Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 61 of 167
Found at i:19254439 original size:48 final size:48
Alignment explanation
Indices: 19254370--19254602 Score: 342
Period size: 48 Copynumber: 4.8 Consensus size: 48
19254360 TGAACATGCA
* * *
19254370 TATATGTGATAAGGCCGAATGGCTAATGTGAAATACGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
19254418 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
19254466 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* * *
19254516 TAAATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
19254564 TATATGTGGTAAAGCCGAATGACTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
19254603 GGCGATGTGC
Statistics
Matches: 168, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.01
48 123 0.73
49 4 0.02
50 39 0.23
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:19254524 original size:98 final size:96
Alignment explanation
Indices: 19254371--19254598 Score: 332
Period size: 98 Copynumber: 2.4 Consensus size: 96
19254361 GAACATGCAT
* * * * *
19254371 ATATGTGATAAGGCCGAATGGCTAATGTGAAATACGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATATGAGATATGTAAATGTGGTAAAGCCAA
19254436 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
19254467 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTAAATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATACATATGAGATATGTAAATGTGGTAAAGC
* *
19254531 CAAATGGCTAGTGTGAAATATGTATGAGATATGT
63 CAAATGGCTAATGTGAAATATGTATGAGATATGC
* *
19254565 ATATGTGGTAAAGCCGAATGACTAGTGTGAAATA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
19254599 TGTAGGCGAT
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
95 1 0.01
96 28 0.24
97 4 0.03
98 84 0.71
99 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.29
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATATGAGATATGTAAATGTGGTAAAGCCAA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:19254857 original size:37 final size:37
Alignment explanation
Indices: 19254749--19254857 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
19254739 GGAAATATAT
*
19254749 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
19254786 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
19254823 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
19254858 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:19256970 original size:33 final size:34
Alignment explanation
Indices: 19256932--19257017 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 34
19256922 ATACTCTCTG
*
19256932 TTTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
** * *
19256966 -TTGGTGTGTTGGAGGGATTGGCTCGTGTGAGCA
1 TTTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
*
19256999 TTTGGTGTATTTGGTTGGA
1 TTTGGTGT-GTTGGTTGGA
19257018 ATGATAATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 28 0.67
34 7 0.17
35 7 0.17
ACGTcount: A:0.13, C:0.07, G:0.38, T:0.42
Consensus pattern (34 bp):
TTTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
Found at i:19259398 original size:43 final size:44
Alignment explanation
Indices: 19259240--19259411 Score: 160
Period size: 43 Copynumber: 4.0 Consensus size: 44
19259230 ACATAGGATC
* * * ** *
19259240 CGATATGTG-TTTTCGTGTAAGAACACATCTGGGACACTGGCAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTGGGACAGTGGCAT
* * *
19259283 CGACT-TATGATTTACGTGTAAGACCATGTCTGGGACA-TCTGAAT
1 CGA-TATTTGATTTACGTGTAAGACCATGTCTGGGACAGT-GGCAT
* *
19259327 C-ATAATTGATTT-CGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTGGGACAGTGGCAT
*
19259369 CGATATTTG-TTTACATGTAAGACCATGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTGGGACAG-TGGCAT
19259412 TGTACGAGCT
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
42 31 0.29
43 47 0.44
44 28 0.26
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
CGATATTTGATTTACGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:19264191 original size:24 final size:24
Alignment explanation
Indices: 19264106--19264414 Score: 231
Period size: 24 Copynumber: 12.9 Consensus size: 24
19264096 TCAAGCAAGG
* *
19264106 AAATTCGCACCCATAGTGCCATGT-
1 AAATCCGCACACATAGTGCCAT-TC
* *
19264130 TAACCCGCACACATAGTG-CATT-
1 AAATCCGCACACATAGTGCCATTC
* * * * *
19264152 AGTAATTCACATACATATTGACATTC
1 A--AATCCGCACACATAGTGCCATTC
19264178 AAATCCGCACACATAGTGCCATAT-
1 AAATCCGCACACATAGTGCCAT-TC
* *
19264202 AAATCCGCACATATAGTGCCATAC
1 AAATCCGCACACATAGTGCCATTC
*
19264226 AAATTCGCACACATAGTGCC-TT-
1 AAATCCGCACACATAGTGCCATTC
* * * * *
19264248 AGTAATTCACATACATATTGACATTC
1 A--AATCCGCACACATAGTGCCATTC
19264274 AAATCCGCACACATAGTGCCATAT-
1 AAATCCGCACACATAGTGCCAT-TC
* *
19264298 AAATCCGCACATATAGTGCCATAC
1 AAATCCGCACACATAGTGCCATTC
*
19264322 AAATTCGCACACATAGTGCC-TT-
1 AAATCCGCACACATAGTGCCATTC
* * * * * *
19264344 AGTAATTCACATACATATTGACGTTC
1 A--AATCCGCACACATAGTGCCATTC
19264370 AAATCCGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
*
19264394 AAATTCGCACACATAGTGCCA
1 AAATCCGCACACATAGTGCCA
19264415 AAGTCATTTC
Statistics
Matches: 224, Mismatches: 45, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
22 3 0.01
23 5 0.02
24 203 0.91
25 10 0.04
26 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATTC
Found at i:19264251 original size:96 final size:96
Alignment explanation
Indices: 19264135--19264414 Score: 508
Period size: 96 Copynumber: 2.9 Consensus size: 96
19264125 CATGTTAACC
*
19264135 CGCACACATAGTGCATTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
19264200 ATAAATCCGCACATATAGTGCCATACAAATT
66 ATAAATCCGCACATATAGTGCCATACAAATT
19264231 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
19264296 ATAAATCCGCACATATAGTGCCATACAAATT
66 ATAAATCCGCACATATAGTGCCATACAAATT
*
19264327 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACGTTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
* *
19264392 -TCAAATTCGCACACATAGTGCCA
66 AT-AAATCCGCACATATAGTGCCA
19264415 AAGTCATTTC
Statistics
Matches: 179, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
95 1 0.01
96 178 0.99
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (96 bp):
CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
ATAAATCCGCACATATAGTGCCATACAAATT
Found at i:19264389 original size:48 final size:48
Alignment explanation
Indices: 19264134--19264389 Score: 304
Period size: 48 Copynumber: 5.3 Consensus size: 48
19264124 CCATGTTAAC
*
19264134 CCGCACACATAGTGCATTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
* * ** * *
19264182 CCGCACACATAGTGCCATA-TAAATC-CGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATAT--TGACATTCAAAT
*
19264230 TCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
* * ** * *
19264278 CCGCACACATAGTGCCATA-TAAATC-CGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATAT--TGACATTCAAAT
* *
19264326 TCGCACACATAGTGCCTTAGTAATTCACATACATATTGACGTTCAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
19264374 CCGCACACATAGTGCC
1 CCGCACACATAGTGCC
19264390 ATTCAAATTC
Statistics
Matches: 170, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
46 14 0.08
47 10 0.06
48 122 0.72
49 10 0.06
50 14 0.08
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.26
Consensus pattern (48 bp):
CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
Found at i:19272114 original size:48 final size:48
Alignment explanation
Indices: 19272060--19272268 Score: 233
Period size: 48 Copynumber: 4.4 Consensus size: 48
19272050 CCATGTTAAC
* *
19272060 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATAGTAATTCACACACATATTGACATTCAAAT
* * * *
19272108 CCGCACACATAGTGCCATA-TAAATC-CGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATAGTAATTCACACACATAT--TGACATTCAAAT
* * *
19272156 TCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATAGTAATTCACACACATATTGACATTCAAAT
** ** * *
19272204 CCGCACACATAGTGCCATACAAATTCGTACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATAGTAATTCACACACATATTGACATTCAAAT
**
19272252 TAGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
19272269 AAGTCATTTC
Statistics
Matches: 133, Mismatches: 24, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
46 7 0.05
47 5 0.04
48 109 0.82
49 5 0.04
50 7 0.05
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (48 bp):
CCGCACACATAGTGCCATAGTAATTCACACACATATTGACATTCAAAT
Found at i:19272177 original size:96 final size:96
Alignment explanation
Indices: 19272061--19272267 Score: 360
Period size: 96 Copynumber: 2.2 Consensus size: 96
19272051 CATGTTAACC
19272061 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
* *
19272126 ATAAATCCGCACATATAGTGCCATACAAATT
66 ACAAATCCGCACACATAGTGCCATACAAATT
19272157 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
* * *
19272222 ACAAATTCGTACACATAGTGCCATTCAAATT
66 ACAAATCCGCACACATAGTGCCATACAAATT
*
19272253 AGCACACATAGTGCC
1 CGCACACATAGTGCC
19272268 AAAGTCATTT
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 105 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.26
Consensus pattern (96 bp):
CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
ACAAATCCGCACACATAGTGCCATACAAATT
Found at i:19272268 original size:24 final size:24
Alignment explanation
Indices: 19272032--19272268 Score: 198
Period size: 24 Copynumber: 9.9 Consensus size: 24
19272022 TCAAGCAAGG
*
19272032 AAATTCGCACCCATAGTGCCATGT-
1 AAATTCGCACACATAGTGCCAT-TC
* **
19272056 TAACCCGCACACATAGTGCC-TT-
1 AAATTCGCACACATAGTGCCATTC
* * * *
19272078 AGTAATTCACATACATATTGACATTC
1 A--AATTCGCACACATAGTGCCATTC
*
19272104 AAATCCGCACACATAGTGCCATAT-
1 AAATTCGCACACATAGTGCCAT-TC
* * *
19272128 AAATCCGCACATATAGTGCCATAC
1 AAATTCGCACACATAGTGCCATTC
19272152 AAATTCGCACACATAGTGCC-TT-
1 AAATTCGCACACATAGTGCCATTC
* * * *
19272174 AGTAATTCACATACATATTGACATTC
1 A--AATTCGCACACATAGTGCCATTC
* *
19272200 AAATCCGCACACATAGTGCCATAC
1 AAATTCGCACACATAGTGCCATTC
*
19272224 AAATTCGTACACATAGTGCCATTC
1 AAATTCGCACACATAGTGCCATTC
*
19272248 AAATTAGCACACATAGTGCCA
1 AAATTCGCACACATAGTGCCA
19272269 AAGTCATTTC
Statistics
Matches: 167, Mismatches: 36, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.01
23 2 0.01
24 156 0.93
25 5 0.03
26 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (24 bp):
AAATTCGCACACATAGTGCCATTC
Found at i:19272716 original size:16 final size:16
Alignment explanation
Indices: 19272695--19272726 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19272685 ATTACTTCAA
19272695 ATAAACACACATATAT
1 ATAAACACACATATAT
*
19272711 ATAAACACATATATAT
1 ATAAACACACATATAT
19272727 TTTTGTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAACACACATATAT
Found at i:19283897 original size:35 final size:36
Alignment explanation
Indices: 19283841--19283967 Score: 109
Period size: 37 Copynumber: 3.5 Consensus size: 36
19283831 ACATTGATAT
19283841 TCCAACCAAAACACACTAGATGCTCATA-GAGCTAA
1 TCCAACCAAAACACACTAGATGCTCATACGAGCTAA
* * *
19283876 TCCATCCAAAACACA-TCAGATGCTCATACGAGCCAG
1 TCCAACCAAAACACACT-AGATGCTCATACGAGCTAA
* * * * *
19283912 TCCACCCGATAGCACACCA-ATGGCTC-TGAAGAGCTAA
1 TCCAACC-AAAACACACTAGAT-GCTCAT-ACGAGCTAA
19283949 TCCAACCGAAAACACACTA
1 TCCAACC-AAAACACACTA
19283968 AAACAAGGAG
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
34 1 0.01
35 25 0.35
36 14 0.19
37 32 0.44
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.16
Consensus pattern (36 bp):
TCCAACCAAAACACACTAGATGCTCATACGAGCTAA
Found at i:19288278 original size:26 final size:25
Alignment explanation
Indices: 19288226--19288281 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
19288216 TCATAATTAT
* *
19288226 ATATATTATATAATAAGACCCATGC
1 ATATATTACATAATAAGACCCACGC
* *
19288251 ATATATGTACATAGTAAGATCCACGC
1 ATATAT-TACATAATAAGACCCACGC
19288277 ATATA
1 ATATA
19288282 ATATCCACGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (25 bp):
ATATATTACATAATAAGACCCACGC
Found at i:19288289 original size:15 final size:15
Alignment explanation
Indices: 19288269--19288300 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
19288259 ACATAGTAAG
19288269 ATCCACGCATATAAT
1 ATCCACGCATATAAT
19288284 ATCCACGCATATAAT
1 ATCCACGCATATAAT
19288299 AT
1 AT
19288301 AATTTATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (15 bp):
ATCCACGCATATAAT
Found at i:19290283 original size:201 final size:201
Alignment explanation
Indices: 19289903--19290304 Score: 575
Period size: 201 Copynumber: 2.0 Consensus size: 201
19289893 ATAATGAATT
* * *
19289903 TCCAAAGTCGGAACAGGGAATCCAGAAACTGTTCTGGGCCTGTCTCACGAGAACCTGAATATCTC
1 TCCAAAGTCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGTCTCACAAGAACCCGAATATCTC
* * *
19289968 TTAACATACTGTCCATATGATTGTTTTGTTACTTTCCTATGAAAATAGATTCATCAAGGTTTGTT
66 TTAACATACTGTCCATATGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGAT
* * * * *
19290033 TACATAATTTATTCACTATTTAATTCTCTTCCTACTATTTTTAGTGA-TTTTCCAAATCTACATC
131 TACATAATTTATTCACTATTTAATTCTCCTCCTACAATTCTTAGTGATTTTTCC-AATCCACACC
19290097 ACTGCTG
195 ACTGCTG
19290104 TCCAAAGTCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGT-TCCACAAGAACCCGAATATCT
1 TCCAAAGTCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGTCT-CACAAGAACCCGAATATCT
* *
19290168 CTT-ACTGTACTGTTCC-TATGATTGTTTCGTTAC-TTCCATATGAAAGTAGATTCATCAAGGTT
65 CTTAAC-ATACTG-TCCATATGATTGTTTCGTTACTTTCC-TATGAAAATAGATTCATCAAGGTT
19290230 CGATTACATAATTTATTCACTATTTAATTC-CACTCCTACGAATTCTT-GTGATTTTTCCAATCC
127 CGATTACATAATTTATTCACTATTTAATTCTC-CTCCTAC-AATTCTTAGTGATTTTTCCAATCC
19290293 ACACCACTGCTG
190 ACACCACTGCTG
19290305 CTATCAGCTT
Statistics
Matches: 181, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
200 8 0.04
201 159 0.88
202 14 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (201 bp):
TCCAAAGTCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGTCTCACAAGAACCCGAATATCTC
TTAACATACTGTCCATATGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGAT
TACATAATTTATTCACTATTTAATTCTCCTCCTACAATTCTTAGTGATTTTTCCAATCCACACCA
CTGCTG
Found at i:19291171 original size:40 final size:39
Alignment explanation
Indices: 19291073--19291335 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
19291063 TCCTCGTTCA
* * * *
19291073 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
19291112 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
19291151 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
19291191 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
19291231 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
19291271 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
19291312 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19291336 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:19291295 original size:120 final size:119
Alignment explanation
Indices: 19291073--19291335 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
19291063 TCCTCGTTCA
* * *
19291073 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
19291138 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
19291191 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
19291256 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
19291312 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
19291336 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:19291344 original size:41 final size:41
Alignment explanation
Indices: 19291267--19291344 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
19291257 TTTGTATCTC
* * *
19291267 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
19291308 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
19291345 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:19299067 original size:39 final size:40
Alignment explanation
Indices: 19299022--19299193 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
19299012 GCTCCTCGTT
* * *
19299022 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
19299062 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
19299101 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
19299141 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
19299181 CAAATGCCTTCGG
1 CAAATGCCTTCGG
19299194 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:19299122 original size:40 final size:39
Alignment explanation
Indices: 19299024--19299246 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
19299014 TCCTCGTTCA
* * * *
19299024 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
19299063 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
19299102 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
19299142 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
19299182 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
19299223 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19299247 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:19299206 original size:80 final size:79
Alignment explanation
Indices: 19299022--19299246 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
19299012 GCTCCTCGTT
* * * * *
19299022 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
19299086 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
19299101 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
19299166 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
19299181 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
19299245 GA
63 GA
19299247 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:19299255 original size:41 final size:41
Alignment explanation
Indices: 19299178--19299255 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
19299168 TTTGTATCTC
* * *
19299178 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
19299219 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
19299256 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:19301881 original size:26 final size:26
Alignment explanation
Indices: 19301850--19301957 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
19301840 TGAAATTCCC
*
19301850 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
19301876 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
19301902 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
19301928 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19301954 ATCA
1 ATCA
19301958 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19303207 original size:19 final size:19
Alignment explanation
Indices: 19303183--19303219 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
19303173 AGCTTATATT
19303183 ATGTTCGAACTTAGCTAAG
1 ATGTTCGAACTTAGCTAAG
19303202 ATGTTCGAACTTAGCTAA
1 ATGTTCGAACTTAGCTAA
19303220 AAACCTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (19 bp):
ATGTTCGAACTTAGCTAAG
Found at i:19305355 original size:18 final size:18
Alignment explanation
Indices: 19305332--19305367 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19305322 ACTAAAGTAA
19305332 CCTTAATATATTTATATC
1 CCTTAATATATTTATATC
19305350 CCTTAATATATTTATATC
1 CCTTAATATATTTATATC
19305368 AAAACATTAT
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:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (18 bp):
CCTTAATATATTTATATC
Found at i:19305593 original size:13 final size:13
Alignment explanation
Indices: 19305575--19305599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19305565 GATATAAATT
19305575 CACACAAAATAAA
1 CACACAAAATAAA
19305588 CACACAAAATAA
1 CACACAAAATAA
19305600 TTTTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:19306913 original size:45 final size:45
Alignment explanation
Indices: 19306849--19306938 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
19306839 CTCCCTCTGA
19306849 TATACTTGTTCAATCAAAAAAATTCCCTTCACACACAATTACAGT
1 TATACTTGTTCAATCAAAAAAATTCCCTTCACACACAATTACAGT
*
19306894 TATACTTGTTCAATCAAAAAAATTCCCTTCATACACAATTACAGT
1 TATACTTGTTCAATCAAAAAAATTCCCTTCACACACAATTACAGT
19306939 CATATAACTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.32
Consensus pattern (45 bp):
TATACTTGTTCAATCAAAAAAATTCCCTTCACACACAATTACAGT
Found at i:19308519 original size:18 final size:19
Alignment explanation
Indices: 19308498--19308549 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
19308488 TAACAGTCAG
*
19308498 TTATTCAGTAACGA-TAAA
1 TTATTCAGTAACAATTAAA
*
19308516 TTATTCAGTAA-AATTCAA
1 TTATTCAGTAACAATTAAA
19308534 TTATTCAGTAACAATT
1 TTATTCAGTAACAATT
19308550 TTTTTTTACG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 1 0.03
18 25 0.83
19 4 0.13
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (19 bp):
TTATTCAGTAACAATTAAA
Found at i:19308605 original size:18 final size:19
Alignment explanation
Indices: 19308560--19308618 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 19
19308550 TTTTTTTACG
*
19308560 CAGT-AGCAGTCAGTTATA
1 CAGTAAGCAGTCAGTTATT
19308578 CAGTAA-CAGTCAGTTATT
1 CAGTAAGCAGTCAGTTATT
* *
19308596 CAG-AAGCAGTTAATTATT
1 CAGTAAGCAGTCAGTTATT
19308614 CAGTA
1 CAGTA
19308619 TCTTTAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 2 0.06
18 31 0.89
19 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (19 bp):
CAGTAAGCAGTCAGTTATT
Found at i:19309871 original size:4 final size:4
Alignment explanation
Indices: 19309862--19309886 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
19309852 AATTTTCCCT
19309862 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
19309887 CGTCTGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:19309968 original size:3 final size:3
Alignment explanation
Indices: 19309960--19310004 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
19309950 TGTTCATTAA
*
19309960 ATT ATT ATT ATT ATT ATT TTT ATT ATT ATT ATT A-T ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
19310005 TATACTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19310296 original size:3 final size:3
Alignment explanation
Indices: 19310288--19310348 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
19310278 TAAATATCTT
19310288 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19310336 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
19310349 CAACAACAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19311963 original size:46 final size:45
Alignment explanation
Indices: 19311814--19312080 Score: 262
Period size: 46 Copynumber: 5.7 Consensus size: 45
19311804 TCACTTGTGT
* * *
19311814 GAGCTAGTGCAAGACATGTCTAGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGA
19311860 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGA-GA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA
*
19311905 CGAGCGCTAGTGTAGGACATGTCTGGGACATGCATCGGCCACATTATGA
1 -GAGC-C-AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGA
19311954 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGA-GA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA
* *
19311999 CGAGCGCTAGTGTAGGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA
1 -GAGC-C-AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTATG-A
*
19312049 -AGCCAGTGTAAGACATGTCTGGGACATACATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
19312081 AGTTATGAAA
Statistics
Matches: 190, Mismatches: 9, Indels: 44
0.78 0.04 0.18
Matches are distributed among these distances:
45 12 0.06
46 70 0.37
47 59 0.31
48 39 0.21
49 8 0.04
50 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGA
Found at i:19311977 original size:94 final size:94
Alignment explanation
Indices: 19311816--19312075 Score: 436
Period size: 94 Copynumber: 2.8 Consensus size: 94
19311806 ACTTGTGTGA
* * *
19311816 GCTAGTGCAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAGGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
19311881 TGGGACATGGCATCGGCATTGAGACGAGC
66 TGGGACATGGCATCGGCATTGAGACGAGC
19311910 GCTAGTGTAGGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAGGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
19311975 TGGGACATGGCATCGGCATTGAGACGAGC
66 TGGGACATGGCATCGGCATTGAGACGAGC
* *
19312004 GCTAGTGTAGGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCCAGTGTAAGA-CATG
1 GCTAGTGTAGGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCCAGTGTAAGACCATG
19312066 TCTGGGACAT
64 TCTGGGACAT
19312076 ACATCAGTTA
Statistics
Matches: 159, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
93 14 0.09
94 143 0.90
95 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAGGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATTGAGACGAGC
Found at i:19324324 original size:42 final size:41
Alignment explanation
Indices: 19324216--19324361 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 41
19324206 TTTTGATATG
* * *
19324216 TGATTTCGTGTAAGACCACT-TCTGGGACGTTGGAATCG-ATT
1 TGATTTCATGTAAGACC-CTGTCTGGGAC-ATGGCATCGTATT
* *
19324257 TGAAATTTACATGTAAGGCCATGTCTGGGACATCGGCATCGTATT
1 TG--ATTT-CATGTAAGACCCTGTCTGGGACAT-GGCATCGTATT
* *
19324302 TGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATT
1 TGATTTCATGTAAGACCCTGTCTGGGACA-TGGCATCG-TATT
*
19324345 TGATTACATGTAAGACC
1 TGATTTCATGTAAGACC
19324362 ACATTTGGGA
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.02
42 26 0.30
43 30 0.35
44 23 0.27
45 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TGATTTCATGTAAGACCCTGTCTGGGACATGGCATCGTATT
Found at i:19324359 original size:43 final size:42
Alignment explanation
Indices: 19324224--19324362 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 42
19324214 TGTGATTTCG
* * *
19324224 TGTAAGACCACT-TCTGGGACGTTGGAATCG-ATTTGAAATTTACA
1 TGTAAGACCA-TGTCTGGGACATCGGCATCGTATTTG--A-TTACA
* * *
19324268 TGTAAGGCCATGTCTGGGACATCGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTACA
* *
19324310 TGTAAGACCCTGTCTGGGATAGT-GGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGATTACA
19324353 TGTAAGACCA
1 TGTAAGACCA
19324363 CATTTGGGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.35
43 22 0.28
44 24 0.30
45 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTACA
Found at i:19326160 original size:103 final size:101
Alignment explanation
Indices: 19325981--19326473 Score: 544
Period size: 101 Copynumber: 5.0 Consensus size: 101
19325971 CATTCAGACG
* * ** * *
19325981 TAAGACCATGGTTAGACCATGGAAGTGTATATATATATATTACCATAGCTGGGCTATGGCCTTCT
1 TAAGACCATGGTTGGACCATGGCA-TGT-TATATATATAAGACCATAGTTGGGCTATGGCATTCT
* *
19326046 GATGGTAAGACCATAATCGGGTTATGGCACTATGAGCA
64 GATGGTAAGACCATAACCGGGTTATGGCACTATGAACA
* * * * *
19326084 TAAGACCATGGTTGGACCATTGTATTGTATATATATATAATAGCATAGTTGGGCTATGGCATTTT
1 TAAGACCATGGTTGGACCATGGCA-TGT-TATATATATAAGACCATAGTTGGGCTATGGCATTCT
* * * *
19326149 GATGGTAAGACCATAACTGAGTTATGACATTATGAACA
64 GATGGTAAGACCATAACCGGGTTATGGCACTATGAACA
* * * * * * *
19326187 TAAGATCATTGTTAGACCATGGCAATG-TATATATACAAGACCATAGCTGGGCTATGGCGTTCTA
1 TAAGACCATGGTTGGACCATGGC-ATGTTATATATATAAGACCATAGTTGGGCTATGGCATTCTG
* *
19326251 ATGTTAACACCATAACCGGGTTATGGCACTATGAACA
65 ATGGTAAGACCATAACCGGGTTATGGCACTATGAACA
*
19326288 TAAGACCATGGTTGGACCATGGCA-GTGTATATATATAAGACCATAGTTGGGCTATGGCATTCTA
1 TAAGACCATGGTTGGACCATGGCATGT-TATATATATAAGACCATAGTTGGGCTATGGCATTCTG
* * * *
19326352 ATGGTAATACCATAACCGAGTTATGGCAGTATGAACG
65 ATGGTAAGACCATAACCGGGTTATGGCACTATGAACA
* *
19326389 TAAGACCA----TGG--CA--G--TG-TATATATATAAGACCATAGTTAGGCTATGGCATTCTGG
1 TAAGACCATGGTTGGACCATGGCATGTTATATATATAAGACCATAGTTGGGCTATGGCATTCTGA
19326443 TGGTAAGACCATAACCGGGTTATGGCACTAT
66 TGGTAAGACCATAACCGGGTTATGGCACTAT
19326474 AAACGTGACC
Statistics
Matches: 336, Mismatches: 50, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
90 63 0.19
92 1 0.00
93 1 0.00
95 2 0.01
97 3 0.01
99 1 0.00
100 1 0.00
101 155 0.46
103 108 0.32
104 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCATGTTATATATATAAGACCATAGTTGGGCTATGGCATTCTGA
TGGTAAGACCATAACCGGGTTATGGCACTATGAACA
Found at i:19326455 original size:90 final size:88
Alignment explanation
Indices: 19326302--19326486 Score: 289
Period size: 90 Copynumber: 2.1 Consensus size: 88
19326292 ACCATGGTTG
* *
19326302 GACCATGGCAGTGTATATATATAAGACCATAGTTGGGCTATGGCATTCTAATGGTAATACCATAA
1 GACCATGGCAGTGTATATATATAAGACCATAGTTAGGCTATGGCATTCTAATGGTAAGACCATAA
* *
19326367 CCGAGTTATGGCAGTATGAACGT
66 CCGAGTTATGGCACTATAAACGT
**
19326390 AAGACCATGGCAGTGTATATATATAAGACCATAGTTAGGCTATGGCATTCTGGTGGTAAGACCAT
1 --GACCATGGCAGTGTATATATATAAGACCATAGTTAGGCTATGGCATTCTAATGGTAAGACCAT
*
19326455 AACCGGGTTATGGCACTATAAACGT
64 AACCGAGTTATGGCACTATAAACGT
19326480 GACCATG
1 GACCATG
19326487 CCAGGGCCAT
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 7 0.08
90 81 0.92
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (88 bp):
GACCATGGCAGTGTATATATATAAGACCATAGTTAGGCTATGGCATTCTAATGGTAAGACCATAA
CCGAGTTATGGCACTATAAACGT
Found at i:19330142 original size:51 final size:51
Alignment explanation
Indices: 19330048--19330159 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
19330038 CTATCTTATA
* * * ** *
19330048 ACATGTAACACATCCATAATGAACTCGGACCTCTCAATGAGCTCGGATGCT
1 ACATGTATCACATCCATAATGAACTCGGACCACCCAACAAGCTCAGATGCT
* * * *
19330099 ACATGTATCGCATCCATTATGAACTTGGACCACCCAACAAGCTCAGATGTT
1 ACATGTATCACATCCATAATGAACTCGGACCACCCAACAAGCTCAGATGCT
*
19330150 ACATATATCA
1 ACATGTATCA
19330160 TGACCTTGCA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (51 bp):
ACATGTATCACATCCATAATGAACTCGGACCACCCAACAAGCTCAGATGCT
Found at i:19330220 original size:43 final size:43
Alignment explanation
Indices: 19330127--19330232 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 43
19330117 ATGAACTTGG
* * * * *
19330127 ACCACCCAACAAGCTCAGATGT-T-ACATATATCATGACCTTGC
1 ACCACTCAACAAGCTCGGAT-TCTCACATATATCACGAACTCGC
* *
19330169 ACCACTCAACAAGTTCGGATTCTCACATATATCACGAACTCGG
1 ACCACTCAACAAGCTCGGATTCTCACATATATCACGAACTCGC
* *
19330212 ACCGCTCAACGAGCTCGGATT
1 ACCACTCAACAAGCTCGGATT
19330233 TCTTAATTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.02
42 18 0.35
43 33 0.63
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (43 bp):
ACCACTCAACAAGCTCGGATTCTCACATATATCACGAACTCGC
Found at i:19332918 original size:6 final size:7
Alignment explanation
Indices: 19332900--19332942 Score: 51
Period size: 6 Copynumber: 6.9 Consensus size: 7
19332890 TGTAGATGAA
19332900 TCATTTC
1 TCATTTC
19332907 TCATTT-
1 TCATTTC
19332913 TCATTTC
1 TCATTTC
19332920 T-ATTTC
1 TCATTTC
19332926 T-ATTTC
1 TCATTTC
19332932 -CATTTC
1 TCATTTC
19332938 -CATTT
1 TCATTT
19332943 TGAGAAAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 27 0.79
7 7 0.21
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.60
Consensus pattern (7 bp):
TCATTTC
Found at i:19332935 original size:18 final size:19
Alignment explanation
Indices: 19332901--19332942 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
19332891 GTAGATGAAT
*
19332901 CATTTCTCATTTTCATTTC
1 CATTTCTCATTTCCATTTC
*
19332920 TATTTCT-ATTTCCATTTC
1 CATTTCTCATTTCCATTTC
19332938 CATTT
1 CATTT
19332943 TGAGAAAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.60
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:19335637 original size:49 final size:50
Alignment explanation
Indices: 19335579--19335724 Score: 188
Period size: 51 Copynumber: 2.9 Consensus size: 50
19335569 TAGCCAAAGC
* *
19335579 TATCTGGTACGCATAGTAGCCTGGACATAGTACTACACATGCGACCAA-T
1 TATCTGGTACGAATAGTAGCCTGCACATAGTACTACACATGCGACCAAGT
* * * * *
19335628 TATCTGGTAC-ATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACGA-ATAGTAGCCTGCACATAGTACTACACATGCGA-CCAAGT
*
19335679 TATCGGGTACGAATAGTAGCCTGCACATAGTACTACACATGCGACC
1 TATCTGGTACGAATAGTAGCCTGCACATAGTACTACACATGCGACC
19335725 TCACAAAAGG
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
49 37 0.46
50 4 0.05
51 38 0.47
52 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (50 bp):
TATCTGGTACGAATAGTAGCCTGCACATAGTACTACACATGCGACCAAGT
Found at i:19340077 original size:50 final size:49
Alignment explanation
Indices: 19339967--19340096 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 49
19339957 CTGGTACGCA
* * * ** * *
19339967 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
*
19340016 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
*
19340066 TAGTAGCCTGCACTTAGTACTACATACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
19340097 TCGAAGTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 30 0.42
50 41 0.58
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:19340150 original size:101 final size:99
Alignment explanation
Indices: 19339967--19340150 Score: 233
Period size: 101 Copynumber: 1.8 Consensus size: 99
19339957 CTGGTACGCA
* ** *
19339967 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACATA
*
19340032 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * * *
19340066 TAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACA
1 TAGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACA
* *
19340131 TGGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
19340151 CACAATAGGT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
99 27 0.39
100 3 0.04
101 40 0.57
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACATA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:19345219 original size:12 final size:13
Alignment explanation
Indices: 19345196--19345224 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19345186 TTTTATATTT
19345196 TTTTGAATTTTGA
1 TTTTGAATTTTGA
19345209 TTTTG-ATTTTGA
1 TTTTGAATTTTGA
19345221 TTTT
1 TTTT
19345225 TTATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (13 bp):
TTTTGAATTTTGA
Found at i:19351272 original size:29 final size:30
Alignment explanation
Indices: 19351198--19351272 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 30
19351188 CGTTTAATTA
*
19351198 ATTTTTT-AAAATTTTAAAATATTAAAAAT
1 ATTTTTTAAAAATTTTTAAATATTAAAAAT
* * * * *
19351227 ATTTTTTAATAGTTTTTAATTTTTAAAAGT
1 ATTTTTTAAAAATTTTTAAATATTAAAAAT
19351257 -TTTTTTAAAAATTTTT
1 ATTTTTTAAAAATTTTT
19351273 TTCGAATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (30 bp):
ATTTTTTAAAAATTTTTAAATATTAAAAAT
Found at i:19351567 original size:21 final size:21
Alignment explanation
Indices: 19351521--19351567 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
19351511 AATTCATAAT
19351521 TTAT-TTTTAAAAAATATGAA
1 TTATATTTTAAAAAATATGAA
** *
19351541 AAATATTTTAAAAAATATTAA
1 TTATATTTTAAAAAATATGAA
19351562 TTATAT
1 TTATAT
19351568 AAAACTTCAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TTATATTTTAAAAAATATGAA
Found at i:19361662 original size:20 final size:21
Alignment explanation
Indices: 19361629--19361668 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
19361619 AATGAAATAG
19361629 ATTTTAGCAAAATTA-AACAC
1 ATTTTAGCAAAATTATAACAC
19361649 ATTTT-GCAACAATTATAACA
1 ATTTTAGCAA-AATTATAACA
19361669 TAAATAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTTTAGCAAAATTATAACAC
Found at i:19363241 original size:48 final size:48
Alignment explanation
Indices: 19363189--19363281 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
19363179 CCAATGTACC
* *
19363189 TAATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATT
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATT
*
19363237 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAGTATTGTAATGT
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGT
19363282 TGTAATGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (48 bp):
TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATT
Found at i:19363785 original size:6 final size:6
Alignment explanation
Indices: 19363774--19363844 Score: 70
Period size: 6 Copynumber: 11.8 Consensus size: 6
19363764 GCGACCGTTT
* * * * * *
19363774 GGGCTC GGGCTC AGGCTC AGGCTC GGGCTC GGGCTC GAGCTT GAGCTT
1 GGGCTC GGGCTC GGGCTC GGGCTC GGGCTC GGGCTC GGGCTC GGGCTC
**
19363822 GGGCTC AAGCTC GGGCTC GGGCT
1 GGGCTC GGGCTC GGGCTC GGGCT
19363845 TTGGCTCTGG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.08, C:0.30, G:0.42, T:0.20
Consensus pattern (6 bp):
GGGCTC
Found at i:19363843 original size:18 final size:18
Alignment explanation
Indices: 19363776--19363844 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
19363766 GACCGTTTGG
* *
19363776 GCTCGGGCTCAGGCTCAG
1 GCTCGGGCTCGGGCTCAA
*
19363794 GCTCGGGCTCGGGCTCGA
1 GCTCGGGCTCGGGCTCAA
* * *
19363812 GCTTGAGCTTGGGCTCAA
1 GCTCGGGCTCGGGCTCAA
19363830 GCTCGGGCTCGGGCT
1 GCTCGGGCTCGGGCT
19363845 TTGGCTCTGG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.09, C:0.30, G:0.41, T:0.20
Consensus pattern (18 bp):
GCTCGGGCTCGGGCTCAA
Found at i:19364517 original size:14 final size:14
Alignment explanation
Indices: 19364498--19364531 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
19364488 AAATTACATG
19364498 TTAGAATAGTATCA
1 TTAGAATAGTATCA
19364512 TTAGAATAGTATCA
1 TTAGAATAGTATCA
19364526 TTAGAA
1 TTAGAA
19364532 AAAAAATGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:19366317 original size:20 final size:20
Alignment explanation
Indices: 19366292--19366366 Score: 53
Period size: 20 Copynumber: 3.5 Consensus size: 20
19366282 TATTTGGGCA
19366292 TCCGAGCTCGTTGAGTCGAG
1 TCCGAGCTCGTTGAGTCGAG
* *
19366312 TCCGAGTTCACTT-ATGGATGCGAATG
1 TCCGAGCTC-GTTGA--G-T-CG-A-G
*
19366338 TCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTCGAG
19366358 TCCGAGCTC
1 TCCGAGCTC
19366367 AGTTATGGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
20 19 0.45
21 3 0.07
22 2 0.05
23 2 0.05
24 3 0.07
25 3 0.07
26 10 0.24
ACGTcount: A:0.17, C:0.24, G:0.31, T:0.28
Consensus pattern (20 bp):
TCCGAGCTCGTTGAGTCGAG
Found at i:19366344 original size:46 final size:46
Alignment explanation
Indices: 19366292--19366420 Score: 188
Period size: 46 Copynumber: 2.8 Consensus size: 46
19366282 TATTTGGGCA
* * *
19366292 TCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
19366338 TCCGAGCTCGTTGAGTTGAGTCCGAGCTCAGTTATGGATGCAAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
19366384 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19366421 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 73 0.99
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:19368443 original size:16 final size:16
Alignment explanation
Indices: 19368424--19368455 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19368414 TATAACAAAA
19368424 ACATAACATAAACTAT
1 ACATAACATAAACTAT
19368440 ACATAACATAAACTAT
1 ACATAACATAAACTAT
19368456 CTCAACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (16 bp):
ACATAACATAAACTAT
Found at i:19370106 original size:23 final size:23
Alignment explanation
Indices: 19370080--19370128 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
19370070 TATTTTTTTC
* *
19370080 TTATTTTA-TTTTGTTTATTTATT
1 TTATTTAATTTTTG-TTATTAATT
19370103 TTATTTAATTTTTGTTATTAATT
1 TTATTTAATTTTTGTTATTAATT
19370126 TTA
1 TTA
19370129 AAAATTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (23 bp):
TTATTTAATTTTTGTTATTAATT
Found at i:19370205 original size:23 final size:26
Alignment explanation
Indices: 19370147--19370206 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
19370137 GAAATGTATA
*
19370147 TTTAAATTTTTTTATAATATATATTT
1 TTTAAATTATTTTATAATATATATTT
19370173 TTTAAA--ATTTTA-AATAT-TA-TT
1 TTTAAATTATTTTATAATATATATTT
19370194 TTTAAATTATTTT
1 TTTAAATTATTTT
19370207 TTAAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 8 0.26
22 2 0.06
23 10 0.32
24 5 0.16
26 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTAAATTATTTTATAATATATATTT
Found at i:19370210 original size:33 final size:36
Alignment explanation
Indices: 19370147--19370228 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 36
19370137 GAAATGTATA
19370147 TTTAAAT-TT-TTTTATAATATATATTTTTTAAAAT
1 TTTAAATATTATTTTATAATATATATTTTTTAAAAT
19370181 TTTAAATATTATTTT-TAA-AT-TATTTTTTAAAAT
1 TTTAAATATTATTTTATAATATATATTTTTTAAAAT
19370214 TTTAAATATATATTT
1 TTTAAATAT-TATTT
19370229 CTGAAATATG
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
33 22 0.49
34 14 0.31
35 5 0.11
36 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (36 bp):
TTTAAATATTATTTTATAATATATATTTTTTAAAAT
Found at i:19370251 original size:23 final size:22
Alignment explanation
Indices: 19370231--19370274 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
19370221 ATATATTTCT
19370231 GAAATATGATCTTTCAAATTTA
1 GAAATATGATCTTTCAAATTTA
*
19370253 GACATATGATCTTTCAAATTTA
1 GAAATATGATCTTTCAAATTTA
19370275 TTATTTTTTT
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:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (22 bp):
GAAATATGATCTTTCAAATTTA
Found at i:19370350 original size:13 final size:13
Alignment explanation
Indices: 19370317--19370346 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19370307 TTTAAACATT
19370317 TAAAATTTTTAAA
1 TAAAATTTTTAAA
19370330 TAAAATTTTT-AA
1 TAAAATTTTTAAA
19370342 TAAAA
1 TAAAA
19370347 ATTTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAAATTTTTAAA
Found at i:19370362 original size:10 final size:10
Alignment explanation
Indices: 19370331--19370386 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
19370321 ATTTTTAAAT
*
19370331 AAAATTTTTA
1 AAAATATTTA
*
19370341 ATAAAAATTTA
1 A-AAATATTTA
19370352 AAAATATTTA
1 AAAATATTTA
* *
19370362 AACATCTTTA
1 AAAATATTTA
*
19370372 AAAATAATTA
1 AAAATATTTA
19370382 AAAAT
1 AAAAT
19370387 GATAATTTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
10 29 0.78
11 8 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATATTTA
Found at i:19370478 original size:13 final size:13
Alignment explanation
Indices: 19370442--19370479 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
19370432 TTTAAACCTT
19370442 TTTAAAAATTTT-
1 TTTAAAAATTTTA
* *
19370454 TATAACAATTTTA
1 TTTAAAAATTTTA
19370467 TTTAAAAATTTTA
1 TTTAAAAATTTTA
19370480 ATTTTTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAAAAATTTTA
Found at i:19370514 original size:20 final size:21
Alignment explanation
Indices: 19370489--19370551 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
19370479 AATTTTTAAA
19370489 TAATATTAAAAAAAT-ATATT
1 TAATATTAAAAAAATAATATT
*
19370509 TAATATTTAAAAAATAATATT
1 TAATATTAAAAAAATAATATT
* *
19370530 TAAAATTTAGAAAAATTAATAT
1 TAATA-TTA-AAAAAATAATAT
19370552 CAAAAATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 14 0.39
21 9 0.25
22 2 0.06
23 11 0.31
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TAATATTAAAAAAATAATATT
Found at i:19370520 original size:21 final size:22
Alignment explanation
Indices: 19370489--19370551 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
19370479 AATTTTTAAA
19370489 TAATA-TTAAAAAAAT-ATATT
1 TAATATTTAAAAAAATAATATT
19370509 TAATATTT-AAAAAATAATATT
1 TAATATTTAAAAAAATAATATT
* *
19370530 TAAAATTTAGAAAAATTAATAT
1 TAATATTTA-AAAAAATAATAT
19370552 CAAAAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.32
21 14 0.38
23 11 0.30
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TAATATTTAAAAAAATAATATT
Found at i:19370557 original size:23 final size:21
Alignment explanation
Indices: 19370513--19370558 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
19370503 TATATTTAAT
**
19370513 ATTTAAAAAATAATATTTAAA
1 ATTTAAAAAATAATATCAAAA
19370534 ATTTAGAAAAATTAATATCAAAA
1 ATTTA-AAAAA-TAATATCAAAA
19370557 AT
1 AT
19370559 ATATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 5 0.24
23 11 0.52
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTTAAAAAATAATATCAAAA
Found at i:19370568 original size:36 final size:36
Alignment explanation
Indices: 19370518--19370617 Score: 132
Period size: 36 Copynumber: 2.8 Consensus size: 36
19370508 TTAATATTTA
*
19370518 AAAAATA-ATATTTAAAATTTAGAAAAATTAATATC
1 AAAAATATATATTTAAAATTTAAAAAAATTAATATC
* * *
19370553 AAAAATATATTTTTAAAATTTATAAGAAA-TAATTTC
1 AAAAATATATATTTAAAATTTA-AAAAAATTAATATC
*
19370589 AAATATATATATTTAAAATTTAAAAAAAT
1 AAAAATATATATTTAAAATTTAAAAAAAT
19370618 AATTTAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
35 12 0.22
36 39 0.71
37 4 0.07
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (36 bp):
AAAAATATATATTTAAAATTTAAAAAAATTAATATC
Found at i:19370624 original size:20 final size:20
Alignment explanation
Indices: 19370599--19370638 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
19370589 AAATATATAT
19370599 ATTTAAAATTTAAAAAAATA
1 ATTTAAAATTTAAAAAAATA
*
19370619 ATTTAAAATTTTAAAAAATA
1 ATTTAAAATTTAAAAAAATA
19370639 TATATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTAAAATTTAAAAAAATA
Found at i:19370734 original size:19 final size:20
Alignment explanation
Indices: 19370709--19370755 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
19370699 AAAATAAAAT
* * *
19370709 AAGAAAAAATATAAAACTTA
1 AAGAAAAAAGAAAAAAATTA
19370729 AA-AAAAAAGAAAAAAATTA
1 AAGAAAAAAGAAAAAAATTA
19370748 AAGAAAAA
1 AAGAAAAA
19370756 GACAAAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (20 bp):
AAGAAAAAAGAAAAAAATTA
Found at i:19370756 original size:19 final size:18
Alignment explanation
Indices: 19370729--19370783 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
19370719 ATAAAACTTA
19370729 AAAAAAAAGAAAAAAATT
1 AAAAAAAAGAAAAAAATT
*
19370747 AAAGAAAAAGACAAAAGA-T
1 AAA-AAAAAGA-AAAAAATT
19370766 ATAAAAAAAGTAAAAAAA
1 A-AAAAAAAG-AAAAAAA
19370784 ATTAGAAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 3 0.10
19 20 0.65
20 8 0.26
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAATT
Found at i:19374568 original size:20 final size:20
Alignment explanation
Indices: 19374543--19374585 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
19374533 TATTAGAATA
19374543 AGGGAATTATTTTCCCAGTT
1 AGGGAATTATTTTCCCAGTT
19374563 AGGGAATTATTTTCCCAGTT
1 AGGGAATTATTTTCCCAGTT
19374583 AGG
1 AGG
19374586 TTATGACTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (20 bp):
AGGGAATTATTTTCCCAGTT
Found at i:19376157 original size:32 final size:32
Alignment explanation
Indices: 19376121--19376184 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
19376111 AGAATGATTA
19376121 GCAATGCTAAAGAATCTGTGGAATTTACTTTC
1 GCAATGCTAAAGAATCTGTGGAATTTACTTTC
19376153 GCAATGCTAAAGAATCTGTGGAATTTACTTTC
1 GCAATGCTAAAGAATCTGTGGAATTTACTTTC
19376185 TTGATGACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (32 bp):
GCAATGCTAAAGAATCTGTGGAATTTACTTTC
Found at i:19384633 original size:6 final size:6
Alignment explanation
Indices: 19384624--19384648 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19384614 GAAAAGGAAA
19384624 AAAAAC AAAAAC AAAAAC AAAAAC A
1 AAAAAC AAAAAC AAAAAC AAAAAC A
19384649 GAAAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:19391759 original size:29 final size:29
Alignment explanation
Indices: 19391717--19391776 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
19391707 TCCAACATAT
19391717 ATAAGCCATCATGCAAGTTACCATTGCCA
1 ATAAGCCATCATGCAAGTTACCATTGCCA
19391746 ATAAGCCATCATGCAAGTTACCATTGCCA
1 ATAAGCCATCATGCAAGTTACCATTGCCA
19391775 AT
1 AT
19391777 CTTCCTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (29 bp):
ATAAGCCATCATGCAAGTTACCATTGCCA
Found at i:19392756 original size:29 final size:29
Alignment explanation
Indices: 19392723--19392782 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
19392713 CTTGAGAAGA
19392723 CTGGATTGCTAAAGCATTCTTCGGAGCAT
1 CTGGATTGCTAAAGCATTCTTCGGAGCAT
19392752 CTGGATTGCTAAAGCATTCTTCGGAGCAT
1 CTGGATTGCTAAAGCATTCTTCGGAGCAT
19392781 CT
1 CT
19392783 AACACGTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (29 bp):
CTGGATTGCTAAAGCATTCTTCGGAGCAT
Found at i:19404350 original size:46 final size:46
Alignment explanation
Indices: 19404215--19404377 Score: 174
Period size: 46 Copynumber: 3.5 Consensus size: 46
19404205 GTGCCGCTGC
*
19404215 CATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCACTCATCTCATA-CCGATG
* * * **
19404260 CATGTCCCAGACAT-GTTTTACACTAGC-TTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCACT-CATCTC-ATACCGATG
* *
19404306 CATATCTCAGACAT-GTCTTACACTAGCACTCATCTCAATACCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCACTCATCTC-ATACCGATG
19404352 CCATGTCCCAGACATGGTCTTACACT
1 -CATGTCCCAGACATGGTCTTACACT
19404378 GGCTCTAATA
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
44 9 0.09
45 15 0.16
46 47 0.49
47 14 0.15
48 10 0.11
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTAGCACTCATCTCATACCGATG
Found at i:19404402 original size:94 final size:94
Alignment explanation
Indices: 19404163--19404431 Score: 291
Period size: 94 Copynumber: 2.9 Consensus size: 94
19404153 AGACATCGAC
* * * *
19404163 GCCATGTCCCAGACATGGTCTTACACAAGTTCTAGTATATCTGTGCCGCTGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTAGTA-ATGTG-GCCGATG-CATGTCCCAGACA
19404228 TGGTCTTACACT-G-ACACATCTCATAGCCGAT
63 T-GTCTTACACTAGCACACATCTCATAGCCGAT
* * * * *
19404259 G-CATGTCCCAGACAT-GTTTTACACTAGCT-TACGT-CTCGAGGCCGATGCATATCTCAGACAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTA-GTAAT-GTGGCCGATGCATGTCCCAGACAT
*
19404320 GTCTTACACTAGCACTCATCTCAATA-CCGAT
64 GTCTTACACTAGCACACATCTC-ATAGCCGAT
* * *
19404351 GCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAATGTGGTCGATGCATGTCCCAGACATGT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTAGTAATGTGGCCGATGCATGTCCCAGACATGT
* *
19404416 CTTAAACTAGCTCACA
66 CTTACACTAGCACACA
19404432 ATAACCTACA
Statistics
Matches: 143, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
90 10 0.07
91 13 0.09
92 21 0.15
93 20 0.14
94 61 0.43
95 17 0.12
96 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (94 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTAGTAATGTGGCCGATGCATGTCCCAGACATGT
CTTACACTAGCACACATCTCATAGCCGAT
Found at i:19407337 original size:68 final size:67
Alignment explanation
Indices: 19407265--19407414 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
19407255 CATCATGTGT
* * * *
19407265 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
19407327 ATGTAG
62 ATGTAG
** * *
19407333 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
19407398 AG
66 AG
19407400 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
19407415 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:19407370 original size:64 final size:64
Alignment explanation
Indices: 19407289--19407472 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
19407279 AGACATTATG
* *
19407289 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
19407353 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
19407418 AA
63 AA
* * * *
19407420 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
19407473 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:19408597 original size:27 final size:27
Alignment explanation
Indices: 19408559--19408611 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
19408549 TCATGACATG
19408559 TATATATATATATGACTAGTCTCAATA
1 TATATATATATATGACTAGTCTCAATA
19408586 TATATATATATATGACTAGTCTCAAT
1 TATATATATATATGACTAGTCTCAAT
19408612 GTAATGCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.42
Consensus pattern (27 bp):
TATATATATATATGACTAGTCTCAATA
Found at i:19412562 original size:39 final size:39
Alignment explanation
Indices: 19412494--19412612 Score: 175
Period size: 39 Copynumber: 3.0 Consensus size: 39
19412484 TAGTTCATTT
* * *
19412494 ACATGGTAATCACATTCACTTTTAAGCATATATCACATTAC
1 ACAT-GTAATCACA-TAACATTTAAGCATATATCACAATAC
*
19412535 ACATGTAATCACATAACATTTACGCATATATCACAATAC
1 ACATGTAATCACATAACATTTAAGCATATATCACAATAC
*
19412574 ACATATAATCACATAACATTTAAGCATATATCACAATAC
1 ACATGTAATCACATAACATTTAAGCATATATCACAATAC
19412613 TCAAAAACAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
39 59 0.82
40 9 0.12
41 4 0.06
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (39 bp):
ACATGTAATCACATAACATTTAAGCATATATCACAATAC
Found at i:19412567 original size:22 final size:22
Alignment explanation
Indices: 19412542--19412608 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
19412532 TACACATGTA
19412542 ATCACATAACATTTACGCATAT
1 ATCACATAACATTTACGCATAT
*
19412564 ATCAC---A-A--TACACATAT
1 ATCACATAACATTTACGCATAT
*
19412580 AATCACATAACATTTAAGCATAT
1 -ATCACATAACATTTACGCATAT
19412603 ATCACA
1 ATCACA
19412609 ATACTCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
16 8 0.23
17 5 0.14
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 11 0.31
23 7 0.20
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.28
Consensus pattern (22 bp):
ATCACATAACATTTACGCATAT
Found at i:19414807 original size:16 final size:18
Alignment explanation
Indices: 19414783--19414828 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 18
19414773 ATTAAGATAT
*
19414783 TTTTTTTTCTTTTTC-C-
1 TTTTCTTTCTTTTTCTCA
19414799 TTTTCTTTCTTTTTCTCA
1 TTTTCTTTCTTTTTCTCA
*
19414817 TTCTCTTTCTTT
1 TTTTCTTTCTTT
19414829 CCTTTCTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 14 0.54
17 1 0.04
18 11 0.42
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCTTTCTTTTTCTCA
Found at i:19417919 original size:24 final size:25
Alignment explanation
Indices: 19417887--19417939 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
19417877 AAAAAGAAAG
19417887 AGAAAAATTAAAAGGAAATGAG-AA
1 AGAAAAATTAAAAGGAAATGAGTAA
* * *
19417911 AGAAAAATTGAAGGGGAATGAGTAA
1 AGAAAAATTAAAAGGAAATGAGTAA
19417936 AGAA
1 AGAA
19417940 GTTCTTCATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.60, C:0.00, G:0.26, T:0.13
Consensus pattern (25 bp):
AGAAAAATTAAAAGGAAATGAGTAA
Found at i:19420176 original size:32 final size:33
Alignment explanation
Indices: 19420130--19420209 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 33
19420120 GCACTAAATT
* * *
19420130 GGTTGGTGTATATATAATATAA-ATATGTGTGCAT
1 GGTTTGTGT-TATAT-ATATAATATATATGTGCAA
19420164 GGTTT-TGTTATATATATAATATATATGTGCAA
1 GGTTTGTGTTATATATATAATATATATGTGCAA
*
19420196 GTTTTGTGTTATAT
1 GGTTTGTGTTATAT
19420210 GTAATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 6 0.15
32 19 0.47
33 11 0.28
34 4 0.10
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (33 bp):
GGTTTGTGTTATATATATAATATATATGTGCAA
Found at i:19420200 original size:31 final size:33
Alignment explanation
Indices: 19420140--19420220 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 33
19420130 GGTTGGTGTA
* *
19420140 TATATAATATAA-ATATGTGTGCATGGTTTTGT-
1 TATAT-ATATAATATATATGTGCATAGTTTTGTG
19420172 TATATATATAATATATATGTGCA-AGTTTTGTG
1 TATATATATAATATATATGTGCATAGTTTTGTG
*
19420204 T-TATATGTAATATATAT
1 TATATATATAATATATAT
19420221 AGGCGTGGCG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
31 28 0.64
32 16 0.36
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (33 bp):
TATATATATAATATATATGTGCATAGTTTTGTG
Found at i:19420217 original size:36 final size:34
Alignment explanation
Indices: 19420138--19420221 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 34
19420128 TTGGTTGGTG
* *
19420138 TATATATAATATAA-ATATGTGTGCATGGTTTTGT
1 TATAT-TAATATAATATATATGTGCAAGGTTTTGT
*
19420172 TATA-T-ATATAATATATATGTGCAAGTTTTGTGT
1 TATATTAATATAATATATATGTGCAAGGTTT-TGT
19420205 TATATGTAATAT-ATATA
1 TATAT-TAATATAATATA
19420222 GGCGTGGCGT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
31 6 0.14
32 15 0.36
33 7 0.17
34 4 0.10
35 6 0.14
36 4 0.10
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (34 bp):
TATATTAATATAATATATATGTGCAAGGTTTTGT
Found at i:19420369 original size:18 final size:19
Alignment explanation
Indices: 19420346--19420393 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
19420336 TATTATATTA
*
19420346 TATTATATGTG-TGGGTCT
1 TATTATATATGATGGGTCT
*
19420364 TATTATATATGCATTGGTCT
1 TATTATATATG-ATGGGTCT
19420384 TATTATATAT
1 TATTATATAT
19420394 ATTATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
20 16 0.62
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.52
Consensus pattern (19 bp):
TATTATATATGATGGGTCT
Found at i:19420817 original size:36 final size:35
Alignment explanation
Indices: 19420742--19420819 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 35
19420732 GTGAACCATG
* * * * *
19420742 TTAACTTGGTGATTATATTATTACGGCGAACTGTG
1 TTAATTTGGTGATTATATTAATACGACGAAATGTA
* *
19420777 TTAATTTGGTGATCTGTATTAATATGACGAAATGTA
1 TTAATTTGGTGAT-TATATTAATACGACGAAATGTA
19420813 TTAATTT
1 TTAATTT
19420820 CCCAAACTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
35 12 0.34
36 23 0.66
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (35 bp):
TTAATTTGGTGATTATATTAATACGACGAAATGTA
Found at i:19421524 original size:51 final size:51
Alignment explanation
Indices: 19421455--19421563 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
19421445 TATGATGGAG
* * *
19421455 TATGAAATGTTATCTTGCATAAACTATTATTCGGTATGAACTGATATTTCA
1 TATGAATTATTATCTTGCATAAACTATCATTCGGTATGAACTGATATTTCA
* * * * *
19421506 TATGAATTATTATTTTGCATGAGCTATCATTTGGTATGAACTGTTATTTCA
1 TATGAATTATTATCTTGCATAAACTATCATTCGGTATGAACTGATATTTCA
19421557 TATGAAT
1 TATGAAT
19421564 AGATGTTTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (51 bp):
TATGAATTATTATCTTGCATAAACTATCATTCGGTATGAACTGATATTTCA
Found at i:19421554 original size:17 final size:17
Alignment explanation
Indices: 19421476--19421554 Score: 61
Period size: 17 Copynumber: 4.6 Consensus size: 17
19421466 ATCTTGCATA
*
19421476 AACTATTATTCGGTATG
1 AACTATTATTTGGTATG
**
19421493 AACTGA-TATTTCATATG
1 AACT-ATTATTTGGTATG
* * *
19421510 AATTATTATTTTGCATG
1 AACTATTATTTGGTATG
* *
19421527 AGCTATCATTTGGTATG
1 AACTATTATTTGGTATG
*
19421544 AACTGTTATTT
1 AACTATTATTT
19421555 CATATGAATA
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
16 1 0.02
17 43 0.96
18 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (17 bp):
AACTATTATTTGGTATG
Found at i:19423194 original size:97 final size:99
Alignment explanation
Indices: 19423020--19423227 Score: 339
Period size: 97 Copynumber: 2.1 Consensus size: 99
19423010 ATGCGTCCAT
* *
19423020 GCATTTGCATCATTCAAGAACATATGCATGTGGTTATTTTAGTCATGAAACTATAATCATATTTT
1 GCATTTGCATCATTCAAGAACATATGCATGTGGTTATTTTAGTCACGAAACAATAATCATATTTT
*
19423085 ATTGATATCATAAT-ATTTGCACTGGTTTATGAA
66 ATTGATATCATAATAATTTGCACTGCTTTATGAA
*
19423118 GCATTTGCATCATTCAAGAGCATATGCATGTGGTTA-TTTAGTCACGAAACAATAATCATATTTT
1 GCATTTGCATCATTCAAGAACATATGCATGTGGTTATTTTAGTCACGAAACAATAATCATATTTT
*
19423182 ATTGGTATCATAATAACATTTGCACTGCTTTATGAA
66 ATTGATATCATAAT-A-ATTTGCACTGCTTTATGAA
19423218 GCATTTGCAT
1 GCATTTGCAT
19423228 TATCTTGGAT
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
97 39 0.38
98 35 0.34
100 28 0.27
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (99 bp):
GCATTTGCATCATTCAAGAACATATGCATGTGGTTATTTTAGTCACGAAACAATAATCATATTTT
ATTGATATCATAATAATTTGCACTGCTTTATGAA
Found at i:19423720 original size:90 final size:90
Alignment explanation
Indices: 19423437--19423728 Score: 260
Period size: 90 Copynumber: 3.2 Consensus size: 90
19423427 AGAGATTCTT
* * * * * * *
19423437 GTTTCACCCAGGTTTAATTTTCAA-A-TTCTGGTTTTGACCAGGTCCATTTCTGAAATCCTGGTT
1 GTTTCACCCAGGTTT--GTTCCAAGAGTTCTAGTTTTGCCCAAGTCCATTTCTGAAGTTCTGGTT
19423500 TCGCCTAGTAAGTCCTTTCAAATTTTG
64 TCGCCTAGTAAGTCCTTTCAAATTTTG
* * * * * *
19423527 GTTCCACCCAAGTTTGTT-CAGAGATTTATAGTTTCGCCCAAGTCCATTAT-TGAAGTTATGGTT
1 GTTTCACCCAGGTTTGTTCCA-AGAGTTCTAGTTTTGCCCAAGTCCATT-TCTGAAGTTCTGGTT
**
19423590 TCATCTAGTAAGTCCTTTCAAATTCTT-
64 TCGCCTAGTAAGTCCTTTCAAATT-TTG
* *
19423617 G-TTCGGCCCAGGTTTGTTCCAA-ACGTTCTAGTTTTGCCCAAGTCCATTGTCT-AAGTTCTAGT
1 GTTTC-ACCCAGGTTTGTTCCAAGA-GTTCTAGTTTTGCCCAAGTCCATT-TCTGAAGTTCTGGT
* *
19423679 TTTGCCCAGTAAGTCCTTTCAAATTTTG
63 TTCGCCTAGTAAGTCCTTTCAAATTTTG
*
19423707 GTTTCACCTAGGTTCT-TTCCAA
1 GTTTCACCCAGGTT-TGTTCCAA
19423729 TATTTCTGGT
Statistics
Matches: 162, Mismatches: 28, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
87 2 0.01
88 3 0.02
89 6 0.04
90 141 0.87
91 10 0.06
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (90 bp):
GTTTCACCCAGGTTTGTTCCAAGAGTTCTAGTTTTGCCCAAGTCCATTTCTGAAGTTCTGGTTTC
GCCTAGTAAGTCCTTTCAAATTTTG
Found at i:19423739 original size:30 final size:29
Alignment explanation
Indices: 19423694--19423779 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 29
19423684 CCAGTAAGTC
19423694 CTTT-CAAATTT-TGGTTTCACCTAGGTT
1 CTTTCCAAATTTCTGGTTTCACCTAGGTT
*
19423721 CTTTCCAATATTTCTGG-TTCTGCCTAGGTT
1 CTTTCCAA-ATTTCTGGTTTC-ACCTAGGTT
** * *
19423751 AATTCTAGAATTTCTGGTTTCATCTAGGT
1 CTTTCCA-AATTTCTGGTTTCACCTAGGT
19423780 CCACTGTCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
27 4 0.09
28 3 0.06
29 7 0.15
30 29 0.62
31 4 0.09
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (29 bp):
CTTTCCAAATTTCTGGTTTCACCTAGGTT
Found at i:19423874 original size:30 final size:30
Alignment explanation
Indices: 19423838--19423926 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
19423828 TTTTACTCAC
* *
19423838 TCTATTGTCGAAGTTCTAGTTTCACCCAGG
1 TCTATTGTCGAAGTTATGGTTTCACCCAGG
**
19423868 TCTATTGTCGAAGTTATGGTTTTGCCCAGG
1 TCTATTGTCGAAGTTATGGTTTCACCCAGG
* * *
19423898 TCCATTGTTGAAGTTTTGGTTTCACCCAG
1 TCTATTGTCGAAGTTATGGTTTCACCCAG
19423927 TAAGTCCTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (30 bp):
TCTATTGTCGAAGTTATGGTTTCACCCAGG
Found at i:19424413 original size:153 final size:155
Alignment explanation
Indices: 19424209--19424502 Score: 364
Period size: 152 Copynumber: 1.9 Consensus size: 155
19424199 ATTTCCAAAA
* * ***
19424209 ATGGGTTGAGCCTCGAGTTTTCATCAGGGTCCTTTTAGTTTTCTTTCATTTTATTAAAAGTTGGA
1 ATGGGTTGAGCCTCGAGTTTTCATCAAGGTCCTTTCAGTTTTCTTTCATTTTATT-AAAGTCAAA
* * * * *
19424274 TCCATTTTCGAAAATGGATCGAGCCTTGAGATTGTCATCGAGGTCATTTT-AG-TTTTCA-TTTT
65 TCCATTTTCGAAAACGGATCGAACCTCGAAATTGTCATCAAGGTCATTTTAAGTTTTTCATTTTT
19424336 ATCAAAAGTCACACTTGTTTTCTAAT
130 ATCAAAAGTCACACTTGTTTTCTAAT
* *
19424362 ATGGGTTGAGCCTCGGGATTGTT-ATTAAGGTCCTTTCAGTTTT-TTTCATTTTATTAAAGTCAA
1 ATGGGTTGAGCCTCGAG-TT-TTCATCAAGGTCCTTTCAGTTTTCTTTCATTTTATTAAAGTCAA
* * * *
19424425 ATTCATTTTCGAAAACGGGTTGAACCTCGAAATTGTCATCAAGGTCCTTTTAAGTTTTTTCATTT
64 ATCCATTTTCGAAAACGGATCGAACCTCGAAATTGTCATCAAGGTCATTTTAAG-TTTTTCATTT
*
19424490 TTATTAAAAGTCA
128 TTATCAAAAGTCA
19424503 AATCCATTTT
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
152 47 0.40
153 30 0.25
154 19 0.16
155 8 0.07
156 14 0.12
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (155 bp):
ATGGGTTGAGCCTCGAGTTTTCATCAAGGTCCTTTCAGTTTTCTTTCATTTTATTAAAGTCAAAT
CCATTTTCGAAAACGGATCGAACCTCGAAATTGTCATCAAGGTCATTTTAAGTTTTTCATTTTTA
TCAAAAGTCACACTTGTTTTCTAAT
Found at i:19424453 original size:77 final size:79
Alignment explanation
Indices: 19424188--19424540 Score: 305
Period size: 79 Copynumber: 4.6 Consensus size: 79
19424178 TCATTTTATC
* * * * * * *
19424188 AAGTGAAATCTATTTCCAAAAATGGGTTGAGCCTCGAG-TTTTCATCAGGGTCCTTTT-AGTTTT
1 AAGTCAAATCCATTTTCGAAAACGGGTTGAGCCTCGAGATTGTCATCAAGGTCCTTTTAAG-TTT
19424251 CTTTCA-TTTTATTAA
65 -TTTCATTTTTATTAA
*** * * * * * *
19424266 AAGTTGGATCCATTTTCGAAAATGGATCGAGCCTTGAGATTGTCATCGAGGTCATTTT-AG--TT
1 AAGTCAAATCCATTTTCGAAAACGGGTTGAGCCTCGAGATTGTCATCAAGGTCCTTTTAAGTTTT
*
19424328 TTCA-TTTTATCAA
66 TTCATTTTTATTAA
* ** * * * * * * *
19424341 AAGTCACA-CTTGTTTTCTAATATGGGTTGAGCCTCGGGATTGTTATTAAGGTCC-TTTCAGTTT
1 AAGTCAAATC-CATTTTCGAAAACGGGTTGAGCCTCGAGATTGTCATCAAGGTCCTTTTAAG-TT
19424404 TTTTCA-TTTTATT-A
64 TTTTCATTTTTATTAA
* * *
19424418 AAGTCAAATTCATTTTCGAAAACGGGTTGAACCTCGAAATTGTCATCAAGGTCCTTTTAAGTTTT
1 AAGTCAAATCCATTTTCGAAAACGGGTTGAGCCTCGAGATTGTCATCAAGGTCCTTTTAAGTTTT
19424483 TTCATTTTTATTAA
66 TTCATTTTTATTAA
* *
19424497 AAGTCAAATCCATTTTCGAAAATGGATTGAGCCTCGAGATTGTC
1 AAGTCAAATCCATTTTCGAAAACGGGTTGAGCCTCGAGATTGTC
19424541 GTCGAGTTTC
Statistics
Matches: 217, Mismatches: 48, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
74 4 0.02
75 52 0.24
76 1 0.00
77 50 0.23
78 53 0.24
79 57 0.26
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (79 bp):
AAGTCAAATCCATTTTCGAAAACGGGTTGAGCCTCGAGATTGTCATCAAGGTCCTTTTAAGTTTT
TTCATTTTTATTAA
Found at i:19424559 original size:78 final size:77
Alignment explanation
Indices: 19424167--19424908 Score: 436
Period size: 75 Copynumber: 9.8 Consensus size: 77
19424157 TTCATGGAGG
* * * * *
19424167 CTTTTAG-TTTTTCATTTTA-T-CAAGTGAAATCTATTTCCAAAAATGGGTTGAGCCTCGAG-TT
1 CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGATT
* *
19424228 TTCATCAGGGTC
66 GTCATCAAGGTC
*** * * *
19424240 CTTTTAGTTTTCTTTCATTTTATTAAAAGTTGGATCCATTTTCGAAAATGGATCGAGCCTTGAGA
1 CTTTTAG-TTT-TTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGA
*
19424305 TTGTCATCGAGGTC
64 TTGTCATCAAGGTC
* * * ** * * *
19424319 ATTTTAG--TTTTCATTTTATCAAAAGTCACA-CTTGTTTTCTAATATGGGTTGAGCCTCGGGAT
1 CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATC-CATTTTCGAAAATGGGTTGAGCCTCGAGAT
* *
19424381 TGTTATTAAGGTC
65 TGTCATCAAGGTC
* * * * *
19424394 CTTTCAGTTTTTTTCATTTTATT-AAAGTCAAATTCATTTTCGAAAACGGGTTGAACCTCGAAAT
1 CTTTTAG-TTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGAT
19424458 TGTCATCAAGGTC
65 TGTCATCAAGGTC
*
19424471 CTTTTAAGTTTTTTCATTTTTATTAAAAGTCAAATCCATTTTCGAAAATGGATTGAGCCTCGAGA
1 CTTTT-AGTTTTTTCA-TTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGA
* * * *
19424536 TTGTCGTCGAGTTT
64 TTGTCATCAAGGTC
* * * * * * * * *
19424550 CTTTTAG---TTTAATTTTGTCAAAATTTGAACAT--GTTTTCAAAAAATGGGTTGAACCTCGGG
1 CTTTTAGTTTTTTCATTTTATTAAAA-GTCAA-ATCCATTTTC-GAAAATGGGTTGAGCCTCGAG
* **
19424610 GTTG-CTATTGAGGTC
63 ATTGTC-ATCAAGGTC
* * * *
19424625 CTTTTAGTTTTTTTTTCATTTTATTAAAAGTCGAATTCATTTTCGAAAATGGGTCGAACCTCGAG
1 CTTTTAG---TTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAG
* * * *
19424690 ATTTTCGTCGAGATC
63 ATTGTCATCAAGGTC
* * * * * * **
19424705 CTTTTAG--TTTTAAATTTATCAAAAGTCGAATCTATTTTCAAAAATGGGTTGAG-CTTTAGGAT
1 CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGA-GAT
* * *
19424767 TGCCGTCGAGGTC
65 TGTCATCAAGGTC
* * * *** * ** *
19424780 CTTTCA-ATTTTTCATTTTGTTAAAAGTCAAATTTGTTTTC-AGAATGGGTCAAGCCTTGAGATT
1 CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGATT
* *
19424843 ATCAT-TA--T-
66 GTCATCAAGGTC
* * * * *
19424851 -TTTTAG-TTTTTCATTTTATCAAAAATCAAATCTATTTTCAAGAAATAGGTTGAGCCTC
1 CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGA-AAATGGGTTGAGCCTC
19424909 AATATTAACA
Statistics
Matches: 511, Mismatches: 124, Indels: 69
0.73 0.18 0.10
Matches are distributed among these distances:
70 32 0.06
71 1 0.00
72 12 0.02
73 7 0.01
74 20 0.04
75 168 0.33
76 42 0.08
77 54 0.11
78 52 0.10
79 69 0.14
80 35 0.07
81 19 0.04
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (77 bp):
CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGATT
GTCATCAAGGTC
Found at i:19424778 original size:155 final size:156
Alignment explanation
Indices: 19424436--19424783 Score: 386
Period size: 155 Copynumber: 2.2 Consensus size: 156
19424426 TTCATTTTCG
* * * *
19424436 AAAACGGGTTGAACCTC-GAAATTGTCATCAAGGTCCTTTTAAG---TTTTTTCATTTTTATTAA
1 AAAATGGGTTGAACCTCAG-GATTGCCATCGAGGTCCTTTT-AGTTTTTTTTTCATTTTTATTAA
* * * *
19424497 AAGTCAAATCCATTTTCGAAAATGGATTGAGCCTCGAGATTGTCGTCGAGTTTCTTTTAGTTTAA
64 AAGTCAAATCCATTTTCGAAAATGGATCGAACCTCGAGATTGTCGTCGAGATCCTTTTAGTTTAA
* * * * *
19424562 TTTTGTCAAAATTTGAACATGTTTTCAA
129 ATTTATCAAAAGTCGAACATATTTTCAA
* * * *
19424590 AAAATGGGTTGAACCTCGGGGTTGCTATTGAGGTCCTTTTAGTTTTTTTTTCA-TTTTATTAAAA
1 AAAATGGGTTGAACCTCAGGATTGCCATCGAGGTCCTTTTAGTTTTTTTTTCATTTTTATTAAAA
* * * *
19424654 GTCGAATTCATTTTCGAAAATGGGTCGAACCTCGAGATTTTCGTCGAGATCCTTTTAGTTTTAAA
66 GTCAAATCCATTTTCGAAAATGGATCGAACCTCGAGATTGTCGTCGAGATCCTTTTAG-TTTAAA
19424719 TTTATCAAAAGTCGAATC-TATTTTC-A
130 TTTATCAAAAGTCGAA-CATATTTTCAA
* * * *
19424745 AAAATGGGTTGAGCTTTAGGATTGCCGTCGAGGTCCTTT
1 AAAATGGGTTGAACCTCAGGATTGCCATCGAGGTCCTTT
19424784 CAATTTTTCA
Statistics
Matches: 160, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
153 2 0.01
154 31 0.19
155 94 0.59
156 32 0.20
157 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (156 bp):
AAAATGGGTTGAACCTCAGGATTGCCATCGAGGTCCTTTTAGTTTTTTTTTCATTTTTATTAAAA
GTCAAATCCATTTTCGAAAATGGATCGAACCTCGAGATTGTCGTCGAGATCCTTTTAGTTTAAAT
TTATCAAAAGTCGAACATATTTTCAA
Found at i:19425848 original size:14 final size:15
Alignment explanation
Indices: 19425824--19425852 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19425814 CTTTTTTTTT
19425824 GAAAGGCAGAAATTG
1 GAAAGGCAGAAATTG
19425839 GAAA-GCAGAAATTG
1 GAAAGGCAGAAATTG
19425853 AAAATACCTC
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:0.07, G:0.31, T:0.14
Consensus pattern (15 bp):
GAAAGGCAGAAATTG
Found at i:19426093 original size:74 final size:74
Alignment explanation
Indices: 19425839--19426130 Score: 342
Period size: 73 Copynumber: 4.0 Consensus size: 74
19425829 GCAGAAATTG
* * * *
19425839 GAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATAT-AAGT
1 GAAAACAGAAATTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAA-T
19425903 TGA--TTTTT
65 TGATTTTTTT
* * *
19425911 GAAAAACAGAAATTGAAATTACCTCAGCGCATCCTGAGGCTCAACTCACCTCTCGC-A-ATGAGT
1 G-AAAACAGAAATTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAT
19425974 TGATTTTTTT
65 TGATTTTTTT
* ** * **
19425984 GAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAAT
1 GAAA-ACAGAAATTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAT
19426049 TGATTTTTTT
65 TGATTTTTTT
* * * ** *
19426059 GAAAACAGAAATTGAAATTACCTCAACGCGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
*
19426124 GAATTTT
66 GATTTTT
19426131 GAAACATAAA
Statistics
Matches: 190, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
71 6 0.03
72 6 0.03
73 97 0.51
74 62 0.33
75 19 0.10
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (74 bp):
GAAAACAGAAATTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
GATTTTTTT
Found at i:19426116 original size:147 final size:147
Alignment explanation
Indices: 19425839--19426215 Score: 404
Period size: 146 Copynumber: 2.5 Consensus size: 147
19425829 GCAGAAATTG
* * *
19425839 GAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATAAGTT
1 GAAAGCAAAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
*
19425904 GATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGCATCCTGAGGCTCAACTCACCTCTCGC-A
66 GATTTTTGAAAAACAGAAATTGAAATTACCTCAACGCATCCTGAGGCTCAACTCACCTCTCGCAA
*
19425968 -ATGAGTTGATTTTTTT
131 TATGAGTTGAATTTTTT
* * **
19425984 GAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAA-
1 GAAAG-CAAAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATAT-AAG
* * **
19426048 TTGATTTTTTTG-AAAACAGAAATTGAAATTACCTCAACGCGTCTTGAGGCTCAACTCATTTCTC
64 TTGA--TTTTTGAAAAACAGAAATTGAAATTACCTCAACGCATCCTGAGGCTCAACTCACCTCTC
19426112 GCAATATGAGTTGAATTTTGAAACATAAATT
127 GCAATATGAGTTGAA-TTT------T---TT
** * * * *
19426143 AAGAAA-CAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGAG
1 --GAAAGCAAAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATAAG
19426207 TTGATTTTT
64 TTGATTTTT
19426216 TTTTNNNNNN
Statistics
Matches: 190, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
145 5 0.03
146 52 0.27
147 51 0.27
148 7 0.04
149 9 0.05
150 3 0.02
156 1 0.01
157 5 0.03
158 1 0.01
159 52 0.27
161 4 0.02
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (147 bp):
GAAAGCAAAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
GATTTTTGAAAAACAGAAATTGAAATTACCTCAACGCATCCTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGAATTTTTT
Found at i:19426551 original size:3 final size:3
Alignment explanation
Indices: 19426543--19426641 Score: 76
Period size: 3 Copynumber: 32.0 Consensus size: 3
19426533 NNNNNNNNNN
* * *
19426543 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA TTA AGT- ATA GT- ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT-A
* * * *
19426588 ATA ATA TGTA CATA ACA GTA ATA ATA ATA AGTA ACA ATA ATA ATA ATA
1 ATA ATA -ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
19426636 ATA ATA
1 ATA ATA
19426642 TAGAAATTCA
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
2 2 0.03
3 63 0.84
4 10 0.13
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:19426699 original size:16 final size:16
Alignment explanation
Indices: 19426666--19426698 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19426656 AACTAAACAT
*
19426666 AATATAATAATATTAA
1 AATAAAATAATATTAA
19426682 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
19426697 AA
1 AA
19426699 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:19426962 original size:20 final size:20
Alignment explanation
Indices: 19426937--19426987 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19426927 ATTTGGTGAA
19426937 GAGAGAAAGAAAAAAAAAGG
1 GAGAGAAAGAAAAAAAAAGG
* * * *
19426957 GAGAGAAGGAAGAGAGAAGG
1 GAGAGAAAGAAAAAAAAAGG
19426977 GAGAGAGAAGA
1 GAGAGA-AAGA
19426988 GGACTTCCGG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (20 bp):
GAGAGAAAGAAAAAAAAAGG
Found at i:19426973 original size:11 final size:11
Alignment explanation
Indices: 19426957--19426986 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19426947 AAAAAAAAGG
19426957 GAGAGAAGGAA
1 GAGAGAAGGAA
*
19426968 GAGAGAAGGGA
1 GAGAGAAGGAA
19426979 GAGAGAAG
1 GAGAGAAG
19426987 AGGACTTCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAGAGAAGGAA
Found at i:19434832 original size:72 final size:72
Alignment explanation
Indices: 19434695--19435151 Score: 558
Period size: 72 Copynumber: 6.2 Consensus size: 72
19434685 NNNNNTTTTT
* * * * **
19434695 TTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAA
1 TTTTGAAA-ACAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAA
*
19434759 TATGAGTTGAT
62 TATGAGTTGAA
* * *
19434770 TTTTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
19434835 AGTTGAA
66 AGTTGAA
* * * ** *
19434842 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATA
1 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
* *
19434907 AGTCGATTTTTT
66 AGTTGA-----A
* * *
19434919 TTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCT
1 TTTTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
19434984 GAGTTGAA
65 GAGTTGAA
*
19434992 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
19435057 AGTTGAA
66 AGTTGAA
* * * *
19435064 TTTTGAAAATAGAAA-TAAAAATTACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGTAATAT
1 TTTTGAAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
19435128 GAGTTGAA
65 GAGTTGAA
*
19435136 TTTTGAAAATAGAAAT
1 TTTTGAAAACAGAAAT
19435152 AAAAATATCA
Statistics
Matches: 334, Mismatches: 39, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
71 5 0.01
72 234 0.70
73 5 0.01
74 19 0.06
75 8 0.02
77 5 0.01
78 58 0.17
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGAA
Found at i:19434967 original size:150 final size:144
Alignment explanation
Indices: 19434695--19435151 Score: 621
Period size: 150 Copynumber: 3.1 Consensus size: 144
19434685 NNNNNTTTTT
* * *
19434695 TTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAA
1 TTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAA
* * * *
19434759 TATGAGTTGATTTTTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTA
62 TATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTT
19434824 CTCGCAATATGAGTTGAA
127 CTCGCAATATGAGTTGAA
*
19434842 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATA
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* *
19434907 AGTCGATTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCAT
66 AGTTGA-----TTTTTG-AAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCAT
*
19434972 TTCTCGCAATCTGAGTTGAA
125 TTCTCGCAATATGAGTTGAA
* * **
19434992 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
19435057 AGTTGAATTTTGAAAATAGAAA-TAAAAATTACCTCAACATGTCTTGAGGCTCAACTCATTTCTC
66 AGTTGATTTTTGAAAACAGAAATTGAAAA-TACCTCAACATGTCTTGAGGCTCAACTCATTTCTC
*
19435121 GTAATATGAGTTGAA
130 GCAATATGAGTTGAA
*
19435136 TTTTGAAAATAGAAAT
1 TTTTGAAAACAGAAAT
19435152 AAAAATATCA
Statistics
Matches: 278, Mismatches: 24, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
143 7 0.03
144 105 0.38
145 5 0.02
146 21 0.08
147 8 0.03
149 6 0.02
150 126 0.45
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (144 bp):
TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCG
CAATATGAGTTGAA
Found at i:19435088 original size:222 final size:222
Alignment explanation
Indices: 19434690--19435114 Score: 663
Period size: 222 Copynumber: 1.9 Consensus size: 222
19434680 NNNNNNNNNN
* *
19434690 TTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTC
1 TTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGT--ACCGAGGCTCAACTCACCTCTC
* * *
19434755 GCAATATGAGTTGATTTTTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTC
64 GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTC
** * *
19434820 ATTACTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
129 ATTACTCGCAATATGAGTTGAATTTTGAAAACAGAAATAAAAATTACCTCAACATGTCCTGAGGC
19434885 TCAACTCACCTCTCGCAATATAAGTCGAT
194 TCAACTCACCTCTCGCAATATAAGTCGAT
* **
19434914 TTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCG
1 TTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTAC-CGAGGCTCAACTCACCTCTCG
* *
19434978 CAATCTGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
65 CAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
* * *
19435043 TTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATAAAAATTACCTCAACATGTCTTGAGGCT
130 TTACTCGCAATATGAGTTGAATTTTGAAAACAGAAATAAAAATTACCTCAACATGTCCTGAGGCT
19435108 CAACTCA
195 CAACTCA
19435115 TTTCTCGTAA
Statistics
Matches: 183, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
221 1 0.01
222 143 0.78
224 39 0.21
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (222 bp):
TTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTACCGAGGCTCAACTCACCTCTCGC
AATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAT
TACTCGCAATATGAGTTGAATTTTGAAAACAGAAATAAAAATTACCTCAACATGTCCTGAGGCTC
AACTCACCTCTCGCAATATAAGTCGAT
Found at i:19451422 original size:17 final size:19
Alignment explanation
Indices: 19451381--19451422 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
19451371 CTAGTAATGT
19451381 TAAA-ATATATATAATATA
1 TAAATATATATATAATATA
*
19451399 TACATATATATATAA-A-A
1 TAAATATATATATAATATA
19451416 TAAATAT
1 TAAATAT
19451423 TGAAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATATATAATATA
Found at i:19451732 original size:3 final size:3
Alignment explanation
Indices: 19451708--19452009 Score: 130
Period size: 3 Copynumber: 98.7 Consensus size: 3
19451698 AAGTACCTAT
* * * *
19451708 TAA TAA TAT TATA TAA -ATA TAA TAA TAA TAT TTA TAAA TAA TAA TAG
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* * *
19451755 TAA T-G TAA TAA TAA TAA TAT TAA GT-A TAA T-A TAAA TAA TATG TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A
* * *
19451801 TAA CAT TAA TAA TAA TAA GTAA CAA TAA TAA TAA T-A TAGA -AA TTCAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA-A TAA -T-AA
* *
19451848 -AA -AA GTAA -ACA TAA T-A TAA TGA TAT TAA -AA TAA -AA T-A TACA
1 TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * *
19451889 CTAA TAT TTA TAAA TAA TAA TAA TAA TAA TAA TAA TAA CAT TAA GT-A
1 -TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * *
19451936 TAG T-A TAAA TAA TATG TACA TAA CAG TAA TAA TAA TAA GTAA TAA TAA
1 TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA
19451984 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
19452010 TAGAAATTCA
Statistics
Matches: 224, Mismatches: 42, Indels: 66
0.67 0.13 0.20
Matches are distributed among these distances:
2 23 0.10
3 164 0.73
4 33 0.15
5 4 0.02
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:19451963 original size:23 final size:22
Alignment explanation
Indices: 19451943--19452001 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
19451933 GTATAGTATA
*
19451943 AATAATATGTACATAACAGTAAT
1 AATAATAAGTA-ATAACAGTAAT
* *
19451966 AATAATAAGTAATAATAATAAT
1 AATAATAAGTAATAACAGTAAT
19451988 AATAATAA-TAATAA
1 AATAATAAGTAATAA
19452002 TAATAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 6 0.18
22 17 0.52
23 10 0.30
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (22 bp):
AATAATAAGTAATAACAGTAAT
Found at i:19452067 original size:16 final size:16
Alignment explanation
Indices: 19452034--19452066 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19452024 AACTAAACAT
*
19452034 AATATAATAATATTAA
1 AATAAAATAATATTAA
19452050 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
19452065 AA
1 AA
19452067 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:19456526 original size:25 final size:25
Alignment explanation
Indices: 19456498--19456612 Score: 124
Period size: 25 Copynumber: 4.6 Consensus size: 25
19456488 CTAATACTTG
*
19456498 GCTCTCATGAGTTTCTCGATTAATA
1 GCTCTCATGAGCTTCTCGATTAATA
* * *
19456523 GCTCTCTTGAGCTTCCCAATTAATA
1 GCTCTCATGAGCTTCTCGATTAATA
* * *
19456548 GCTCTCTTGAGCTTCTCGATAAATG
1 GCTCTCATGAGCTTCTCGATTAATA
* *
19456573 GCTCGCATGAGCTTCTCGA-TATACA
1 GCTCTCATGAGCTTCTCGATTA-ATA
*
19456598 GCTCACATGAGCTTC
1 GCTCTCATGAGCTTC
19456613 CCGTTATATG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
24 1 0.01
25 74 0.99
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCTCGATTAATA
Found at i:19456601 original size:50 final size:50
Alignment explanation
Indices: 19456498--19456627 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 50
19456488 CTAATACTTG
* * * * * *
19456498 GCTCTCATGAGTTTCTCGATTAATAGCTCTCTTGAGCTTCCCAATTAATA
1 GCTCTCATGAGCTTCTCGATAAATGGCTCGCATGAGCTTCCCAATTAACA
* * *
19456548 GCTCTCTTGAGCTTCTCGATAAATGGCTCGCATGAGCTTCTCGA-TATACA
1 GCTCTCATGAGCTTCTCGATAAATGGCTCGCATGAGCTTCCCAATTA-ACA
* * * *
19456598 GCTCACATGAGCTTCCCGTTATATGGCTCG
1 GCTCTCATGAGCTTCTCGATAAATGGCTCG
19456628 GAAGAGCTCC
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
49 2 0.03
50 63 0.97
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (50 bp):
GCTCTCATGAGCTTCTCGATAAATGGCTCGCATGAGCTTCCCAATTAACA
Found at i:19456626 original size:25 final size:25
Alignment explanation
Indices: 19456555--19456626 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
19456545 ATAGCTCTCT
* *
19456555 TGAGCTTCTCGATAAATGGCTCGCA
1 TGAGCTTCTCGATATATGGCTCACA
**
19456580 TGAGCTTCTCGATATACAGCTCACA
1 TGAGCTTCTCGATATATGGCTCACA
* *
19456605 TGAGCTTCCCGTTATATGGCTC
1 TGAGCTTCTCGATATATGGCTC
19456627 GGAAGAGCTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (25 bp):
TGAGCTTCTCGATATATGGCTCACA
Found at i:19457197 original size:47 final size:47
Alignment explanation
Indices: 19457033--19457173 Score: 282
Period size: 47 Copynumber: 3.0 Consensus size: 47
19457023 GATGCCTAAG
19457033 GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
1 GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
19457080 GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
1 GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
19457127 GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
1 GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
19457174 TACTTATTTT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.45
Consensus pattern (47 bp):
GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
Found at i:19458646 original size:22 final size:23
Alignment explanation
Indices: 19458598--19458647 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
19458588 GAATTGAAAG
*
19458598 TTTAAAACATTTTTATAAAATGA
1 TTTAAAACATTTTTAGAAAATGA
* *
19458621 -TTAAAATATTTTTAGACAA-GA
1 TTTAAAACATTTTTAGAAAATGA
19458642 TTTAAA
1 TTTAAA
19458648 GTTTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (23 bp):
TTTAAAACATTTTTAGAAAATGA
Found at i:19460253 original size:31 final size:31
Alignment explanation
Indices: 19460215--19460273 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
19460205 CAAAAACTAA
19460215 GGAACAATATCAAATTTTACTTAAGTCCTAG
1 GGAACAATATCAAATTTTACTTAAGTCCTAG
19460246 GGAACAATATCAAATTTTACTTAAGTCC
1 GGAACAATATCAAATTTTACTTAAGTCC
19460274 GATATCATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (31 bp):
GGAACAATATCAAATTTTACTTAAGTCCTAG
Done.