Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 149 of 438
Found at i:44758908 original size:2 final size:2
Alignment explanation
Indices: 44758901--44758935 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
44758891 ATGATAGAAC
44758901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44758936 AAAGAAAACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44768840 original size:15 final size:15
Alignment explanation
Indices: 44768801--44768859 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
44768791 TAAAGGTAAC
*
44768801 AAGAAACCCGA-ATA
1 AAGAAACCCAAGATA
* *
44768815 AAGAAATCCAAGATT
1 AAGAAACCCAAGATA
* *
44768830 GAGAAACCCAAAATA
1 AAGAAACCCAAGATA
44768845 AAGAAACCCAAGATA
1 AAGAAACCCAAGATA
44768860 CGATACTATG
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
14 9 0.26
15 26 0.74
ACGTcount: A:0.58, C:0.19, G:0.14, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAAGATA
Found at i:44768847 original size:30 final size:29
Alignment explanation
Indices: 44768802--44768858 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
44768792 AAAGGTAACA
* *
44768802 AGAAACCCGAATAAAGAAATCCAAGATTG
1 AGAAACCCAAATAAAGAAACCCAAGATTG
44768831 AGAAACCCAAAATAAAGAAACCCAAGAT
1 AGAAACCC-AAATAAAGAAACCCAAGAT
44768859 ACGATACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.56, C:0.19, G:0.14, T:0.11
Consensus pattern (29 bp):
AGAAACCCAAATAAAGAAACCCAAGATTG
Found at i:44771418 original size:93 final size:93
Alignment explanation
Indices: 44771287--44771456 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
44771277 CCCATAAGCA
* * * * *
44771287 AACTCGGACTCAACTCAATGAGCTTGGGCTTTCGCATCCATAAGTGAACTTGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTTGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAAC
44771352 GAGTTCAGATGCCTAGTTACATCTCACG
66 GAGTTCAGATGCCTAGTTACATCTCACG
44771380 AACTCGGACTCAACTCAACGAG-TTGGAACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTTGG-ACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
44771444 CGAGTTCGGATGC
65 CGAGTTCAGATGC
44771457 TCAAATATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTTGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCAGATGCCTAGTTACATCTCACG
Found at i:44771443 original size:46 final size:46
Alignment explanation
Indices: 44771278--44771449 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
44771268 TGTAACCCGC
* * * * *
44771278 CCATAAGCAAACTCGGACTCAACTCAATGAGCTTGG-GCTTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTGGAACGTTCACAT
* * * *
44771324 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT-GGA--AC--GTTCACAT
*
44771374 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTGGAACGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTGGAACGTTCACAT
*
44771417 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
44771450 CGGATGCTCA
Statistics
Matches: 101, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 4 0.04
46 55 0.54
47 24 0.24
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTGGAACGTTCACAT
Found at i:44774194 original size:16 final size:16
Alignment explanation
Indices: 44774168--44774218 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
44774158 TGAATATTTC
44774168 TTCTTTA-TTCTTTAAT
1 TTCTTTATTTC-TTAAT
*
44774184 TTC-TTATTTCTTATT
1 TTCTTTATTTCTTAAT
*
44774199 TTCTTTATTTTCTTATT
1 TTCTTTA-TTTCTTAAT
44774216 TTC
1 TTC
44774219 CTAAATCTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 10 0.32
16 9 0.29
17 12 0.39
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTTTATTTCTTAAT
Found at i:44774206 original size:9 final size:8
Alignment explanation
Indices: 44774183--44774218 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
44774173 TATTCTTTAA
44774183 TTTCTTA-
1 TTTCTTAT
44774190 TTTCTTAT
1 TTTCTTAT
44774198 TTTCTTTAT
1 TTTC-TTAT
44774207 TTTCTTAT
1 TTTCTTAT
44774215 TTTC
1 TTTC
44774219 CTAAATCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.26
8 12 0.44
9 8 0.30
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTCTTAT
Found at i:44777945 original size:49 final size:49
Alignment explanation
Indices: 44777876--44778136 Score: 391
Period size: 49 Copynumber: 5.4 Consensus size: 49
44777866 TTTACCACAT
*
44777876 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
44777925 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
44777974 ATATACATATACTTTCACATTCACCATATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
44778023 ATAT--ATATACTTTCACATTCATCACATCAGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * *
44778070 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
44778119 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
44778137 GAATCTTGAA
Statistics
Matches: 195, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 44 0.23
49 151 0.77
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:44778064 original size:96 final size:96
Alignment explanation
Indices: 44777848--44778128 Score: 391
Period size: 96 Copynumber: 2.9 Consensus size: 96
44777838 GTTACAACAT
* * * * *
44777848 TCACATTAGCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCGGCCATT
1 TCACATCAGCCATTAGGCCTTATCACATATACATAT--ACTTTCACATTCATCACATCGGCCATT
*
44777913 AGGCCTTATCACATATACATACACTTTCACATTCA
64 AGGCCTTATCACATAT--ATATACTTTCACATTCA
* * * *
44777948 CCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCACATTCACCATATCGGCCATTAG
1 TCACATCAGCCATTAGGCCTTATCACATATACATATACTTTCACATTCATCACATCGGCCATTAG
44778013 GCCTTATCACATATATATACTTTCACATTCA
66 GCCTTATCACATATATATACTTTCACATTCA
* * * *
44778044 TCACATCAGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATTAG
1 TCACATCAGCCATTAGGCCTTATCACATATACATATACTTTCACATTCATCACATCGGCCATTAG
*
44778109 GCCTCATCACATATATATAC
66 GCCTTATCACATATATATAC
44778129 ATTTTCACGA
Statistics
Matches: 162, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
96 92 0.57
98 41 0.25
100 29 0.18
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (96 bp):
TCACATCAGCCATTAGGCCTTATCACATATACATATACTTTCACATTCATCACATCGGCCATTAG
GCCTTATCACATATATATACTTTCACATTCA
Found at i:44782208 original size:40 final size:40
Alignment explanation
Indices: 44781973--44782195 Score: 378
Period size: 40 Copynumber: 5.6 Consensus size: 40
44781963 CCAGCATGAT
* * * *
44781973 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
44782013 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
44782053 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
44782093 TGCTCCTC-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
44782132 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
44782172 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
44782196 TAACCACAAG
Statistics
Matches: 176, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 45 0.26
40 131 0.74
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:44782208 original size:119 final size:119
Alignment explanation
Indices: 44781991--44782208 Score: 375
Period size: 119 Copynumber: 1.8 Consensus size: 119
44781981 GGGACCTAGC
*
44781991 CCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
* * *
44782056 TCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGAACTTAGT
66 TCCTCGGAACTTAGTCCGGATAAACCACAAGCACGAATGCTCCTCGAACTTAGT
44782110 CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
*
44782175 TCTTCGGAACTTAG-CCGGATATAACCACAAGCAC
66 TCCTCGGAACTTAGTCCGGATA-AACCACAAGCAC
44782209 AATTGCCTTC
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
118 7 0.08
119 86 0.92
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (119 bp):
CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
TCCTCGGAACTTAGTCCGGATAAACCACAAGCACGAATGCTCCTCGAACTTAGT
Found at i:44782220 original size:79 final size:80
Alignment explanation
Indices: 44781973--44782195 Score: 378
Period size: 79 Copynumber: 2.8 Consensus size: 80
44781963 CCAGCATGAT
* * * *
44781973 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
44782038 CATCACTAGCACGAA
66 CATCACTAGCACGAA
* *
44782053 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTC-GAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
44782117 CATCACTAGCACGAA
66 CATCACTAGCACGAA
44782132 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
44782196 TAACCACAAG
Statistics
Matches: 134, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 84 0.63
80 50 0.37
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAA
Found at i:44782238 original size:40 final size:40
Alignment explanation
Indices: 44782124--44782312 Score: 150
Period size: 40 Copynumber: 4.7 Consensus size: 40
44782114 ATACATCACT
* ** * * * *
44782124 AGCACGAATGCTCTTCGGAACTTAGTCCGGATA-CATCACT
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* **
44782164 AGCACGAATGCTCTTCGGAACTTAG-CCGGATATAACCACA
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* * * * *
44782204 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCAC-A
** *
44782245 A-CACAAATGCCTTCGGGTCTTAGCCCGGATATATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
* *
44782284 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
44782313 GTATCATTCA
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
Found at i:44782259 original size:119 final size:118
Alignment explanation
Indices: 44781990--44782309 Score: 335
Period size: 119 Copynumber: 2.7 Consensus size: 118
44781980 CGGGACCTAG
* * *
44781990 CCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
* * * * *
44782055 CTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGAACTTAG
66 CTCTTCGGAACTTAG-CCGGATAAACCACAAGCACGAATGCTCCTCGAACTTAA
* * *
44782109 TCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
* **
44782174 CTCTTCGGAACTTAGCCGGATATAACCACAAGCAC-AATTGC-CTTCGGGTCTTAA
66 CTCTTCGGAACTTAGCCGGATA-AACCACAAGCACGAA-TGCTCCTC-GAACTTAA
* * ** * * **
44782228 CCCGGGTATAACAACTCA-CACAAATGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAA
1 CCCGGATACAAC-ACT-AGCACAAATGCTCTTCGGAACTTAGTCCGGATACA-TCACTAGCACGA
*
44782291 ATGC-CTTCGGGACTTAGCC
63 ATGCTCTTCGGAACTTAGCC
44782310 CGGGTATCAT
Statistics
Matches: 173, Mismatches: 22, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
118 12 0.07
119 135 0.78
120 25 0.14
121 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (118 bp):
CCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
CTCTTCGGAACTTAGCCGGATAAACCACAAGCACGAATGCTCCTCGAACTTAA
Found at i:44784360 original size:49 final size:49
Alignment explanation
Indices: 44784291--44784502 Score: 329
Period size: 49 Copynumber: 4.4 Consensus size: 49
44784281 TTTACCACAT
*
44784291 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
44784340 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
44784389 ATAT--ATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * *
44784436 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
44784485 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
44784503 GAATCTTGAT
Statistics
Matches: 150, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 45 0.30
49 105 0.70
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:44784432 original size:96 final size:96
Alignment explanation
Indices: 44784293--44784494 Score: 350
Period size: 96 Copynumber: 2.1 Consensus size: 96
44784283 TACCACATAT
*
44784293 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
1 ATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
*
44784358 ATTCACCACATCGGCCATTAGGCCTTATCAC
66 ATTCACCACATCGGCCATTAGGCCTCATCAC
* *
44784389 ATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGC
1 ATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
* *
44784454 ATTCATCGCATCGGCCATTAGGCCTCATCAC
66 ATTCACCACATCGGCCATTAGGCCTCATCAC
44784485 ATATATATAC
1 ATATATATAC
44784495 ATTTTCACGA
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 100 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (96 bp):
ATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
ATTCACCACATCGGCCATTAGGCCTCATCAC
Found at i:44788407 original size:40 final size:38
Alignment explanation
Indices: 44788363--44788440 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 38
44788353 AGCTCAGATG
*
44788363 CATCACTAGCACGAATGCTCTTTGGAACTTAGTCCGGATA
1 CATCACTAGCACGAATGCTC-TTCGAACTTAG-CCGGATA
44788403 CATCACTAGCACGAATGCTCTTCGAACTTAGCCGGATA
1 CATCACTAGCACGAATGCTCTTCGAACTTAGCCGGATA
44788441 TAACCACAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 7 0.19
39 10 0.27
40 20 0.54
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (38 bp):
CATCACTAGCACGAATGCTCTTCGAACTTAGCCGGATA
Found at i:44788453 original size:39 final size:40
Alignment explanation
Indices: 44788370--44788453 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
44788360 ATGCATCACT
* * * *
44788370 AGCACGAATGCTCTTTGGAACTTAGTCCGGATACATCACT
1 AGCACGAATGCTCTTTCGAACTTAGTCCGGATAAACCACA
44788410 AGCACGAATGCTC-TTCGAACTTAG-CCGGATATAACCACA
1 AGCACGAATGCTCTTTCGAACTTAGTCCGGATA-AACCACA
44788449 AGCAC
1 AGCAC
44788454 AATTGCCTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 7 0.18
39 19 0.49
40 13 0.33
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (40 bp):
AGCACGAATGCTCTTTCGAACTTAGTCCGGATAAACCACA
Found at i:44788483 original size:40 final size:40
Alignment explanation
Indices: 44788429--44788557 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
44788419 GCTCTTCGAA
*
44788429 CTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGT
1 CTTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGT
* * * *
44788468 CTTAACCCGGGTATAACAACTCA-CACAAATGCCTTCGGGT
1 CTTAGCCCGGATATAACCAC-AAGCACAAATGCCTTCGGGT
** * * *
44788508 CTTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGA
1 CTTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGT
44788548 CTTAGCCCGG
1 CTTAGCCCGG
44788558 GTATCATTCA
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
39 5 0.07
40 68 0.92
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
CTTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGT
Found at i:44790470 original size:37 final size:36
Alignment explanation
Indices: 44790420--44790506 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
44790410 TACGAAGTCT
*
44790420 TACCCAGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
44790456 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
44790493 TCACCCGGAACATA
1 T-ACCCGG-ACATA
44790507 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:44790647 original size:49 final size:49
Alignment explanation
Indices: 44790577--44790789 Score: 347
Period size: 49 Copynumber: 4.4 Consensus size: 49
44790567 TACCACATAT
*
44790577 ATATATATACAGTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
44790626 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
44790675 ATATATATATACTTTCACATTCATCA-ATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
44790723 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
44790772 ATATATATACATTTTCAC
1 ATATATATACACTTTCAC
44790790 GAATCTTGAT
Statistics
Matches: 152, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
48 45 0.30
49 107 0.70
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:44790725 original size:97 final size:98
Alignment explanation
Indices: 44790575--44790789 Score: 360
Period size: 97 Copynumber: 2.2 Consensus size: 98
44790565 TTTACCACAT
44790575 ATATATATATACAGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTT
1 ATATATATATAC--TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTT
*
44790640 TCACATTCACCACATCGGCCATTAGGCCTTATCAC
64 TCACATTCACCACATCGGCCATTAGGCCTCATCAC
*
44790675 ATATATATATACTTTCACATTCATCA-ATCGGCCATTAGGCCTTATCACATATACATACATTTTC
1 ATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTC
*
44790739 ACATTCATCACATCGGCCATTAGGCCTCATCAC
66 ACATTCACCACATCGGCCATTAGGCCTCATCAC
* *
44790772 ATATATATACATTTTCAC
1 ATATATATATACTTTCAC
44790790 GAATCTTGAT
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
97 84 0.76
98 14 0.13
100 12 0.11
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (98 bp):
ATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTC
ACATTCACCACATCGGCCATTAGGCCTCATCAC
Found at i:44796999 original size:45 final size:44
Alignment explanation
Indices: 44796950--44797120 Score: 130
Period size: 45 Copynumber: 4.0 Consensus size: 44
44796940 TAGGATTTTG
** * *
44796950 ATATGTATTTCCGAGTAAGACCGTGTTTGGGACGTTGGCATCGAT
1 ATATGTATTTCCGAGTAAGACCACGTCTGGGACATTGGCATC-AT
* * *
44796995 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCAT
1 ATATGTATTTCCGAGTAAGACCACGTCTGGGACATTGGCATCAT
* *
44797039 ATATG----T--GAGTAAGACCACGTCTGGGACATCGGCATCGT
1 ATATGTATTTCCGAGTAAGACCACGTCTGGGACATTGGCATCAT
* *
44797077 AT-TAG-A-TT-CGAGTAAGACC-CTGTATGGGACAGTGGCATCGAT
1 ATAT-GTATTTCCGAGTAAGACCAC-GTCTGGGACATTGGCATC-AT
44797119 AT
1 AT
44797121 GAGATAGCAT
Statistics
Matches: 106, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.01
38 32 0.30
40 3 0.03
41 25 0.24
42 3 0.03
44 7 0.07
45 35 0.33
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (44 bp):
ATATGTATTTCCGAGTAAGACCACGTCTGGGACATTGGCATCAT
Found at i:44797060 original size:38 final size:40
Alignment explanation
Indices: 44797009--44797157 Score: 137
Period size: 38 Copynumber: 3.7 Consensus size: 40
44796999 GTGTTTTCGT
44797009 GTAAGACCACGTCTGGGACATTGGCATCATATATG-T-GA
1 GTAAGACCACGTCTGGGACATTGGCATCATATATGATAGA
* * *
44797047 GTAAGACCACGTCTGGGACATCGGCATCGTAT-TAGATTCGA
1 GTAAGACCACGTCTGGGACATTGGCATCATATAT-GA-TAGA
* *
44797088 GTAAGACC-CTGTATGGGACAGTGGCATCGATATGA-GATAGCA
1 GTAAGACCAC-GTCTGGGACATTGGCATC-ATAT-ATGATAG-A
* *
44797130 TGTAAGACCACGTTTGGGACGTTGGCAT
1 -GTAAGACCACGTCTGGGACATTGGCAT
44797158 TGTATGACAT
Statistics
Matches: 90, Mismatches: 10, Indels: 17
0.77 0.09 0.15
Matches are distributed among these distances:
37 1 0.01
38 31 0.34
40 2 0.02
41 27 0.30
42 6 0.07
43 22 0.24
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (40 bp):
GTAAGACCACGTCTGGGACATTGGCATCATATATGATAGA
Found at i:44803863 original size:54 final size:54
Alignment explanation
Indices: 44803804--44803915 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
44803794 AGCATGGCTG
* * *
44803804 CCAGAACAGATA-ATGTGACAAAGTCACTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAATATGTGACAAAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
44803858 CCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCCA
44803912 CCAG
1 CCAG
44803916 GACACTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.68
55 16 0.32
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:44803866 original size:27 final size:27
Alignment explanation
Indices: 44803804--44803915 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
44803794 AGCATGGCTG
* * *
44803804 CCAGAACAGATAA-TGTGACAAAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
44803830 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
44803858 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
44803885 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
44803912 CCAG
1 CCAG
44803916 GACACTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 50 0.68
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:44805329 original size:24 final size:24
Alignment explanation
Indices: 44805302--44805372 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
44805292 CTAGATTCCC
**
44805302 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
44805326 TCCCTTATCAACTCTTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
44805350 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
44805373 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.37, G:0.01, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:44806224 original size:22 final size:26
Alignment explanation
Indices: 44806192--44806243 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
44806182 TTTCAAGCCA
44806192 TATTTCTCACC-CA-TTTAAT-CATT
1 TATTTCTCACCACATTTTAATACATT
44806215 TATTT-TCACCAACATTTTAATACATT
1 TATTTCTCACC-ACATTTTAATACATT
44806241 TAT
1 TAT
44806244 GAATCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.20
23 5 0.20
24 2 0.08
25 6 0.24
26 7 0.28
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (26 bp):
TATTTCTCACCACATTTTAATACATT
Found at i:44807071 original size:48 final size:48
Alignment explanation
Indices: 44806964--44807253 Score: 228
Period size: 48 Copynumber: 5.9 Consensus size: 48
44806954 TTCACACAAT
** *
44806964 GATGCCATAGCCCAGCTATTATCTTACACGTATTCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACGGA-TCACATATCACATATC
*
44807013 AATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATC
* * * * * * *
44807061 GATGCTATAGCCCATCAATGGTCTTACACGAATCAAATATCTCA-CT-
1 GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATC
* * * * * * * *
44807107 GGTGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCAC--ACC
1 GATGCCATAGCCCAGCTATGGTCTTACAC-GGATCACATATCACATATC
* * * * *
44807154 GATGCCATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTCTCC
1 GATGCCATAGCCCAGCTATGGTCTTACACGG-ATCACAT-ATCACA--TAT-C
* * *
44807207 GATGCCATAGCCCAACTATGGTTTTATACGGAAATCACATATCACAT
1 GATGCCATAGCCCAGCTATGGTCTTACACGG--ATCACATATCACAT
44807254 GTTGCTATGG
Statistics
Matches: 196, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
46 23 0.12
47 45 0.23
48 58 0.30
49 28 0.14
51 1 0.01
53 34 0.17
54 7 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (48 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATC
Found at i:44807234 original size:53 final size:53
Alignment explanation
Indices: 44807109--44807253 Score: 153
Period size: 53 Copynumber: 2.8 Consensus size: 53
44807099 ATCTCACTGG
* * * *
44807109 TGCCATATCCCAGATATGGTCTTATACAG-TAGCATATATCACA-----CCGA
1 TGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCACATCTCTCCGA
*
44807156 TGCCATATCCCAGATATGGTCTTATACGG-AAGCACATAATCACATCTCTCCGA
1 TGCCATAGCCCAGATATGGTCTTATACGGAAAGCACAT-ATCACATCTCTCCGA
* *
44807209 TGCCATAGCCCA-ACTATGGTTTTATACGGAAATCACATATCACAT
1 TGCCATAGCCCAGA-TATGGTCTTATACGGAAAGCACATATCACAT
44807254 GTTGCTATGG
Statistics
Matches: 84, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
47 34 0.40
48 6 0.07
52 1 0.01
53 36 0.43
54 7 0.08
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (53 bp):
TGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCACATCTCTCCGA
Found at i:44819162 original size:23 final size:24
Alignment explanation
Indices: 44819136--44819180 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
44819126 AAACATATAT
* *
44819136 ATATTTAAGTGCATAAT-TTCTAG
1 ATATATAAGTACATAATATTCTAG
*
44819159 ATATATATGTACATAATATTCT
1 ATATATAAGTACATAATATTCT
44819181 TTGAACATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (24 bp):
ATATATAAGTACATAATATTCTAG
Found at i:44828263 original size:27 final size:28
Alignment explanation
Indices: 44828177--44828276 Score: 139
Period size: 27 Copynumber: 3.5 Consensus size: 28
44828167 CATGAGATTG
* * *
44828177 GCACTAAGTGTGCGGGTTTAAAATTTGTATA
1 GCACTAAGTGTGCGAGTTT--GA-TTATATA
44828208 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44828236 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44828263 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44828277 GACTCACTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
27 25 0.38
28 22 0.33
29 1 0.02
31 18 0.27
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44830003 original size:594 final size:594
Alignment explanation
Indices: 44828875--44830063 Score: 2333
Period size: 594 Copynumber: 2.0 Consensus size: 594
44828865 CATGTATAGG
44828875 CTATTATGTTTTGTTGAACTTTGGTATGTAAACTTTAGCCATGCGAAAATGGCATAAATATTAAG
1 CTATTATGTTTTGTTGAACTTTGGTATGTAAACTTTAGCCATGCGAAAATGGCATAAATATTAAG
44828940 TTGAATTTTGGTCCTATGATACTTCGTCATAAGTCTTAGTAAAAATTGGTTTGATAATGTTGTCA
66 TTGAATTTTGGTCCTATGATACTTCGTCATAAGTCTTAGTAAAAATTGGTTTGATAATGTTGTCA
*
44829005 TGGCTGATTATTCTCGGTGTTAAATTCATGATATGTATGATGAATTATTCGTTAGATTAAGGAAA
131 TGGCTGATTATTCTCGGTGTTAAATTCATGATATGTATGATGAATTATTAGTTAGATTAAGGAAA
44829070 AATCACAAAATAGGCATAGTTTGCTTTAGTAACAGATGCTGGTAACAGCAGTGATGTGAGATTGA
196 AATCACAAAATAGGCATAGTTTGCTTTAGTAACAGATGCTGGTAACAGCAGTGATGTGAGATTGA
44829135 AAAATCACTAAAAACAGTAGGAATGGAATTAAATAAGGAATAAATTATGTAATCGAAGCTTGATG
261 AAAATCACTAAAAACAGTAGGAATGGAATTAAATAAGGAATAAATTATGTAATCGAAGCTTGATG
44829200 AGTCTATCTTCATATGGAAGAAACAAAACGACCATATGAGCTGTATGTTAGGAGATAATTAAACT
326 AGTCTATCTTCATATGGAAGAAACAAAACGACCATATGAGCTGTATGTTAGGAGATAATTAAACT
44829265 CTTGTGAAACAGGGCCAGAGCGAATTCTGGATCCCCTGTTCCGACTTTAGAAATTCACCATAAAT
391 CTTGTGAAACAGGGCCAGAGCGAATTCTGGATCCCCTGTTCCGACTTTAGAAATTCACCATAAAT
44829330 TAATCAGAGACAATTAGAAGTCATGCCTTATATTTATAGATTCCATTTTGAGTCTAGTTTCATTA
456 TAATCAGAGACAATTAGAAGTCATGCCTTATATTTATAGATTCCATTTTGAGTCTAGTTTCATTA
44829395 GAAACAATCGGCATAAGCATTGAAGCTCTGTAAAGGGAAATATCTAAGTCGTAATGCATGAAGGT
521 GAAACAATCGGCATAAGCATTGAAGCTCTGTAAAGGGAAATATCTAAGTCGTAATGCATGAAGGT
44829460 CAGAGTAGT
586 CAGAGTAGT
44829469 CTATTATGTTTTGTTGAACTTTGGTATGTAAACTTTAGCCATGCGAAAATGGCATAAATATTAAG
1 CTATTATGTTTTGTTGAACTTTGGTATGTAAACTTTAGCCATGCGAAAATGGCATAAATATTAAG
44829534 TTGAATTTTGGTCCTATGATACTTCGTCATAAGTCTTAGTAAAAATTGGTTTGATAATGTTGTCA
66 TTGAATTTTGGTCCTATGATACTTCGTCATAAGTCTTAGTAAAAATTGGTTTGATAATGTTGTCA
44829599 TGGCTGATTATTCTCGGTGTTAAATTCATGATATGTATGATGAATTATTAGTTAGATTAAGGAAA
131 TGGCTGATTATTCTCGGTGTTAAATTCATGATATGTATGATGAATTATTAGTTAGATTAAGGAAA
44829664 AATCACAAAATAGGCATAGTTTGCTTTAGTAACAGATGCTGGTAACAGCAGTGATGTGAGATTGA
196 AATCACAAAATAGGCATAGTTTGCTTTAGTAACAGATGCTGGTAACAGCAGTGATGTGAGATTGA
44829729 AAAATCACTAAAAACAGTAGGAATGGAATTAAATAAGGAATAAATTATGTAATCGAAGCTTGATG
261 AAAATCACTAAAAACAGTAGGAATGGAATTAAATAAGGAATAAATTATGTAATCGAAGCTTGATG
* *
44829794 AGTCTATTTTCATATGGAAGAAACGAAACGACCATATGAGCTGTATGTTAGGAGATAATTAAACT
326 AGTCTATCTTCATATGGAAGAAACAAAACGACCATATGAGCTGTATGTTAGGAGATAATTAAACT
44829859 CTTGTGAAACAGGGCCAGAGCGAATTCTGGATCCCCTGTTCCGACTTTAGAAATTCACCATAAAT
391 CTTGTGAAACAGGGCCAGAGCGAATTCTGGATCCCCTGTTCCGACTTTAGAAATTCACCATAAAT
* *
44829924 TAATCAGAGAGAATTAGAAGTCATGCCTTATATTTATAGATTTCATTTTGAGTCTAGTTTCATTA
456 TAATCAGAGACAATTAGAAGTCATGCCTTATATTTATAGATTCCATTTTGAGTCTAGTTTCATTA
44829989 GAAACAATCGGCATAAGCATTGAAGCTCTGTAAAGGGAAATATCTAAGTCGTAATGCATGAAGGT
521 GAAACAATCGGCATAAGCATTGAAGCTCTGTAAAGGGAAATATCTAAGTCGTAATGCATGAAGGT
44830054 CAGAGTAGT
586 CAGAGTAGT
44830063 C
1 C
44830064 GAACCCTGAA
Statistics
Matches: 590, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
594 590 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (594 bp):
CTATTATGTTTTGTTGAACTTTGGTATGTAAACTTTAGCCATGCGAAAATGGCATAAATATTAAG
TTGAATTTTGGTCCTATGATACTTCGTCATAAGTCTTAGTAAAAATTGGTTTGATAATGTTGTCA
TGGCTGATTATTCTCGGTGTTAAATTCATGATATGTATGATGAATTATTAGTTAGATTAAGGAAA
AATCACAAAATAGGCATAGTTTGCTTTAGTAACAGATGCTGGTAACAGCAGTGATGTGAGATTGA
AAAATCACTAAAAACAGTAGGAATGGAATTAAATAAGGAATAAATTATGTAATCGAAGCTTGATG
AGTCTATCTTCATATGGAAGAAACAAAACGACCATATGAGCTGTATGTTAGGAGATAATTAAACT
CTTGTGAAACAGGGCCAGAGCGAATTCTGGATCCCCTGTTCCGACTTTAGAAATTCACCATAAAT
TAATCAGAGACAATTAGAAGTCATGCCTTATATTTATAGATTCCATTTTGAGTCTAGTTTCATTA
GAAACAATCGGCATAAGCATTGAAGCTCTGTAAAGGGAAATATCTAAGTCGTAATGCATGAAGGT
CAGAGTAGT
Found at i:44831229 original size:17 final size:18
Alignment explanation
Indices: 44831204--44831237 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44831194 AGTACTCAAA
*
44831204 GTAATAATCA-CAAAAAT
1 GTAAAAATCATCAAAAAT
44831221 GTAAAAATCATCAAAAA
1 GTAAAAATCATCAAAAA
44831238 CAGAGCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (18 bp):
GTAAAAATCATCAAAAAT
Found at i:44836604 original size:17 final size:18
Alignment explanation
Indices: 44836562--44836610 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
44836552 AGTTGAAAAG
44836562 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
44836581 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
44836598 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
44836611 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:44837499 original size:40 final size:40
Alignment explanation
Indices: 44837433--44837599 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
44837423 AAATTGAATG
* * *
44837433 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
44837472 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44837512 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
44837552 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
44837592 ATATCCGG
1 ATATCCGG
44837600 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44845056 original size:38 final size:40
Alignment explanation
Indices: 44844994--44845104 Score: 129
Period size: 38 Copynumber: 2.8 Consensus size: 40
44844984 TGCTGGAAAT
* * *
44844994 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGG
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAG
* *
44845033 TATATCC-GGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTAG
* *
44845072 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44845105 ACGTGATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
37 3 0.05
38 21 0.35
39 14 0.23
40 20 0.33
41 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAG
Found at i:44845118 original size:40 final size:40
Alignment explanation
Indices: 44844992--44845119 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
44844982 TATGCTGGAA
* * *
44844992 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
* * * *
44845032 -GTATATCC-GGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
44845070 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
44845110 ATTATATCCG
1 ATTATATCCG
44845120 TTATATTCCG
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
38 24 0.33
39 14 0.19
40 34 0.47
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:44850541 original size:9 final size:9
Alignment explanation
Indices: 44850529--44850585 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
44850519 TTTGATAAAC
44850529 ATGATATGT
1 ATGATATGT
*
44850538 ATGATATGCAC
1 ATGATATG--T
*
44850549 ATGACATGT
1 ATGATATGT
*
44850558 ATGATATGCAC
1 ATGATATG--T
44850569 ATGATATGT
1 ATGATATGT
44850578 ATGATATG
1 ATGATATG
44850586 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:44850552 original size:20 final size:20
Alignment explanation
Indices: 44850527--44850597 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
44850517 ATTTTGATAA
44850527 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
44850547 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
44850567 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
44850587 ACATGAGATGT
1 ACATGATATGT
44850598 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:44850574 original size:11 final size:11
Alignment explanation
Indices: 44850538--44850592 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
44850528 CATGATATGT
44850538 ATGATATGCAC
1 ATGATATGCAC
* *
44850549 ATGACATG--T
1 ATGATATGCAC
44850558 ATGATATGCAC
1 ATGATATGCAC
*
44850569 ATGATATG--T
1 ATGATATGCAC
44850578 ATGATATGCAC
1 ATGATATGCAC
44850589 ATGA
1 ATGA
44850593 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:44850669 original size:23 final size:23
Alignment explanation
Indices: 44850643--44850809 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
44850633 AGGAAGTGCA
44850643 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
44850666 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
44850690 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
44850714 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
44850737 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44850760 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
44850783 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
44850807 AAA
1 AAA
44850810 AGAGGCTAGG
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
23 70 0.51
24 67 0.49
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:44850698 original size:24 final size:23
Alignment explanation
Indices: 44850642--44850831 Score: 265
Period size: 24 Copynumber: 8.0 Consensus size: 23
44850632 GAGGAAGTGC
44850642 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
44850665 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
44850688 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
44850712 CAAAAGGGCTTATGCCCCAATTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
44850736 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
44850759 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
44850783 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
44850807 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44850831 A
1 A
44850832 TGATAAAGCA
Statistics
Matches: 154, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 65 0.42
24 79 0.51
25 10 0.06
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:44850710 original size:47 final size:47
Alignment explanation
Indices: 44850641--44850809 Score: 277
Period size: 47 Copynumber: 3.6 Consensus size: 47
44850631 TGAGGAAGTG
44850641 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
44850688 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
44850736 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
44850782 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
44850810 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
46 21 0.19
47 71 0.63
48 21 0.19
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:44851059 original size:31 final size:30
Alignment explanation
Indices: 44851024--44851108 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 30
44851014 CGTTTACAGT
44851024 AAAGGCTTCGGCCCAGTAATATGAAACT-TGA
1 AAAGGCTTCGGCCCAGT-ATATGAAA-TATGA
*
44851055 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGT-ATATGAAATATGA
44851086 AAAGGGCTAT-GGCCCAGTATATG
1 AAA-GGCT-TCGGCCCAGTATATG
44851109 TTTGAGATTG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 1 0.02
31 34 0.71
32 12 0.25
33 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAAATATGA
Found at i:44855630 original size:14 final size:15
Alignment explanation
Indices: 44855611--44855639 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44855601 CAATTCTTTT
44855611 AATTCTGTA-GGTGC
1 AATTCTGTATGGTGC
44855625 AATTCTGTATGGTGC
1 AATTCTGTATGGTGC
44855640 TATATATCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.38
Consensus pattern (15 bp):
AATTCTGTATGGTGC
Found at i:44858195 original size:22 final size:21
Alignment explanation
Indices: 44858154--44858197 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
44858144 GAATGTGCAT
44858154 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
44858176 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
44858198 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:44865414 original size:80 final size:80
Alignment explanation
Indices: 44865330--44865478 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44865320 TATGGTAACC
* * * *
44865330 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44865394 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44865410 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44865475 CCGG
66 CCGG
44865479 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:44865420 original size:40 final size:38
Alignment explanation
Indices: 44865371--44865478 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44865361 ATCACGATTT
*
44865371 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44865411 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44865451 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44865479 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:44869090 original size:40 final size:40
Alignment explanation
Indices: 44869035--44869219 Score: 318
Period size: 40 Copynumber: 4.6 Consensus size: 40
44869025 CGGATGATAA
* *
44869035 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
44869075 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
44869115 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44869155 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44869195 CCGGGCTAAGTCCTGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44869220 AGCAAGTAGT
Statistics
Matches: 140, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 139 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44869234 original size:80 final size:79
Alignment explanation
Indices: 44869031--44869251 Score: 311
Period size: 80 Copynumber: 2.8 Consensus size: 79
44869021 TATTCGGATG
* *
44869031 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
44869095 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * *
44869111 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGCA
44869176 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * * *
44869191 ATAACCGGGCTAAGTCCTGAAGGCATTTGAGCAAGTAGTTATATTC-GGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
44869252 ATGCTTGGGT
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
79 16 0.12
80 111 0.86
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:44878616 original size:19 final size:19
Alignment explanation
Indices: 44878592--44878640 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
44878582 GAAATCTCTC
*
44878592 AGTAAGCTAAAAAGAGCTT
1 AGTAAGCCAAAAAGAGCTT
*
44878611 AGTAAGCCACAAAGAGCTT
1 AGTAAGCCAAAAAGAGCTT
44878630 AGTAAGCCAAA
1 AGTAAGCCAAA
44878641 TACAATTGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.16
Consensus pattern (19 bp):
AGTAAGCCAAAAAGAGCTT
Found at i:44895055 original size:10 final size:11
Alignment explanation
Indices: 44895022--44895057 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
44895012 AAATGATGTG
44895022 ATTGTTAGATA
1 ATTGTTAGATA
44895033 ATTGTTAGATA
1 ATTGTTAGATA
*
44895044 ATT-TTAGTTA
1 ATTGTTAGATA
44895054 ATTG
1 ATTG
44895058 AGTAACATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (11 bp):
ATTGTTAGATA
Found at i:44896549 original size:31 final size:30
Alignment explanation
Indices: 44896500--44896563 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
44896490 TTATTTTGGA
* * *
44896500 TGGTCACACATGCTCGTGTGGGTAGGCCATG
1 TGGTCACACACGCCCGTGT-GCTAGGCCATG
* *
44896531 TGGTCTCACACGCCCGTGTGCTAGGCCGTG
1 TGGTCACACACGCCCGTGTGCTAGGCCATG
44896561 TGG
1 TGG
44896564 CGAATTTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.12, C:0.27, G:0.36, T:0.25
Consensus pattern (30 bp):
TGGTCACACACGCCCGTGTGCTAGGCCATG
Found at i:44908746 original size:27 final size:26
Alignment explanation
Indices: 44908702--44908754 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
44908692 CTCGCTGCAA
*
44908702 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
44908729 TCTGGTGACTTCGTCACAATATCTGT
1 TCTGGTGACCTCGCCACAATATCTGT
44908755 CAGCCTCGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:44908850 original size:27 final size:26
Alignment explanation
Indices: 44908798--44908857 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
44908788 ATATATATAT
*
44908798 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
44908824 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
44908851 ATATCTG
1 ATATCTG
44908858 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:44915338 original size:21 final size:19
Alignment explanation
Indices: 44915296--44915342 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
44915286 TTTATTTTTC
* *
44915296 TTTCTTTTCTTCCTGCCAA
1 TTTCTATTCTTCCTACCAA
44915315 TTTCTATTCTTCTCTACACAA
1 TTTCTATTCTTC-CTAC-CAA
44915336 TTT-TATT
1 TTTCTATT
44915343 TGTTTCACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.46
20 7 0.29
21 6 0.25
ACGTcount: A:0.17, C:0.26, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTCTATTCTTCCTACCAA
Found at i:44915960 original size:8 final size:8
Alignment explanation
Indices: 44915947--44915977 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
44915937 ATCGGCAAAA
44915947 GCCGAAAT
1 GCCGAAAT
44915955 GCCGAAAT
1 GCCGAAAT
*
44915963 GCCGAAAA
1 GCCGAAAT
44915971 GCCGAAA
1 GCCGAAA
44915978 GTTGGGCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.42, C:0.26, G:0.26, T:0.06
Consensus pattern (8 bp):
GCCGAAAT
Found at i:44916242 original size:29 final size:29
Alignment explanation
Indices: 44916207--44916302 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
44916197 TGACTAGGCC
*
44916207 TAATGGGGCATATAAATGTGATTTGGGCT
1 TAATGGGCCATATAAATGTGATTTGGGCT
* * *
44916236 TAATGGGCCGTATACATGTGATTTGGGCC
1 TAATGGGCCATATAAATGTGATTTGGGCT
* * * *
44916265 TAATGGGCCATATGAGTATGA-TTGGGTT
1 TAATGGGCCATATAAATGTGATTTGGGCT
44916293 TAATGGGCCA
1 TAATGGGCCA
44916303 GATACAGGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 15 0.27
29 41 0.73
ACGTcount: A:0.25, C:0.11, G:0.31, T:0.32
Consensus pattern (29 bp):
TAATGGGCCATATAAATGTGATTTGGGCT
Found at i:44916347 original size:19 final size:19
Alignment explanation
Indices: 44916323--44916385 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
44916313 TGTGAATTTG
44916323 TTTGGGTGTTGTAAGGGGT
1 TTTGGGTGTTGTAAGGGGT
* ***
44916342 TTTGGGCCTGGTG-AATTTG-
1 TTTGGG--TGTTGTAAGGGGT
44916361 TTTGGGTGTTGTAAGGGGT
1 TTTGGGTGTTGTAAGGGGT
44916380 TTTGGG
1 TTTGGG
44916386 CCTGGTATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
17 4 0.12
18 3 0.09
19 18 0.56
20 3 0.09
21 4 0.12
ACGTcount: A:0.10, C:0.03, G:0.44, T:0.43
Consensus pattern (19 bp):
TTTGGGTGTTGTAAGGGGT
Found at i:44916356 original size:38 final size:38
Alignment explanation
Indices: 44916314--44916391 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
44916304 ATACAGGTAT
44916314 GTGAATTTGTTTGGGTGTTGTAAGGGGTTTTGGGCCTG
1 GTGAATTTGTTTGGGTGTTGTAAGGGGTTTTGGGCCTG
44916352 GTGAATTTGTTTGGGTGTTGTAAGGGGTTTTGGGCCTG
1 GTGAATTTGTTTGGGTGTTGTAAGGGGTTTTGGGCCTG
44916390 GT
1 GT
44916392 ATATGAGAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.10, C:0.05, G:0.42, T:0.42
Consensus pattern (38 bp):
GTGAATTTGTTTGGGTGTTGTAAGGGGTTTTGGGCCTG
Found at i:44923809 original size:61 final size:63
Alignment explanation
Indices: 44923734--44923882 Score: 168
Period size: 60 Copynumber: 2.5 Consensus size: 63
44923724 CTATTCAGAA
* *
44923734 ATCAGAGT-TAACTGGGCCTTAGCCTATATCAATAACAATCTGGGCCATAG-CCTATTAC-AGT
1 ATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATAACAATCTAGGCCATAGCCCTATTACAAGT
* * * *
44923795 ATCAGAGTATACTGGGCC-TAGCCCATGTCAGTATCAATCTAGGCCGTAGCCCTATTACAAGT
1 ATCAGAGTATACTGGGCCTTAGCCCATATCAATAACAATCTAGGCCATAGCCCTATTACAAGT
* *
44923857 -TGAGA-TATATTGGGCCTT-GCCCATAT
1 ATCAGAGTATACTGGGCCTTAGCCCATAT
44923883 TAACACAGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
60 42 0.56
61 29 0.39
62 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (63 bp):
ATCAGAGTATACTGGGCCTTAGCCCATATCAATAACAATCTAGGCCATAGCCCTATTACAAGT
Found at i:44933661 original size:40 final size:40
Alignment explanation
Indices: 44933566--44933758 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
44933556 TTGAATGATA
* * * * * *
44933566 CCGGGCTAAGCCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAT
*
44933607 CCGGGTTAAGTCCCGAAGCCATTTGTGCGAGTTACCAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
44933647 CCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* **
44933687 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* * * *
44933727 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
44933759 CGCCATATCC
Statistics
Matches: 131, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 105 0.80
41 26 0.20
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:44941621 original size:40 final size:40
Alignment explanation
Indices: 44941526--44941678 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
44941516 TGAATGATAC
* * *
44941526 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
* * *
44941567 CCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * * *
44941607 CCGGGTTAAGTCCCGAAGGCATTTGTGCTAGCTATTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* * *
44941647 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
44941679 CGCCATATCC
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 67 0.71
41 27 0.29
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:44944609 original size:12 final size:12
Alignment explanation
Indices: 44944578--44944603 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44944568 AAGAAAGGTT
44944578 CATGATAAAATA
1 CATGATAAAATA
44944590 CATGATAAAATA
1 CATGATAAAATA
44944602 CA
1 CA
44944604 ATATAAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.23
Consensus pattern (12 bp):
CATGATAAAATA
Found at i:44957513 original size:40 final size:40
Alignment explanation
Indices: 44957353--44957513 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 40
44957343 TGAATGATAC
* * *
44957353 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
44957393 CCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
44957432 CC-GGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
44957471 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
44957511 CCG
1 CCG
44957514 TTAAATCCCG
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
38 11 0.11
39 40 0.41
40 47 0.48
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:44962514 original size:40 final size:40
Alignment explanation
Indices: 44962469--44962635 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
44962459 CGGAATATAA
44962469 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44962509 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44962549 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44962589 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44962628 CCGGATAT
1 CCGGATAT
44962636 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44970523 original size:40 final size:40
Alignment explanation
Indices: 44970478--44970645 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
44970468 CGGAATATAA
44970478 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44970518 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44970558 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44970598 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
44970638 CCGGATAT
1 CCGGATAT
44970646 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 103 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44970628 original size:80 final size:80
Alignment explanation
Indices: 44970494--44970643 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
44970484 ATAATCACGT
*
44970494 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGAT-TTAGC
44970558 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * ** * *
44970574 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGATTTAG
44970637 CCCGGAT
64 CCCGGAT
44970644 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:44976748 original size:40 final size:40
Alignment explanation
Indices: 44976693--44976853 Score: 182
Period size: 40 Copynumber: 4.0 Consensus size: 40
44976683 ATGATACCCA
* * *
44976693 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCG
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
*
44976733 GGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATATCCG
1 GGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATATCCG
* * ** *
44976773 GGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCG
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
* * *
44976813 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCG
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
44976853 G
1 G
44976854 TTAAATCCCG
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 92 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
Found at i:44980412 original size:13 final size:13
Alignment explanation
Indices: 44980394--44980418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44980384 ATTTTCTTTA
44980394 CTTCTCTCTTTTT
1 CTTCTCTCTTTTT
44980407 CTTCTCTCTTTT
1 CTTCTCTCTTTT
44980419 AATTAAAAGT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
CTTCTCTCTTTTT
Found at i:44984630 original size:42 final size:42
Alignment explanation
Indices: 44984522--44984677 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 42
44984512 AGCTCGTACA
* * *
44984522 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACAAGTAATCAAATAT-G
* * * *
44984565 ATGCCACTTTCCCAGACAGGGTCTTACAAG-AAGTCAAATATG
1 ATGCCAATGTCCCAAACATGGTCTTACAAGTAA-TCAAATATG
*
44984607 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACAA-ATTG
1 ATGCCAATGTCCCAAACATGGTCTTACAAGT-AATCA-AATA-TG
* *
44984651 ATGCCAATGTCCCAGAC-TGGTCATACA
1 ATGCCAATGTCCCAAACATGGTCTTACA
44984678 CTATAACACA
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 28 0.30
43 44 0.47
44 22 0.23
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACATGGTCTTACAAGTAATCAAATATG
Found at i:44989805 original size:43 final size:42
Alignment explanation
Indices: 44989750--44989902 Score: 164
Period size: 43 Copynumber: 3.6 Consensus size: 42
44989740 TGCCATATCC
* * *
44989750 CAGATATGGTCTTACATGTTATCATACATCGATGCCACTGTCT
1 CAGACATGGTCTTACATGTAATCATA-ATCGATGCCAATGTCT
* * * *
44989793 CAGACAGGGTCTTATACGAAATCGATTAA-CGATGCCAATGTCT
1 CAGACATGGTCTTACATGTAATC-A-TAATCGATGCCAATGTCT
* * * *
44989836 TAGACATGGTCTTACATGTAATCACAATACAATGCCAATGTCC
1 CAGACATGGTCTTACATGTAATCATAAT-CGATGCCAATGTCT
44989879 CAGACATGGTCTTACATGTAATCA
1 CAGACATGGTCTTACATGTAATCA
44989903 CATCTCGGTA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 83 0.92
44 2 0.02
45 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
CAGACATGGTCTTACATGTAATCATAATCGATGCCAATGTCT
Found at i:44992023 original size:75 final size:75
Alignment explanation
Indices: 44991900--44992049 Score: 237
Period size: 75 Copynumber: 2.0 Consensus size: 75
44991890 GAAGTTTCAA
*
44991900 ACATTTCGCAACTTACTCTGTGGCAGATGTCGCTTTTATATTGGAGAACCTAAACAGTTACCACT
1 ACATTTCGCAACTTACTCTGTGGCAGATGTCGCTTTTATATTGGAGAACCTAAACAATTACCACT
*
44991965 AGTTCAACTT
66 AATTCAACTT
* * * * *
44991975 ACATTTTGTAACTTACTCTGTGGCAGATGTTGCTTTTGTATTGGAGAACCTGAACAATTACCACT
1 ACATTTCGCAACTTACTCTGTGGCAGATGTCGCTTTTATATTGGAGAACCTAAACAATTACCACT
44992040 AATTCAACTT
66 AATTCAACTT
44992050 CTTGCACACG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (75 bp):
ACATTTCGCAACTTACTCTGTGGCAGATGTCGCTTTTATATTGGAGAACCTAAACAATTACCACT
AATTCAACTT
Found at i:45020649 original size:30 final size:30
Alignment explanation
Indices: 45020613--45020713 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
45020603 GACAAGATTG
* * *
45020613 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
45020643 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
45020671 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
45020700 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
45020714 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:45020725 original size:29 final size:28
Alignment explanation
Indices: 45020642--45020717 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
45020632 AAAATTGTAC
* *
45020642 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
45020670 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
45020699 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
45020718 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:45028503 original size:30 final size:30
Alignment explanation
Indices: 45028467--45028567 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
45028457 GACAAGATTG
* * *
45028467 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
45028497 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
45028525 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
45028554 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
45028568 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:45028579 original size:29 final size:28
Alignment explanation
Indices: 45028496--45028571 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
45028486 AAAATTGTAC
* *
45028496 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
45028524 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
45028553 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
45028572 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:45035861 original size:42 final size:43
Alignment explanation
Indices: 45035760--45035875 Score: 164
Period size: 43 Copynumber: 2.7 Consensus size: 43
45035750 AGCTCGTACA
* * *
45035760 ATGCCAAAGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* *
45035803 ATGCCACTGTCCCAGACAG-GGTCCTACACGAAATCAAATAT-G
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
45035845 ATGCCAATGTCCCAGACGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA
45035876 TAACACATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 28 0.44
43 34 0.53
44 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:45041176 original size:30 final size:30
Alignment explanation
Indices: 45041140--45041200 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
45041130 TACGGCTTAC
*
45041140 TTAAGTTCAAGAAACTCTTTATGTTGTTGG
1 TTAAGTTCAAGAAACTCTTTACGTTGTTGG
45041170 TTAAGTTCAAGAAACTCTTTACGTTGTTGG
1 TTAAGTTCAAGAAACTCTTTACGTTGTTGG
45041200 T
1 T
45041201 CGATAAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (30 bp):
TTAAGTTCAAGAAACTCTTTACGTTGTTGG
Found at i:45042609 original size:27 final size:27
Alignment explanation
Indices: 45042552--45042618 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
45042542 GTACCTAGAC
* * *
45042552 CCCCTATTTGATGAAATAATTGTTTTA
1 CCCCTATTTGATGAAAAAACTGGTTTA
*
45042579 CCCCTATTTGAT-AAAAAGACTGGTTTG
1 CCCCTATTTGATGAAAAA-ACTGGTTTA
*
45042606 CCCCTATGTGATG
1 CCCCTATTTGATG
45042619 TATGACTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
CCCCTATTTGATGAAAAAACTGGTTTA
Found at i:45046347 original size:40 final size:39
Alignment explanation
Indices: 45046260--45046380 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 39
45046250 GTGCTAAGTG
* * *
45046260 ACTAAATCCGGAATAAGATCCGACGGCATAC-GTGAGTT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCGGCGAGTT
* * *
45046298 ACTAAATCCGGACTAAGATCCGAAGGCTTTCGAGCGAGCT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCG-GCGAGTT
**
45046338 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTT
1 ACTAAATCCGGAATAAGAT-CCGAAGGCATTCG-GCGAGTT
45046378 ACT
1 ACT
45046381 GTAACCGGGC
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
38 27 0.39
39 1 0.01
40 41 0.59
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (39 bp):
ACTAAATCCGGAATAAGATCCGAAGGCATTCGGCGAGTT
Found at i:45046389 original size:40 final size:40
Alignment explanation
Indices: 45046225--45046407 Score: 128
Period size: 40 Copynumber: 4.6 Consensus size: 40
45046215 TTCGAATGAT
* * *
45046225 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGAGC-GAGCT-ACTAA
** * * * *
45046265 ATCCGGAATAAGAT-CCGACGGCATAC--GTGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGAGCGAGCTACTAA
* *
45046303 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGAGCGAGCTACTAA
* * * *
45046343 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACT-AA
*
45046384 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
45046408 TGAATGTGTA
Statistics
Matches: 115, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
38 29 0.25
39 3 0.03
40 79 0.69
41 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACTAA
Found at i:45054346 original size:40 final size:40
Alignment explanation
Indices: 45054180--45054364 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
45054170 TTCGAATGAT
* * *
45054180 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
** * *
45054220 ATCCGGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
45054260 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
45054300 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
45054341 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
45054365 TGAATGTGTA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:45054358 original size:80 final size:80
Alignment explanation
Indices: 45054180--45054367 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
45054170 TTCGAATGAT
* *
45054180 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
45054245 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
45054260 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
45054321 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
45054341 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
45054368 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:45060118 original size:30 final size:29
Alignment explanation
Indices: 45060024--45060125 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
45060014 TATAGTGAAT
* * *
45060024 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
45060053 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
45060081 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
45060111 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
45060126 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:45067964 original size:30 final size:29
Alignment explanation
Indices: 45067870--45067971 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
45067860 TATAGTGAAT
* * *
45067870 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
45067899 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
45067927 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
45067957 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
45067972 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:45072885 original size:42 final size:43
Alignment explanation
Indices: 45072815--45072917 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
45072805 ATCGATTTGG
* * *
45072815 GATTTACATGTAAGACCATGTTTGGGACA-TCGGCATCG-TATTT
1 GATTT-CATGTAAGACCATATCTAGGACAGT-GGCATCGATATTT
*
45072858 GATTTCATGTAAGACCCTATCTAGGACAGTGGCATCGATATTT
1 GATTTCATGTAAGACCATATCTAGGACAGTGGCATCGATATTT
*
45072901 GATTACATGTAAGACCA
1 GATTTCATGTAAGACCA
45072918 CGTTTGGGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (43 bp):
GATTTCATGTAAGACCATATCTAGGACAGTGGCATCGATATTT
Found at i:45072934 original size:43 final size:43
Alignment explanation
Indices: 45072779--45072935 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
45072769 TGTGATTTCG
* * * *
45072779 TGTAAAACCACGTCTGGGACGTTAGCATCGAT-TTGGGATTTACA
1 TGTAAGACCACGTTTGGGACGTTGGCATCGATATT-TGA-TTACA
* * * *
45072823 TGTAAGACCATGTTTGGGACATCGGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTTTGGGACGTTGGCATCGATATTTGATTACA
*
45072865 TGTAAGACC-C-TATCTAGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCACGT-T-TGGGAC-GTTGGCATCGATATTTGATTACA
45072908 TGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTAAGACCACGTTTGGGACGTTGGCAT
45072936 TGCACGAGCT
Statistics
Matches: 91, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 26 0.29
43 34 0.37
44 28 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTTTGGGACGTTGGCATCGATATTTGATTACA
Found at i:45076101 original size:25 final size:25
Alignment explanation
Indices: 45076043--45076112 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
45076033 GTCACACAGT
* *
45076043 CATGTCACAAGCCTGTGTACCATAC
1 CATGTCACAAGCCCGTATACCATAC
** * *
45076068 TGTGACACAATCCCGTATACCATAC
1 CATGTCACAAGCCCGTATACCATAC
*
45076093 CATGTCACACGCCCGTATAC
1 CATGTCACAAGCCCGTATAC
45076113 ACATTCGTGT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (25 bp):
CATGTCACAAGCCCGTATACCATAC
Found at i:45076932 original size:38 final size:37
Alignment explanation
Indices: 45076882--45076984 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 37
45076872 ACATCAACAA
* * *
45076882 TAAG-CTGCTAGGCACTAAGCATGAATAATACCGGCAC
1 TAAGCCTGCTAGGCAC-AAGCCTGAATAACACCAGCAC
45076919 TAAGCCTGCTAGGCACAATGCCTGAATAACACCAGCAC
1 TAAGCCTGCTAGGCACAA-GCCTGAATAACACCAGCAC
* *
45076957 TAAGCCAGCTAAGCACAAAGCCTGAATA
1 TAAGCCTGCTAGGCAC-AAGCCTGAATA
45076985 GCAGTATGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
37 6 0.10
38 50 0.86
39 2 0.03
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.17
Consensus pattern (37 bp):
TAAGCCTGCTAGGCACAAGCCTGAATAACACCAGCAC
Found at i:45078706 original size:18 final size:18
Alignment explanation
Indices: 45078685--45078737 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
45078675 AATTGAGAAA
*
45078685 TAAAAATATTGTGAGTGT
1 TAAAAGTATTGTGAGTGT
* **
45078703 TAAAAGCACAGTGAGTGT
1 TAAAAGTATTGTGAGTGT
45078721 TAAAAGTATTGTGAGTG
1 TAAAAGTATTGTGAGTG
45078738 AAAGAATGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (18 bp):
TAAAAGTATTGTGAGTGT
Found at i:45083638 original size:49 final size:47
Alignment explanation
Indices: 45083426--45083695 Score: 175
Period size: 46 Copynumber: 5.7 Consensus size: 47
45083416 ATTATGAAAT
*
45083426 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCATTGA-GACGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-C-TCGATG--GATGA
* * * *
45083472 GCCAGTGTAAGA-CATGTTTAGGACAT-GCATCGGCTACGA--GATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGATGGATGA
** * ** * *
45083516 TTCAGTATAAGACCATGTCTAAGACATGGCATCGGCACAGATATGTGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTC-G--ATG-GATGA
* * * *
45083566 GCTAGGGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATTTTGAT-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGA--TGGATGA
* * *
45083615 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATGGATGA
*
45083662 GCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
45083696 GTATTATACC
Statistics
Matches: 176, Mismatches: 32, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 10 0.06
45 14 0.08
46 45 0.26
47 32 0.18
48 7 0.04
49 32 0.18
50 29 0.16
51 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATGGATGA
Found at i:45087108 original size:26 final size:27
Alignment explanation
Indices: 45087079--45087130 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
45087069 ATGCTAAATA
*
45087079 CAGTCA-TACATCACATAGGGGCAAAC
1 CAGTCATTACATCAAATAGGGGCAAAC
*
45087105 CAGTCATTTCATCAAATAGGGGCAAA
1 CAGTCATTACATCAAATAGGGGCAAA
45087131 ATAGTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (27 bp):
CAGTCATTACATCAAATAGGGGCAAAC
Found at i:45087140 original size:27 final size:28
Alignment explanation
Indices: 45087087--45087150 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
45087077 TACAGTCATA
* *
45087087 CATCACATAGGGGCAAACCAGTCA-TTT
1 CATCAAATAGGGGCAAAACAGTCATTTT
* *
45087114 CATCAAATAGGGGCAAAATAGTTATTTT
1 CATCAAATAGGGGCAAAACAGTCATTTT
45087142 C-TCAAATAG
1 CATCAAATAG
45087151 AGGGTCAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (28 bp):
CATCAAATAGGGGCAAAACAGTCATTTT
Found at i:45088728 original size:36 final size:36
Alignment explanation
Indices: 45088688--45088783 Score: 160
Period size: 36 Copynumber: 2.7 Consensus size: 36
45088678 CTACTTCAAA
*
45088688 TTGGAATTGGATTATTCTCTCTTTTCCTATTTCTAT
1 TTGGAATTGGATTATTCTCTCTTTTCCTATTTCCAT
45088724 TTGGAATTGGATTATTCTCTCTTTTCCTATTTCCAT
1 TTGGAATTGGATTATTCTCTCTTTTCCTATTTCCAT
*
45088760 TTGGAATTGAATTATT-T-TCTTTTC
1 TTGGAATTGGATTATTCTCTCTTTTC
45088784 TCTTTCAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
34 7 0.12
35 1 0.02
36 50 0.86
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (36 bp):
TTGGAATTGGATTATTCTCTCTTTTCCTATTTCCAT
Found at i:45101905 original size:16 final size:16
Alignment explanation
Indices: 45101884--45101921 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
45101874 GAGCCTAGGG
45101884 GCAAAAGTGTAATTAT
1 GCAAAAGTGTAATTAT
45101900 GCAAAAGTGTAATTAT
1 GCAAAAGTGTAATTAT
45101916 GCAAAA
1 GCAAAA
45101922 TTTTAGGGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.26
Consensus pattern (16 bp):
GCAAAAGTGTAATTAT
Found at i:45104001 original size:15 final size:15
Alignment explanation
Indices: 45103976--45104012 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
45103966 AAGATATTAT
45103976 TTTATTTTTATTTTTA
1 TTTA-TTTTATTTTTA
45103992 TTTATTTTATTTTTA
1 TTTATTTTATTTTTA
45104007 TTTATT
1 TTTATT
45104013 AAATTGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:45104159 original size:36 final size:33
Alignment explanation
Indices: 45104103--45104180 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 33
45104093 GTATTCCTAC
* *
45104103 TTCAAATTGGAATTGGATTATTCTCTCTTTTTCTAT
1 TTCAATTTGGAATTGAATTATT-T-TC-TTTTCTAT
* *
45104139 TTCCATTTGGAATTGAATTATTTTCTTTTCTCT
1 TTCAATTTGGAATTGAATTATTTTCTTTTCTAT
45104172 TTCAATTTG
1 TTCAATTTG
45104181 ACGTAGGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 15 0.41
34 2 0.05
35 1 0.03
36 19 0.51
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.55
Consensus pattern (33 bp):
TTCAATTTGGAATTGAATTATTTTCTTTTCTAT
Found at i:45105613 original size:45 final size:45
Alignment explanation
Indices: 45105549--45105635 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
45105539 CCAAAACATG
* * *
45105549 TGTCACATATATGACGAACTCAGACCACAACTCAATGAGTTCGGA
1 TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTCGGA
*
45105594 TGTCACATAAATCATGAACTCAAACCACAACTCAATGAGTTC
1 TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTC
45105636 AGATTACTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (45 bp):
TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTCGGA
Found at i:45105827 original size:50 final size:50
Alignment explanation
Indices: 45105768--45105866 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
45105758 ACCAACCACT
*
45105768 TAAAGTATTAACATTCACTCGATATCAAAGCAATATAAATATGACATAAA
1 TAAAGTATTAACATTCACTCGATATCAAAGCAATAGAAATATGACATAAA
*
45105818 TAAAGTATTAACATTCACTTGATATCAAAGCAATAGAAATATGACATAA
1 TAAAGTATTAACATTCACTCGATATCAAAGCAATAGAAATATGACATAA
45105867 CATTTTATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.28
Consensus pattern (50 bp):
TAAAGTATTAACATTCACTCGATATCAAAGCAATAGAAATATGACATAAA
Found at i:45112951 original size:55 final size:55
Alignment explanation
Indices: 45112884--45113071 Score: 263
Period size: 55 Copynumber: 3.5 Consensus size: 55
45112874 GCAAGGAAAT
45112884 CATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGTAAAGATCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGTAAAGATCC
* *
45112939 CATGTAAAACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAAGATCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGTAAAGATCC
* * * * * * * * *
45112994 CATGTAAGACCATGCCAAGGCATGGCAATGGT-GAGTTC-ATAAGGTAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGTAAAGATCC
45113047 CATGTAAGACCATGTCAAGACATGG
1 CATGTAAGACCATGTCAAGACATGG
45113072 AAATGGTAAG
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
53 35 0.30
54 3 0.03
55 80 0.68
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (55 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGTAAAGATCC
Found at i:45120429 original size:17 final size:18
Alignment explanation
Indices: 45120407--45120440 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45120397 CACATTGAAG
45120407 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
45120424 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
45120441 CTTCCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:45121592 original size:29 final size:29
Alignment explanation
Indices: 45121554--45121679 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
45121544 AAATCTACAT
* * *
45121554 ACATGCATATGACCCACTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
45121583 TTATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
45121612 ATATTCGTATGGCCCATTAGGCCCAAACC
1 ACATTCATATGGCCCATTAGGCCCAAATC
45121641 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
45121670 ACATTCATAT
1 ACATTCATAT
45121680 ACATGCTTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 86 1.00
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:45124569 original size:53 final size:53
Alignment explanation
Indices: 45124390--45124593 Score: 210
Period size: 53 Copynumber: 3.8 Consensus size: 53
45124380 AGGGTTTAAA
* * * * * *
45124390 GATACCAAGTAAGACCATGCCGAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAG
* * * * * * * *
45124444 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAG
* * *
45124499 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAG
* *
45124552 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
45124594 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 28, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
53 46 0.38
54 34 0.28
55 40 0.33
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAG
Found at i:45124578 original size:108 final size:109
Alignment explanation
Indices: 45124387--45124583 Score: 297
Period size: 108 Copynumber: 1.8 Consensus size: 109
45124377 ATTAGGGTTT
* * * * *
45124387 AAAGATACCAAGTAAGACCATGCCGAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCAT
1 AAAGATACCAAGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCACAAGGCAAGGAAACCAC
45124452 GTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
66 GTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
* * * * *
45124496 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAG-TTCATAAGGCAAGGATACCAC
1 AAAGATACCAAGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCACAAGGCAAGGAAACCAC
45124560 GTAAGACCATGTCAAGACATGGCA
66 GTAAGACCATGTCAAGACATGGCA
45124584 ATGGTAAGTT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
108 40 0.51
109 38 0.49
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (109 bp):
AAAGATACCAAGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCACAAGGCAAGGAAACCAC
GTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
Found at i:45131724 original size:29 final size:29
Alignment explanation
Indices: 45131692--45131798 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
45131682 ATACCCTCCG
** *
45131692 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
45131721 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
45131750 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
45131779 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
45131799 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:45139858 original size:32 final size:30
Alignment explanation
Indices: 45139812--45139880 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
45139802 ATTTCAGCAG
*
45139812 CACTTAGTG-CATAT-T-TTCCAGCATGCA
1 CACTTAGTGCCATATATATTCCAGCACGCA
45139839 CACTTAGTGCCATATATATTCCAGCACGCA
1 CACTTAGTGCCATATATATTCCAGCACGCA
45139869 CACTTAGTGCCA
1 CACTTAGTGCCA
45139881 ATCTCGTCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 9 0.24
28 5 0.13
29 1 0.03
30 23 0.61
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (30 bp):
CACTTAGTGCCATATATATTCCAGCACGCA
Found at i:45164229 original size:21 final size:21
Alignment explanation
Indices: 45164203--45164244 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
45164193 TAGCCGAACT
*
45164203 TTACGCATTACCATACGAGTC
1 TTACGCATTACCATACAAGTC
45164224 TTACGCATTACCATACAAGTC
1 TTACGCATTACCATACAAGTC
45164245 CATATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (21 bp):
TTACGCATTACCATACAAGTC
Found at i:45168467 original size:26 final size:26
Alignment explanation
Indices: 45168435--45168487 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
45168425 TAGTATTCTC
45168435 AAAGATAGACTTAAGATCAGGCTATT
1 AAAGATAGACTTAAGATCAGGCTATT
*
45168461 AAAGATAGACTTGAGATCAGGCTATT
1 AAAGATAGACTTAAGATCAGGCTATT
45168487 A
1 A
45168488 TCAACTGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (26 bp):
AAAGATAGACTTAAGATCAGGCTATT
Found at i:45177946 original size:25 final size:25
Alignment explanation
Indices: 45177914--45177980 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
45177904 ATTTAATAAT
*
45177914 TGGGGCAAAGCCCTTTTTGATAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
45177939 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
45177964 TGGGGCAAAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
45177981 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGATAAAC
Found at i:45178233 original size:27 final size:26
Alignment explanation
Indices: 45178203--45178312 Score: 92
Period size: 27 Copynumber: 4.4 Consensus size: 26
45178193 TACCCCACAA
*
45178203 GGGTATCTCAGTAATTCTACCCTGCAG
1 GGGTATTTCAGTAATTCTACCCT-CAG
*
45178230 GGGTATTTCGGT-A-T-T----TCA-
1 GGGTATTTCAGTAATTCTACCCTCAG
*
45178248 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCT-CAG
* *
45178275 GGGTATTTCAGTAATTCTACCCTATAA
1 GGGTATTTCAGTAATTCTACCCT-CAG
45178302 GGGTATTTCAG
1 GGGTATTTCAG
45178313 GGTATTTCGG
Statistics
Matches: 69, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
18 12 0.17
19 3 0.04
20 2 0.03
21 1 0.01
24 1 0.01
25 2 0.03
26 3 0.04
27 45 0.65
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (26 bp):
GGGTATTTCAGTAATTCTACCCTCAG
Found at i:45178340 original size:64 final size:63
Alignment explanation
Indices: 45178239--45178375 Score: 238
Period size: 64 Copynumber: 2.2 Consensus size: 63
45178229 GGGGTATTTC
45178239 GGTATTTCAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAAG
1 GGTATTTCAGGGTATTTCGGTAATTCTACCCTACAGGGGTA-TTCAGTAATTCTACCCTATAAG
* * *
45178303 GGTATTTCAGGGTATTTCGGTAATTCTACCCTACAGGGTTATTCGGTAATTCTACCCTATAGG
1 GGTATTTCAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCAGTAATTCTACCCTATAAG
45178366 GGTATTTCAG
1 GGTATTTCAG
45178376 TAATTCAACC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
63 30 0.43
64 40 0.57
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.36
Consensus pattern (63 bp):
GGTATTTCAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCAGTAATTCTACCCTATAAG
Found at i:45178347 original size:26 final size:27
Alignment explanation
Indices: 45178312--45178452 Score: 214
Period size: 27 Copynumber: 5.3 Consensus size: 27
45178302 GGGTATTTCA
45178312 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
45178339 GGTTA-TTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
45178365 GGGTATTTCAGTAATTCAACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
45178392 GGTTA-TTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
45178418 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
45178445 GGGTATTT
1 GGGTATTT
45178453 TGATATTTTA
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 48 0.47
27 54 0.53
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:45178392 original size:53 final size:53
Alignment explanation
Indices: 45178312--45178451 Score: 235
Period size: 53 Copynumber: 2.6 Consensus size: 53
45178302 GGGTATTTCA
* *
45178312 GGGTATTTCGGTAATTCTACCCTACAGGGTTATTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGTTATTCAGTAATTCTACCCTACAG
* *
45178365 GGGTATTTCAGTAATTCAACCCTACAGGGTTATTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGTTATTCAGTAATTCTACCCTACAG
*
45178418 GGGTATTTCGGTAATTCTACCCTACAGGGGTATT
1 GGGTATTTCGGTAATTCTACCCTACAGGGTTATT
45178452 TTGATATTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 80 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (53 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGTTATTCAGTAATTCTACCCTACAG
Found at i:45178540 original size:54 final size:54
Alignment explanation
Indices: 45178442--45178650 Score: 201
Period size: 54 Copynumber: 3.9 Consensus size: 54
45178432 TTCTACCCTA
* * * * * * *
45178442 CAGGGGTATTTTGAT-ATTTTACAAATC-GAAAGTATTTCGATAATTTCACAAAT
1 CAGGAGTATTTTGGTAATTTTACAAACCAG-AGGTATTTTGGTAATTTTACAAAT
* *
45178495 CAGGAGTATTTTGGTAATTTTACAAGCCAGAGGTATTTTGGTAATTTTACAAAC
1 CAGGAGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTTTACAAAT
* * * **
45178549 CAGGAGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTGAT
1 CAGGAGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTTTACAAAT
** **
45178603 CGAGG-GTATTTTGGTAATTTTGTAAACCA-AGGGTATTTCAGTAATTTT
1 C-AGGAGTATTTTGGTAATTTTACAAACCAGA-GGTATTTTGGTAATTTT
45178651 GTAAATCAAG
Statistics
Matches: 129, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
53 13 0.10
54 112 0.87
55 4 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
CAGGAGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTTTACAAAT
Found at i:45178609 original size:27 final size:26
Alignment explanation
Indices: 45178445--45178650 Score: 180
Period size: 27 Copynumber: 7.7 Consensus size: 26
45178435 TACCCTACAG
* *
45178445 GGGTATTTTGAT-ATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAA-CCA
** * * * *
45178471 AAGTATTTCGATAATTTCACAAATCA
1 GGGTATTTTGGTAATTTTACAAACCA
*
45178497 GGAGTATTTTGGTAATTTTACAAGCCA
1 GG-GTATTTTGGTAATTTTACAAACCA
45178524 GAGGTATTTTGGTAATTTTACAAACCA
1 G-GGTATTTTGGTAATTTTACAAACCA
* *
45178551 GGAGTATTTTAGTAATTTTACAAACTA
1 GG-GTATTTTGGTAATTTTACAAACCA
* * *
45178578 GGGGTATTTTGGTAATTTTACTGATCGA
1 -GGGTATTTTGGTAATTTTAC-AAACCA
**
45178606 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACC-A
**
45178633 GGGTATTTCAGTAATTTT
1 GGGTATTTTGGTAATTTT
45178651 GTAAATCAAG
Statistics
Matches: 146, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
26 13 0.09
27 127 0.87
28 6 0.04
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACCA
Found at i:45178650 original size:81 final size:81
Alignment explanation
Indices: 45178446--45178650 Score: 224
Period size: 81 Copynumber: 2.5 Consensus size: 81
45178436 ACCCTACAGG
* * * *
45178446 GGTATTTTGAT-ATTTTACAAATC-GAAAGTATTTC-GATAATTTCACAAATCAGGAGTATTTTG
1 GGTATTTTGGTAATTTTACAAACCAG-GAGTATTTCAG-TAATTTTACAAATCAGGAGTATTTTG
45178508 GTAATTTTACAAGCCAGA
64 GTAATTTTACAAGCCAGA
* *
45178526 GGTATTTTGGTAATTTTACAAACCAGGAGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTGG
1 GGTATTTTGGTAATTTTACAAACCAGGAGTATTTCAGTAATTTTACAAATC-AGGAGTATTTTGG
* * *
45178590 TAATTTTACTGATCGAG-
65 TAATTTTAC-AAGCCAGA
**
45178607 GGTATTTTGGTAATTTTGTAAACCAAGG-GTATTTCAGTAATTTT
1 GGTATTTTGGTAATTTTACAAACC-AGGAGTATTTCAGTAATTTT
45178651 GTAAATCAAG
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
80 11 0.10
81 87 0.81
82 9 0.08
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACCAGGAGTATTTCAGTAATTTTACAAATCAGGAGTATTTTGGT
AATTTTACAAGCCAGA
Found at i:45178651 original size:27 final size:27
Alignment explanation
Indices: 45178579--45178898 Score: 126
Period size: 27 Copynumber: 11.9 Consensus size: 27
45178569 TACAAACTAG
* * * *
45178579 GGGTATTTTGGTAATTTTACT-GATCGA
1 GGGTATTTCGGTAATTTT-GTAAATCAA
* *
45178606 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTGTAAATCAA
*
45178633 GGGTATTTCAGTAATTTTGTAAATCAA
1 GGGTATTTCGGTAATTTTGTAAATCAA
*** *
45178660 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCAA
*** * * **
45178687 GGGTAAAACGATAATTCTGTAAATTGA
1 GGGTATTTCGGTAATTTTGTAAATCAA
** * *
45178714 GGGTAAAAT-GGTAATTTTATAAATCGA
1 GGGT-ATTTCGGTAATTTTGTAAATCAA
*** * * *
45178741 GGGTAAAACTGTAATTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCAA
** *
45178768 GGGTAAAAT-GGTAATTTTATAAATCAA
1 GGGT-ATTTCGGTAATTTTGTAAATCAA
*** * * *
45178795 GGGTAAAACGGTAACTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTGTAAATCAA
*** * **
45178822 GGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTATTTCGGTAATTTTGTAAATCAA
** **
45178849 GGGTACTTT-GGTAATTTTACAAATTGA
1 GGGTA-TTTCGGTAATTTTGTAAATCAA
* * *
45178876 GGGCATTTCAGTAATTTGGTAAA
1 GGGTATTTCGGTAATTTTGTAAA
45178899 CTAAAGTATT
Statistics
Matches: 239, Mismatches: 47, Indels: 14
0.80 0.16 0.05
Matches are distributed among these distances:
26 10 0.04
27 223 0.93
28 6 0.03
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTGTAAATCAA
Found at i:45178673 original size:54 final size:53
Alignment explanation
Indices: 45178615--45178845 Score: 291
Period size: 54 Copynumber: 4.3 Consensus size: 53
45178605 AGGGTATTTT
* *** * *
45178615 GGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCAAGGGTAAAAC
1 GGTAATTTTGTAAATCAAGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAAC
* * *
45178669 GGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAAT
1 GGTAATTTTGTAAATCAAGGGTAAAACG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
45178723 GGTAATTTTATAAATCGAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTTTGTAAATCAAGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAAC
* *
45178777 GGTAATTTTATAAATCAAGGGTAAAACGGTAACTCTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCAAGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAAC
*
45178831 GGTAATTCTGTAAAT
1 GGTAATTTTGTAAAT
45178846 TGAGGGTACT
Statistics
Matches: 158, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 156 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (53 bp):
GGTAATTTTGTAAATCAAGGGTAAAACGTAATTCTGTAAATCGAGGGTAAAAC
Done.