Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 125 of 345
Found at i:42164254 original size:28 final size:27
Alignment explanation
Indices: 42164186--42164254 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 27
42164176 CAATACACAA
* * *
42164186 ATTAAAAATATAATAAAAAGTGATTAT
1 ATTAAAAATAAAATAAAAAGTAAATAT
* * *
42164213 ACTAAAATTAAAAATAAAATGTAAATAT
1 ATTAAAAAT-AAAATAAAAAGTAAATAT
42164241 GATTAAAAATAAAA
1 -ATTAAAAATAAAA
42164255 AAATATATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 7 0.22
28 18 0.56
29 7 0.22
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (27 bp):
ATTAAAAATAAAATAAAAAGTAAATAT
Found at i:42171829 original size:21 final size:21
Alignment explanation
Indices: 42171800--42171841 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42171790 TGTGAAACAA
42171800 TGTGATCTGAACTCATGAGAT
1 TGTGATCTGAACTCATGAGAT
* **
42171821 TGTGGTCTGAGTTCATGAGAT
1 TGTGATCTGAACTCATGAGAT
42171842 AAGTGATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.36
Consensus pattern (21 bp):
TGTGATCTGAACTCATGAGAT
Found at i:42178406 original size:43 final size:43
Alignment explanation
Indices: 42178358--42178507 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
42178348 ATTACCGAGA
42178358 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
** *
42178401 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCAT--TGTAT
* * * * * *
42178444 TATGATTTCTTGTAAGACCCTGTTTGGGATAGTGGCATTG-AT
1 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
* *
42178486 ATGTGATAACATGTAAGTCCAT
1 -TGTGATTACATGTAAGACCAT
42178508 ATCCAGGATA
Statistics
Matches: 85, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
43 80 0.94
44 2 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.37
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
Found at i:42188832 original size:26 final size:27
Alignment explanation
Indices: 42188802--42188852 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
42188792 CCAATGAACC
*
42188802 GGGGAATCAGCACTTAGC-ACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
42188828 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
42188853 TTCACATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.27, C:0.33, G:0.25, T:0.14
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:42188842 original size:100 final size:102
Alignment explanation
Indices: 42188668--42188926 Score: 398
Period size: 101 Copynumber: 2.6 Consensus size: 102
42188658 TAACCGTTAT
* * *
42188668 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCTCGGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGGA
42188733 ATCAGCACATAG-AACCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCTTTCACATTTCAAAGATA
* *
42188769 TGGTGGATATCGCACTTAGCA-CACCAATGAACCGGGGAATCAGCACTTAGCACCCCTCGGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGGA
42188833 ATCAGCACATAGCAACCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCTTTCACATTTCAAAGATA
* * * **
42188870 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCC
42188927 CTTTTATATA
Statistics
Matches: 143, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
100 51 0.36
101 62 0.43
102 30 0.21
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGGA
ATCAGCACATAGCAACCCCTTTCACATTTCAAAGATA
Found at i:42195815 original size:104 final size:104
Alignment explanation
Indices: 42195635--42195901 Score: 437
Period size: 104 Copynumber: 2.6 Consensus size: 104
42195625 TAACCGTTAT
* * *
42195635 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
42195700 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
42195739 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
42195804 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * **
42195843 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
42195902 TTTATATACA
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
104 151 0.99
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:42206108 original size:94 final size:94
Alignment explanation
Indices: 42205947--42206157 Score: 388
Period size: 94 Copynumber: 2.2 Consensus size: 94
42205937 GCATTGTTGG
*
42205947 GATTA-CCAGTCCAGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTG
1 GATTACCCA-TCCGGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTG
*
42206011 CCAGTCCAGGCTAAATTCAGTCCTCAATCA
65 CCAGTCCAGGCTAAATTAAGTCCTCAATCA
42206041 GATTACCCATCCGGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTGC
1 GATTACCCATCCGGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTGC
42206106 CAGTCCAGGCTAAATTAAGTCCTCAATCA
66 CAGTCCAGGCTAAATTAAGTCCTCAATCA
42206135 GATTACCCATCCGGGCTAAATCC
1 GATTACCCATCCGGGCTAAATCC
42206158 TAATTGCACC
Statistics
Matches: 114, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
94 111 0.97
95 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (94 bp):
GATTACCCATCCGGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTGC
CAGTCCAGGCTAAATTAAGTCCTCAATCA
Found at i:42211689 original size:37 final size:37
Alignment explanation
Indices: 42211639--42211711 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
42211629 CATGAAAATA
42211639 CTTTCGAAAACTAAGTCGTTGATAAGCCATTTTGTTG
1 CTTTCGAAAACTAAGTCGTTGATAAGCCATTTTGTTG
42211676 CTTTCGAAAACTAAGTCGTTGATAAGCCATTTTGTT
1 CTTTCGAAAACTAAGTCGTTGATAAGCCATTTTGTT
42211712 ATCTTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (37 bp):
CTTTCGAAAACTAAGTCGTTGATAAGCCATTTTGTTG
Found at i:42222284 original size:112 final size:112
Alignment explanation
Indices: 42222087--42222307 Score: 424
Period size: 112 Copynumber: 2.0 Consensus size: 112
42222077 CTCAAGTATC
42222087 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAATCT
1 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAATCT
* *
42222152 CACTCGTTGATTTAAAATCGTAATTTTGACATATTTTGTAAAATGTA
66 CACTCATTGATTTAAAATCGTAATTTTGACATATCTTGTAAAATGTA
42222199 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAATCT
1 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAATCT
42222264 CACTCATTGATTTAAAATCGTAATTTTGACATATCTTGTAAAAT
66 CACTCATTGATTTAAAATCGTAATTTTGACATATCTTGTAAAAT
42222308 ATCAATTAAA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (112 bp):
AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAATCT
CACTCATTGATTTAAAATCGTAATTTTGACATATCTTGTAAAATGTA
Found at i:42224448 original size:35 final size:35
Alignment explanation
Indices: 42224399--42224493 Score: 127
Period size: 35 Copynumber: 2.7 Consensus size: 35
42224389 AATTTCAACA
* * * *
42224399 GGCATGCTTTACATGCGAATCAAAACCAGTATAGT
1 GGCATGCTTAACATGTGAATCAAAACCAATATAAT
* *
42224434 GGCATGCTTAACATGTGAATCAGAATCAATATAAT
1 GGCATGCTTAACATGTGAATCAAAACCAATATAAT
*
42224469 GGCGTGCTTAACATGTGAATCAAAA
1 GGCATGCTTAACATGTGAATCAAAA
42224494 TATCAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (35 bp):
GGCATGCTTAACATGTGAATCAAAACCAATATAAT
Found at i:42227445 original size:22 final size:22
Alignment explanation
Indices: 42227420--42227466 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
42227410 CATTATCCAT
*
42227420 AATAATAATAATAAACAAATAA
1 AATAATAATAATAAACAAACAA
* *
42227442 AATAATAATGATAACCAAACAA
1 AATAATAATAATAAACAAACAA
42227464 AAT
1 AAT
42227467 TCTAATCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.09, G:0.02, T:0.21
Consensus pattern (22 bp):
AATAATAATAATAAACAAACAA
Found at i:42230834 original size:21 final size:21
Alignment explanation
Indices: 42230810--42230886 Score: 82
Period size: 21 Copynumber: 3.4 Consensus size: 21
42230800 TTTTTTTCTT
42230810 TTTTCCATATTTGATTCTCTA
1 TTTTCCATATTTGATTCTCTA
* * *
42230831 TTTTTCATATATGTTATTCTCTT
1 TTTTCCATAT-T-TGATTCTCTA
42230854 TCATTTCCTATATTTGATTCTCTA
1 T--TTTCC-ATATTTGATTCTCTA
42230878 TTTTCCATA
1 TTTTCCATA
42230887 AAATATTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
21 12 0.27
22 6 0.13
23 9 0.20
24 9 0.20
25 5 0.11
26 4 0.09
ACGTcount: A:0.19, C:0.18, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTCCATATTTGATTCTCTA
Found at i:42230835 original size:23 final size:23
Alignment explanation
Indices: 42230808--42230881 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
42230798 TTTTTTTTTC
42230808 TTTTTTCCATATTTGATTCTCTA
1 TTTTTTCCATATTTGATTCTCTA
*
42230831 -TTTTT-CATATATGTTATTCTCT-
1 TTTTTTCCATAT-T-TGATTCTCTA
*
42230853 TTCATTTCCTATATTTGATTCTCTA
1 TT-TTTTCC-ATATTTGATTCTCTA
42230878 TTTT
1 TTTT
42230882 CCATAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
21 5 0.12
22 6 0.15
23 9 0.22
24 12 0.30
25 4 0.10
26 4 0.10
ACGTcount: A:0.18, C:0.16, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTTCCATATTTGATTCTCTA
Found at i:42236196 original size:42 final size:43
Alignment explanation
Indices: 42236090--42236405 Score: 302
Period size: 40 Copynumber: 7.7 Consensus size: 43
42236080 GTGTTTTTAG
** * *
42236090 TCTGCTCCACTACTATTTAGGGAGATAAGAT-TG-GGTGT-GA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCGT
*
42236130 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTC-T
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCGT
* * * * * *
42236172 TCTGCCCCGCTACTGCTTAAGGAGATAAGA-CT-T-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCGT
42236212 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCGT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCGT
* * * * *
42236255 CCT-CTCCGCTACTGCTTAGGGAGATAAGA-CT-T-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCGT
* * *
42236294 TCTGCTCCACTATTTCTTAGGGAGATAAGATCTGTGGTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCGT
* * * *
42236336 TCTGCTCCACTACTGCTTAGGGAGATGAGA-CT-T-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCGT
* *
42236376 TCTGCTCCACTATTACTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
42236406 CCTGAAATCT
Statistics
Matches: 227, Mismatches: 37, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
39 12 0.05
40 110 0.48
41 12 0.05
42 84 0.37
43 9 0.04
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (43 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCGT
Found at i:42236200 original size:82 final size:82
Alignment explanation
Indices: 42236090--42236405 Score: 458
Period size: 82 Copynumber: 3.9 Consensus size: 82
42236080 GTGTTTTTAG
* ** * *
42236090 TCTGCTCCACTACTATTTAGGGAGATAAGA-TTGGGTGTGATCTGCTCCACTACTACTTAGGGAG
1 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTT-GATGCGATCTGCTCCACTACTACTTAGGGAG
42236154 ATAAGATCTGTGGTTTCT
65 ATAAGATCTGTGGTTTCT
* * *
42236172 TCTGCCCCGCTACTGCTTAAGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAGA
42236237 TAAGATCTGTGGTTTCGT
66 TAAGATCTGTGGTTTC-T
* * *
42236255 CCT-CTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTTCTTAGGGAGA
1 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAGA
42236319 TAAGATCTGTGGTTT-T
66 TAAGATCTGTGGTTTCT
* * *
42236335 GTCTGCTCCACTACTGCTTAGGGAGATGAGACTTGATGCGATCTGCTCCACTATTACTTAGGGAG
1 -TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAG
42236400 ATAAGA
65 ATAAGA
42236406 CCTGAAATCT
Statistics
Matches: 213, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
80 1 0.00
81 2 0.01
82 205 0.96
83 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (82 bp):
TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAGA
TAAGATCTGTGGTTTCT
Found at i:42236845 original size:132 final size:132
Alignment explanation
Indices: 42236558--42238013 Score: 2413
Period size: 132 Copynumber: 11.1 Consensus size: 132
42236548 CTGTTTTTCA
* * ** * * *
42236558 ATCCACTTCCTACCAATATAAGAAGGCAGGATCTGCTATCTTCGATCTATTTCACACCAATATAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
42236623 GAATACAAGATCTGCTTTCTTCGATCTACTT--CCACCAATATAGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
42236686 GG
131 CG
*
42236688 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
42236753 GAAGGCAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
42236818 GG
131 CG
*
42236820 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
42236885 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
42236950 CG
131 CG
*
42236952 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
42237017 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
42237082 GG
131 CG
*
42237084 ATCCACTTCCTATCAATGTAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
42237149 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
42237214 CG
131 CG
* * * * *
42237216 ATCCCCTTCCTACCAATATAGGAAGATAGGATCTACTACCTTCGATCTTCTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
42237281 GGAGACAAGATCTGCTTTCTGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
42237346 CG
131 CG
42237348 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
42237413 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
42237478 GG
131 CG
* * *
42237480 ATCCACTTCCTATCAATGTAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
42237545 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
42237610 CG
131 CG
* * * * * *
42237612 ATCCCCTTCCTACCAATATAGGAAGATAGGATCTACTACCTTCGATCTTCTTCACGCTAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
42237677 GGAGACAAGATCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
42237742 CG
131 CG
42237744 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
42237809 GAAGGCAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
42237874 GG
131 CG
* * *
42237876 ATCCACTTCCTATCATTATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * *
42237941 GAAGACAAGATTTGCTTTCTTCGATCCAC-TC-CCTACCAATA-GGG-AGACAGGA-CTGTTATC
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC-ACCAATATGGGAAGACAAGATCTG-CATC
42238001 TTCG
129 TTCG
*
42238005 ATCTACTTC
1 ATCCACTTC
42238014 ACGCCAATAC
Statistics
Matches: 1254, Mismatches: 68, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
128 3 0.00
129 21 0.02
130 90 0.07
131 9 0.01
132 1131 0.90
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
ATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
CG
Found at i:42238021 original size:41 final size:42
Alignment explanation
Indices: 42236587--42238263 Score: 786
Period size: 44 Copynumber: 38.3 Consensus size: 42
42236577 AAGAAGGCAG
* * * * *
42236587 GATCTGCTATCTTCGATCTATTTCACACCAATATATGAATACAA
1 GATCTGCTTTCTTCGATCTACTTCACGCC-A-ATAGGAAGACAA
*
42236631 GATCTGCTTTCTTCGATCTACTTCCAC-CAATATAGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTT-CACGCCA-ATAGGAAGACAA
* * * * * * *
42236674 GATCTGC-ATCTTGGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCAC--GCCA-ATAGGAAGACAA
* * * *
42236717 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGGCAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
* * *
42236761 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-ACGCCAATA--GGAAGACAA
* * * * * * *
42236806 GATCTGC-ATCTTGGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCAC--GCCA-ATAGGAAGACAA
* * *
42236849 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
* * *
42236893 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-ACGCCAATA--GGAAGACAA
* * * * * *
42236938 GATCTGC-ATCTTCGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCAC--GCCA-ATAGGAAGACAA
* * *
42236981 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
* * *
42237025 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-ACGCCAATA--GGAAGACAA
* * * ** * *
42237070 GATCTGC-ATCTTGGATCCACTTC-CTATCAATGTAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCAC-GCCAA--TAGGAAGACAA
* *
42237113 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
* * *
42237157 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-ACGCCAATA--GGAAGACAA
* ** * * *
42237202 GATCTGC-ATCTTCGATCCCCTTCCTAC-CAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTT-C-ACGCCA-ATAGGAAGACAA
* ** *
42237245 GATCTACTACCTTCGATCTTCTTCACGCCAATACATGG-AGACAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--A-GGAAGACAA
* *
42237289 GATCTGCTTTCTGCGATCTACTTCACCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCA-CGCCAATA--GGAAGACAA
* * * * * *
42237334 GATCTGC-ATCTTCGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCAC--GCCA-ATAGGAAGACAA
* *
42237377 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
* * *
42237421 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-ACGCCAATA--GGAAGACAA
* * * ** * *
42237466 GATCTGC-ATCTTGGATCCACTTC-CTATCAATGTAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCAC-GCCAA--TAGGAAGACAA
* ** *
42237509 GACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
* * *
42237553 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-ACGCCAATA--GGAAGACAA
* ** * * *
42237598 GATCTGC-ATCTTCGATCCCCTTCCTAC-CAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTT-C-ACGCCA-ATAGGAAGACAA
* ** * *
42237641 GATCTACTACCTTCGATCTTCTTCACGCTAATACATGG-AGACAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--A-GGAAGACAA
* * * *
42237685 GATCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-ACGCCAATA--GGAAGACAA
* * * * * *
42237730 GATCTGC-ATCTTCGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCAC--GCCA-ATAGGAAGACAA
* * *
42237773 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGGCAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
* * *
42237817 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-ACGCCAATA--GGAAGACAA
* * * ** * *
42237862 GATCTGC-ATCTTGGATCCACTTC-CTATCATTATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCAC-GCCA--ATAGGAAGACAA
* ** *
42237905 GACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
* * * * * *
42237949 GATTTGCTTTCTTCGATCCAC-TCCCTACCAATAGGGAGACAG
1 GATCTGCTTTCTTCGATCTACTTCAC-GCCAATAGGAAGACAA
*
42237991 GA-CTG-TTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTT-TCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
* * * * * * *
42238034 GATCTGC-ATCTTGGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCAC--GCCA-ATAGGAAGACAA
* * * * *
42238077 GACCTGCTATCCTCGATCTACTTCACGCCAATACATGAAGATAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
* *
42238121 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTC-ACGCCAATA--GGAAGACAA
* * * * *
42238166 GATCTGC-ATCTTCGATCCACTTCCTAC-CAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTT-C-ACGCCA-ATAGGAAGACAA
* * * *
42238209 GATCTGCTATCCTCGATCTACTTCATGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCACGCCAAT--AGGAAGACAA
42238253 GATCTGCTTTC
1 GATCTGCTTTC
42238264 ATGACTTCAA
Statistics
Matches: 1245, Mismatches: 267, Indels: 242
0.71 0.15 0.14
Matches are distributed among these distances:
40 3 0.00
41 19 0.02
42 59 0.05
43 253 0.20
44 658 0.53
45 253 0.20
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
GATCTGCTTTCTTCGATCTACTTCACGCCAATAGGAAGACAA
Found at i:42243773 original size:266 final size:266
Alignment explanation
Indices: 42243299--42243830 Score: 992
Period size: 266 Copynumber: 2.0 Consensus size: 266
42243289 GCGGATACAT
* *
42243299 ATACGGCTTTGCCCTCATATGTGGAGACATTCGATCATTTTCTTCGTTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
* *
42243364 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCTGGGTCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
*
42243429 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAAAAAGTTCAGCGGCTCTCGAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAAAAAGTTCAGCGGCTCTCAAATA
*
42243494 ATCCTTGTCACATTAAATTCTAGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTAGGGCCACGGAGAAATGGTTGTGTGGTCCTCCATTAAACTATCA
42243559 TCCTTC
261 TCCTTC
42243565 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
42243630 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
*
42243695 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAAAAAGTTCAGCGGCTCTCAAATA
*
42243760 ATCCTTGTCACATTAAATTCTTGGGCCACGGAGAAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTAGGGCCACGGAGAAATGGTTGTGTGGTCCTCCATTAAACTATCA
42243825 TCCTTC
261 TCCTTC
42243831 TCTTATCACG
Statistics
Matches: 258, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
266 258 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (266 bp):
ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAAAAAGTTCAGCGGCTCTCAAATA
ATCCTTGTCACATTAAATTCTAGGGCCACGGAGAAATGGTTGTGTGGTCCTCCATTAAACTATCA
TCCTTC
Found at i:42247038 original size:15 final size:15
Alignment explanation
Indices: 42247018--42247049 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
42247008 GTGGGCTGGA
42247018 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
42247033 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
42247048 GG
1 GG
42247050 GGCCACGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.56, T:0.06
Consensus pattern (15 bp):
GGCGTGGCAGACGAG
Found at i:42247993 original size:30 final size:30
Alignment explanation
Indices: 42247959--42248018 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
42247949 ATAGGTGGGT
42247959 AAGTTTAAAGAATTGATTTTTTAGTCAAAC
1 AAGTTTAAAGAATTGATTTTTTAGTCAAAC
*
42247989 AAGTTTAAAGAATTGATTTTTTATTCAAAC
1 AAGTTTAAAGAATTGATTTTTTAGTCAAAC
42248019 CCTTGTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (30 bp):
AAGTTTAAAGAATTGATTTTTTAGTCAAAC
Found at i:42255574 original size:29 final size:29
Alignment explanation
Indices: 42255541--42255598 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
42255531 TTTTAATACT
42255541 AGAACTCATTCATTACTTTATCATCAAAC
1 AGAACTCATTCATTACTTTATCATCAAAC
42255570 AGAACTCATTCATTACTTTATCATCAAAC
1 AGAACTCATTCATTACTTTATCATCAAAC
42255599 GTAAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (29 bp):
AGAACTCATTCATTACTTTATCATCAAAC
Found at i:42260672 original size:67 final size:67
Alignment explanation
Indices: 42260599--42260728 Score: 183
Period size: 67 Copynumber: 1.9 Consensus size: 67
42260589 TCCTTTTCAA
* * *
42260599 AGAGCACACT-CTCGCAAACCTCATTTCTTACAGC-AGGATTACTAGTCAAGGCTAAATCCCCTG
1 AGAGCACACTCCT-GCAAACATCATTTCTTACAACGA-GATTACCAGTCAAGGCTAAATCCCCTG
42260662 TAAG
64 TAAG
* *
42260666 AGAGCACACTCCTGCAAACATTATTTCTTACAACGAGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGCACACTCCTGCAAACATCATTTCTTACAACGAGATTACCAGTCAAGGCTAAATCCCCTG
42260729 CAATGACAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 53 0.95
68 3 0.05
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (67 bp):
AGAGCACACTCCTGCAAACATCATTTCTTACAACGAGATTACCAGTCAAGGCTAAATCCCCTGTA
AG
Found at i:42260943 original size:58 final size:58
Alignment explanation
Indices: 42260800--42260936 Score: 204
Period size: 58 Copynumber: 2.4 Consensus size: 58
42260790 CATTTACTTT
* *
42260800 AGATCACCCGTCCGGGCTAAATCCATTTCACACATATTCTTCAGGAGGGCTTATATCA
1 AGATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTCAGGAGGGCTTATATCA
* * *
42260858 GGATCACCCGTTCGGGTTAGATCCTTTTCACACATATTCTTC-GGAAGGGCTTATATCA
1 AGATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTCAGG-AGGGCTTATATCA
*
42260916 AGATCACCCGTCCGAGCTAGA
1 AGATCACCCGTCCGGGCTAGA
42260937 CTCTTTTTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 2 0.03
58 67 0.97
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (58 bp):
AGATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTCAGGAGGGCTTATATCA
Found at i:42264054 original size:30 final size:30
Alignment explanation
Indices: 42264018--42264082 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
42264008 GGTTGGTGAA
*
42264018 TTTTTTGA-AGCAAAGAGAGTTGCTGAAATT
1 TTTTTTGATAG-AAAGAGAGTTGCTGAAATG
*
42264048 TTTTTTGATTGAAAGAGAGTTGCTGAAATG
1 TTTTTTGATAGAAAGAGAGTTGCTGAAATG
42264078 TTTTT
1 TTTTT
42264083 GAATGAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.43
Consensus pattern (30 bp):
TTTTTTGATAGAAAGAGAGTTGCTGAAATG
Found at i:42264133 original size:28 final size:28
Alignment explanation
Indices: 42264016--42264137 Score: 104
Period size: 28 Copynumber: 4.2 Consensus size: 28
42264006 AGGGTTGGTG
*
42264016 AATTTTTTGAA-GCAAAGAGAGTTGCTGA
1 AATTTTTTGAATG-AAAGAGAGTTGATGA
* *
42264044 AATTTTTTTTGATTGAAAGAGAGTTGCTGA
1 AA--TTTTTTGAATGAAAGAGAGTTGATGA
* * *
42264074 AATGTTTTTGAATGAAATAG-GATTCATCA
1 AAT-TTTTTGAATGAAAGAGAG-TTGATGA
* * *
42264103 AATTTTTTGAACGAAATAGAGTTAATGA
1 AATTTTTTGAATGAAAGAGAGTTGATGA
42264131 AATTTTT
1 AATTTTT
42264138 AAAGGATATT
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
28 31 0.39
29 22 0.28
30 25 0.32
31 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (28 bp):
AATTTTTTGAATGAAAGAGAGTTGATGA
Found at i:42266496 original size:24 final size:22
Alignment explanation
Indices: 42266469--42266537 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 22
42266459 TAAAACATAT
*
42266469 AAAGAAAGAAAGAAATAGAAATA
1 AAAGAAAGAAAGAAA-AGAAAGA
*
42266492 GAAAGAACA-AACGAAAAAGAAAGA
1 -AAAGAA-AGAAAG-AAAAGAAAGA
42266516 AACAGAAAGGAAAGAAAAGAAA
1 AA-AGAAA-GAAAGAAAAGAAA
42266538 AAGGGAAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 3 0.08
24 27 0.73
25 7 0.19
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.03
Consensus pattern (22 bp):
AAAGAAAGAAAGAAAAGAAAGA
Found at i:42266528 original size:15 final size:14
Alignment explanation
Indices: 42266469--42266537 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 14
42266459 TAAAACATAT
42266469 AAAGAAA-GAAAGA
1 AAAGAAAGGAAAGA
*
42266482 AATAGAAATAGAAAGAA
1 AA-AGAAA-GGAAAG-A
*
42266499 CAAACGAAAAAGAAAGA
1 -AAA-G-AAAGGAAAGA
42266516 AACAGAAAGGAAAGA
1 AA-AGAAAGGAAAGA
42266531 AAAGAAA
1 AAAGAAA
42266538 AAGGGAAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 15
0.75 0.02 0.24
Matches are distributed among these distances:
13 2 0.04
14 10 0.21
15 11 0.23
16 8 0.17
17 4 0.09
18 9 0.19
19 3 0.06
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.03
Consensus pattern (14 bp):
AAAGAAAGGAAAGA
Found at i:42267252 original size:15 final size:15
Alignment explanation
Indices: 42267232--42267279 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
42267222 TGATGAATTT
42267232 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
42267247 ATTGAATTGATATAT-
1 ATTGAATTTATAT-TG
*
42267262 ATTGAATATATATTG
1 ATTGAATTTATATTG
42267277 ATT
1 ATT
42267280 ATTTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:42267252 original size:24 final size:26
Alignment explanation
Indices: 42267198--42267255 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
42267188 GTGTTTTGCA
42267198 ATTGAATTGGATTGATTTAGTATGTG
1 ATTGAATTGGATTGATTTAGTATGTG
*
42267224 A-TGAATT-TATTGAATTTA-TAT-TG
1 ATTGAATTGGATTG-ATTTAGTATGTG
42267247 ATTGAATTG
1 ATTGAATTG
42267256 ATATATATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.11
24 13 0.46
25 11 0.39
26 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (26 bp):
ATTGAATTGGATTGATTTAGTATGTG
Found at i:42267474 original size:41 final size:38
Alignment explanation
Indices: 42267413--42267549 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 38
42267403 CTTCGATTCA
* * *
42267413 ATGAGACACTGGGTGTCAATTTACTACTTCGAATTAATTCG
1 ATGAGACACTAGGTGCCAA-TTA-TACTTCGAATT-ATCCG
* *
42267454 ATGAGACACTAGGTGCCAATT-TACTTCGATTTAGCCG
1 ATGAGACACTAGGTGCCAATTATACTTCGAATTATCCG
* * *
42267491 ATAAGACACTGGGTGTCAAATTATTACTTCGAATTATCCG
1 ATGAGACACTAGGTG-CCAATTA-TACTTCGAATTATCCG
*
42267531 ATGAGGCACTAGGTGCCAA
1 ATGAGACACTAGGTGCCAA
42267550 ACTGGTGTGT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
37 16 0.20
38 15 0.19
39 3 0.04
40 28 0.35
41 17 0.22
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (38 bp):
ATGAGACACTAGGTGCCAATTATACTTCGAATTATCCG
Found at i:42271301 original size:23 final size:23
Alignment explanation
Indices: 42271275--42271324 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
42271265 CCATGTACAG
*
42271275 ATATCATCATCTCAT-ATTTCCAT
1 ATATCAT-ATATCATCATTTCCAT
*
42271298 ATATCATATATCATCATTTTCAT
1 ATATCATATATCATCATTTCCAT
42271321 ATAT
1 ATAT
42271325 TTCAAGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATCATATATCATCATTTCCAT
Found at i:42279436 original size:10 final size:9
Alignment explanation
Indices: 42279415--42279478 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 9
42279405 TAAAACAAAT
42279415 AAAG-AAAG
1 AAAGAAAAG
42279423 AAAGAAATAG
1 AAAGAAA-AG
42279433 AAAGAAAA-
1 AAAGAAAAG
*
42279441 AACGAAAAAG
1 AAAG-AAAAG
*
42279451 AAAGGAACAG
1 AAA-GAAAAG
*
42279461 AAAGGAAAG
1 AAAGAAAAG
42279470 AAAAGAAAA
1 -AAAGAAAA
42279479 AGGGAAGGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
8 7 0.16
9 11 0.25
10 25 0.57
11 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.02
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:42279436 original size:14 final size:13
Alignment explanation
Indices: 42279415--42279477 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 13
42279405 TAAAACAAAT
42279415 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
42279428 AATAGAAAGAAA-A
1 AA-AGAAAGAAAGA
*
42279441 AACGAAAAAGAAAGGA
1 AA--AGAAAGAAA-GA
*
42279457 ACAGAAAGGAAAGA
1 AAAGAAA-GAAAGA
42279471 AAAGAAA
1 AAAGAAA
42279478 AAGGGAAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 5 0.12
14 29 0.73
15 4 0.10
16 2 0.05
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.02
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:42279469 original size:33 final size:33
Alignment explanation
Indices: 42279406--42279473 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
42279396 ATATTATAAT
42279406 AAAACAAATAAAGAAAGAAAGAAATAGAAAGAA
1 AAAACAAATAAAGAAAGAAAGAAATAGAAAGAA
* *
42279439 AAAACGAA-AAAGAAAGGAACAGAAA-GGAAAGAA
1 AAAACAAATAAAGAAA-GAA-AGAAATAGAAAGAA
42279472 AA
1 AA
42279474 GAAAAAGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 7 0.23
33 19 0.61
34 5 0.16
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.03
Consensus pattern (33 bp):
AAAACAAATAAAGAAAGAAAGAAATAGAAAGAA
Found at i:42280185 original size:24 final size:26
Alignment explanation
Indices: 42280131--42280188 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
42280121 GTGTTTTGCA
42280131 ATTGAATTGGATTGATTTAGTATGTG
1 ATTGAATTGGATTGATTTAGTATGTG
*
42280157 A-TGAATT-TATTGAATTTA-TAT-TG
1 ATTGAATTGGATTG-ATTTAGTATGTG
42280180 ATTGAATTG
1 ATTGAATTG
42280189 ATATATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.11
24 13 0.46
25 11 0.39
26 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (26 bp):
ATTGAATTGGATTGATTTAGTATGTG
Found at i:42280467 original size:40 final size:40
Alignment explanation
Indices: 42280347--42280485 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
42280337 ACTTTGAGTT
* * * * *
42280347 GATGTGACATTGGGTGTTAATTTACTACTTCGGATTAACTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAC-C
* * * *
42280388 GATGAGACACTGAGTCTC-AA-T-TTACTTCGGTTTAGCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATTAACC
* * *
42280425 GATGAAACACTGGGTGTCAAATTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATTAACC
*
42280465 GATGAGGCACTGGGTGTCAAA
1 GATGAGACACTGGGTGTCAAA
42280486 CTTGTGTGTT
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 16 0.21
38 14 0.18
39 2 0.03
40 33 0.42
41 13 0.17
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGGATTAACC
Found at i:42283407 original size:27 final size:27
Alignment explanation
Indices: 42283384--42283439 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
42283374 AATATATTTA
* * *
42283384 TATTTTCATTATATTTTATGATATGTT
1 TATTTTAAATATATTTTATAATATGTT
* *
42283411 TATTTTAAATGTATTTTATAATATATT
1 TATTTTAAATATATTTTATAATATGTT
42283438 TA
1 TA
42283440 AAATAAGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (27 bp):
TATTTTAAATATATTTTATAATATGTT
Found at i:42293779 original size:13 final size:13
Alignment explanation
Indices: 42293761--42293826 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
42293751 AGTTTAGCAT
*
42293761 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
42293774 TGCTTTTAAAAAA
1 TGCTTTTGAAAAG
* *
42293787 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* * *
42293800 TGATTTAGAGAAG
1 TGCTTTTGAAAAG
*
42293813 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
42293826 T
1 T
42293827 TTGGTTTAAG
Statistics
Matches: 38, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:42300233 original size:32 final size:32
Alignment explanation
Indices: 42300192--42300256 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
42300182 TATGAGTGGG
42300192 TTGTAACCAAGAAGGCTGGAAGGTCATCAGAA
1 TTGTAACCAAGAAGGCTGGAAGGTCATCAGAA
42300224 TTGTAACCAAGAAGGCTGGAAGGTCATCAGAA
1 TTGTAACCAAGAAGGCTGGAAGGTCATCAGAA
42300256 T
1 T
42300257 CTGACTTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (32 bp):
TTGTAACCAAGAAGGCTGGAAGGTCATCAGAA
Found at i:42304118 original size:15 final size:16
Alignment explanation
Indices: 42304086--42304118 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
42304076 AAATTTGCAC
42304086 TTGGAAGGGTTAAAGG
1 TTGGAAGGGTTAAAGG
42304102 TTGGAAGGGTT-AAGG
1 TTGGAAGGGTTAAAGG
42304117 TT
1 TT
42304119 CCCTATAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.30
Consensus pattern (16 bp):
TTGGAAGGGTTAAAGG
Found at i:42305955 original size:6 final size:6
Alignment explanation
Indices: 42305946--42305982 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
42305936 TCTAAATGCT
42305946 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A
42305983 AACATTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:42308960 original size:18 final size:18
Alignment explanation
Indices: 42308939--42308975 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
42308929 CCGTCCCCGA
42308939 CCACCTCCACCTCCGCCT
1 CCACCTCCACCTCCGCCT
* *
42308957 CCACGTCCACCTCTGCCT
1 CCACCTCCACCTCCGCCT
42308975 C
1 C
42308976 TAGAATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.62, G:0.08, T:0.19
Consensus pattern (18 bp):
CCACCTCCACCTCCGCCT
Found at i:42310536 original size:22 final size:20
Alignment explanation
Indices: 42310511--42310552 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
42310501 GATGCATGGG
*
42310511 TTAGTTATTTAATATATATTTT
1 TTAGTTAATTAA-A-ATATTTT
42310533 TTAGTTAATTAAAATATTTT
1 TTAGTTAATTAAAATATTTT
42310553 AAATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTAGTTAATTAAAATATTTT
Found at i:42311819 original size:126 final size:126
Alignment explanation
Indices: 42311571--42311950 Score: 550
Period size: 126 Copynumber: 3.0 Consensus size: 126
42311561 TTTCTGCAAG
* * *
42311571 AATAATTTTGAGCAGACGTTTCTGGAA-AAATAGTGTCGGAAAAGGCTTCAAGCAGGATGCACTG
1 AATAATTTTGAGTAGACGTTTCT-GAACAAATAGTG-CCGAAAACGCTTCAAGCAGGATGCACTG
* * * * * * *
42311635 TCAGTAAAATTT-TTG-GAAAGCCCCCACATGGACGCACTTTTGCTACAGTAGTTAGTAGAAA
64 TCAGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
42311696 AATAATTCTGAGTAGACGTTTCTGAACAAATAATGCCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
42311761 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * * *
42311822 AATAATTTTGAGTAGACATTTCTAAACAAATAGTGCCGAAAGCGCTTCAAGCAGGATACACTGTT
1 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
**
42311887 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGATTCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
42311948 AAT
1 AAT
42311951 GAGGCTATAA
Statistics
Matches: 231, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
124 40 0.17
125 30 0.13
126 161 0.70
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (126 bp):
AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:42320229 original size:180 final size:179
Alignment explanation
Indices: 42319833--42320180 Score: 502
Period size: 181 Copynumber: 1.9 Consensus size: 179
42319823 AAGAAAGAAT
* * * *
42319833 AACTCAAACTTGAATCTTCAAAAGAGAATGAACCAATAATATGCTACAAATGTAAGAAACCAGGA
1 AACTCAAACTTG-ACCTT-AAAGGAGAATGAACCAATAATATGCTACAAATGCAAAAAACCAGGA
42319898 CACATCAAGTTTGATTGTCCCTAATGAAAGAAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTC
64 CACATCAAGTTTGATTGTCCCTAATGAAAGAAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTC
*
42319963 ATGTTGCTACTTGGAATGATGAGGATTCATCCGATAATGATAATGACAAAG
129 ATGTTGCTACTTGGAATGATGAGGATTCATCCAATAATGATAATGACAAAG
* * * * **
42320014 GACTCAAACTTGAATCTTTAAAGGAGAAGGAACCAATAATATGCTACGAATGCAAAAAATTAGGA
1 AACTCAAACTTG-A-CCTTAAAGGAGAATGAACCAATAATATGCTACAAATGCAAAAAACCAGGA
* *
42320079 CACATCAAGTTTGATTGT-CCTCAATGGAAG-AAAAATAGGTCAAGCAAACAAAAACTCAAGGCT
64 CACATCAAGTTTGATTGTCCCT-AATGAAAGAAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCT
* *
42320142 CATGTTGCTACTTGGAGTGATGAGGATTCATCTAATAAT
128 CATGTTGCTACTTGGAATGATGAGGATTCATCCAATAAT
42320181 TATGATGAAG
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
180 71 0.47
181 77 0.51
182 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.23
Consensus pattern (179 bp):
AACTCAAACTTGACCTTAAAGGAGAATGAACCAATAATATGCTACAAATGCAAAAAACCAGGACA
CATCAAGTTTGATTGTCCCTAATGAAAGAAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTCAT
GTTGCTACTTGGAATGATGAGGATTCATCCAATAATGATAATGACAAAG
Found at i:42325783 original size:30 final size:30
Alignment explanation
Indices: 42325749--42325809 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42325739 TCCTTAACTC
42325749 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42325779 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42325809 A
1 A
42325810 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42330640 original size:21 final size:21
Alignment explanation
Indices: 42330609--42330657 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
42330599 ACAATTTTTT
*
42330609 GATACTT-TTTAAAAATTATC
1 GATACTTGTTTAAAAAGTATC
42330629 GATACTTGTTTAAAAAGTATC
1 GATACTTGTTTAAAAAGTATC
42330650 GATACTTG
1 GATACTTG
42330658 GGGGATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (21 bp):
GATACTTGTTTAAAAAGTATC
Found at i:42338938 original size:55 final size:55
Alignment explanation
Indices: 42338833--42338948 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
42338823 CAAAGTTGTA
* * *
42338833 CACGGGTAGGCCACACGGGCGTGCACCATGGCCTTGTTAAAAAGACAGTGTCGTC
1 CACGGGCAGGCCACACGGGCGTGCACCATGGCCGTGTTAAAAAGACAGTGTCGCC
* * * * ** *
42338888 CACGGGCAGG-CAGCACGGGTGTGTACCATGGCCGTGTTGATAAGTTAGTGTTGCC
1 CACGGGCAGGCCA-CACGGGCGTGCACCATGGCCGTGTTAAAAAGACAGTGTCGCC
42338943 CACGGG
1 CACGGG
42338949 TGAAGGGCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 2 0.04
55 48 0.96
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.20
Consensus pattern (55 bp):
CACGGGCAGGCCACACGGGCGTGCACCATGGCCGTGTTAAAAAGACAGTGTCGCC
Found at i:42348488 original size:676 final size:679
Alignment explanation
Indices: 42347194--42348547 Score: 2552
Period size: 676 Copynumber: 2.0 Consensus size: 679
42347184 CCACTATACA
*
42347194 TATAGTTGAGTACTCACAATCCTATGGCATGCCAATTCTAACCAACGATTTCAAGATAACAAGGC
1 TATAGTTGAGTACTCACAATCCTATGGCATGCCAATTCTAACCAACAATTTCAAGATAACAAGGC
* * * *
42347259 CAAAATATCATAAATCGCTATCACTGAATGTTAGTATCTTTTGCAATATAAGATGTAAGTTTAAT
66 AAAAATATCATAAATCACTATCACTGAATGTTAGTATCTTTTGCAACAGAAGATGTAAGTTTAAT
** *
42347324 CAATATGAGAAACAAAAAAATAGAGGAGGATGAAAGGGAGGAAATTTGGTCACCAGTAGCAATGG
131 CAATATGAGAAACAAAAAAATAGAGGAGGATGAAAGGGAGGAAATTCAGTCACCAGTAGCAACGG
* *
42347389 AGGTTTGATGATGGTGGTGAGGGCAATGGTTCGATGGGGGTCAAGTGACGAGGGAGTGGTGGTTT
196 AGGTCTGATAATGGTGGTGAGGGCAATGGTTCGATGGGGGTCAAGTGACGAGGGAGTGGTGGTTT
*
42347454 GAAGGTGGTTGGAGAGGAAGAAATTAAAGAGGTTCGACACAAATATAAGGAGGAAAAAAATAAAA
261 GAAGGTGGTTGGAAAGGAAGAAATTAAAGAGGTTCGACACAAATATAAGGAGGAAAAAAATAAAA
42347519 ATGAAGGAGAAAATAGCCTGCGGTGGTGCATGGTGGCAATCACAGTGGCGATGGAAGGAGTAAAA
326 ATGAAGGAGAAAATAGCCTGCGGTGGTGCATGGTGGCAATCACAGTGGCGATGGAAGGAGTAAAA
*
42347584 AAGGAAAATATGAGGTGCAATGGCCACGAGGCGTGGTGAACGGTGGTGGAAAAGAGCAAAGATTA
391 AAGGAAAATAGGAGGTGCAATGGCCACGAGGCGTGGTGAACGGTGGTGGAAAAGAGCAAAGATTA
*
42347649 AAATAAAGGGTGGTTATTATTTTGCAAATTGAAGAGAAAATGTATGAGAAAAGAAATGAAAAAGA
456 AAATAAAGGGTGGTTATTATTTTGCAAATTAAAGAGAAAATGTATGAGAAAAGAAATGAAAAAGA
42347714 AAGAAAATGGGAGCAAGAAGGGGGTAAGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGA
521 AAGAAAATGGGAGCAAGAAGGGGGTAAGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGA
*
42347779 CTAGGTTCAATGAACCTAAACTAAAGGCAAGGTAAGAAGTTTTGGGAAGAAGAGGGAGACATGCT
586 CTAGGTTCAATGAACCTAAACTAAAGGCAAGGTAAGAAGTTTTGGGAAGAAGAGGGAGACATGAT
42347844 GTGAAAAGGGGGATCACACTCCCTCAAAC
651 GTGAAAAGGGGGATCACACTCCCTCAAAC
42347873 TATAGTTGAGTACTCACAATCCTATGGCATGCCAATTCTAACCAACAATTTCAAGATAACAAGGC
1 TATAGTTGAGTACTCACAATCCTATGGCATGCCAATTCTAACCAACAATTTCAAGATAACAAGGC
42347938 AAAAATATCATAAATCACTATCACTGAATGTTAGTATCTTTTGCAACAGAAGATGTAAGTTTAAT
66 AAAAATATCATAAATCACTATCACTGAATGTTAGTATCTTTTGCAACAGAAGATGTAAGTTTAAT
42348003 CAATATGAGAAAC-AAAAAATAGAGGAGGATGAAAGGGAGGAAATTCAGTCACCAGTAGCAACGG
131 CAATATGAGAAACAAAAAAATAGAGGAGGATGAAAGGGAGGAAATTCAGTCACCAGTAGCAACGG
42348067 AGGTCTGATAATGGTGGTGAGGGCAATGGTTCGATGGGGGTCAAGTGACGAGGGAGTGGTGGTTT
196 AGGTCTGATAATGGTGGTGAGGGCAATGGTTCGATGGGGGTCAAGTGACGAGGGAGTGGTGGTTT
*
42348132 GAAGGTGGTTGGAAAGGAAGAAATTAAAGAGGTTTGACACAAATATAAGGAGG-AAAAAA-AAAA
261 GAAGGTGGTTGGAAAGGAAGAAATTAAAGAGGTTCGACACAAATATAAGGAGGAAAAAAATAAAA
42348195 ATGAAGGAGAAAATAGCCTGCGGTGGTGCATGGTGGCAATCACAGTGGCGATGGAAGGAGTAAAA
326 ATGAAGGAGAAAATAGCCTGCGGTGGTGCATGGTGGCAATCACAGTGGCGATGGAAGGAGTAAAA
42348260 AAGGAAAATAGGAGGTGCAATGGCCACGAGGCGTGGTGAACGGTGGTGGAAAAGAGCAAAGATTA
391 AAGGAAAATAGGAGGTGCAATGGCCACGAGGCGTGGTGAACGGTGGTGGAAAAGAGCAAAGATTA
42348325 AAATAAAGGGTGGTTATTATTTTGCAAATTAAAGAGAAAATGTATGAGAAAAGAAATGAAAAAGA
456 AAATAAAGGGTGGTTATTATTTTGCAAATTAAAGAGAAAATGTATGAGAAAAGAAATGAAAAAGA
42348390 AAGAAAATGGGAGCAAGAAGGGGGTAAGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGA
521 AAGAAAATGGGAGCAAGAAGGGGGTAAGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGA
42348455 CTAGGTTCAATGAACCTAAACTAAAGGCAAGGTAAGAAGTTTTGGGAAGAAGAGGGAGACATGAT
586 CTAGGTTCAATGAACCTAAACTAAAGGCAAGGTAAGAAGTTTTGGGAAGAAGAGGGAGACATGAT
42348520 GTGAAAAGGGGGATCACACTCCCTCAAA
651 GTGAAAAGGGGGATCACACTCCCTCAAA
42348548 TTAAGGTAAG
Statistics
Matches: 660, Mismatches: 15, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
676 354 0.54
677 6 0.01
678 162 0.25
679 138 0.21
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.20
Consensus pattern (679 bp):
TATAGTTGAGTACTCACAATCCTATGGCATGCCAATTCTAACCAACAATTTCAAGATAACAAGGC
AAAAATATCATAAATCACTATCACTGAATGTTAGTATCTTTTGCAACAGAAGATGTAAGTTTAAT
CAATATGAGAAACAAAAAAATAGAGGAGGATGAAAGGGAGGAAATTCAGTCACCAGTAGCAACGG
AGGTCTGATAATGGTGGTGAGGGCAATGGTTCGATGGGGGTCAAGTGACGAGGGAGTGGTGGTTT
GAAGGTGGTTGGAAAGGAAGAAATTAAAGAGGTTCGACACAAATATAAGGAGGAAAAAAATAAAA
ATGAAGGAGAAAATAGCCTGCGGTGGTGCATGGTGGCAATCACAGTGGCGATGGAAGGAGTAAAA
AAGGAAAATAGGAGGTGCAATGGCCACGAGGCGTGGTGAACGGTGGTGGAAAAGAGCAAAGATTA
AAATAAAGGGTGGTTATTATTTTGCAAATTAAAGAGAAAATGTATGAGAAAAGAAATGAAAAAGA
AAGAAAATGGGAGCAAGAAGGGGGTAAGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGA
CTAGGTTCAATGAACCTAAACTAAAGGCAAGGTAAGAAGTTTTGGGAAGAAGAGGGAGACATGAT
GTGAAAAGGGGGATCACACTCCCTCAAAC
Found at i:42350757 original size:28 final size:28
Alignment explanation
Indices: 42350717--42350775 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
42350707 AAGTAATACG
42350717 TACCTGAACATTTTAAATGTATAGTACT
1 TACCTGAACATTTTAAATGTATAGTACT
42350745 TACCTGAACATTTTAAATGTATAGTACT
1 TACCTGAACATTTTAAATGTATAGTACT
42350773 TAC
1 TAC
42350776 TCGACGATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (28 bp):
TACCTGAACATTTTAAATGTATAGTACT
Found at i:42350949 original size:39 final size:39
Alignment explanation
Indices: 42350866--42350962 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
42350856 TGAAATCAAT
*
42350866 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
42350904 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAA
* *
42350943 TTCCAGCACGTAGCCTGCGG
1 TACCAGCACGAAGCCTGCGG
42350963 ACCTTAAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 14 0.29
39 35 0.71
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.20
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:42350981 original size:78 final size:78
Alignment explanation
Indices: 42350899--42351050 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 78
42350889 TTAAACCCGG
* * * * *
42350899 TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCCTGCG
1 TATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCG
*
42350962 GACCTTAAGTCAGGA
64 GACCCTAAGTCAGGA
* * * *
42350977 TATAATTCTAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGA
1 TATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGA
42351042 CCCTAAGTC
66 CCCTAAGTC
42351051 CGGAAGTTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 4 0.06
78 58 0.94
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (78 bp):
TATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGA
CCCTAAGTCAGGA
Found at i:42351051 original size:39 final size:39
Alignment explanation
Indices: 42350933--42351054 Score: 190
Period size: 39 Copynumber: 3.1 Consensus size: 39
42350923 GGACTTTAGC
* * * *
42350933 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
42350972 CAGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
42351011 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
42351050 CCGGA
1 CCGGA
42351055 AGTTTATTAC
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:42353449 original size:61 final size:62
Alignment explanation
Indices: 42353348--42353464 Score: 209
Period size: 61 Copynumber: 1.9 Consensus size: 62
42353338 CGTATGTTTC
* *
42353348 AAAAAATCAACTCATATTGCGAGAGGCTGAGTTGAGCCTCAGGACGCGTTGAGGTATTTTAA
1 AAAAAATCAACTCATATTGCGAGAGGCTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAA
42353410 AAAAAATCAACTCATATTGCGAGAGG-TGAGTTGAGCCTCAGGACACGCTGAGGTA
1 AAAAAATCAACTCATATTGCGAGAGGCTGAGTTGAGCCTCAGGACACGCTGAGGTA
42353465 ATTTCAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
61 27 0.51
62 26 0.49
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (62 bp):
AAAAAATCAACTCATATTGCGAGAGGCTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAA
Found at i:42353547 original size:74 final size:73
Alignment explanation
Indices: 42353409--42353548 Score: 221
Period size: 72 Copynumber: 1.9 Consensus size: 73
42353399 AGGTATTTTA
*
42353409 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
42353474 TCTTTGTC
66 TCTTTGTC
*
42353482 AAAAAAATCAACTCA-ATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--ACACGCT-GAGGTAATTTCA
42353545 ATTT
63 ATTT
42353549 TCGTTTTTCA
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
72 26 0.42
73 16 0.26
74 20 0.32
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (73 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTTTGTC
Found at i:42360268 original size:149 final size:149
Alignment explanation
Indices: 42359861--42360282 Score: 469
Period size: 146 Copynumber: 2.9 Consensus size: 149
42359851 TACACATATG
* * * * * *
42359861 GTGTTACTGAGTGCAAACCGTGATGTGTGAAGCTCCGGGCCTTGTAAAGGGGACACTATGGTGTT
1 GTGTTGCTGAGTGCAAACTGTGATGTGCGAAGCTCCGGGCCTTGTAGAGGGGACAATATGGTTTT
* * * *
42359926 CGAGCATTAAGATTAGAAATGGCA-AAATGGAGGAATGAACAGATGGATAGGGAAATGAAATTTC
66 CGAGCATCAAGGTTAGAAATGG-AGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTAC
* * *
42359990 CATTAAGATTCTAATATCAT
130 CATTAAAATTCCAATATCAA
* * * *
42360010 GTGTTGCTAAGTGCAAACTGTGATGTGC---GCTCCAGGCTTTGTAGAGGGGACATTATGGTGTT
1 GTGTTGCTGAGTGCAAACTGTGATGTGCGAAGCTCCGGGCCTTGTAGAGGGGACAATATGGT-TT
* * * * *
42360072 T-GAGCATCAAGGTTAGAAATGGTGAAATGGAGGATTGGGCTGATGGATAGGAAAATGAAATTAC
65 TCGAGCATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTAC
*
42360136 TATTAAAATTCC-ATAATCAA
130 CATTAAAATTCCAAT-ATCAA
** ** * * * *
42360156 GTGTTTTTGAGTGCAAACTGTGATGTGCGAAGCTTTGGGCCATATGGAGGGGACAATGTGGTTTT
1 GTGTTGCTGAGTGCAAACTGTGATGTGCGAAGCTCCGGGCCTTGTAGAGGGGACAATATGGTTTT
* * *
42360221 CAAACATCAAGGTTAGAAATGGAGAAATGGAGGAATGGCCAGATGGATAGGGAAATGAAATT
66 CGAGCATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATT
42360283 TTTGCTAAGA
Statistics
Matches: 225, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
145 2 0.01
146 118 0.52
147 2 0.01
148 3 0.01
149 100 0.44
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (149 bp):
GTGTTGCTGAGTGCAAACTGTGATGTGCGAAGCTCCGGGCCTTGTAGAGGGGACAATATGGTTTT
CGAGCATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTACC
ATTAAAATTCCAATATCAA
Found at i:42360303 original size:149 final size:148
Alignment explanation
Indices: 42359861--42360390 Score: 505
Period size: 149 Copynumber: 3.6 Consensus size: 148
42359851 TACACATATG
* * * * * *
42359861 GTGTTACTGAGTGCAAACCGTGATGTGTGAAGCTCCGGGCCTTGTAAAGGGGACACTATGGTGTT
1 GTGTTGCTGAGTGCAAACTGTGATGTGCGAAGCTCCGGGCCTTGTAGAGGGGACAATATGGTTTT
* * *
42359926 CGAGCATTAAGATTAGAAATGGCA-AAATGGAGGAATGAACAGATGGATAGGGAAATGAAATTTC
66 CGAGCATCAAGGTTAGAAATGG-AGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTC
* *
42359990 CATTAAGATTCTAATATCAT
130 TATTAAGATTCTAA-ATCAA
* * * *
42360010 GTGTTGCTAAGTGCAAACTGTGATGTGC---GCTCCAGGCTTTGTAGAGGGGACATTATGGTGTT
1 GTGTTGCTGAGTGCAAACTGTGATGTGCGAAGCTCCGGGCCTTGTAGAGGGGACAATATGGT-TT
* * * * * *
42360072 T-GAGCATCAAGGTTAGAAATGGTGAAATGGAGGATTGGGCTGATGGATAGGAAAATGAAATTAC
65 TCGAGCATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTC
* *
42360136 TATTAAAATTCCATAATCAA
130 TATTAAGATTCTA-AATCAA
** ** * * * *
42360156 GTGTTTTTGAGTGCAAACTGTGATGTGCGAAGCTTTGGGCCATATGGAGGGGACAATGTGGTTTT
1 GTGTTGCTGAGTGCAAACTGTGATGTGCGAAGCTCCGGGCCTTGTAGAGGGGACAATATGGTTTT
* * * *
42360221 CAAACATCAAGGTTAGAAATGGAGAAATGGAGGAATGGCCAGATGGATAGGGAAATGAAATTTTT
66 CGAGCATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTCT
** * *
42360286 GCTAAGATTTTGCAATCAA
131 ATTAAGATTCT-AAATCAA
* * * * * * * * * * * *
42360305 GTGTTGCTAAGTACAAACTGTTATATGCAAAGTTCTGGGCCTTGTGGATGGGACATTACGATGTT
1 GTGTTGCTGAGTGCAAACTGTGATGTGCGAAGCTCCGGGCCTTGTAGAGGGGACAATATGGT-TT
42360370 T-GAGCATCAAGGTTAGAAATG
65 TCGAGCATCAAGGTTAGAAATG
42360391 TATTGGAATG
Statistics
Matches: 305, Mismatches: 67, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
146 119 0.39
147 3 0.01
148 3 0.01
149 177 0.58
150 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.28
Consensus pattern (148 bp):
GTGTTGCTGAGTGCAAACTGTGATGTGCGAAGCTCCGGGCCTTGTAGAGGGGACAATATGGTTTT
CGAGCATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTCT
ATTAAGATTCTAAATCAA
Found at i:42362046 original size:33 final size:33
Alignment explanation
Indices: 42361961--42362048 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
42361951 TATGTACACC
* **
42361961 TTGTGTGTA-CACTT-GAAAGGTTAGGTATACT
1 TTGTGTATACCACTTGGAAAGGAAAGGTATACT
*
42361992 TTGTGTATACCA-TATGAAAAGGAAAGGTATACT
1 TTGTGTATACCACT-TGGAAAGGAAAGGTATACT
*
42362025 TTGTGTCTACCACTTGGAAAGGAA
1 TTGTGTATACCACTTGGAAAGGAA
42362049 TGTACACCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 9 0.19
32 3 0.06
33 34 0.72
34 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (33 bp):
TTGTGTATACCACTTGGAAAGGAAAGGTATACT
Found at i:42369573 original size:31 final size:31
Alignment explanation
Indices: 42369538--42369660 Score: 79
Period size: 33 Copynumber: 3.9 Consensus size: 31
42369528 TACCATTTGA
* *
42369538 AAAGGTTATGTACACCTTGTGTGTACACTTG
1 AAAGGTAAGGTACACCTTGTGTGTACACTTG
* * * *
42369569 AAAGGTTAGGTATACTTTGTGTATAC-CATATG
1 AAAGGTAAGGTACACCTTGTGTGTACAC-T-TG
* * *
42369601 AAAAGGAAAGGTATACTTTGTGTGTACCACTTGG
1 -AAAGGTAAGGTACACCTTGTGTGTA-CACTT-G
* **
42369635 AAAGG-AATGTACACCTTAAGTGTACA
1 AAAGGTAAGGTACACCTTGTGTGTACA
42369661 GCTGGAAAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
30 1 0.01
31 25 0.34
32 16 0.22
33 28 0.38
34 3 0.04
35 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (31 bp):
AAAGGTAAGGTACACCTTGTGTGTACACTTG
Found at i:42369639 original size:33 final size:33
Alignment explanation
Indices: 42369554--42369641 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
42369544 TATGTACACC
**
42369554 TTGTGTGTA-CACTT-GAAAGGTTAGGTATACT
1 TTGTGTGTACCACTTGGAAAGGAAAGGTATACT
* *
42369585 TTGTGTATACCA-TATGAAAAGGAAAGGTATACT
1 TTGTGTGTACCACT-TGGAAAGGAAAGGTATACT
42369618 TTGTGTGTACCACTTGGAAAGGAA
1 TTGTGTGTACCACTTGGAAAGGAA
42369642 TGTACACCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 9 0.19
32 3 0.06
33 34 0.72
34 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (33 bp):
TTGTGTGTACCACTTGGAAAGGAAAGGTATACT
Found at i:42373636 original size:46 final size:46
Alignment explanation
Indices: 42373459--42373666 Score: 149
Period size: 46 Copynumber: 4.5 Consensus size: 46
42373449 TTGTGCGCTT
* * * *
42373459 GTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GATGAGAGCCA
* * * *
42373505 GTGTAAGACCATGTCTGGGACATGGCATCAAC-ATTGAGACGAGAGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-CGAGATGAGAGCCA
* * * *** *
42373553 GTTTAAGACGTGTCTGGGATATGCAGGGGCCT-TGAGATGTA-AGCCA
1 GTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGATG-AGAGCCA
* *
42373599 GTGTAAGACATGTCTGGGACATGCATCAGCTACGAGAT--GTGTCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAGAGCCA
*
42373643 GTGTAAGACCATGTCCGGGACATG
1 GTGTAAGA-CATGTCTGGGACATG
42373667 GCATTAGCAC
Statistics
Matches: 126, Mismatches: 26, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
44 11 0.09
45 16 0.13
46 49 0.39
47 28 0.22
48 21 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAGAGCCA
Found at i:42373698 original size:48 final size:45
Alignment explanation
Indices: 42373597--42373710 Score: 142
Period size: 48 Copynumber: 2.5 Consensus size: 45
42373587 AGATGTAAGC
*
42373597 CAGTGTAAGA-CATGTCTGGGACATGCATCAGCTACGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGAGGTGT
* * *
42373641 CAGTGTAAGACCATGTCCGGGACATGGCATTAGC-ACTTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCAGCTAC---GAGAGGTGT
42373689 CAGTGTAAGACCATGTCTGGGA
1 CAGTGTAAGACCATGTCTGGGA
42373711 TGTGGCATCG
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
44 10 0.17
45 15 0.25
46 7 0.12
48 28 0.47
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGAGGTGT
Found at i:42379771 original size:94 final size:94
Alignment explanation
Indices: 42379591--42379774 Score: 217
Period size: 94 Copynumber: 2.0 Consensus size: 94
42379581 GTTACGTGCG
* * * * * * *
42379591 TAAGACCATAGCTCAGTTATGGCAACATAGAGAGTTTGTCGGGACAGTAGATACGGGGTAGCCCG
1 TAAGACCATAGCTCAATTATGGCAACATAGAGAGTTTGTCGGCACAGTAAACACGAGGTAGCACA
* ** *
42379656 TTAGGACATTGAACATAGGGTTACATGTA
66 TCAGGACATAAAACACAGGGTTACATGTA
* * *
42379685 TAAGACCATAGCTCAATTATGGCAACATAGAGAGTTTGTTGGCTCAGTAAACACGAGGTAGTACA
1 TAAGACCATAGCTCAATTATGGCAACATAGAGAGTTTGTCGGCACAGTAAACACGAGGTAGCACA
*
42379750 TCAGGA-AGTAAAACACGGGGTTACA
66 TCAGGACA-TAAAACACAGGGTTACA
42379775 CGTGTGAAGT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
93 1 0.01
94 73 0.99
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (94 bp):
TAAGACCATAGCTCAATTATGGCAACATAGAGAGTTTGTCGGCACAGTAAACACGAGGTAGCACA
TCAGGACATAAAACACAGGGTTACATGTA
Found at i:42387547 original size:23 final size:23
Alignment explanation
Indices: 42387521--42387593 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
42387511 TTTTATATGC
**
42387521 GCAAGTGATAGTGGCACTATGGT
1 GCAAGTGATAGTGGCACTACAGT
42387544 GCAAGTG-TCAGTGGCACTACAGT
1 GCAAGTGAT-AGTGGCACTACAGT
* * *
42387567 GCAAGTGATAGTAGCATTTCAGT
1 GCAAGTGATAGTGGCACTACAGT
42387590 GCAA
1 GCAA
42387594 ATTATTGACT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
22 1 0.02
23 41 0.95
24 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (23 bp):
GCAAGTGATAGTGGCACTACAGT
Found at i:42398833 original size:39 final size:40
Alignment explanation
Indices: 42398790--42398867 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 40
42398780 CTTCCAAGCT
**
42398790 CAATTGTAAGTCCATTCTA-CCCTTTTTTTAATGATTTTA
1 CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTTA
42398829 CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTT
1 CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTT
42398868 TATGTTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.46
Consensus pattern (40 bp):
CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTTA
Found at i:42399803 original size:13 final size:13
Alignment explanation
Indices: 42399785--42399817 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
42399775 TTGGGACACG
42399785 CCCGTGTCCATCA
1 CCCGTGTCCATCA
42399798 CCCGTGTCCATCA
1 CCCGTGTCCATCA
*
42399811 CCAGTGT
1 CCCGTGT
42399818 TGAATCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.42, G:0.18, T:0.24
Consensus pattern (13 bp):
CCCGTGTCCATCA
Found at i:42407258 original size:40 final size:40
Alignment explanation
Indices: 42407203--42407424 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
42407193 TATTCGGATG
*
42407203 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
42407243 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
42407283 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
42407323 ATATCCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
42407363 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
42407403 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
42407425 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.08
40 154 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:42411815 original size:217 final size:217
Alignment explanation
Indices: 42411440--42411879 Score: 880
Period size: 217 Copynumber: 2.0 Consensus size: 217
42411430 TTTTGCCCTT
42411440 AACTTTTCACATTTTTACGTTTTAGGCCCTAGGCTCGTAAAATGAATGCATGCAATTTCTACCTT
1 AACTTTTCACATTTTTACGTTTTAGGCCCTAGGCTCGTAAAATGAATGCATGCAATTTCTACCTT
42411505 ACCCAGTCCTAGCCGAATGTTTTTCCCTCTTATGGCAGCCCACATTTTCCATTATTTCACATTTT
66 ACCCAGTCCTAGCCGAATGTTTTTCCCTCTTATGGCAGCCCACATTTTCCATTATTTCACATTTT
42411570 TACCACATATTTTACACCTTTTGGAAAAAGGTCATTTTAGGGGTTTTTCATGAAAATCACCTAGA
131 TACCACATATTTTACACCTTTTGGAAAAAGGTCATTTTAGGGGTTTTTCATGAAAATCACCTAGA
42411635 AAAAGATGTTTAACACACATCC
196 AAAAGATGTTTAACACACATCC
42411657 AACTTTTCACATTTTTACGTTTTAGGCCCTAGGCTCGTAAAATGAATGCATGCAATTTCTACCTT
1 AACTTTTCACATTTTTACGTTTTAGGCCCTAGGCTCGTAAAATGAATGCATGCAATTTCTACCTT
42411722 ACCCAGTCCTAGCCGAATGTTTTTCCCTCTTATGGCAGCCCACATTTTCCATTATTTCACATTTT
66 ACCCAGTCCTAGCCGAATGTTTTTCCCTCTTATGGCAGCCCACATTTTCCATTATTTCACATTTT
42411787 TACCACATATTTTACACCTTTTGGAAAAAGGTCATTTTAGGGGTTTTTCATGAAAATCACCTAGA
131 TACCACATATTTTACACCTTTTGGAAAAAGGTCATTTTAGGGGTTTTTCATGAAAATCACCTAGA
42411852 AAAAGATGTTTAACACACATCC
196 AAAAGATGTTTAACACACATCC
42411874 AACTTT
1 AACTTT
42411880 CATATTCCTC
Statistics
Matches: 223, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 223 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (217 bp):
AACTTTTCACATTTTTACGTTTTAGGCCCTAGGCTCGTAAAATGAATGCATGCAATTTCTACCTT
ACCCAGTCCTAGCCGAATGTTTTTCCCTCTTATGGCAGCCCACATTTTCCATTATTTCACATTTT
TACCACATATTTTACACCTTTTGGAAAAAGGTCATTTTAGGGGTTTTTCATGAAAATCACCTAGA
AAAAGATGTTTAACACACATCC
Found at i:42412748 original size:50 final size:50
Alignment explanation
Indices: 42412637--42412923 Score: 256
Period size: 50 Copynumber: 5.7 Consensus size: 50
42412627 AACACATGTT
* *** * *
42412637 TAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGTCACGTGTG
* * *
42412689 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACGTGTG
* * * * *
42412739 TAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-ATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGTCACGTGTG
* ** * * *
42412790 TAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGATAGGTCACGTGCG
1 TAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACGTGTG
* * * * ** *
42412840 TAGTACTAAGTGAATGATACTATGTGTACCAGATTGTT-GGTTGCATGTG
1 TAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACGTGTG
* *
42412889 TAGTACTAAGTGTAGGCTAC-ATGCGTACCAGATAG
1 TAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
42412924 CTTCAGTTAC
Statistics
Matches: 187, Mismatches: 45, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
48 13 0.07
49 25 0.13
50 81 0.43
51 38 0.20
52 30 0.16
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACGTGTG
Found at i:42412808 original size:101 final size:101
Alignment explanation
Indices: 42412680--42412869 Score: 281
Period size: 101 Copynumber: 1.9 Consensus size: 101
42412670 TGGTTTTAGG
* * *
42412680 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATAGGTCACATGCGTAGTAC
* *
42412745 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 TAAGTGAAGGATACTATGCGTACCCGACAACTTCAA
** * *
42412781 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGATAGGTCACGTGCGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATAGGTCACATGCGTAGTAC
* *
42412846 TAAGTGAATGATACTATGTGTACC
66 TAAGTGAAGGATACTATGCGTACC
42412870 AGATTGTTGG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 78 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATAGGTCACATGCGTAGTAC
TAAGTGAAGGATACTATGCGTACCCGACAACTTCAA
Found at i:42418004 original size:47 final size:46
Alignment explanation
Indices: 42417901--42418027 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 46
42417891 GTCAGAGGAT
* * **
42417901 GATGCATATCCCAGACATGTCTTACACTAGCACTCATCTTAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAATGCC
* * *
42417947 GATGCCATGTCCCAGATATAGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATAAT-GCC
42417995 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
42418028 ACACAAATGA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 18 0.26
47 26 0.38
48 25 0.36
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAATGCC
Found at i:42428753 original size:44 final size:44
Alignment explanation
Indices: 42428690--42428863 Score: 215
Period size: 44 Copynumber: 3.9 Consensus size: 44
42428680 TGTAACCCGC
*
42428690 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
*
42428734 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGC-A--T
* *** * *
42428780 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCG-GATTCGCAT
*
42428826 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
42428864 GCCCAAATAT
Statistics
Matches: 110, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
43 1 0.01
44 41 0.37
45 27 0.25
46 10 0.09
47 26 0.24
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
Found at i:42428854 original size:92 final size:91
Alignment explanation
Indices: 42428698--42428866 Score: 293
Period size: 92 Copynumber: 1.8 Consensus size: 91
42428688 GCCCATAAGT
**
42428698 GAACTCGGACTCAACTCAACGAGCTCGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 GAACTCGGACTCAACTCAACGAGCTCGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
42428763 AGCTCGGATGCCTAGTTACATCTCTC
66 AGCTCGGATGCCTAGTTACATCTCTC
*
42428789 GAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
42428854 GAGTTCGGATGCC
65 GAGCTCGGATGCC
42428867 CAAATATCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 26 0.36
92 47 0.64
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGCTCGGATGCCTAGTTACATCTCTC
Found at i:42433791 original size:93 final size:93
Alignment explanation
Indices: 42433678--42433849 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
42433668 GCCCATAAGT
* *
42433678 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
42433743 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* *
42433771 GAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
42433836 CGAGTTCAGATGCC
66 CGAGCTCAGATGCC
42433850 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:42433842 original size:46 final size:45
Alignment explanation
Indices: 42433670--42433839 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 45
42433660 TGTAACCCGC
*
42433670 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
42433716 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
42433762 ACATCTCTCGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
42433809 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
42433840 TTCAGATGCC
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 61 0.59
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:42440835 original size:13 final size:14
Alignment explanation
Indices: 42440819--42440848 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
42440809 TTAAAACTAC
42440819 TTTTT-ATTTTATT
1 TTTTTAATTTTATT
42440832 TTTTTAATTTTATT
1 TTTTTAATTTTATT
42440846 TTT
1 TTT
42440849 ACTGTATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTAATTTTATT
Found at i:42448197 original size:22 final size:22
Alignment explanation
Indices: 42448172--42448215 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
42448162 AGAAAACCAT
42448172 CAATTTTCTTATTCAAGAGTTC
1 CAATTTTCTTATTCAAGAGTTC
42448194 CAATTTTCTTATTCAAGAGTTC
1 CAATTTTCTTATTCAAGAGTTC
42448216 TACTTGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (22 bp):
CAATTTTCTTATTCAAGAGTTC
Found at i:42454898 original size:29 final size:29
Alignment explanation
Indices: 42454873--42454930 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
42454863 CTGCCACATG
*
42454873 GCCTATCACACAACCGTGTGACCCACACA
1 GCCTAACACACAACCGTGTGACCCACACA
***
42454902 GCCTAACACATGGCCGTGTGACCCACACA
1 GCCTAACACACAACCGTGTGACCCACACA
42454931 AGTTGCCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.40, G:0.17, T:0.14
Consensus pattern (29 bp):
GCCTAACACACAACCGTGTGACCCACACA
Found at i:42454938 original size:70 final size:70
Alignment explanation
Indices: 42454832--42454967 Score: 166
Period size: 70 Copynumber: 1.9 Consensus size: 70
42454822 CTACCACAAG
* ** ** * *
42454832 GCCTACCACATGGTTGTGTGATTCACACAGTCTGCCACATGGCCTATCACACAACCGTGTGACCC
1 GCCTAACACATGGCCGTGTGACCCACACAGTCTGCCACACGGCCTACCACACAACCGTGTGACCC
42454897 ACACA
66 ACACA
** *
42454902 GCCTAACACATGGCCGTGTGACCCACACAAGT-TGCCACACGGCCTACCACAGGACCGTGTGGCC
1 GCCTAACACATGGCCGTGTGACCCACAC-AGTCTGCCACACGGCCTACCACACAACCGTGTGACC
42454966 CA
65 CA
42454968 TACGACCTGG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
70 52 0.95
71 3 0.05
ACGTcount: A:0.25, C:0.36, G:0.21, T:0.18
Consensus pattern (70 bp):
GCCTAACACATGGCCGTGTGACCCACACAGTCTGCCACACGGCCTACCACACAACCGTGTGACCC
ACACA
Found at i:42458100 original size:6 final size:6
Alignment explanation
Indices: 42458089--42458118 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
42458079 CATTTCCTCC
42458089 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
42458119 CCCTTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:42466550 original size:40 final size:40
Alignment explanation
Indices: 42466473--42466694 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
42466463 AACCCAAGTA
* *
42466473 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
42466512 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42466552 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42466592 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42466632 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42466672 CCTTCGGGACTTAGCCCGAATAT
1 CCTTCGGGACTTAGCCCGGATAT
42466695 CATCCGAATA
Statistics
Matches: 169, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 156 0.92
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42469045 original size:23 final size:24
Alignment explanation
Indices: 42468987--42469059 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 24
42468977 GAGCCATAAT
**
42468987 CAGTAAGCTCCTCCTGAGCTGATGAA
1 CAGTAAGCT-CTATTGAGCTGA-GAA
42469013 CAGTAAGCTCTATTGAGCTGA-AA
1 CAGTAAGCTCTATTGAGCTGAGAA
* * *
42469036 CGGTAAGCTCTATCGAGCTTAGAA
1 CAGTAAGCTCTATTGAGCTGAGAA
42469060 TAAGCTCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 20 0.49
24 2 0.05
25 10 0.24
26 9 0.22
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (24 bp):
CAGTAAGCTCTATTGAGCTGAGAA
Found at i:42482361 original size:31 final size:31
Alignment explanation
Indices: 42482318--42482432 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
42482308 TCAATCTCAG
**
42482318 CATAT-ACTGGGCCGAAGCCTTCACATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
42482348 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
42482379 CATATCACTGGGCCGAAGCTTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
42482410 CATATCACTGGGTCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
42482433 ACTGTAACGA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.06
31 74 0.94
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:42485043 original size:22 final size:23
Alignment explanation
Indices: 42484953--42485090 Score: 79
Period size: 23 Copynumber: 6.0 Consensus size: 23
42484943 TGAGCTAATG
* *
42484953 AACAGTAAGCTCTATTGAAC-GA
1 AACAGTAAGCTCTATCGAGCTGA
* * *
42484975 AATCAGGAAGCTATATTGAGCTGA
1 AA-CAGTAAGCTCTATCGAGCTGA
*
42484999 AA-TGATAAGCTCTATCGAGCTG-
1 AACAG-TAAGCTCTATCGAGCTGA
*
42485021 AACAGTAAGCT-TATACGATCTGA
1 AACAGTAAGCTCTAT-CGAGCTGA
* * *
42485044 AACGGTAAGCTCCAAT-AAGCTGAA
1 AACAGTAAGCT-CTATCGAGCTG-A
* * *
42485068 AATAGTAAGCTCTTTTGAGCTGA
1 AACAGTAAGCTCTATCGAGCTGA
42485091 TATATCGGTA
Statistics
Matches: 88, Mismatches: 18, Indels: 19
0.70 0.14 0.15
Matches are distributed among these distances:
21 3 0.03
22 17 0.19
23 47 0.53
24 19 0.22
25 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:42489873 original size:9 final size:9
Alignment explanation
Indices: 42489859--42490054 Score: 111
Period size: 10 Copynumber: 21.7 Consensus size: 9
42489849 TTGGAGAGAT
*
42489859 AGAGGGGGG
1 AGAGGGGAG
42489868 AGAGGGGAG
1 AGAGGGGAG
* *
42489877 AGAGAGAAG
1 AGAGGGGAG
* *
42489886 -GA-GAGAA
1 AGAGGGGAG
42489893 AGAGGGAGAG
1 AGAGGG-GAG
42489903 AGAGGGGAAG
1 AGAGGGG-AG
* *
42489913 AGAGAGAGAA
1 AGAG-GGGAG
42489923 AGAGGGG-G
1 AGAGGGGAG
42489931 AGA-GGGAG
1 AGAGGGGAG
42489939 AGA-GGGAG
1 AGAGGGGAG
42489947 AGAGGGGAG
1 AGAGGGGAG
*
42489956 AGAGAGAGAG
1 AGAG-GGGAG
*
42489966 AGAGGGGGG
1 AGAGGGGAG
*
42489975 AGA-GAGAG
1 AGAGGGGAG
*
42489983 GGA-GGGAG
1 AGAGGGGAG
*
42489991 GGA-GGGAG
1 AGAGGGGAG
42489999 AGAGAGGGAG
1 AGAG-GGGAG
**
42490009 AGAGTAAGAG
1 AGAG-GGGAG
42490019 AGAGAGGGAG
1 AGAG-GGGAG
42490029 AGAGGGAGAG
1 AGAGGG-GAG
* *
42490039 AAAAAGGGAG
1 -AGAGGGGAG
42490049 AGAGGG
1 AGAGGG
42490055 AGAAAGAGAA
Statistics
Matches: 144, Mismatches: 31, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
7 4 0.03
8 38 0.26
9 40 0.28
10 56 0.39
11 6 0.04
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.01
Consensus pattern (9 bp):
AGAGGGGAG
Found at i:42489883 original size:4 final size:4
Alignment explanation
Indices: 42489874--42490476 Score: 249
Period size: 4 Copynumber: 154.2 Consensus size: 4
42489864 GGGGAGAGGG
* * *
42489874 GAGA GAGA GA-A G-GA GAGA AAGA GGGA GAGA GAG- GGGA -AGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * *
42489918 GAGA AAGA GGGG GAGA GGGA GAGA GGGA GAGA G-GG GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
42489965 GAGA G-GG GGGA GAGA GAGG GAGG GAGG GAGG GAGA GAGA GGGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
42490012 GTA-A GAGA GAGA GGGA GAGA GGGA GAGA AAAA GGGA GAGA GGGA GAAA
1 G-AGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * *
42490060 GAGA AAGA GAAA GAGA GAGA GA-A TGAGA GAGT GAGG GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA -GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * * *
42490108 GAAA GGGA GGGA GACA GAGA GAGG GAGG GAGG GATG- GATA GGGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA-GA GAGA GAGA GAGA
* * * * * * * * *
42490156 AAGA GGGA AAGG GAGA GGGA GAGA GAGA GAG- GGGG GAGA GAAA GGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * *
42490203 GGGA GGGA GAGA CG-GA GGGA GAGA GGGA GAGA GAGA -AG- GAGG GA-A
1 GAGA GAGA GAGA -GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
42490248 GGGA GAGG GAGA GGGA GAGG GAGA GAGG GAAA GGGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * *
42490296 GAGA GAGA GGGG GAGA GGGA GTGG GAGA GGGA -ATGG GAGA GGGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA-GA GAGA GAGA GAGA
* * * * * * * *
42490344 GAGG GAGA GGGA G-GA -AGG GAGG GAG- GATGG GAGA GGGA GGGA GGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA-GA GAGA GAGA GAGA GAGA
** * * *
42490390 GAGA GAGA GACC GAGA GAGA GA-A TGAGG GAGA GAGG GAGG GAG- GA-A
1 GAGA GAGA GAGA GAGA GAGA GAGA -GAGA GAGA GAGA GAGA GAGA GAGA
* * * * *
42490436 GAGA GAGG GAGA GAGA GTGG GAGA GAGA GCGA GGGA GAGA G
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA G
42490477 GAAGCGAGAT
Statistics
Matches: 441, Mismatches: 130, Indels: 56
0.70 0.21 0.09
Matches are distributed among these distances:
3 32 0.07
4 402 0.91
5 7 0.02
ACGTcount: A:0.40, C:0.01, G:0.58, T:0.02
Consensus pattern (4 bp):
GAGA
Found at i:42490484 original size:16 final size:14
Alignment explanation
Indices: 42489928--42490476 Score: 122
Period size: 14 Copynumber: 40.6 Consensus size: 14
42489918 GAGAAAGAGG
* *
42489928 GGGAGAGGGAGAGA
1 GGGAGAGAGAGCGA
*
42489942 GGGAGAGAG-GGGA
1 GGGAGAGAGAGCGA
* *
42489955 GAGAGAGAGAGAGA
1 GGGAGAGAGAGCGA
* *
42489969 GGG-GGGAGAGAGA
1 GGGAGAGAGAGCGA
*
42489982 GGGAG-G-GAGGGA
1 GGGAGAGAGAGCGA
*
42489994 GGGAGAGAGAGGGA
1 GGGAGAGAGAGCGA
* *
42490008 GAGAGTAAGAGAGAGA
1 GGGAG--AGAGAGCGA
* *
42490024 GGGAGAGAGGGAGA
1 GGGAGAGAGAGCGA
** * * *
42490038 GAAAAAGGGAGAGA
1 GGGAGAGAGAGCGA
* **
42490052 GGGAGAAAGAGAAA
1 GGGAGAGAGAGCGA
* * *
42490066 GAGAAAGAGAGAGA
1 GGGAGAGAGAGCGA
* *
42490080 -GAATGAGAGAGTGA
1 GGGA-GAGAGAGCGA
42490094 GGGAGAGAGA--GA
1 GGGAGAGAGAGCGA
* * * *
42490106 GAGAAAGGGAGGGA
1 GGGAGAGAGAGCGA
** *
42490120 GACAGAGAGAGGGA
1 GGGAGAGAGAGCGA
* **
42490134 GGGAGGGATG-GATA
1 GGGAGAGA-GAGCGA
*
42490148 GGGAGAGA-A-AGA
1 GGGAGAGAGAGCGA
* *
42490160 GGGAAAGGGAGAGGGA
1 GGG--AGAGAGAGCGA
* *
42490176 GAGAGAGAGAG-GG
1 GGGAGAGAGAGCGA
* *
42490189 GGGAGAGAAAGGGA
1 GGGAGAGAGAGCGA
*
42490203 GGGAGGGAGAGACGGA
1 GGGAGAGAGAG-C-GA
42490219 GGGAGAGAG-G-GA
1 GGGAGAGAGAGCGA
*
42490231 GAGAGAGA-AG-GA
1 GGGAGAGAGAGCGA
*
42490243 GGGA-AG-G-GAGA
1 GGGAGAGAGAGCGA
*
42490254 GGGAGAG-G-GAGA
1 GGGAGAGAGAGCGA
* **
42490266 GGGAGAGAGGGAAA
1 GGGAGAGAGAGCGA
*
42490280 GGGAGAGAGAGAGA
1 GGGAGAGAGAGCGA
*
42490294 GAGAGAGAGAG-G-
1 GGGAGAGAGAGCGA
* *
42490306 GGGAGAG-G-GAGT
1 GGGAGAGAGAGCGA
* **
42490318 GGGAGAGGGAATG-
1 GGGAGAGAGAGCGA
* *
42490331 GGAGAGGGAGAGAGA
1 GG-GAGAGAGAGCGA
*
42490346 GGGAGAGGGAG-GAA
1 GGGAGAGAGAGCG-A
42490360 GGGAG-G-GAG-GA
1 GGGAGAGAGAGCGA
* *
42490371 TGGGAGAGGGAGGGA
1 -GGGAGAGAGAGCGA
*
42490386 GGGAGAGAGAGAGA
1 GGGAGAGAGAGCGA
* **
42490400 CCGAGAGAGAGAATGA
1 --GGGAGAGAGAGCGA
42490416 GGGAGAGAG-G-GA
1 GGGAGAGAGAGCGA
*
42490428 GGGAG-GAAGAGAGA
1 GGGAGAG-AGAGCGA
*
42490442 GGGAGAGAGA--GT
1 GGGAGAGAGAGCGA
42490454 GGGAGAGAGAGCGA
1 GGGAGAGAGAGCGA
42490468 GGGAGAGAG
1 GGGAGAGAG
42490477 GAAGCGAGAT
Statistics
Matches: 411, Mismatches: 80, Indels: 88
0.71 0.14 0.15
Matches are distributed among these distances:
10 2 0.00
11 12 0.03
12 95 0.23
13 45 0.11
14 210 0.51
15 10 0.02
16 37 0.09
ACGTcount: A:0.39, C:0.01, G:0.58, T:0.02
Consensus pattern (14 bp):
GGGAGAGAGAGCGA
Found at i:42490485 original size:26 final size:25
Alignment explanation
Indices: 42489872--42490476 Score: 130
Period size: 26 Copynumber: 23.8 Consensus size: 25
42489862 GGGGGGAGAG
*
42489872 GGGAGAGAGAGAAGGAGAGAAAGAGGGA
1 GGGAGAGAG-GAAGG-GAGAGAGA-GGA
* * * *
42489900 GAGAGAGGGGAAGAGAGAGAGAAAGA
1 GGGAGAGAGGAAGGGAGAGAG-AGGA
* * * *
42489926 GGGGGAGAGGGAGAGAGGGAGA-GA
1 GGGAGAGAGGAAGGGAGAGAGAGGA
* *
42489950 GGG-GAGA-G-AGAGAGAGAGAGGG
1 GGGAGAGAGGAAGGGAGAGAGAGGA
*
42489972 GGGAGAGA-G-AGGGAGGGAG-GGA
1 GGGAGAGAGGAAGGGAGAGAGAGGA
*
42489994 GGGAGAGA-G-AGGGAGAGAGTAAGA
1 GGGAGAGAGGAAGGGAGAGAG-AGGA
* * **
42490018 GAGAGAGGGAGAGAGGGAGAGA-AAAA
1 GGGAGAGAG-GA-AGGGAGAGAGAGGA
* ** *
42490044 GGGAGAGAGGGAGAAAGAGAAAGAGA
1 GGGAGAGAGGAAGGGAGAGAGAG-GA
** * *
42490070 AAGAGAGAGAGAATGAGAGAGTGAGGGA
1 GGGAGAGAG-GAA-GGGAGAGAGA-GGA
* * *
42490098 GAGAGAGAGAGAAAGGGAGGGAGACAGA
1 G-G-GAGAGAGGAAGGGAGAGAGA-GGA
* * * *
42490126 GAGAGGGAGGGAGGGATG-GATAGGGA
1 GGGAGAGAGGAAGGGA-GAGAGA-GGA
* * *
42490152 GAGAAAGAGGGAAAGGGAGAGGGA-GA
1 GGGAGAGA-GG-AAGGGAGAGAGAGGA
* *
42490178 GAGAGAGAGG-GGGGAGAGAAAGGGAGGGA
1 GGGAGAGAGGAAGGGAGAG--A--GA-GGA
42490207 GGGAGAGACGG-AGGGAGAGAG-GGA
1 GGGAGAGA-GGAAGGGAGAGAGAGGA
* *
42490231 GAGAGAGAAGG-AGGGA-AGGGA-GA
1 GGGAGAG-AGGAAGGGAGAGAGAGGA
42490254 GGGAGAG-GGAGAGGGAGAGAG-GGAAA
1 GGGAGAGAGGA-AGGGAGAGAGAGG--A
*
42490280 GGGAGAGA-G-AGAGAGAGAGAGAGA
1 GGGAGAGAGGAAGGGAGAGAGAG-GA
* *
42490304 GGG-G-GA-G-AGGGAGTGGGA-GA
1 GGGAGAGAGGAAGGGAGAGAGAGGA
42490324 GGGA-ATG-GGAGAGGGAGAGAGAGG-
1 GGGAGA-GAGGA-AGGGAGAGAGAGGA
* *
42490348 GAGAGGGAGGAAGGGAG-G-GAGGA
1 GGGAGAGAGGAAGGGAGAGAGAGGA
*
42490371 TGGGAGAGGGAGGGAGGGAGAGAGAGAGA
1 -GGGAGA--GAGGAAGGGAGAGAGAG-GA
**
42490400 CCGAGAGAGAGAATGAGG-GAGAGAGGGA
1 GGGAGAGAG-GAA-G-GGAGAGAGA-GGA
42490428 GGGAG-GAAGAGAGAGGGAGAGAGAGTG-
1 GGGAGAG-AG-GA-AGGGAGAGAGAG-GA
42490455 GGAGAGAGAGCG-AGGGAGAGAG
1 GG-GAGAGAG-GAAGGGAGAGAG
42490477 GAAGCGAGAT
Statistics
Matches: 434, Mismatches: 79, Indels: 130
0.67 0.12 0.20
Matches are distributed among these distances:
20 5 0.01
21 12 0.03
22 42 0.10
23 42 0.10
24 76 0.18
25 11 0.03
26 108 0.25
27 22 0.05
28 81 0.19
29 19 0.04
30 16 0.04
ACGTcount: A:0.40, C:0.01, G:0.58, T:0.02
Consensus pattern (25 bp):
GGGAGAGAGGAAGGGAGAGAGAGGA
Found at i:42492093 original size:49 final size:50
Alignment explanation
Indices: 42492013--42492258 Score: 325
Period size: 49 Copynumber: 4.9 Consensus size: 50
42492003 AGCTATTGTG
*
42492013 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
42492063 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
42492113 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
42492163 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
42492213 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
42492259 GCTTTGGCTA
Statistics
Matches: 169, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
49 83 0.49
50 48 0.28
51 38 0.22
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:42492150 original size:28 final size:28
Alignment explanation
Indices: 42492118--42492201 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
42492108 AACTTCGATC
42492118 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
42492146 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
42492168 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
42492196 ACGTGT
1 ACGTGT
42492202 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:42493552 original size:6 final size:6
Alignment explanation
Indices: 42493532--42493622 Score: 98
Period size: 6 Copynumber: 15.7 Consensus size: 6
42493522 GAGGCGTTAA
* * **
42493532 AGGGAG AGGGA- AAGGAG AAGGAG AGGGAG AGGGAG AGGGAG AGAAAG
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG
* * *
42493579 AGGGAG AGAGAG AGGGAG AGGGAG A--GAG AGGGGG AAGGAG AGGG
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGG
42493623 GGAAAAAGAG
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
4 4 0.06
5 4 0.06
6 62 0.89
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (6 bp):
AGGGAG
Found at i:42493592 original size:30 final size:29
Alignment explanation
Indices: 42493532--42493654 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 29
42493522 GAGGCGTTAA
* * * *
42493532 AGGGAGAGGGAAAGGAGAAGGAGAGGGAG
1 AGGGAGAGGGAGAGAAGAGGGAGAGAGAG
42493561 AGGGAGAGGGAGAGAAAGAGGGAGAGAGAG
1 AGGGAGAGGGAGAG-AAGAGGGAGAGAGAG
*
42493591 AGGGAGAGGGAGAG-AGAGGGGGA-AGGAG
1 AGGGAGAGGGAGAGAAGAGGGAGAGA-GAG
* *** *
42493619 AGGGGGAAAAAGAGAGGAGGGAGAGAGAG
1 AGGGAGAGGGAGAGAAGAGGGAGAGAGAG
*
42493648 TGGGAGA
1 AGGGAGA
42493655 AGGACGGCTA
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
27 1 0.01
28 21 0.27
29 28 0.36
30 27 0.35
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.01
Consensus pattern (29 bp):
AGGGAGAGGGAGAGAAGAGGGAGAGAGAG
Found at i:42496522 original size:22 final size:23
Alignment explanation
Indices: 42496482--42496533 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
42496472 TGGACAAGCC
42496482 ACCACATAATTACCAATAAA-TG
1 ACCACATAATTACCAATAAACTG
*
42496504 ACCACATAATT-GCATATAAACTG
1 ACCACATAATTACCA-ATAAACTG
42496527 -CCACATA
1 ACCACATA
42496534 TCTTCCTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 23 0.85
23 2 0.07
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (23 bp):
ACCACATAATTACCAATAAACTG
Found at i:42500176 original size:24 final size:24
Alignment explanation
Indices: 42500124--42500177 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
42500114 AATGAATAAT
*
42500124 CAGATTTAGATGCGGATACAGACG
1 CAGATTTAGATGCGGATACAGACA
* *
42500148 TAGATTTAGATGTC-GATGCAGACA
1 CAGATTTAGATG-CGGATACAGACA
42500172 CAGATT
1 CAGATT
42500178 CCGATACAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (24 bp):
CAGATTTAGATGCGGATACAGACA
Found at i:42509431 original size:46 final size:46
Alignment explanation
Indices: 42509381--42509651 Score: 370
Period size: 46 Copynumber: 5.8 Consensus size: 46
42509371 TGGTTGAGCA
42509381 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
42509427 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
42509473 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGATA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
42509519 TCCGAACTCGTTGAGTTGAGTGTCCGAGTT--CGT-TGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGA--GTCCGAGTTCACTTATG-GATGCGAA-T--G
*
42509567 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42509615 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42509652 GCGGGTTACA
Statistics
Matches: 201, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
45 3 0.01
46 150 0.75
48 19 0.09
50 25 0.12
51 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42515856 original size:46 final size:46
Alignment explanation
Indices: 42515806--42516026 Score: 263
Period size: 46 Copynumber: 4.8 Consensus size: 46
42515796 TGGTTGAGCA
42515806 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
42515852 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
42515898 T-CGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
42515942 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
42515990 CCCGAGCTCGTTGTGTTAAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42516027 GCGGGTTACA
Statistics
Matches: 151, Mismatches: 14, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
41 2 0.01
42 5 0.03
44 3 0.02
45 26 0.17
46 80 0.53
47 26 0.17
48 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42520507 original size:23 final size:23
Alignment explanation
Indices: 42520457--42520519 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
42520447 TTTTATGTGC
42520457 GCAAGTGATAGTGGCATTACAAT
1 GCAAGTGATAGTGGCATTACAAT
* *
42520480 ACAAGTGATAGTGGCACTT-CACT
1 GCAAGTGATAGTGGCA-TTACAAT
* *
42520503 GCAAGTGACAGTAGCAT
1 GCAAGTGATAGTGGCAT
42520520 ACTTGTGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.03
23 31 0.91
24 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (23 bp):
GCAAGTGATAGTGGCATTACAAT
Found at i:42521049 original size:24 final size:24
Alignment explanation
Indices: 42521028--42521079 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
42521018 AATCAATGTC
*
42521028 AAATATATTATGCTAACAAATGCT
1 AAATATATTATACTAACAAATGCT
* *
42521052 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAACAAATGCT
42521076 AAAT
1 AAAT
42521080 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAACAAATGCT
Found at i:42521219 original size:29 final size:29
Alignment explanation
Indices: 42521170--42521228 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
42521160 TCCACCTTGA
* * * *
42521170 CATGAATTCTCAATGATCAAGTTCTTCAC
1 CATGAACTCTCAACGAGCAAGTTCTCCAC
42521199 CATGAACTCTCAACGAGCAAGTTCTCCAC
1 CATGAACTCTCAACGAGCAAGTTCTCCAC
42521228 C
1 C
42521229 TATTCCATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.27
Consensus pattern (29 bp):
CATGAACTCTCAACGAGCAAGTTCTCCAC
Found at i:42530114 original size:40 final size:41
Alignment explanation
Indices: 42530052--42530140 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 41
42530042 AAGAATATCA
* * * *
42530052 ATATTAAAAAACACTACCATAAATATAATAAGTGTTTTATT
1 ATATTAAAAAACACTACAATAAATATAAGAAATATTTTATT
42530093 ATATTAAAAAAGCAC-A-AATAAATATAAGAAATATTTTATT
1 ATATTAAAAAA-CACTACAATAAATATAAGAAATATTTTATT
42530133 ATATTAAA
1 ATATTAAA
42530141 TATAATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 28 0.65
41 12 0.28
42 3 0.07
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (41 bp):
ATATTAAAAAACACTACAATAAATATAAGAAATATTTTATT
Found at i:42546666 original size:13 final size:13
Alignment explanation
Indices: 42546648--42546672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42546638 TAAAGGGCAC
42546648 ACGGGCTGGTCAT
1 ACGGGCTGGTCAT
42546661 ACGGGCTGGTCA
1 ACGGGCTGGTCA
42546673 CACAGGCGTG
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACGGGCTGGTCAT
Found at i:42554701 original size:16 final size:17
Alignment explanation
Indices: 42554669--42554702 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
42554659 TTTATTTTTA
42554669 AATTTATAAAACATAAT
1 AATTTATAAAACATAAT
*
42554686 AATTTA-AAATCATAAT
1 AATTTATAAAACATAAT
42554702 A
1 A
42554703 TGTTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTTATAAAACATAAT
Found at i:42557119 original size:36 final size:38
Alignment explanation
Indices: 42557030--42557119 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
42557020 GGAATTAACC
*
42557030 TTACAATCTCCCTTAAGATTTCTACCCAACATCTTAAGA
1 TTACAA-CTCCCTTAAGATTTCTACCCAACACCTTAAGA
* *
42557069 TTACAACTCCCTTAAGGTTTCTACCCAA-ACCTTATGA
1 TTACAACTCCCTTAAGATTTCTACCCAACACCTTAAGA
42557106 -TACAAC-CCTCTTAA
1 TTACAACTCC-CTTAA
42557120 AGAGATACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
35 2 0.04
36 11 0.23
37 7 0.15
38 21 0.45
39 6 0.13
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (38 bp):
TTACAACTCCCTTAAGATTTCTACCCAACACCTTAAGA
Found at i:42558063 original size:23 final size:23
Alignment explanation
Indices: 42558037--42558131 Score: 93
Period size: 23 Copynumber: 4.2 Consensus size: 23
42558027 TGGCGTATTT
*
42558037 TGTTTGGCTTGTGTGGCACATTC
1 TGTTTGGCCTGTGTGGCACATTC
* * *
42558060 TGTTTTGCCTGTGTGGCATATTT
1 TGTTTGGCCTGTGTGGCACATTC
* * **
42558083 TGTTTGGCTTGTATGGCGTATT-
1 TGTTTGGCCTGTGTGGCACATTC
* *
42558105 TTTTTGGCCTATGTGGCACATTC
1 TGTTTGGCCTGTGTGGCACATTC
42558128 TGTT
1 TGTT
42558132 CAGCCTTTGT
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
22 16 0.29
23 40 0.71
ACGTcount: A:0.09, C:0.15, G:0.27, T:0.48
Consensus pattern (23 bp):
TGTTTGGCCTGTGTGGCACATTC
Found at i:42558122 original size:68 final size:69
Alignment explanation
Indices: 42558025--42558158 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 69
42558015 GTATTGCCTT
* * ** * *
42558025 TATGGCGTATTTTGTTTGGCTTGTGTGGCACATTCTGTTTTGCCTGTGTGGCATATTTTGTTTGG
1 TATGGCGTATTTTGTTTGGCCTATGTGGCACATTCTGTTCAGCCTGTGTGACATATTTTATTTGG
42558090 CTTG
66 CTTG
* *
42558094 TATGGCGTATTTT-TTTGGCCTATGTGGCACATTCTGTTCAGCCTTTGTGACGTATTTTATTTGG
1 TATGGCGTATTTTGTTTGGCCTATGTGGCACATTCTGTTCAGCCTGTGTGACATATTTTATTTGG
42558158 C
66 C
42558159 CTTTAGGTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
68 44 0.77
69 13 0.23
ACGTcount: A:0.11, C:0.15, G:0.26, T:0.48
Consensus pattern (69 bp):
TATGGCGTATTTTGTTTGGCCTATGTGGCACATTCTGTTCAGCCTGTGTGACATATTTTATTTGG
CTTG
Found at i:42559570 original size:20 final size:18
Alignment explanation
Indices: 42559525--42559571 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
42559515 TTTAAAATAG
*
42559525 TTTTAACTTAATTGAAAA
1 TTTTAACTCAATTGAAAA
42559543 TGTTTAACTCAATTGAAACCA
1 T-TTTAACTCAATTGAAA--A
42559564 TTTTAACT
1 TTTTAACT
42559572 TGATTTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 15 0.60
20 7 0.28
21 2 0.08
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (18 bp):
TTTTAACTCAATTGAAAA
Found at i:42562140 original size:33 final size:33
Alignment explanation
Indices: 42562098--42562161 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
42562088 TGCAGTAGCA
***
42562098 GTCTGGGCCTGAGCCCTGTTCAGAAACAGTGCT
1 GTCTGGGCCTGAGCCCTAAACAGAAACAGTGCT
*
42562131 GTCTGGGCCTTAGCCCTAAACAGAAACAGTG
1 GTCTGGGCCTGAGCCCTAAACAGAAACAGTG
42562162 TAGGCCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (33 bp):
GTCTGGGCCTGAGCCCTAAACAGAAACAGTGCT
Found at i:42562341 original size:27 final size:27
Alignment explanation
Indices: 42562300--42562367 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
42562290 AATATCGCAA
*
42562300 CAAAGCTACCAGTAATAGT-ATATGTGG
1 CAAAGCCACCAGTAATAGTAAT-TGTGG
*
42562327 CAAAGCCACCGGTAATAGTAATTGTGG
1 CAAAGCCACCAGTAATAGTAATTGTGG
*
42562354 CAGAGCCACCAGTA
1 CAAAGCCACCAGTA
42562368 CAATACTACC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAAAGCCACCAGTAATAGTAATTGTGG
Found at i:42571872 original size:30 final size:30
Alignment explanation
Indices: 42571838--42571898 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42571828 TCCTTAACTC
42571838 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42571868 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42571898 A
1 A
42571899 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42572016 original size:13 final size:13
Alignment explanation
Indices: 42571998--42572023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42571988 TAACACATAG
42571998 TTATGAATAATAA
1 TTATGAATAATAA
42572011 TTATGAATAATAA
1 TTATGAATAATAA
42572024 CAACTTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
TTATGAATAATAA
Found at i:42580212 original size:18 final size:20
Alignment explanation
Indices: 42580176--42580222 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
42580166 AGTTGTAAGT
42580176 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
42580196 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
42580215 ATGATATA
1 AT-ATATA
42580223 ACCTGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:42580659 original size:50 final size:50
Alignment explanation
Indices: 42580570--42580813 Score: 265
Period size: 50 Copynumber: 4.9 Consensus size: 50
42580560 TTCGTTGTGA
* * *
42580570 GTCACGTGTGTAGTACTAAGTGTAGGCTATTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * *
42580620 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * * *
42580671 ATCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
**
42580721 GTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
42580771 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
42580814 GAGCTTCGGT
Statistics
Matches: 155, Mismatches: 36, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 3 0.02
50 116 0.75
51 35 0.23
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:42580746 original size:101 final size:101
Alignment explanation
Indices: 42580571--42580752 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
42580561 TCGTTGTGAG
* * * * *
42580571 TCACGTGTGTAGTACTAAGTGTAGGCTATTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTACCAGATGGATAAGTCACATGTGTAGTAC
42580636 TAAGTGCAGGCTACTATGCGTACCTGTTAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCTGTTAACTTCGA
* * **
42580672 TCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTATCAGATGGTTAAGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTACCAGATGGATAAGTCACATGTGTAGTAC
42580737 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
42580753 CGTGTACCAG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCTGTTAACTTCGA
Found at i:42580760 original size:101 final size:100
Alignment explanation
Indices: 42580571--42580799 Score: 280
Period size: 101 Copynumber: 2.3 Consensus size: 100
42580561 TCGTTGTGAG
* * * * *
42580571 TCACGTGTGTAGTACTAAGTGTAGGCTATTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTACCAGATGGATAAGTCACATGTGTAGTAC
* * *
42580636 TAAGTGCAGGCTACTATGCGTACCTG-TTAACTTCGA
66 TAAGTGCAGGCTACTACGCGTACCAGATTAA--TAGA
* * **
42580672 TCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTATCAGATGGTTAAGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTACCAGATGGATAAGTCACATGTGTAGTAC
* * *
42580737 TAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
66 TAAGTGCAGGCTACTACGCGTACCAGATTAATAGA
* *
42580772 TCGCATGTGTAGTACTAAGTGCAGGCTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTA
42580800 CTATGCGTAC
Statistics
Matches: 110, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
100 28 0.25
101 79 0.72
102 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCAGATTAATAGA
Found at i:42581034 original size:16 final size:16
Alignment explanation
Indices: 42581013--42581044 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42581003 AGAATGGAGT
42581013 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
42581029 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
42581045 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:42583956 original size:44 final size:44
Alignment explanation
Indices: 42583893--42584047 Score: 181
Period size: 44 Copynumber: 3.5 Consensus size: 44
42583883 TGTGTTATCG
* *
42583893 TGTAAGACTAGGTCTGGGACGTTGGCATCGACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACA
* * * *
42583937 TGTAAGACCACGTTTGGGACGTTGGAATTGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACA
* * *
42583981 TGTAAGACCACGTTTGGGATAG-TGGCATCGA-TATTTGA-TTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATCGACT-TATGATTTACA
*
42584024 TGTAAGACCATGTCTGGGACGTTG
1 TGTAAGACCACGTCTGGGACGTTG
42584048 CATTGTACGA
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.01
43 24 0.26
44 68 0.72
45 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACA
Found at i:42584570 original size:23 final size:23
Alignment explanation
Indices: 42584518--42584570 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
42584508 TTTAGCCATG
*
42584518 TGATATGGCTTGGTTTTGGTTGA
1 TGATATGGCTTGATTTTGGTTGA
** *
42584541 TCTTATGGTTTGATTTTGGTAT-A
1 TGATATGGCTTGATTTTGGT-TGA
42584564 TGATATG
1 TGATATG
42584571 TGATGCAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (23 bp):
TGATATGGCTTGATTTTGGTTGA
Found at i:42587591 original size:16 final size:16
Alignment explanation
Indices: 42587572--42587607 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
42587562 CTGTGAAAAG
42587572 AATTATTTATGAAATT
1 AATTATTTATGAAATT
*
42587588 AATTATTTATGAGATT
1 AATTATTTATGAAATT
42587604 AATT
1 AATT
42587608 TAAAACACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (16 bp):
AATTATTTATGAAATT
Found at i:42591714 original size:387 final size:387
Alignment explanation
Indices: 42591000--42591766 Score: 1408
Period size: 387 Copynumber: 2.0 Consensus size: 387
42590990 TTTTCATAAG
42591000 AGCGCTTCTCATTGAGTCATCCCGTATTTTTGAATATCTCCAATAAGCTTGTTGCTGCCACTGCA
1 AGCGCTTCTCATTGAGTCATCCCGTATTTTTGAATATCTCCAATAAGCTTGTTGCTGCCACTGCA
*
42591065 TATGTTGCATAATGTCCATCAATTTTTATAGCTCACCTCGAAGATTTGGGTGAGGTGATTGAGTC
66 TATGTTGCATAATGTCCATCAATTTTTATAACTCACCTCGAAGATTTGGGTGAGGTGATTGAGTC
* *
42591130 CTGAACATTGAAGTTGCAACATCAGGTTTGGTTATTGATTCCATTGGTTCTGCCTTATCAGGGAT
131 CTGAACATTGAAGTTGCAACATCAGGTTCGGTTACTGATTCCATTGGTTCTGCCTTATCAGGGAT
* *
42591195 TTTAGCTGACTACCTTGGTTCGATGTCTGTGGGATCTTCTTCTTCTTCTTCAGGATCATTGCTCT
196 TTTAGCTAACTACCTTGGTTCGATCTCTGTGGGATCTTCTTCTTCTTCTTCAGGATCATTGCTCT
* *
42591260 CTTCAAGTCGTTGCTGTAGAACATAGTCTCTAGCTCTTCGGTAGAGGTCCCAATCTATGATTGTG
261 CTTCAAGCCGTTACTGTAGAACATAGTCTCTAGCTCTTCGGTAGAGGTCCCAATCTATGATTGTG
**
42591325 CCCTGACTATAACCTGTCTTCTTTAAGTTTGAAAGAATTTTTTCTTTCAAGCACAGAGTTTT
326 CCCTGACTATAACCTGTCTTCTTTAAGTTTGAAAGAATTTTAGCTTTCAAGCACAGAGTTTT
*
42591387 AGCGCTTCTCATTGAGTCATCCCGTATTTTTGAATATCTCCAGTAAGCTTGTTGCTGCCACTGCA
1 AGCGCTTCTCATTGAGTCATCCCGTATTTTTGAATATCTCCAATAAGCTTGTTGCTGCCACTGCA
*
42591452 TATGTTGCATAATGTCCATCAATTTTTATAACTCATCTCGAAGATTTGGGTGAGGTGATTGAGTC
66 TATGTTGCATAATGTCCATCAATTTTTATAACTCACCTCGAAGATTTGGGTGAGGTGATTGAGTC
42591517 CTGAACATTGAAGTTGCAACATCAGGTTCGGTTACTGATTCCATTGGTTCTGCCTTATCAGGGAT
131 CTGAACATTGAAGTTGCAACATCAGGTTCGGTTACTGATTCCATTGGTTCTGCCTTATCAGGGAT
42591582 TTTAGCTAACTACCTTGGTTCGATCTCTGTGGGATCTTCTTCTTCTTCTTCAGGATCATTGCTCT
196 TTTAGCTAACTACCTTGGTTCGATCTCTGTGGGATCTTCTTCTTCTTCTTCAGGATCATTGCTCT
* *
42591647 CTTCAAGCCGTTACTGTAGAACATAGTTTCTAGCTCTTCGGTAGAGGTCCCAATCTGTGATTGTG
261 CTTCAAGCCGTTACTGTAGAACATAGTCTCTAGCTCTTCGGTAGAGGTCCCAATCTATGATTGTG
*
42591712 CCCTGACTATAACCTGTCTTCTTTAAGTTTGCAAGAATTTTAGCTTTCAAGCACA
326 CCCTGACTATAACCTGTCTTCTTTAAGTTTGAAAGAATTTTAGCTTTCAAGCACA
42591767 AAATTGTTAT
Statistics
Matches: 366, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
387 366 1.00
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (387 bp):
AGCGCTTCTCATTGAGTCATCCCGTATTTTTGAATATCTCCAATAAGCTTGTTGCTGCCACTGCA
TATGTTGCATAATGTCCATCAATTTTTATAACTCACCTCGAAGATTTGGGTGAGGTGATTGAGTC
CTGAACATTGAAGTTGCAACATCAGGTTCGGTTACTGATTCCATTGGTTCTGCCTTATCAGGGAT
TTTAGCTAACTACCTTGGTTCGATCTCTGTGGGATCTTCTTCTTCTTCTTCAGGATCATTGCTCT
CTTCAAGCCGTTACTGTAGAACATAGTCTCTAGCTCTTCGGTAGAGGTCCCAATCTATGATTGTG
CCCTGACTATAACCTGTCTTCTTTAAGTTTGAAAGAATTTTAGCTTTCAAGCACAGAGTTTT
Found at i:42593352 original size:22 final size:19
Alignment explanation
Indices: 42593313--42593354 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
42593303 TGCAAAGTTG
42593313 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
42593332 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
42593354 A
1 A
42593355 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Done.