Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 57 of 106
Found at i:21424170 original size:22 final size:22
Alignment explanation
Indices: 21424128--21424168 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21424118 TACCTTTTTT
*
21424128 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
21424150 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
21424169 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:21426842 original size:42 final size:42
Alignment explanation
Indices: 21426795--21426914 Score: 168
Period size: 42 Copynumber: 2.9 Consensus size: 42
21426785 ATAATGACTC
* *
21426795 GGCTATGTACGAGTAGGAGTGCACATAAGCCGTTGCTGACCA
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCA
* *
21426837 GGCTATGTGCGAGTGGGAGTGCACATAAGTCGTTGCTGACCT
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCA
** **
21426879 GGCTATGTGTAAGTGGGAGTGTGCATAAGCCGTTGC
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGC
21426915 ATATGAGATG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (42 bp):
GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCA
Found at i:21430269 original size:64 final size:64
Alignment explanation
Indices: 21430162--21430325 Score: 204
Period size: 64 Copynumber: 2.6 Consensus size: 64
21430152 TATGCCTCGA
* * * *
21430162 CACCACGTGTGGAA-AGTTACCTCACACCATGTAAAACAATATCATCATTATACTAGGCGTAATT
1 CACCACGTGTGGAATA-TTACCTCACACCATGTGAAACAATATCATCATCATACTAGACATAATT
* * * ** *
21430226 CACTATGTGTGGAATATTACCTCACACCATGTGGAACGCTATCATCATCATGCTAGACATAATT
1 CACCACGTGTGGAATATTACCTCACACCATGTGAAACAATATCATCATCATACTAGACATAATT
* *
21430290 CACCACATGTGGAATATTACCTCACACTATGTGAAA
1 CACCACGTGTGGAATATTACCTCACACCATGTGAAA
21430326 GCATTAGGAA
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
64 83 0.99
65 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (64 bp):
CACCACGTGTGGAATATTACCTCACACCATGTGAAACAATATCATCATCATACTAGACATAATT
Found at i:21431896 original size:28 final size:28
Alignment explanation
Indices: 21431756--21431898 Score: 169
Period size: 28 Copynumber: 5.0 Consensus size: 28
21431746 TGGTAGCTTT
21431756 AACATGTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
21431784 AACATGTTTGGTCTTAATTTAGATAAGAA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
* *
21431813 AATATGTTTGTTTTAATTTAGGACAAGAAA
1 AACATGTTTGTCTTAATTTA-GACAAG-AA
* * * * *
21431843 AATATTTTTTGTCTAAATCTAAACAAGAA
1 AACA-TGTTTGTCTTAATTTAGACAAGAA
*
21431872 AACATATTTGTCTTAATTTAGACAAGA
1 AACATGTTTGTCTTAATTTAGACAAGA
21431899 TAAAATTTTT
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
28 38 0.39
29 36 0.37
30 11 0.11
31 12 0.12
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:21431928 original size:59 final size:57
Alignment explanation
Indices: 21431756--21431929 Score: 199
Period size: 59 Copynumber: 3.0 Consensus size: 57
21431746 TGGTAGCTTT
* * * *
21431756 AACATGTTTGTCTTAATTTAGACAAGAAAACA-TGTTTGGTCTTAATTTAGATAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAAAA-ATTTTTTTGTCTTAATTAAGACAAGAA
* * *
21431813 AATATGTTTGTTTTAATTTAGGACAAGAAAAATATTTTTTGTCTAAATCTAA-ACAAGAA
1 AACATGTTTGTCTTAATTTA-GACAAGAAAAAT-TTTTTTGTCTTAAT-TAAGACAAGAA
* *
21431872 AACATATTTGTCTTAATTTAGACAAGATAAAATTTTTTTGTCTTAATGAAAGACAAGA
1 AACATGTTTGTCTTAATTTAGACAAGA-AAAATTTTTTTGTCTTAAT-TAAGACAAGA
21431930 GTTGTCTTAA
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
57 19 0.19
58 32 0.33
59 45 0.46
60 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (57 bp):
AACATGTTTGTCTTAATTTAGACAAGAAAAATTTTTTTGTCTTAATTAAGACAAGAA
Found at i:21432093 original size:17 final size:17
Alignment explanation
Indices: 21432071--21432103 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21432061 ATAATAATAA
21432071 AATAAG-AGTTATTATTC
1 AATAAGAAGTT-TTATTC
21432088 AATAAGAAGTTTTATT
1 AATAAGAAGTTTTATT
21432104 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (17 bp):
AATAAGAAGTTTTATTC
Found at i:21435123 original size:43 final size:43
Alignment explanation
Indices: 21435053--21435184 Score: 176
Period size: 43 Copynumber: 3.1 Consensus size: 43
21435043 GTAATTATGT
* *
21435053 TGACTCGGCTATGTGCGAGTAGGGAGTGTGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGA
* *
21435096 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAATCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
* * * *
21435139 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
21435182 TGA
1 TGA
21435185 TGATGATGAT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 77 0.99
ACGTcount: A:0.22, C:0.18, G:0.39, T:0.21
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
Found at i:21435187 original size:3 final size:3
Alignment explanation
Indices: 21435179--21435237 Score: 52
Period size: 3 Copynumber: 20.7 Consensus size: 3
21435169 CATGAGCTGG
* * * * *
21435179 TGA TGA TGA TGA TGA TG- TGG TGG TGA TGA TGA TGA TG- GGT TGG TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
21435225 -GA TGA TGA TGA TG
1 TGA TGA TGA TGA TG
21435238 GGTATATACG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
2 5 0.10
3 43 0.90
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:21435199 original size:20 final size:21
Alignment explanation
Indices: 21435176--21435237 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 21
21435166 GCGCATGAGC
21435176 TGGTGATGATGATGATGATGT
1 TGGTGATGATGATGATGATGT
*
21435197 GGTGGTGATGATGATGATG-GGT
1 --TGGTGATGATGATGATGATGT
21435219 TGGTGA-GATGATGATGATG
1 TGGTGATGATGATGATGATG
21435238 GGTATATACG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 10 0.28
20 7 0.19
22 2 0.06
23 17 0.47
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.34
Consensus pattern (21 bp):
TGGTGATGATGATGATGATGT
Found at i:21435205 original size:17 final size:20
Alignment explanation
Indices: 21435182--21435240 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 20
21435172 GAGCTGGTGA
21435182 TGATGATGATGATGTGG-TGG
1 TGATGATGATGATG-GGTTGG
21435202 TGATGATGATGATGGGTTGG
1 TGATGATGATGATGGGTTGG
21435222 TGAGATGATGATGATGGGT
1 T--GATGATGATGATGGGT
21435241 ATATACGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.06
20 18 0.50
22 16 0.44
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (20 bp):
TGATGATGATGATGGGTTGG
Found at i:21438382 original size:43 final size:43
Alignment explanation
Indices: 21438328--21438409 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
21438318 AATAACATCA
21438328 TCATGTGCACTCCCACACCGCACATAGCTGGGTCATCATCAGC
1 TCATGTGCACTCCCACACCGCACATAGCTGGGTCATCATCAGC
** * *
21438371 TCATGTGCACTCCCACTTCGCACATAGTTGGTTCATCAT
1 TCATGTGCACTCCCACACCGCACATAGCTGGGTCATCAT
21438410 TATAATAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (43 bp):
TCATGTGCACTCCCACACCGCACATAGCTGGGTCATCATCAGC
Found at i:21438469 original size:42 final size:42
Alignment explanation
Indices: 21438405--21438583 Score: 331
Period size: 42 Copynumber: 4.3 Consensus size: 42
21438395 TAGTTGGTTC
*
21438405 ATCATTATAATAGAAAAAGAGCATCCAAAGCATGATATACAT
1 ATCAATATAATAGAAAAAGAGCATCCAAAGCATGATATACAT
*
21438447 ATCAATATAATAGAAAAAGAGCATCCAAAGCATGATATTCAT
1 ATCAATATAATAGAAAAAGAGCATCCAAAGCATGATATACAT
*
21438489 ATCAATATAATAGAAAAAGAGCATCCAAAGCATGATATTCAT
1 ATCAATATAATAGAAAAAGAGCATCCAAAGCATGATATACAT
21438531 ATCAATATAATAGAAAAAGAGCATCCAAAGCATGATATACAT
1 ATCAATATAATAGAAAAAGAGCATCCAAAGCATGATATACAT
21438573 ATCAATATAAT
1 ATCAATATAAT
21438584 GTGATAACAC
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 134 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (42 bp):
ATCAATATAATAGAAAAAGAGCATCCAAAGCATGATATACAT
Found at i:21442592 original size:2 final size:2
Alignment explanation
Indices: 21442585--21442621 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
21442575 NNNNNNNNNN
*
21442585 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21442622 GGTATATGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:21445695 original size:43 final size:43
Alignment explanation
Indices: 21445647--21445774 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 43
21445637 TTATGTGATG
*
21445647 ATGATGACCTGGCTATGTGCGAGTAGGGAGTGCACATCAGCTA
1 ATGATGACCTGGCTATGTGCGAGTAGGGAGTGCACATAAGCTA
* * *
21445690 ATGATGA-CTCGACTATGTGAGAGTAGGGAGTGCACATAAGCCA
1 ATGATGACCT-GGCTATGTGCGAGTAGGGAGTGCACATAAGCTA
** *
21445733 ATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCT
1 ATGATGACCTGGCTATGTGCGAGTAGGGAGTGCACATAAGCT
21445775 GATAATGTTG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 2 0.03
43 70 0.96
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (43 bp):
ATGATGACCTGGCTATGTGCGAGTAGGGAGTGCACATAAGCTA
Found at i:21445748 original size:86 final size:83
Alignment explanation
Indices: 21445647--21445809 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 83
21445637 TTATGTGATG
** * *
21445647 ATGATGACCTGGCTATGTGCGAGTAGGGAGTGCACATCAGCTAATGATGACTCGACTATGTGAGA
1 ATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATCAGCTAATAATG--TCGA-AATGTGAGA
21445712 GTAGGGAGTGCACATAAGCCA
63 GTAGGGAGTGCACATAAGCCA
* * * *
21445733 ATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATAATGTTGAAATGTGTGAGTA
1 ATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATCAGCTAATAATGTCGAAATGTGAGAGTA
21445798 GGGAGTGCACAT
66 GGGAGTGCACAT
21445810 GACAATGAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 22 0.32
84 3 0.04
86 44 0.64
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (83 bp):
ATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATCAGCTAATAATGTCGAAATGTGAGAGTA
GGGAGTGCACATAAGCCA
Found at i:21471464 original size:17 final size:18
Alignment explanation
Indices: 21471431--21471464 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21471421 TTAAAATTTT
21471431 TGGAAAAATATATATGTA
1 TGGAAAAATATATATGTA
21471449 TGGAAAAATATA-ATGT
1 TGGAAAAATATATATGT
21471465 TGCATATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (18 bp):
TGGAAAAATATATATGTA
Found at i:21483675 original size:2 final size:2
Alignment explanation
Indices: 21483668--21483707 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
21483658 TCCCTTTTCG
21483668 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21483708 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21486394 original size:36 final size:36
Alignment explanation
Indices: 21486348--21486423 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
21486338 GTCTTGAAAA
21486348 ATATATTTTCCTATGAATGGCTTATGGTATATGAGT
1 ATATATTTTCCTATGAATGGCTTATGGTATATGAGT
*
21486384 ATATATTTTCCTTTGAATGGCTTATGGTATATGAGT
1 ATATATTTTCCTATGAATGGCTTATGGTATATGAGT
21486420 ATAT
1 ATAT
21486424 GTGGCTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (36 bp):
ATATATTTTCCTATGAATGGCTTATGGTATATGAGT
Found at i:21489535 original size:21 final size:21
Alignment explanation
Indices: 21489511--21489550 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21489501 GCACAAATCA
*
21489511 TCAACAGAATGAGGGTTTCAT
1 TCAACAGAACGAGGGTTTCAT
* *
21489532 TCAACTGCACGAGGGTTTC
1 TCAACAGAACGAGGGTTTC
21489551 GCATTAGAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (21 bp):
TCAACAGAACGAGGGTTTCAT
Found at i:21491245 original size:27 final size:26
Alignment explanation
Indices: 21491210--21491262 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
21491200 TCATTATTCA
21491210 TTTCAATCACATATTAC-TATCATAAAC
1 TTTCAATCACATA-TACATAT-ATAAAC
*
21491237 TTTCTATCACATATACATATATAAAC
1 TTTCAATCACATATACATATATAAAC
21491263 ATATATAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.38
Consensus pattern (26 bp):
TTTCAATCACATATACATATATAAAC
Found at i:21491404 original size:42 final size:43
Alignment explanation
Indices: 21491324--21491410 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
21491314 TCATCATCAC
* **
21491324 CGGCTTATGCGCACTCCCTACTCGTACATAGTTGGGTCAGCAT
1 CGGCTTATGCGCACTCCCTACTCGCACATAGCCGGGTCAGCAT
* * *
21491367 CGGCTTATGTGCACTCCC-ACTCGCATATAGCCGGGTCATCAT
1 CGGCTTATGCGCACTCCCTACTCGCACATAGCCGGGTCAGCAT
21491409 CG
1 CG
21491411 TTACACAACA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
42 21 0.55
43 17 0.45
ACGTcount: A:0.18, C:0.32, G:0.23, T:0.26
Consensus pattern (43 bp):
CGGCTTATGCGCACTCCCTACTCGCACATAGCCGGGTCAGCAT
Found at i:21491454 original size:2 final size:2
Alignment explanation
Indices: 21491449--21491481 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21491439 CATATATTCG
21491449 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21491482 CAACATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21496345 original size:20 final size:20
Alignment explanation
Indices: 21496310--21496357 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
21496300 ATGGGAGGAA
* *
21496310 GAAAAA-GAAGAAGTTGTTG
1 GAAAAATGAAAAAGTTGCTG
*
21496329 GAGAAATGAAAAAGTTGCTG
1 GAAAAATGAAAAAGTTGCTG
21496349 GAAAAATGA
1 GAAAAATGA
21496358 GATCTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.50, C:0.02, G:0.29, T:0.19
Consensus pattern (20 bp):
GAAAAATGAAAAAGTTGCTG
Found at i:21499914 original size:20 final size:20
Alignment explanation
Indices: 21499881--21499930 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21499871 GATGGGAGAG
* *
21499881 AGAAAAA-GAAGAAGCTGCT
1 AGAAAAATGAGGAAGCTACT
*
21499900 GGAAAAATGAGGAAGCTACT
1 AGAAAAATGAGGAAGCTACT
*
21499920 AGAAGAATGAG
1 AGAAAAATGAG
21499931 ATATTTATGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.50, C:0.08, G:0.30, T:0.12
Consensus pattern (20 bp):
AGAAAAATGAGGAAGCTACT
Found at i:21501271 original size:29 final size:28
Alignment explanation
Indices: 21501236--21501332 Score: 133
Period size: 29 Copynumber: 3.4 Consensus size: 28
21501226 CTTTAACAAT
*
21501236 TTTGTCTTAATTTAGACAAGAAAACATG
1 TTTGTCTTAATTTAGACAAGAAAACATA
21501264 TTTAGTCTTAATTTAGACAAGAAAACATA
1 TTT-GTCTTAATTTAGACAAGAAAACATA
*
21501293 TTTGTCTCAATTTAGACAAGATAAA-ATA
1 TTTGTCTTAATTTAGACAAGA-AAACATA
21501321 CTTTTGTCTTAA
1 --TTTGTCTTAA
21501333 GGACAAGATT
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
28 23 0.37
29 30 0.48
30 9 0.15
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (28 bp):
TTTGTCTTAATTTAGACAAGAAAACATA
Found at i:21501504 original size:17 final size:17
Alignment explanation
Indices: 21501482--21501514 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21501472 ATAATAATAA
21501482 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
21501499 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
21501515 TTCTCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:21512024 original size:22 final size:21
Alignment explanation
Indices: 21511999--21512043 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
21511989 AATTCACCAC
21511999 ATTGATGCTAAATCACTATA-TA
1 ATTGAT-CTAAATC-CTATACTA
*
21512021 ATTGATTTAAATCCTATACTA
1 ATTGATCTAAATCCTATACTA
21512042 AT
1 AT
21512044 GCATGGTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (21 bp):
ATTGATCTAAATCCTATACTA
Found at i:21517059 original size:28 final size:29
Alignment explanation
Indices: 21517004--21517059 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
21516994 ATGTCCTACC
* **
21517004 CATATAACTCAAGTAATCATTTTTCAATT
1 CATATAACTCAAGTAATCAATAATCAATT
*
21517033 CATATAACTC-AGTGATCAATAATCAAT
1 CATATAACTCAAGTAATCAATAATCAAT
21517060 CCATGAGACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (29 bp):
CATATAACTCAAGTAATCAATAATCAATT
Found at i:21517461 original size:60 final size:63
Alignment explanation
Indices: 21517389--21517542 Score: 181
Period size: 60 Copynumber: 2.5 Consensus size: 63
21517379 TGTGCACTGA
*
21517389 CACCATATGTGGAATGTTACCTCACACCATATGGAATGTTAGCA-CAT-A-A-TAGGCACAATT
1 CACCAT-TGTGGAATGTTACCTCACACCATATGGAATGTTAGCATCATCATACTAGACACAATT
** * * *
21517449 CACCATGTGTGGAATGTTACCTCACACTGTGTGGAGTGTTATCATCATCATACTAGACACAATT
1 CACCAT-TGTGGAATGTTACCTCACACCATATGGAATGTTAGCATCATCATACTAGACACAATT
* *
21517513 CACCACTTGTGGAACGTTACCTCTCACCAT
1 CACCA-TTGTGGAATGTTACCTCACACCAT
21517543 GTGAAAGCAC
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
60 38 0.49
61 3 0.04
62 1 0.01
63 1 0.01
64 34 0.44
65 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (63 bp):
CACCATTGTGGAATGTTACCTCACACCATATGGAATGTTAGCATCATCATACTAGACACAATT
Found at i:21521147 original size:22 final size:22
Alignment explanation
Indices: 21521119--21521162 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
21521109 TTACATTGGC
*
21521119 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAGAGCTTTTGGGTTTAAAG
21521141 ATCAGAGCTTTTGGGTTTAAAG
1 ATCAGAGCTTTTGGGTTTAAAG
21521163 TTATTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (22 bp):
ATCAGAGCTTTTGGGTTTAAAG
Found at i:21533535 original size:32 final size:32
Alignment explanation
Indices: 21533499--21533640 Score: 133
Period size: 32 Copynumber: 4.2 Consensus size: 32
21533489 TTTTACACTA
* * * *
21533499 GTTTTTCATAGGCTTAACTATAACCCAAAGTG
1 GTTTTTCAAAGGCTCAACCAAAACCCAAAGTG
*
21533531 GTTTTTCAAAGGCTCAACCACAACCTTTCACAA-TG
1 GTTTTTCAAAGGCTCAACCAAAACC---CA-AAGTG
**
21533566 GTTTTTCACGGGCTCAACCAAAACCCAAAGTG
1 GTTTTTCAAAGGCTCAACCAAAACCCAAAGTG
* *
21533598 GTTTTTCAAAGGCTCAACCACAACCTACAACAATG
1 GTTTTTCAAAGGCTCAACCAAAACC--CAA-AGTG
21533633 GTTTTTCA
1 GTTTTTCA
21533641 CGAAATCAAC
Statistics
Matches: 91, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
31 2 0.02
32 47 0.52
34 3 0.03
35 37 0.41
36 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (32 bp):
GTTTTTCAAAGGCTCAACCAAAACCCAAAGTG
Found at i:21533570 original size:35 final size:34
Alignment explanation
Indices: 21533458--21533640 Score: 137
Period size: 35 Copynumber: 5.4 Consensus size: 34
21533448 ACCAAGCTTT
* * *
21533458 ACAATGGCTTTT-ACAAGGCTCAGCCAAAACCTTTT
1 ACAATGGTTTTTCA-AAGGCTCAACCAAAACC-TTC
* * * * * *
21533493 ACACTAGTTTTTCATAGGCTTAACTATAACC--C
1 ACAATGGTTTTTCAAAGGCTCAACCAAAACCTTC
*
21533525 A-AAGTGGTTTTTCAAAGGCTCAACCACAACCTTTC
1 ACAA-TGGTTTTTCAAAGGCTCAACCAAAACC-TTC
**
21533560 ACAATGGTTTTTCACGGGCTCAACCAAAACC--C
1 ACAATGGTTTTTCAAAGGCTCAACCAAAACCTTC
* *
21533592 A-AAGTGGTTTTTCAAAGGCTCAACCACAACCTAC
1 ACAA-TGGTTTTTCAAAGGCTCAACCAAAACCTTC
21533626 AACAATGGTTTTTCA
1 -ACAATGGTTTTTCA
21533641 CGAAATCAAC
Statistics
Matches: 116, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
31 3 0.03
32 49 0.42
34 1 0.01
35 58 0.50
36 5 0.04
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (34 bp):
ACAATGGTTTTTCAAAGGCTCAACCAAAACCTTC
Found at i:21533591 original size:67 final size:67
Alignment explanation
Indices: 21533472--21533660 Score: 236
Period size: 67 Copynumber: 2.8 Consensus size: 67
21533462 TGGCTTTTAC
* * * * * ** * * *
21533472 AAGGCTCAGCCAAAACCTTTTACACTAGTTTTTCATAGGCTTAACTATAACCCAAAGTGGTTTTT
1 AAGGCTCAACCACAACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTT
21533537 CA
66 CA
21533539 AAGGCTCAACCACAACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTT
1 AAGGCTCAACCACAACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTT
21533604 CA
66 CA
* ***
21533606 AAGGCTCAACCACAACC-TACAACAATGGTTTTTCACGAAATCAACCAAAACCCAA
1 AAGGCTCAACCACAACCTTTC-ACAATGGTTTTTCACGGGCTCAACCAAAACCCAA
21533661 CAACTAATTT
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 2 0.02
67 105 0.98
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (67 bp):
AAGGCTCAACCACAACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTT
CA
Found at i:21533650 original size:35 final size:34
Alignment explanation
Indices: 21533543--21533663 Score: 101
Period size: 35 Copynumber: 3.6 Consensus size: 34
21533533 TTTTCAAAGG
* **
21533543 CTCAACCACAACCTTTC-ACAATGGTTTTTCACGGG
1 CTCAACCAAAACC--TCAACAATGGTTTTTCACGAA
*
21533578 CTCAACCAAAACC-CAA-AGTGGTTTTTCA--AA
1 CTCAACCAAAACCTCAACAATGGTTTTTCACGAA
*
21533608 GGCTCAACCACAACCTACAACAATGGTTTTTCACGAA
1 --CTCAACCAAAACCT-CAACAATGGTTTTTCACGAA
*
21533645 ATCAACCAAAACC-CAACAA
1 CTCAACCAAAACCTCAACAA
21533664 CTAATTTTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
32 24 0.34
33 7 0.10
34 3 0.04
35 34 0.49
37 2 0.03
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.21
Consensus pattern (34 bp):
CTCAACCAAAACCTCAACAATGGTTTTTCACGAA
Found at i:21547405 original size:21 final size:21
Alignment explanation
Indices: 21547349--21547394 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
21547339 CATAAAAACT
21547349 AATAAATATAAC-T-AAATTAA
1 AATAAATA-AACATAAAATTAA
*
21547369 GATAAATAAACATAAAATTAA
1 AATAAATAAACATAAAATTAA
21547390 AATAA
1 AATAA
21547395 CTTAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 3 0.14
20 8 0.36
21 11 0.50
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (21 bp):
AATAAATAAACATAAAATTAA
Found at i:21547423 original size:31 final size:31
Alignment explanation
Indices: 21547365--21547427 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
21547355 TATAACTAAA
**
21547365 TTAAGATAAATAAACATAAAATTAAAATAAC
1 TTAAGATAAATAAACATAAAAGAAAAATAAC
*
21547396 TTAATATAAATAAAC-TAAATAGAAAAATAAC
1 TTAAGATAAATAAACATAAA-AGAAAAATAAC
21547427 T
1 T
21547428 AAATTCTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAGATAAATAAACATAAAAGAAAAATAAC
Found at i:21547429 original size:16 final size:16
Alignment explanation
Indices: 21547388--21547431 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
21547378 ACATAAAATT
* *
21547388 AAAATAACTTAATATA
1 AAAATAACTAAATAGA
*
21547404 AATA-AACTAAATAGA
1 AAAATAACTAAATAGA
21547419 AAAATAACTAAAT
1 AAAATAACTAAAT
21547432 TCTAACCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAATAACTAAATAGA
Found at i:21551088 original size:23 final size:24
Alignment explanation
Indices: 21551062--21551106 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
21551052 AGGAAGAAGA
21551062 AGAAGAAGCTACTAGAA-AATGGG
1 AGAAGAAGCTACTAGAAGAATGGG
*
21551085 AGAAGAAGCTACTGGAAGAATG
1 AGAAGAAGCTACTAGAAGAATG
21551107 AGATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.47, C:0.09, G:0.31, T:0.13
Consensus pattern (24 bp):
AGAAGAAGCTACTAGAAGAATGGG
Found at i:21561410 original size:60 final size:60
Alignment explanation
Indices: 21561315--21561457 Score: 187
Period size: 60 Copynumber: 2.4 Consensus size: 60
21561305 TAGGAGACCA
* * * * ** * *
21561315 AAACATAAAGTTTTTCGCTGCAGCGAGATTGAATCTCGCTGCAGTGAAATTATAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAAATTCAATCTCGCTGCAGCAAAATTACAACACAG
* * *
21561375 AAACAGAATGTTTCTCGCTGCAGCGAAATTCAATCTCGCTGCAGCAAAATTGCAACACAT
1 AAACAGAAAGTTTCTCGCTGCAGCGAAATTCAATCTCGCTGCAGCAAAATTACAACACAG
21561435 AAACAGAAAGTTTCTCGCTGCAG
1 AAACAGAAAGTTTCTCGCTGCAG
21561458 TGAGAATGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAAATTCAATCTCGCTGCAGCAAAATTACAACACAG
Found at i:21561474 original size:60 final size:60
Alignment explanation
Indices: 21561315--21561479 Score: 181
Period size: 60 Copynumber: 2.8 Consensus size: 60
21561305 TAGGAGACCA
* * * * ** * *
21561315 AAACATAAAGTTTTTCGCTGCAGCGAGATTGAATCTCGCTGCAGTGAAATTATAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGAATGTATCTCGCTGCAGCAAAATTACAACACAG
* * *
21561375 AAACAGAATGTTTCTCGCTGCAGCGA-AAT-TCAATCTCGCTGCAGCAAAATTGCAACACAT
1 AAACAGAAAGTTTCTCGCTGCAGCGAGAATGT--ATCTCGCTGCAGCAAAATTACAACACAG
* *
21561435 AAACAGAAAGTTTCTCGCTGCAGTGAGAATGTATTTCGCTGCAGC
1 AAACAGAAAGTTTCTCGCTGCAGCGAGAATGTATCTCGCTGCAGC
21561480 GATAAGCTAC
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
59 2 0.02
60 81 0.93
61 3 0.03
62 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAGAATGTATCTCGCTGCAGCAAAATTACAACACAG
Found at i:21563925 original size:38 final size:40
Alignment explanation
Indices: 21563883--21563983 Score: 143
Period size: 38 Copynumber: 2.6 Consensus size: 40
21563873 AGTGCCCGTG
*
21563883 TGCACGATGTGGGGGGATGTACACGATGGCACTGA-T-TA
1 TGCACGATGTGGGGGGATGTACACGATGGCACCGACTATA
* ** *
21563921 TGCACGATGTGGGGGGATGCACACGATGGTGCCGACTATG
1 TGCACGATGTGGGGGGATGTACACGATGGCACCGACTATA
21563961 TGCACGATGTGGGGGGATGTACA
1 TGCACGATGTGGGGGGATGTACA
21563984 TGAGCCGGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 31 0.56
39 1 0.02
40 23 0.42
ACGTcount: A:0.22, C:0.17, G:0.40, T:0.22
Consensus pattern (40 bp):
TGCACGATGTGGGGGGATGTACACGATGGCACCGACTATA
Found at i:21570346 original size:31 final size:31
Alignment explanation
Indices: 21570308--21570408 Score: 139
Period size: 31 Copynumber: 3.3 Consensus size: 31
21570298 CCCCTATCAT
* * ** *
21570308 CCTTGGGCTGGCAATGTACATTCCCATTACA
1 CCTTGGGCTAGCAATGTATAACCCCATTGCA
*
21570339 CCTTGGGCCAGCAATGTATAACCCCATTGCA
1 CCTTGGGCTAGCAATGTATAACCCCATTGCA
*
21570370 CCTTGGGCTAGCAACGTATAACCCCATTGCA
1 CCTTGGGCTAGCAATGTATAACCCCATTGCA
21570401 CCTTGGGC
1 CCTTGGGC
21570409 ATTTTATGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (31 bp):
CCTTGGGCTAGCAATGTATAACCCCATTGCA
Found at i:21570695 original size:68 final size:68
Alignment explanation
Indices: 21570547--21570792 Score: 245
Period size: 68 Copynumber: 3.7 Consensus size: 68
21570537 TCTCATAAAC
* * *
21570547 TATATGGAATTTACATCATATACCTAATCTCATGGCATT--T-ATGC-TAGCTCAATCATCTCAT
1 TATATGGAATTTACATCATATACATAATCTCATGGCATTAATCATGCATA-CTTAATCACCTCAT
* *
21570608 GTAG
65 ATGG
* * * *
21570612 TGTATGGAATATACATCATATGCATATTCTCATGGCATTAATCATGCATACTTAATCACCTCATA
1 TATATGGAATTTACATCATATACATAATCTCATGGCATTAATCATGCATACTTAATCACCTCATA
21570677 TGG
66 TGG
** * * *
21570680 TATATGGAATTTACATCATATACACCATC-CTATAGTA-TACATCATGCATACTTGATCATCC-C
1 TATATGGAATTTACATCATATACATAATCTC-ATGGCATTA-ATCATGCATACTTAATCA-CCTC
21570742 ATATGG
63 ATATGG
* * * *
21570748 TATATGGAATTTACATCATATTCATAATCTTACGGCATTCATCAT
1 TATATGGAATTTACATCATATACATAATCTCATGGCATTAATCAT
21570793 ACCAACATGC
Statistics
Matches: 146, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
65 34 0.23
67 4 0.03
68 103 0.71
69 5 0.03
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (68 bp):
TATATGGAATTTACATCATATACATAATCTCATGGCATTAATCATGCATACTTAATCACCTCATA
TGG
Found at i:21574383 original size:62 final size:62
Alignment explanation
Indices: 21574307--21574432 Score: 234
Period size: 62 Copynumber: 2.0 Consensus size: 62
21574297 ATTAAGACGA
21574307 TAGTAAGGTTACTCACTATTTTGGGAGTCGAATTCCAAGTACTCCGATTCTTGATCCTCAGG
1 TAGTAAGGTTACTCACTATTTTGGGAGTCGAATTCCAAGTACTCCGATTCTTGATCCTCAGG
* *
21574369 TAGTAAGGTTACTCACTATTTTGGGAGTCGAATTCCAAGTACTCTGATTCTTGATCCTCGGG
1 TAGTAAGGTTACTCACTATTTTGGGAGTCGAATTCCAAGTACTCCGATTCTTGATCCTCAGG
21574431 TA
1 TA
21574433 CTATCTCTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (62 bp):
TAGTAAGGTTACTCACTATTTTGGGAGTCGAATTCCAAGTACTCCGATTCTTGATCCTCAGG
Found at i:21576116 original size:12 final size:12
Alignment explanation
Indices: 21576099--21576124 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21576089 TTTAATATGA
21576099 TGAAAAAGAAAT
1 TGAAAAAGAAAT
21576111 TGAAAAAGAAAT
1 TGAAAAAGAAAT
21576123 TG
1 TG
21576125 TGGTTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (12 bp):
TGAAAAAGAAAT
Found at i:21578268 original size:21 final size:21
Alignment explanation
Indices: 21578238--21578296 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
21578228 CTCGAGAGTT
21578238 TCTCGCTGCAGTGAAAATGAA
1 TCTCGCTGCAGTGAAAATGAA
* **
21578259 TCTTGCTGCAGCAAAAATGAA
1 TCTCGCTGCAGTGAAAATGAA
*
21578280 TCTCGCTGCAATGAAAA
1 TCTCGCTGCAGTGAAAA
21578297 ACAAAGCATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (21 bp):
TCTCGCTGCAGTGAAAATGAA
Found at i:21578507 original size:37 final size:37
Alignment explanation
Indices: 21578457--21578571 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
21578447 CATATGCATT
*
21578457 CATCATCATGTGTGCACTCCCTACTCGTACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
*
21578494 CATCATCATGTGTGCACTCTCTACTCGCACAC-TCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
* *
21578531 CATCAGCATGTGTGCACTCCCTACTTGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
21578568 CATC
1 CATC
21578572 CTCACACAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
36 2 0.03
37 67 0.94
38 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.11, T:0.29
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:21580538 original size:39 final size:39
Alignment explanation
Indices: 21580495--21580571 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
21580485 CTATAACGAG
**
21580495 ATTCAAGAGGCAAAACAGAAAGTTTCTCGTTGCAGCGAA
1 ATTCAAGAGGCAAAACAGAAAGTTTCTCACTGCAGCGAA
*
21580534 ATTCAAGTGGCAAAACAGAAAGTTTCTCACTGCAGCGA
1 ATTCAAGAGGCAAAACAGAAAGTTTCTCACTGCAGCGA
21580572 GAATCAGGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (39 bp):
ATTCAAGAGGCAAAACAGAAAGTTTCTCACTGCAGCGAA
Found at i:21581843 original size:60 final size:60
Alignment explanation
Indices: 21581759--21582026 Score: 355
Period size: 60 Copynumber: 4.5 Consensus size: 60
21581749 CTATGCCACC
* * * *
21581759 ATATAAATCGGGGCTTCAGGTCCCCCTTTACCTACTCGTGGGAACTACCCAAGTCACGAA
1 ATATAAATCGAGGCTTCAAGTCCCCCTTTACCTACTCGTGGGAACTACCCACGTCACCAA
* * * *
21581819 ATATAAATTGAGGCTTTATA-TCCCCCTTTGCCTACTCGTAGGAACTACCCACGTCACCAA
1 ATATAAATCGAGGCTTCA-AGTCCCCCTTTACCTACTCGTGGGAACTACCCACGTCACCAA
* *
21581879 ATATAAATCGGGGCTTCAAGTCCCCCTTTACCTACTAGTGGGAACTACCCACGTCACCAA
1 ATATAAATCGAGGCTTCAAGTCCCCCTTTACCTACTCGTGGGAACTACCCACGTCACCAA
* * * *
21581939 ATATAAATCGAGGCTTCAAGTCCCTCTTTGCCTACTCGTGGGAACTGCCCACGCCACC--
1 ATATAAATCGAGGCTTCAAGTCCCCCTTTACCTACTCGTGGGAACTACCCACGTCACCAA
*
21581997 ATATGAATCG-GGACTTCAAGTCCCCCTTTA
1 ATATAAATCGAGG-CTTCAAGTCCCCCTTTA
21582027 AAATCAAATA
Statistics
Matches: 182, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.01
58 24 0.13
59 1 0.01
60 155 0.85
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.25
Consensus pattern (60 bp):
ATATAAATCGAGGCTTCAAGTCCCCCTTTACCTACTCGTGGGAACTACCCACGTCACCAA
Found at i:21581972 original size:120 final size:118
Alignment explanation
Indices: 21581753--21582026 Score: 406
Period size: 120 Copynumber: 2.3 Consensus size: 118
21581743 AATTGTCTAT
* * *
21581753 GCCACCATATAAATCGGGGCTTCAGGTCCCCCTTTACCTACTCGTGGGAACTACCCAAGTCACGA
1 GCCACCATATAAATCGGGGCTTCAAGTCCCCCTTTACCTACTAGTGGGAACTACCCAAGTCACCA
* *
21581818 AATATAAATTGAGGCTTTATATCCCCCTTTGCCTACTCGTAGGAACTACCCAC
66 AATATAAATCGAGGCTTCATATCCCCCTTTGCCTACTCGTAGGAACTACCCAC
* *
21581871 GTCACCAAATATAAATCGGGGCTTCAAGTCCCCCTTTACCTACTAGTGGGAACTACCCACGTCAC
1 GCCACC--ATATAAATCGGGGCTTCAAGTCCCCCTTTACCTACTAGTGGGAACTACCCAAGTCAC
* * *
21581936 CAAATATAAATCGAGGCTTCA-AGTCCCTCTTTGCCTACTCGTGGGAACTGCCCAC
64 CAAATATAAATCGAGGCTTCATA-TCCCCCTTTGCCTACTCGTAGGAACTACCCAC
* *
21581991 GCCACCATATGAATCGGGACTTCAAGTCCCCCTTTA
1 GCCACCATATAAATCGGGGCTTCAAGTCCCCCTTTA
21582027 AAATCAAATA
Statistics
Matches: 140, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
118 33 0.24
119 1 0.01
120 106 0.76
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (118 bp):
GCCACCATATAAATCGGGGCTTCAAGTCCCCCTTTACCTACTAGTGGGAACTACCCAAGTCACCA
AATATAAATCGAGGCTTCATATCCCCCTTTGCCTACTCGTAGGAACTACCCAC
Found at i:21582593 original size:21 final size:21
Alignment explanation
Indices: 21582569--21582612 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21582559 GTGTCGCTGC
21582569 TCTTTCTCTCCTTC-TTCTTCT
1 TCTTT-TCTCCTTCTTTCTTCT
* *
21582590 TCTTTTTTTCTTCTTTCTTCT
1 TCTTTTCTCCTTCTTTCTTCT
21582611 TC
1 TC
21582613 CTCTTTCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (21 bp):
TCTTTTCTCCTTCTTTCTTCT
Found at i:21582612 original size:24 final size:25
Alignment explanation
Indices: 21582571--21582618 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
21582561 GTCGCTGCTC
*
21582571 TTTCTCTCCTTCTTCTTCTTCTTTT
1 TTTCTCTCCTTCTTCTTCCTCTTTT
*
21582596 TTTCT-TCTTTCTTCTTCCTCTTT
1 TTTCTCTCCTTCTTCTTCCTCTTT
21582619 CTTCCCCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTCTCTCCTTCTTCTTCCTCTTTT
Found at i:21582668 original size:16 final size:16
Alignment explanation
Indices: 21582647--21582681 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21582637 GCTCTCTCTC
21582647 TCTTTCTCTTTCTTT-T
1 TCTTTCTC-TTCTTTCT
21582663 TCTTTCTCTTCTTTCT
1 TCTTTCTCTTCTTTCT
21582679 TCT
1 TCT
21582682 CCCTTGTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTTCTCTTCTTTCT
Found at i:21582679 original size:58 final size:58
Alignment explanation
Indices: 21582596--21582739 Score: 193
Period size: 58 Copynumber: 2.5 Consensus size: 58
21582586 TTCTTCTTTT
* * *
21582596 TTTCTTCTTTC-TTCTTCCTCTTTCTTCCCCCTCGTTGTCGTGC-TCTCTCTCTCTTTCTC
1 TTTCTT-TTTCTTTC-TCTTCTTTCTTCCCCCTCGTCGTCGTGCTTC-CTCTCTCATTCTC
* *
21582655 TTTCTTTTTCTTTCTCTTCTTTCTTCTCCCTTGTCGTCGTGCTTCCTCTCTCATTCTC
1 TTTCTTTTTCTTTCTCTTCTTTCTTCCCCCTCGTCGTCGTGCTTCCTCTCTCATTCTC
*
21582713 CTTCTTTTTCTTTCTCTTCTTTCTTCC
1 TTTCTTTTTCTTTCTCTTCTTTCTTCC
21582740 TTCTCTTTCT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
58 65 0.86
59 11 0.14
ACGTcount: A:0.01, C:0.36, G:0.06, T:0.58
Consensus pattern (58 bp):
TTTCTTTTTCTTTCTCTTCTTTCTTCCCCCTCGTCGTCGTGCTTCCTCTCTCATTCTC
Found at i:21582743 original size:16 final size:15
Alignment explanation
Indices: 21582708--21582746 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
21582698 TCCTCTCTCA
*
21582708 TTCTCCTTCTTTTTCT
1 TTCT-CTTCTTTTTCC
21582724 TTCTCTTCTTTCTTCC
1 TTCTCTTCTTT-TTCC
21582740 TTCTCTT
1 TTCTCTT
21582747 TCTTCTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TTCTCTTCTTTTTCC
Found at i:21582788 original size:71 final size:73
Alignment explanation
Indices: 21582645--21582807 Score: 187
Period size: 71 Copynumber: 2.3 Consensus size: 73
21582635 GTGCTCTCTC
* * * * *
21582645 TCTCTTTCTCTTT-C-TT-TTTCTTTC-TCTTCTTTCTTCTCCCTTGTCGTCGTGCTTCCTCTCT
1 TCTCTTTCTCTTTCCTTTCTTTCTTCCTTC-TCTTTCTTCTCCCTCGTCGCCATGCTCCCTCTCT
21582706 CATTCTCCT
65 CATTCTCCT
21582715 TCT-TTT-TCTTT-CTCTTCTTTCTTCCTTCTCTTTCTTCTCCCTCGTCGCCATGCTCCCTCTCT
1 TCTCTTTCTCTTTCCT-TTCTTTCTTCCTTCTCTTTCTTCTCCCTCGTCGCCATGCTCCCTCTCT
* * *
21582777 CCTTTTTCT
65 CATTCTCCT
21582786 TCTCTTTCTCTTTCCTTTCTTT
1 TCTCTTTCTCTTTCCTTTCTTT
21582808 ATGCTCTATC
Statistics
Matches: 78, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
68 6 0.08
69 3 0.04
70 5 0.06
71 46 0.59
72 5 0.06
73 11 0.14
74 2 0.03
ACGTcount: A:0.01, C:0.37, G:0.04, T:0.58
Consensus pattern (73 bp):
TCTCTTTCTCTTTCCTTTCTTTCTTCCTTCTCTTTCTTCTCCCTCGTCGCCATGCTCCCTCTCTC
ATTCTCCT
Found at i:21596366 original size:20 final size:20
Alignment explanation
Indices: 21596341--21596396 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
21596331 AAACCCGTAA
21596341 AAATGTATCGATACATTTAC
1 AAATGTATCGATACATTTAC
21596361 AAATGTATCGATACATTTAC
1 AAATGTATCGATACATTTAC
*
21596381 AAATGTATTGATACAT
1 AAATGTATCGATACAT
21596397 GCATGTAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (20 bp):
AAATGTATCGATACATTTAC
Found at i:21604584 original size:19 final size:20
Alignment explanation
Indices: 21604542--21604584 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
21604532 AAATCAAGAT
*
21604542 TTTTCATTTTCTTTTCCTTG
1 TTTTCATTTTCTTTTCCTTC
*
21604562 TTTTC-TTTTCTTTTCTTTC
1 TTTTCATTTTCTTTTCCTTC
21604581 TTTT
1 TTTT
21604585 TCTTGCTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTCATTTTCTTTTCCTTC
Found at i:21605516 original size:52 final size:52
Alignment explanation
Indices: 21605391--21605543 Score: 229
Period size: 52 Copynumber: 3.0 Consensus size: 52
21605381 GCACATGACG
* * *
21605391 GTGATAGTGGTGTGCTATGTGAGTACACACACTGATGATATATA-CCATG-AT
1 GTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATA-AGCCATGTAC
*
21605442 GTGATAATGGTGTGCTGTGTGAGTGCACACACTGATGATATAAGCCATGTAC
1 GTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATAAGCCATGTAC
* *
21605494 GTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGATATATGCCATGT
1 GTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATAAGCCATGT
21605544 GCGAGGTGGG
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
50 1 0.01
51 44 0.47
52 48 0.52
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (52 bp):
GTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATAAGCCATGTAC
Found at i:21607000 original size:68 final size:68
Alignment explanation
Indices: 21606884--21607150 Score: 268
Period size: 68 Copynumber: 3.9 Consensus size: 68
21606874 CACATACTAG
* * * * *
21606884 CTTACTCATCTTATAAAGTATATGGAAAATACATTATATACATAATCTCATGGCATTCATCATGC
1 CTTAATCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
*
21606949 TTT
66 ATT
* * * * * *
21606952 CTCAATCATCTCATGTAGTATATAGAATATACATCATATACATTATCTCATGGAATTTATCATGC
1 CTTAATCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
*
21607017 ATA
66 ATT
* * * * * *
21607020 CTTAATCA-C-CATATATGGTATATGGAATTTACACCATATACACAATCTTATAGTATTCATCAT
1 CTTAATCATCTCATATA--GTATATGGAATATACATCATATACATAATCTCATGGCATTCATCAT
21607083 GCATT
64 GCATT
* * ** * * *
21607088 CTTAACCATCTTATACGGTATATGGAATTTATATCATATACATAATCTTATGGCATTCATCAT
1 CTTAATCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCAT
21607151 ACCACACATG
Statistics
Matches: 161, Mismatches: 34, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
66 5 0.03
67 1 0.01
68 151 0.94
69 1 0.01
70 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (68 bp):
CTTAATCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
ATT
Found at i:21607150 original size:136 final size:136
Alignment explanation
Indices: 21606901--21607150 Score: 302
Period size: 136 Copynumber: 1.8 Consensus size: 136
21606891 ATCTTATAAA
** * * * *
21606901 GTATATGGAAAATACATTATATACATAATCTCATGGCATTCATCATGCTTTCTCAATCATCTCAT
1 GTATATGGAAAATACACCATATACACAATCTCATAGCATTCATCATGCATTCTCAACCATCTCAT
** * *
21606966 GTAGTATATAGAATATACATCATATACATTATCTCATGGAATTTATCATGCATACTTAATCACCA
66 ACAGTATATAGAATATACATCATATACATAATCTCATGGAATTCATCATGCATACTTAATCACCA
21607031 TATATG
131 TATATG
** * * * *
21607037 GTATATGGAATTTACACCATATACACAATCTTATAGTATTCATCATGCATTCTTAACCATCTTAT
1 GTATATGGAAAATACACCATATACACAATCTCATAGCATTCATCATGCATTCTCAACCATCTCAT
* * * * * *
21607102 ACGGTATATGGAATTTATATCATATACATAATCTTATGGCATTCATCAT
66 ACAGTATATAGAATATACATCATATACATAATCTCATGGAATTCATCAT
21607151 ACCACACATG
Statistics
Matches: 92, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
136 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.38
Consensus pattern (136 bp):
GTATATGGAAAATACACCATATACACAATCTCATAGCATTCATCATGCATTCTCAACCATCTCAT
ACAGTATATAGAATATACATCATATACATAATCTCATGGAATTCATCATGCATACTTAATCACCA
TATATG
Found at i:21608649 original size:54 final size:54
Alignment explanation
Indices: 21608565--21608669 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
21608555 CCTTTGTCTT
* * *
21608565 AAATTTCATCCAATTAATGATTTAGCACTCTAGATCTAATCTTTTAAGTATCTC
1 AAATTTCATCCAATTAACGATTCAGCACTCTAGATCTAATATTTTAAGTATCTC
* *
21608619 AAATTTCATCCAATTAGCGATTCAGTACTCTAGATCTAATATTTTAAGTAT
1 AAATTTCATCCAATTAACGATTCAGCACTCTAGATCTAATATTTTAAGTAT
21608670 TTAGATGTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (54 bp):
AAATTTCATCCAATTAACGATTCAGCACTCTAGATCTAATATTTTAAGTATCTC
Found at i:21611221 original size:37 final size:36
Alignment explanation
Indices: 21611165--21611283 Score: 125
Period size: 37 Copynumber: 3.2 Consensus size: 36
21611155 TGTTGGGTGT
* *
21611165 TGATGTTGAAGTGTGCGAGTAGGAAGTGCACACATGA
1 TGATGATGAGGTGTGCGAGTAGG-AGTGCACACATGA
* *
21611202 TGATGATGAGGTGTACGAGTAGG-GTGTACACATG-
1 TGATGATGAGGTGTGCGAGTAGGAGTGCACACATGA
*
21611236 TGATGATGACAGAGTGTGCGAATAGGTAGTGCACACATGA
1 TGATGATG--AG-GTGTGCGAGTAGG-AGTGCACACATGA
*
21611276 TGCTGATG
1 TGATGATG
21611284 TATGTATATG
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
34 8 0.12
35 10 0.15
36 2 0.03
37 31 0.46
39 10 0.15
40 7 0.10
ACGTcount: A:0.29, C:0.11, G:0.35, T:0.25
Consensus pattern (36 bp):
TGATGATGAGGTGTGCGAGTAGGAGTGCACACATGA
Found at i:21611553 original size:100 final size:101
Alignment explanation
Indices: 21611375--21611565 Score: 357
Period size: 100 Copynumber: 1.9 Consensus size: 101
21611365 AACTTTGAAA
21611375 ATTTCTAGGCATGCTTAAGTTGAGCTTGTCTTTGCAGCTAAATGGCCTATCCTTAAGAGAATCAA
1 ATTTCTAGGCATGCTTAAGTTGAGCTTGTCTTTGCAGCTAAATGGCCTATCCTTAAGAGAATCAA
*
21611440 AAGTTGTTGTTGGTGTCCTGTTTTCGCTGCAGCGAG
66 AAGTTGTTGTTGGTGTCCTATTTTCGCTGCAGCGAG
*
21611476 ATTT-TAGGCATGTTTAAGTTGAGCTTGTCTTTGCAGCTAAATGGCCTATCCTTAAGAGAATCAA
1 ATTTCTAGGCATGCTTAAGTTGAGCTTGTCTTTGCAGCTAAATGGCCTATCCTTAAGAGAATCAA
21611540 AAGTTGTTGTTGGTGTCCTATTTTCG
66 AAGTTGTTGTTGGTGTCCTATTTTCG
21611566 TTGTAGTGAG
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
100 84 0.95
101 4 0.05
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.38
Consensus pattern (101 bp):
ATTTCTAGGCATGCTTAAGTTGAGCTTGTCTTTGCAGCTAAATGGCCTATCCTTAAGAGAATCAA
AAGTTGTTGTTGGTGTCCTATTTTCGCTGCAGCGAG
Found at i:21614472 original size:12 final size:12
Alignment explanation
Indices: 21614455--21614481 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21614445 GCTTTTCAAT
21614455 TTCGACTTTGAA
1 TTCGACTTTGAA
21614467 TTCGACTTTGAA
1 TTCGACTTTGAA
21614479 TTC
1 TTC
21614482 TTTGAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (12 bp):
TTCGACTTTGAA
Found at i:21616817 original size:43 final size:43
Alignment explanation
Indices: 21616747--21616876 Score: 190
Period size: 43 Copynumber: 3.0 Consensus size: 43
21616737 CCCGCCACAC
* * * *
21616747 TCAGCTCATGTGCACTCCTTAC-TCGCACATAGCCGAGTCATCA
1 TCAGCTCATGTGCACTCC-CACACCGCACATAGCTGGGTCATCA
*
21616790 TCAGCTCATGTGCATTCCCACACCGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCA
*
21616833 TCAGCTCATGTGCACTCCCACACTGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCA
21616876 T
1 T
21616877 TATCACACAA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 2 0.03
43 77 0.97
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.25
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCA
Found at i:21619888 original size:18 final size:20
Alignment explanation
Indices: 21619860--21619899 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
21619850 TGAATAATAT
*
21619860 AAATATAATTT-TTTTAAAA
1 AAATATAATTTATTATAAAA
21619879 AAAT-TAATTTATTATAAAA
1 AAATATAATTTATTATAAAA
21619898 AA
1 AA
21619900 TTAGAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATATAATTTATTATAAAA
Found at i:21620148 original size:11 final size:11
Alignment explanation
Indices: 21620132--21620156 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21620122 TTCGGATGCG
21620132 ATAAAATAATA
1 ATAAAATAATA
21620143 ATAAAATAATA
1 ATAAAATAATA
21620154 ATA
1 ATA
21620157 TCTTATTGAG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:21631492 original size:8 final size:8
Alignment explanation
Indices: 21631481--21631584 Score: 76
Period size: 8 Copynumber: 13.4 Consensus size: 8
21631471 CTTAGAAGCA
21631481 AAGAAAGG
1 AAGAAAGG
*
21631489 AAGAAAGA
1 AAGAAAGG
**
21631497 AAGGAGAAAA
1 AA-GA-AAGG
21631507 AAGAAAGG
1 AAGAAAGG
21631515 -AGAAAGG
1 AAGAAAGG
21631522 AAGAAAGG
1 AAGAAAGG
*
21631530 -AGAAAAG
1 AAGAAAGG
*
21631537 AAGAAAAG
1 AAGAAAGG
*
21631545 AAGAAAGA
1 AAGAAAGG
*
21631553 AATAAAGG
1 AAGAAAGG
21631561 -AGAAA-G
1 AAGAAAGG
21631567 AAGAAA--
1 AAGAAAGG
21631573 AAGACAAGG
1 AAGA-AAGG
21631582 AAG
1 AAG
21631585 GCTCGGCCTA
Statistics
Matches: 78, Mismatches: 10, Indels: 15
0.76 0.10 0.15
Matches are distributed among these distances:
6 5 0.06
7 24 0.31
8 37 0.47
9 7 0.09
10 5 0.06
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.01
Consensus pattern (8 bp):
AAGAAAGG
Found at i:21631527 original size:15 final size:14
Alignment explanation
Indices: 21631481--21631572 Score: 98
Period size: 15 Copynumber: 6.4 Consensus size: 14
21631471 CTTAGAAGCA
*
21631481 AAGAAAGGA-AGA-
1 AAGAAAGGAGAAAG
*
21631493 AAGAAAGGAGAAAA
1 AAGAAAGGAGAAAG
21631507 AAGAAAGGAGAAAGG
1 AAGAAAGGAGAAA-G
21631522 AAGAAAGGAGAAAAG
1 AAGAAAGGAG-AAAG
*
21631537 AAGAAAAGAAGAAAG
1 AAG-AAAGGAGAAAG
*
21631552 AAATAAAGGAGAAAG
1 -AAGAAAGGAGAAAG
21631567 AAGAAA
1 AAGAAA
21631573 AAGACAAGGA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
12 9 0.13
13 2 0.03
14 18 0.26
15 28 0.41
16 11 0.16
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.01
Consensus pattern (14 bp):
AAGAAAGGAGAAAG
Found at i:21634078 original size:3 final size:3
Alignment explanation
Indices: 21634070--21634132 Score: 53
Period size: 3 Copynumber: 21.7 Consensus size: 3
21634060 TATGTATACC
* * *
21634070 CAT CAT CAT CAT GCA- CAC CAT C-C CAT CAT CAT CAT ACA- CAC CAT
1 CAT CAT CAT CAT -CAT CAT CAT CAT CAT CAT CAT CAT -CAT CAT CAT
21634114 CA- CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CA
21634133 CCAGCTCATG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 7 0.14
3 39 0.78
4 4 0.08
ACGTcount: A:0.35, C:0.40, G:0.02, T:0.24
Consensus pattern (3 bp):
CAT
Found at i:21634122 original size:26 final size:23
Alignment explanation
Indices: 21634068--21634135 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
21634058 TATATGTATA
*
21634068 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATACACACCAT
21634091 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
21634114 CACATCATCATCAT-CATCACCA
1 CCCATCATCATCATACA-CACCA
21634136 GCTCATGCGC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 2 0.05
23 40 0.95
ACGTcount: A:0.34, C:0.43, G:0.01, T:0.22
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:21644596 original size:26 final size:23
Alignment explanation
Indices: 21644535--21644594 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
21644525 TATACGTATA
**
21644535 CCCATCATCATCATGTACACCAT
1 CCCATCATCATCATACACACCAT
21644558 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
21644581 CACATCATCATCAT
1 CCCATCATCATCAT
21644595 CACCAGCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.33, C:0.40, G:0.02, T:0.25
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:21646970 original size:34 final size:35
Alignment explanation
Indices: 21646931--21646998 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
21646921 CAAAATTTTA
*
21646931 ATATAAGAAAAACT-CTTTTTCTTTAAAAAAATTG
1 ATATAAGAAAAACTCCTTTTTCTTAAAAAAAATTG
21646965 ATATAAGAAAAACTCCTTTTTCTTAAAAAAAATT
1 ATATAAGAAAAACTCCTTTTTCTTAAAAAAAATT
21646999 AAAGAGACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 14 0.44
35 18 0.56
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (35 bp):
ATATAAGAAAAACTCCTTTTTCTTAAAAAAAATTG
Found at i:21648081 original size:22 final size:22
Alignment explanation
Indices: 21648055--21648098 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21648045 AAGAATCCTC
21648055 CTATTATC-TTAATTTAAGACAA
1 CTATTATCTTTAA-TTAAGACAA
*
21648077 CTATTGTCTTTAATTAAGACAA
1 CTATTATCTTTAATTAAGACAA
21648099 AAATATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (22 bp):
CTATTATCTTTAATTAAGACAA
Found at i:21648115 original size:31 final size:29
Alignment explanation
Indices: 21648088--21648245 Score: 146
Period size: 28 Copynumber: 5.4 Consensus size: 29
21648078 TATTGTCTTT
21648088 AATTAAGACAAAAATATTTTATCTTGTCTA
1 AATTAAGACAAAAATATTTT-TCTTGTCTA
* *
21648118 AATTGAGAC--AAATATGTTTTCCTGTCTA
1 AATTAAGACAAAAATAT-TTTTCTTGTCTA
*
21648146 GATTAAGACAAAAAATATTGTTT-TTGTCTTA
1 AATTAAGAC-AAAAATATT-TTTCTTGTC-TA
* *
21648177 AATTAAGACAAACATA-TTTTCTTTTCTA
1 AATTAAGACAAAAATATTTTTCTTGTCTA
* * * *
21648205 AATTGAGACCAAACAT-GTTTTCTTATCTA
1 AATTAAGA-CAAAAATATTTTTCTTGTCTA
21648234 AATTAAGACAAA
1 AATTAAGACAAA
21648246 CATGTTAAAG
Statistics
Matches: 108, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
28 37 0.34
29 33 0.31
30 19 0.18
31 19 0.18
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (29 bp):
AATTAAGACAAAAATATTTTTCTTGTCTA
Found at i:21648225 original size:29 final size:28
Alignment explanation
Indices: 21648088--21648251 Score: 157
Period size: 29 Copynumber: 5.6 Consensus size: 28
21648078 TATTGTCTTT
* *
21648088 AATTAAGACAAAAATATTTTATCTTGTCTA
1 AATTAAGACAAACAT-GTTT-TCTTGTCTA
* * *
21648118 AATTGAGACAAATATGTTTTCCTGTCTA
1 AATTAAGACAAACATGTTTTCTTGTCTA
* * * *
21648146 GATTAAGACAAAAAATATTGTTTTTGTCTTA
1 AATTAAGAC-AAACATGTT-TTCTTGTC-TA
* *
21648177 AATTAAGACAAACATATTTTCTTTTCTA
1 AATTAAGACAAACATGTTTTCTTGTCTA
* *
21648205 AATTGAGACCAAACATGTTTTCTTATCTA
1 AATTAAGA-CAAACATGTTTTCTTGTCTA
21648234 AATTAAGACAAACATGTT
1 AATTAAGACAAACATGTT
21648252 AAAGCTGCCA
Statistics
Matches: 112, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
28 34 0.30
29 41 0.37
30 27 0.24
31 10 0.09
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (28 bp):
AATTAAGACAAACATGTTTTCTTGTCTA
Found at i:21650617 original size:16 final size:16
Alignment explanation
Indices: 21650596--21650630 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
21650586 ATAAAAGTAT
*
21650596 TAAAAAAATCAAAATC
1 TAAAAAAATAAAAATC
21650612 TAAAAAAATAAAAATC
1 TAAAAAAATAAAAATC
21650628 TAA
1 TAA
21650631 TTTTTGGATT
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:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAAAAATAAAAATC
Found at i:21659050 original size:19 final size:19
Alignment explanation
Indices: 21659026--21659067 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
21659016 CAACATGCCA
21659026 TGGCTGGAAGTCCCTCTGT
1 TGGCTGGAAGTCCCTCTGT
21659045 TGGCTGGAAGTCCCTCTGT
1 TGGCTGGAAGTCCCTCTGT
21659064 TGGC
1 TGGC
21659068 ATCCTTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (19 bp):
TGGCTGGAAGTCCCTCTGT
Found at i:21665672 original size:28 final size:27
Alignment explanation
Indices: 21665636--21665688 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
21665626 ATATCCTGGT
*
21665636 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
21665663 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
21665689 ATACTCCAAA
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:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:21665756 original size:20 final size:20
Alignment explanation
Indices: 21665733--21665778 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
21665723 CTTCTAAACC
21665733 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
21665753 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
21665773 TCAAAT
1 TCAAAT
21665779 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:21674262 original size:27 final size:27
Alignment explanation
Indices: 21674211--21674262 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
21674201 ATATCCTGGT
*
21674211 GGTGGAAAATTACAATTTTGCCCCTAA
1 GGTGGAAAATTACAATTTTGACCCTAA
21674238 GGTGGCAAAATTATC-ATTTT-ACCCT
1 GGTGG-AAAATTA-CAATTTTGACCCT
21674263 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 9 0.41
28 12 0.55
29 1 0.05
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTAA
Found at i:21674684 original size:2 final size:2
Alignment explanation
Indices: 21674677--21674702 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21674667 TATTATGTTG
21674677 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21674703 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21674795 original size:42 final size:42
Alignment explanation
Indices: 21674741--21674893 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
21674731 GTAATGATAT
* * *
21674741 TGACCCGGCTATGTGCGAGTATGAATGTGCATAAGCCGATGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGC
* ** ** *
21674783 TGATCCAGCTATGTGCGAGCGGGAGTGCACATAAGTCGATGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGC
*
21674825 TGACCCAGCTATGTGTGAGTAGGAGTGTGCATAAGCCGATGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGC
* * * * *
21674867 TAACCTAGCCATGTGCTAGTGGGAGTG
1 TGACCCAGCTATGTGCGAGTAGGAGTG
21674894 CATATGAGCT
Statistics
Matches: 89, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (42 bp):
TGACCCAGCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGC
Found at i:21674882 original size:84 final size:84
Alignment explanation
Indices: 21674741--21674895 Score: 222
Period size: 84 Copynumber: 1.8 Consensus size: 84
21674731 GTAATGATAT
* * * *
21674741 TGACCCGGCTATGTGCGAGTATGAATGTGCATAAGCCGATGCTGATCCAGCTATGTGCGAGCGGG
1 TGACCCAGCTATGTGCGAGTAGGAATGTGCATAAGCCGATGCTGAACCAGCCATGTGCGAGCGGG
21674806 AGTGCACATAAGTCGATGC
66 AGTGCACATAAGTCGATGC
* * * *
21674825 TGACCCAGCTATGTGTGAGTAGGAGTGTGCATAAGCCGATGCT-AACCTAGCCATGTGCTAGTGG
1 TGACCCAGCTATGTGCGAGTAGGAATGTGCATAAGCCGATGCTGAACC-AGCCATGTGCGAGCGG
21674889 GAGTGCA
65 GAGTGCA
21674896 TATGAGCTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 3 0.05
84 59 0.95
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (84 bp):
TGACCCAGCTATGTGCGAGTAGGAATGTGCATAAGCCGATGCTGAACCAGCCATGTGCGAGCGGG
AGTGCACATAAGTCGATGC
Found at i:21679524 original size:14 final size:15
Alignment explanation
Indices: 21679500--21679528 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21679490 TTTTGGAGAA
21679500 ATATCCAAGGAAATG
1 ATATCCAAGGAAATG
21679515 ATAT-CAAGGAAATG
1 ATATCCAAGGAAATG
21679529 TAATCTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (15 bp):
ATATCCAAGGAAATG
Found at i:21682043 original size:2 final size:2
Alignment explanation
Indices: 21682036--21682065 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21682026 TACTGTGTTG
21682036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21682066 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21699261 original size:11 final size:11
Alignment explanation
Indices: 21699243--21699279 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
21699233 TCATAATAGA
21699243 AATATTTTAAT
1 AATATTTTAAT
*
21699254 ATTATTTTAAT
1 AATATTTTAAT
*
21699265 AATATTTTACT
1 AATATTTTAAT
21699276 AATA
1 AATA
21699280 AAATATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
AATATTTTAAT
Found at i:21704826 original size:16 final size:16
Alignment explanation
Indices: 21704805--21704839 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
21704795 AGGAAACTGC
21704805 ATGAACTGAACATGAT
1 ATGAACTGAACATGAT
21704821 ATGAACTGAACATGAT
1 ATGAACTGAACATGAT
21704837 ATG
1 ATG
21704840 GTATTGTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (16 bp):
ATGAACTGAACATGAT
Found at i:21711870 original size:18 final size:18
Alignment explanation
Indices: 21711847--21711881 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21711837 TGGAACCTAG
21711847 TTTGAAATGCT-AGAAATT
1 TTTGAAA-GCTAAGAAATT
21711865 TTTGAAAGCTAAGAAAT
1 TTTGAAAGCTAAGAAAT
21711882 ATTTATAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (18 bp):
TTTGAAAGCTAAGAAATT
Found at i:21729221 original size:58 final size:57
Alignment explanation
Indices: 21729131--21729250 Score: 204
Period size: 58 Copynumber: 2.1 Consensus size: 57
21729121 CATAATCATC
* *
21729131 CAAAGTAGTTTGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCAATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCCATGC-ATG
*
21729189 CAAAGTAGTATGCATGTGATAGATTTATTTTATGTAATTTAATAAATGCCATGCATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCCATGCATG
21729246 CAAAG
1 CAAAG
21729251 ATGAGACCCT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 8 0.14
58 51 0.86
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (57 bp):
CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCCATGCATG
Found at i:21731471 original size:13 final size:13
Alignment explanation
Indices: 21731453--21731477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21731443 TTCTAGAAAA
21731453 TTTATAAAATCAT
1 TTTATAAAATCAT
21731466 TTTATAAAATCA
1 TTTATAAAATCA
21731478 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:21736816 original size:15 final size:15
Alignment explanation
Indices: 21736796--21736841 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
21736786 TTCTTAAAAC
21736796 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
21736811 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
21736826 AGCTTTAAAATCAAA
1 AACTTTAAAACCAAA
21736841 A
1 A
21736842 TCTCTGATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:21738058 original size:13 final size:13
Alignment explanation
Indices: 21738040--21738064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21738030 TTCCAAAAAA
21738040 TTTATAAAATCAT
1 TTTATAAAATCAT
21738053 TTTATAAAATCA
1 TTTATAAAATCA
21738065 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:21739462 original size:19 final size:19
Alignment explanation
Indices: 21739438--21739475 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21739428 CTGCCAAACC
*
21739438 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
21739457 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
21739476 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:21742335 original size:13 final size:13
Alignment explanation
Indices: 21742314--21742348 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
21742304 AGGTAAAATT
*
21742314 TTGTGATTTTATC
1 TTGTCATTTTATC
*
21742327 TTGTTATTTTATC
1 TTGTCATTTTATC
21742340 TTGTCATTT
1 TTGTCATTT
21742349 ACACTACCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.09, G:0.11, T:0.66
Consensus pattern (13 bp):
TTGTCATTTTATC
Found at i:21745724 original size:43 final size:43
Alignment explanation
Indices: 21745676--21745784 Score: 141
Period size: 43 Copynumber: 2.5 Consensus size: 43
21745666 TCACCAACTC
* *
21745676 ATGCGCACTCCCTACTCGCACATG-GCTAGGTCATCATCGGGTT
1 ATGCGCACTCCCTACTCGCACATGACCT-GGTCATCATCGGCTT
* *
21745719 ATGCGCACTCCCTAATCGCACA-GAACCTGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATG-ACCTGGTCATCATCGGCTT
*
21745762 ATGTGCACTCCCTACTCGCACAT
1 ATGCGCACTCCCTACTCGCACAT
21745785 AGCCGAGTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 54 0.95
44 2 0.04
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATGACCTGGTCATCATCGGCTT
Found at i:21759308 original size:47 final size:47
Alignment explanation
Indices: 21759254--21759346 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
21759244 AGCTTCCAAA
21759254 GGAAGCTTTGACTCTTTTCTTCTTTTTCCATAGCAGATCCTTATCTT
1 GGAAGCTTTGACTCTTTTCTTCTTTTTCCATAGCAGATCCTTATCTT
* * *
21759301 GGAAGCTTTGACTCTTTTCTTTTTTTTCCATAGCTGGTCCTTATCT
1 GGAAGCTTTGACTCTTTTCTTCTTTTTCCATAGCAGATCCTTATCT
21759347 CCCAAAAGGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.15, C:0.23, G:0.14, T:0.48
Consensus pattern (47 bp):
GGAAGCTTTGACTCTTTTCTTCTTTTTCCATAGCAGATCCTTATCTT
Found at i:21759452 original size:19 final size:20
Alignment explanation
Indices: 21759428--21759466 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21759418 TTTTTTTTTC
*
21759428 ATTTTCTTTTCC-TTCCTTT
1 ATTTTCCTTTCCTTTCCTTT
21759447 ATTTTCCTTTCCTTTCCTTT
1 ATTTTCCTTTCCTTTCCTTT
21759467 CTTACTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTCCTTTCCTTTCCTTT
Found at i:21769626 original size:43 final size:40
Alignment explanation
Indices: 21769561--21769655 Score: 156
Period size: 43 Copynumber: 2.3 Consensus size: 40
21769551 GTATATTTGA
21769561 AAATGTATATATATATATATATATATATATATCTATGCNAGT
1 AAATGTATATATATATATATATATATATATATCTATGC-A-T
21769603 AAATAGTATATATATATATATATATATATATATCTATGCAT
1 AAAT-GTATATATATATATATATATATATATATCTATGCAT
21769644 -AATGTATATATA
1 AAATGTATATATA
21769656 CATGAATTCT
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
39 9 0.17
40 3 0.06
41 1 0.02
42 5 0.10
43 34 0.65
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.43
Consensus pattern (40 bp):
AAATGTATATATATATATATATATATATATATCTATGCAT
Found at i:21769655 original size:2 final size:2
Alignment explanation
Indices: 21769566--21769635 Score: 77
Period size: 2 Copynumber: 33.5 Consensus size: 2
21769556 TTTGAAAATG
* * * *
21769566 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TGC NA GTA AA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA TA -TA
21769611 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21769636 CTATGCATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
2 54 0.95
3 3 0.05
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:21770576 original size:35 final size:35
Alignment explanation
Indices: 21770474--21770578 Score: 108
Period size: 35 Copynumber: 3.1 Consensus size: 35
21770464 ATAAGCTCAG
* *
21770474 CCACAACCTTCCACAATGATTTTTCACGGGATCAA
1 CCACAACCTTCAACAATGGTTTTTCACGGGATCAA
* * *** *
21770509 CCAAAACC--CAA-AATGGCTTTTCAAAAGCTCAA
1 CCACAACCTTCAACAATGGTTTTTCACGGGATCAA
*
21770541 CCACAACCTTTAACAATGGTTTTTCACGGGATCAA
1 CCACAACCTTCAACAATGGTTTTTCACGGGATCAA
21770576 CCA
1 CCA
21770579 AAATCCAAAA
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
32 22 0.42
33 2 0.04
34 2 0.04
35 26 0.50
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (35 bp):
CCACAACCTTCAACAATGGTTTTTCACGGGATCAA
Found at i:21776629 original size:23 final size:23
Alignment explanation
Indices: 21776603--21776660 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 23
21776593 TCATTAGTCT
* *
21776603 TCAAGCATTATTCTCAATTATCA
1 TCAAGCATTATTATCAATCATCA
21776626 TCAAG---TATTATCAATCATCA
1 TCAAGCATTATTATCAATCATCA
21776646 TCAAGCATTCATTAT
1 TCAAGCATT-ATTAT
21776661 TTATTCTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 18 0.62
23 6 0.21
24 5 0.17
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (23 bp):
TCAAGCATTATTATCAATCATCA
Found at i:21781526 original size:67 final size:67
Alignment explanation
Indices: 21781418--21781550 Score: 212
Period size: 67 Copynumber: 2.0 Consensus size: 67
21781408 AGCTTTTTCA
* * * * *
21781418 ATGGCTTTTTATAGGCTCAGCCACAACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCA
1 ATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACAGGATCAACCAAAACCCA
21781483 AC
66 AC
*
21781485 ATGGCTTTTCAAAGGCTCAACCACAACCTTTAACGATGGTTTTTCACAGGATCAACCAAAACCCA
1 ATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACAGGATCAACCAAAACCCA
21781550 A
66 A
21781551 AACTAACTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (67 bp):
ATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACAGGATCAACCAAAACCCA
AC
Found at i:21781540 original size:35 final size:34
Alignment explanation
Indices: 21781442--21781547 Score: 117
Period size: 35 Copynumber: 3.1 Consensus size: 34
21781432 GCTCAGCCAC
* *
21781442 AACCTTTCACAATGGTTTTTCACGGGATCAACCAA
1 AACCTTTAAC-ATGGTTTTTCACAGGATCAACCAA
* * * * *
21781477 AACC--CAACATGGCTTTTCAAAGGCTCAACCAC
1 AACCTTTAACATGGTTTTTCACAGGATCAACCAA
21781509 AACCTTTAACGATGGTTTTTCACAGGATCAACCAA
1 AACCTTTAAC-ATGGTTTTTCACAGGATCAACCAA
21781544 AACC
1 AACC
21781548 CAAAACTAAC
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
32 23 0.41
33 2 0.04
34 3 0.05
35 28 0.50
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (34 bp):
AACCTTTAACATGGTTTTTCACAGGATCAACCAA
Found at i:21782077 original size:73 final size:72
Alignment explanation
Indices: 21781958--21782120 Score: 181
Period size: 73 Copynumber: 2.2 Consensus size: 72
21781948 CTAACTGCGC
* *
21781958 TCTTAGTCGACTAAGTTGTTTCTATCTTTTGATCCCAGTTTTTGGCAGTGAGCATT-TAGTCGAC
1 TCTTAGTCAACTAAGTTGTTTC-ATCTTTTGATCCCAGTTTCTGGCAGTGAG-ATTGTAGTCGAC
21782022 TAACTT-CTT
64 TAACTTAC-T
* * * *
21782031 TCTTAGTCAATTAAGTTGTTTC-TGTTTTGAAGT-CCAGATTTCTGGCAGTGTGGTTGTAGTCGA
1 TCTTAGTCAACTAAGTTGTTTCATCTTTTG-A-TCCCAG-TTTCTGGCAGTGAGATTGTAGTCGA
21782094 CTAACTTACT
63 CTAACTTACT
*
21782104 TCTTGGTCAACTAAGTT
1 TCTTAGTCAACTAAGTT
21782121 TTCTTTGTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
71 6 0.08
72 7 0.09
73 63 0.82
74 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (72 bp):
TCTTAGTCAACTAAGTTGTTTCATCTTTTGATCCCAGTTTCTGGCAGTGAGATTGTAGTCGACTA
ACTTACT
Found at i:21792501 original size:26 final size:26
Alignment explanation
Indices: 21792441--21792502 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
21792431 ACCATATACC
*
21792441 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
21792467 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
21792493 CATCATCATC
1 CATCATCATC
21792503 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:21792586 original size:42 final size:42
Alignment explanation
Indices: 21792522--21792664 Score: 259
Period size: 42 Copynumber: 3.4 Consensus size: 42
21792512 ACGGCTTATG
* *
21792522 CGCATATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
*
21792564 CACACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
21792606 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
21792648 CGCACATAGCCGGGTCA
1 CGCACATAGCCGGGTCA
21792665 AAATCAACAT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 97 1.00
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.20
Consensus pattern (42 bp):
CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
Found at i:21795002 original size:42 final size:38
Alignment explanation
Indices: 21794950--21795046 Score: 117
Period size: 36 Copynumber: 2.5 Consensus size: 38
21794940 GTGATGGTGG
* *
21794950 TGTGCAGTGTGGGAGTGCACACGATGATGATGATATTTGCCA
1 TGTGCGGTGTGGGAGTGCACAC----ATGATGATATTTACCA
21794992 TGTGCGGTGTGGGAGTG--CACATGATGATATTTACCA
1 TGTGCGGTGTGGGAGTGCACACATGATGATATTTACCA
*
21795028 TGTGTGGTGTGGGAGTGCA
1 TGTGCGGTGTGGGAGTGCA
21795047 TATGAGCTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
36 31 0.62
40 3 0.06
42 16 0.32
ACGTcount: A:0.21, C:0.12, G:0.37, T:0.30
Consensus pattern (38 bp):
TGTGCGGTGTGGGAGTGCACACATGATGATATTTACCA
Found at i:21795016 original size:36 final size:36
Alignment explanation
Indices: 21794976--21795051 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
21794966 GCACACGATG
*
21794976 ATGATGATATTTGCCATGTGCGGTGTGGGAGTGCAC
1 ATGATGATATTTACCATGTGCGGTGTGGGAGTGCAC
* *
21795012 ATGATGATATTTACCATGTGTGGTGTGGGAGTGCAT
1 ATGATGATATTTACCATGTGCGGTGTGGGAGTGCAC
21795048 ATGA
1 ATGA
21795052 GCTGAGTTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.11, G:0.34, T:0.33
Consensus pattern (36 bp):
ATGATGATATTTACCATGTGCGGTGTGGGAGTGCAC
Found at i:21797453 original size:14 final size:14
Alignment explanation
Indices: 21797434--21797460 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21797424 GTGGATTCAC
21797434 TATTACATGCAAAT
1 TATTACATGCAAAT
21797448 TATTACATGCAAA
1 TATTACATGCAAA
21797461 AAGGAGAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (14 bp):
TATTACATGCAAAT
Found at i:21799106 original size:57 final size:57
Alignment explanation
Indices: 21799018--21799128 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 57
21799008 TGCACGGTTG
* * * *
21799018 GGCTCCACTCATAAGGGACGACCTTCACTACAAGCAGCCCTTTCCTCCTTCAGCGGC
1 GGCTCCACTCATAAGGGACAACCCTCACTACAAACAGCCCTTTCCTCATTCAGCGGC
* *
21799075 GGCTCCACTCATAGGGGACAACCCTCGCTACAAACAGCCCTTTCCTCATTCAGC
1 GGCTCCACTCATAAGGGACAACCCTCACTACAAACAGCCCTTTCCTCATTCAGC
21799129 AGTGGCAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.23, C:0.39, G:0.18, T:0.21
Consensus pattern (57 bp):
GGCTCCACTCATAAGGGACAACCCTCACTACAAACAGCCCTTTCCTCATTCAGCGGC
Found at i:21800718 original size:17 final size:17
Alignment explanation
Indices: 21800682--21800719 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
21800672 ATATTTTAAT
21800682 ATTATTTTATTAATAAAA
1 ATTATTTTATT-ATAAAA
21800700 ATTATTTTATT-TCAAAA
1 ATTATTTTATTAT-AAAA
21800717 ATT
1 ATT
21800720 TCCTCTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 7 0.37
18 11 0.58
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTATTTTATTATAAAA
Found at i:21803057 original size:42 final size:42
Alignment explanation
Indices: 21803002--21803088 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
21802992 TGTTGATGTG
* *
21803002 GACTCGGCTATGTGCGAGTAGGAGTGCGCATACGTCGATGAT
1 GACTCAGCTATGTGCGAGTAGGAGTGCGCATAAGTCGATGAT
* *
21803044 GACTCAGCTATGTGCGAGTAGGAGTGCGTATAAGTCGATGCT
1 GACTCAGCTATGTGCGAGTAGGAGTGCGCATAAGTCGATGAT
21803086 GAC
1 GAC
21803089 CCAACCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.24
Consensus pattern (42 bp):
GACTCAGCTATGTGCGAGTAGGAGTGCGCATAAGTCGATGAT
Found at i:21803099 original size:42 final size:42
Alignment explanation
Indices: 21803011--21803100 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
21803001 GGACTCGGCT
* * * *
21803011 ATGTGCGAGTAGGAGTGCGCATACGTCGATGATGACTCAGCT
1 ATGTGCGAGTAGGAGTGCGCATAAGTCGATGATGACCCAACC
* *
21803053 ATGTGCGAGTAGGAGTGCGTATAAGTCGATGCTGACCCAACC
1 ATGTGCGAGTAGGAGTGCGCATAAGTCGATGATGACCCAACC
21803095 ATGTGC
1 ATGTGC
21803101 TAGTGGGGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (42 bp):
ATGTGCGAGTAGGAGTGCGCATAAGTCGATGATGACCCAACC
Found at i:21804791 original size:42 final size:42
Alignment explanation
Indices: 21804711--21804827 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
21804701 AACTCTATCT
* * * ** *
21804711 CAGCTTATTTGCACTACC-ACACCACACATAGCCAGGTCAGCA
1 CAGCTTATGTGCACT-CCTACACCGCACATGGCTGGGTCAACA
* *
21804753 CAG-TTCATGTGCCCTCTTACACCGCACATGGCTGGGTCAACA
1 CAGCTT-ATGTGCACTCCTACACCGCACATGGCTGGGTCAACA
21804795 CAGCTTATGTGCACTCCTACACCGCACATGGCT
1 CAGCTTATGTGCACTCCTACACCGCACATGGCT
21804828 ACGTCATAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.05
42 57 0.92
43 2 0.03
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (42 bp):
CAGCTTATGTGCACTCCTACACCGCACATGGCTGGGTCAACA
Found at i:21805456 original size:23 final size:23
Alignment explanation
Indices: 21805410--21805457 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
21805400 TTTCTAAATA
* *
21805410 ATTTCCACCCAAATCCATCTTAT
1 ATTTCCACACAAATCCATCATAT
21805433 ATTTCCACACATAATCCA-CATAT
1 ATTTCCACACA-AATCCATCATAT
21805456 AT
1 AT
21805458 GGCAGCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.33
Consensus pattern (23 bp):
ATTTCCACACAAATCCATCATAT
Found at i:21807571 original size:25 final size:25
Alignment explanation
Indices: 21807537--21807594 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
21807527 ATATATATAT
21807537 ATATACGTGGCAAGGCCACGAGATG
1 ATATACGTGGCAAGGCCACGAGATG
** * *
21807562 ATATACGTGGCTGGGCCATGAGTTG
1 ATATACGTGGCAAGGCCACGAGATG
21807587 ATATACGT
1 ATATACGT
21807595 AGTTGCGACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (25 bp):
ATATACGTGGCAAGGCCACGAGATG
Found at i:21809307 original size:19 final size:21
Alignment explanation
Indices: 21809268--21809308 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21809258 TCCACTCATG
*
21809268 GCACATTGTACATTAAATCAA
1 GCACATTGTACAATAAATCAA
21809289 GCACATTG-ACAAT-AATCAA
1 GCACATTGTACAATAAATCAA
21809308 G
1 G
21809309 TTTTCTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (21 bp):
GCACATTGTACAATAAATCAA
Found at i:21810486 original size:21 final size:21
Alignment explanation
Indices: 21810461--21810502 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21810451 GGCAGCAAGT
21810461 TTCTTGCTGCAGCGAAG-TTCA
1 TTCTTGCTGCAGC-AAGATTCA
*
21810482 TTCTTGTTGCAGCAAGATTCA
1 TTCTTGCTGCAGCAAGATTCA
21810503 GGAGGCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (21 bp):
TTCTTGCTGCAGCAAGATTCA
Done.