Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 136 of 356
Found at i:43584309 original size:37 final size:37
Alignment explanation
Indices: 43584253--43584331 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43584243 CCGAGCTCTA
* * *
43584253 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43584290 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43584327 AAGAC
1 AAGAC
43584332 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43587300 original size:80 final size:80
Alignment explanation
Indices: 43587163--43587345 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 80
43587153 TTGAATGCTG
* * *
43587163 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGG-CAT
43587227 TGTGCGAGATACTAAA
65 TGTGCGAGATACTAAA
* * * * **
43587243 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* *
43587306 TGTGTGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * *
43587322 ACCAGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
43587346 TGAACGAGGA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 37 0.43
80 43 0.50
81 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTAAA
Found at i:43587336 original size:39 final size:39
Alignment explanation
Indices: 43587163--43587345 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 39
43587153 TTGAATGCTG
* * * * * *
43587163 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
43587203 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
43587243 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
43587283 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * * *
43587322 ACCAGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43587346 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
39 37 0.30
40 76 0.62
41 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:43595178 original size:39 final size:39
Alignment explanation
Indices: 43595014--43595196 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
43595004 TTGAATGCTG
* * * * * *
43595014 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
43595054 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
43595094 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
43595134 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
43595173 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43595197 TGAACGAGGA
Statistics
Matches: 123, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 38 0.31
40 76 0.62
41 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:43595193 original size:79 final size:81
Alignment explanation
Indices: 43595015--43595196 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 81
43595005 TGAATGCTGT
* * *
43595015 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCCATT
*
43595079 GTGCGAGATACTAAAT
66 GTGCGAGATACTAAAA
* * * * **
43595095 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGG-CAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCCAT
* *
43595157 TGTGTGAGTTACTAAAA
65 TGTGCGAGATACTAAAA
*
43595174 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
43595197 TGAACGAGGA
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 38 0.44
80 42 0.49
81 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCCATT
GTGCGAGATACTAAAA
Found at i:43599619 original size:41 final size:40
Alignment explanation
Indices: 43599492--43599636 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
43599482 ACTCGACAAG
* * * *
43599492 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
43599532 GCCTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
43599572 GCCTTC-GGATCTTAGTCCGGATGTAGTCACTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
43599613 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
43599637 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:43619307 original size:8 final size:8
Alignment explanation
Indices: 43619294--43619356 Score: 81
Period size: 8 Copynumber: 7.9 Consensus size: 8
43619284 ATCGGCAAAA
43619294 GCCGAAAT
1 GCCGAAAT
43619302 GCCGAAAT
1 GCCGAAAT
*
43619310 GCCGAAAA
1 GCCGAAAT
*
43619318 GCTGAAAT
1 GCCGAAAT
* *
43619326 GCTGAAAA
1 GCCGAAAT
43619334 GCCGAAAT
1 GCCGAAAT
*
43619342 GCCGAAAA
1 GCCGAAAT
43619350 GCCGAAA
1 GCCGAAA
43619357 GTTTGGCTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 48 1.00
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (8 bp):
GCCGAAAT
Found at i:43619315 original size:16 final size:16
Alignment explanation
Indices: 43619294--43619356 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
43619284 ATCGGCAAAA
*
43619294 GCCGAAATGCCGAAAT
1 GCCGAAAAGCCGAAAT
*
43619310 GCCGAAAAGCTGAAAT
1 GCCGAAAAGCCGAAAT
*
43619326 GCTGAAAAGCCGAAAT
1 GCCGAAAAGCCGAAAT
43619342 GCCGAAAAGCCGAAA
1 GCCGAAAAGCCGAAA
43619357 GTTTGGCTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:43619625 original size:29 final size:29
Alignment explanation
Indices: 43619591--43619682 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
43619581 TAGGCCCAAC
43619591 GGGCCATATAAATGTGATTTGGGCCTAAT
1 GGGCCATATAAATGTGATTTGGGCCTAAT
* *
43619620 GGGCCATATACAGGTGATTTGGGCCTGAA-
1 GGGCCATATAAATGTGATTTGGGCCT-AAT
* * * *
43619649 GGGTCATATGAATATGA-TTGGGCTTAAT
1 GGGCCATATAAATGTGATTTGGGCCTAAT
43619677 GGGCCA
1 GGGCCA
43619683 GATACAGGCA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
27 2 0.04
28 12 0.23
29 36 0.69
30 2 0.04
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (29 bp):
GGGCCATATAAATGTGATTTGGGCCTAAT
Found at i:43625007 original size:9 final size:9
Alignment explanation
Indices: 43624981--43625014 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
43624971 TCTATCCATT
*
43624981 AACTCTTGC
1 AACTCTTTC
43624990 AACTGCTTTC
1 AACT-CTTTC
43625000 AACTCTTTC
1 AACTCTTTC
43625009 AACTCT
1 AACTCT
43625015 GTCGAAGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.38
Consensus pattern (9 bp):
AACTCTTTC
Found at i:43626096 original size:30 final size:30
Alignment explanation
Indices: 43626045--43626102 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43626035 ATTTTCGGGC
* * *
43626045 CTAGGGGTAAAATGGCCATTTTATCAAAGT
1 CTAGGGGCAAAATGGCAATTTTACCAAAGT
*
43626075 CTAGGGGCAAAATGGTAATTTTACCAAA
1 CTAGGGGCAAAATGGCAATTTTACCAAA
43626103 AATATGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (30 bp):
CTAGGGGCAAAATGGCAATTTTACCAAAGT
Found at i:43626551 original size:47 final size:46
Alignment explanation
Indices: 43626441--43626710 Score: 180
Period size: 47 Copynumber: 5.8 Consensus size: 46
43626431 GTTATTGTGG
* * * *
43626441 GCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCAT-ATTATAAGA
1 GCTAGTGTAAGACCATGTCTGAGACATGCATC-GGCATGA-GATAAGT
*
43626487 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATCGAGATAAGT
1 GCTAGTGTAAGACCATGTCTGAGACAT-GCATCGGCAT-GAGATAAGT
* * * *
43626535 GCTAGTGTAATA-CATGTCTTAGACATGCATTGGCCTTGAGACGT-A-T
1 GCTAGTGTAAGACCATGTCTGAGACATGCATCGG-CATGAGA--TAAGT
* * * *
43626581 GCCAGTGTAAGA-CATGTCTGGGGCATGCATCGGCTACGAGATAA-T
1 GCTAGTGTAAGACCATGTCTGAGACATGCATCGGC-ATGAGATAAGT
* * * *
43626626 AG-TCAATGTAATACCATGTCT-AGGACATGGCATCGACATGAGATAAGA
1 -GCT-AGTGTAAGACCATGTCTGA-GACAT-GCATCGGCATGAGATAAGT
* * *
43626674 GCTAGTGTAAGACCGTATCTGGGACATGGCATCGGCA
1 GCTAGTGTAAGACCATGTCTGAGACAT-GCATCGGCA
43626711 CCTTACCCAC
Statistics
Matches: 175, Mismatches: 32, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 61 0.35
47 80 0.46
48 29 0.17
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGAGACATGCATCGGCATGAGATAAGT
Found at i:43626668 original size:93 final size:94
Alignment explanation
Indices: 43626487--43626710 Score: 214
Period size: 93 Copynumber: 2.4 Consensus size: 94
43626477 TATTATAAGA
*
43626487 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATCGAGATAAGTGCTAGTGTAATACATGT
1 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATCGAGATAAGTGCTAATGTAATACATGT
* * *
43626552 CTTAGACATGCATTGGCCTTGAGACGTAT
66 CTTAGACATGCATTCGACATGAGACGTAT
* *
43626581 GCCAGTGTAAGA-CATGTCTGGGGCAT-GCATCGGC-TACGAGATAA-TAG-TCAATGTAATACC
1 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCAT-CGAGATAAGT-GCT-AATGTAATA-C
*
43626641 ATGTC-TAGGACATGGCA-TCGACATGAGA--TAAGA
62 ATGTCTTA-GACAT-GCATTCGACATGAGACGT-A-T
* * * *
43626674 GCTAGTGTAAGACCGTATCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCA
43626711 CCTTACCCAC
Statistics
Matches: 108, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
91 4 0.04
92 28 0.26
93 42 0.39
94 26 0.24
95 8 0.07
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATCGAGATAAGTGCTAATGTAATACATGT
CTTAGACATGCATTCGACATGAGACGTAT
Found at i:43626700 original size:140 final size:140
Alignment explanation
Indices: 43626444--43626701 Score: 324
Period size: 140 Copynumber: 1.8 Consensus size: 140
43626434 ATTGTGGGCT
* * *
43626444 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATAAGAGCCAGTGTAAGACCATGTCTGA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATGATAAGAGCCAATGTAAGACCATGTCTGA
* * * * *
43626509 GACATGGCATCGGCATCGAGATAAGTGCTAGTGTAATACATGTCTTAGACATGCATTGGCCTTGA
66 GACATGGCATCGACATCGAGATAAGAGCTAGTGTAAGACATATCTGAGACATGCATTGGCCTTGA
43626574 GACGTATGCC
131 GACGTATGCC
* * * * * *
43626584 AGTGTAAGACATGTCTGGGGCATGCATCGGCTACGA-GATAATAGTCAATGTAATACCATGTCT-
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-GATGATAAGAGCCAATGTAAGACCATGTCTG
* *
43626647 AGGACATGGCATCGACAT-GAGATAAGAGCTAGTGTAAGACCGTATCTGGGACATG
65 A-GACATGGCATCGACATCGAGATAAGAGCTAGTGTAAGA-CATATCTGAGACATG
43626702 GCATCGGCAC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
139 20 0.20
140 78 0.79
141 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATGATAAGAGCCAATGTAAGACCATGTCTGA
GACATGGCATCGACATCGAGATAAGAGCTAGTGTAAGACATATCTGAGACATGCATTGGCCTTGA
GACGTATGCC
Found at i:43633763 original size:30 final size:30
Alignment explanation
Indices: 43633729--43633786 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
43633719 ATTTTCGGGC
* *
43633729 CTAGGGGTAAAATGGTCATTTTATCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
43633759 CTAGGGGCAAAATGGTCATTTTACCAAA
1 CTAGGGGCAAAATGGTCATTTTACCAAA
43633787 AATATGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:43634181 original size:46 final size:46
Alignment explanation
Indices: 43634128--43634385 Score: 229
Period size: 47 Copynumber: 5.5 Consensus size: 46
43634118 ATTGTGGGCT
*
43634128 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGA-GATGAGAGCC
* * * *
43634174 AGTGTAAGACCATGTCTGGGACATGGCAT-TGGCATCGAGACT-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGA-TGAGAGCC
* ** *
43634222 AGTGTAAGACATGTCTGGGACATGCATTAGCCTTGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATG-AGAGCC
* * *
43634268 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCC
** * * *
43634314 AGTGTAAGACCATGTCTGGGACATGGCATC-GAAATGAGATAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACGAGATGAGAGCC
* *
43634361 AATGTAAGATCGTGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
43634386 GCATTGGCAC
Statistics
Matches: 173, Mismatches: 28, Indels: 22
0.78 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 67 0.39
47 79 0.46
48 24 0.14
49 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCC
Found at i:43634380 original size:140 final size:141
Alignment explanation
Indices: 43634128--43634390 Score: 381
Period size: 140 Copynumber: 1.9 Consensus size: 141
43634118 ATTGTGGGCT
*
43634128 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* ** * *
43634193 GACATGGCATTGGCATCGAGACTAGTGCTAGTGTAAGACATGTCTGGGACAT-GCATTAGCCTTG
66 GACATGGCATCGAAATCGAGACTAGAGCTAATGTAAGACATGTCTGGGACATGGCATTAGCCTTG
43634257 AGACGTAAGCC
131 AGACGTAAGCC
* * *
43634268 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTG
*
43634332 GGACATGGCATCGAAAT-GAGA-TAAGAGCTAATGTAAGATCGTGTCTGGGACATGGCATT
65 GGACATGGCATCGAAATCGAGACT-AGAGCTAATGTAAGA-CATGTCTGGGACATGGCATT
43634391 GGCACCTTAC
Statistics
Matches: 109, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
138 1 0.01
139 17 0.16
140 85 0.78
141 6 0.06
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGAAATCGAGACTAGAGCTAATGTAAGACATGTCTGGGACATGGCATTAGCCTTG
AGACGTAAGCC
Found at i:43642800 original size:96 final size:96
Alignment explanation
Indices: 43642620--43642842 Score: 288
Period size: 96 Copynumber: 2.3 Consensus size: 96
43642610 GTCATTAGGA
* * *
43642620 CTTCATTGATTTGGCTTTAGGCCATGATATTAGCACTTCAGGTGCGAGCTTTATTAATTTTGCTT
1 CTTCATTGATTTGGCCTTAGGCCATGATATTAGCACTTCAGGTGCGAGCTTCATTAATTTGGCTT
* * * * *
43642685 CGGTTCATGATATTTGCACTTCGGGTATGTG
66 CGGTGCATGAAATTAGCACTTCAGGTATGAG
* *
43642716 CTTCATTGATTTGGCCTTAGGCCATGATATTAGCACTTCGGGTGCGAGCTTCATTGATTTGGCTT
1 CTTCATTGATTTGGCCTTAGGCCATGATATTAGCACTTCAGGTGCGAGCTTCATTAATTTGGCTT
* *
43642781 TGG-GCAATGAAATTAGCACTTCAGGTGTGAG
66 CGGTGC-ATGAAATTAGCACTTCAGGTATGAG
**
43642812 CTTTGTTGATTTGG-CTTCAGGCCATGATATT
1 CTTCATTGATTTGGCCTT-AGGCCATGATATT
43642843 GGTACCTAAG
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 4 0.04
96 107 0.96
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (96 bp):
CTTCATTGATTTGGCCTTAGGCCATGATATTAGCACTTCAGGTGCGAGCTTCATTAATTTGGCTT
CGGTGCATGAAATTAGCACTTCAGGTATGAG
Found at i:43642855 original size:48 final size:48
Alignment explanation
Indices: 43642620--43642842 Score: 252
Period size: 48 Copynumber: 4.6 Consensus size: 48
43642610 GTCATTAGGA
*
43642620 CTTCATTGATTTGGCTTTAGGCCATGATATTAGCACTTCAGGTGCGAG
1 CTTCATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGCGAG
* * * * * * ** *
43642668 CTTTATTAATTTTGCTTC-GGTTCATGATATTTGCACTTCGGGTATGTG
1 CTTCATTGATTTGGCTTCAGG-CCATGATATTAGCACTTCAGGTGCGAG
*
43642716 CTTCATTGATTTGGCCTT-AGGCCATGATATTAGCACTTCGGGTGCGAG
1 CTTCATTGATTTGG-CTTCAGGCCATGATATTAGCACTTCAGGTGCGAG
** * * *
43642764 CTTCATTGATTTGGCTTTGGGCAATGAAATTAGCACTTCAGGTGTGAG
1 CTTCATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGCGAG
**
43642812 CTTTGTTGATTTGGCTTCAGGCCATGATATT
1 CTTCATTGATTTGGCTTCAGGCCATGATATT
43642843 GGTACCTAAG
Statistics
Matches: 142, Mismatches: 29, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
47 5 0.04
48 132 0.93
49 5 0.04
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (48 bp):
CTTCATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGCGAG
Found at i:43647732 original size:49 final size:49
Alignment explanation
Indices: 43647674--43647850 Score: 255
Period size: 49 Copynumber: 3.6 Consensus size: 49
43647664 ATCTAATACG
43647674 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
* * * * * **
43647723 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTATG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACA
* *
43647774 CATAGTAGCCAGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
43647823 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
43647851 CGTGACCTCA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 66 0.61
50 6 0.06
51 37 0.34
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
Found at i:43647803 original size:100 final size:100
Alignment explanation
Indices: 43647673--43647855 Score: 339
Period size: 100 Copynumber: 1.8 Consensus size: 100
43647663 TATCTAATAC
* * *
43647673 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCAC
1 GCATAGTAGCCAGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTGCAC
43647738 TTAGTACTACACACGTGATCGAAGTTATCGGGTAT
66 TTAGTACTACACACGTGATCGAAGTTATCGGGTAT
43647773 GCATAGTAGCCAGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTGCAC
1 GCATAGTAGCCAGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTGCAC
43647838 TTAGTACTACACACGTGA
66 TTAGTACTACACACGTGA
43647856 CCTCACAATA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (100 bp):
GCATAGTAGCCAGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTGCAC
TTAGTACTACACACGTGATCGAAGTTATCGGGTAT
Found at i:43659801 original size:42 final size:41
Alignment explanation
Indices: 43659642--43659802 Score: 263
Period size: 40 Copynumber: 4.0 Consensus size: 41
43659632 CTCGATATAT
43659642 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-AA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAA
*
43659682 TATATATCCGGGTTATATCCCGCAGGCTTCGTGCTGG-AAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAA
43659722 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-A
* * *
43659764 TATATATCCAGGTTAAATCCCGCAGGCTTAGTACTGGTA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
43659803 CTATATCCGG
Statistics
Matches: 113, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
40 74 0.65
41 2 0.02
42 37 0.33
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAA
Found at i:43666930 original size:80 final size:82
Alignment explanation
Indices: 43666811--43666997 Score: 265
Period size: 82 Copynumber: 2.3 Consensus size: 82
43666801 ATATATTATA
43666811 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-ATATATATCCGGGTTAAATCCCGCAGGC
1 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCCGGGTTAAATCCCGCAGGC
*
43666874 TTCGTGCTGGAAATATT
66 TTAGTGCTGGAAATATT
* * *
43666891 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATATATATATCTGGGTTAAATCCCGCAGGC
1 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCCGGGTTAAATCCCGCAGGC
* *
43666956 TTAGTGCTGGTACTA--
66 TTAGTGCTGGAAATATT
*
43666971 TATCCAGGCTTAAAGTTCCGCAGGCTT
1 TATCCAGG-TTAAA-TCCCGCAGGCTT
43666998 TGAGCTAGTG
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
80 39 0.41
81 6 0.06
82 49 0.52
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (82 bp):
TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCCGGGTTAAATCCCGCAGGC
TTAGTGCTGGAAATATT
Found at i:43666997 original size:40 final size:40
Alignment explanation
Indices: 43666807--43666973 Score: 253
Period size: 40 Copynumber: 4.1 Consensus size: 40
43666797 CTCGATATAT
*
43666807 TATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
43666847 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
43666887 TATTTATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-A
* * *
43666929 TATATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTAC
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
43666969 TATAT
1 TATAT
43666974 CCAGGCTTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 78 0.68
41 2 0.02
42 35 0.30
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:43668702 original size:35 final size:35
Alignment explanation
Indices: 43668654--43668750 Score: 142
Period size: 35 Copynumber: 2.8 Consensus size: 35
43668644 TTCACGGTTA
43668654 ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
1 ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
*
43668689 ACCATCTATCACACTAGATGCTCATAAGAGCCAAT
1 ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
* * *
43668724 ACCAT-TCAGCATACCAAATGCTCATAA
1 ACCATCT-AGCACACTAGATGCTCATAA
43668751 AAGCTAGACT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 1 0.02
35 55 0.98
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (35 bp):
ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
Found at i:43670478 original size:12 final size:12
Alignment explanation
Indices: 43670455--43670485 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
43670445 AACAAACATA
43670455 ATCATATCTTCAC
1 ATCAT-TCTTCAC
43670468 ATCATTCTTCAC
1 ATCATTCTTCAC
43670480 ATCATT
1 ATCATT
43670486 AGCAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (12 bp):
ATCATTCTTCAC
Found at i:43670949 original size:26 final size:26
Alignment explanation
Indices: 43670920--43670997 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
43670910 ACTCCAAATA
43670920 AAGATCCGCTAATTTTCCCTGAAACT
1 AAGATCCGCTAATTTTCCCTGAAACT
* *
43670946 AAGATCTGCTAATTCTCCCTGAAACT
1 AAGATCCGCTAATTTTCCCTGAAACT
*
43670972 AAGATCCACTAATTTTCCCTGAAACT
1 AAGATCCGCTAATTTTCCCTGAAACT
43670998 GGACTTACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (26 bp):
AAGATCCGCTAATTTTCCCTGAAACT
Found at i:43673596 original size:49 final size:48
Alignment explanation
Indices: 43673536--43674231 Score: 1086
Period size: 47 Copynumber: 14.6 Consensus size: 48
43673526 GATAATTGTG
* *
43673536 ATGTGAATGT-ATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43673583 ATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43673630 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43673679 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43673728 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43673777 ATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43673824 ATGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43673873 ATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
43673920 ATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43673967 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
43674016 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAGGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
43674065 ATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCTGATGTTATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43674112 ATGTGAAAGTG-TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
43674159 ATGTGAAAGTG-TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43674206 ATGTGAAAGTG-TATAAATGTGATAAG
1 ATGTGAAAGTGATATATATGTGATAAG
43674232 TCCCGAAGGG
Statistics
Matches: 610, Mismatches: 32, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
47 329 0.54
49 281 0.46
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (48 bp):
ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:43673643 original size:96 final size:96
Alignment explanation
Indices: 43673536--43674231 Score: 1129
Period size: 96 Copynumber: 7.3 Consensus size: 96
43673526 GATAATTGTG
*
43673536 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
43673599 ATGTGATAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
43673630 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
43673695 ATATGTGATAAGGCCGAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCGATGTGATGA
43673728 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
43673793 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
*
43673824 ATGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
43673889 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
43673920 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
43673983 ATATGTGATAAGGCCGAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
43674016 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAGGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
43674081 ATGTGATAAGGCCTAATAGCTGATGTTATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
*
43674112 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
43674175 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
43674206 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
43674232 TCCCGAAGGG
Statistics
Matches: 566, Mismatches: 26, Indels: 20
0.92 0.04 0.03
Matches are distributed among these distances:
94 140 0.25
95 3 0.01
96 282 0.50
98 141 0.25
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCGATGTGATGA
Found at i:43678187 original size:16 final size:15
Alignment explanation
Indices: 43678161--43678195 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
43678151 TGATGTGAAT
43678161 AATATAAAATATTAA
1 AATATAAAATATTAA
*
43678176 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
43678192 AATA
1 AATA
43678196 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:43678367 original size:20 final size:20
Alignment explanation
Indices: 43678310--43678416 Score: 63
Period size: 21 Copynumber: 5.0 Consensus size: 20
43678300 AATACTACAT
43678310 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
43678329 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
43678352 AAATATGTACATAATATAGTGTAAA
1 AAATATGTACAT-A-ATA---TAAA
**
43678377 AAATACATACATAATATAATA
1 AAATATGTACATAATATAA-A
* *
43678398 AAATATATACATAAGATAA
1 AAATATGTACATAATATAA
43678417 CATGTAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
19 8 0.12
20 5 0.07
21 19 0.28
22 5 0.07
23 17 0.25
24 1 0.01
25 13 0.19
ACGTcount: A:0.58, C:0.06, G:0.07, T:0.30
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:43678400 original size:21 final size:21
Alignment explanation
Indices: 43678376--43678416 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43678366 TATAGTGTAA
*
43678376 AAAATACATACATAATATAAT
1 AAAATACATACATAAGATAAT
*
43678397 AAAATATATACATAAGATAA
1 AAAATACATACATAAGATAA
43678417 CATGTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATACATACATAAGATAAT
Found at i:43678409 original size:46 final size:48
Alignment explanation
Indices: 43678342--43678444 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
43678332 TAAATACGTG
* * * *
43678342 ATAATATTA-AAAATATGTACATAATAT-A-GTGTAAAAAATACATAC
1 ATAATATAATAAAATATATACATAAGATAACATGTAAAAAATACATAC
* *
43678387 ATAATATAATAAAATATATACATAAGATAACATGTAAAAAATATATAT
1 ATAATATAATAAAATATATACATAAGATAACATGTAAAAAATACATAC
43678435 ATAA-ATAATA
1 ATAATATAATA
43678445 TAGTATTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 8 0.16
46 16 0.33
47 7 0.14
48 18 0.37
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (48 bp):
ATAATATAATAAAATATATACATAAGATAACATGTAAAAAATACATAC
Found at i:43678483 original size:50 final size:48
Alignment explanation
Indices: 43678424--43678545 Score: 127
Period size: 50 Copynumber: 2.5 Consensus size: 48
43678414 TAACATGTAA
*
43678424 AAAATATATATATAAATAATATAGTATTAAAGATATATACATAAAATAGT
1 AAAATATATATATAAATAATATAGAATT-AAGA-ATATACATAAAATAGT
* ** * * * *
43678474 ATAATATATATATACGTAATATAGAATTTAGAATATACCTAATATATT
1 AAAATATATATATAAATAATATAGAATTAAGAATATACATAAAATAGT
*
43678522 AAAAGAATATATATAATATAATAT
1 AAAA-TATATATATAA-ATAATAT
43678546 TAAGAAATAT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
48 16 0.28
49 12 0.21
50 30 0.52
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (48 bp):
AAAATATATATATAAATAATATAGAATTAAGAATATACATAAAATAGT
Found at i:43678486 original size:27 final size:27
Alignment explanation
Indices: 43678354--43678487 Score: 84
Period size: 25 Copynumber: 5.2 Consensus size: 27
43678344 AATATTAAAA
* *
43678354 ATATGTACATAATATAGTGTAAA-A-A-
1 ATATATACATAATATAGT-AAAATATAT
* *
43678379 ATACATACATAATATAATAAAATATAT
1 ATATATACATAATATAGTAAAATATAT
* * * *
43678406 ACATA-AGATAACAT-GTAAAAAATAT
1 ATATATACATAATATAGTAAAATATAT
* * * *
43678431 ATATATAAATAATATAGT--ATTAAAG
1 ATATATACATAATATAGTAAAATATAT
* *
43678456 ATATATACATAAAATAGTATAATATAT
1 ATATATACATAATATAGTAAAATATAT
43678483 ATATA
1 ATATA
43678488 CGTAATATAG
Statistics
Matches: 80, Mismatches: 22, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
24 3 0.04
25 48 0.60
26 15 0.19
27 14 0.17
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (27 bp):
ATATATACATAATATAGTAAAATATAT
Found at i:43678497 original size:25 final size:26
Alignment explanation
Indices: 43678426--43678497 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
43678416 ACATGTAAAA
*
43678426 AATATATATATAAATAATATAGTATT
1 AATATATATATACATAATATAGTATT
* *
43678452 AA-AGATATATACATAAAATAGTA-T
1 AATATATATATACATAATATAGTATT
*
43678476 AATATATATATACGTAATATAG
1 AATATATATATACATAATATAG
43678498 AATTTAGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 3 0.08
25 34 0.87
26 2 0.05
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (26 bp):
AATATATATATACATAATATAGTATT
Found at i:43678560 original size:23 final size:25
Alignment explanation
Indices: 43678517--43678562 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43678507 TATACCTAAT
43678517 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
43678542 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
43678563 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:43679082 original size:30 final size:30
Alignment explanation
Indices: 43679040--43679138 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
43679030 GTAGTACAAG
*
43679040 TGGTGGTAGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
43679070 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
43679100 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
43679130 TGGTGGTGG
1 TGGTGGTGG
43679139 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.05, G:0.49, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:43679128 original size:18 final size:17
Alignment explanation
Indices: 43679071--43679128 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
43679061 TAGTGGAGTA
43679071 GGTAGTGGAGCAAGTGT
1 GGTAGTGGAGCAAGTGT
43679088 GGCTAGT-G-G--AGT-T
1 GG-TAGTGGAGCAAGTGT
*
43679101 GGTGGTGGAGCAAGTGT
1 GGTAGTGGAGCAAGTGT
43679118 GGTTAGTGGAG
1 GG-TAGTGGAG
43679129 TTGGTGGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 13
0.68 0.04 0.28
Matches are distributed among these distances:
12 3 0.09
13 4 0.12
14 4 0.12
16 4 0.12
17 6 0.19
18 11 0.34
ACGTcount: A:0.19, C:0.05, G:0.50, T:0.26
Consensus pattern (17 bp):
GGTAGTGGAGCAAGTGT
Found at i:43680107 original size:91 final size:89
Alignment explanation
Indices: 43679854--43680357 Score: 512
Period size: 91 Copynumber: 5.6 Consensus size: 89
43679844 ACGTGAGCCA
* * *
43679854 AGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT-AAAACA-AAATTTG-TAAAATAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAA-TTGAAAAAAAAGAA
* ** ** *
43679914 TTTGAAAATACCTCGGTATGTGACTCG
65 ATTGAAAATACCTTAGCGTGT-CCT-G
* *
43679941 AGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTGACAAACATAAATTGAAAAAAAAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAGAAATTGAAAAAAAAGAA
43680005 ATTGAAAATACCTTAGCGTGTCCTG
65 ATTGAAAATACCTTAGCGTGTCCTG
* * *
43680030 AGGTTGAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACATAAATTGAAAAAAAAAAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAGAAATTG--AAAAAAAAG
*
43680094 AAACTGAAAATACCTTAGCGTGTCCTG
63 AAATTGAAAATACCTTAGCGTGTCCTG
* *
43680121 AGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAGAAACA-AAATTTG-AAAAACAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-GA-AAACAGAAA-TTGAAAAAAAAG
* ** *
43680184 AATTTGAAAATACCTTAGCGTGTGAGTCA
63 AAATTGAAAATACCTTAGCGTGT-CCT-G
* * * *
43680213 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTG-AAGAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAAAAAAGAA
* *
43680277 ATGGAAAACACCTTAGC--G-CCTTG
65 ATTGAAAATACCTTAGCGTGTCC-TG
* * *
43680300 AGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAA
43680358 TACCTCATTA
Statistics
Matches: 364, Mismatches: 35, Indels: 35
0.84 0.08 0.08
Matches are distributed among these distances:
86 1 0.00
87 79 0.22
88 8 0.02
89 52 0.14
90 41 0.11
91 125 0.34
92 48 0.13
93 10 0.03
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (89 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAAAAAGAAA
TTGAAAATACCTTAGCGTGTCCTG
Found at i:43680187 original size:14 final size:14
Alignment explanation
Indices: 43680164--43680193 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43680154 TTTTTTGGAG
43680164 AAACAAAATTTGAA
1 AAACAAAATTTGAA
*
43680178 AAACAGAATTTGAA
1 AAACAAAATTTGAA
43680192 AA
1 AA
43680194 TACCTTAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (14 bp):
AAACAAAATTTGAA
Found at i:43680392 original size:75 final size:73
Alignment explanation
Indices: 43680264--43680652 Score: 441
Period size: 75 Copynumber: 5.3 Consensus size: 73
43680254 AACACAGAAA
* * * * * * *
43680264 TTGAAGAACAGAAATGGAAAACACCTTA-GCGCCTTGAGGTTCAACTCATCTCTCGCAATATGAG
1 TTGAA-AACAGAAATTGAAAATACCTCACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
43680328 CTGATTTTT
65 TTGATTTTT
** *
43680337 TTGAAAGACAGAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCTCGCAATATAA
1 TTGAAA-ACAGAAATTGAAAATACCTCA-CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
43680402 GTTGA--TTT
64 GTTGATTTTT
* * * * *
43680410 TTGACAAACAAAAATTGAAATTACCTCA-GCGTCTTGAGGTTTAACTCACCTCTCGCAATATGAG
1 TTGA-AAACAGAAATTGAAAATACCTCACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
43680474 CTGATTTTT
65 TTGATTTTT
43680483 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTC-ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
43680548 GTTGA---TT
64 GTTGATTTTT
* * * * * *
43680555 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTTACCTATCACAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCA-CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
43680620 GTTGATTTTT
64 GTTGATTTTT
43680630 TTGAAAAACAGAAATTGAAAATA
1 TTG-AAAACAGAAATTGAAAATA
43680653 GAAATGGAAA
Statistics
Matches: 269, Mismatches: 32, Indels: 28
0.82 0.10 0.09
Matches are distributed among these distances:
71 35 0.13
72 64 0.24
73 76 0.28
74 3 0.01
75 90 0.33
76 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAAATACCTCACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTT
Found at i:43680629 original size:146 final size:146
Alignment explanation
Indices: 43680298--43680652 Score: 541
Period size: 146 Copynumber: 2.4 Consensus size: 146
43680288 CTTAGCGCCT
* * * *
43680298 TGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCT
1 TGAGGCTCAACTCACCTATCACAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCT
**
43680363 CATTATGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGACAAACAAAAATTGA
66 CAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGACAAACAAAAATTGA
*
43680428 AATTACCTCAGCGTCT
131 AATTACCTCAGCGTCC
* * * *
43680444 TGAGGTTTAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCT
1 TGAGGCTCAACTCACCTATCACAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCT
* *
43680509 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAAAAATTGA
66 CAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGACAAACAAAAATTGA
43680573 AATTACCTCAGCGTGTCC
131 AATTACCTCAGC--GTCC
* * *
43680591 TGAGGCTCAACTTACCTATCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATA
1 TGAGGCTCAACTCACCTATCACAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATA
43680653 GAAATGGAAA
Statistics
Matches: 193, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
145 32 0.17
146 103 0.53
147 58 0.30
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (146 bp):
TGAGGCTCAACTCACCTATCACAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCT
CAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGACAAACAAAAATTGA
AATTACCTCAGCGTCC
Found at i:43680747 original size:15 final size:16
Alignment explanation
Indices: 43680727--43680756 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43680717 TGAAACACAT
43680727 AAATTAAAAA-AAAAG
1 AAATTAAAAACAAAAG
43680742 AAATTAAAAACAAAA
1 AAATTAAAAACAAAA
43680757 TTTGAAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (16 bp):
AAATTAAAAACAAAAG
Found at i:43680883 original size:75 final size:74
Alignment explanation
Indices: 43680787--43681118 Score: 404
Period size: 75 Copynumber: 4.5 Consensus size: 74
43680777 TGGCCCGAGA
*
43680787 CTCAACTCACCTCTCGTAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
* *
43680852 TGTCCCGAAG
65 TGTCCTGAGG
* ** * *
43680862 CTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTGATAAAAATAGAATTTGAAAATATCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAAAGCAGAAATTGAAAATACCTCAGC
43680927 GTGTCCTGAGG
64 GTGTCCTGAGG
* *
43680938 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAA-CAAAAATTGAAATTACCTCAGC-
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAAGCAGAAATTGAAAATACCTCAGCG
*
43681000 -GTCTTGAGG
65 TGTCCTGAGG
* * **
43681009 TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAGACAGAAATTGAAAATACCTCAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAG-CAGAAATTGAAAATACCTCAGC
*
43681073 GTGTCTTGAGG
64 GTGTCCTGAGG
** *
43681084 CTCAACTCAGTTCACGCAATATGAGTTGATTTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
43681119 TTGAAACATA
Statistics
Matches: 223, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
71 38 0.17
73 42 0.19
74 14 0.06
75 68 0.30
76 61 0.27
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (74 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGT
GTCCTGAGG
Found at i:43681119 original size:75 final size:74
Alignment explanation
Indices: 43680787--43681137 Score: 397
Period size: 76 Copynumber: 4.7 Consensus size: 74
43680777 TGGCCCGAGA
* * *
43680787 CTCAACTCACCTCTCGTAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-CAGAAATTGAAAATACCTCAGAG
* *
43680852 TGTCCCGAAG
65 TGTCCTGAGG
* * * * * *
43680862 CTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTGATAAAAATAGAATTTGAAAATATCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-TTGAAAACAGAAATTGAAAATACCTCAGA
43680927 GTGTCCTGAGG
64 GTGTCCTGAGG
* *
43680938 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAAAAATTGAAATTACCTC--AG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAGAAATTGAAAATACCTCAGAG
* *
43680999 CGTCTTGAGG
65 TGTCCTGAGG
* * *
43681009 TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAAAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGAG
*
43681074 TGTCTTGAGG
65 TGTCCTGAGG
** * * *
43681084 CTCAACTCAGTTCACGCAATATGAGTTGATTTTTTTTG-AAACATAAATTAAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAAA
43681138 AACGAAAATT
Statistics
Matches: 236, Mismatches: 31, Indels: 19
0.83 0.11 0.07
Matches are distributed among these distances:
71 36 0.15
72 4 0.02
73 45 0.19
74 12 0.05
75 65 0.28
76 69 0.29
77 5 0.02
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (74 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGAGT
GTCCTGAGG
Found at i:43681342 original size:14 final size:13
Alignment explanation
Indices: 43681307--43681351 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
43681297 TTGATTTTTG
*
43681307 AAAAATAGAAATT
1 AAAAACAGAAATT
*
43681320 AAAAGCAGAAATT
1 AAAAACAGAAATT
43681333 GAAAAACAGAAATT
1 -AAAAACAGAAATT
43681347 AAAAA
1 AAAAA
43681352 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:43681372 original size:100 final size:101
Alignment explanation
Indices: 43681135--43681423 Score: 408
Period size: 100 Copynumber: 2.9 Consensus size: 101
43681125 CATAAATTAA
*
43681135 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
43681199 TGA--TTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGAAGAAATTGAAAAGCAAAAATTG
*
43681234 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCATCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
43681299 GATTTTTGAAAA-ATAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGA-AGAAATTGAAAAGCAAAAATTG
* * * * *
43681334 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCCCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
43681399 GATTTTTGAAAAGCATAAATTGAAA
66 GATTTTTGAAAAGAAGAAATTGAAA
43681424 TTACCTCAGC
Statistics
Matches: 170, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
99 63 0.37
100 90 0.53
101 17 0.10
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGAAGAAATTGAAAAGCAAAAATTG
Found at i:43681456 original size:73 final size:74
Alignment explanation
Indices: 43681331--43681498 Score: 239
Period size: 73 Copynumber: 2.3 Consensus size: 74
43681321 AAAGCAGAAA
* * * * * *
43681331 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCCCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACCCACCTCTCACAATATGA
43681396 GTTGA-TTT
66 GTTGATTTT
* * * *
43681404 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACCCACCTCTCACAATATGA
43681469 GTTGATTTT
66 GTTGATTTT
43681478 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
43681499 AACGAAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 60 0.72
74 23 0.28
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACCCACCTCTCACAATATGA
GTTGATTTT
Found at i:43693090 original size:39 final size:40
Alignment explanation
Indices: 43692886--43693108 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
43692876 TTGAATGCTG
* * * * * *
43692886 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
43692926 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
43692966 TCCGAGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
43693006 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
43693046 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
43693085 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43693109 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:43693128 original size:79 final size:80
Alignment explanation
Indices: 43692961--43693143 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
43692951 GTGCGAGATA
* * * *
43692961 CTAAATCCGAGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
43693026 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
43693041 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
43693105 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* * *
43693120 CTATATCC-GGTTAAATCCTGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
43693144 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 13 0.15
79 46 0.54
80 26 0.31
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:43696571 original size:16 final size:15
Alignment explanation
Indices: 43696545--43696579 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
43696535 TGATGTGAAT
43696545 AATATAAAATATTAA
1 AATATAAAATATTAA
*
43696560 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
43696576 AATA
1 AATA
43696580 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:43696753 original size:20 final size:20
Alignment explanation
Indices: 43696696--43696755 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
43696686 AATACTACAT
43696696 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
43696715 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
43696738 AAATATGTACATAATATA
1 AAATATGTACATAATATA
43696756 GTGCAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:43696797 original size:22 final size:22
Alignment explanation
Indices: 43696762--43696803 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
43696752 TATAGTGCAA
*
43696762 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
* *
43696784 AAAATATATGCATAAGATAA
1 AAAATACATACATAAGATAA
43696804 CATGTAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:43696851 original size:25 final size:25
Alignment explanation
Indices: 43696728--43696946 Score: 100
Period size: 25 Copynumber: 9.0 Consensus size: 25
43696718 TAAATACGTG
* *
43696728 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* *** * *
43696753 ATAGTGCAAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
43696778 AT-A-ATTAAA-ATATATGCATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
43696800 ATAACATGTAAATATATATATAAATAAT
1 ATAATAT-T-AA-AGATATATACATAAT
* *
43696828 ATAGTATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * * *
43696853 ATAATATTATATATAAATACGTAAT
1 ATAATATTAAAGATATATACATAAT
* *
43696878 ATAGA-ATT-TAGA-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* * *
43696901 AT-AT-TAAAAGA-ATATATATAAC
1 ATAATATTAAAGATATATACATAAT
*
43696923 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
43696946 A
1 A
43696947 ACAAAAAAAG
Statistics
Matches: 145, Mismatches: 37, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
21 2 0.01
22 25 0.17
23 26 0.18
24 11 0.08
25 59 0.41
26 5 0.03
27 2 0.01
28 15 0.10
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:43696859 original size:14 final size:14
Alignment explanation
Indices: 43696810--43696871 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 14
43696800 ATAACATGTA
43696810 AATATATATATAAAT
1 AATATATATA-AAAT
43696825 AATATAGTATTAAAGAT
1 AATATA-TA-TAAA-AT
*
43696842 -ATATACATAAAAT
1 AATATATATAAAAT
43696855 AATATTATATATAAAT
1 AATA-TATATA-AAAT
43696871 A
1 A
43696872 CGTAATATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
13 2 0.05
14 7 0.18
15 12 0.31
16 14 0.36
17 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (14 bp):
AATATATATAAAAT
Found at i:43696865 original size:50 final size:50
Alignment explanation
Indices: 43696773--43696882 Score: 118
Period size: 50 Copynumber: 2.2 Consensus size: 50
43696763 AAATACATAC
* * *
43696773 ATAATATA-ATTAAAATATATGCATAAGATAACATGTAAATATATATATAA
1 ATAATATAGATTAAAATATATACATAAAATAACATGT-AATATATAAATAA
* *
43696823 ATAATATAGTATTAAAGATATATACATAAAATAATAT-T-ATATATAAATAC
1 ATAATATAG-ATTAAA-ATATATACATAAAATAACATGTAATATATAAATAA
*
43696873 GTAATATAGA
1 ATAATATAGA
43696883 ATTTAGAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
49 1 0.02
50 26 0.51
52 7 0.14
53 17 0.33
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (50 bp):
ATAATATAGATTAAAATATATACATAAAATAACATGTAATATATAAATAA
Found at i:43697465 original size:30 final size:30
Alignment explanation
Indices: 43697425--43697489 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
43697415 AGTACAAGTG
*
43697425 GTGGTGGAGCAAGTGTGGCTT-GTGGAGTTA
1 GTGGTAGAGCAAGTGTGG-TTAGTGGAGTTA
*
43697455 GTGGTAGAGCAAGTGTGGTTAGTGGAGTTG
1 GTGGTAGAGCAAGTGTGGTTAGTGGAGTTA
43697485 GTGGT
1 GTGGT
43697490 GGCAAAGGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 2 0.06
30 30 0.94
ACGTcount: A:0.17, C:0.05, G:0.48, T:0.31
Consensus pattern (30 bp):
GTGGTAGAGCAAGTGTGGTTAGTGGAGTTA
Found at i:43700382 original size:23 final size:23
Alignment explanation
Indices: 43700352--43700422 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
43700342 TAAAGAGAGA
43700352 GATTCGGTCTCGGTTTACACCAT
1 GATTCGGTCTCGGTTTACACCAT
*
43700375 GATTCGGTCTCAGTTTACACCAT
1 GATTCGGTCTCGGTTTACACCAT
* *
43700398 GATTTGGCCTCGGTTTACACCAT
1 GATTCGGTCTCGGTTTACACCAT
43700421 GA
1 GA
43700423 ACATGGCACA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (23 bp):
GATTCGGTCTCGGTTTACACCAT
Found at i:43701140 original size:26 final size:27
Alignment explanation
Indices: 43701109--43701170 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
43701099 TCTCATCCCT
43701109 ATTTTACCCCCAGTAAAA-TTTTAACG
1 ATTTTACCCCCAGTAAAATTTTTAACG
* * *
43701135 ATTTTACCCTCATTAAAATTTTTGACG
1 ATTTTACCCCCAGTAAAATTTTTAACG
43701162 ATTTTACCC
1 ATTTTACCC
43701171 TAGGTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
ATTTTACCCCCAGTAAAATTTTTAACG
Found at i:43701178 original size:27 final size:27
Alignment explanation
Indices: 43701109--43701171 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
43701099 TCTCATCCCT
*
43701109 ATTTTACCCCCAGTAAAA-TTTTAACG
1 ATTTTACCCTCAGTAAAATTTTTAACG
* *
43701135 ATTTTACCCTCATTAAAATTTTTGACG
1 ATTTTACCCTCAGTAAAATTTTTAACG
43701162 ATTTTACCCT
1 ATTTTACCCT
43701172 AGGTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 16 0.48
27 17 0.52
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTCAGTAAAATTTTTAACG
Found at i:43701179 original size:26 final size:26
Alignment explanation
Indices: 43701109--43701182 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
43701099 TCTCATCCCT
* *
43701109 ATTTTACCCCCAGTAAAATTTTAACG
1 ATTTTACCCTCAGTAAATTTTTAACG
* *
43701135 ATTTTACCCTCATTAAAATTTTTGACG
1 ATTTTACCCTCAGT-AAATTTTTAACG
43701162 ATTTTACCCT-AGGTAAATTTT
1 ATTTTACCCTCA-GTAAATTTT
43701183 CAAGAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (26 bp):
ATTTTACCCTCAGTAAATTTTTAACG
Found at i:43703983 original size:17 final size:18
Alignment explanation
Indices: 43703961--43704001 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43703951 CTTGTTCTTC
43703961 TTTCTTCCCTA-CTTTCT
1 TTTCTTCCCTACCTTTCT
**
43703978 TTTCTTTGCTACCTTTCT
1 TTTCTTCCCTACCTTTCT
43703996 TTTCTT
1 TTTCTT
43704002 GTTGTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.05, C:0.29, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTCTTCCCTACCTTTCT
Found at i:43704909 original size:31 final size:31
Alignment explanation
Indices: 43704865--43704944 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
43704855 TGATTTGGAG
43704865 GGTCACACA--CCCGTGTGGGTAGGCCATGT
1 GGTCACACACGCCCGTGTGGGTAGGCCATGT
* *
43704894 GGTCACACACGCCCGTGTGGGTAGGTCGTGT
1 GGTCACACACGCCCGTGTGGGTAGGCCATGT
43704925 GGTCACACACGCCCGTGTGG
1 GGTCACACACGCCCGTGTGG
43704945 CTTAGGACAC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 9 0.19
31 38 0.81
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.20
Consensus pattern (31 bp):
GGTCACACACGCCCGTGTGGGTAGGCCATGT
Found at i:43706850 original size:40 final size:40
Alignment explanation
Indices: 43706795--43707019 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 40
43706785 TATTCGGATG
*
43706795 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
43706835 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
43706875 ATATCTGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCA-TT-TGTG-CTAG-TGACT
* *
43706918 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
43706958 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
43706998 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
43707020 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 17 0.10
40 104 0.63
41 8 0.05
42 6 0.04
43 26 0.16
44 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:43706946 original size:83 final size:81
Alignment explanation
Indices: 43706795--43707019 Score: 298
Period size: 83 Copynumber: 2.8 Consensus size: 81
43706785 TATTCGGATG
* *
43706795 ATATCCGGGCTAAGTCCCGAAGGCATT-TGTGCTAG-TGACCATATCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTGTGTGATAGTTGA-TATATCCGGGCTAAGTCCCGAAGG
*
43706858 CATTTGTGCTAGTGACT
65 CATTTGTGCCAGTGACT
* * *
43706875 ATATCTGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGATATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTGTGTGA-TAGTTGATATATCCGGGCTAAGTCCCGAAG
43706940 GCATTTGTGCCAGTGACT
64 GCATTTGTGCCAGTGACT
* * *
43706958 ATATCCGGGCTAAGACCCGAAGGCA-TGTGTGCA-AGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTGTGTG-ATAGTTGATATATCCGGGCTAAGTCCCGAAGG
43707020 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.12
80 34 0.27
81 8 0.06
82 5 0.04
83 63 0.49
84 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTGTGTGATAGTTGATATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCCAGTGACT
Found at i:43710456 original size:13 final size:13
Alignment explanation
Indices: 43710438--43710462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43710428 TGGTCATCAT
43710438 GGTGTGAACACAA
1 GGTGTGAACACAA
43710451 GGTGTGAACACA
1 GGTGTGAACACA
43710463 TGATCAATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:43713329 original size:30 final size:30
Alignment explanation
Indices: 43713273--43713357 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
43713263 TTCTTTTGTT
* *
43713273 TCAATTTCTTTTTCATCTTGTTTTTCACTC
1 TCAATTTCTTTTTCATCTTCTTTTTCAATC
**
43713303 TCAAATTTCTTTTTGTTC-TCTTTTTCAATC
1 TC-AATTTCTTTTTCATCTTCTTTTTCAATC
*
43713333 TCATTTTCTTTTTCAT-TTCCTTTTT
1 TCAATTTCTTTTTCATCTT-CTTTTT
43713358 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 12 0.27
30 20 0.44
31 13 0.29
ACGTcount: A:0.13, C:0.21, G:0.02, T:0.64
Consensus pattern (30 bp):
TCAATTTCTTTTTCATCTTCTTTTTCAATC
Found at i:43715512 original size:13 final size:13
Alignment explanation
Indices: 43715494--43715518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43715484 TGGTCATCAT
43715494 GGTGTGAACACAA
1 GGTGTGAACACAA
43715507 GGTGTGAACACA
1 GGTGTGAACACA
43715519 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:43719503 original size:4 final size:4
Alignment explanation
Indices: 43719496--43719526 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
43719486 AACATATATA
*
43719496 TATG TATG TATG TATG TTTG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
43719527 AAATTTCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (4 bp):
TATG
Found at i:43725363 original size:55 final size:55
Alignment explanation
Indices: 43725302--43725478 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
43725292 ATATTAAGTC
* * *
43725302 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
43725357 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
43725412 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
43725468 CGCACACTTAG
1 CGCACACTTAG
43725479 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:43725366 original size:28 final size:27
Alignment explanation
Indices: 43725302--43725453 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
43725292 ATATTAAGTC
* *
43725302 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
43725329 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
43725357 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
43725384 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
43725412 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
43725439 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43725454 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43733651 original size:40 final size:40
Alignment explanation
Indices: 43733594--43733727 Score: 166
Period size: 40 Copynumber: 3.4 Consensus size: 40
43733584 AATTATTGAA
* *
43733594 TGATTGCACTTACGTGCCCCTATTTGTACTCCGGTACCCC
1 TGATTGCACTTATGTGCCCCTATTTGTACTTCGGTACCCC
* * * *
43733634 TAATTGCACTTATGTGCCCCTGTTTGTACTTCGATACCCA
1 TGATTGCACTTATGTGCCCCTATTTGTACTTCGGTACCCC
*
43733674 TGATTGCACTT-TCGTGCCCCTGA-TTGTACTTCAGTA-CCC
1 TGATTGCACTTAT-GTGCCCCT-ATTTGTACTTCGGTACCCC
43733713 TGATTGCACTTATGT
1 TGATTGCACTTATGT
43733728 ACTCTGATAA
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 16 0.20
40 64 0.80
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (40 bp):
TGATTGCACTTATGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:43733653 original size:20 final size:20
Alignment explanation
Indices: 43733596--43733704 Score: 60
Period size: 20 Copynumber: 5.5 Consensus size: 20
43733586 TTATTGAATG
43733596 ATTGCACTTACGTGCCCCTA
1 ATTGCACTTACGTGCCCCTA
* * * *
43733616 TTTGTAC-TCCGGTACCCCTA
1 ATTGCACTTAC-GTGCCCCTA
* *
43733636 ATTGCACTTATGTGCCCCTG
1 ATTGCACTTACGTGCCCCTA
* * * * *
43733656 TTTGTACTT-CGATACCCATG
1 ATTGCACTTACG-TGCCCCTA
* *
43733676 ATTGCACTTTCGTGCCCCTG
1 ATTGCACTTACGTGCCCCTA
*
43733696 ATTGTACTT
1 ATTGCACTT
43733705 CAGTACCCTG
Statistics
Matches: 65, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
19 3 0.05
20 59 0.91
21 3 0.05
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.37
Consensus pattern (20 bp):
ATTGCACTTACGTGCCCCTA
Found at i:43733715 original size:19 final size:18
Alignment explanation
Indices: 43733651--43733723 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
43733641 ACTTATGTGC
* *
43733651 CCCTGTTTGTACTTCGATA
1 CCCTGATTGCACTTCG-TA
*
43733670 CCCATGATTGCACTTTCGTGC
1 CCC-TGATTGCAC-TTCGT-A
*
43733691 CCCTGATTGTACTTCAGTA
1 CCCTGATTGCACTTC-GTA
43733710 CCCTGATTGCACTT
1 CCCTGATTGCACTT
43733724 ATGTACTCTG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 19 0.43
20 18 0.41
21 7 0.16
ACGTcount: A:0.16, C:0.30, G:0.16, T:0.37
Consensus pattern (18 bp):
CCCTGATTGCACTTCGTA
Found at i:43733729 original size:19 final size:19
Alignment explanation
Indices: 43733631--43733735 Score: 63
Period size: 20 Copynumber: 5.4 Consensus size: 19
43733621 ACTCCGGTAC
* *
43733631 CCCTAATTGCACTTATGTGC
1 CCCTGATTGCACTTATGT-A
* * *
43733651 CCCTGTTTGTACTT-CGATA
1 CCCTGATTGCACTTATG-TA
*
43733670 CCCATGATTGCACTT-TCGTGC
1 CCC-TGATTGCACTTAT-GT-A
*
43733691 CCCTGATTGTACTTCA-GTA
1 CCCTGATTGCACTT-ATGTA
43733710 CCCTGATTGCACTTATGTA
1 CCCTGATTGCACTTATGTA
*
43733729 CTCTGAT
1 CCCTGAT
43733736 AACTCTGAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
18 1 0.02
19 26 0.40
20 34 0.52
21 4 0.06
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.37
Consensus pattern (19 bp):
CCCTGATTGCACTTATGTA
Found at i:43761548 original size:50 final size:50
Alignment explanation
Indices: 43761480--43761609 Score: 190
Period size: 50 Copynumber: 2.6 Consensus size: 50
43761470 GTTGTGAGAA
* *
43761480 CACATGTGTAGTATTAAGTGCAGGCTACTACGTGTA-TCCGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATGGTTAGGT
* *
43761530 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGGTTAGGT
* *
43761580 CGCATGTGTAGTACTAAGTGCAGGCCACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
43761610 TGCGTACCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 71 0.99
51 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGGTTAGGT
Found at i:43766793 original size:28 final size:27
Alignment explanation
Indices: 43766729--43766880 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
43766719 ATATTAAGTC
* *
43766729 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
43766756 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
43766784 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
43766811 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
43766839 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
43766866 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43766881 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43766813 original size:55 final size:55
Alignment explanation
Indices: 43766729--43766905 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
43766719 ATATTAAGTC
* * *
43766729 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
43766784 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
43766839 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
43766895 CGCACACTTAG
1 CGCACACTTAG
43766906 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:43774947 original size:55 final size:55
Alignment explanation
Indices: 43774886--43775062 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
43774876 ATATTAAGTC
* * *
43774886 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
43774941 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
43774996 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
43775052 CGCACACTTAG
1 CGCACACTTAG
43775063 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:43774950 original size:28 final size:27
Alignment explanation
Indices: 43774886--43775037 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
43774876 ATATTAAGTC
* *
43774886 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
43774913 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
43774941 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
43774968 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
43774996 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
43775023 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43775038 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43776834 original size:46 final size:45
Alignment explanation
Indices: 43776738--43776954 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 45
43776728 TATCTCAAGT
* *
43776738 CGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCG-AGGC
* *
43776786 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGC
* * * * *
43776832 CGATGCATGTCCCAGACATGTTTTACACTAGCCCTT-GTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACT-G-GCTTCATCTCGAGGC
* * * *
43776878 CGATGCCCTGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGC
* *
43776926 CGAAGCATGTCCCAAACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
43776955 AACTCACACA
Statistics
Matches: 139, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
46 72 0.52
47 41 0.29
48 23 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGC
Found at i:43776938 original size:94 final size:92
Alignment explanation
Indices: 43776784--43776955 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 92
43776774 TCATCTCGTA
* ** * *
43776784 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGCCGATGCATGTCCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCGAAGCATGTCCCAAAC
*
43776849 ATGTTTTACACTAGCCCTTGTCTCAAT
66 ATGTCTTACACTAGCCCTTGTCTCAAT
* * *
43776876 GCCGATGCCCTGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGTCGAAGCATGTCCCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATAATGAGGCCGAAGCATGTCCCA
43776940 AACATGTCTTACACTA
63 AACATGTCTTACACTA
43776956 ACTCACACAC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 7 0.10
93 13 0.19
94 47 0.69
95 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCGAAGCATGTCCCAAAC
ATGTCTTACACTAGCCCTTGTCTCAAT
Found at i:43780546 original size:7 final size:7
Alignment explanation
Indices: 43780534--43780582 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
43780524 TTTAAATATC
43780534 CCTAAAT
1 CCTAAAT
43780541 CCTAAAT
1 CCTAAAT
*
43780548 CCTAAAC
1 CCTAAAT
*
43780555 CCTAAAA
1 CCTAAAT
43780562 CCTTAAAT
1 CC-TAAAT
**
43780570 TTTAAAT
1 CCTAAAT
43780577 CCTAAA
1 CCTAAA
43780583 ATTTTAAACC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
7 30 0.88
8 4 0.12
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.29
Consensus pattern (7 bp):
CCTAAAT
Found at i:43780575 original size:15 final size:15
Alignment explanation
Indices: 43780557--43780598 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
43780547 TCCTAAACCC
*
43780557 TAAAACCTTAAATTT
1 TAAAACCTAAAATTT
*
43780572 TAAATCCTAAAATTT
1 TAAAACCTAAAATTT
*
43780587 TAAACCCTAAAA
1 TAAAACCTAAAA
43780599 CCCTAAACGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAACCTAAAATTT
Found at i:43782500 original size:30 final size:31
Alignment explanation
Indices: 43782460--43782525 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 31
43782450 TTTAAACATT
* *
43782460 AAAATTTAAAAAGTAAGA-CTAAATTTA-AAA
1 AAAATGTAAAAAATAA-ATCTAAATTTATAAA
43782490 AAAATGTAAAAAATAAATTCTAAATTTATAAA
1 AAAATGTAAAAAATAAA-TCTAAATTTATAAA
43782522 AAAA
1 AAAA
43782526 ATATAAAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 1 0.03
30 14 0.45
31 9 0.29
32 7 0.23
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (31 bp):
AAAATGTAAAAAATAAATCTAAATTTATAAA
Found at i:43785839 original size:38 final size:38
Alignment explanation
Indices: 43785779--43785857 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
43785769 ATTTGATTTG
* * * * *
43785779 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGATATTA
43785817 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGATATTA
1 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGATATTA
43785855 TAT
1 TAT
43785858 TTGGGCCTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (38 bp):
TATCCGGGATAAATCCCGCAGGCCTAGTGCTGATATTA
Found at i:43785932 original size:43 final size:43
Alignment explanation
Indices: 43785855--43785936 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
43785845 GCTGATATTA
* * **
43785855 TATTTGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGATGTG
*
43785898 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGA
43785937 AATGATATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGATGTG
Found at i:43786366 original size:43 final size:44
Alignment explanation
Indices: 43786266--43786387 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 44
43786256 TCGAGCCTTT
* * * *
43786266 GAGCTTAGCAGACTATAATGCCAGTGAGAT-ACTATTCGGGCTTTC
1 GAGCCTAGCAGGCTATAATGCCAGTGAAATGA-TA-TCGGGCTCTC
43786311 GAGCCTAGCAGGCTATAATGCCAGTGAAATGATATCGGGC-CTC
1 GAGCCTAGCAGGCTATAATGCCAGTGAAATGATATCGGGCTCTC
* *
43786354 GAGCCTAGCAGGC-GTAATGCCGGTGAAATGATAT
1 GAGCCTAGCAGGCTATAATGCCAGTGAAATGATAT
43786388 GTTACGTGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
42 19 0.27
43 15 0.21
44 6 0.09
45 29 0.41
46 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (44 bp):
GAGCCTAGCAGGCTATAATGCCAGTGAAATGATATCGGGCTCTC
Found at i:43788561 original size:40 final size:40
Alignment explanation
Indices: 43788502--43788713 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
43788492 CATTTGAATG
*
43788502 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
43788542 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
43788582 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
43788622 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
43788662 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
43788702 ATATCC-GGCTAA
1 ATATCCGGGCTAA
43788714 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 7 0.05
40 141 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:43796582 original size:40 final size:41
Alignment explanation
Indices: 43796523--43796715 Score: 259
Period size: 40 Copynumber: 4.8 Consensus size: 41
43796513 CATTTGAATG
*
43796523 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
43796563 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
43796603 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
43796643 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
43796683 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT
43796716 TGTGGTTATA
Statistics
Matches: 139, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
40 136 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Found at i:43799826 original size:23 final size:23
Alignment explanation
Indices: 43799800--43799843 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
43799790 TTTCTATCTC
*
43799800 TATAACAATTAAATATATTATAA
1 TATAAAAATTAAATATATTATAA
43799823 TATAAAAATTAAATATATTAT
1 TATAAAAATTAAATATATTAT
43799844 TAACATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TATAAAAATTAAATATATTATAA
Found at i:43801083 original size:19 final size:20
Alignment explanation
Indices: 43801051--43801096 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
43801041 TGGAAGATAA
43801051 TTTCTGGAAAATGATATACT
1 TTTCTGGAAAATGATATACT
*
43801071 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATATACT
43801090 TTTCTGG
1 TTTCTGG
43801097 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGATATACT
Found at i:43802552 original size:32 final size:32
Alignment explanation
Indices: 43802506--43802591 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
43802496 TGTCAATCAT
* * *
43802506 TTCAATATCCAACAAGCTTAAAACATGATAAA
1 TTCAATATCTAACAAACTTAAAACATAATAAA
* * *
43802538 TTCAATATCTAACAAATTTAAGACATAATAAT
1 TTCAATATCTAACAAACTTAAAACATAATAAA
*
43802570 TTCAAAATCTAACAAAC-TAAAA
1 TTCAATATCTAACAAACTTAAAA
43802592 TTTCAATATC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 4 0.09
32 41 0.91
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCTAACAAACTTAAAACATAATAAA
Found at i:43805716 original size:17 final size:17
Alignment explanation
Indices: 43805696--43805743 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
43805686 AGCAATTGAA
*
43805696 AGATGCAAAATCCAAAT
1 AGATGCAAAATCCAAAC
43805713 AGAT--AAAA--CAAAC
1 AGATGCAAAATCCAAAC
43805726 AGATGCAAAATCCAAAC
1 AGATGCAAAATCCAAAC
43805743 A
1 A
43805744 AATTCTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
13 8 0.31
15 8 0.31
17 10 0.38
ACGTcount: A:0.58, C:0.19, G:0.10, T:0.12
Consensus pattern (17 bp):
AGATGCAAAATCCAAAC
Found at i:43806844 original size:29 final size:29
Alignment explanation
Indices: 43806802--43806859 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
43806792 CTTAACAAAC
43806802 AAATGCCTCTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
* *
43806831 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
43806860 CAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (29 bp):
AAATGCCTCTAAAATAATAACAAAATTAA
Found at i:43806918 original size:22 final size:22
Alignment explanation
Indices: 43806891--43806961 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
43806881 ATATCCAAAA
*
43806891 TAAAATAATAGCAACATAATAG
1 TAAAATAATAGCAAAATAATAG
** *
43806913 TAAAATGTTAGCAAAATAGTGAG
1 TAAAATAATAGCAAAATAAT-AG
*
43806936 -AAAATAATAAG-AAAATAATAT
1 TAAAATAAT-AGCAAAATAATAG
43806957 TAAAA
1 TAAAA
43806962 AAAATTGTCC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.03
22 33 0.87
23 4 0.11
ACGTcount: A:0.61, C:0.04, G:0.11, T:0.24
Consensus pattern (22 bp):
TAAAATAATAGCAAAATAATAG
Found at i:43807782 original size:70 final size:70
Alignment explanation
Indices: 43807680--43807819 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
43807670 ACCCATGAAC
*
43807680 ATTTTTATATTTGCATATATAGAATTAAATTAGTGTTATATTTAATGTTAGAGACTCTCTCTTTC
1 ATTTTTATATTTGCATATATAGAATTAAATTAGTGTTATATTTAATGTAAGAGACTCTCTCTTTC
43807745 ATTTG
66 ATTTG
43807750 ATTTTTATATTTGCATATATAGAATTAAATTAGTGTTATATTTAATGTAAGAGACTCTCTCTTTC
1 ATTTTTATATTTGCATATATAGAATTAAATTAGTGTTATATTTAATGTAAGAGACTCTCTCTTTC
43807815 ATTTG
66 ATTTG
43807820 TAGGAAAAGG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (70 bp):
ATTTTTATATTTGCATATATAGAATTAAATTAGTGTTATATTTAATGTAAGAGACTCTCTCTTTC
ATTTG
Found at i:43811347 original size:46 final size:47
Alignment explanation
Indices: 43811151--43811417 Score: 210
Period size: 46 Copynumber: 5.7 Consensus size: 47
43811141 GGTAAGGTGC
* *
43811151 CGATGCCATTTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAGT
* * * * *
43811198 CGATGCAATGTCCCAGACATGGTATTACACT-GACTATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATCTC-AAGT
* * * * *
43811246 CGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACGTCTCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTCAAGT
* * *
43811291 CTAATG-CATGTCCCAGACAT-ATCTTACA-TAGCTCTCGTCTCAATGT
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAA-GT
* * * *** *
43811337 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTCAAGT
*
43811385 CGATG-CATGTCCCGGACAT-GTCTTACACTAGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCT
43811418 AACAATAACC
Statistics
Matches: 178, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
45 18 0.10
46 69 0.39
47 69 0.39
48 21 0.12
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAGT
Found at i:43819356 original size:28 final size:29
Alignment explanation
Indices: 43819298--43819383 Score: 104
Period size: 28 Copynumber: 3.0 Consensus size: 29
43819288 GTGAGCATGA
* * *
43819298 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
43819326 ATATAAATGTGATTTGGGCCTAATTGG-C
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
43819354 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
43819383 A
1 A
43819384 GATGAATATG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
28 36 0.73
29 13 0.27
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:43833517 original size:34 final size:34
Alignment explanation
Indices: 43833454--43833544 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 34
43833444 AGTTAGGAGT
* *
43833454 CTTAGCCCCTTTCCAGA-AACAGTAGCAGTCTGGGC
1 CTTAGCCCATTT-CA-ATAACAGTAGCAGTCTAGGC
*
43833489 TTTAGCCCATTTCAATAACAGT-GACAGTCTAGGC
1 CTTAGCCCATTTCAATAACAGTAG-CAGTCTAGGC
* *
43833523 CTTAGCCTATTTCAGT-ACAGTA
1 CTTAGCCCATTTCAATAACAGTA
43833545 TGCAAGCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
33 7 0.15
34 30 0.64
35 10 0.21
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (34 bp):
CTTAGCCCATTTCAATAACAGTAGCAGTCTAGGC
Found at i:43833649 original size:38 final size:38
Alignment explanation
Indices: 43833598--43833685 Score: 176
Period size: 38 Copynumber: 2.3 Consensus size: 38
43833588 TCCGTACCAG
43833598 CCCTACGCACCATGTGGGGATTAAATCGACCCACCAAA
1 CCCTACGCACCATGTGGGGATTAAATCGACCCACCAAA
43833636 CCCTACGCACCATGTGGGGATTAAATCGACCCACCAAA
1 CCCTACGCACCATGTGGGGATTAAATCGACCCACCAAA
43833674 CCCTACGCACCA
1 CCCTACGCACCA
43833686 AATCGTACCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.31, C:0.38, G:0.17, T:0.15
Consensus pattern (38 bp):
CCCTACGCACCATGTGGGGATTAAATCGACCCACCAAA
Found at i:43834153 original size:20 final size:19
Alignment explanation
Indices: 43834111--43834156 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
43834101 GGGGCATATG
* *
43834111 GGCCC-ATTGGGCCCACTT
1 GGCCCAATTCGGCCCACAT
43834129 GGCCCAATTCGGCCCACAAT
1 GGCCCAATTCGGCCCAC-AT
43834149 GGCCCAAT
1 GGCCCAAT
43834157 ACCACTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 10 0.42
20 9 0.38
ACGTcount: A:0.20, C:0.39, G:0.24, T:0.17
Consensus pattern (19 bp):
GGCCCAATTCGGCCCACAT
Found at i:43849820 original size:27 final size:27
Alignment explanation
Indices: 43849790--43849851 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
43849780 CAAAATAGGT
43849790 AAAATGACCGTTAAGCCCCCAAAGGGA
1 AAAATGACCGTTAAGCCCCCAAAGGGA
*
43849817 AAAATGACCGTTAAGCCCCCAAAGGGC
1 AAAATGACCGTTAAGCCCCCAAAGGGA
43849844 AAAATGAC
1 AAAATGAC
43849852 TAAAATGCCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.11
Consensus pattern (27 bp):
AAAATGACCGTTAAGCCCCCAAAGGGA
Found at i:43874284 original size:30 final size:30
Alignment explanation
Indices: 43874228--43874284 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43874218 TCACAATTTG
* *
43874228 ACAAAATTACAATTTTGCCCTGAAACTTTC
1 ACAAAATTACAAATTAGCCCTGAAACTTTC
43874258 ACAAAATTACAAATTAGTCCCT-AAACT
1 ACAAAATTACAAATTAG-CCCTGAAACT
43874285 CGTATAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (30 bp):
ACAAAATTACAAATTAGCCCTGAAACTTTC
Found at i:43882140 original size:45 final size:45
Alignment explanation
Indices: 43882081--43882171 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
43882071 ACAAAACATG
* *
43882081 TGTCAGATACATCATGAACTCAGACCTCAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
*
43882126 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
43882171 T
1 T
43882172 CACATAGTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:43882169 original size:21 final size:21
Alignment explanation
Indices: 43882100--43882175 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
43882090 CATCATGAAC
*
43882100 TCAGACCTCAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * **
43882121 TCAGATGTCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
43882145 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
43882166 TCAGATCACA
1 TCAGACCACA
43882176 TAGTACCTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.47
22 4 0.10
23 3 0.08
24 10 0.25
25 2 0.05
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:43890578 original size:6 final size:6
Alignment explanation
Indices: 43890560--43890651 Score: 55
Period size: 6 Copynumber: 14.8 Consensus size: 6
43890550 AAGAAACATT
* * * *
43890560 ATCAGA A-CTAGA ATCAGA ATCAGA ATCATA ATTACGTG A-CAGA ATAAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
43890609 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAAA ATCAGA ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATC-AGA ATCAGA ATCAG
43890652 TATTAGGTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
5 4 0.06
6 49 0.75
7 10 0.15
8 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:43890610 original size:31 final size:32
Alignment explanation
Indices: 43890577--43890680 Score: 149
Period size: 32 Copynumber: 3.3 Consensus size: 32
43890567 CTAGAATCAG
* * *
43890577 AATCAGAATCA-TAATTACGTGACAGAAT-AAG
1 AATCAGAATCAGT-ATTAGGTAACAGAATCAAA
*
43890608 AATCAGAATCAGTATCAGGTAACAGAATCAAA
1 AATCAGAATCAGTATTAGGTAACAGAATCAAA
43890640 AATCAGAATCAGTATTAGGTAACAGAATCAAA
1 AATCAGAATCAGTATTAGGTAACAGAATCAAA
43890672 AATCAGAAT
1 AATCAGAAT
43890681 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
31 23 0.35
32 43 0.65
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.21
Consensus pattern (32 bp):
AATCAGAATCAGTATTAGGTAACAGAATCAAA
Found at i:43890859 original size:27 final size:26
Alignment explanation
Indices: 43890817--43890918 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
43890807 GCTCAGTTAT
* *
43890817 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
43890844 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
43890870 CAGATATTTGTGGCATAGCCACTAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
43890898 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
43890919 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:43891112 original size:22 final size:22
Alignment explanation
Indices: 43891079--43891140 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
43891069 AATACGTTTC
43891079 ACACACAA-CCATAATCAGGTTG
1 ACACA-AAGCCATAATCAGGTTG
* *
43891101 GCACAGAGCCATATAT-AGGTTG
1 ACACAAAGCCATA-ATCAGGTTG
43891123 ACACAAAGCCATAATCAG
1 ACACAAAGCCATAATCAG
43891141 AAGGCTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (22 bp):
ACACAAAGCCATAATCAGGTTG
Found at i:43891625 original size:27 final size:27
Alignment explanation
Indices: 43891611--43891987 Score: 427
Period size: 27 Copynumber: 14.3 Consensus size: 27
43891601 CACCTTATAA
* *
43891611 GGGTATTTTAGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * *
43891638 GGGTATCTCGGTAATTCTACCCCATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * *
43891665 GGGTATTGC-GATAATTCTACCTTATAA
1 GGGTATTTCAG-TAATTCTACCCTACAG
43891692 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
43891719 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
43891746 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
43891773 GGGTATTTCGGTAATTCTACCCTACTG
1 GGGTATTTCAGTAATTCTACCCTACAG
**
43891800 GGGTATTTTGGTAATTCTACCCTACA-
1 GGGTATTTCAGTAATTCTACCCTACAG
43891826 GGGTATTTC-GATAATTCTACCCTACAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
* *
43891853 GGGTATTCCGGTAATTCTACCCTACA-
1 GGGTATTTCAGTAATTCTACCCTACAG
*
43891879 AGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
43891906 GGGTATTTTAGTAATTCTACCC--CA-
1 GGGTATTTCAGTAATTCTACCCTACAG
*
43891930 ---T-TTT-AGTAATTTTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
** * *
43891952 GGGTATTTTGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
43891979 GGGTATTTC
1 GGGTATTTC
43891988 GATAATTTTG
Statistics
Matches: 300, Mismatches: 36, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
19 12 0.04
20 3 0.01
21 3 0.01
25 4 0.01
26 50 0.17
27 226 0.75
28 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:43891687 original size:81 final size:80
Alignment explanation
Indices: 43891567--43891994 Score: 446
Period size: 81 Copynumber: 5.4 Consensus size: 80
43891557 GGGGCAAAAT
* * * * * * *
43891567 GGTAATTTTACCCCACA-AGGTATCTCGATAATTCCACCTTATAAGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTAT-TCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
*
43891631 CCTACAAGGGTATCTC
65 CCTACAAGGGTATTTC
* * * *
43891647 GGTAATTCTACCCCATAGGGGTATTGCGATAATTCTACCTTATAAGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATT-CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
*
43891712 CCTACAGGGGTATTTC
65 CCTACAAGGGTATTTC
** * *
43891728 GGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTCGA-TAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
** *
43891793 CCTACTGGGGTATTTT
65 CCTACAAGGGTATTTC
* * *
43891809 GGTAATTCTACCCTACA-GGGTATTTCGATAATTCTACCCTACAGGGGTATTCCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTA-TTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
43891873 CCTACAA-GGTATTTC
65 CCTACAAGGGTATTTC
* ** *
43891888 AGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCC--C-A---T-TTT-AGTAATTTTAC
1 GGTAATTCTACCCTACAGGGGTATTCGA-TAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
* *
43891945 CCTACAGGGGTATTTT
65 CCTACAAGGGTATTTC
* *
43891961 GGTATTTCTACCCTACAAGGGTATTTCGATAATT
1 GGTAATTCTACCCTACAGGGGTA-TTCGATAATT
43891995 TTGTAAATCG
Statistics
Matches: 303, Mismatches: 37, Indels: 23
0.83 0.10 0.06
Matches are distributed among these distances:
72 15 0.05
73 34 0.11
74 4 0.01
78 1 0.00
79 26 0.09
80 78 0.26
81 145 0.48
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (80 bp):
GGTAATTCTACCCTACAGGGGTATTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
CTACAAGGGTATTTC
Found at i:43891934 original size:19 final size:19
Alignment explanation
Indices: 43891910--43891946 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43891900 CTACAGGGGT
43891910 ATTTTAGTAATTCTACCCC
1 ATTTTAGTAATTCTACCCC
*
43891929 ATTTTAGTAATTTTACCC
1 ATTTTAGTAATTCTACCC
43891947 TACAGGGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (19 bp):
ATTTTAGTAATTCTACCCC
Found at i:43891955 original size:46 final size:46
Alignment explanation
Indices: 43891883--43891973 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
43891873 CCTACAAGGT
43891883 ATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCC
1 ATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCC
* * * *
43891929 ATTTTAGTAATTTTACCCTACAGGGGTATTTTGGTATTTCTACCC
1 ATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCC
43891974 TACAAGGGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (46 bp):
ATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCC
Found at i:43892046 original size:27 final size:25
Alignment explanation
Indices: 43891976--43892379 Score: 83
Period size: 27 Copynumber: 15.0 Consensus size: 25
43891966 TTCTACCCTA
*
43891976 CAAGGGTATTTCGATAATTTTGTAAAT
1 CAAGGGTATTT-GGTAA-TTTGTAAAT
* ** *
43892003 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGT-ATTTGGTAATT-TGTAAAT
43892030 CAAGGGTACTTTGGTAATTT-TACAAGT
1 CAAGGGTA-TTTGGTAATTTGTA-AA-T
*** *
43892057 CAAGGGTATTTCAAAAATTT-TACAGGT
1 CAAGGGTATTT-GGTAATTTGTA-A-AT
* * **
43892084 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTT-GGTAATTT-GTAAAT
*
43892111 CAAGGGTATTTTGGTAATTT-TACAAA
1 CAAGGGTA-TTTGGTAATTTGTA-AAT
* *
43892137 CTAAGGGTATTTTGATAATTT-TACAAAC
1 C-AAGGGTA-TTTGGTAATTTGT--AAAT
* *
43892165 CAGGGGTATTTTAGTAATTT-TAGAAAGT
1 CAAGGGTA-TTTGGTAATTTGT--AAA-T
* * *
43892193 -AATGGTATTTTGATAATTT-TACAAAC
1 CAAGGGTA-TTTGGTAATTTGT--AAAT
* * *
43892219 CAGGGGTATTTTGGTTATTT-TATAAA
1 CAAGGGTA-TTTGGTAATTTGTA-AAT
* *
43892245 CAAAGGGTATTTTAGTAATTT-TACAAAC
1 C-AAGGGTA-TTTGGTAATTTGT--AAAT
* *
43892273 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTA-TTTGGTAA-TTTGTAAAT
*
43892300 CAAGGGTATTTTGGTAATTT-TACAAAC
1 CAAGGGTA-TTTGGTAATTTGT--AAAT
*
43892327 CAAGGGTATTTTAGTAATTT-TACAAT
1 CAAGGGTA-TTTGGTAATTTGTA-AAT
*
43892353 CTAGGGGTATTTTGGTAATTTCGTAAA
1 C-AAGGGTA-TTTGGTAATTT-GTAAA
43892380 CTAAAGTATT
Statistics
Matches: 298, Mismatches: 51, Indels: 55
0.74 0.13 0.14
Matches are distributed among these distances:
25 6 0.02
26 21 0.07
27 248 0.83
28 17 0.06
29 6 0.02
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (25 bp):
CAAGGGTATTTGGTAATTTGTAAAT
Found at i:43892068 original size:81 final size:80
Alignment explanation
Indices: 43891975--43892373 Score: 243
Period size: 81 Copynumber: 4.9 Consensus size: 80
43891965 TTTCTACCCT
** **
43891975 ACAAGGGTATTTCGATAATTTTGTAAATCGAGGGTAAAAT-AGTAA-TTCTGTAAATCAAGGGTA
1 ACAAGGGTATTTCGATAATTTTACAAATCGAGGGT-AAATCAGTAATTTC-ACAAATCAAGGGTA
43892038 CTTTGGTAATTTTACAA
64 CTTTGGTAATTTTACAA
* * * ** ** *
43892055 GTCAAGGGTATTTCAAAAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAAGGGTAT
1 -ACAAGGGTATTTCGATAATTTTACAAATCGAGGGTAAATCAGTAATTTCACAAATCAAGGGTAC
43892120 TTTGGTAATTTTACAA
65 TTTGGTAATTTTACAA
* * ** * * * *
43892136 ACTAAGGGTATTTTGATAATTTTACAAA-CCAGGGGTATTTTAGTAATTTTAGAAAGT-AATGGT
1 AC-AAGGGTATTTCGATAATTTTACAAATCGA-GGGTAAATCAGTAATTTCACAAA-TCAAGGGT
* *
43892199 ATTTTGATAATTTTACAA
63 ACTTTGGTAATTTTACAA
* * * * * * ** * * * *
43892217 ACCAGGGGTATTTTGGTTATTTTATAAA-CAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTA
1 A-CAAGGGTATTTCGATAATTTTACAAATC-GAGGGTAAATCAGTAATTTCACAAATCAAGGGTA
* **
43892281 TTTTGGTAATTTTGTAA
64 CTTTGGTAATTTTACAA
* * * * ** * * *
43892298 ACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAC-AATCTAGGGGTA
1 A-CAAGGGTATTTCGATAATTTTACAAATCGAGGGTAAATCAGTAATTTCACAAATC-AAGGGTA
*
43892362 TTTTGGTAATTT
64 CTTTGGTAATTT
43892374 CGTAAACTAA
Statistics
Matches: 268, Mismatches: 40, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
80 8 0.03
81 253 0.94
82 7 0.03
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (80 bp):
ACAAGGGTATTTCGATAATTTTACAAATCGAGGGTAAATCAGTAATTTCACAAATCAAGGGTACT
TTGGTAATTTTACAA
Found at i:43892361 original size:54 final size:54
Alignment explanation
Indices: 43892031--43892373 Score: 373
Period size: 54 Copynumber: 6.4 Consensus size: 54
43892021 TCTGTAAATC
* ** * ** **
43892031 AAGGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCAAAAATTTTAC-AGGT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACT
* ** * * *
43892084 CGAGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACT
1 -AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACT
* * * *
43892139 AAGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTAGTAATTTTAGAAAGT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACT
* * * * * * *
43892193 AATGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTTATTTTATAAACA
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACT
* * * ** *
43892247 AAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACT
*
43892301 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAATCT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACT
*
43892355 AGGGGTATTTTGGTAATTT
1 AAGGGTATTTTGGTAATTT
43892374 CGTAAACTAA
Statistics
Matches: 246, Mismatches: 42, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
54 244 0.99
55 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACT
Found at i:43892380 original size:81 final size:81
Alignment explanation
Indices: 43892031--43892373 Score: 400
Period size: 81 Copynumber: 4.2 Consensus size: 81
43892021 TCTGTAAATC
* ** **** *** * *
43892031 AAGGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCAAAAATTTTACAGGTCGAGGGTATTTC
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
*
43892096 AGTAATTTCACAAA-T
66 AGTAATTTTACAAACT
* * *
43892111 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGATAATTTTACAAACCAGGGGTATTT
1 -AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* *
43892176 TAGTAATTTTAGAAAGT
65 TAGTAATTTTACAAACT
* * * * * *
43892193 AATGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTTATTTTATAAACAAAGGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
*
43892258 AGTAATTTTACAAACC
66 AGTAATTTTACAAACT
* **
43892274 AGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
*
43892339 AGTAATTTTACAATCT
66 AGTAATTTTACAAACT
*
43892355 AGGGGTATTTTGGTAATTT
1 AAGGGTATTTTGGTAATTT
43892374 CGTAAACTAA
Statistics
Matches: 223, Mismatches: 38, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
81 222 1.00
82 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (81 bp):
AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTACAAACT
Found at i:43894974 original size:14 final size:13
Alignment explanation
Indices: 43894951--43894983 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
43894941 GGGATATCAA
43894951 AACAAGAATTAAG
1 AACAAGAATTAAG
43894964 AACACAGAATTAAG
1 AACA-AGAATTAAG
43894978 AACAAG
1 AACAAG
43894984 TTAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (13 bp):
AACAAGAATTAAG
Done.