAAGCTC
47065306 ATACTAGCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (25 bp):
AATGGTAAGCTCCTCCAAGCTGAAT
Found at i:47069758 original size:2 final size:2
Alignment explanation
Indices: 47069751--47069791 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
47069741 TTTATAAGTA
47069751 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
47069792 AGTAAAGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47070919 original size:26 final size:26
Alignment explanation
Indices: 47070890--47070955 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
47070880 TAAATTTCTT
47070890 TATTATTTGATATGTTT-AGA-TTTTAC
1 TATTATTTGAT-T-TTTGAGACTTTTAC
* * *
47070916 TATTAATTGATTTTTGATACTTTTAT
1 TATTATTTGATTTTTGAGACTTTTAC
47070942 TATTATTTGATTTT
1 TATTATTTGATTTT
47070956 AATATACTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 3 0.09
26 28 0.82
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (26 bp):
TATTATTTGATTTTTGAGACTTTTAC
Found at i:47074041 original size:15 final size:15
Alignment explanation
Indices: 47074021--47074051 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47074011 TAATACAATA
47074021 AGGGTTTCAAAAAAT
1 AGGGTTTCAAAAAAT
47074036 AGGGTTTCAAAAAAT
1 AGGGTTTCAAAAAAT
47074051 A
1 A
47074052 CAAATCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (15 bp):
AGGGTTTCAAAAAAT
Found at i:47074901 original size:19 final size:18
Alignment explanation
Indices: 47074879--47074914 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47074869 TTTCTATATT
47074879 AATTATTTATTTTAATTTC
1 AATT-TTTATTTTAATTTC
*
47074898 AATTTTTTTTTTAATTT
1 AATTTTTATTTTAATTT
47074915 TAAGATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
AATTTTTATTTTAATTTC
Found at i:47078008 original size:20 final size:21
Alignment explanation
Indices: 47077974--47078013 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47077964 ATTGTTTATG
* *
47077974 TTTTTATAATAAATGTTCTAA
1 TTTTTACAATAAATGCTCTAA
47077995 TTTTTACAAT-AATGCTCTA
1 TTTTTACAATAAATGCTCTA
47078014 TAACCCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTTTACAATAAATGCTCTAA
Found at i:47080874 original size:40 final size:39
Alignment explanation
Indices: 47080683--47080874 Score: 147
Period size: 40 Copynumber: 4.8 Consensus size: 39
47080673 GGATATAACG
* ** * *
47080683 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
47080723 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
47080763 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
47080802 ACTCGCACGAATGCCTT-TGGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
47080842 ACTTAC-CACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-T-CGCACAAAGCCTTCGGGACTTAGCCCGGA
47080875 CATCATTCGA
Statistics
Matches: 119, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 78 0.66
41 9 0.08
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:47088732 original size:40 final size:40
Alignment explanation
Indices: 47088687--47088826 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
47088677 CGGATATAAC
*
47088687 GACTCGCTCAAATGCCTTCGGGAC-GAAGCCC-GGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACTGAA-CCCGGGTT-TAGT
* *
47088727 GACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* * * * * *
47088767 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* *
47088806 AACTCGCACGAATGCCTTCGG
1 GACTCGCACAAATGCCTTCGG
47088827 ATCCTAGTCC
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.38
40 48 0.55
41 6 0.07
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
Found at i:47088811 original size:79 final size:82
Alignment explanation
Indices: 47088695--47088879 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
47088685 ACGACTCGCT
** * *
47088695 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
47088758 GGGTTTAGTAACTT-GCA
65 GGATATAGTAACTTAGCA
* **
47088775 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
* *
47088838 GATATATTCACTTAGCA
66 GATATAGTAACTTAGCA
47088855 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47088880 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
GATATAGTAACTTAGCA
Found at i:47088863 original size:40 final size:38
Alignment explanation
Indices: 47088766--47088879 Score: 111
Period size: 40 Copynumber: 2.9 Consensus size: 38
47088756 CCGGGTTTAG
* *
47088766 TAACTTGCACAAATGCCTTCGGGCTTAGCCCGGATTTAT
1 TAACTTGCACAAA-GCCTTCGGGCCTAGCCCGGATATAT
* * * *
47088805 TAACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAT
1 TAACTTGCAC-AAAGCCTTCGG-GCCTAGCCCGGATATAT
* *
47088845 TCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TAACTT-GCACAAAGCCTTCGGG-CCTAGCCCGGA
47088880 CATCATTCGA
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
39 17 0.29
40 38 0.64
41 4 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
TAACTTGCACAAAGCCTTCGGGCCTAGCCCGGATATAT
Found at i:47092399 original size:24 final size:24
Alignment explanation
Indices: 47092367--47092439 Score: 128
Period size: 24 Copynumber: 3.0 Consensus size: 24
47092357 TGTGTCAGTG
47092367 TAAGACCATGTCTAGGACATGGCA
1 TAAGACCATGTCTAGGACATGGCA
47092391 TAAGACCATGTCTAGGACATGGCA
1 TAAGACCATGTCTAGGACATGGCA
* *
47092415 TAAAACCATGTCTGGGACATGGCA
1 TAAGACCATGTCTAGGACATGGCA
47092439 T
1 T
47092440 CGGCACGTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (24 bp):
TAAGACCATGTCTAGGACATGGCA
Found at i:47092582 original size:49 final size:48
Alignment explanation
Indices: 47092504--47092635 Score: 135
Period size: 47 Copynumber: 2.8 Consensus size: 48
47092494 AGATATATGA
* * ** *
47092504 GAGCTAATGAAAGACCATGTCTGCAACATGGCATCGGCCTTGATTTCAAT
1 GAGCTAATGTAAGACCATGCCTGGGACATGGCATCGGACTTGA--TCAAT
* **
47092554 -AG-TCAATGTAAGACCATGCCTGGGACATGGCTTC-GACTTGATGGAT
1 GAGCT-AATGTAAGACCATGCCTGGGACATGGCATCGGACTTGATCAAT
*
47092600 GAGCTAGTGTAAGACCATGCCTGGGACATGGCATCG
1 GAGCTAATGTAAGACCATGCCTGGGACATGGCATCG
47092636 ACATTATACC
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
46 3 0.04
47 30 0.44
48 8 0.12
49 27 0.40
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
GAGCTAATGTAAGACCATGCCTGGGACATGGCATCGGACTTGATCAAT
Found at i:47094494 original size:40 final size:40
Alignment explanation
Indices: 47094432--47094647 Score: 285
Period size: 40 Copynumber: 5.4 Consensus size: 40
47094422 AAGCCAAGTA
* * * *
47094432 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
47094471 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47094511 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47094551 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
47094591 CCTTTGGGACTTAGCCCGGA-ACTAGTCAGTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
47094631 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
47094648 TATTATCATC
Statistics
Matches: 161, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.08
40 148 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47102143 original size:40 final size:40
Alignment explanation
Indices: 47102081--47102298 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
47102071 AAGCCAAGTA
* * * *
47102081 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
47102120 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47102160 CCTTCGGGACTTAGCCCGGATATAGTAACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
47102200 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCAGAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
47102240 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
47102280 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47102299 TTATCATCCA
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.08
40 147 0.92
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47111150 original size:48 final size:47
Alignment explanation
Indices: 47111088--47111211 Score: 139
Period size: 47 Copynumber: 2.6 Consensus size: 47
47111078 TTTGTGTGCT
* *
47111088 AGTGTAAGA-TATGTCTGGGACAT-GCATCAGCCACATT-ATTGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCA---A-ATTGATGGACGAGCC
* * *
47111135 AGTTTAAGACCATGTCTGGGACATGGCATCAATTTGATGGACGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAAATTGATGGACGAGCC
47111182 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
47111212 GGCATTATAC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
45 2 0.03
46 5 0.07
47 41 0.61
48 13 0.19
49 6 0.09
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAAATTGATGGACGAGCC
Found at i:47115518 original size:20 final size:21
Alignment explanation
Indices: 47115479--47115518 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47115469 GTCATAATGG
*
47115479 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGATGCCCTT
*
47115500 CCACATGGGCGT-ATGCCCT
1 CCACACGGGCGTGATGCCCT
47115519 GTTTCGAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGATGCCCTT
Found at i:47119726 original size:13 final size:14
Alignment explanation
Indices: 47119698--47119726 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47119688 GATTGGGGTA
47119698 TGATTCTATATATC
1 TGATTCTATATATC
47119712 TGATTCTAT-TATC
1 TGATTCTATATATC
47119725 TG
1 TG
47119727 TATCTGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (14 bp):
TGATTCTATATATC
Found at i:47119760 original size:6 final size:6
Alignment explanation
Indices: 47119749--47119778 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
47119739 ACTTGAGTCC
*
47119749 GAATCT GAATCT GAATCT GAATTT GAATCT
1 GAATCT GAATCT GAATCT GAATCT GAATCT
47119779 AACTATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (6 bp):
GAATCT
Found at i:47128362 original size:20 final size:21
Alignment explanation
Indices: 47128337--47128384 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
47128327 CATATCTTTT
47128337 ATTTTT-CGATTTTCTTTCAA
1 ATTTTTACGATTTTCTTTCAA
*
47128357 ATTTTTATGATTTTCTTTCAA
1 ATTTTTACGATTTTCTTTCAA
47128378 ATTTTTA
1 ATTTTTA
47128385 TTTTTTTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.23, C:0.10, G:0.04, T:0.62
Consensus pattern (21 bp):
ATTTTTACGATTTTCTTTCAA
Found at i:47128393 original size:21 final size:21
Alignment explanation
Indices: 47128344--47128385 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
47128334 TTTATTTTTC
47128344 GATTTTCTTTCAAATTTTTAT
1 GATTTTCTTTCAAATTTTTAT
47128365 GATTTTCTTTCAAATTTTTAT
1 GATTTTCTTTCAAATTTTTAT
47128386 TTTTTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
GATTTTCTTTCAAATTTTTAT
Found at i:47132204 original size:19 final size:19
Alignment explanation
Indices: 47132145--47132214 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
47132135 AAACAAAGAG
* *
47132145 AAGAAAAGGAAATAGGGGA
1 AAGAAAAGGAAAGAGGAGA
* *
47132164 ACATAAGAAGTGAAAAGGGGAGTA
1 A-AGAA-AAG-G-AAAGAGGAG-A
47132188 AA-AAAAGGAAAGAGGAGA
1 AAGAAAAGGAAAGAGGAGA
47132206 AAGAAAAGG
1 AAGAAAAGG
47132215 GAGGAAAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 3 0.08
19 15 0.38
20 4 0.10
21 6 0.15
22 3 0.08
23 7 0.17
24 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.34, T:0.06
Consensus pattern (19 bp):
AAGAAAAGGAAAGAGGAGA
Found at i:47132910 original size:20 final size:20
Alignment explanation
Indices: 47132852--47132911 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
47132842 GTGCCCCTTT
* *
47132852 TTGTACTTTGGTACCCCTGA
1 TTGTACTTTGATACCCTTGA
* * * * *
47132872 ATGGACATTCATGCCCTTGA
1 TTGTACTTTGATACCCTTGA
47132892 TTGTACTTTGATACCCTTGA
1 TTGTACTTTGATACCCTTGA
47132912 ATGCACATAC
Statistics
Matches: 28, Mismatches: 12, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGTACTTTGATACCCTTGA
Found at i:47132947 original size:40 final size:40
Alignment explanation
Indices: 47132749--47132956 Score: 265
Period size: 40 Copynumber: 5.2 Consensus size: 40
47132739 AATTATTGTT
* * * * *
47132749 TGAATGCACATACATGCCCCTGTTTGTACTTCGATACCCT
1 TGAATGCACATACGTGCCCCTTTTTGTACTTTGGTACCCC
* *
47132789 TGAATGCATATACGTGCCCCTTTTTGTACTTTGGCACCCC
1 TGAATGCACATACGTGCCCCTTTTTGTACTTTGGTACCCC
47132829 TGAATGCACATACGTGCCCCTTTTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTTTTTGTACTTTGGTACCCC
* * * * * *
47132869 TGAATGGACATTCATG-CCCTTGATTGTACTTTGATACCCT
1 TGAATGCACATACGTGCCCCTT-TTTGTACTTTGGTACCCC
*
47132909 TGAATGCACATACGTGCCCCTTTTTGTACTTTAGTACCCC
1 TGAATGCACATACGTGCCCCTTTTTGTACTTTGGTACCCC
*
47132949 AGAATGCA
1 TGAATGCA
47132957 TAACATGCTC
Statistics
Matches: 143, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 5 0.03
40 133 0.93
41 5 0.03
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTTTTTGTACTTTGGTACCCC
Found at i:47134740 original size:15 final size:15
Alignment explanation
Indices: 47134720--47134748 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47134710 AGGCTAATCC
47134720 TCAAGACTTATAACT
1 TCAAGACTTATAACT
47134735 TCAAGACTTATAAC
1 TCAAGACTTATAAC
47134749 CTAAGTCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (15 bp):
TCAAGACTTATAACT
Found at i:47135512 original size:19 final size:19
Alignment explanation
Indices: 47135488--47135529 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
47135478 TTGGATGAAG
47135488 AAAATAAATAA-TTAAATT
1 AAAATAAATAATTTAAATT
47135506 CAAAATAAATAATTTAAATT
1 -AAAATAAATAATTTAAATT
47135526 AAAA
1 AAAA
47135530 GATCATCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATAAATAATTTAAATT
Found at i:47135572 original size:27 final size:26
Alignment explanation
Indices: 47135542--47135603 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
47135532 TCATCATTGT
47135542 TAATTAT-TTTGGAGTTCAAACAATTTA
1 TAATTATATTT-GA-TTCAAACAATTTA
*
47135569 TAATTATAATTTTATTCAAACAATTTA
1 TAATTAT-ATTTGATTCAAACAATTTA
47135596 TAATTATA
1 TAATTATA
47135604 ATTTTACATG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 1 0.03
27 27 0.84
28 1 0.03
29 3 0.09
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (26 bp):
TAATTATATTTGATTCAAACAATTTA
Found at i:47135604 original size:27 final size:27
Alignment explanation
Indices: 47135556--47135609 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
47135546 TATTTTGGAG
47135556 TTCAAACAATTTATAATTATAATTTTA
1 TTCAAACAATTTATAATTATAATTTTA
47135583 TTCAAACAATTTATAATTATAATTTTA
1 TTCAAACAATTTATAATTATAATTTTA
47135610 CATGTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (27 bp):
TTCAAACAATTTATAATTATAATTTTA
Found at i:47157393 original size:9 final size:9
Alignment explanation
Indices: 47157379--47157411 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
47157369 TCTTACTGTC
47157379 GAGAAATAA
1 GAGAAATAA
47157388 GAGAAATAA
1 GAGAAATAA
47157397 GAGAAATAA
1 GAGAAATAA
47157406 GAGAAA
1 GAGAAA
47157412 ATGATTCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (9 bp):
GAGAAATAA
Found at i:47161478 original size:54 final size:54
Alignment explanation
Indices: 47161290--47161484 Score: 207
Period size: 55 Copynumber: 3.6 Consensus size: 54
47161280 ATTTTTATGT
* * *
47161290 CTTGACATGGTCTTACGTGGTATCCTTGCCTCAT-GAACTCACCAATGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGC
* * * *
47161343 CTTGGCATGGTCTTACATGGGA-CATTTGCCTTATAGTAA-TTCACCAATGCCATGT
1 CTTGACATGGTCTTACATGGTATC-CTTGCCTTATAG-AACTT-ACCAATGCCATGC
** * **
47161398 CTTGACATGGTCTTACATTATTTCCTTGCCTTATAGAACTTGTCAATGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGC
* * *
47161452 CTTGGCATGGTCTAACATGGTATCCTTGTCTTA
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTA
47161485 CCAAATGTTA
Statistics
Matches: 114, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
52 1 0.01
53 27 0.24
54 41 0.36
55 44 0.39
56 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGC
Found at i:47161753 original size:44 final size:44
Alignment explanation
Indices: 47161668--47161754 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
47161658 GTATCCTTAA
* *
47161668 CCGTCAATTCCTCCTTAAATGCCATGTTATGAACATAGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATAGACTTTT
* * *
47161712 CCGTCAATTCTTCCTTAATTGCCATGGTA-CAACCATCGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAA-CATAGACTTT
47161755 GAGATATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATAGACTTTT
Found at i:47178078 original size:4 final size:4
Alignment explanation
Indices: 47178069--47178095 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47178059 AATTTGGGTT
47178069 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
47178096 TATGGATTTA
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:47185687 original size:47 final size:46
Alignment explanation
Indices: 47185618--47185930 Score: 220
Period size: 47 Copynumber: 6.7 Consensus size: 46
47185608 GTATAATGCC
* *
47185618 GATGCCATGTCCTAGACATGGTCTTACATTGGCTCGTTCATCAAGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TTCATCAAGTT
* * * *
47185665 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTTTACAT-ATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTT-CATCA--AGT--T
** * * *
47185715 GATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTAT-ATGTGT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTC-ATCAAGT-T
*
47185762 CGATGCCATGTCCCAGACAT-GTCTTACACTGG-T-TTACATCTCAAGGTC
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTT-CA--TCAA-GTT
* *
47185810 GATG-CATGTCCCAGACAT-GTCTTACACT-ACTCTT-ATCTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTCA--TCAA-GTT
*
47185855 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT-AATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTCATCAA-GT---T
47185903 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
47185931 AGCACTCAAT
Statistics
Matches: 220, Mismatches: 25, Indels: 43
0.76 0.09 0.15
Matches are distributed among these distances:
45 18 0.08
46 54 0.25
47 76 0.35
48 33 0.15
49 3 0.01
50 36 0.16
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTCATCAAGTT
Found at i:47185883 original size:93 final size:92
Alignment explanation
Indices: 47185664--47185931 Score: 312
Period size: 93 Copynumber: 2.8 Consensus size: 92
47185654 TTCATCAAGT
*
47185664 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTTACATATCTGTGCCGATGCCATGTCCCA
1 TGATGCCATGTCCCAGACATGGTCTTACACT-G-GTTTACATATCTG-GCCGATG-CATGTCCCA
*
47185729 GACATGGTCTTACACTAACACCTCTATATGTG
62 GACAT-GTCTTACACTAACACCTCTATATGTC
* * *
47185761 TCGATGCCATGTCCCAGACAT-GTCTTACACTGGTTTACATCTCAAGGTCGATGCATGTCCCAGA
1 T-GATGCCATGTCCCAGACATGGTCTTACACTGGTTTACATATC-TGGCCGATGCATGTCCCAGA
* *
47185825 CATGTCTTACACT-ACTCTTATCTCA-ATG-C
64 CATGTCTTACACTAACAC--CTCT-ATATGTC
* *
47185854 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCAGA
1 TGATGCCATGTCCCAGACATGGTCTTACACTGG-TTTACAT-ATCTGGCCGATGCATGTCCCAGA
47185918 CATGTCTTACACTA
64 CATGTCTTACACTA
47185932 GCACTCAATA
Statistics
Matches: 150, Mismatches: 12, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
92 22 0.15
93 57 0.38
94 23 0.15
95 16 0.11
96 2 0.01
97 11 0.07
98 19 0.13
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (92 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTGGTTTACATATCTGGCCGATGCATGTCCCAGACA
TGTCTTACACTAACACCTCTATATGTC
Found at i:47188832 original size:148 final size:149
Alignment explanation
Indices: 47188564--47188860 Score: 479
Period size: 148 Copynumber: 2.0 Consensus size: 149
47188554 CTCCTGTAGT
* **
47188564 GGATGCAATCACGTTTAGATACCTTATTAGTCTAGCAGTATGTAAAAAACTTGATATGTGTCTAA
1 GGATGCAATCACGTTTAGATACCTTATTAGTCTAGCAATATGTAAAAAACTTGATATACGTCTAA
* *
47188629 TGGGTGATGTTACAACCTATTTGTATGGTACACTTGAAAGTGAAATTTATATGAAAAT-CCTAAA
66 TGGATGATGTTACAACCTATTTGTATGGTACACTTAAAAGTGAAATTTATATGAAAATCCCTAAA
* *
47188693 GGATATAGCGTTTCTCGGG
131 GGATAAAGAGTTTCTCGGG
* *
47188712 GGATGCAATCACGTTTAGATACCTTATTAGTCTAGTAATATGTGAAAAACTTGATATACGTCTAA
1 GGATGCAATCACGTTTAGATACCTTATTAGTCTAGCAATATGTAAAAAACTTGATATACGTCTAA
* * *
47188777 TGGATGTTGTTACAGCCTATTTGTATGGTACACTTAAAAGTGAAATTTATATGAAAATCCCTGAA
66 TGGATGATGTTACAACCTATTTGTATGGTACACTTAAAAGTGAAATTTATATGAAAATCCCTAAA
47188842 GGATAAAGAGTTTCTCGGG
131 GGATAAAGAGTTTCTCGGG
47188861 AAAATTGCTC
Statistics
Matches: 136, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
148 114 0.84
149 22 0.16
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.34
Consensus pattern (149 bp):
GGATGCAATCACGTTTAGATACCTTATTAGTCTAGCAATATGTAAAAAACTTGATATACGTCTAA
TGGATGATGTTACAACCTATTTGTATGGTACACTTAAAAGTGAAATTTATATGAAAATCCCTAAA
GGATAAAGAGTTTCTCGGG
Found at i:47190365 original size:12 final size:13
Alignment explanation
Indices: 47190348--47190376 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47190338 TGTTTAATTA
47190348 TATTA-GGATAAT
1 TATTAGGGATAAT
47190360 TATTAGGGATAAT
1 TATTAGGGATAAT
47190373 TATT
1 TATT
47190377 TAGATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (13 bp):
TATTAGGGATAAT
Found at i:47191854 original size:23 final size:23
Alignment explanation
Indices: 47191759--47191889 Score: 86
Period size: 23 Copynumber: 5.7 Consensus size: 23
47191749 ACACATAATC
47191759 TTCTATAAAGCCTTTGTGGCGTA
1 TTCTATAAAGCCTTTGTGGCGTA
**
47191782 TT-TAGTAAAG-CTTGTGTGGAATA
1 TTCTA-TAAAGCCTT-TGTGGCGTA
* * ** ** *
47191805 TTATGTAAAGATTTTGTGATGTG
1 TTCTATAAAGCCTTTGTGGCGTA
47191828 TTCTATAAAGCCTTTGTGGCGTA
1 TTCTATAAAGCCTTTGTGGCGTA
* * * * **
47191851 TTCTGTGATGCCTATGTGGCACA
1 TTCTATAAAGCCTTTGTGGCGTA
*
47191874 TTCTATAATGCCTTTG
1 TTCTATAAAGCCTTTG
47191890 AGGTGAGATC
Statistics
Matches: 80, Mismatches: 24, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
22 5 0.06
23 72 0.90
24 3 0.04
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (23 bp):
TTCTATAAAGCCTTTGTGGCGTA
Found at i:47194381 original size:33 final size:33
Alignment explanation
Indices: 47194339--47194406 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
47194329 CAACAAAAGA
47194339 ATGTTAAATTAATTAAATAAAATTACATATTAT
1 ATGTTAAATTAATTAAATAAAATTACATATTAT
47194372 ATGTTAAATTAATTAAATAAAATTACATATTAT
1 ATGTTAAATTAATTAAATAAAATTACATATTAT
47194405 AT
1 AT
47194407 TTATTTTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (33 bp):
ATGTTAAATTAATTAAATAAAATTACATATTAT
Found at i:47195002 original size:21 final size:21
Alignment explanation
Indices: 47194978--47195040 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
47194968 AATTCTAAAG
*
47194978 TTATTTATTATGAAAAATAAT
1 TTATTTATTATAAAAAATAAT
47194999 TTATATT-TTATAAAAATTATAAT
1 TTAT-TTATTATAAAAA--ATAAT
*
47195022 ATATTTATTTATAAAAAAT
1 TTATTTA-TTATAAAAAAT
47195041 TATGACAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
21 12 0.34
22 6 0.17
23 8 0.23
24 9 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTATTTATTATAAAAAATAAT
Found at i:47195005 original size:23 final size:23
Alignment explanation
Indices: 47194979--47195038 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
47194969 ATTCTAAAGT
*
47194979 TATTTATTATGAAAAATAAT-TTA
1 TATTTATTAT-AAAAATAATAATA
*
47195002 TA-TT-TTATAAAAATTATAATA
1 TATTTATTATAAAAATAATAATA
47195023 TATTTATTTATAAAAA
1 TATTTA-TTATAAAAA
47195039 ATTATGACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 8 0.26
21 8 0.26
22 4 0.13
23 2 0.06
24 9 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTTATTATAAAAATAATAATA
Found at i:47196832 original size:19 final size:18
Alignment explanation
Indices: 47196810--47196851 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
47196800 ATTATTTAAA
47196810 AAATATTAAATTAATATTT
1 AAATATT-AATTAATATTT
* *
47196829 AAATATTAGTTTATATTT
1 AAATATTAATTAATATTT
47196847 AAATA
1 AAATA
47196852 ATGTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATATTAATTAATATTT
Found at i:47202677 original size:27 final size:27
Alignment explanation
Indices: 47202647--47202700 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
47202637 ATTTTGCCAA
*
47202647 TCTATTTAGCAAGCTGGAGTTCACCAG
1 TCTATTTAACAAGCTGGAGTTCACCAG
*
47202674 TCTATTTAACGAGCTGGAGTTCACCAG
1 TCTATTTAACAAGCTGGAGTTCACCAG
47202701 GTAAGTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (27 bp):
TCTATTTAACAAGCTGGAGTTCACCAG
Found at i:47203133 original size:13 final size:13
Alignment explanation
Indices: 47203115--47203151 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
47203105 GTGTGAAATT
47203115 GTTATGTTTTAAA
1 GTTATGTTTTAAA
47203128 GTTATGTTTTAAA
1 GTTATGTTTTAAA
* *
47203141 GATAAGTTTTA
1 GTTATGTTTTA
47203152 CGCGTGCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (13 bp):
GTTATGTTTTAAA
Found at i:47222446 original size:80 final size:80
Alignment explanation
Indices: 47222362--47222513 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
47222352 TATGGTAACC
* * * *
47222362 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
47222426 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
47222442 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
47222507 CCGGATA
66 CCGGATA
47222514 TAATTTCCAG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.02
80 59 0.98
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:47222452 original size:40 final size:39
Alignment explanation
Indices: 47222403--47222513 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
47222393 ATCACGATTT
*
47222403 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAA-GCACTA
*
47222443 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
47222483 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
47222514 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 58 0.92
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Done.