Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 94 of 333
Found at i:29599517 original size:24 final size:24
Alignment explanation
Indices: 29599463--29599517 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
29599453 TATTTATAAA
*
29599463 AATTATATTAATTAAATAATATTT
1 AATTAAATTAATTAAATAATATTT
* *
29599487 AAATAAATTAATCTAAATTATA-TT
1 AATTAAATTAAT-TAAATAATATTT
29599511 AATTAAA
1 AATTAAA
29599518 ATAAGATTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AATTAAATTAATTAAATAATATTT
Found at i:29599774 original size:24 final size:24
Alignment explanation
Indices: 29599731--29599777 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
29599721 TTAACGTAAA
*
29599731 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGAGAATATTTG
* *
29599755 TGATAAAACGTATGAGAATATTT
1 TGATAAAACGGACGAGAATATTT
29599778 CAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (24 bp):
TGATAAAACGGACGAGAATATTTG
Found at i:29600466 original size:67 final size:67
Alignment explanation
Indices: 29600383--29600520 Score: 249
Period size: 67 Copynumber: 2.1 Consensus size: 67
29600373 CATACACCTG
29600383 CATTTTATGATGTAAAGCATGCTAGTTGCGACTCCAATGGATAATCTTAGTTGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCGACTCCAATGGATAATCTTAGTTGTCTATGTGGTTT
29600448 GC
66 GC
* * *
29600450 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCCATGGCTAATCTTAGTTGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCGACTCCAATGGATAATCTTAGTTGTCTATGTGGTTT
29600515 GC
66 GC
29600517 CATT
1 CATT
29600521 ATAAATTGAG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (67 bp):
CATTTTATGATGTAAAGCATGCTAGTTGCGACTCCAATGGATAATCTTAGTTGTCTATGTGGTTT
GC
Found at i:29603988 original size:15 final size:15
Alignment explanation
Indices: 29603968--29604024 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
29603958 CGATGAATTT
29603968 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
29603983 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
29603998 ATTGAATTTATATTG
1 ATTGAATTTATATTG
29604013 ATTGAA-TTATAT
1 ATTGAATTTATAT
29604025 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:29604443 original size:21 final size:21
Alignment explanation
Indices: 29604419--29604503 Score: 116
Period size: 21 Copynumber: 4.0 Consensus size: 21
29604409 GTGTTGTATT
*
29604419 TCAGGCAACTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
29604440 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
29604461 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
* * **
29604482 TTAGGCACTTTATGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
29604503 T
1 T
29604504 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:29604445 original size:44 final size:43
Alignment explanation
Indices: 29604395--29604503 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 43
29604385 GACTTTATCA
*
29604395 ATCAGGCACTTTATGTGTTGTATTTCAGGCAACTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA-TTCAGGCAACTCGTGTGTCGT
* ** *
29604439 ATCAGGCACCTCGTGTGTCGTA-TCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATTCAGGCAACTCGTGTGTCGT
* *
29604481 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
29604504 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 36 0.67
44 18 0.33
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.37
Consensus pattern (43 bp):
ATCAGGCACTTTATGTGTCGTATTCAGGCAACTCGTGTGTCGT
Found at i:29606844 original size:51 final size:52
Alignment explanation
Indices: 29606749--29606866 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 52
29606739 AAGAATTAGA
* *
29606749 TAAAATTTGAAATATTGGAAATTATTTAAAATTTGAAATATTGAAAATTATT-
1 TAAAATTTGAAAT-CTGAAAATTATTTAAAATTTGAAATATTGAAAATTATTC
* * *
29606801 TAAAATTTGAAATCTGAAAATTATTTAAAATTTTAATTCTTGAAAATTATTC
1 TAAAATTTGAAATCTGAAAATTATTTAAAATTTGAAATATTGAAAATTATTC
29606853 T-AAATTTGAAATCT
1 TAAAATTTGAAATCT
29606867 TTAAATCTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
51 46 0.77
52 14 0.23
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (52 bp):
TAAAATTTGAAATCTGAAAATTATTTAAAATTTGAAATATTGAAAATTATTC
Found at i:29606867 original size:26 final size:26
Alignment explanation
Indices: 29606749--29606867 Score: 170
Period size: 26 Copynumber: 4.6 Consensus size: 26
29606739 AAGAATTAGA
* *
29606749 TAAAATTTGAAATATTGGAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
*
29606775 TAAAATTTGAAATATTGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
29606801 TAAAATTTGAAATC-TGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
* *
29606826 TAAAATTTTAATTCTTGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
29606852 CT-AAATTTGAAATCTT
1 -TAAAATTTGAAATCTT
29606868 TAAATCTATA
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
25 23 0.27
26 61 0.72
27 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAAATTATT
Found at i:29606924 original size:7 final size:7
Alignment explanation
Indices: 29606912--29606945 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
29606902 AATTAAAAAC
29606912 AACCCCT
1 AACCCCT
29606919 AACCCCT
1 AACCCCT
*
29606926 AACCCTT
1 AACCCCT
29606933 AAACCCCT
1 -AACCCCT
29606941 AACCC
1 AACCC
29606946 TTGTCCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCCCT
Found at i:29606939 original size:15 final size:15
Alignment explanation
Indices: 29606919--29606947 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29606909 AACAACCCCT
29606919 AACCCCTAACCCTTA
1 AACCCCTAACCCTTA
29606934 AACCCCTAACCCTT
1 AACCCCTAACCCTT
29606948 GTCCCTTTAA
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:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCCTAACCCTTA
Found at i:29607065 original size:14 final size:14
Alignment explanation
Indices: 29607038--29607104 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 14
29607028 CTATCTCATT
29607038 AACCCTAAACCCTTA
1 AACCCTAAA-CCTTA
29607053 AACCCTAAACCTTA
1 AACCCTAAACCTTA
* **
29607067 CATCCC-AGCCCTTA
1 -AACCCTAAACCTTA
* *
29607081 AACCATAAACCATA
1 AACCCTAAACCTTA
*
29607095 ATCCCTAAAC
1 AACCCTAAAC
29607105 TCATAACTCC
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
13 3 0.08
14 24 0.60
15 13 0.32
ACGTcount: A:0.40, C:0.39, G:0.01, T:0.19
Consensus pattern (14 bp):
AACCCTAAACCTTA
Found at i:29607089 original size:28 final size:27
Alignment explanation
Indices: 29607047--29607099 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
29607037 TAACCCTAAA
* *
29607047 CCCTTAAACCCTAAACCTTACATCCCAG
1 CCCTTAAACCATAAACCATA-ATCCCAG
29607075 CCCTTAAACCATAAACCATAATCCC
1 CCCTTAAACCATAAACCATAATCCC
29607100 TAAACTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.36, C:0.42, G:0.02, T:0.21
Consensus pattern (27 bp):
CCCTTAAACCATAAACCATAATCCCAG
Found at i:29607210 original size:38 final size:37
Alignment explanation
Indices: 29607144--29607286 Score: 137
Period size: 38 Copynumber: 3.8 Consensus size: 37
29607134 CCTTAAAATA
* * *
29607144 TTAACTCA-TAAACCATAAACCCCTAACCCACGTCCCC
1 TTAAC-CATTAAACCCTTAACCCCTAACCCACATCCCC
**
29607181 TTAACCATTAAACCACTTAACCCCTAACCCTTATCCCC
1 TTAACCATTAAACC-CTTAACCCCTAACCCACATCCCC
* * ** **
29607219 TTAACCATTAAACCCATAACCCTTAACCCTTAAACCC
1 TTAACCATTAAACCCTTAACCCCTAACCCACATCCCC
*
29607256 ATAACCATTAAAACCCTTAACCCCT-ACCCAC
1 TTAACCATT-AAACCCTTAACCCCTAACCCAC
29607287 TAATCCCTAA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
36 2 0.02
37 42 0.47
38 45 0.51
ACGTcount: A:0.36, C:0.41, G:0.01, T:0.22
Consensus pattern (37 bp):
TTAACCATTAAACCCTTAACCCCTAACCCACATCCCC
Found at i:29607212 original size:30 final size:30
Alignment explanation
Indices: 29607178--29607254 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
29607168 AACCCACGTC
* *
29607178 CCCTTAACCATTAAACCACTT-AACCCCTAA
1 CCCTTAACCCTTAAACCA-TTAAACCCATAA
*
29607208 CCCTTATCCCCTT-AACCATTAAACCCATAA
1 CCCTTA-ACCCTTAAACCATTAAACCCATAA
29607238 CCCTTAACCCTTAAACC
1 CCCTTAACCCTTAAACC
29607255 CATAACCATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 7 0.17
30 29 0.73
31 4 0.10
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.25
Consensus pattern (30 bp):
CCCTTAACCCTTAAACCATTAAACCCATAA
Found at i:29607223 original size:15 final size:14
Alignment explanation
Indices: 29607191--29607281 Score: 65
Period size: 15 Copynumber: 6.1 Consensus size: 14
29607181 TTAACCATTA
29607191 AACCACTTAACCCCT
1 AACC-CTTAACCCCT
*
29607206 AACCCTTATCCCCTT
1 AACCCTTAACCCC-T
* *
29607221 AACCATTAAACCCAT
1 AACCCTT-AACCCCT
*
29607236 AACCCTTAACCCTT
1 AACCCTTAACCCCT
* **
29607250 AAACCCATAACCATT
1 -AACCCTTAACCCCT
29607265 AAAACCCTTAACCCCT
1 --AACCCTTAACCCCT
29607281 A
1 A
29607282 CCCACTAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
14 15 0.25
15 30 0.49
16 16 0.26
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:29607241 original size:22 final size:22
Alignment explanation
Indices: 29607216--29607266 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
29607206 AACCCTTATC
29607216 CCCTTAACCATTAAACCCATAA
1 CCCTTAACCATTAAACCCATAA
*
29607238 CCCTTAACCCTTAAACCCATAA
1 CCCTTAACCATTAAACCCATAA
*
29607260 CCATTAA
1 CCCTTAA
29607267 AACCCTTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (22 bp):
CCCTTAACCATTAAACCCATAA
Found at i:29607277 original size:7 final size:7
Alignment explanation
Indices: 29607178--29607278 Score: 76
Period size: 7 Copynumber: 13.4 Consensus size: 7
29607168 AACCCACGTC
29607178 CCCTTAA
1 CCCTTAA
*
29607185 CCATTAAA
1 CCCTT-AA
29607193 CCACTTAA
1 CC-CTTAA
*
29607201 CCCCTAA
1 CCCTTAA
*
29607208 CCCTTATC
1 CCCTTA-A
29607216 CCCTTAA
1 CCCTTAA
*
29607223 CCATTAAA
1 CCCTT-AA
*
29607231 CCCATAA
1 CCCTTAA
29607238 CCCTTAA
1 CCCTTAA
29607245 CCCTTAAA
1 CCCTT-AA
*
29607253 CCCATAA
1 CCCTTAA
*
29607260 CCATTAAAA
1 CCCTT--AA
29607269 CCCTTAA
1 CCCTTAA
29607276 CCC
1 CCC
29607279 CTACCCACTA
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
7 40 0.55
8 25 0.34
9 8 0.11
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.24
Consensus pattern (7 bp):
CCCTTAA
Found at i:29607298 original size:29 final size:29
Alignment explanation
Indices: 29607236--29607327 Score: 75
Period size: 29 Copynumber: 3.1 Consensus size: 29
29607226 TTAAACCCAT
*
29607236 AACCCTT-AACCCTTAAACCCATAA-CCATTAA
1 AACCCTTAAACCC-T-AACCCATAATCC-CT-A
*
29607267 AACCCTTAACCCCT-ACCCACTAATCCCTA
1 AACCCTTAAACCCTAACCCA-TAATCCCTA
*
29607296 AA-CTTTAAACCCTAAACCCATAATCCCTA
1 AACCCTTAAACCCT-AACCCATAATCCCTA
29607325 AAC
1 AAC
29607328 ATATAATCCC
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
28 9 0.18
29 19 0.37
30 9 0.18
31 10 0.20
32 4 0.08
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (29 bp):
AACCCTTAAACCCTAACCCATAATCCCTA
Found at i:29607325 original size:15 final size:15
Alignment explanation
Indices: 29607281--29607343 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
29607271 CTTAACCCCT
29607281 ACCCACTAATCCCTAA
1 ACCCA-TAATCCCTAA
** *
29607297 A-CTTTAAACCCTAA
1 ACCCATAATCCCTAA
29607311 ACCCATAATCCCTAA
1 ACCCATAATCCCTAA
** *
29607326 ACATATAATCCCTGA
1 ACCCATAATCCCTAA
29607341 ACC
1 ACC
29607344 TTAAAATATT
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 10 0.28
15 25 0.69
16 1 0.03
ACGTcount: A:0.40, C:0.37, G:0.02, T:0.22
Consensus pattern (15 bp):
ACCCATAATCCCTAA
Found at i:29608122 original size:40 final size:41
Alignment explanation
Indices: 29608078--29608170 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 41
29608068 GGTGAACCTA
* * *
29608078 TAGCGGCGTTTTTTAG-AAAGTGCCACTAATGCTCGTTCTT
1 TAGCGGCGATTTTTAGAAAAGCGCCACTAATGCTCATTCTT
*
29608118 TAGCGGC-ATTTTTGGAAAAGCGCCACTAATGCTCATTCTT
1 TAGCGGCGATTTTTAGAAAAGCGCCACTAATGCTCATTCTT
*
29608158 TAGCGGCGCTTTT
1 TAGCGGCGATTTT
29608171 CATTTAAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 6 0.13
40 36 0.78
41 4 0.09
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (41 bp):
TAGCGGCGATTTTTAGAAAAGCGCCACTAATGCTCATTCTT
Found at i:29614547 original size:21 final size:21
Alignment explanation
Indices: 29614521--29614564 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
29614511 CGGGATAGCT
* *
29614521 CACACAGAGTGTGCTAACTCA
1 CACACAAAGTGTACTAACTCA
29614542 CACACAAAGTGTACTAACTCA
1 CACACAAAGTGTACTAACTCA
29614563 CA
1 CA
29614565 TAATTGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.18
Consensus pattern (21 bp):
CACACAAAGTGTACTAACTCA
Found at i:29617155 original size:28 final size:29
Alignment explanation
Indices: 29617090--29617188 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
29617080 CATGAGATTG
* *
29617090 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
29617119 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
29617147 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
29617175 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
29617189 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:29630629 original size:37 final size:39
Alignment explanation
Indices: 29630577--29630749 Score: 248
Period size: 38 Copynumber: 4.5 Consensus size: 39
29630567 TTGGCTCGGA
* *
29630577 TATAACAACCAGCACGAATGCCTTC-GGACTTAACCCG-
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGT
* *
29630614 TATAATAACCCGCACGAATGCCTTCGGGAC-TAACTCGA
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGT
* *
29630652 TATAATAACCCGCACGACTGCC-TCGGGACTTAACCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGT
29630690 TATAATAACCCGC-CGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCC-GT
29630729 TATAATAACCCGCACGAATGC
1 TATAATAACCCGCACGAATGC
29630750 TATGCACATA
Statistics
Matches: 121, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
37 43 0.36
38 56 0.46
39 15 0.12
40 7 0.06
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (39 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGT
Found at i:29630707 original size:75 final size:77
Alignment explanation
Indices: 29630573--29630749 Score: 254
Period size: 75 Copynumber: 2.3 Consensus size: 77
29630563 GAATTTGGCT
* *
29630573 CGGATATAACAACCAGCACGAATGCCTTCGGACTTAACCCGTATAATAACCCGCACGAATGCCTT
1 CGGATATAATAACCCGCACGAATGCCTTCGGACTTAACCCGTATAATAACCCGCACGAATGCCTT
*
29630638 CGGGAC-TAACT
66 CGGGACTTAACC
* *
29630649 C-GATATAATAACCCGCACGACTGCC-TCGGGACTTAACCGGTTATAATAACCCGC-CGAATGCC
1 CGGATATAATAACCCGCACGAATGCCTTC-GGACTTAACCCG-TATAATAACCCGCACGAATGCC
29630711 TTCGGGACTTAACC
64 TTCGGGACTTAACC
*
29630725 CGGTTATAATAACCCGCACGAATGC
1 CGGATATAATAACCCGCACGAATGC
29630750 TATGCACATA
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
74 2 0.02
75 48 0.53
76 19 0.21
77 21 0.23
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (77 bp):
CGGATATAATAACCCGCACGAATGCCTTCGGACTTAACCCGTATAATAACCCGCACGAATGCCTT
CGGGACTTAACC
Found at i:29631204 original size:23 final size:23
Alignment explanation
Indices: 29631174--29631223 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
29631164 TTTAGCTATT
29631174 CAATTTAATACATGTATACCATA
1 CAATTTAATACATGTATACCATA
*
29631197 CAATTTAATACATGTATACCATT
1 CAATTTAATACATGTATACCATA
29631220 CAAT
1 CAAT
29631224 CTAAATCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (23 bp):
CAATTTAATACATGTATACCATA
Found at i:29635112 original size:42 final size:43
Alignment explanation
Indices: 29635013--29635125 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 43
29635003 TATCAATGTT
* * * *
29635013 ATATCCCGGATATGGTCTTACATGAAAT-ATCATATCGACACC
1 ATATCCCAGATATGGTCTTATACGAAATCATCATACCGACACC
* * * * **
29635055 ATGTCCCTGACATGGTCTTATACGAAATCA-CTTACCGATTCC
1 ATATCCCAGATATGGTCTTATACGAAATCATCATACCGACACC
*
29635097 ATATCCCAGATATGGTCTTATACGGAATC
1 ATATCCCAGATATGGTCTTATACGAAATC
29635126 TCGGTAGCCC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTATACGAAATCATCATACCGACACC
Found at i:29638109 original size:25 final size:25
Alignment explanation
Indices: 29638077--29638125 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
29638067 CTTTATTATT
*
29638077 ATCATTATGATGAATTACGTGATTA
1 ATCATTATCATGAATTACGTGATTA
* *
29638102 ATCATTATCATGAGTTATGTGATT
1 ATCATTATCATGAATTACGTGATT
29638126 GGTCCTCTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (25 bp):
ATCATTATCATGAATTACGTGATTA
Found at i:29640740 original size:288 final size:288
Alignment explanation
Indices: 29640224--29640801 Score: 1111
Period size: 288 Copynumber: 2.0 Consensus size: 288
29640214 TATGTGAGTG
29640224 TGCAAATGAGAGTGGTGAATGGCTTAGGAAATAGCCATTTCCTTGGCCACACGGGCAGAGACACG
1 TGCAAATGAGAGTGGTGAATGGCTTAGGAAATAGCCATTTCCTTGGCCACACGGGCAGAGACACG
29640289 GCTATGTGTCTCAGCCGTGTGAAGGACAAGGCCTCAAGACACAAGCGTGTGACTTGGCCGTGTGA
66 GCTATGTGTCTCAGCCGTGTGAAGGACAAGGCCTCAAGACACAAGCGTGTGACTTGGCCGTGTGA
*
29640354 CCCTAAATTGTGCATAACGTCATAAACTAAGAGTTACACGGGCTGAGGACACAGGCATGTCCCAA
131 CCCTAAATTGTGCATAACGTCATAAACAAAGAGTTACACGGGCTGAGGACACAGGCATGTCCCAA
*
29640419 GCCACACGGGCCTGTGACTCTCCAACGTATGAAAATTTTTTAATTGTTGTAAAAGTTCCAAAAGC
196 GCCACACGGGCCTGTGACTCTCCAACGTATGAAAATTTTTTAATTGTAGTAAAAGTTCCAAAAGC
*
29640484 TTTCGGTTTAGTCCCGAACCACTCCCAA
261 TTTCAGTTTAGTCCCGAACCACTCCCAA
*
29640512 TGCAAATGAGAGTGGTGAATGGCTTGGGAAATAGCCATTTCCTTGGCCACACGGGCAGAGACACG
1 TGCAAATGAGAGTGGTGAATGGCTTAGGAAATAGCCATTTCCTTGGCCACACGGGCAGAGACACG
29640577 GCTATGTGTCTCAGCCGTGTGAAGGACAAGGCCTCAAGACACAAGCGTGTGACTTGGCCGTGTGA
66 GCTATGTGTCTCAGCCGTGTGAAGGACAAGGCCTCAAGACACAAGCGTGTGACTTGGCCGTGTGA
*
29640642 CCCTAAATTGTGCATAACGTCATAAACAAAGAGTTACACGGGCTGAGGACACAGGCGTGTCCCAA
131 CCCTAAATTGTGCATAACGTCATAAACAAAGAGTTACACGGGCTGAGGACACAGGCATGTCCCAA
29640707 GCCACACGGGCCTGTGACTCTCCAACGTATGAAAATTTTTTAATTGTAGTAAAAGTTCCAAAAGC
196 GCCACACGGGCCTGTGACTCTCCAACGTATGAAAATTTTTTAATTGTAGTAAAAGTTCCAAAAGC
29640772 TTTCAGTTTAGTCCCGAACCACTCCCAA
261 TTTCAGTTTAGTCCCGAACCACTCCCAA
29640800 TG
1 TG
29640802 TATGTTTTGG
Statistics
Matches: 285, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
288 285 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (288 bp):
TGCAAATGAGAGTGGTGAATGGCTTAGGAAATAGCCATTTCCTTGGCCACACGGGCAGAGACACG
GCTATGTGTCTCAGCCGTGTGAAGGACAAGGCCTCAAGACACAAGCGTGTGACTTGGCCGTGTGA
CCCTAAATTGTGCATAACGTCATAAACAAAGAGTTACACGGGCTGAGGACACAGGCATGTCCCAA
GCCACACGGGCCTGTGACTCTCCAACGTATGAAAATTTTTTAATTGTAGTAAAAGTTCCAAAAGC
TTTCAGTTTAGTCCCGAACCACTCCCAA
Found at i:29655277 original size:120 final size:119
Alignment explanation
Indices: 29655059--29655337 Score: 407
Period size: 120 Copynumber: 2.3 Consensus size: 119
29655049 CCGAATCCAG
* * * * *
29655059 TTACTAGCACAAAGCTTGCAGGACTTTAGGCCCGGATATA-GTACCAGCACTAAGCCTGCGGGAT
1 TTACCAGCACTAAGCATGCAGGA-TTTA-ACCCGGATATACGTACCAGCACGAAGCCTGCGGGAT
* *
29655123 TTAACCCGGATATACTTTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATA
64 TTAACCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACA
*
29655179 TTACCAGCACTAAGCATGCAGGATTTAACCCGGATATACTTTACCAGCACGAAGCCTGCGGGATT
1 TTACCAGCACTAAGCATGCAGGATTTAACCCGGATATAC-GTACCAGCACGAAGCCTGCGGGATT
* *
29655244 TAACCCGGATATACATTACCAGCACTAAGCCTGCGGGATTTAACCTGGATATACA
65 TAACCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACA
* * *
29655299 TTACCAGCACTAAGCCTGCGGGATCTAACCCGGATATAC
1 TTACCAGCACTAAGCATGCAGGATTTAACCCGGATATAC
29655338 AATATATCGA
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
118 10 0.07
119 4 0.03
120 130 0.90
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (119 bp):
TTACCAGCACTAAGCATGCAGGATTTAACCCGGATATACGTACCAGCACGAAGCCTGCGGGATTT
AACCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACA
Found at i:29655338 original size:40 final size:40
Alignment explanation
Indices: 29655100--29655338 Score: 397
Period size: 40 Copynumber: 6.0 Consensus size: 40
29655090 CCGGATATAG
*
29655100 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACTT
1 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
* *
29655140 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATAT
1 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
* * *
29655180 TACCAGCACTAAGCATGCAGGATTTAACCCGGATATACTT
1 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
*
29655220 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
1 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
*
29655260 TACCAGCACTAAGCCTGCGGGATTTAACCTGGATATACAT
1 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
*
29655300 TACCAGCACTAAGCCTGCGGGATCTAACCCGGATATACA
1 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACA
29655339 ATATATCGAG
Statistics
Matches: 183, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
Found at i:29686778 original size:161 final size:161
Alignment explanation
Indices: 29686513--29686839 Score: 645
Period size: 161 Copynumber: 2.0 Consensus size: 161
29686503 ATTTACTTCC
29686513 ACAACTCTATGATTCTGATTCCAATTGTATCATTAGTTTTTGTATCACTAATTTCACTATTGATT
1 ACAACTCTATGATTCTGATTCCAATTGTATCATTAGTTTTTGTATCACTAATTTCACTATTGATT
29686578 CTCAGTAATATTAATAATCTTGATGGTTTTATGTTGTATCTCATTAAGCTTCTGATAAAGAAGGA
66 CTCAGTAATATTAATAATCTTGATGGTTTTATGTTGTATCTCATTAAGCTTCTGATAAAGAAGGA
29686643 AACTACTCCAAGCTTGAGTTAAATATGTGTT
131 AACTACTCCAAGCTTGAGTTAAATATGTGTT
29686674 ACAACTCTATGATTCTGATTCCAATTGTATCATTAGTTTTTGTATCACTAATTTCACTATTGATT
1 ACAACTCTATGATTCTGATTCCAATTGTATCATTAGTTTTTGTATCACTAATTTCACTATTGATT
29686739 CTCAGTAATATTAATAATCTTGATGGTTTTATGTTGTATCTCATTAAGCTTCTGATAAAGAAGGA
66 CTCAGTAATATTAATAATCTTGATGGTTTTATGTTGTATCTCATTAAGCTTCTGATAAAGAAGGA
29686804 AACTACTCCAAGCTTGAGTTAAATATGTGTT
131 AACTACTCCAAGCTTGAGTTAAATATGTGTT
*
29686835 GCAAC
1 ACAAC
29686840 AAGTGATTAG
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 165 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (161 bp):
ACAACTCTATGATTCTGATTCCAATTGTATCATTAGTTTTTGTATCACTAATTTCACTATTGATT
CTCAGTAATATTAATAATCTTGATGGTTTTATGTTGTATCTCATTAAGCTTCTGATAAAGAAGGA
AACTACTCCAAGCTTGAGTTAAATATGTGTT
Found at i:29687626 original size:18 final size:19
Alignment explanation
Indices: 29687603--29687638 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
29687593 ATTGTTTTCA
29687603 TACCTT-TAGGTATATCAC
1 TACCTTGTAGGTATATCAC
29687621 TACCTTGTAGGTATATCA
1 TACCTTGTAGGTATATCA
29687639 TTAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (19 bp):
TACCTTGTAGGTATATCAC
Found at i:29688703 original size:18 final size:18
Alignment explanation
Indices: 29688680--29688715 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29688670 CCTATTGTAT
29688680 TACTGATTTATGCTTACA
1 TACTGATTTATGCTTACA
29688698 TACTGATTTATGCTTACA
1 TACTGATTTATGCTTACA
29688716 CTTGTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (18 bp):
TACTGATTTATGCTTACA
Found at i:29689967 original size:32 final size:32
Alignment explanation
Indices: 29689931--29690083 Score: 216
Period size: 32 Copynumber: 4.8 Consensus size: 32
29689921 ACTATGCTAG
*
29689931 TTTTTAATATGTAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
29689963 TTTTTCATTTGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
29689995 TTTTTTATATGTGAACCTAATGTATTATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
*
29690027 TTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* *
29690059 TTTTTTATACGTAAACCTAATGTAT
1 TTTTTTATATGTAAAACTAATGTAT
29690084 CATATTTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 105 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (32 bp):
TTTTTTATATGTAAAACTAATGTATGATCTAC
Found at i:29690040 original size:64 final size:64
Alignment explanation
Indices: 29689931--29690083 Score: 243
Period size: 64 Copynumber: 2.4 Consensus size: 64
29689921 ACTATGCTAG
* * *
29689931 TTTTTAATATGTAAAACTAATGTATGATCTACTTTTTCATTTGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
* * *
29689995 TTTTTTATATGTGAACCTAATGTATTATCTACTTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
*
29690059 TTTTTTATACGTAAACCTAATGTAT
1 TTTTTTATATGTAAACCTAATGTAT
29690084 CATATTTTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (64 bp):
TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
Found at i:29693635 original size:21 final size:21
Alignment explanation
Indices: 29693609--29693661 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
29693599 CGCTGTTTCT
*
29693609 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
29693630 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
29693651 AATCTCACCGC
1 AATCTCACCGC
29693662 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:29694087 original size:47 final size:47
Alignment explanation
Indices: 29694028--29694117 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
29694018 TAAGAGTTAG
* **
29694028 ATTTATATTTTATCTTTTGAAAATAAATAAAATAATTTCTATATGTA
1 ATTTATATTTTATCTCTCAAAAATAAATAAAATAATTTCTATATGTA
* * *
29694075 ATTTGTATTTTATCTCTCAAAAATAGATAAATTAATTTCTATA
1 ATTTATATTTTATCTCTCAAAAATAAATAAAATAATTTCTATA
29694118 CATCAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (47 bp):
ATTTATATTTTATCTCTCAAAAATAAATAAAATAATTTCTATATGTA
Found at i:29700455 original size:19 final size:19
Alignment explanation
Indices: 29700431--29700468 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29700421 GCGCAAAAAT
29700431 GCTCCAATATACCTACTAA
1 GCTCCAATATACCTACTAA
29700450 GCTCCAATATACCTACTAA
1 GCTCCAATATACCTACTAA
29700469 CAAATGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.26
Consensus pattern (19 bp):
GCTCCAATATACCTACTAA
Found at i:29705708 original size:20 final size:20
Alignment explanation
Indices: 29705685--29705723 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29705675 ATTAAATTTA
29705685 TTTTA-AATAAATAAATAATG
1 TTTTAGAATAAA-AAATAATG
*
29705705 TTTTAGAATAGAAAATAAT
1 TTTTAGAATAAAAAATAAT
29705724 TTATTGGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
TTTTAGAATAAAAAATAATG
Found at i:29719070 original size:35 final size:35
Alignment explanation
Indices: 29719031--29719101 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
29719021 AAATTAAGTC
29719031 AACATATACATTTGCAAGACATTACAAATAACCAA
1 AACATATACATTTGCAAGACATTACAAATAACCAA
29719066 AACATATACATTTGCAAGACATTACAAATAACCAA
1 AACATATACATTTGCAAGACATTACAAATAACCAA
29719101 A
1 A
29719102 GTCATTATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.52, C:0.20, G:0.06, T:0.23
Consensus pattern (35 bp):
AACATATACATTTGCAAGACATTACAAATAACCAA
Found at i:29723616 original size:46 final size:47
Alignment explanation
Indices: 29723556--29723782 Score: 329
Period size: 46 Copynumber: 4.9 Consensus size: 47
29723546 TTTGACATGA
* * * * *
29723556 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
* *
29723602 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
*
29723648 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
*
29723694 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
*
29723740 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCA
29723783 GAGAGCACAC
Statistics
Matches: 171, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
45 5 0.03
46 166 0.97
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
Found at i:29725931 original size:11 final size:11
Alignment explanation
Indices: 29725915--29725959 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
29725905 CTTTATATAC
*
29725915 TAATAAAATAA
1 TAATAAAATAT
29725926 TAATAAAATATCT
1 TAATAAAATA--T
*
29725939 TATTAAAATAT
1 TAATAAAATAT
29725950 TAATAAAATA
1 TAATAAAATA
29725960 CTATTTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 20 0.69
13 9 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:29726000 original size:31 final size:31
Alignment explanation
Indices: 29725930--29726000 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
29725920 AAATAATAAT
*
29725930 AAAATATCTTATTAAAATATTAATAAAATAC
1 AAAATATCTAATTAAAATATTAATAAAATAC
* **
29725961 TATTTATCTAATT-AAATAATT-ATAAAATATC
1 AAAATATCTAATTAAAAT-ATTAATAAAATA-C
29725992 AAAATATCT
1 AAAATATCT
29726001 CTAGCATCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (31 bp):
AAAATATCTAATTAAAATATTAATAAAATAC
Found at i:29739673 original size:6 final size:6
Alignment explanation
Indices: 29739662--29739703 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
29739652 TGATAATTTT
*
29739662 ATATTA ATATTA AT-TAAA ATTATTA ATATTA ATATTA ATATT
1 ATATTA ATATTA ATAT-TA A-TATTA ATATTA ATATTA ATATT
29739704 TAAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 1 0.03
6 26 0.84
7 3 0.10
8 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:29744928 original size:463 final size:467
Alignment explanation
Indices: 29743995--29744970 Score: 1159
Period size: 463 Copynumber: 2.1 Consensus size: 467
29743985 CAGAGTGAGG
* * *
29743995 TTTCATTGCTATAGAGCATGTGATTAAGTTGCT-AGAAGTAGGAGTTTGCTATTATGAAGTAGGA
1 TTTCATTGCTATAGAGCATGTGATTGAGTTGCTCA-AAGTAGGAGTTTGCCATTATGAAGTACGA
* * *** * *
29744059 ATTCACATTATTCAGAGAAAGATTTCATTGCTTGGGTGGGAGCAAGACATTGGGTTAGGTGGAGG
65 ATTCACATTACTCAGAAAAAGATTTCACCACTTGGGTGGGAGCAAGACATTGGGCTAGGTGGAGA
* ** * * *
29744124 AAGATTTTATTGCTCTGGAGTAGGAGTTCGGGTTTAGCAGAGTAGGAGTTCAAGCTATGCCGTGT
130 AAGATTTTATTGCTATGGAGTAAAAGTTCGAGTTTAGCAGAATAGGAGTTCAAACTATGCCGTGT
* * * *
29744189 AAGATTTCACTAATAAGAAGGAGTTTGGGTTATAAAGAGTAGGATTTCATCATTTTAGAGCAAGA
195 AAGATTTCACT-ATAAGAAGGAGTTTGGGTTATAAAGAGTAAGATTTCACCACTGTAGAGCAAGA
29744254 GTTGAAGATGCTTAGAGTAAGATTTAATTGTTATAGATCAGAAGTTTGCATTGCTCAAAGTAGGA
259 GTTGAAGATGCTTAGAGTAAGATTTAATTGTTATAGATCAGAAGTTTGCATTGCTCAAAGTAGGA
** * * * *
29744319 TTTATGGAGCAAGAGTTTAGGCTATACAGAACAACATTTCACTATTATAGACCTATAATTTGGGT
324 TTTATGGAGCAAGAACTAAGGCTACACAGAACAACATTTCACTATTATAGACCTAGAATTTAGGT
* ** * * * * **
29744384 TGCATGAAGCAAGAGTTTGGGTTAGGCGAACTAGAATCTCACTGTTATGAAGCAAGAGTTTGGGA
389 TGCATGAAGCAAGAGTTTGGGCTAAACAAACTAGAATCTCACTGTTATAAAGAAAAAGTTAAGGA
*
29744449 TGTGCAGAGCAAGA
454 TGTGCAGAACAAGA
* * * *
29744463 TTTCATTGCTATAGAGCATCTAATTGAGTTGCTCAAAGTAGGGGTTTGCCATTATTAAGTACGAG
1 TTTCATTGCTATAGAGCATGTGATTGAGTTGCTCAAAGTAGGAGTTTGCCATTATGAAGTACGA-
* * * *
29744528 A-TCGA-ATTACTCA-AAAAAGGATTTCACCATTTGGGTGGGAGTAAGACCTTGGGCTGGGTGGA
65 ATTC-ACATTACTCAGAAAAA-GATTTCACCACTTGGGTGGGAGCAAGACATTGGGCTAGGTGGA
* * *
29744590 GAAAGATTTTATTTCTATGGAGTAAAAGTTCGAGTTTAGCAGAATAGGTGTTCAAACTATGTCGT
128 GAAAGATTTTATTGCTATGGAGTAAAAGTTCGAGTTTAGCAGAATAGGAGTTCAAACTATGCCGT
* ** * * * *
29744655 GTAAGATTTCA-T-T-AG-AGGATTTTGGGTTATGGAGAGTAAGATTTTACCACTGTGGAGTAGG
193 GTAAGATTTCACTATAAGAAGGAGTTTGGGTTATAAAGAGTAAGATTTCACCACTGTAGAGCAAG
* * * *
29744716 AGTTGAAGATGCTTGGAGTAAGATTTATTTGTTATGGAGT-AGAAGTTTGCATTGCT-AGAATTA
258 AGTTGAAGATGCTTAGAGTAAGATTTAATTGTTATAGA-TCAGAAGTTTGCATTGCTCA-AAGTA
* ** * *
29744779 GGATTTATGGAGCAAGAACTAAGGCTGCACAGTGCAAGATTTCACTATTATGGACCTAGAATTTA
321 GGATTTATGGAGCAAGAACTAAGGCTACACAGAACAACATTTCACTATTATAGACCTAGAATTTA
* *
29744844 GGTTG-ATTGAAGCAAGAGTTTGGGCTAAACAAAGTATG-ATCTCATTGTTATAAAGAAAAAGTT
386 GGTTGCA-TGAAGCAAGAGTTTGGGCTAAACAAACTA-GAATCTCACTGTTATAAAGAAAAAGTT
*
29744907 AAGGATGTGTC-GAATAAGA
449 AAGGATGTG-CAGAACAAGA
* *
29744926 TTTCATTGCTATAGAGCATGTGATTGAATTGCTCGAAGTAGGAGT
1 TTTCATTGCTATAGAGCATGTGATTGAGTTGCTCAAAGTAGGAGT
29744971 GTAACAGCTC
Statistics
Matches: 428, Mismatches: 71, Indels: 23
0.82 0.14 0.04
Matches are distributed among these distances:
462 2 0.00
463 247 0.58
464 5 0.01
465 1 0.00
467 5 0.01
468 165 0.39
469 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (467 bp):
TTTCATTGCTATAGAGCATGTGATTGAGTTGCTCAAAGTAGGAGTTTGCCATTATGAAGTACGAA
TTCACATTACTCAGAAAAAGATTTCACCACTTGGGTGGGAGCAAGACATTGGGCTAGGTGGAGAA
AGATTTTATTGCTATGGAGTAAAAGTTCGAGTTTAGCAGAATAGGAGTTCAAACTATGCCGTGTA
AGATTTCACTATAAGAAGGAGTTTGGGTTATAAAGAGTAAGATTTCACCACTGTAGAGCAAGAGT
TGAAGATGCTTAGAGTAAGATTTAATTGTTATAGATCAGAAGTTTGCATTGCTCAAAGTAGGATT
TATGGAGCAAGAACTAAGGCTACACAGAACAACATTTCACTATTATAGACCTAGAATTTAGGTTG
CATGAAGCAAGAGTTTGGGCTAAACAAACTAGAATCTCACTGTTATAAAGAAAAAGTTAAGGATG
TGCAGAACAAGA
Found at i:29746251 original size:48 final size:48
Alignment explanation
Indices: 29746179--29746499 Score: 261
Period size: 48 Copynumber: 6.7 Consensus size: 48
29746169 TATGTGCGCT
* *
29746179 AGTGTAAGACCCTGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * * *
29746227 AGTGTAAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * ** * * * *
29746275 AGTATAAGACCATGTCTAGGACATGGCATC-AACATTGATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * *
29746323 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC-ATTATGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGA-TATGAGAGCC
* * * * * ** *
29746371 AGTGTAAAACCATGTCTGGGACATGGCATCAG-CATTGAGACAAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * * * * * * *
29746419 AGTGTAAGACCATGTCTCGGACATGGCATCAGTCTCAACATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* *
29746467 AGTGTAAGACCATGTTTGGAACATAGCATCGGC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC
29746500 AATTCACCCT
Statistics
Matches: 217, Mismatches: 50, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
47 4 0.02
48 209 0.96
49 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:29746347 original size:96 final size:96
Alignment explanation
Indices: 29746183--29746496 Score: 315
Period size: 96 Copynumber: 3.3 Consensus size: 96
29746173 TGCGCTAGTG
* ** * * * *
29746183 TAAGACCCTGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCCAGTGTAAGACCATGTTTGGA
1 TAAGACCATGTCTGGGACATGGCATC-AACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGG
* ** *
29746247 ACATGGCATCGGCGATGTTGTGAGAGCCAGTA
65 ACATGGCATCGGCCACATTATGAGAGCCAGTA
* * *
29746279 TAAGACCATGTCTAGGACATGGCATCAACATTGATATGTGCGCTAGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGGA
* * *
29746344 CATGGCATTGGCCACATTATGAGAGCTAGTG
66 CATGGCATCGGCCACATTATGAGAGCCAGTA
* * * ** *
29746375 TAAAACCATGTCTGGGACATGGCATCAGCATTGAGACAAGAGCTAGTGTAAGACCATGTCTCGGA
1 TAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGGA
* * * ** * *
29746440 CATGGCATCAGTCTCAACATGTGAGCCAGTG
66 CATGGCATCGGCCACATTATGAGAGCCAGTA
* * *
29746471 TAAGACCATGTTTGGAACATAGCATC
1 TAAGACCATGTCTGGGACATGGCATC
29746497 GGCAATTCAC
Statistics
Matches: 179, Mismatches: 38, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
95 2 0.01
96 177 0.99
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGGA
CATGGCATCGGCCACATTATGAGAGCCAGTA
Found at i:29746427 original size:144 final size:143
Alignment explanation
Indices: 29746166--29746499 Score: 406
Period size: 144 Copynumber: 2.3 Consensus size: 143
29746156 GACATTTAGG
*
29746166 TGATATGTGCGCTAGTGTAAGACCCTGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* * * *
29746231 TAAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGAGCCAGTATAAGACCATGTCTAGGA
66 TAAAACCATGTCTGGAACATGGCATCAGCGA-GTTGAGAGAGCCAGTATAAGACCATGTCTAGGA
29746296 CATGGCATCAACAT
130 CATGGCATCAACAT
* *
29746310 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC-ATTATGAGAGCTAGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCCAGT
* * * *
29746374 GTAAAACCATGTCTGGGACATGGCATCAGC-A-TTGAGACAAGAGCTAGTGTAAGACCATGTCTC
65 GTAAAACCATGTCTGGAACATGGCATCAGCGAGTTGAG---AGAGCCAGTATAAGACCATGTCTA
*
29746437 GGACATGGCATCAGTC-T
127 GGACATGGCATCA-ACAT
** * * * * * *
29746454 CAACATGTGAGCCAGTGTAAGACCATGTTTGGAACATAGCATCGGC
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
29746500 AATTCACCCT
Statistics
Matches: 164, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
141 4 0.02
143 2 0.01
144 157 0.96
145 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (143 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
TAAAACCATGTCTGGAACATGGCATCAGCGAGTTGAGAGAGCCAGTATAAGACCATGTCTAGGAC
ATGGCATCAACAT
Found at i:29750154 original size:20 final size:20
Alignment explanation
Indices: 29750131--29750175 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
29750121 GGGACACAGG
29750131 CGTGTCCCTAAGCACACGGA
1 CGTGTCCCTAAGCACACGGA
*
29750151 CGTGTCCCTAAGCACACGGG
1 CGTGTCCCTAAGCACACGGA
29750171 CGTGT
1 CGTGT
29750176 GCTTTACCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.29, T:0.18
Consensus pattern (20 bp):
CGTGTCCCTAAGCACACGGA
Found at i:29751619 original size:57 final size:57
Alignment explanation
Indices: 29751551--29751666 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
29751541 GAAATACAAA
* * *
29751551 ATCTTAACTAATATATAATATTAGTATTTTAGGTAACTAATCTCCTAAGAATCAACT
1 ATCTTAACTAATATAGAATATCAATATTTTAGGTAACTAATCTCCTAAGAATCAACT
*
29751608 ATCTTAACTAATATAGAATATCAATATTTTAGGTAACTAATCTCCTAAGAATCAGCT
1 ATCTTAACTAATATAGAATATCAATATTTTAGGTAACTAATCTCCTAAGAATCAACT
29751665 AT
1 AT
29751667 ATAGTGTGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.37
Consensus pattern (57 bp):
ATCTTAACTAATATAGAATATCAATATTTTAGGTAACTAATCTCCTAAGAATCAACT
Found at i:29763876 original size:79 final size:82
Alignment explanation
Indices: 29763765--29763949 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
29763755 GCTACTCGTT
* * *
29763765 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29763828 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
29763845 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
29763908 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
29763925 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29763950 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:29763949 original size:40 final size:40
Alignment explanation
Indices: 29763746--29763949 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
29763736 CGGAATTTAA
** *
29763746 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
29763786 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29763826 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29763865 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
29763905 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29763945 CCGGA
1 CCGGA
29763950 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29771815 original size:79 final size:81
Alignment explanation
Indices: 29771714--29771898 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
29771704 GCTACTCGTT
* * *
29771714 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29771777 AGATTTAGTAAC-TCGCA
64 AGATATAGTAACTTAGCA
* ** *
29771794 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAG
* *
29771858 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
29771874 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29771899 CATCATTCAA
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:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAG
ATATAGTAACTTAGCA
Found at i:29771898 original size:40 final size:40
Alignment explanation
Indices: 29771695--29771898 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
29771685 CGGAATTTAA
** *
29771695 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
29771735 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29771775 CCAGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29771814 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
29771854 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29771894 CCGGA
1 CCGGA
29771899 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29787620 original size:15 final size:14
Alignment explanation
Indices: 29787601--29787641 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 14
29787591 GTTTTCTTGT
29787601 TTTGGATTTCTTTA
1 TTTGGATTTCTTTA
29787615 TGTTGGATTTCTTTA
1 T-TTGGATTTCTTTA
29787630 TTCTGGATTTCT
1 TT-TGGATTTCT
29787642 CTGTTATGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.61
Consensus pattern (14 bp):
TTTGGATTTCTTTA
Found at i:29789839 original size:8 final size:8
Alignment explanation
Indices: 29789825--29789854 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
29789815 TAGATCGGGT
29789825 GAAAATTG
1 GAAAATTG
*
29789833 AAAAATTG
1 GAAAATTG
29789841 GAAAATTG
1 GAAAATTG
29789849 GAAAAT
1 GAAAAT
29789855 GTGATATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (8 bp):
GAAAATTG
Found at i:29790420 original size:50 final size:50
Alignment explanation
Indices: 29790347--29790582 Score: 178
Period size: 50 Copynumber: 4.7 Consensus size: 50
29790337 TAAGATGGTT
** * *
29790347 TTAGGTCATGTGTGGAGCACTAAGTGCAGGCTACTACTTGTACTAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACTAGATAG
* * * * * *
29790397 TTAGGTCGCATGTGTAGTTCTAAGTGCAGGCTACTA-TGCGTACTCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACT-TGTACTAGA-TAG
* * * * * *
29790448 TTCA-ATCACGTGTGTAATACTAAGTACAGGCTACTACATGCA-TCAGAT-G
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACT-AGATAG
* * * *
29790497 ATTAGGTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTAC-AGGATTG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACTA-GATAG
* *
29790548 TT-GGTCGCATGTGTAGTACTAAGTACAGGCTACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
29790583 TGCGTACCAG
Statistics
Matches: 144, Mismatches: 32, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
49 32 0.22
50 77 0.53
51 34 0.24
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACTAGATAG
Found at i:29795173 original size:47 final size:47
Alignment explanation
Indices: 29795082--29795198 Score: 207
Period size: 47 Copynumber: 2.4 Consensus size: 47
29795072 ATTTTGTTAC
*
29795082 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGACCGAATGGCCAATGT
29795131 GATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGT
29795178 GATGAATGTGAAAGTGTATGT
1 GATGAATGTGAAAGTGTATGT
29795199 GATGAATGTG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 47 0.70
49 20 0.30
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGT
Found at i:29795200 original size:21 final size:21
Alignment explanation
Indices: 29795174--29795219 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
29795164 CGAATGGCCA
29795174 ATGTGATGAATGTGAAAGTGT
1 ATGTGATGAATGTGAAAGTGT
29795195 ATGTGATGAATGTGAAAGTGT
1 ATGTGATGAATGTGAAAGTGT
29795216 ATGT
1 ATGT
29795220 ATGTGATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (21 bp):
ATGTGATGAATGTGAAAGTGT
Found at i:29795204 original size:68 final size:68
Alignment explanation
Indices: 29795127--29795266 Score: 271
Period size: 68 Copynumber: 2.1 Consensus size: 68
29795117 CGAATGGCCA
29795127 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAG
29795192 TGT
66 TGT
*
29795195 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAG
29795260 TGT
66 TGT
29795263 ATGT
1 ATGT
29795267 ATATGTGATA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.33, C:0.06, G:0.31, T:0.30
Consensus pattern (68 bp):
ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAG
TGT
Found at i:29795248 original size:47 final size:47
Alignment explanation
Indices: 29795195--29795498 Score: 508
Period size: 47 Copynumber: 6.5 Consensus size: 47
29795185 GTGAAAGTGT
29795195 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
29795242 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCA
29795291 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
29795338 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
29795385 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCC-
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
* * *
29795431 --GTGATGAATGTGAAAGTGTATATATATGATAAGGCCGAATGGTCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
* *
29795476 ATGGGATGGAA-GTGGAAGTGTAT
1 ATGTGAT-GAATGTGAAAGTGTAT
29795499 AACTGTGATA
Statistics
Matches: 246, Mismatches: 5, Indels: 12
0.94 0.02 0.05
Matches are distributed among these distances:
44 41 0.17
47 155 0.63
48 3 0.01
49 47 0.19
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
Found at i:29795292 original size:117 final size:116
Alignment explanation
Indices: 29795082--29795315 Score: 425
Period size: 117 Copynumber: 2.0 Consensus size: 116
29795072 ATTTTGTTAC
29795082 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATG-ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
29795147 TATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAGTGTATGT
65 TATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAGTGTATGT
29795199 GATGAATGTGAAAGTGTATG-TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
1 GATGAATGTGAAAGTGTATGATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
*
29795263 ATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGT
66 ATG--TATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAGTGTATGT
29795316 ATGTGATAAG
Statistics
Matches: 114, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
115 47 0.41
117 67 0.59
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (116 bp):
GATGAATGTGAAAGTGTATGATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
ATGTATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAGTGTATGT
Found at i:29795307 original size:96 final size:96
Alignment explanation
Indices: 29795195--29795498 Score: 507
Period size: 96 Copynumber: 3.2 Consensus size: 96
29795185 GTGAAAGTGT
29795195 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
29795260 TGTATGTATATGTGATAAGGCCGAATGGCCA
66 TGTATGTATATGTGATAAGGCCGAATGGCCA
29795291 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
29795356 TGTATG--TATGTGATAAGGCCGAATGGCCA
66 TGTATGTATATGTGATAAGGCCGAATGGCCA
29795385 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCC---GTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
29795447 TGTA--TATATATGATAAGGCCGAATGGTCA
66 TGTATGTATATGTGATAAGGCCGAATGGCCA
* *
29795476 ATGGGATGGAA-GTGGAAGTGTAT
1 ATGTGAT-GAATGTGAAAGTGTAT
29795499 AACTGTGATA
Statistics
Matches: 201, Mismatches: 4, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
91 58 0.29
92 3 0.01
94 69 0.34
96 71 0.35
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
TGTATGTATATGTGATAAGGCCGAATGGCCA
Found at i:29795358 original size:143 final size:138
Alignment explanation
Indices: 29795195--29795498 Score: 502
Period size: 143 Copynumber: 2.2 Consensus size: 138
29795185 GTGAAAGTGT
29795195 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
29795260 TGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAA
66 TGTATG--TATGTGATAAGGCCGAATGGCC---GTGATGAATGTGAAAGTGTATATATATGATAA
29795325 GGCCGAATGGCCA
126 GGCCGAATGGCCA
29795338 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
29795403 TGTATGTATGTGATAAGGCCGAATGGCCGTGATGAATGTGAAAGTGTATATATATGATAAGGCCG
66 TGTATGTATGTGATAAGGCCGAATGGCCGTGATGAATGTGAAAGTGTATATATATGATAAGGCCG
*
29795468 AATGGTCA
131 AATGGCCA
* *
29795476 ATGGGATGGAA-GTGGAAGTGTAT
1 ATGTGAT-GAATGTGAAAGTGTAT
29795499 AACTGTGATA
Statistics
Matches: 155, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
138 59 0.38
139 3 0.02
141 22 0.14
143 71 0.46
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (138 bp):
ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
TGTATGTATGTGATAAGGCCGAATGGCCGTGATGAATGTGAAAGTGTATATATATGATAAGGCCG
AATGGCCA
Found at i:29799895 original size:18 final size:18
Alignment explanation
Indices: 29799872--29799906 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29799862 GACTTGATCA
*
29799872 AATTCAAAACTTTTTCTT
1 AATTCAAAACCTTTTCTT
29799890 AATTCAAAACCTTTTCT
1 AATTCAAAACCTTTTCT
29799907 AACTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTCAAAACCTTTTCTT
Found at i:29812053 original size:49 final size:49
Alignment explanation
Indices: 29812000--29812124 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
29811990 AAGTTGATGA
*
29812000 CATGTCCCAAACAAGTCTTACACTGACT-TC-CATACATC-GAGGCCAATGC
1 CATGTCCCAGACAAGTCTTACACTGACTCTCAC-T-CATCTG-GGCCAATGC
* * * * * *
29812049 CATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGC
1 CATGTCCCAGACAAGTCTTACACTGACTCTCACTCATCTGGGCCAATGC
29812098 CATGTCCCAGACAAGTCTTACACTGAC
1 CATGTCCCAGACAAGTCTTACACTGAC
29812125 ACACCTCAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 59 0.92
50 4 0.06
51 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (49 bp):
CATGTCCCAGACAAGTCTTACACTGACTCTCACTCATCTGGGCCAATGC
Found at i:29812165 original size:93 final size:93
Alignment explanation
Indices: 29811945--29812214 Score: 240
Period size: 93 Copynumber: 2.8 Consensus size: 93
29811935 AGGTACGATA
* * * *
29811945 CCGACGCCATGTTTCAAACATGATCTTACACTGGCTCTCACATCTAAGTTGATGACATGTCCCAA
1 CCGATGCCATGTCTCAGACA-GATCTTACACTGGCTCTCACATCTAAGTCGATGACATGTCCCAA
* *
29812010 ACAAGTCTTACACTGACTTCCATACATCGAGG
65 ACAAGTCTTACACTGA---CCACACATCGAAG
* * * ** *
29812042 CCAATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCA
1 CCGATGCCATGTCTCAGACAGATCTTACACTGGCTCTCAC--ATCTAAGTCGATGACATGTCCCA
* *
29812107 GACAAGTCTTACACTGA-CACACCTC-AAG
64 AACAAGTCTTACACTGACCACACATCGAAG
* * * * * *
29812135 CCGATGCCATGTCTCAGACAGTTCTTACACTAGCT-TGCATATCTTAGGGCCGATGTCATGTCCC
1 CCGATGCCATGTCTCAGACAGATCTTACACTGGCTCT-CACATC-TA-AGTCGATGACATGTCCC
* *
29812199 AAATAGGTCTTACACT
63 AAACAAGTCTTACACT
29812215 AGCTCTCATC
Statistics
Matches: 142, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
91 3 0.02
92 2 0.01
93 62 0.44
94 6 0.04
96 19 0.13
97 15 0.11
98 35 0.25
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (93 bp):
CCGATGCCATGTCTCAGACAGATCTTACACTGGCTCTCACATCTAAGTCGATGACATGTCCCAAA
CAAGTCTTACACTGACCACACATCGAAG
Found at i:29816173 original size:17 final size:18
Alignment explanation
Indices: 29816143--29816186 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
29816133 ATAAATTCTT
*
29816143 AATTTT-ATTATTTTTAG
1 AATTTTAATTATTTTAAG
29816160 AATTTTAATT-TTTTAAG
1 AATTTTAATTATTTTAAG
*
29816177 ATTTTTAATT
1 AATTTTAATT
29816187 CCTTTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
AATTTTAATTATTTTAAG
Found at i:29827841 original size:18 final size:18
Alignment explanation
Indices: 29827805--29827843 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
29827795 AATTTACATA
*
29827805 TTTTAAATTATTCTAATT
1 TTTTAAATTATTATAATT
* *
29827823 TTTTAAGTTATTATCATT
1 TTTTAAATTATTATAATT
29827841 TTT
1 TTT
29827844 GAAAAATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTTAAATTATTATAATT
Found at i:29828002 original size:25 final size:25
Alignment explanation
Indices: 29827954--29828002 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
29827944 TAATATATAA
* **
29827954 TTTATAAATATATAAAAATTCATAG
1 TTTATAAAAATATAAAAACACATAG
*
29827979 TTTATAAAAATATATAAACACATA
1 TTTATAAAAATATAAAAACACATA
29828003 AAATTACTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (25 bp):
TTTATAAAAATATAAAAACACATAG
Found at i:29829529 original size:8 final size:8
Alignment explanation
Indices: 29829516--29829564 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
29829506 TATTTAAGAA
29829516 ATTATTAT
1 ATTATTAT
29829524 ATTATTAT
1 ATTATTAT
29829532 ATTATTAT
1 ATTATTAT
*
29829540 ATTGTTAT
1 ATTATTAT
29829548 ATTATTAT
1 ATTATTAT
*
29829556 TTTATTAT
1 ATTATTAT
29829564 A
1 A
29829565 ATTAAAACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (8 bp):
ATTATTAT
Found at i:29832424 original size:37 final size:32
Alignment explanation
Indices: 29832345--29832408 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
29832335 TAAATGATAT
*
29832345 TTAAATAATTGAATATAATGATACATAAAATA
1 TTAAATAATTTAATATAATGATACATAAAATA
*
29832377 TTAAATAATTTAATATAATGATATATAAAATA
1 TTAAATAATTTAATATAATGATACATAAAATA
29832409 AAAATTAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (32 bp):
TTAAATAATTTAATATAATGATACATAAAATA
Found at i:29832874 original size:16 final size:16
Alignment explanation
Indices: 29832853--29832942 Score: 76
Period size: 16 Copynumber: 5.4 Consensus size: 16
29832843 ATTAATTTTA
29832853 AAAAATAAAAATATTT
1 AAAAATAAAAATATTT
* * *
29832869 AAAAATATATATTTTT
1 AAAAATAAAAATATTT
*
29832885 AAAAATAAAAA-AGTAAT
1 AAAAATAAAAATA-T-TT
29832902 AAAATTATTAAAAA-ATTT
1 AAAA--A-TAAAAATATTT
*
29832920 AAAAATATAAATATTT
1 AAAAATAAAAATATTT
29832936 AAAAATA
1 AAAAATA
29832943 CATAATTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
15 5 0.08
16 35 0.59
17 5 0.08
18 5 0.08
19 2 0.03
20 7 0.12
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (16 bp):
AAAAATAAAAATATTT
Found at i:29835767 original size:43 final size:43
Alignment explanation
Indices: 29835719--29835889 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
29835709 ATTACCGAGA
*
29835719 TGTGATTACATGTAAGACCATGTCCGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
29835762 TGTGATTACGTGTAAGACCATGTCTAGGACATTGACATCAT-TA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * * * * *
29835805 TATGATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
29835847 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
29835890 GAGGTTTATG
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 92 0.89
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:29850871 original size:29 final size:28
Alignment explanation
Indices: 29850832--29850886 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
29850822 TATATTTTTC
*
29850832 AAAAAAATATAAATAT-TATAAAAATTCT
1 AAAAAAATATAAAAATGT-TAAAAATTCT
29850860 AAAAAATATATAAAAATGTTAAAAATT
1 AAAAAA-ATATAAAAATGTTAAAAATT
29850887 AAAAATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 6 0.25
29 17 0.71
30 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAAAAATATAAAAATGTTAAAAATTCT
Found at i:29850882 original size:20 final size:21
Alignment explanation
Indices: 29850842--29850884 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
29850832 AAAAAAATAT
29850842 AAATATTATAAAAATTCTAAA
1 AAATATTATAAAAATTCTAAA
29850863 AAATA-TATAAAAATGT-TAAA
1 AAATATTATAAAAAT-TCTAAA
29850883 AA
1 AA
29850885 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATATTATAAAAATTCTAAA
Found at i:29851184 original size:28 final size:28
Alignment explanation
Indices: 29851145--29851198 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
29851135 CTCTCTTTCT
29851145 AAAATTAACCTAATCTAATAAATTTTGA
1 AAAATTAACCTAATCTAATAAATTTTGA
* *
29851173 AAAATTGACCTAATCTAATAAGTTTT
1 AAAATTAACCTAATCTAATAAATTTT
29851199 TTTTGGGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (28 bp):
AAAATTAACCTAATCTAATAAATTTTGA
Found at i:29855539 original size:60 final size:59
Alignment explanation
Indices: 29855407--29855552 Score: 161
Period size: 60 Copynumber: 2.4 Consensus size: 59
29855397 CTTTAAGGTT
*
29855407 TTCAAGGATTAACTTGGATAAAAAAAAGTTGAACTCCCAATGAGGAAATATTGGTCAAG
1 TTCAAGGCTTAACTTGGATAAAAAAAAGTTGAACTCCCAATGAGGAAATATTGGTCAAG
* * * *
29855466 TTCAAGGCCTAACTTGGATAAAAGAAAAGTTTAGA-TCCCAATGTGGAAATAATT-TTCAAG
1 TTCAAGGCTTAACTTGGATAAAA-AAAAGTTGA-ACTCCCAATGAGGAAAT-ATTGGTCAAG
* * * *
29855526 TTTAGGGTTTAACTTAGGTTAAAAAAA
1 TTCAAGGCTTAACTT-GGATAAAAAAA
29855553 TTTAGGCCCC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
59 21 0.29
60 41 0.56
61 11 0.15
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (59 bp):
TTCAAGGCTTAACTTGGATAAAAAAAAGTTGAACTCCCAATGAGGAAATATTGGTCAAG
Found at i:29858145 original size:53 final size:53
Alignment explanation
Indices: 29858065--29858181 Score: 198
Period size: 53 Copynumber: 2.2 Consensus size: 53
29858055 CTTGATACAC
*
29858065 GCCTGTGTCTATGGCTCGTGTTCCTCACACGGCCATGACACACTCGTGTCCTA
1 GCCTGTGTCTATGGCCCGTGTTCCTCACACGGCCATGACACACTCGTGTCCTA
* *
29858118 GCCTGTGTCTATGGCCCGTGTTCCTCACACGGTCATGACACGCTCGTGTCCTA
1 GCCTGTGTCTATGGCCCGTGTTCCTCACACGGCCATGACACACTCGTGTCCTA
*
29858171 GCCCGTGTCTA
1 GCCTGTGTCTA
29858182 AAAACCTTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.14, C:0.34, G:0.24, T:0.28
Consensus pattern (53 bp):
GCCTGTGTCTATGGCCCGTGTTCCTCACACGGCCATGACACACTCGTGTCCTA
Found at i:29860971 original size:52 final size:52
Alignment explanation
Indices: 29860893--29860996 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
29860883 GGAGTTACAA
29860893 GTTAAGTTTTAGAATAAGCTGATACTATTAGGTATGAAATATATGGTAAGAT
1 GTTAAGTTTTAGAATAAGCTGATACTATTAGGTATGAAATATATGGTAAGAT
*
29860945 GTTAAGTTTTATAATAAGCTGATACTATTAGGTATGAAATATATGGTAAGAT
1 GTTAAGTTTTAGAATAAGCTGATACTATTAGGTATGAAATATATGGTAAGAT
29860997 TGCATGCTTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (52 bp):
GTTAAGTTTTAGAATAAGCTGATACTATTAGGTATGAAATATATGGTAAGAT
Found at i:29865899 original size:5 final size:5
Alignment explanation
Indices: 29865889--29865913 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
29865879 TATTGGGGTT
29865889 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
29865914 AAATGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:29865981 original size:46 final size:46
Alignment explanation
Indices: 29865909--29866009 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
29865899 GACAGGACAG
* * * **
29865909 GACAGAAATGAGCCATGCAAGTCCATATCAGTTATATGGCTTTTTA
1 GACAGGAATGAGCCATGCAAGCCCATATCAGTTATATGGCATTGGA
* * *
29865955 GACAGGAATGAGCCATGTAAGCCCATATTATTTATATGGCATTGGA
1 GACAGGAATGAGCCATGCAAGCCCATATCAGTTATATGGCATTGGA
29866001 GACAGGAAT
1 GACAGGAAT
29866010 AATTCATGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
GACAGGAATGAGCCATGCAAGCCCATATCAGTTATATGGCATTGGA
Found at i:29866018 original size:46 final size:46
Alignment explanation
Indices: 29865909--29866026 Score: 128
Period size: 46 Copynumber: 2.6 Consensus size: 46
29865899 GACAGGACAG
* * * * **
29865909 GACAGAAATGAGCCATGCAAGTCCATATCAGTTATATGGCTTTTTA
1 GACAGGAATAAGCCATGTAAGTCCATATCAGTTATATGGCATTGGA
* * * *
29865955 GACAGGAATGAGCCATGTAAGCCCATATTATTTATATGGCATTGGA
1 GACAGGAATAAGCCATGTAAGTCCATATCAGTTATATGGCATTGGA
**
29866001 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATAAGCCATGTAAGTCCAT
29866027 GTCGAAGACA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (46 bp):
GACAGGAATAAGCCATGTAAGTCCATATCAGTTATATGGCATTGGA
Found at i:29870276 original size:46 final size:48
Alignment explanation
Indices: 29870209--29870305 Score: 144
Period size: 46 Copynumber: 2.1 Consensus size: 48
29870199 ACAGGATAGA
* * *
29870209 AATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGAGACAGG
*
29870255 AATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGAGACAGG
29870303 AAT
1 AAT
29870306 AATTCATGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 22 0.49
47 1 0.02
48 22 0.49
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (48 bp):
AATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGAGACAGG
Found at i:29876031 original size:30 final size:30
Alignment explanation
Indices: 29875997--29876054 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
29875987 CCACCCAACT
29875997 TTTTGAAAAAATACAATTTTGCCCCCAAAC
1 TTTTGAAAAAATACAATTTTGCCCCCAAAC
* * * * *
29876027 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAAATACAATTTTGCCCCCAA
29876055 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (30 bp):
TTTTGAAAAAATACAATTTTGCCCCCAAAC
Found at i:29878355 original size:6 final size:5
Alignment explanation
Indices: 29878335--29878370 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
29878325 CCAATTTGTG
*
29878335 AAAAT AAAAT TAAAT AAAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
29878371 CAAGAATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:29878356 original size:16 final size:16
Alignment explanation
Indices: 29878335--29878369 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
29878325 CCAATTTGTG
*
29878335 AAAATAAAATTAAATA
1 AAAATAAAATAAAATA
29878351 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
29878367 AAA
1 AAA
29878370 TCAAGAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:29879002 original size:25 final size:23
Alignment explanation
Indices: 29878974--29879030 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
29878964 ATAAAAAATA
*
29878974 CAAAAAATATCAAAATAAATATTT
1 CAAAAAATATAAAAATAAAT-TTT
29878998 CCAAACAAAT-TAAAAATAAATTTT
1 -CAAA-AAATATAAAAATAAATTTT
29879022 -AAAAAATAT
1 CAAAAAATAT
29879031 GTAGACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
24 3 0.10
25 14 0.48
26 4 0.14
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
CAAAAAATATAAAAATAAATTTT
Found at i:29879105 original size:30 final size:30
Alignment explanation
Indices: 29879071--29879133 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
29879061 ACTTAACAAG
*
29879071 CAAATGCTTTTAAAATAATAAAAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
*
29879101 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
29879131 CAA
1 CAA
29879134 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:29879252 original size:32 final size:32
Alignment explanation
Indices: 29879215--29879282 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
29879205 AAATAAGGAG
*
29879215 AAAACAACAAGAAAATAACATTCAAAAATAGA
1 AAAACAACAAGAAAATAACATTCAAAAATAAA
29879247 AAAACAACAAGAAAATAACATTCAAAAATAAA
1 AAAACAACAAGAAAATAACATTCAAAAATAAA
29879279 AAAA
1 AAAA
29879283 ATATGCAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.72, C:0.12, G:0.04, T:0.12
Consensus pattern (32 bp):
AAAACAACAAGAAAATAACATTCAAAAATAAA
Found at i:29880150 original size:31 final size:32
Alignment explanation
Indices: 29880076--29880151 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
29880066 GAAAAAACTT
* * *
29880076 AATAGCCCAATGACTTAAATAAAAATGTTTCA
1 AATAGTCCAATAACTTAAATAAAAATCTTTCA
* * *
29880108 AATAGTTCAATAACTTAAATCAAAA-CTTTCG
1 AATAGTCCAATAACTTAAATAAAAATCTTTCA
29880139 AATAGTCCAATAA
1 AATAGTCCAATAA
29880152 TAAATTTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 16 0.43
32 21 0.57
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (32 bp):
AATAGTCCAATAACTTAAATAAAAATCTTTCA
Found at i:29888905 original size:30 final size:30
Alignment explanation
Indices: 29888838--29888906 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
29888828 TGTCACCAGC
* *
29888838 CCGTGTCCCTCACACGGATGAGACACACGG
1 CCGTGTCTCTCACACGGATGAGACACACGA
*
29888868 CCGTGTCTCTCACACGGTTGAGACACACGA
1 CCGTGTCTCTCACACGGATGAGACACACGA
29888898 CCGTGTCTC
1 CCGTGTCTC
29888907 ATCCCGTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.19
Consensus pattern (30 bp):
CCGTGTCTCTCACACGGATGAGACACACGA
Found at i:29890473 original size:51 final size:51
Alignment explanation
Indices: 29890390--29890511 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 51
29890380 ACGGATGCCC
* * *
29890390 GGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACA-A-AGT
1 GGCCTACACATAGTACCACACTTGTAGCCAAAGCTACCTT-TT-ACATATAGT
* * *
29890441 GGCCTTCACATAGTACCAGACTTGT-GACCAAAGCTATCTTTTACATATAGT
1 GGCCTACACATAGTACCACACTTGTAG-CCAAAGCTACCTTTTACATATAGT
*
29890492 GGCCTACACTTAGTACCACA
1 GGCCTACACATAGTACCACA
29890512 TATGTGATAG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 3 0.05
50 4 0.07
51 53 0.88
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (51 bp):
GGCCTACACATAGTACCACACTTGTAGCCAAAGCTACCTTTTACATATAGT
Found at i:29897654 original size:30 final size:30
Alignment explanation
Indices: 29897620--29897677 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
29897610 TTTTCGAGCA
*
29897620 TAGGGGCAAAATGGTTATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTTATTTTATCAAAGTC
29897650 TAGGGGCAAAATGGTTATTTTATCAAAG
1 TAGGGGCAAAATGGTTATTTTATCAAAG
29897678 ATGTGAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAATGGTTATTTTATCAAAGTC
Found at i:29898085 original size:47 final size:44
Alignment explanation
Indices: 29898013--29898364 Score: 181
Period size: 47 Copynumber: 7.5 Consensus size: 44
29898003 TGATTTGTGC
*
29898013 GCTAGTGTAAGACATGTCTGGGACATGCTTCGACCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-ACCACA-TATGAGA
* * * * *
29898059 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCATCCAGACGAGG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCACCA--CATATGAGA
* * *
29898107 GCTAGTGTAAGACATGTCTGAGACATGCATCAGCCATACTATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCA-CCACA-TATGAGA
* * * * * *
29898153 GCCAGTGTAAGACCATGTCTGGGACATGGCAACGGCACAGAGATGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC-AC-CACATATGAGA
* * * * *
29898201 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCCTCGACAGA-GATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC--AC-C-ACATATGAGA
* * * * * * *
29898248 G-TCAGTATAAGACATGTTTGGGACATGCATCGGCTA-AGA-GTTGT
1 GCT-AGTGTAAGACATGTCTGGGACATGCATC-ACCACATATG-AGA
* * *
29898292 GCTAGTGTAAGACATGTCTAGGATATGCATCAGCACGCGTATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCA-C-CAC--ATATGAGA
*
29898340 GCTAGTGTAAGACCATGTCTAGGAC
1 GCTAGTGTAAGA-CATGTCTGGGAC
29898365 TTGGCATCGA
Statistics
Matches: 235, Mismatches: 49, Indels: 41
0.72 0.15 0.13
Matches are distributed among these distances:
43 4 0.02
44 27 0.11
45 2 0.01
46 38 0.16
47 87 0.37
48 60 0.26
49 17 0.07
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCACCACATATGAGA
Found at i:29898176 original size:94 final size:94
Alignment explanation
Indices: 29898013--29898373 Score: 318
Period size: 94 Copynumber: 3.9 Consensus size: 94
29898003 TGATTTGTGC
* * * * *
29898013 GCTAGTGTAAGACATGTCTGGGACATGCTTC-GACCACATTATGAGAGCTAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGAGACATGCATCAGACCATACTATGAGAGCCAGTGTAAGACCATGT
* * * *
29898077 TTGGGACATGGCATCAGCATCCAGACGAGG
66 CTGGGACATGGCATCGGCATCAAGA-GAGT
*
29898107 GCTAGTGTAAGACATGTCTGAGACATGCATCAG-CCATACTATGATAGCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGAGACATGCATCAGACCATACTATGAGAGCCAGTGTAAGACCATGT
*
29898171 CTGGGACATGGCAACGGCA-CAGAGATGAGT
66 CTGGGACATGGCATCGGCATCA-AGA-GAGT
* * * *
29898201 GCCAGTGTAAGACATGTCTG-GAACATGCATC-GGCC-TCGAC-A-GAGATAGTCAGTATAAGA-
1 GCTAGTGTAAGACATGTCTGAG-ACATGCATCAGACCAT--ACTATGAG--AGCCAGTGTAAGAC
* *
29898260 CATGTTTGGGACAT-GCATCGGC-T-AAGAGTTGT
61 CATGTCTGGGACATGGCATCGGCATCAAGAG-AGT
* * *
29898292 GCTAGTGTAAGACATGTCT-AGGATATGCATCAGCACGCGTA-TATGAGAGCTAGTGTAAGACCA
1 GCTAGTGTAAGACATGTCTGA-GACATGCATCAG-AC-CATACTATGAGAGCCAGTGTAAGACCA
* *
29898355 TGTCTAGGACTTGGCATCG
63 TGTCTGGGACATGGCATCG
29898374 ACACTATATC
Statistics
Matches: 219, Mismatches: 28, Indels: 40
0.76 0.10 0.14
Matches are distributed among these distances:
90 1 0.00
91 31 0.14
92 13 0.06
93 27 0.12
94 132 0.60
95 15 0.07
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGAGACATGCATCAGACCATACTATGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCATCAAGAGAGT
Found at i:29899948 original size:21 final size:20
Alignment explanation
Indices: 29899903--29899949 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
29899893 AACCGTATGC
29899903 TTGTGAAAAGTGTTTTATCA
1 TTGTGAAAAGTGTTTTATCA
*
29899923 -AGTGAGATAAGTGTTTTAT-A
1 TTGTGA-A-AAGTGTTTTATCA
29899943 TTGTGAA
1 TTGTGAA
29899950 TGAGTTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
19 4 0.18
20 3 0.14
21 15 0.68
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (20 bp):
TTGTGAAAAGTGTTTTATCA
Found at i:29902605 original size:40 final size:40
Alignment explanation
Indices: 29902503--29902653 Score: 196
Period size: 40 Copynumber: 3.7 Consensus size: 40
29902493 ACTCAAATTC
* * *
29902503 TCGCACATTAAGTTCCAATACATAGCCGAAGCTATTTC-AA
1 TCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAA
*
29902543 TCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAG
1 --TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
* *
29902585 TCGCACACTAAGTGCTATACATAGCCGAAGCTATCTTGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
* *
29902625 TCGCACACTAAGTGCCGTACATAACCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAA
29902654 TTGTCGTCAA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
40 63 0.64
41 20 0.20
42 15 0.15
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
Found at i:29912467 original size:42 final size:42
Alignment explanation
Indices: 29912408--29912533 Score: 177
Period size: 40 Copynumber: 3.0 Consensus size: 42
29912398 ATACTTGAAT
*
29912408 TCTCGCACACTAAGTGCCAATACATAGCTGAAGCTATTTC-AA
1 TCTCGCACACTAAGTGCC-ATACATAGCTGAAGCTATCTCGAA
*
29912450 TCTCGCACACTAAGTGCCATACATAGCTGAAGTTATCTCGAA
1 TCTCGCACACTAAGTGCCATACATAGCTGAAGCTATCTCGAA
* * *
29912492 --TCGCACACTAAGTGCTATACATAGTTGAAGCTATCTTGAA
1 TCTCGCACACTAAGTGCCATACATAGCTGAAGCTATCTCGAA
29912532 TC
1 TC
29912534 ACACACTGAG
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
40 36 0.48
41 19 0.25
42 20 0.27
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
TCTCGCACACTAAGTGCCATACATAGCTGAAGCTATCTCGAA
Found at i:29912512 original size:40 final size:40
Alignment explanation
Indices: 29912410--29912554 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
29912400 ACTTGAATTC
* *
29912410 TCGCACACTAAGTGCCAATACATAGCTGAAGCTATTTC-AA
1 TCGCACACTAAGTG-CTATACATAGCTGAAGCTATCTCGAA
* *
29912450 TCTCGCACACTAAGTGCCATACATAGCTGAAGTTATCTCGAA
1 --TCGCACACTAAGTGCTATACATAGCTGAAGCTATCTCGAA
* *
29912492 TCGCACACTAAGTGCTATACATAGTTGAAGCTATCTTGAA
1 TCGCACACTAAGTGCTATACATAGCTGAAGCTATCTCGAA
* * *
29912532 TCACACACTGAGTGCTGTACATA
1 TCGCACACTAAGTGCTATACATA
29912555 ACCGAATTAT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 56 0.61
41 20 0.22
42 16 0.17
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
TCGCACACTAAGTGCTATACATAGCTGAAGCTATCTCGAA
Found at i:29919930 original size:37 final size:37
Alignment explanation
Indices: 29919880--29919959 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
29919870 CTTATTACGA
* *
29919880 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
29919917 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
29919954 GGTCTT
1 AGTCTT
29919960 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:29920149 original size:47 final size:47
Alignment explanation
Indices: 29920090--29920618 Score: 792
Period size: 47 Copynumber: 11.3 Consensus size: 47
29920080 TATCACATTT
* * *
29920090 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
29920135 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
29920182 ATACACCTGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
29920229 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
29920276 ATATACGTGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
** *
29920323 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATGTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
** *
29920370 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCCTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
29920417 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
29920464 ATATACGTGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
29920511 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
** *
29920558 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCCTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
29920605 ATACACATGTTCAC
1 ATACACATGTTCAC
29920619 TTTTATTCAA
Statistics
Matches: 438, Mismatches: 44, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 431 0.98
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:29923503 original size:22 final size:21
Alignment explanation
Indices: 29923477--29923517 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
29923467 TCACCTCATG
*
29923477 TTTTATCATTCTTAACTCATTC
1 TTTTAT-ATTCTAAACTCATTC
*
29923499 TTTTATTTTCTAAACTCAT
1 TTTTATATTCTAAACTCAT
29923518 AGTGCTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTATATTCTAAACTCATTC
Found at i:29924992 original size:40 final size:40
Alignment explanation
Indices: 29924935--29925397 Score: 745
Period size: 40 Copynumber: 11.6 Consensus size: 40
29924925 CCAGCATGAT
* *
29924935 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
29924975 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29925015 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29925055 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29925095 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
29925135 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29925175 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
29925215 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29925255 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
29925295 TGCTCTTCGGGGCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATC-ACTAGCACGAA
* *
29925336 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
29925376 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
29925398 CATCATTCGA
Statistics
Matches: 397, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
39 2 0.01
40 373 0.94
41 22 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:29927243 original size:37 final size:37
Alignment explanation
Indices: 29927193--29927272 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
29927183 CTTATTACGA
* *
29927193 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
29927230 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
29927267 GGTCTT
1 AGTCTT
29927273 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:29927462 original size:47 final size:47
Alignment explanation
Indices: 29927403--29927931 Score: 792
Period size: 47 Copynumber: 11.3 Consensus size: 47
29927393 TATCACATTT
* * *
29927403 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
29927448 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
29927495 ATACACCTGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
29927542 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
29927589 ATATACGTGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
** *
29927636 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATGTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
** *
29927683 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCCTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
29927730 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
29927777 ATATACGTGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
29927824 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
** *
29927871 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCCTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
29927918 ATACACATGTTCAC
1 ATACACATGTTCAC
29927932 TTTTATTCAA
Statistics
Matches: 438, Mismatches: 44, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 431 0.98
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:29930817 original size:22 final size:21
Alignment explanation
Indices: 29930791--29930831 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
29930781 TCACCTCATG
*
29930791 TTTTATCATTCTTAACTCATTC
1 TTTTAT-ATTCTAAACTCATTC
*
29930813 TTTTATTTTCTAAACTCAT
1 TTTTATATTCTAAACTCAT
29930832 AGTGCTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTATATTCTAAACTCATTC
Found at i:29933559 original size:25 final size:25
Alignment explanation
Indices: 29933520--29933576 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
29933510 TCCTATACAT
29933520 GTATGCTCATACGAGCTGT-GAATCG
1 GTATGCTCATACGAGCTGTAG-ATCG
29933545 GTATGCTCACT-CGAGCTGTAGATCG
1 GTATGCTCA-TACGAGCTGTAGATCG
29933570 GTATGCT
1 GTATGCT
29933577 TTCATGAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 28 0.93
26 2 0.07
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTAGATCG
Found at i:29933585 original size:25 final size:25
Alignment explanation
Indices: 29933532--29933643 Score: 102
Period size: 25 Copynumber: 4.5 Consensus size: 25
29933522 ATGCTCATAC
*
29933532 GAGCTGT-GAATCGGTATGCTCAC-T
1 GAGCTGTAG-ATCGGTATGCTCTCAT
*
29933556 CGAGCTGTAGATCGGTATGCTTTCAT
1 -GAGCTGTAGATCGGTATGCTCTCAT
* * **
29933582 GAGCTATAAATCGACATGCTCTCAT
1 GAGCTGTAGATCGGTATGCTCTCAT
* * *
29933607 GAGCTATAAATCGGTATGCTCACAT
1 GAGCTGTAGATCGGTATGCTCTCAT
*
29933632 GAGCTGTGGATC
1 GAGCTGTAGATC
29933644 TAAACTTAGC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
25 70 0.97
26 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (25 bp):
GAGCTGTAGATCGGTATGCTCTCAT
Found at i:29937428 original size:11 final size:11
Alignment explanation
Indices: 29937412--29937436 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29937402 ACCTAAACTA
29937412 AAAAAGAAAAG
1 AAAAAGAAAAG
29937423 AAAAAGAAAAG
1 AAAAAGAAAAG
29937434 AAA
1 AAA
29937437 CCCTAACGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:29945122 original size:33 final size:33
Alignment explanation
Indices: 29945023--29945122 Score: 112
Period size: 33 Copynumber: 3.0 Consensus size: 33
29945013 GTAGTAATAG
* * *
29945023 TCTGGG-CTTGAGCCTTATTCAGTATCAGTACAG
1 TCTGGGCCTT-AGCCCTATACAGTATCAGTACAA
* *
29945056 TCTGGGCCTTAGCCCTATACAATAACAGTACAA
1 TCTGGGCCTTAGCCCTATACAGTATCAGTACAA
* * *
29945089 TTTGGGCCTTAGCCCTATATAGTATCAGAACAA
1 TCTGGGCCTTAGCCCTATACAGTATCAGTACAA
29945122 T
1 T
29945123 GTAATGAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 53 0.95
34 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (33 bp):
TCTGGGCCTTAGCCCTATACAGTATCAGTACAA
Found at i:29945298 original size:27 final size:26
Alignment explanation
Indices: 29945253--29945358 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 26
29945243 CAGTAATAAT
* **
29945253 AATGTAGCATAGCTGCCAGAACCAGTG
1 AATGTGGCATAGCCACCAGAA-CAGTG
* *
29945280 AATGTGGCAAAGCCACCAGTATCAGT-
1 AATGTGGCATAGCCACCAG-AACAGTG
*
29945306 AATTGTGGCGTAGCCACCAGTAACAGTG
1 AA-TGTGGCATAGCCACCAG-AACAGTG
* *
29945334 AATGTGACATAGCCACCAGTACAGT
1 AATGTGGCATAGCCACCAGAACAGT
29945359 ACTTCCTCCA
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
26 7 0.11
27 55 0.85
28 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.20
Consensus pattern (26 bp):
AATGTGGCATAGCCACCAGAACAGTG
Found at i:29945576 original size:27 final size:27
Alignment explanation
Indices: 29945494--29945584 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
29945484 GGGCATAATC
*
29945494 GTCATTTTACCATACAAGGCTATTACA
1 GTCATTTTACCATACAAGGGTATTACA
* * ** **
29945521 ATCATTTTACCTTACTGGGGTACAACA
1 GTCATTTTACCATACAAGGGTATTACA
*
29945548 GTCATTTTACGC-TACAAGGGTATTTCA
1 GTCATTTTAC-CATACAAGGGTATTACA
*
29945575 GTAATTTTAC
1 GTCATTTTAC
29945585 AAATTGAGGG
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACA
Found at i:29945594 original size:27 final size:27
Alignment explanation
Indices: 29945564--29945676 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
29945554 TTACGCTACA
29945564 AGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATTG
*
29945591 AGGGTATTTCAGTAATTTCACAAATT-
1 AGGGTATTTCAGTAATTTTACAAATTG
***
29945617 AGGGGTATTTC-GATAATTTTACAACCCG
1 A-GGGTATTTCAG-TAATTTTACAAATTG
* *
29945645 AGGGTATTTTAGTAATTTTACAAATAG
1 AGGGTATTTCAGTAATTTTACAAATTG
29945672 AGGGT
1 AGGGT
29945677 CTTAACGACC
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.03
27 69 0.95
28 2 0.03
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATTG
Found at i:29946164 original size:19 final size:17
Alignment explanation
Indices: 29946125--29946164 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
29946115 TATCCGTGTA
*
29946125 GGCCCACAAGCCCATCG
1 GGCCCACAAGCCCATCC
29946142 GGCCCACACAGCCCAATCC
1 GGCCCACA-AGCCC-ATCC
29946161 GGCC
1 GGCC
29946165 TGACGTGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 5 0.25
19 7 0.35
ACGTcount: A:0.23, C:0.50, G:0.23, T:0.05
Consensus pattern (17 bp):
GGCCCACAAGCCCATCC
Found at i:29951063 original size:19 final size:20
Alignment explanation
Indices: 29951026--29951063 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29951016 CCAATGTGAT
*
29951026 GGTCGATGCTCTTAGTTGAA
1 GGTCGATGCTCTGAGTTGAA
29951046 GGTCGATGCTC-GAGTTGA
1 GGTCGATGCTCTGAGTTGA
29951064 GGGTGATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
GGTCGATGCTCTGAGTTGAA
Found at i:29965004 original size:42 final size:42
Alignment explanation
Indices: 29964944--29965029 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
29964934 AATAACGAGA
29964944 CTAGTTTAGTTACAGTTATATGAACTTACTAAGCATGTAATG
1 CTAGTTTAGTTACAGTTATATGAACTTACTAAGCATGTAATG
*
29964986 CTAGTTTAGTTACCGTTATATGAACTTACTAAGCATGTAATG
1 CTAGTTTAGTTACAGTTATATGAACTTACTAAGCATGTAATG
29965028 CT
1 CT
29965030 TACTCCGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.38
Consensus pattern (42 bp):
CTAGTTTAGTTACAGTTATATGAACTTACTAAGCATGTAATG
Found at i:29966783 original size:44 final size:43
Alignment explanation
Indices: 29966719--29966877 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 43
29966709 TATGTGTTGT
** *
29966719 CGTGTAAGACCACATCTGGGATGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACCATGTCTGGGAAGTTGGCATCGATTT-TGATTTA
* *
29966763 CGTGTAAGACCATGTTTGGGACA-TTGGCATCG-TATATGATTT-
1 CGTGTAAGACCATGTCTGGGA-AGTTGGCATCGAT-TTTGATTTA
* * *
29966805 TGTGTAAGACCCTGTCTGAGACAG-TGGCATCGATGTTTGA-TTA
1 CGTGTAAGACCATGTCTGGGA-AGTTGGCATCGAT-TTTGATTTA
* **
29966848 CATGTAAGACCACATCTGGGACA-TTGGCAT
1 CGTGTAAGACCATGTCTGGGA-AGTTGGCAT
29966878 TGTATGAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 29 0.32
43 35 0.38
44 28 0.30
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGAAGTTGGCATCGATTTTGATTTA
Found at i:29967999 original size:28 final size:28
Alignment explanation
Indices: 29967968--29968031 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
29967958 ATTCATGGTA
29967968 TAACACATTTGGCATTCAAAAGAAACAT
1 TAACACATTTGGCATTCAAAAGAAACAT
29967996 TAACACATTTGGCATTCAAAAGAAACAT
1 TAACACATTTGGCATTCAAAAGAAACAT
*
29968024 TCACACAT
1 TAACACAT
29968032 AACCATGCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.25
Consensus pattern (28 bp):
TAACACATTTGGCATTCAAAAGAAACAT
Found at i:29977673 original size:34 final size:34
Alignment explanation
Indices: 29977624--29977693 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
29977614 GCATTTCTGT
*
29977624 TATTGTTACTATAATGGGCTTAGGCCCACACTGA
1 TATTGTTACTATAATGGGCTAAGGCCCACACTGA
* * *
29977658 TATTGTTATTGTAATGGGCTAAGGCCCATACTGA
1 TATTGTTACTATAATGGGCTAAGGCCCACACTGA
29977692 TA
1 TA
29977694 CTGGACTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (34 bp):
TATTGTTACTATAATGGGCTAAGGCCCACACTGA
Done.