Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 17 of 235
Found at i:4966322 original size:28 final size:28
Alignment explanation
Indices: 4966291--4966372 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 28
4966281 GCTCTTCAAC
* *
4966291 TGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGCACTATGTGTGCGAGATCAGTAAT
* **
4966319 TGAGGCACTATGTGTGCGAGTTCTTTAAT
1 TGA-GCACTATGTGTGCGAGATCAGTAAT
* *
4966348 CGAGCACTATGTGTGCGAAATCAGT
1 TGAGCACTATGTGTGCGAGATCAGT
4966373 CAGTGGGCAC
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
28 21 0.49
29 22 0.51
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (28 bp):
TGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:4966353 original size:57 final size:57
Alignment explanation
Indices: 4966264--4966393 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 57
4966254 TGGAATTATA
* *
4966264 AGGCACTGTGTGTGCAAGCTCTTCAACTGAGCACTATGTGTGCCAGATCAGTAGTTG
1 AGGCACTATGTGTGCAAGCTCTTCAACTGAGCACTATGTGTGCCAAATCAGTAGTTG
* * * *
4966321 AGGCACTATGTGTGCGAGTTCTTTAA-TCGAGCACTATGTGTGCGAAATCAGTCAG-TG
1 AGGCACTATGTGTGCAAGCTCTTCAACT-GAGCACTATGTGTGCCAAATCAGT-AGTTG
* *
4966378 -GGCACTGTGTATGCAA
1 AGGCACTATGTGTGCAA
4966394 AGTGTGTTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
56 14 0.23
57 46 0.74
58 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
AGGCACTATGTGTGCAAGCTCTTCAACTGAGCACTATGTGTGCCAAATCAGTAGTTG
Found at i:4966382 original size:28 final size:27
Alignment explanation
Indices: 4966294--4966383 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
4966284 CTTCAACTGA
*
4966294 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATCAGTAG-TG-G
* ** * *
4966323 GCACTATGTGTGCGAGTTCTTTAATCGA
1 GCACTATGTGTGCGAGATCAGTAGT-GG
*
4966351 GCACTATGTGTGCGAAATCAGTCAGTGG
1 GCACTATGTGTGCGAGATCAGT-AGTGG
4966379 GCACT
1 GCACT
4966384 GTGTATGCAA
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
28 25 0.53
29 22 0.47
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTATGTGTGCGAGATCAGTAGTGG
Found at i:4969856 original size:48 final size:48
Alignment explanation
Indices: 4969804--4970237 Score: 683
Period size: 48 Copynumber: 9.0 Consensus size: 48
4969794 CAAGATAAAT
*
4969804 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
4969852 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
4969902 ACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
4969950 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
4969998 --ATATATATGTGGTAAAGCCGAATGGCTAATGTGAAAGATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
4970044 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
4970092 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATTTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
4970140 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * * *
4970188 AGATGTATATTTGGTAAAGCCGAATGGCTAATGAGCAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
4970236 AT
1 AT
4970238 GTGTGTATAT
Statistics
Matches: 358, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
46 44 0.12
48 269 0.75
50 45 0.13
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:4970064 original size:142 final size:143
Alignment explanation
Indices: 4969804--4970237 Score: 708
Period size: 142 Copynumber: 3.0 Consensus size: 143
4969794 CAAGATAAAT
* *
4969804 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATGTATATGTGGT
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGA-ATA--TATATGTGGT
4969869 AAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAAT
63 AAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAAT
4969934 GTGAAATATGTATGAG
128 GTGAAATATGTATGAG
4969950 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG-ATATATATGTGGTAAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGAATATATATGTGGTAAA
* * *
4970014 GCCGAATGGCTAATGTGAAAGATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATG
66 GCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATGTG
4970079 AAATATGTATGAG
131 AAATATGTATGAG
* *
4970092 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATTTATGAGATATATATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGA-ATATATATGTGGTAA
* * * *
4970157 ATCCGAATGGCTAATGTGAAATATGTATGAGAGATGTATATTTGGTAAAGCCGAATGGCTAATGA
65 AGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATGT
* *
4970222 GCAATATGTAGGAG
130 GAAATATGTATGAG
4970236 AT
1 AT
4970238 GTGTGTATAT
Statistics
Matches: 271, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
142 134 0.49
144 91 0.34
146 46 0.17
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (143 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGAATATATATGTGGTAAA
GCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATGTG
AAATATGTATGAG
Found at i:4973536 original size:30 final size:30
Alignment explanation
Indices: 4973500--4973558 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
4973490 ATGTCATGAA
*
4973500 ACATGTTGTGTTAATGGAAGAATAAAATAG
1 ACATGTTGTGTTAATCGAAGAATAAAATAG
4973530 ACATGTTGTGTTAATCGAAGAATAAAATA
1 ACATGTTGTGTTAATCGAAGAATAAAATA
4973559 AGAAGCATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (30 bp):
ACATGTTGTGTTAATCGAAGAATAAAATAG
Found at i:4973616 original size:56 final size:56
Alignment explanation
Indices: 4973530--4973684 Score: 283
Period size: 56 Copynumber: 2.8 Consensus size: 56
4973520 AATAAAATAG
* *
4973530 ACATGTTGTGTTAATCGAAGAATAAAATAAGAAGCATGGGCAAAACATGCCATGAA
1 ACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGCCATCAA
*
4973586 ACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGTCATCAA
1 ACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGCCATCAA
4973642 ACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAA
1 ACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAA
4973685 TAAACTAATA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 96 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (56 bp):
ACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGCCATCAA
Found at i:4974368 original size:40 final size:40
Alignment explanation
Indices: 4974284--4974548 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
4974274 TCGAATGATG
* * * *
4974284 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
4974324 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
4974364 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
4974403 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
4974443 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
4974484 -CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
4974524 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
4974549 AACGAGTAGC
Statistics
Matches: 205, Mismatches: 15, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
39 34 0.17
40 161 0.79
41 10 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:4974566 original size:120 final size:119
Alignment explanation
Indices: 4974284--4974555 Score: 327
Period size: 119 Copynumber: 2.3 Consensus size: 119
4974274 TCGAATGATG
** * * * * **
4974284 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
*
4974347 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
* **
4974403 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
* * *
4974468 GTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAA
66 GTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
*
4974524 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGT
4974556 AGCTATATCC
Statistics
Matches: 133, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
118 3 0.02
119 68 0.51
120 60 0.45
121 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:4981093 original size:56 final size:56
Alignment explanation
Indices: 4981011--4981253 Score: 459
Period size: 56 Copynumber: 4.3 Consensus size: 56
4981001 GGCCGGCCAT
*
4981011 AAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATA
1 AAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATA
4981067 AAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATA
1 AAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATA
4981123 AAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATA
1 AAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATA
* *
4981179 AAATAAGAAGCATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATA
1 AAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATA
4981235 AAATAAGAAGCATGGGCAA
1 AAATAAGAAGCATGGGCAA
4981254 TAAACTAATA
Statistics
Matches: 184, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 184 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.22
Consensus pattern (56 bp):
AAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATA
Found at i:4982067 original size:80 final size:78
Alignment explanation
Indices: 4981875--4982092 Score: 244
Period size: 80 Copynumber: 2.7 Consensus size: 78
4981865 AAGTGACCAT
* * * *
4981875 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAATCC-GGTTAAGTCCCGAAGCCAT
4981938 TGGTGCGAGTTACTAA
63 TGGTGCGAGTTACTAA
*
4981954 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTTAAGTCCCGAAGCCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAATCCG-GTTAAGTCCCGAAGCCATT
*
4982019 TGTGCGAGTTACTATA
64 GGTGCGAGTTACTA-A
* ** * * *
4982035 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAATCCGGTTAAGTCCCGAAG
4982093 GTACGTGATT
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 57 0.47
80 59 0.49
81 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (78 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAATCCGGTTAAGTCCCGAAGCCATTGG
TGCGAGTTACTAA
Found at i:4982074 original size:40 final size:40
Alignment explanation
Indices: 4981836--4982060 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
4981826 TCGAATGATG
* * * *
4981836 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
4981876 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
4981916 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
4981955 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
4981995 TCCGAGTTAAGTCCCGAAGCCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
4982036 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
4982061 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:4984944 original size:26 final size:26
Alignment explanation
Indices: 4984914--4984965 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4984904 CACACAAGTG
* *
4984914 AGTCATTTACGCACGAAGGGCAAAAT
1 AGTCATTAACACACGAAGGGCAAAAT
* *
4984940 AGTCATTAACACCCTAAGGGCAAAAT
1 AGTCATTAACACACGAAGGGCAAAAT
4984966 GGAAATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (26 bp):
AGTCATTAACACACGAAGGGCAAAAT
Found at i:4984999 original size:27 final size:27
Alignment explanation
Indices: 4984969--4985165 Score: 250
Period size: 27 Copynumber: 7.3 Consensus size: 27
4984959 GCAAAATGGA
* * * **
4984969 AATTTTACCCCACAAGGGTATCTCATT
1 AATTCTACCCTACAAGGGTATTTCGGT
4984996 AATTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
4985023 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
4985050 AATTCTATCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* **
4985077 AATTCTACCCTACAGGGGTATTTCAAT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
4985104 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* * * *
4985131 AATTCTACCTTATAGGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
4985158 AATTCTAC
1 AATTCTAC
4985166 AACTTATCCA
Statistics
Matches: 153, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGGT
Found at i:4986368 original size:112 final size:112
Alignment explanation
Indices: 4986208--4986431 Score: 430
Period size: 112 Copynumber: 2.0 Consensus size: 112
4986198 AAAACCGAAA
*
4986208 CAAAAAGGAAAGAAAAAGGGAAATTTACACTAAGGTAATTCGGCATCTTCTTTTGCTAGTAGGAG
1 CAAAAAGGAAAGAAAAAGGGAAATTTACACTAAGGCAATTCGGCATCTTCTTTTGCTAGTAGGAG
4986273 GTAAGTTTTGAAGTGTTGGTTAAATCTTTTTAAATGTTAAGTTAATT
66 GTAAGTTTTGAAGTGTTGGTTAAATCTTTTTAAATGTTAAGTTAATT
4986320 CAAAAAGGAAAGAAAAAGGGAAATTTACACTAAGGCAATTCGGCATCTTCTTTTGCTAGTAGGAG
1 CAAAAAGGAAAGAAAAAGGGAAATTTACACTAAGGCAATTCGGCATCTTCTTTTGCTAGTAGGAG
*
4986385 GTAAGTTTTGAAGTGTTGGTTAAATCTTTTTATATGTTAAGTTAATT
66 GTAAGTTTTGAAGTGTTGGTTAAATCTTTTTAAATGTTAAGTTAATT
4986432 TTGAATGCAC
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.35
Consensus pattern (112 bp):
CAAAAAGGAAAGAAAAAGGGAAATTTACACTAAGGCAATTCGGCATCTTCTTTTGCTAGTAGGAG
GTAAGTTTTGAAGTGTTGGTTAAATCTTTTTAAATGTTAAGTTAATT
Found at i:4987614 original size:24 final size:24
Alignment explanation
Indices: 4987531--4987616 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
4987521 AAGAAATTTC
* * * *
4987531 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCAAGATTACGT
* *
4987555 AGCACTATGTGTGCAAAAACTACGT
1 AGCACTATGTGTGC-AAGATTACGT
* * *
4987580 GGCACTCTGTGTGCAAGATTACAT
1 AGCACTATGTGTGCAAGATTACGT
4987604 AGCACTATGTGTG
1 AGCACTATGTGTG
4987617 TGAGGAAACG
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 32 0.67
25 16 0.33
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (24 bp):
AGCACTATGTGTGCAAGATTACGT
Found at i:4990807 original size:29 final size:27
Alignment explanation
Indices: 4990789--4990858 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
4990779 ATATTAAGTC
4990789 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
4990816 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
4990844 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
4990859 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:4990852 original size:28 final size:28
Alignment explanation
Indices: 4990789--4990886 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
4990779 ATATTAAGTC
*
4990789 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
4990816 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
4990844 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
4990873 CGCACACTTAGTGC
1 CGCACACTTAGTGC
4990887 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:5002446 original size:28 final size:28
Alignment explanation
Indices: 5002414--5002541 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
5002404 ATAGTAAGTC
*
5002414 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
5002442 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
5002471 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
5002499 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
5002528 CGCACACTTAGTGC
1 CGCACACTTAGTGC
5002542 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:5002504 original size:57 final size:57
Alignment explanation
Indices: 5002413--5002541 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
5002403 TATAGTAAGT
*
5002413 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
5002470 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
5002527 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
5002542 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:5007230 original size:27 final size:26
Alignment explanation
Indices: 5007183--5007236 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
5007173 TCACACAAGT
*
5007183 TAGTCATTTACACACGAGGGGCAAAA
1 TAGTCATTTACACACGAGGGGAAAAA
* *
5007209 TAGTCATTTAACACCCTAGGGGAAAAA
1 TAGTCATTT-ACACACGAGGGGAAAAA
5007236 T
1 T
5007237 GGAAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (26 bp):
TAGTCATTTACACACGAGGGGAAAAA
Found at i:5007270 original size:27 final size:27
Alignment explanation
Indices: 5007240--5007407 Score: 203
Period size: 27 Copynumber: 6.2 Consensus size: 27
5007230 GAAAAATGGA
* * * *
5007240 AATTTTACCCCACAAGGGTATCTCGAT
1 AATTCTACCCTACAGGGGTATTTCGAT
* *
5007267 AATTCTACCCTATAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
* * *
5007294 ATTTCTACCCTACAAGGGTATTTC-AGC
1 AATTCTACCCTACAGGGGTATTTCGA-T
* *
5007321 AATTCTATCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
*
5007348 AATTCTACCCTACAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGAT
*
5007375 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
5007402 AATTCT
1 AATTCT
5007408 CCAACTTACC
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGAT
Found at i:5007303 original size:54 final size:53
Alignment explanation
Indices: 5007240--5007407 Score: 237
Period size: 54 Copynumber: 3.1 Consensus size: 53
5007230 GAAAAATGGA
* * * *
5007240 AATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTC-ATAATTCTACCCTACAGGGGTATTTCGGT
* * *
5007294 ATTTCTACCCTACAAGGGTATTTCAGCAATTCTATCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCA-TAATTCTACCCTACAGGGGTATTTCGGT
*
5007348 AATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTC-ATAATTCTACCCTACAGGGGTATTTCGGT
5007402 AATTCT
1 AATTCT
5007408 CCAACTTACC
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 99 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (53 bp):
AATTCTACCCTACAAGGGTATTTCATAATTCTACCCTACAGGGGTATTTCGGT
Found at i:5007358 original size:81 final size:81
Alignment explanation
Indices: 5007255--5007407 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 81
5007245 TACCCCACAA
* ** *
5007255 GGGTATCTCGATAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAG
1 GGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAG
5007320 CAATTCTATCCTACAG
66 CAATTCTATCCTACAG
* * * *
5007336 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAG
*
5007401 TAATTCT
66 CAATTCT
5007408 CCAACTTACC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (81 bp):
GGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAG
CAATTCTATCCTACAG
Found at i:5011631 original size:39 final size:39
Alignment explanation
Indices: 5011587--5011662 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
5011577 AATTATATTA
*
5011587 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATAC
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCAGATACATAC
*
5011626 CCAGCACGAAGCCTGCGGGACTTTAGCCCAGATACAT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCAGATACAT
5011663 TTCTAGTGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.28, C:0.33, G:0.24, T:0.16
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCAGATACATAC
Found at i:5022451 original size:10 final size:10
Alignment explanation
Indices: 5022423--5022481 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
5022413 AATTTTAGCT
*
5022423 TTTATCTTCA
1 TTTATCTTTA
5022433 TTTATCTTTA
1 TTTATCTTTA
*
5022443 ATTATCTTTA
1 TTTATCTTTA
* *
5022453 ATTATATTTA
1 TTTATCTTTA
5022463 TTTAT-TTGTA
1 TTTATCTT-TA
5022473 TTTATCTTT
1 TTTATCTTT
5022482 TACAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:5026260 original size:15 final size:16
Alignment explanation
Indices: 5026240--5026279 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
5026230 CCCAATTTTG
5026240 TTTTATTTATATAT-T
1 TTTTATTTATATATAT
5026255 TTTTATTTATATATAT
1 TTTTATTTATATATAT
5026271 TTTCTATTT
1 TTT-TATTT
5026280 TCTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.61
16 4 0.17
17 5 0.22
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTATATATAT
Found at i:5027245 original size:100 final size:100
Alignment explanation
Indices: 5027083--5027262 Score: 263
Period size: 100 Copynumber: 1.8 Consensus size: 100
5027073 TGTTGGACTG
* * * * *
5027083 AGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGTTTCGACATGTTCTTAA
1 AGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAGGTTCAACATATTCTTAA
*
5027148 G-AAAAATATAAAAAAATTAGGAGTATGCTGGGCTA
66 GCAAAAA-AGAAAAAAATTAGGAGTATGCTGGGCTA
* * *
5027183 AGTAACCAGGGTGGGGTGTTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCAATATATTCTTAA
1 AGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAGGTTCAACATATTCTTAA
5027248 GCAAAAAAGAAAAAA
66 GCAAAAAAGAAAAAA
5027263 GAGAAAAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
100 65 0.93
101 5 0.07
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (100 bp):
AGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAGGTTCAACATATTCTTAA
GCAAAAAAGAAAAAAATTAGGAGTATGCTGGGCTA
Found at i:5027277 original size:6 final size:6
Alignment explanation
Indices: 5027251--5027299 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
5027241 TTCTTAAGCA
* *
5027251 AAAAAG AAAAA- AGAGAA- AAAAAG AAAAAG AAAAAG AAAAA- CAAAAG
1 AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
5027297 AAA
1 AAA
5027300 TGCATTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 8 0.22
6 28 0.78
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:5027278 original size:23 final size:23
Alignment explanation
Indices: 5027251--5027299 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
5027241 TTCTTAAGCA
*
5027251 AAAAAGAAAAAAGAGAAA-AAAAG
1 AAAAAG-AAAAAGAAAAACAAAAG
5027274 AAAAAGAAAAAGAAAAACAAAAG
1 AAAAAGAAAAAGAAAAACAAAAG
5027297 AAA
1 AAA
5027300 TGCATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAGAAAAACAAAAG
Found at i:5027283 original size:11 final size:10
Alignment explanation
Indices: 5027250--5027299 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
5027240 ATTCTTAAGC
5027250 AAAAAAG-AA
1 AAAAAAGAAA
*
5027259 AAAAGAGAAA
1 AAAAAAGAAA
5027269 AAAAGAA-AAA
1 AAAA-AAGAAA
*
5027279 GAAAAAGAAA
1 AAAAAAGAAA
5027289 AACAAAAGAAA
1 AA-AAAAGAAA
5027300 TGCATTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 8 0.24
10 16 0.48
11 9 0.27
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:5027289 original size:17 final size:16
Alignment explanation
Indices: 5027250--5027299 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
5027240 ATTCTTAAGC
*
5027250 AAAAAAGAAAAAAGAGA
1 AAAAAAG-AAAAAGAAA
5027267 AAAAAAGAAAAAGAAA
1 AAAAAAGAAAAAGAAA
5027283 AAGAAAA-ACAAAAGAAA
1 AA-AAAAGA-AAAAGAAA
5027300 TGCATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 11 0.37
17 19 0.63
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAGAAA
Found at i:5027946 original size:10 final size:10
Alignment explanation
Indices: 5027922--5027980 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
5027912 AATTTTAGCT
*
5027922 TTTATCTTCA
1 TTTATCTTTA
5027932 TTTATCTTTA
1 TTTATCTTTA
* *
5027942 ATTATATTTA
1 TTTATCTTTA
* *
5027952 ATCATCTTTA
1 TTTATCTTTA
5027962 TTTAT-TTGTA
1 TTTATCTT-TA
5027972 TTTATCTTT
1 TTTATCTTT
5027981 TAAAATTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 2 0.05
10 36 0.90
11 2 0.05
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:5029978 original size:3 final size:3
Alignment explanation
Indices: 5029970--5030004 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
5029960 CCATTTCCTA
5029970 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5030005 AAGTAAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5032725 original size:23 final size:22
Alignment explanation
Indices: 5032682--5032725 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
5032672 AAATAAAATC
*
5032682 TAATCCCTATAAACCTGCTATG
1 TAATCCCTATAAACCTACTATG
* *
5032704 TAATCTCCTCTAAATCTACTAT
1 TAATC-CCTATAAACCTACTAT
5032726 ACAAATATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (22 bp):
TAATCCCTATAAACCTACTATG
Found at i:5034806 original size:33 final size:33
Alignment explanation
Indices: 5034762--5034829 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
5034752 TGATACATGT
*
5034762 CCTATATCAGTGTCTTCATCA-TTAGATCCAACC
1 CCTATACCAGTGTCTTCATCATTTA-ATCCAACC
*
5034795 CCTATACCAGTGTCTTCGTCATTTAATCCAACC
1 CCTATACCAGTGTCTTCATCATTTAATCCAACC
5034828 CC
1 CC
5034830 AATTAACCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.91
34 3 0.09
ACGTcount: A:0.25, C:0.34, G:0.09, T:0.32
Consensus pattern (33 bp):
CCTATACCAGTGTCTTCATCATTTAATCCAACC
Found at i:5037142 original size:19 final size:19
Alignment explanation
Indices: 5037118--5037158 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
5037108 TATTTTAAAG
5037118 TTATTTAGATAGATAAATC
1 TTATTTAGATAGATAAATC
*
5037137 TTATTTAGGTAGATAAATC
1 TTATTTAGATAGATAAATC
5037156 TTA
1 TTA
5037159 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAGATAGATAAATC
Found at i:5044575 original size:13 final size:13
Alignment explanation
Indices: 5044539--5044575 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
5044529 TTTTTTAAAA
5044539 TTTATATTATTT-T
1 TTTATATT-TTTAT
5044552 TTTAT-TTTTTAT
1 TTTATATTTTTAT
5044564 TTTATATTTTTA
1 TTTATATTTTTA
5044576 AATTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.14
12 8 0.36
13 11 0.50
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATATTTTTAT
Found at i:5064031 original size:49 final size:47
Alignment explanation
Indices: 5063939--5064402 Score: 775
Period size: 47 Copynumber: 9.7 Consensus size: 47
5063929 TTAGGATTCT
*
5063939 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5063986 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
5064035 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
5064084 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
5064133 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5064180 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
5064227 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
5064274 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
5064321 ATGTGATGAATGTGAAAGCGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
5064368 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
5064403 TCCCGAAGGG
Statistics
Matches: 400, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 256 0.64
49 144 0.36
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:5068658 original size:4 final size:4
Alignment explanation
Indices: 5068651--5068675 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
5068641 GCTAGTGCTA
5068651 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
5068676 TAAAGGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:5069878 original size:218 final size:218
Alignment explanation
Indices: 5069500--5069937 Score: 867
Period size: 218 Copynumber: 2.0 Consensus size: 218
5069490 TTTAAGACAA
5069500 AATGGGCCATGCATGATTAAATTAAATAATAAAATATAAAATTATATTTAATAACTCATTTTTAA
1 AATGGGCCATGCATGATTAAATTAAATAATAAAATATAAAATTATATTTAATAACTCATTTTTAA
5069565 AATATTTCATTAATAATTTGGGTTTGAATTAATTATTTAAATTGGATAAATTTTGTTCTTTGGTC
66 AATATTTCATTAATAATTTGGGTTTGAATTAATTATTTAAATTGGATAAATTTTGTTCTTTGGTC
5069630 TTTTAATTTATCTATTTATTTTGGACAGGTCTGATAGTTTTGCTGGATTACAAAAAAAAAAAGTC
131 TTTTAATTTATCTATTTATTTTGGACAGGTCTGATAGTTTTGCTGGATTACAAAAAAAAAAAGTC
5069695 CAAATTGAAGACCAAGTCAACCC
196 CAAATTGAAGACCAAGTCAACCC
5069718 AATGGGCCATGCATGATTAAATTAAATAATAAAATATAAAATTATATTTAATAACTCATTTTTAA
1 AATGGGCCATGCATGATTAAATTAAATAATAAAATATAAAATTATATTTAATAACTCATTTTTAA
5069783 AATATTTCATTAATAATTTGGGTTTGAATTAATTATTTAAATTGGATAAATTTTGTTCTTTGGTC
66 AATATTTCATTAATAATTTGGGTTTGAATTAATTATTTAAATTGGATAAATTTTGTTCTTTGGTC
*
5069848 TTTTAATTTATCTATTTATTTTGGACAGGTCTGATAGTTTTGCTGGATTACAAGAAAAAAAAGTC
131 TTTTAATTTATCTATTTATTTTGGACAGGTCTGATAGTTTTGCTGGATTACAAAAAAAAAAAGTC
5069913 CAAATTGAAGACCAAGTCAACCC
196 CAAATTGAAGACCAAGTCAACCC
5069936 AA
1 AA
5069938 ATTCGGCTAC
Statistics
Matches: 219, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 219 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.40
Consensus pattern (218 bp):
AATGGGCCATGCATGATTAAATTAAATAATAAAATATAAAATTATATTTAATAACTCATTTTTAA
AATATTTCATTAATAATTTGGGTTTGAATTAATTATTTAAATTGGATAAATTTTGTTCTTTGGTC
TTTTAATTTATCTATTTATTTTGGACAGGTCTGATAGTTTTGCTGGATTACAAAAAAAAAAAGTC
CAAATTGAAGACCAAGTCAACCC
Found at i:5080862 original size:12 final size:12
Alignment explanation
Indices: 5080834--5080875 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
5080824 ACACACACAC
*
5080834 CCGTGTGGCTAGC
1 CCGTGT-GCTAGG
5080847 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
5080859 CCGTATGCTAGG
1 CCGTGTGCTAGG
5080871 CCGTG
1 CCGTG
5080876 CCAATCCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.10, C:0.29, G:0.38, T:0.24
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:5082663 original size:54 final size:55
Alignment explanation
Indices: 5082560--5082668 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 55
5082550 CTAGCCAAAT
* *
5082560 TTCAATTAGGTCTCTAATAGCCCATATATTTAATTGATTTCATAGTTTAACCATG
1 TTCAATTAGGTCTCTAATAGCCCATATATTTAATTGATTTCACAATTTAACCATG
* * *
5082615 TTCAATTAGGTCTCTAGTAG-CCATATTTTTCACTT-ATTTCACAATTTAACCATG
1 TTCAATTAGGTCTCTAATAGCCCATATATTT-AATTGATTTCACAATTTAACCATG
5082669 AATTTTACAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 26 0.54
55 22 0.46
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.42
Consensus pattern (55 bp):
TTCAATTAGGTCTCTAATAGCCCATATATTTAATTGATTTCACAATTTAACCATG
Found at i:5082707 original size:29 final size:29
Alignment explanation
Indices: 5082649--5082707 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
5082639 ATTTTTCACT
* **
5082649 TATTTCACAATTTAACCATGAATTTTACA
1 TATTTCACAAATTAACCATGAATTGGACA
*
5082678 TATTTCACAAATTAATCC-TTAATTGGACA
1 TATTTCACAAATTAA-CCATGAATTGGACA
5082707 T
1 T
5082708 TTACTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (29 bp):
TATTTCACAAATTAACCATGAATTGGACA
Found at i:5085834 original size:14 final size:14
Alignment explanation
Indices: 5085808--5085837 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
5085798 GTATTTGGCC
5085808 AAGGGAAGAAAAAT
1 AAGGGAAGAAAAAT
5085822 AAGGAGAAGAAAAAT
1 AAGG-GAAGAAAAAT
5085837 A
1 A
5085838 TTTTTTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (14 bp):
AAGGGAAGAAAAAT
Found at i:5095292 original size:29 final size:29
Alignment explanation
Indices: 5095258--5095332 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
5095248 CCATTAATTC
5095258 ATATGGCCCATTAGGCCCAAATCA-ACTGT
1 ATATGGCCCATTAGGCCCAAATCACA-TGT
*
5095287 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
5095316 ATATGGCCCGTTAGGCC
1 ATATGGCCCATTAGGCC
5095333 TAGTCACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 42 0.98
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:5096971 original size:46 final size:46
Alignment explanation
Indices: 5096828--5097036 Score: 181
Period size: 46 Copynumber: 4.4 Consensus size: 46
5096818 TTTGTACGCC
* * *
5096828 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-TATCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGT-GCT
* * *** * * *
5096874 AGTGTAAGACCATGTCTGGGACACGGCATCGGCGTTGA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCAGC-CACATTATGAGTGCT
*
5096922 AGTGTAAGACATGTCTTGGACATGCATCAGCCACATTATGAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGTGCT
* * *
5096968 AGTGTAAGACATGTCTGGAACATGCATCAG-CACGTATATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC--AT-TATGAGTGCT
*
5097016 AGTGTAATACCATGTCTGGGA
1 AGTGTAAGA-CATGTCTGGGA
5097037 TATGGCGTCG
Statistics
Matches: 130, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
45 4 0.03
46 51 0.39
47 27 0.21
48 37 0.28
49 11 0.08
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGTGCT
Found at i:5097011 original size:94 final size:94
Alignment explanation
Indices: 5096828--5097036 Score: 255
Period size: 94 Copynumber: 2.2 Consensus size: 94
5096818 TTTGTACGCC
* *
5096828 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATATCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
* * *
5096893 GACACGGCATCGGCGTTGAGACGAGGGCT
66 AACACGGCATCGACGTTGAGACGAGAGCT
* *
5096922 AGTGTAAGACATGTCTTGGACATGCATCAGCCACATTATGAGT-GCTAGTGTAAGA-CATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-TAGCCAGTGTAAGACCATGTCTG
* *
5096985 GAACA-TGCATCAGCACGTAT-ATACGAGAGCT
65 GAACACGGCATC-G-ACGT-TGAGACGAGAGCT
*
5097016 AGTGTAATACCATGTCTGGGA
1 AGTGTAAGA-CATGTCTGGGA
5097037 TATGGCGTCG
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
92 5 0.05
93 13 0.13
94 69 0.70
95 12 0.12
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
AACACGGCATCGACGTTGAGACGAGAGCT
Found at i:5100927 original size:38 final size:38
Alignment explanation
Indices: 5100876--5100951 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
5100866 AAGTTATTTG
5100876 TTATTTGCACGTGGACTTACTAAGCATCTATGCTTACT
1 TTATTTGCACGTGGACTTACTAAGCATCTATGCTTACT
5100914 TTATTTGCACGTGGACTTACTAAGCATCTATGCTTACT
1 TTATTTGCACGTGGACTTACTAAGCATCTATGCTTACT
5100952 CCCTTCTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (38 bp):
TTATTTGCACGTGGACTTACTAAGCATCTATGCTTACT
Found at i:5102941 original size:16 final size:16
Alignment explanation
Indices: 5102917--5102947 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5102907 AAATTCAAGC
*
5102917 TTTCGGGATTTTTGGA
1 TTTCAGGATTTTTGGA
5102933 TTTCAGGATTTTTGG
1 TTTCAGGATTTTTGG
5102948 GGCGTTACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.06, G:0.29, T:0.52
Consensus pattern (16 bp):
TTTCAGGATTTTTGGA
Found at i:5106209 original size:27 final size:26
Alignment explanation
Indices: 5106134--5106248 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 26
5106124 TGGAGTAAGC
* *
5106134 GTTCTGGTGGCTATGCCACAAATATTT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
5106161 GTTTCTGGTGGCTAC-GCTACAAATATCT
1 G-TTCTGGTGGCT-CTGCCAC-AATATCT
5106189 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * * *
5106215 ATATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
5106242 GTTCTGG
1 GTTCTGG
5106249 AAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
26 13 0.18
27 38 0.51
28 23 0.31
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:5113889 original size:28 final size:28
Alignment explanation
Indices: 5113845--5113934 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
5113835 GGAGGAAGCG
* *
5113845 TTCTGATGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTACGCCACAAATATCTGT
5113873 TTCTGGTGGCTACGCCACAAATATCTGT
1 TTCTGGTGGCTACGCCACAAATATCTGT
5113901 TT-TGGTGGC-ACTGCCAC-AATATCTGT
1 TTCTGGTGGCTAC-GCCACAAATATCTGT
*
5113927 ATCTGGTG
1 TTCTGGTG
5113935 ACTCTGTCTC
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
26 12 0.21
27 17 0.30
28 28 0.49
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (28 bp):
TTCTGGTGGCTACGCCACAAATATCTGT
Found at i:5113916 original size:27 final size:29
Alignment explanation
Indices: 5113845--5113958 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 29
5113835 GGAGGAAGCG
*
5113845 TTCTGATGGCTA-TGCCACAAATATCTGT
1 TTCTGGTGGCTACTGCCACAAATATCTGT
5113873 TTCTGGTGGCTAC-GCCACAAATATCTGT
1 TTCTGGTGGCTACTGCCACAAATATCTGT
5113901 TT-TGGTGGC-ACTGCCAC-AATATCTGT
1 TTCTGGTGGCTACTGCCACAAATATCTGT
* * * *
5113927 ATCTGGTGACT-CTGTCTC-AATATCTG-
1 TTCTGGTGGCTACTGCCACAAATATCTGT
5113953 TTCTGG
1 TTCTGG
5113959 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
26 17 0.22
27 31 0.41
28 28 0.37
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (29 bp):
TTCTGGTGGCTACTGCCACAAATATCTGT
Found at i:5117473 original size:12 final size:13
Alignment explanation
Indices: 5117456--5117488 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
5117446 GTTTCGCACG
5117456 TTTAAATAGTT-T
1 TTTAAATAGTTGT
*
5117468 TTTAAATTGTTGT
1 TTTAAATAGTTGT
5117481 TTTAAATA
1 TTTAAATA
5117489 CTATCATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (13 bp):
TTTAAATAGTTGT
Found at i:5119469 original size:63 final size:63
Alignment explanation
Indices: 5119368--5119487 Score: 188
Period size: 63 Copynumber: 1.9 Consensus size: 63
5119358 TTACCTATCT
*
5119368 GGGCTAAATCCTTAATGCACACATATTCATCAAAAGGCTCGATTACTCAAGGAACACCCATTC
1 GGGCTAAATCCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACACCCATTC
* * *
5119431 GGGCTAGAA-CCTTAATGCACACATATTCTTCGAGAGGCTCGATCACTCAAGGAACAC
1 GGGCTA-AATCCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACAC
5119488 TCGTCTGAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 50 0.96
64 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (63 bp):
GGGCTAAATCCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACACCCATTC
Found at i:5120829 original size:29 final size:29
Alignment explanation
Indices: 5120795--5120994 Score: 172
Period size: 29 Copynumber: 6.9 Consensus size: 29
5120785 TGCCATCAAG
*
5120795 TATGAAAATGGATGGTTTCGACCATCGAC
1 TATGAAAAGGGATGGTTTCGACCATCGAC
* * * *
5120824 TATGAAAAGGGATAGTTTTGACCATTGAT
1 TATGAAAAGGGATGGTTTCGACCATCGAC
* * * * *
5120853 TATGAAAAGGGTTAGTTTTGACTATTGAC
1 TATGAAAAGGGATGGTTTCGACCATCGAC
** *
5120882 TATG-AAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTTTCGACCATCGAC
* * *
5120910 TATGAAAAGGGATGATGAT-GACCATCAACC
1 TATGAAAAGGGATGGT-TTCGACCATCGA-C
* * * *
5120940 AATGAAAATGGATGGTTCCGACCATCGAA
1 TATGAAAAGGGATGGTTTCGACCATCGAC
*
5120969 TATGAAAAGGGAT-GTTACGACCATCG
1 TATGAAAAGGGATGGTTTCGACCATCG
5120995 TTTAGCACAC
Statistics
Matches: 138, Mismatches: 29, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
28 32 0.23
29 84 0.61
30 22 0.16
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTTCGACCATCGAC
Found at i:5127852 original size:44 final size:42
Alignment explanation
Indices: 5127780--5127937 Score: 108
Period size: 43 Copynumber: 3.7 Consensus size: 42
5127770 ATGTGTTTTC
* * * *
5127780 GTGTAAGACCACGTCTAGGACGTTGGCATCG-ACTTATGATTTAT
1 GTGTAAGACCACATCTAGGACATAGGCATAGTAC-T-TGA-TTAT
* *
5127824 GTGTAAGAGCACATCTGGGACATAGGCATAGTACTTGATTAT
1 GTGTAAGACCACATCTAGGACATAGGCATAGTACTTGATTAT
* * * *
5127866 GTGTAAGACC-CTGTCTAGGACAGT-GGCATCGATAATTGATTAC
1 GTGTAAGACCAC-ATCTAGGACA-TAGGCATAG-TACTTGATTAT
* * *
5127909 CTGTAAGACCACGAT-TGGGACATTGGCAT
1 GTGTAAGACCAC-ATCTAGGACATAGGCAT
5127938 TATACGAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 33 0.36
44 28 0.30
45 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCACATCTAGGACATAGGCATAGTACTTGATTAT
Found at i:5127887 original size:42 final size:40
Alignment explanation
Indices: 5127780--5127918 Score: 109
Period size: 42 Copynumber: 3.2 Consensus size: 40
5127770 ATGTGTTTTC
*
5127780 GTGTAAGACCACGTCTAGGACGTTGGCATCG-ACTTATGATTTAT
1 GTGTAAGACC-CGTCTAGGAC-ATGGCATCGTAC-T-TGA-TTAT
* * * *
5127824 GTGTAAGAGCACATCTGGGACATAGGCATAGTACTTGATTAT
1 GTGTAAGA-CCCGTCTAGGACAT-GGCATCGTACTTGATTAT
* *
5127866 GTGTAAGACCCTGTCTAGGACAGTGGCATCGATAATTGATTAC
1 GTGTAAGACCC-GTCTAGGACA-TGGCATCG-TACTTGATTAT
*
5127909 CTGTAAGACC
1 GTGTAAGACC
5127919 ACGATTGGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
41 2 0.03
42 26 0.34
43 23 0.30
44 23 0.30
45 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (40 bp):
GTGTAAGACCCGTCTAGGACATGGCATCGTACTTGATTAT
Found at i:5130477 original size:27 final size:27
Alignment explanation
Indices: 5130419--5130528 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
5130409 AGCATGACTG
* *
5130419 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
5130445 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
**
5130472 TTAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
5130499 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
5130526 CCA
1 CCA
5130529 AGACGCTTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:5130501 original size:54 final size:53
Alignment explanation
Indices: 5130421--5130525 Score: 165
Period size: 54 Copynumber: 2.0 Consensus size: 53
5130411 CATGACTGCC
*
5130421 AGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCAGAGCCATT
1 AGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCATT
* * *
5130474 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 AGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCA
5130526 CCAAGACGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 10 0.21
54 37 0.79
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (53 bp):
AGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCATT
Found at i:5131962 original size:24 final size:24
Alignment explanation
Indices: 5131927--5132026 Score: 155
Period size: 24 Copynumber: 4.2 Consensus size: 24
5131917 CCAACACTGT
* *
5131927 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
5131951 TCTCCCTTATCAACTCCTGAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
5131975 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
5131999 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
5132023 TCTC
1 TCTC
5132027 ATGACAGACT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.25, C:0.40, G:0.02, T:0.33
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:5133230 original size:26 final size:27
Alignment explanation
Indices: 5133201--5133251 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
5133191 TCAACCTTAA
*
5133201 CCCTAGGGGTATATCAGT-AATTTTGC
1 CCCTAGGGGTAAATCAGTAAATTTTGC
*
5133227 CCCTAGGGGTAAATCTGTAAATTTT
1 CCCTAGGGGTAAATCAGTAAATTTT
5133252 CCACCTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (27 bp):
CCCTAGGGGTAAATCAGTAAATTTTGC
Found at i:5135666 original size:19 final size:18
Alignment explanation
Indices: 5135629--5135672 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
5135619 ATACATATAG
5135629 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
5135646 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
5135665 TACTAATT
1 TAATAATT
5135673 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:5137717 original size:46 final size:46
Alignment explanation
Indices: 5137626--5137751 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 46
5137616 TAGTTCATGA
* * * *
5137626 ATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAAGCTGATG-C
1 ATGTCCCAGACATGTCTTACACTAGCCT-CATCTCGAAACCGATGCC
5137672 ATGTCCCAGACATGTCTTACACTAGCACTCATCTC-AATACCGATGCC
1 ATGTCCCAGACATGTCTTACACTAGC-CTCATCTCGAA-ACCGATGCC
* *
5137719 ATGTCTCAGACATGGTCTTACACTGGCTCTCAT
1 ATGTCCCAGACAT-GTCTTACACTAGC-CTCAT
5137752 AATGTGGCTG
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 2 0.03
46 36 0.52
47 14 0.20
48 17 0.25
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCCTCATCTCGAAACCGATGCC
Found at i:5144976 original size:40 final size:40
Alignment explanation
Indices: 5144921--5145021 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
5144911 TATGTGCATA
*
5144921 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGATTAAGTCCCGAAG
5144961 GCATTCGTGCGGGTTATTATAACCGGATTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGATTAAGTCCCGAAG
* * *
5145001 GCATTCATGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
5145022 TCCGAGCCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGATTAAGTCCCGAAG
Found at i:5153059 original size:40 final size:40
Alignment explanation
Indices: 5152901--5153041 Score: 255
Period size: 40 Copynumber: 3.5 Consensus size: 40
5152891 TATGTGCATA
*
5152901 GCATTCGTGCGGGTTATTATAATCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
5152941 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
5152981 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
5153021 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
5153042 TCCGAGCCAA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:5153059 original size:80 final size:80
Alignment explanation
Indices: 5152901--5153059 Score: 237
Period size: 80 Copynumber: 2.0 Consensus size: 80
5152891 TATGTGCATA
*
5152901 GCATTCGTGCGGGTTATTATAATCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
* ** *
5152966 GGTTAAGTCCCGAAG
66 AGCCAAATCCCGAAG
* * *
5152981 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATATCCG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
*
5153046 AGCCAAATTCCGAA
66 AGCCAAATCCCGAA
5153060 AGTATTTATG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (80 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
AGCCAAATCCCGAAG
Found at i:5158275 original size:40 final size:40
Alignment explanation
Indices: 5158245--5158454 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
5158235 GGACTAAGAT
* * * *
5158245 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
5158285 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
5158325 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
5158365 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
5158405 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
5158444 CCGAAGGCATT
1 CCGAAGGCATT
5158455 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:5158329 original size:80 final size:80
Alignment explanation
Indices: 5158192--5158454 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
5158182 TTGAATGCTG
* * * * * **
5158192 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
5158255 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
5158272 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
5158337 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
5158352 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
5158416 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
5158431 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
5158455 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:5158406 original size:120 final size:120
Alignment explanation
Indices: 5158192--5158454 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
5158182 TTGAATGCTG
* * *
5158192 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
5158256 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * **
5158312 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
5158375 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
5158431 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
5158455 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 35 0.29
120 81 0.66
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:5158474 original size:79 final size:80
Alignment explanation
Indices: 5158245--5158489 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
5158235 GGACTAAGAT
* * * * * ** * *
5158245 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
5158309 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
5158325 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
5158390 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
5158405 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
5158469 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
5158483 CCGAAGG
1 CCGAAGG
5158490 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:5165121 original size:40 final size:40
Alignment explanation
Indices: 5165023--5165325 Score: 335
Period size: 40 Copynumber: 7.6 Consensus size: 40
5165013 TCCTCGTTCA
* * * * *
5165023 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
5165062 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
5165102 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
5165142 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
5165182 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
5165222 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
5165262 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
5165302 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
5165326 CAGCATTCAA
Statistics
Matches: 235, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
39 39 0.17
40 184 0.78
41 12 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:5165334 original size:41 final size:41
Alignment explanation
Indices: 5165257--5165334 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
5165247 TTTGTATCTC
* * *
5165257 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
5165298 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
5165335 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:5173061 original size:40 final size:40
Alignment explanation
Indices: 5173013--5173360 Score: 642
Period size: 40 Copynumber: 8.7 Consensus size: 40
5173003 GCAAACACAT
* *
5173013 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
5173053 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
5173093 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
5173133 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
5173173 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
5173213 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
5173253 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
5173293 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
5173333 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
5173361 TCCAATGCTC
Statistics
Matches: 298, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 298 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:5179554 original size:43 final size:43
Alignment explanation
Indices: 5179492--5179664 Score: 165
Period size: 43 Copynumber: 4.1 Consensus size: 43
5179482 CACATAAGCT
* * * *
5179492 CATAT-AATGCC-ATATCCCAGATATGGTCTTACATGTTATAA
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAATAA
* * * * *
5179533 CATATCGATGCCACTGTCCCAGACAGGGTCTTACACGAAATTGA
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAA-TAA
* * **
5179577 -TTAACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCT
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAATAA
* *
5179619 CA-ATACAATGCCAATGTCCCAGAGATGGTCTTACATGTAATAA
1 CATAT-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATAA
5179662 CAT
1 CAT
5179665 CTCGATAATC
Statistics
Matches: 103, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
41 5 0.05
42 7 0.07
43 89 0.86
44 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
CATATCAATGCCAATGTCCCAGACATGGTCTTACACGTAATAA
Found at i:5179651 original size:86 final size:85
Alignment explanation
Indices: 5179497--5179653 Score: 199
Period size: 86 Copynumber: 1.8 Consensus size: 85
5179487 AAGCTCATAT
* * * * *
5179497 AATGCCATATCCCAGATATGGTCTTACATGTTATAACATATCGATGCCACTGTCCCAGACAGGGT
1 AATGCCATATCCCAGACATGGTCTTACACGTAATAACATATCAATGCCAATGTCCCAGACAGGGT
5179562 CTTACACGAAATTGATTAAC
66 CTTACACGAAATTGATTAAC
* ** * *
5179582 AATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA-ATACAATGCCAATGTCCCAGAGATG
1 AATGCC-ATATCCCAGACATGGTCTTACACGTAATAACATAT-CAATGCCAATGTCCCAGACAGG
5179646 GTCTTACA
64 GTCTTACA
5179654 TGTAATAACA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 8 0.13
86 52 0.87
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (85 bp):
AATGCCATATCCCAGACATGGTCTTACACGTAATAACATATCAATGCCAATGTCCCAGACAGGGT
CTTACACGAAATTGATTAAC
Found at i:5183986 original size:21 final size:22
Alignment explanation
Indices: 5183960--5184001 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
5183950 CACTTAACAC
5183960 AGGGGC-ACACGCCCGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
5183981 AGGGGCAACACGCCCGTGTGA
1 AGGGGCAACACGCCCGTGTGA
5184002 CCATTTAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.21, C:0.29, G:0.40, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:5187653 original size:46 final size:46
Alignment explanation
Indices: 5187603--5187778 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
5187593 TGGTTGAGCA
* * *
5187603 TCCGAACTTGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*** * * * *
5187649 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACG
* * *
5187696 TCCGAGCTCATTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
5187742 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5187779 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 34 0.33
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:5190738 original size:15 final size:15
Alignment explanation
Indices: 5190718--5190773 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
5190708 GTATCTTGGG
5190718 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
5190733 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
5190748 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
5190763 TTTCTTTATTC
1 TTTCTTTATTC
5190774 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:5193218 original size:46 final size:45
Alignment explanation
Indices: 5193168--5193343 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
5193158 TGTTTGGGCA
5193168 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
5193214 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
5193261 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
5193307 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5193344 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:5193323 original size:93 final size:93
Alignment explanation
Indices: 5193164--5193335 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
5193154 AGGATGTTTG
* *
5193164 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
5193229 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
5193257 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
5193322 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
5193336 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:5195763 original size:29 final size:29
Alignment explanation
Indices: 5195721--5195776 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
5195711 ATTGGTTTGT
*
5195721 GAGTGAAAAGCCGTACTAAAATTTAACAC
1 GAGTAAAAAGCCGTACTAAAATTTAACAC
5195750 GAGTAAAAAGCCGTACTAAAATTTAAC
1 GAGTAAAAAGCCGTACTAAAATTTAAC
5195777 TTTGTACCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.21
Consensus pattern (29 bp):
GAGTAAAAAGCCGTACTAAAATTTAACAC
Found at i:5198248 original size:98 final size:98
Alignment explanation
Indices: 5198079--5198273 Score: 381
Period size: 98 Copynumber: 2.0 Consensus size: 98
5198069 TACCTAATGG
5198079 TCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCGTAGGTAAATAAATGATCAGCATGTCAT
1 TCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCGTAGGTAAATAAATGATCAGCATGTCAT
5198144 AAAACATAAGAATTAGGGATAAAGTTTCATTTC
66 AAAACATAAGAATTAGGGATAAAGTTTCATTTC
5198177 TCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCGTAGGTAAATAAATGATCAGCATGTCAT
1 TCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCGTAGGTAAATAAATGATCAGCATGTCAT
*
5198242 AAAACATGAGAATTAGGGATAAAGTTTCATTT
66 AAAACATAAGAATTAGGGATAAAGTTTCATTT
5198274 TCGAGCCTTG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (98 bp):
TCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCGTAGGTAAATAAATGATCAGCATGTCAT
AAAACATAAGAATTAGGGATAAAGTTTCATTTC
Found at i:5198857 original size:53 final size:53
Alignment explanation
Indices: 5198677--5198883 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 53
5198667 ATTAGGGTTT
* * * * * * *
5198677 AAGGATACCGA-GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTAAAACGA
1 AAGGATACC-ATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
5198731 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
5198786 AAAGATGCCATGTGAGACCATGGCAAGGCATGGCAATGGTAAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
5198839 AAGGATACCATGTAAGACCATATCAAGACATGGCAATGGGAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
5198884 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 31, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
53 45 0.38
54 38 0.32
55 36 0.30
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:5205178 original size:79 final size:82
Alignment explanation
Indices: 5205067--5205251 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
5205057 GCTACTCGTT
* *
5205067 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
5205130 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
5205147 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
5205210 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
5205227 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
5205252 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:5205251 original size:40 final size:40
Alignment explanation
Indices: 5205048--5205251 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
5205038 CGGAATTTAA
** *
5205048 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
5205088 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
5205128 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
5205167 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
5205207 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
5205247 CCGGA
1 CCGGA
5205252 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:5208052 original size:40 final size:39
Alignment explanation
Indices: 5208008--5208171 Score: 159
Period size: 40 Copynumber: 4.1 Consensus size: 39
5207998 GGATCTAACA
5208008 CGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCC
1 CGGATATATCACTAGCACGAAAGC-CTTCGGAACTTAGCC
* * * *
5208048 CGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCC
1 CGGATATATCACTAGCACGAAAGC-CTTCGGAACTTAGCC
* * * * * * *
5208088 CGGATTTAGTAACTCGCACCAATGCCTTCGGATCTTAGTC
1 CGGATATA-TCACTAGCACGAAAGCCTTCGGAACTTAGCC
* *
5208128 CGGATATGGTCACTTAGCAC-AAAGCCTTCGGGACTTAGCC
1 CGGATAT-ATCAC-TAGCACGAAAGCCTTCGGAACTTAGCC
5208168 CGGA
1 CGGA
5208172 CATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
40 83 0.83
41 17 0.17
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CGGATATATCACTAGCACGAAAGCCTTCGGAACTTAGCC
Found at i:5208117 original size:80 final size:81
Alignment explanation
Indices: 5207976--5208171 Score: 195
Period size: 80 Copynumber: 2.4 Consensus size: 81
5207966 CGAATACACG
* * * * * *
5207976 TCACCAGCATGATTGCTCTTCGGGA-TCTAACACGGATATATCACTAGCACGAAAGCTCTTCGGA
1 TCACTAGCATGAATGCTCTTCGGGACT-TAGCCCGGATATATAACTAGCACCAAAGCTCTTCGGA
5208040 ACTTAGCCCGGATA-CA
65 ACTTAGCCCGGATATCA
* * *
5208056 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA-TAACTAGCACCAAAGCTCTTCGGA
* * **
5208120 TCTTAGTCCGGATATGG
65 ACTTAGCCCGGATATCA
* *
5208137 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
5208172 CATCATTCAA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
80 71 0.73
81 21 0.22
82 5 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATAACTAGCACCAAAGCTCTTCGGAA
CTTAGCCCGGATATCA
Found at i:5208516 original size:29 final size:29
Alignment explanation
Indices: 5208477--5208555 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
5208467 CTTAATAATC
*
5208477 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
5208507 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
5208536 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
5208556 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:5224925 original size:27 final size:27
Alignment explanation
Indices: 5224895--5224965 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
5224885 TACACTACAA
* * *
5224895 GGGTATTTCAGTAATTTTACAAGTTAG
1 GGGTATTTCAGTAATTTCACAAATCAG
5224922 GGGTATTTC-GATAATTTCACAAATCAG
1 GGGTATTTCAG-TAATTTCACAAATCAG
5224949 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
5224966 AAATAGTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 37 0.95
28 1 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTCACAAATCAG
Found at i:5227178 original size:55 final size:53
Alignment explanation
Indices: 5227103--5227249 Score: 150
Period size: 55 Copynumber: 2.7 Consensus size: 53
5227093 GGTAATTTTT
* * * *
5227103 ATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAAATAC
1 ATAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCAATGAT-AAATAC
* * * * * * *
5227157 TATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC
1 -ATAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCAATGATAAATAC
* * *
5227211 ATAAGGCAAGGATACAACGTAAGACCATGTCAAGACATG
1 ATAAGGCAAAGATACCATGTAAGACCATGTCAAGACATG
5227250 AAAATGGTAA
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 33 0.44
54 3 0.04
55 39 0.52
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCAATGATAAATAC
Found at i:5227256 original size:53 final size:53
Alignment explanation
Indices: 5227067--5227262 Score: 133
Period size: 53 Copynumber: 3.6 Consensus size: 53
5227057 AAGAAACCAA
* * * * * * * *
5227067 GTAAGACCATGCCAAGGCATGACATTGGTAATTTTTATAAGGCAAGGAAATC-AT
1 GTAAGACCATGCCAAGACATGAAAATGGTAA-GTTCATAAGGCAAAGATA-CAAC
* ** * * * * * * *
5227121 GTAAGACCATGTCAAGACATGGCATTGATAAAATACTATAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGACATGAAAATGGT-AAGTTC-ATAAGGCAAAGATACAAC
* ** * *
5227176 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACAAC
1 GTAAGACCATGCCAAGACATGAAAATGGTAAGTTCATAAGGCAAAGATACAAC
*
5227229 GTAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 GTAAGACCATGCCAAGACATGAAAATGGTAAGTT
5227263 TAAAATGGAA
Statistics
Matches: 113, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
53 43 0.38
54 30 0.27
55 40 0.35
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGAAAATGGTAAGTTCATAAGGCAAAGATACAAC
Found at i:5253288 original size:39 final size:39
Alignment explanation
Indices: 5253244--5253480 Score: 447
Period size: 39 Copynumber: 6.1 Consensus size: 39
5253234 ATGCAAGACA
5253244 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
5253283 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
5253322 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
5253361 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
5253400 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
5253439 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
5253478 CTG
1 CTG
5253481 ATAATATAAT
Statistics
Matches: 194, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 194 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:5270818 original size:37 final size:37
Alignment explanation
Indices: 5270776--5270856 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
5270766 ATAACCCAAA
5270776 GCAATTTCATACAAATCACTTCTAGAAATCAAGTTCT
1 GCAATTTCATACAAATCACTTCTAGAAATCAAGTTCT
* *
5270813 GCAATTTCATACAAATTACTTCTAGAAATCAAGTTTT
1 GCAATTTCATACAAATCACTTCTAGAAATCAAGTTCT
*
5270850 GTAATTT
1 GCAATTT
5270857 ATTCAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (37 bp):
GCAATTTCATACAAATCACTTCTAGAAATCAAGTTCT
Found at i:5280537 original size:43 final size:42
Alignment explanation
Indices: 5280462--5280543 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
5280452 AATACCAACG
** * *
5280462 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTA
1 TCCCAGACAAGGTCTTACAAGAAATCAAATATC-ATGCCACTA
5280505 TCCCAGACAAGGTCTTACAAGAAAT-AATATATCATGCCA
1 TCCCAGACAAGGTCTTACAAGAAATCAA-ATATCATGCCA
5280544 ACATCCCCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 8 0.24
43 26 0.76
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (42 bp):
TCCCAGACAAGGTCTTACAAGAAATCAAATATCATGCCACTA
Found at i:5287525 original size:43 final size:42
Alignment explanation
Indices: 5287478--5287632 Score: 129
Period size: 43 Copynumber: 3.6 Consensus size: 42
5287468 TTTGATATGT
*
5287478 GATTTCGTGTAAGACCACGCCTGGGACATTGGCATCGATTTG
1 GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTG
* * *
5287520 AGATTTAAC-TGTAAGACCATGTCTAGGACATCGGCATCGTATATT-
1 -GATTT--CGTGTAAGACCACGTCTGGGACATTGGCATCG-AT-TTG
* * *
5287565 -ATTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATG
1 GATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATTTG
* * *
5287606 TGATTACATGTAAGACCATGTCTGGGA
1 -GATTTCGTGTAAGACCACGTCTGGGA
5287633 TGTTAGCATT
Statistics
Matches: 88, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 25 0.28
43 29 0.33
44 26 0.30
45 3 0.03
46 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTG
Found at i:5291054 original size:64 final size:64
Alignment explanation
Indices: 5290973--5291157 Score: 205
Period size: 67 Copynumber: 2.9 Consensus size: 64
5290963 AGACATTATG
* * *
5290973 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
5291037 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
5291102 AA
63 AA
* * *
5291104 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCT
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCT
5291158 GAACTATATG
Statistics
Matches: 100, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:5294309 original size:97 final size:97
Alignment explanation
Indices: 5294143--5294319 Score: 318
Period size: 97 Copynumber: 1.8 Consensus size: 97
5294133 TTATACAACA
* * *
5294143 TCAAAGGCATAAAACATGGTATCTAATTAAAGATTATACATCCTCAATTTAGTTACAAACATAAC
1 TCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAAC
*
5294208 ATTTGCATATCATCATACTTGTGTTTTTCATT
66 ATTTGCATAACATCATACTTGTGTTTTTCATT
5294240 TCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAAC
1 TCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAAC
5294305 ATTTGCATAACATCA
66 ATTTGCATAACATCA
5294320 CTCGTTTTAT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 76 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (97 bp):
TCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAAC
ATTTGCATAACATCATACTTGTGTTTTTCATT
Found at i:5301949 original size:94 final size:94
Alignment explanation
Indices: 5301696--5302334 Score: 819
Period size: 94 Copynumber: 6.8 Consensus size: 94
5301686 AGATATATTA
* * * *** *
5301696 CCGATGCCATGTCAC-AGACATGGTCTTACACTAGCTCTCATATGCGCGTGCTGTTGCATGTCCC
1 CCGATGCTATGTC-CTAGACATGGTCTTACACTGGCTATCATA-GTATG-GCTGATGCATGTCCC
* * *
5301760 AAACATGTCTTACACTAGCA--CAACTCT-TAG
63 AGACATGTCTTACACTGGCACTCATCTCTGT-G
* * * * * *
5301790 CCGATGC-GTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGATGCATGTCCT
1 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCTGATGCATGTCCC
5301851 AGACATGTCTTACACTGGCACTCATCTCTGTG
63 AGACATGTCTTACACTGGCACTCATCTCTGTG
*
5301883 CCGATGCTATGTCGTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
* *
5301948 CATGTCTTACACTGGCACTCATTTCTATG
66 CATGTCTTACACTGGCACTCATCTCTGTG
* *
5301977 CCGATGCTATGTCCTAAACATGGTCTTACACTGGCTATCACAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
5302042 CATGTCTTACACTGGCACTCATCTCTGTG
66 CATGTCTTACACTGGCACTCATCTCTGTG
5302071 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
*
5302136 CATGTCTTACACTGGCACTCATCTCTCTG
66 CATGTCTTACACTGGCACTCATCTCTGTG
5302165 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
* * * * *
5302230 CATGTCTTACACTAGCCCTAATCT-AGATA
66 CATGTCTTACACTGGCACTCATCTCTG-TG
* * * * * * * * *
5302259 CCGATGCCATGTCCCACACATGGTCTTACATTAGCTCTCATAATATGGCCGAAGCATGTCCCAGA
1 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
5302324 CATGTCTTACA
66 CATGTCTTACA
5302335 TTATCTCAAT
Statistics
Matches: 488, Mismatches: 45, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
91 32 0.07
92 17 0.03
93 24 0.05
94 395 0.81
95 19 0.04
96 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (94 bp):
CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
CATGTCTTACACTGGCACTCATCTCTGTG
Found at i:5302645 original size:30 final size:30
Alignment explanation
Indices: 5302604--5302661 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5302594 AAATTTACAT
* *
5302604 CTTTGGTAAAATGACTATTTTACCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
*
5302634 CTTTGGCAAAATGACCATTTTATCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
5302662 TGCCCGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:5307346 original size:27 final size:27
Alignment explanation
Indices: 5307316--5307493 Score: 128
Period size: 27 Copynumber: 6.6 Consensus size: 27
5307306 ATATTGAGCC
* *
5307316 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
5307343 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
5307370 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* ** ** *
5307398 CGCACACTTAGTCCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
5307425 CTCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
5307452 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
5307479 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
5307494 GTACAATTTA
Statistics
Matches: 119, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 94 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:5321483 original size:47 final size:45
Alignment explanation
Indices: 5321381--5321782 Score: 329
Period size: 47 Copynumber: 8.6 Consensus size: 45
5321371 CGCATACTGT
* * *
5321381 TGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GCCGA
1 TGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGGCCGA
* *
5321425 TGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCCGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AGGCCGA
*
5321472 TGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTGT--GCCGA
1 TGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTAGGCCGA
* * *
5321518 TGCCATGTCCCAGACATGGTCTTACACTGGCTATCACAGTATGGCTGA
1 TG-CATGTCCCAGACAT-GTCTTACACTGGCTATCTCTGTA-GGCCGA
* * * * *
5321566 TGCATGTCCCAGACATTTCTTACACTAGC-ACTCATCTCTATGCTGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTA-TC-TCTGTAGGCCGA
* *
5321612 TGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCTGA
1 TG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA-GGCCGA
* *
5321660 TGCATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTAG-ATGCCGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTA-TC-TCT-GTAGGCCGA
* * *
5321706 TGCCATGTCCCACACATGGTCTTACACTGGC--TCTCATAATATGGCTGA
1 TG-CATGTCCCAGACAT-GTCTTACACTGGCTATCTC-T-GTA-GGCCGA
*
5321754 AGCATGTCCCAGACATGTCTTACACTGGC
1 TGCATGTCCCAGACATGTCTTACACTGGC
5321783 GCATAAATCA
Statistics
Matches: 297, Mismatches: 35, Indels: 50
0.78 0.09 0.13
Matches are distributed among these distances:
43 5 0.02
44 27 0.09
45 10 0.03
46 68 0.23
47 119 0.40
48 57 0.19
49 3 0.01
50 8 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
TGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGCCGA
Found at i:5321576 original size:94 final size:94
Alignment explanation
Indices: 5321381--5321779 Score: 542
Period size: 94 Copynumber: 4.3 Consensus size: 94
5321371 CGCATACTGT
* * *
5321381 TGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGCCGATG-CGTGTCCCAGACA-C
1 TGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGT-GCCGATGCCATGTCCCAGACATG
* * *
5321441 GTCTTACACTGGCTATCTCTGTCGA-GGCCGA
65 GTCTTACACTGGCTATCACAGT--ATGGCTGA
* *
5321472 TGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTGTGCCGATGCCATGTCCCAGACATGG
1 TGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACATGG
5321537 TCTTACACTGGCTATCACAGTATGGCTGA
66 TCTTACACTGGCTATCACAGTATGGCTGA
* * *
5321566 TGCATGTCCCAGACATTTCTTACACTAGCACTCATCTCTATGCTGATGCCATGTCCCAGACATGG
1 TGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACATGG
*
5321631 TCTTACACTGGCTATCATAGTATGGCTGA
66 TCTTACACTGGCTATCACAGTATGGCTGA
* * *
5321660 TGCATGTCCCAGACATGTCTTACACTAGCACTCGTCT-AGATGCCGATGCCATGTCCCACACATG
1 TGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTG-TGCCGATGCCATGTCCCAGACATG
* * *
5321724 GTCTTACACTGGCTCTCATAATATGGCTGA
65 GTCTTACACTGGCTATCACAGTATGGCTGA
*
5321754 AGCATGTCCCAGACATGTCTTACACT
1 TGCATGTCCCAGACATGTCTTACACT
5321780 GGCGCATAAA
Statistics
Matches: 278, Mismatches: 23, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
91 28 0.10
93 14 0.05
94 216 0.78
95 20 0.07
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (94 bp):
TGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACATGG
TCTTACACTGGCTATCACAGTATGGCTGA
Found at i:5322299 original size:19 final size:20
Alignment explanation
Indices: 5322265--5322302 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5322255 TCAAATTATC
5322265 ACTATTTCACATACTTATTA
1 ACTATTTCACATACTTATTA
*
5322285 ACTATTTTACA-ACTTATT
1 ACTATTTCACATACTTATT
5322303 CAAAATAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.47
Consensus pattern (20 bp):
ACTATTTCACATACTTATTA
Found at i:5324481 original size:17 final size:19
Alignment explanation
Indices: 5324459--5324493 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
5324449 AAGTTTTGCA
5324459 CTTTTTAC-AA-TTTAGTC
1 CTTTTTACTAACTTTAGTC
5324476 CTTTTTACTAACTTTAGT
1 CTTTTTACTAACTTTAGT
5324494 GCTCAAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (19 bp):
CTTTTTACTAACTTTAGTC
Found at i:5327075 original size:49 final size:49
Alignment explanation
Indices: 5327003--5327132 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 49
5326993 TGTCTTTGCT
* * * * *
5327003 AGTGTAAAACCTGCCTGGGACATGGCATCGGCAC-CGATAGATG-AGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGC-CTCAAGAGATGCA-AGCC
* *
5327052 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCAAGATATGCAAGCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCAAGAGATGCAAGCC
* * *
5327101 AGTATAAGACCTATCTAGGGCATGGCATCGGC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGC
5327133 TTGAGGTGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 67 0.97
50 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.20
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCAAGAGATGCAAGCC
Found at i:5327155 original size:44 final size:44
Alignment explanation
Indices: 5327100--5327216 Score: 175
Period size: 44 Copynumber: 2.7 Consensus size: 44
5327090 ATATGCAAGC
*
5327100 TAGTATAAGACCTATCTAGGG-CATGGCATCGGCTTGAGGTGTGT
1 TAGTGTAAGACCTATCT-GGGACATGGCATCGGCTTGAGGTGTGT
5327144 TAGTGTAAGACCTATCTGGGACATGGCATCGGCTTGAGGTGTGT
1 TAGTGTAAGACCTATCTGGGACATGGCATCGGCTTGAGGTGTGT
* *
5327188 CAATGTAAGACCTGA-CTGGGACATGGCAT
1 TAGTGTAAGACCT-ATCTGGGACATGGCAT
5327217 TAGCCTCGAT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
43 3 0.04
44 64 0.94
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (44 bp):
TAGTGTAAGACCTATCTGGGACATGGCATCGGCTTGAGGTGTGT
Found at i:5346912 original size:43 final size:42
Alignment explanation
Indices: 5346865--5346970 Score: 99
Period size: 43 Copynumber: 2.5 Consensus size: 42
5346855 AGATATGGTT
*
5346865 TTACATGTTATCACATATCGATGCCACTATCCCACACAGGGTC
1 TTACATGTTATCACATATCGATGCCAATATCCC-CACAGGGTC
* ** * * * *
5346908 TTACACGAAATCACA-ATACAATGCCAATGTCCCGACATGGTC
1 TTACATGTTATCACATAT-CGATGCCAATATCCCCACAGGGTC
5346950 TTACAT-TTAATCACATATCGA
1 TTACATGTT-ATCACATATCGA
5346971 GTCGATGCCA
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
42 22 0.46
43 26 0.54
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (42 bp):
TTACATGTTATCACATATCGATGCCAATATCCCCACAGGGTC
Found at i:5347025 original size:45 final size:46
Alignment explanation
Indices: 5346928--5347059 Score: 160
Period size: 45 Copynumber: 2.8 Consensus size: 46
5346918 TCACAATACA
* * *
5346928 ATGCCAATGTCCC-GACATGGTCTTACATTTAATCACATATCGAGTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACA-CTAATCACATATCAAGCCG
* *
5346975 ATGCCATGTCCCAAACATGGTCTTACACTGA-CACATATCAAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAATCACATATCAAGCCG
* *
5347020 ATGCCATGTCCCAGAGATGGTCTTACACTAGCTCACATAT
1 ATGCCATGTCCCAGACATGGTCTTACACTA-ATCACATAT
5347060 ATTGCCATGG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
45 39 0.53
46 9 0.12
47 25 0.34
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAATCACATATCAAGCCG
Found at i:5350294 original size:55 final size:53
Alignment explanation
Indices: 5350169--5350357 Score: 245
Period size: 55 Copynumber: 3.5 Consensus size: 53
5350159 AACTTACCAT
* * *
5350169 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
5350222 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
5350277 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
5350331 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
5350358 ATATCCTTAT
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.29
54 35 0.29
55 45 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:5350399 original size:47 final size:47
Alignment explanation
Indices: 5350344--5350465 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
5350334 CATGCCTTGG
* *
5350344 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
5350391 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
5350438 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
5350466 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:5350653 original size:44 final size:44
Alignment explanation
Indices: 5350602--5350688 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
5350592 GTATCCTTAA
* *
5350602 CCGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTT
* *
5350646 CCGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
5350689 GAGATATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTT
Found at i:5356088 original size:55 final size:55
Alignment explanation
Indices: 5356022--5356134 Score: 136
Period size: 55 Copynumber: 2.1 Consensus size: 55
5356012 CCTGTGTTAA
* * * * *
5356022 TTTAACAGGTTCGACCACGGGTGTTCCACGCGGGCGTGTCGAATGCCCGTGTTGT
1 TTTAACAGGTTCGACCACGGGTCTTCCACACGAGCATGCCGAATGCCCGTGTTGT
* * * * *
5356077 TTTATCAGGTTCGCCCACGGTTCTTCCACACGAGCATGCCGTATGCCTGTGTTGT
1 TTTAACAGGTTCGACCACGGGTCTTCCACACGAGCATGCCGAATGCCCGTGTTGT
5356132 TTT
1 TTT
5356135 GGTAGAGGCT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.14, C:0.27, G:0.27, T:0.32
Consensus pattern (55 bp):
TTTAACAGGTTCGACCACGGGTCTTCCACACGAGCATGCCGAATGCCCGTGTTGT
Found at i:5377678 original size:32 final size:33
Alignment explanation
Indices: 5377598--5377678 Score: 92
Period size: 34 Copynumber: 2.5 Consensus size: 33
5377588 ATCTCAGTTA
* *
5377598 GGGCCTAAGCCCACTTCAGTAATAGTAGCAGTCT
1 GGGCCTAAGCCCATTTCAGTAACAGTAGCAG-CT
* **
5377632 GGGCCTGAGCCCATTTCAGTAACAGTATTAG-T
1 GGGCCTAAGCCCATTTCAGTAACAGTAGCAGCT
*
5377664 GGGGCTAAGCCCATT
1 GGGCCTAAGCCCATT
5377679 ACAGCATGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 14 0.35
34 26 0.65
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (33 bp):
GGGCCTAAGCCCATTTCAGTAACAGTAGCAGCT
Found at i:5382547 original size:40 final size:40
Alignment explanation
Indices: 5382471--5382794 Score: 435
Period size: 40 Copynumber: 8.2 Consensus size: 40
5382461 AACCCAAGTA
* * * *
5382471 CCTTCAGGATTTAG-CCAGATATAGCAACTCAG-ACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-AGCACAAATG
*
5382510 GCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
5382550 CTTTCCGGACTTAGCCCAGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
5382590 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
*
5382630 CCTTCGGG--TTAGCCTGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
5382668 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGTACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
*
5382708 CCTTCGGGACTTAGCCTGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
5382748 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
5382788 CCTTCGG
1 CCTTCGG
5382795 ATCTTAGTCC
Statistics
Matches: 251, Mismatches: 26, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
37 2 0.01
38 32 0.13
39 16 0.06
40 196 0.78
41 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:5382779 original size:158 final size:158
Alignment explanation
Indices: 5382488--5382794 Score: 458
Period size: 158 Copynumber: 1.9 Consensus size: 158
5382478 GATTTAGCCA
* *
5382488 GATATAGCAACTCAGACAAATGGCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCTT
1 GATATAGCAACTCAGACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCT
* *
5382553 TCCGGACTTAGCCCAGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAGTAA
66 TCCGGACTTAGCCCAGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAA
5382618 CTAGCACAAATGCCTTCGGGTTAGCCTG
131 CTAGCACAAATGCCTTCGGGTTAGCCTG
* * * *
5382646 GATATAGTAACT-AGCACAAATGCCTTC-GGATCTTAGTCCGGTTATAGTAACTAGTACAAATGC
1 GATATAGCAACTCAG-ACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATGC
* **
5382709 CTTCGGGACTTAGCCTGGATATAGTAACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAG
64 CTTCCGGACTTAGCCCAGATATAGTAACTAGCACAAATGCCTTC-GGATCTTAGCCCGGATATAG
*
5382773 TCACTAGCACAAATGCCTTCGG
128 TAACTAGCACAAATGCCTTCGG
5382795 ATCTTAGTCC
Statistics
Matches: 134, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
157 5 0.04
158 126 0.94
159 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (158 bp):
GATATAGCAACTCAGACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCT
TCCGGACTTAGCCCAGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAA
CTAGCACAAATGCCTTCGGGTTAGCCTG
Found at i:5386575 original size:28 final size:28
Alignment explanation
Indices: 5386538--5386609 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
5386528 AAGTTTACAT
*
5386538 ACATGCATATGGCCCACTAGGCAC-AATC
1 ACATTCATATGGCCCACTAGGC-CTAATC
**
5386566 TTATTCATATGGCCCACTAGGCCTAATC
1 ACATTCATATGGCCCACTAGGCCTAATC
*
5386594 ACATTCATATCGCCCA
1 ACATTCATATGGCCCA
5386610 TCTGGCCCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAGGCCTAATC
Found at i:5386627 original size:28 final size:28
Alignment explanation
Indices: 5386538--5386627 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
5386528 AAGTTTACAT
* *
5386538 ACATGCATATGGCCCACTAGGCAC-AATC
1 ACATTCATATCGCCCACTAGGC-CGAATC
** * *
5386566 TTATTCATATGGCCCACTAGGCCTAATC
1 ACATTCATATCGCCCACTAGGCCGAATC
5386594 ACATTCATATCGCCCATCT-GGCCCGAATC
1 ACATTCATATCGCCCA-CTAGG-CCGAATC
5386623 A-ATTC
1 ACATTC
5386628 CAAGCCATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.02
28 42 0.81
29 9 0.17
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATCGCCCACTAGGCCGAATC
Found at i:5393112 original size:44 final size:44
Alignment explanation
Indices: 5393062--5393179 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 44
5393052 AGATGAGATC
5393062 TAGTGTAAGACCTATCTGGGACATGGCATCAGCTCGAGGTAG-GT
1 TAGTGTAAGACCTATCTGGGACATGGCATCAGCTCGAGGT-GTGT
* * ** *
5393106 TAGTGTAAGACCTGTCTGGGACATTGCATTGGCTTGAGGTGTGT
1 TAGTGTAAGACCTATCTGGGACATGGCATCAGCTCGAGGTGTGT
* * * * *
5393150 CAGTGTAGGCCCTTTCTGGGACATGTCATC
1 TAGTGTAAGACCTATCTGGGACATGGCATC
5393180 GACACAGATA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.02
44 60 0.98
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (44 bp):
TAGTGTAAGACCTATCTGGGACATGGCATCAGCTCGAGGTGTGT
Found at i:5393222 original size:49 final size:47
Alignment explanation
Indices: 5393014--5393328 Score: 168
Period size: 49 Copynumber: 6.7 Consensus size: 47
5393004 TGTATGTGCT
* * *
5393014 AGTGTAAGACCTGTCTGGGACATGACATCGGCACCA-ATAGATGAGATCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-G-ACCAGATAG-TGAGAGCC
* * **
5393063 AGTGTAAGACCTATCTGGGACATGGCATC-AGCTC-GA-GGT-AG-GTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-C-CAGATAGTGAGAGCC
* * * ** * * *
5393107 AGTGTAAGACCTGTCTGGGACATTGCATTGGCTTG--AG-GTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCAGATAGTGAGAGCC
* * * *
5393151 AGTGTAGGCCCTTTCTGGGACATGTCATCGACACAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CAGAT-AGTGAGAGCC
* * * *
5393200 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCGAT-GT-ATGGAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACC-AGATAGTGA--G-AGCC
* *
5393249 AGTGTAAGACCTGTCTAGGACATGGCATCGACTTAGAT-GTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CAGATAGTGAGAGCC
* * * *
5393296 AGTGTAAGACAATGTTTGGAACATGGCGTCGAC
1 AGTGTAAGAC-CTGTCTGGGACATGGCATCGAC
5393329 ATCGTACCCT
Statistics
Matches: 203, Mismatches: 44, Indels: 39
0.71 0.15 0.14
Matches are distributed among these distances:
43 2 0.01
44 56 0.28
45 3 0.01
46 3 0.01
47 17 0.08
48 24 0.12
49 97 0.48
50 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCAGATAGTGAGAGCC
Done.