Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 374 of 438
Found at i:116796177 original size:40 final size:40
Alignment explanation
Indices: 116796120--116796305 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
116796110 TCGAATGATG
* * * *
116796120 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
116796160 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
116796200 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
116796240 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
116796281 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
116796306 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:116796319 original size:40 final size:40
Alignment explanation
Indices: 116796173--116796324 Score: 116
Period size: 40 Copynumber: 3.8 Consensus size: 40
116796163 GGACTAAGAT
** *
116796173 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
116796213 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
116796253 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
116796293 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
116796325 TTAAACTCCG
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 3 0.03
40 93 0.92
41 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:116796323 original size:80 final size:81
Alignment explanation
Indices: 116796154--116796324 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 81
116796144 GTGCTAAGTG
*
116796154 ACTATATCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAA
1 ACTATATCCGGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAA
**
116796218 GGCATTTGTGCGAGTT
66 GGCATTTGAACGAGTT
* * *
116796234 ACTAAATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCC
1 ACTATATCCGGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CC
*
116796295 GAAGGTATTTGAACGAG-T
63 GAAGGCATTTGAACGAGTT
116796313 AGCTATATCCGG
1 A-CTATATCCGG
116796325 TTAAACTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
79 4 0.05
80 69 0.88
81 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (81 bp):
ACTATATCCGGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAA
GGCATTTGAACGAGTT
Found at i:116804354 original size:40 final size:39
Alignment explanation
Indices: 116804272--116804456 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 39
116804262 TCGAATGATG
* * * *
116804272 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
116804311 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
116804351 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
116804391 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCC-GGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
116804432 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
116804457 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
39 13 0.10
40 107 0.81
41 12 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:116804470 original size:40 final size:40
Alignment explanation
Indices: 116804324--116804475 Score: 116
Period size: 40 Copynumber: 3.8 Consensus size: 40
116804314 GGACTAAGAT
** *
116804324 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
116804364 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
116804404 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
116804444 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
116804476 TTAAACTCCG
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 3 0.03
40 93 0.92
41 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:116804474 original size:80 final size:81
Alignment explanation
Indices: 116804305--116804475 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 81
116804295 GTGCTAAGTG
*
116804305 ACTATATCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAA
1 ACTATATCCGGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAA
**
116804369 GGCATTTGTGCGAGTT
66 GGCATTTGAACGAGTT
* * *
116804385 ACTAAATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCC
1 ACTATATCCGGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CC
*
116804446 GAAGGTATTTGAACGAG-T
63 GAAGGCATTTGAACGAGTT
116804464 AGCTATATCCGG
1 A-CTATATCCGG
116804476 TTAAACTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
79 4 0.05
80 69 0.88
81 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (81 bp):
ACTATATCCGGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAA
GGCATTTGAACGAGTT
Found at i:116806531 original size:16 final size:15
Alignment explanation
Indices: 116806510--116806539 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
116806500 AAAATGTTTT
116806510 TTAATTTATAATTTAA
1 TTAATTT-TAATTTAA
116806526 TTAATTTTAATTTA
1 TTAATTTTAATTTA
116806540 TTCCCCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTTAA
Found at i:116810629 original size:32 final size:32
Alignment explanation
Indices: 116810585--116810648 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
116810575 TTTTCGGTGA
116810585 ACTGACTAACATTACACTTCTAAGATAAGTCT
1 ACTGACTAACATTACACTTCTAAGATAAGTCT
*
116810617 ACTGACTGACATTACACTTCTAAGATAAGTCT
1 ACTGACTAACATTACACTTCTAAGATAAGTCT
116810649 TTCTCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (32 bp):
ACTGACTAACATTACACTTCTAAGATAAGTCT
Found at i:116813028 original size:49 final size:49
Alignment explanation
Indices: 116812975--116813133 Score: 137
Period size: 49 Copynumber: 3.3 Consensus size: 49
116812965 GTGGAAGATT
*
116812975 TGTCTAGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACC
1 TGTCTAGGACATGGCATCGACACCGATAGATGAAAGCCAGTGTAAGACC
* * * * * * **
116813024 TGTCTGGGACACGACATCGGC-CTCGATATATAAAAGTTAGTGTAAGACC
1 TGTCTAGGACATGGCATCGACAC-CGATAGATGAAAGCCAGTGTAAGACC
* * * **
116813073 TGTTTGGGACATGGCATCGA-ATTCGAT-G-TGCTAGCCAGTGTAAGACC
1 TGTCTAGGACATGGCATCGACA-CCGATAGATGAAAGCCAGTGTAAGACC
116813120 ATGTCTAGGACATG
1 -TGTCTAGGACATG
116813134 CGTCGGCATC
Statistics
Matches: 84, Mismatches: 22, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
47 14 0.17
48 12 0.14
49 58 0.69
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
TGTCTAGGACATGGCATCGACACCGATAGATGAAAGCCAGTGTAAGACC
Found at i:116815445 original size:75 final size:75
Alignment explanation
Indices: 116815312--116815451 Score: 226
Period size: 75 Copynumber: 1.9 Consensus size: 75
116815302 GAGTTACATC
*
116815312 CCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTATATTATTTTCAAAAAAATAT
1 CCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTATATTATTTCCAAAAAAATAT
116815377 AGGATTATTA
66 AGGATTATTA
* * * * *
116815387 CCTTTTTAATGGAGAAGACAAATGCAAAGTTAGAAAAATGAATTATATTCTTTCCAAAAGAATAT
1 CCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTATATTATTTCCAAAAAAATAT
116815452 TAATTTCTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (75 bp):
CCTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAATGAATTATATTATTTCCAAAAAAATAT
AGGATTATTA
Found at i:116815605 original size:138 final size:138
Alignment explanation
Indices: 116815427--116815714 Score: 386
Period size: 138 Copynumber: 2.1 Consensus size: 138
116815417 TAGAAAAATG
* *
116815427 AATTATATTCTTTCCAAAAGAATATTAATTTCTATATCTTTTATATTTTGAAAAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCTACATCTTTTATATGTTGAAAAAAATTAATTAA
* * * *
116815492 TATAACTGTTTATATTAATAAATTT-GGTAAAATTTATACAATTTATATTTTGTA-TGAATCAAA
66 TATAACTGTTTATATTAAT-AATTTCAGTAAAATATATACAATTAACATTTTGTACT-AATCAAA
*
116815555 TTCATATGTT
129 TTCATATATT
* * **
116815565 AATTATATTTTTTCTAAAAGAATATTAATTT-TAACATCTTTTATATGTTGACCAAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCT-ACATCTTTTATATGTTGAAAAAAATTAATTA
* * *
116815629 ATATAATTGTTTATATTTATAGTTTCAGTAAAATATATACAATTAACATTTTGTACTAATCAAAT
65 ATATAACTGTTTATATTAATAATTTCAGTAAAATATATACAATTAACATTTTGTACTAATCAAAT
116815694 TCATATATT
130 TCATATATT
*
116815703 AATTTTA-TCTTT
1 AATTATATTCTTT
116815715 GTTATTTATT
Statistics
Matches: 131, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
137 9 0.07
138 121 0.92
139 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCTACATCTTTTATATGTTGAAAAAAATTAATTAA
TATAACTGTTTATATTAATAATTTCAGTAAAATATATACAATTAACATTTTGTACTAATCAAATT
CATATATT
Found at i:116817031 original size:40 final size:39
Alignment explanation
Indices: 116816987--116817130 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 39
116816977 TGATGACAAA
* *
116816987 TCGGTTATATAAGGCACTTAGTGTGCGATACGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGAT-CGACATAGCT
* * *
116817027 TCGGTTATATATGGCAGTTAGTGTACGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGA-TCGACATAGCT
* *
116817067 TCGGCTATATATGGCACTTAGTGTGCGACTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGA-TCGACATAGCT
*
116817107 TCGGCTATGTATGGCACTTAGTGT
1 TCGGCTATATATGGCACTTAGTGT
116817131 ACGAGATATC
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 92 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (39 bp):
TCGGCTATATATGGCACTTAGTGTGCGATCGACATAGCT
Found at i:116817128 original size:80 final size:80
Alignment explanation
Indices: 116816987--116817134 Score: 217
Period size: 80 Copynumber: 1.9 Consensus size: 80
116816977 TGATGACAAA
* * *
116816987 TCGGTTATATAAGGCACTTAGTGTGCGATACGACATAGCTTCGGTTATATATGGCAGTTAGTGTA
1 TCGGCTATATAAGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATATGGCACTTAGTGTA
116817052 CGATTCGACATAGCT
66 CGATTCGACATAGCT
* * * *
116817067 TCGGCTATATATGGCACTTAGTGTGCGACT-TGAGATAGCTTCGGCTATGTATGGCACTTAGTGT
1 TCGGCTATATAAGGCACTTAGTGTGCGA-TACGACATAGCTTCGGCTATATATGGCACTTAGTGT
116817131 ACGA
65 ACGA
116817135 GATATCAAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 59 0.98
81 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (80 bp):
TCGGCTATATAAGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATATGGCACTTAGTGTA
CGATTCGACATAGCT
Found at i:116827580 original size:40 final size:40
Alignment explanation
Indices: 116827535--116827701 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
116827525 CGGAATATAA
116827535 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
116827575 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
116827615 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
116827655 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
116827694 CCGGATAT
1 CCGGATAT
116827702 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:116827685 original size:80 final size:79
Alignment explanation
Indices: 116827551--116827701 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
116827541 ATAATCACGT
*
116827551 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
116827616 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
116827631 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
116827694 CCGGATAT
64 CCGGATAT
116827702 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:116828969 original size:58 final size:56
Alignment explanation
Indices: 116828892--116829011 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 56
116828882 ATCCTCCCCC
*
116828892 TTTTCCCTTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTCTT
1 TTTTTCCTTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAAC-AATTTTTTTCTT
*** *
116828949 TTCTTTCCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTCTT
1 TT-TTTCCTTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACAATTTTTTTCTT
116829006 TTTTTC
1 TTTTTC
116829012 TTTTTCCATA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
56 4 0.07
57 15 0.27
58 32 0.58
59 4 0.07
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (56 bp):
TTTTTCCTTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACAATTTTTTTCTT
Found at i:116835284 original size:24 final size:24
Alignment explanation
Indices: 116835235--116835284 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
116835225 AGAAAATGAT
* * *
116835235 AAATAAAGATAAAAAGAAATGCAA
1 AAATAAAAATAAAAAGAAACGAAA
116835259 AAATAAAAATAAAATA-AAACGAAA
1 AAATAAAAATAAAA-AGAAACGAAA
116835283 AA
1 AA
116835285 CAAATTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.76, C:0.04, G:0.08, T:0.12
Consensus pattern (24 bp):
AAATAAAAATAAAAAGAAACGAAA
Found at i:116858264 original size:30 final size:30
Alignment explanation
Indices: 116858230--116858286 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
116858220 TTTTTGGGCA
* *
116858230 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
116858260 TAGGGGCAAAATGGTCATTTTACCAAA
1 TAGGGGCAAAATGGTCATTTTACCAAA
116858287 AATGTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:116861503 original size:46 final size:47
Alignment explanation
Indices: 116861348--116861561 Score: 157
Period size: 46 Copynumber: 4.6 Consensus size: 47
116861338 TGTGTGAGCT
* * *
116861348 AGTGTAAGACATGTCAGGGACATGCATCGACCACATT---ATGAG-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-A--GCATTGAGACGAGTAGCC
* *
116861394 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGT-GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATTGAGACGAGTAGCC
* *
116861442 AGTGTAACACATGTCTGGGACATGCATCAGC-TTCGGGAC-A-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATT-GAGACGAGT-AGCC
* *
116861488 AGTATAAGACATGTCTGGGACATGCATCAG--TT-ACGA-GATGT-GTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTGA-GACGA-GTAGCC
116861532 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
116861562 GGCACTTTAC
Statistics
Matches: 139, Mismatches: 14, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
44 14 0.10
45 23 0.17
46 56 0.40
47 27 0.19
48 19 0.14
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACGAGTAGCC
Found at i:116862178 original size:24 final size:24
Alignment explanation
Indices: 116862133--116862178 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
116862123 ATAAATGTCT
* *
116862133 ATTATGGTTGATTTGATTTTGGAA
1 ATTATGCTTGATTTGATATTGGAA
* *
116862157 ATTATGCTTGTTTTGGTATTGG
1 ATTATGCTTGATTTGATATTGG
116862179 CTGGTATTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.26, T:0.52
Consensus pattern (24 bp):
ATTATGCTTGATTTGATATTGGAA
Found at i:116868064 original size:57 final size:57
Alignment explanation
Indices: 116867976--116868090 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
116867966 TTATTCCAAG
*
116867976 AAGCTTATTTGCCACTAATATATCTTTCCACAAGGTAGAAGGAAAAACATTTGACAT
1 AAGCTTATTTGCCACTAATATATCTTTCCACAAGGTAGAAGGAAAAACATTTAACAT
116868033 AAGCTTATTTGCCACTAATATATCTTTCCACAAGGTAGAAGGAAAAACATTTAACAT
1 AAGCTTATTTGCCACTAATATATCTTTCCACAAGGTAGAAGGAAAAACATTTAACAT
116868090 A
1 A
116868091 CTTTTGGGTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (57 bp):
AAGCTTATTTGCCACTAATATATCTTTCCACAAGGTAGAAGGAAAAACATTTAACAT
Found at i:116868169 original size:18 final size:18
Alignment explanation
Indices: 116868142--116868192 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
116868132 TTCGGTTAGA
*
116868142 ATATTATTATGGAATATT
1 ATATTGTTATGGAATATT
116868160 ATATTGTTATAGG-ATATT
1 ATATTGTTAT-GGAATATT
116868178 AT-TTGTTA-GGAATAT
1 ATATTGTTATGGAATAT
116868193 CTAAATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.07
16 4 0.13
17 6 0.20
18 16 0.53
19 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (18 bp):
ATATTGTTATGGAATATT
Found at i:116868229 original size:12 final size:12
Alignment explanation
Indices: 116868212--116868249 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
116868202 TTGTATATCT
*
116868212 TTTAGGCATATA
1 TTTAGGAATATA
116868224 TTTAGGAATATA
1 TTTAGGAATATA
*
116868236 TTTATGAATATA
1 TTTAGGAATATA
116868248 TT
1 TT
116868250 ATATATCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (12 bp):
TTTAGGAATATA
Found at i:116876251 original size:40 final size:39
Alignment explanation
Indices: 116876207--116876329 Score: 156
Period size: 40 Copynumber: 3.1 Consensus size: 39
116876197 AGTTTCGTAC
*
116876207 ATAGCTGAAGCTATCTCAAGTCGTACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTCAA-TCGTACACTAAGTGCCATAT
* *
116876247 ATAGCCGAAGCTATGTCGAATCGTACACTAACTGCCATAT
1 ATAGCCGAAGCTATCTC-AATCGTACACTAAGTGCCATAT
** * *
116876287 ATAGCCGAAGCTATGCTGTATCGCACACTAAGTGCCTTAT
1 ATAGCCGAAGCTAT-CTCAATCGTACACTAAGTGCCATAT
116876327 ATA
1 ATA
116876330 ACCAATTTGT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
40 69 0.96
41 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (39 bp):
ATAGCCGAAGCTATCTCAATCGTACACTAAGTGCCATAT
Found at i:116877866 original size:138 final size:138
Alignment explanation
Indices: 116877614--116877893 Score: 391
Period size: 138 Copynumber: 2.0 Consensus size: 138
116877604 ACATAGATAA
* * *
116877614 AATTAATATATGAATTTGATTAGTACAAAATGTTAATTGTATATATTTTACCGAAACTATAAATA
1 AATTAACATATGAATTTGATTAGTACAAAATATAAATTGTATATATTTTACCGAAACTATAAATA
* * * *
116877679 TAAAAAATTATATTAATTAATTTCGGTCAACATATAGAAGATGTGGAAATTAATATTCTTTTAGA
66 TAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTAGA
116877744 AAGAATAT
131 AAGAATAT
*** *
116877752 AATTAACATATGAATTTGATTCA-TACAAAATATAAATTGTATATATTTTACCGAGTTTATTAAT
1 AATTAACATATGAATTTGATT-AGTACAAAATATAAATTGTATATATTTTACCGAAACTATAAAT
* * * ** *
116877816 ATAAACAGTTATATTAATTACTTTTTGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTGG
65 ATAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTAG
116877881 AAAGAATAT
130 AAAGAATAT
116877890 AATT
1 AATT
116877894 CATTTTTCTA
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
138 123 0.99
139 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.40
Consensus pattern (138 bp):
AATTAACATATGAATTTGATTAGTACAAAATATAAATTGTATATATTTTACCGAAACTATAAATA
TAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTAGA
AAGAATAT
Found at i:116877930 original size:75 final size:75
Alignment explanation
Indices: 116877851--116878005 Score: 197
Period size: 77 Copynumber: 2.0 Consensus size: 75
116877841 TGTCAAAATA
116877851 TAAAAGATATAGAAAT-TA-ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATT
1 TAAAAGATA-A-AAATCTATATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATT
*
116877914 TGCCTTTTCTAT
64 TGCCTTCTCTAT
* * * * *
116877926 TAAAAAGGTAATAATCCTATATTTTTTTTTGGAAATAATATAATTCATTTTTCTAACTTTTCATT
1 T-AAAAGATAAAAAT-CTATATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATT
*
116877991 TGTCTTCTCTAT
64 TGCCTTCTCTAT
116878003 TAA
1 TAA
116878006 TAAGGGATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
74 3 0.04
75 2 0.03
76 11 0.16
77 53 0.77
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (75 bp):
TAAAAGATAAAAATCTATATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATTTG
CCTTCTCTAT
Found at i:116880414 original size:45 final size:46
Alignment explanation
Indices: 116880356--116880473 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 46
116880346 GAGGCCGATA
*
116880356 CATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAT-GCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAAT-ATGGCCAATG
** * * *
116880401 CATGTCCCAGACATGTCTTACTTTGGCTCTTATAATGTGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAATATGGCCAATG
116880447 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
116880474 ACACATATCA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 30 0.48
46 32 0.52
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATATGGCCAATG
Found at i:116886582 original size:14 final size:14
Alignment explanation
Indices: 116886560--116886595 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
116886550 GTTTTGTTTC
116886560 ATTACTTTTATATAT
1 ATTA-TTTTATATAT
*
116886575 ATTATTTTATTTAT
1 ATTATTTTATATAT
116886589 ATTATTT
1 ATTATTT
116886596 GTAACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTATATAT
Found at i:116886632 original size:23 final size:20
Alignment explanation
Indices: 116886615--116886662 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
116886605 TATATATCAA
116886615 TTTTATTATATGTTATATAT
1 TTTTATTATATGTTATATAT
*
116886635 TTTTATTATA--TTATTTA-
1 TTTTATTATATGTTATATAT
116886652 TTTTATTATAT
1 TTTTATTATAT
116886663 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
20 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTATATAT
Found at i:116886640 original size:20 final size:18
Alignment explanation
Indices: 116886566--116886670 Score: 79
Period size: 18 Copynumber: 5.5 Consensus size: 18
116886556 TTTCATTACT
* *
116886566 TTTATATATATTATTTTA
1 TTTATATATTTTATTATA
116886584 TTTATATTATTTGTAACATTATA
1 TTTATA-TATTT-T---ATTATA
*
116886607 TATATCA-ATTTTATTATA
1 TTTAT-ATATTTTATTATA
116886625 TGTTATATATTTTTATTATA
1 T-TTATATA-TTTTATTATA
*
116886645 -TTATTTATTTTATTATA
1 TTTATATATTTTATTATA
*
116886662 TTTTTATAT
1 TTTATATAT
116886671 GTAAAATATT
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
17 10 0.14
18 26 0.37
19 8 0.11
20 11 0.16
21 1 0.01
22 4 0.06
23 9 0.13
24 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTATATATTTTATTATA
Found at i:116886669 original size:25 final size:28
Alignment explanation
Indices: 116886617--116886729 Score: 69
Period size: 26 Copynumber: 4.1 Consensus size: 28
116886607 TATATCAATT
*
116886617 TTATTATATGTTATATATTTTTATTATA
1 TTATTATATGTTATATATATTTATTATA
*
116886645 TTATT-TATTTTAT-TATATTT-TTATA
1 TTATTATATGTTATATATATTTATTATA
** * *
116886670 TGTAAAATAT-TTGT-TACA-TTATTATTA
1 T-TATTATATGTTATATATATTTATTA-TA
116886697 TTATATATAT-TTCATATTATATATTATTATA
1 TTAT-TATATGTT-ATA-TATAT-TTATTATA
116886728 TT
1 TT
116886730 TATTTAAGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
25 8 0.12
26 19 0.29
27 19 0.29
28 6 0.09
30 3 0.05
31 4 0.06
32 6 0.09
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (28 bp):
TTATTATATGTTATATATATTTATTATA
Found at i:116886714 original size:22 final size:22
Alignment explanation
Indices: 116886689--116886730 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
116886679 TTTGTTACAT
116886689 TATTAT-TATTATATATATTTCA
1 TATTATATATTAT-TATATTTCA
116886711 TATTATATATTATTATATTT
1 TATTATATATTATTATATTT
116886731 ATTTAAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATATATTATTATATTTCA
Found at i:116886806 original size:18 final size:19
Alignment explanation
Indices: 116886780--116886815 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
116886770 ATCATGCATT
116886780 ATTAAATAT-TATATTTTA
1 ATTAAATATGTATATTTTA
*
116886798 ATTATATATGTATATTTT
1 ATTAAATATGTATATTTT
116886816 TTAAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
ATTAAATATGTATATTTTA
Found at i:116899609 original size:4 final size:4
Alignment explanation
Indices: 116899600--116899724 Score: 241
Period size: 4 Copynumber: 31.2 Consensus size: 4
116899590 TTACTACCAA
116899600 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
116899648 TATG TATG TATG TATG TATG TATG TGTG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
116899696 TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
116899725 TTTTTTTGTT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 119 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:116905154 original size:25 final size:25
Alignment explanation
Indices: 116905126--116905220 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
116905116 CTCTTTTAAT
* *
116905126 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTTGGTA
** *
116905151 AACTAGGGCAAAGCAATTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTTGGTA
*
116905176 AACTAGGGCAAA-ACCTTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTT-GGTA
*
116905201 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
116905221 AGCACTTCTT
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
24 4 0.07
25 47 0.82
26 6 0.11
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTTGGTA
Found at i:116905455 original size:27 final size:27
Alignment explanation
Indices: 116905423--116905585 Score: 220
Period size: 27 Copynumber: 6.0 Consensus size: 27
116905413 GGGGCAAAAT
* * *
116905423 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
116905450 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
116905477 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
116905504 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
116905531 AGTAATTCTACCCTACATGGGGTATTTC
1 GGTAATTCTACCCTACA-AGGGTATTTC
116905559 GGTAATTCTACCCTAC-AGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
116905586 AGTAGGGTAT
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.03
27 92 0.77
28 24 0.20
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:116905579 original size:54 final size:53
Alignment explanation
Indices: 116905424--116905706 Score: 217
Period size: 54 Copynumber: 5.0 Consensus size: 53
116905414 GGGCAAAATG
* * * * * **
116905424 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTCA
* *
116905478 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAC-AGGGTATTTCA
116905532 GTAATTCTACCCTACATGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCA
1 GTAATTCTACCCTACA-GGGGTATTTCGGTAATTCTACCCTACAGGG-TATTTCA
** * *
116905587 GTAGGGTATTTCGATAATTCTACCCTACAGGGTTATTTCAGTAATTCTACCCTACAGGGGTATTT
1 GTA----A-TTC--T-ACCCTA--C-A-GGGGT-ATTTCGGTAATTCTACCCTACA-GGGTATTT
**
116905652 TG
52 CA
* * *
116905654 GTAATTCTACCAC-ATAGGTGTATTTCGGTAATTCTACCTTACAAGGGTATTTC
1 GTAATTCTACC-CTACAGGGGTATTTCGGTAATTCTACCCTAC-AGGGTATTTC
116905707 GATATTTTAC
Statistics
Matches: 187, Mismatches: 24, Indels: 36
0.76 0.10 0.15
Matches are distributed among these distances:
54 91 0.49
55 40 0.21
56 1 0.01
59 3 0.02
60 5 0.03
62 4 0.02
63 5 0.03
65 1 0.01
66 5 0.03
67 29 0.16
68 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (53 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTATTTCA
Found at i:116905605 original size:40 final size:40
Alignment explanation
Indices: 116905550--116905629 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
116905540 ACCCTACATG
*
116905550 GGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGTA
1 GGGTATTTCGATAATTCTACCCTACAGGGTTATTTCAGTA
116905590 GGGTATTTCGATAATTCTACCCTACAGGGTTATTTCAGTA
1 GGGTATTTCGATAATTCTACCCTACAGGGTTATTTCAGTA
116905630 ATTCTACCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (40 bp):
GGGTATTTCGATAATTCTACCCTACAGGGTTATTTCAGTA
Found at i:116905631 original size:27 final size:26
Alignment explanation
Indices: 116905589--116905707 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 26
116905579 TTATTTCAGT
*
116905589 AGGGTATTTCGATAATTCTACCCTAC
1 AGGGTATTTCGGTAATTCTACCCTAC
*
116905615 AGGGTTATTTCAGTAATTCTACCCTAC
1 AGGG-TATTTCGGTAATTCTACCCTAC
* *
116905642 AGGGGTATTTTGGTAATTCTACCAC-AT
1 A-GGGTATTTCGGTAATTCTACC-CTAC
*
116905669 AGGTGTATTTCGGTAATTCTACCTTAC
1 AGG-GTATTTCGGTAATTCTACCCTAC
116905696 AAGGGTATTTCG
1 -AGGGTATTTCG
116905708 ATATTTTACA
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
26 6 0.08
27 66 0.84
28 7 0.09
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTCTACCCTAC
Found at i:116905645 original size:67 final size:68
Alignment explanation
Indices: 116905521--116905651 Score: 212
Period size: 67 Copynumber: 1.9 Consensus size: 68
116905511 CTACCCTACA
* *
116905521 AGGGTATTTCAGTAATTCTACCCTACATGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTC
1 AGGGTATTTCAGTAATTCTACCCTACATGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
116905586 AGT
66 AGT
*
116905589 AGGGTATTTC-GATAATTCTACCCTACA-GGGTTATTTCAGTAATTCTACCCTACAGGGGTATTT
1 AGGGTATTTCAG-TAATTCTACCCTACATGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTT
116905652 TGGTAATTCT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
67 34 0.58
68 25 0.42
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (68 bp):
AGGGTATTTCAGTAATTCTACCCTACATGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
AGT
Found at i:116905701 original size:122 final size:121
Alignment explanation
Indices: 116905468--116905706 Score: 340
Period size: 122 Copynumber: 2.0 Consensus size: 121
116905458 TACCCTACAG
* * * *
116905468 GGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAG
1 GGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
116905533 TAATTCTACCCTACATGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGTA
66 TAATTCTACCCTACATGGGGTATTTCGGTAATTCTACCCTACAGGG-TATTTCAGTA
* **
116905590 GGGTATTTCGATAATTCTACCCTAC-AGGGTTATTTCAGTAATTCTACCCTACAGGGGTATTTTG
1 GGGTATTTCGATAATTCTACCCTACAAGGG-TATTTCAGTAATTCTACCCTACAAGGGTATTTCA
* *
116905654 GTAATTCTA-CC-ACATAGGTGTATTTCGGTAATTCTACCTTACAAGGGTATTTC
65 GTAATTCTACCCTACAT-GGGGTATTTCGGTAATTCTACCCTAC-AGGGTATTTC
116905707 GATATTTTAC
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
120 4 0.04
121 36 0.34
122 65 0.62
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (121 bp):
GGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
TAATTCTACCCTACATGGGGTATTTCGGTAATTCTACCCTACAGGGTATTTCAGTA
Found at i:116905755 original size:27 final size:28
Alignment explanation
Indices: 116905697--116905849 Score: 147
Period size: 27 Copynumber: 5.7 Consensus size: 28
116905687 CTACCTTACA
* * *
116905697 AGGGTATTTCGAT-ATTTTACAAGCCA-
1 AGGGTATTTTGGTAATTTTACAAACCAG
116905723 AGGGTATTTTGGTAATTTTACAAACCAG
1 AGGGTATTTTGGTAATTTTACAAACCAG
* *
116905751 A-GGTATTTTAGTAATTTTACAAA-CTG
1 AGGGTATTTTGGTAATTTTACAAACCAG
* ** **
116905777 GGGGTATTTTGGTAATTTTACTGA-TTG
1 AGGGTATTTTGGTAATTTTACAAACCAG
**
116905804 AGGGTATTTTGGTAATTTTGTAAACCA-
1 AGGGTATTTTGGTAATTTTACAAACCAG
*
116905831 AGGGTATTTTAGTAATTTT
1 AGGGTATTTTGGTAATTTT
116905850 GTAAATAGAG
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
26 13 0.12
27 91 0.87
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (28 bp):
AGGGTATTTTGGTAATTTTACAAACCAG
Found at i:116905873 original size:27 final size:27
Alignment explanation
Indices: 116905842--116906158 Score: 391
Period size: 27 Copynumber: 11.7 Consensus size: 27
116905832 GGGTATTTTA
* * *
116905842 GTAATTTTGTAAATAGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
116905869 ATAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
116905896 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
116905923 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
116905950 ATAATTCTGTAAATTGAGGATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
116905977 ATAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
116906004 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
116906031 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
116906058 GTAATTTTATAAATTGAGGATAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
116906085 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
116906112 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
116906139 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
116906159 CATTTCAGTA
Statistics
Matches: 255, Mismatches: 35, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 255 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:116905874 original size:81 final size:81
Alignment explanation
Indices: 116905723--116905874 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 81
116905713 TTACAAGCCA
* ****
116905723 AGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAACTGGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAACTGAGGGTAAAACG
*
116905788 GTAATTTTACTGATTG
66 ATAATTTTACTGATTG
** **
116905804 AGGGTATTTTGGTAATTTTGTAAACCA-AGGGTATTTTAGTAATTTTGTAAA-TAGAGGGTAAAA
1 AGGGTATTTTGGTAATTTTACAAACCAGA-GGTATTTTAGTAATTTTACAAACT-GAGGGTAAAA
116905867 CGATAATT
64 CGATAATT
116905875 CTGTAAATTG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 2 0.03
81 57 0.97
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAACTGAGGGTAAAACG
ATAATTTTACTGATTG
Found at i:116905885 original size:81 final size:81
Alignment explanation
Indices: 116905842--116906158 Score: 454
Period size: 81 Copynumber: 3.9 Consensus size: 81
116905832 GGGTATTTTA
* * * *
116905842 GTAATTTTGTAAATAGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAACGATAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAACGATAATTTTATA
116905907 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
*
116905923 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGATAAAACGATAATTTTATA
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAACGATAATTTTATA
116905988 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * * * * *
116906004 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATA
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAACGATAATTTTATA
* *
116906069 AATTGAGGATAAAATG
66 AATCGAGGGTAAAATG
* * * * * *
116906085 GTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACA
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAACGATAATTTTATA
*
116906150 AATTGAGGG
66 AATCGAGGG
116906159 CATTTCAGTA
Statistics
Matches: 215, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 215 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAACGATAATTTTATA
AATCGAGGGTAAAATG
Found at i:116909039 original size:2 final size:2
Alignment explanation
Indices: 116909032--116909063 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
116909022 GGAAGCAATA
116909032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116909064 CCAGATAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116913212 original size:2 final size:2
Alignment explanation
Indices: 116913207--116913243 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
116913197 TGAAATTCGA
116913207 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116913244 TCTGAAAGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:116914708 original size:38 final size:38
Alignment explanation
Indices: 116914596--116914759 Score: 204
Period size: 38 Copynumber: 4.3 Consensus size: 38
116914586 ATATTCGATA
116914596 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
116914634 TATATCCGGGCTTAACGA-CCCGTAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAA--ATCCCGCAGGCTTCGTGCTGGTAT
* *
116914674 AATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * * *
116914712 TATATCCGGGATAAATCCTGCAAGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
116914750 TATATTCGGG
1 TATATCCGGG
116914760 CCTTCGTTCC
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
37 1 0.01
38 71 0.65
39 8 0.07
40 29 0.26
41 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:116920339 original size:38 final size:38
Alignment explanation
Indices: 116920229--116920387 Score: 192
Period size: 38 Copynumber: 4.1 Consensus size: 38
116920219 ATATTCGATG
* *
116920229 TATATCCGGGTTAAATCCCGTAGGCTTCGTGTTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
116920267 TATATCCGGGCTTAAAGACCCGTAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
116920307 AATATCCAGGTTAAATGCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
116920345 TATATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
116920383 TATAT
1 TATAT
116920388 TCAGGCCTTC
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
38 65 0.63
39 10 0.10
40 28 0.27
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:116940574 original size:22 final size:19
Alignment explanation
Indices: 116940549--116940590 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
116940539 TGATAATCAT
116940549 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
116940571 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
116940590 T
1 T
116940591 CAACTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:116970428 original size:40 final size:40
Alignment explanation
Indices: 116970340--116970525 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 40
116970330 TCGAATGATG
* * * *
116970340 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
116970380 TCCAGACTAAGATCCGAAAGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
116970420 TTCGGACTAAGATCCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
116970460 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
116970501 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
116970526 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 114 0.92
41 9 0.07
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:116970517 original size:80 final size:81
Alignment explanation
Indices: 116970340--116970524 Score: 200
Period size: 80 Copynumber: 2.3 Consensus size: 81
116970330 TCGAATGATG
* *
116970340 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCAGACTAAGATCCGAAAGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCAGACTAAGATCCGAAAGCATT
116970404 CGTGCGAGTTACTAAA
66 CGTGCGAGTTACTAAA
* * * * * ** *
116970420 TTCGGACTAAGAT-CCGAAGGCATTTATGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTATGCTAAGTGACTAAATCCAGACTAAGAT-CCGAAAGCA
*
116970482 TTTGTGCGAGTTACTATAA
64 TTCGTGCGAGTTACTA-AA
*
116970501 -CCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
116970525 GAACGAGTAG
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
79 2 0.02
80 75 0.87
81 9 0.10
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCAGACTAAGATCCGAAAGCATT
CGTGCGAGTTACTAAA
Found at i:116970532 original size:80 final size:79
Alignment explanation
Indices: 116970393--116970548 Score: 176
Period size: 80 Copynumber: 2.0 Consensus size: 79
116970383 AGACTAAGAT
* *
116970393 CCGAAAGCATTCGTGCGAGTTACTAAATTCGGACTAAGATCCGAAGGCATTTATGCGAGTTA-CT
1 CCGAAAGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTATACGAG-TAGCT
116970457 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * * *
116970473 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGA-ACGAGTAG
1 CCGAAAGCATTCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTT-ATACGAGTAG
*
116970535 CTATATCCGGTTAA
63 CTAAATCCGGTTAA
116970549 ACTCCGAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
79 9 0.14
80 53 0.82
81 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (79 bp):
CCGAAAGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTATACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:116978652 original size:40 final size:40
Alignment explanation
Indices: 116978460--116978645 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
116978450 TCGAATGATG
* * *
116978460 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
116978500 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
116978540 TCCGGACTAAGAT-CCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
116978580 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
116978621 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
116978646 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:116978652 original size:80 final size:80
Alignment explanation
Indices: 116978460--116978678 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
116978450 TCGAATGATG
* * * **
116978460 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
116978524 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
116978540 TCCGGACTAAGAT-CCGAAGGCATTT-ATGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGA-GCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCA
*
116978602 TTTGTGCGAGTTACTATAA
63 TTCGTGCGAGTTACTA-AA
* *
116978621 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
116978679 TACGTGATTC
Statistics
Matches: 117, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
79 17 0.15
80 91 0.78
81 9 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:117008648 original size:40 final size:40
Alignment explanation
Indices: 117008603--117008732 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
117008593 CGGAATATAA
117008603 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
117008643 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
117008683 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
117008723 CCGGATATAA
1 CCGGATATAA
117008733 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:117008747 original size:40 final size:40
Alignment explanation
Indices: 117008619--117008770 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
117008609 ATAAGCATGT
* * *
117008619 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
117008659 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
117008699 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
117008739 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
117008771 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:117008753 original size:80 final size:80
Alignment explanation
Indices: 117008619--117008770 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
117008609 ATAAGCATGT
* *
117008619 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
117008684 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
117008699 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
117008762 CCCGGATAT
64 CCCGGATAT
117008771 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:117023893 original size:45 final size:45
Alignment explanation
Indices: 117023842--117023927 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
117023832 ATGTAACCTA
* * *
117023842 AACTCATTGAA-TTGTGGTTTGAGTTCATGATATATGTGACATCCG
1 AACTCATT-AAGTTCTGGTCTGAGTTCATAATATATGTGACATCCG
*
117023887 AACTCATTAAGTTCTGGTCTGAGTTCGTAATATATGTGACA
1 AACTCATTAAGTTCTGGTCTGAGTTCATAATATATGTGACA
117023928 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (45 bp):
AACTCATTAAGTTCTGGTCTGAGTTCATAATATATGTGACATCCG
Found at i:117028406 original size:19 final size:20
Alignment explanation
Indices: 117028375--117028413 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
117028365 CGTCAGTTGA
117028375 TTGGAAGAAAGAAAAAAAAT
1 TTGGAAGAAAGAAAAAAAAT
*
117028395 TTGGAA-AAAGAATAAAAAT
1 TTGGAAGAAAGAAAAAAAAT
117028414 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (20 bp):
TTGGAAGAAAGAAAAAAAAT
Found at i:117038509 original size:65 final size:65
Alignment explanation
Indices: 117038405--117038547 Score: 198
Period size: 65 Copynumber: 2.2 Consensus size: 65
117038395 CGACTACTAT
* * * *
117038405 AGCTCTTTGTGAGTGCCCTGTTTATTGATTGGTTGTGATCGTGCATATGTTGCGAACACAAACGC
1 AGCTCTTTGTGAGTGCCCTGTTTATCGATCGGTTGTGATCCTGCATATGTTACGAACACAAACGC
* * *
117038470 AGCTCTTTGTGAGTGTCCTG-TTATGCGATCGGTTGTGATCCTGCATATGTTATGGACACAAACG
1 AGCTCTTTGTGAGTGCCCTGTTTAT-CGATCGGTTGTGATCCTGCATATGTTACGAACACAAACG
117038534 C
65 C
*
117038535 AGCTCTTTATGAG
1 AGCTCTTTGTGAG
117038548 CATCCTGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 4 0.06
65 65 0.94
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (65 bp):
AGCTCTTTGTGAGTGCCCTGTTTATCGATCGGTTGTGATCCTGCATATGTTACGAACACAAACGC
Found at i:117049530 original size:26 final size:27
Alignment explanation
Indices: 117049501--117049553 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
117049491 CATAACGTAG
117049501 AAAAGG-ATTTAAAATGAA-TAATATAT
1 AAAAGGAATTTAAAAT-AACTAATATAT
117049527 AAAAGGAAATTTAAAATAACTAATATA
1 AAAAGG-AATTTAAAATAACTAATATA
117049554 CAAACAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.25
27 2 0.08
28 16 0.67
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAAGGAATTTAAAATAACTAATATAT
Found at i:117050574 original size:17 final size:16
Alignment explanation
Indices: 117050548--117050587 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
117050538 AGTTTCATAT
117050548 AAAAAT-TAAAATAGAA
1 AAAAATATAAAATA-AA
117050564 AAAAATATAAAATAAA
1 AAAAATATAAAATAAA
117050580 ATAAAATA
1 A-AAAATA
117050588 AACCCGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAAATATAAAATAAA
Found at i:117051377 original size:49 final size:49
Alignment explanation
Indices: 117051229--117051448 Score: 236
Period size: 49 Copynumber: 4.6 Consensus size: 49
117051219 TATGTGTACT
* * * * *
117051229 AGTGTAAGACATGCCTGAGACAT-GCATCGGCCAC-AT-TATG-GAGCC
1 AGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCC
* * * *
117051274 AGTGTAAGACATGTCTGGGATAT-ACATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCC
* * * * *
117051322 AATGTAAGACGTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACTTGTCTGGGACATGGCATCGGC-CTCGATATATGAAAGCC
* * *
117051371 AGTGTAAGACTTGTCTGGAACACGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCC
117051420 AGTGTAAGACTTGTCTGGGACATGGCATC
1 AGTGTAAGACTTGTCTGGGACATGGCATC
117051449 AACTTTGATG
Statistics
Matches: 144, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
45 29 0.20
46 2 0.01
47 4 0.03
48 24 0.17
49 84 0.58
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCC
Found at i:117051417 original size:98 final size:97
Alignment explanation
Indices: 117051269--117051448 Score: 288
Period size: 98 Copynumber: 1.8 Consensus size: 97
117051259 CCACATTATG
* * *
117051269 GAGCCAGTGTAAGACATGTCTGGGATATACATCGGCCTCGATATATGAAAGTCAATGTAAGACGT
1 GAGCCAGTGTAAGACATGTCTGGAACAGACATCGGCCTCGATATATGAAAGTCAATGTAAGACGT
117051334 GTCTGGGACATGGCATCGACACCGATAGATGA
66 GTCTGGGACATGGCATCGACACCGATAGATGA
* * * *
117051366 GAGCCAGTGTAAGACTTGTCTGGAACACGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACT
1 GAGCCAGTGTAAGACATGTCTGGAACA-GACATCGGCCTCGATATATGAAAGTCAATGTAAGACG
117051431 TGTCTGGGACATGGCATC
65 TGTCTGGGACATGGCATC
117051449 AACTTTGATG
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
97 24 0.32
98 51 0.68
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (97 bp):
GAGCCAGTGTAAGACATGTCTGGAACAGACATCGGCCTCGATATATGAAAGTCAATGTAAGACGT
GTCTGGGACATGGCATCGACACCGATAGATGA
Found at i:117054629 original size:21 final size:21
Alignment explanation
Indices: 117054599--117054641 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
117054589 AAAAACAATA
117054599 TAATGATTTTG-TATTTTAACT
1 TAATGATTTTGAT-TTTTAACT
*
117054620 TAATGGTTTTGATTTTTAACT
1 TAATGATTTTGATTTTTAACT
117054641 T
1 T
117054642 TAAAAAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.58
Consensus pattern (21 bp):
TAATGATTTTGATTTTTAACT
Found at i:117056590 original size:22 final size:23
Alignment explanation
Indices: 117056543--117056590 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
117056533 TTTATCTTCG
* **
117056543 TTAATTAATTAGTTTGAGTTTTT
1 TTAAGTAATTAGTTTGAGTTAAT
117056566 TTAAGTAA-TAGTTTGAGTTAAT
1 TTAAGTAATTAGTTTGAGTTAAT
117056588 TTA
1 TTA
117056591 GTTTTTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (23 bp):
TTAAGTAATTAGTTTGAGTTAAT
Found at i:117058645 original size:43 final size:41
Alignment explanation
Indices: 117058564--117058684 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 41
117058554 GTTAAGATTA
** *
117058564 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGA-CTT
1 CGTGTAAGACCATAT-TGGGATATGGCATTGATATGAGATC-C
*
117058606 CGTGTAAGACCATAGTTGGGTTATTGGCATTGATATGAGATCC
1 CGTGTAAGACCATA-TTGGGATA-TGGCATTGATATGAGATCC
* * *
117058649 CATGTAAGACTATATTTGGGATATGGCATTGGTATG
1 CGTGTAAGACCATA-TTGGGATATGGCATTGATATG
117058685 GTACTATGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 32 0.48
43 34 0.51
44 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (41 bp):
CGTGTAAGACCATATTGGGATATGGCATTGATATGAGATCC
Found at i:117059424 original size:15 final size:15
Alignment explanation
Indices: 117059396--117059429 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
117059386 GTAATTGATG
*
117059396 TGTGGATGACTTGGT
1 TGTGGATGAATTGGT
*
117059411 TGTGGTTGAATTGGT
1 TGTGGATGAATTGGT
117059426 TGTG
1 TGTG
117059430 TGTATATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.41, T:0.44
Consensus pattern (15 bp):
TGTGGATGAATTGGT
Found at i:117069007 original size:43 final size:42
Alignment explanation
Indices: 117068918--117069029 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
117068908 TGAGATTACG
* ** * *
117068918 TGTAAGACCATA-TCTAGGATATGATATCGATATGAGACTTCG
1 TGTAAGACCATAGT-TGGGATATGGCATCGATATGAGACTCCA
*
117068960 TGTAAGACCATAGTTGGGCTATTGGCATCGATATGAGA-TCCCA
1 TGTAAGACCATAGTTGGGATA-TGGCATCGATATGAGACT-CCA
*
117069003 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATAGTTGGGATATGGCAT
117069030 TGGTATGGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATAGTTGGGATATGGCATCGATATGAGACTCCA
Found at i:117071526 original size:26 final size:26
Alignment explanation
Indices: 117071497--117071604 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
117071487 TGATACAAAT
117071497 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
117071523 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117071549 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117071575 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117071601 TGAT
1 TGAT
117071605 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:117078593 original size:26 final size:26
Alignment explanation
Indices: 117078564--117078671 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
117078554 TGATACAAAT
117078564 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
117078590 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117078616 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117078642 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117078668 TGAT
1 TGAT
117078672 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:117089463 original size:43 final size:42
Alignment explanation
Indices: 117089374--117089485 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
117089364 TGAGATTACG
* ** * *
117089374 TGTAAGACCATA-TCTAGGATATGAAATCGATATGAGACTTCG
1 TGTAAGACCATAGT-TGGGATATGGCATCGATATGAGACTCCA
*
117089416 TGTAAGACCATAGTTGGGCTATTGGCATCGATATGAGA-TCCCA
1 TGTAAGACCATAGTTGGGATA-TGGCATCGATATGAGACT-CCA
*
117089459 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATAGTTGGGATATGGCAT
117089486 TGGTATGGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGTTGGGATATGGCATCGATATGAGACTCCA
Found at i:117091982 original size:26 final size:26
Alignment explanation
Indices: 117091953--117092060 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
117091943 TGATACAAAT
117091953 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
117091979 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117092005 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117092031 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117092057 TGAT
1 TGAT
117092061 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:117094623 original size:37 final size:37
Alignment explanation
Indices: 117094570--117094691 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
117094560 TATAAAAGAA
*
117094570 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
117094607 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
117094644 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
117094681 GTCTCACCCGG
1 GTCTTACCCGG
117094692 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:117094848 original size:49 final size:49
Alignment explanation
Indices: 117094793--117094958 Score: 287
Period size: 49 Copynumber: 3.4 Consensus size: 49
117094783 TTTTACATTA
117094793 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
117094842 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
117094891 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
117094940 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
117094959 CATATATGTA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 111 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:117102938 original size:26 final size:26
Alignment explanation
Indices: 117102909--117103016 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
117102899 TGATACAAAT
117102909 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
117102935 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
117102961 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117102987 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117103013 TGAT
1 TGAT
117103017 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:117118734 original size:21 final size:18
Alignment explanation
Indices: 117118708--117118749 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 18
117118698 ACGATTCTAG
117118708 TTAAAATTCAATTTTGTCGAT
1 TTAAAATTC-ATTTT-TC-AT
117118729 TTAAAATTCATTTTTCAT
1 TTAAAATTCATTTTTCAT
117118747 TTA
1 TTA
117118750 GATTGGAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 2 0.10
20 5 0.24
21 9 0.43
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (18 bp):
TTAAAATTCATTTTTCAT
Found at i:117121933 original size:42 final size:43
Alignment explanation
Indices: 117121847--117121936 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 43
117121837 TAGAAATCTG
* * *
117121847 AGTTCGTGATATATGTGAGAATCTGAACTTGTTGAGTGGTCCA
1 AGTTCGTGATATATGTGAGAATCTCAACTTGTTAAGAGGTCCA
* *
117121890 AGTTCGTGATCTATGTG-GCAT-TCAAGCTTGTTAAGAGGTCCA
1 AGTTCGTGATATATGTGAGAATCTCAA-CTTGTTAAGAGGTCCA
117121932 AGTTC
1 AGTTC
117121937 ATTATGGATG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.07
42 22 0.54
43 16 0.39
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
AGTTCGTGATATATGTGAGAATCTCAACTTGTTAAGAGGTCCA
Found at i:117127796 original size:6 final size:6
Alignment explanation
Indices: 117127765--117127889 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
117127755 AAGAAACATT
* * * * *
117127765 ATCAGA A-CTAGA ATCAAA ATAAGA ATCTGA ATCAGA ATTCGGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* * * *
117127814 ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
117127863 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
117127890 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 71 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:117127828 original size:31 final size:31
Alignment explanation
Indices: 117127786--117127889 Score: 138
Period size: 31 Copynumber: 3.4 Consensus size: 31
117127776 AATCAAAATA
*
117127786 AGAATCTGAATCAGAATTCGGTGACAGAATC
1 AGAATCAGAATCAGAATTCGGTGACAGAATC
* *
117127817 AGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATTCGGTGACAGAATC
* *
117127848 AGAATCAGAATCAGTA-TCAGGTAACAGAATC
1 AGAATCAGAATCAGAATTC-GGTGACAGAATC
*
117127879 AAAATCAGAAT
1 AGAATCAGAAT
117127890 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 1 0.02
31 63 0.98
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATTCGGTGACAGAATC
Found at i:117128056 original size:27 final size:26
Alignment explanation
Indices: 117128008--117128067 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
117127998 ACGAGGCTGC
* *
117128008 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
117128035 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
117128061 CAGATAT
1 CAGATAT
117128068 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:117128452 original size:27 final size:27
Alignment explanation
Indices: 117128422--117128649 Score: 216
Period size: 27 Copynumber: 8.5 Consensus size: 27
117128412 CTGCACAAGG
* *
117128422 GTATCTCGGTAATTCTACCTTACAGGA
1 GTATTTCGGTAATTCTACCCTACAGGA
* * *
117128449 GTATTTCAGTCATTCTACCCTA-AGGG
1 GTATTTCGGTAATTCTACCCTACAGGA
* *
117128475 GTATTTTGGTATTTCTACCCTACAAGG-
1 GTATTTCGGTAATTCTACCCTAC-AGGA
*
117128502 GTATTTCGATAATTCTACCCTACA-GA
1 GTATTTCGGTAATTCTACCCTACAGGA
** *
117128528 GGTATTTTAGTAATTCTACCCTACAGGG
1 -GTATTTCGGTAATTCTACCCTACAGGA
* *
117128556 GTATTTCGGTATTTCTACCCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGA
* *
117128583 GCATTTCGGTATTTCTA-CCTACAAGG-
1 GTATTTCGGTAATTCTACCCTAC-AGGA
* * *
117128609 GTATTTCGGCATTTCTACCCTACA-AA
1 GTATTTCGGTAATTCTACCCTACAGGA
117128635 GGTATTTCGGTAATT
1 -GTATTTCGGTAATT
117128650 TTGTAAATCG
Statistics
Matches: 167, Mismatches: 25, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
25 1 0.01
26 43 0.26
27 119 0.71
28 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GTATTTCGGTAATTCTACCCTACAGGA
Found at i:117128506 original size:53 final size:54
Alignment explanation
Indices: 117128420--117128649 Score: 256
Period size: 53 Copynumber: 4.3 Consensus size: 54
117128410 TACTGCACAA
* *
117128420 GGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTCAGTCA-TTCTACCCTA-AG
1 GGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTC-GTCATTTCTACCCTACAG
* * *
117128473 GGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGAT-AATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCG-TCATTTCTACCCTACAG
* ** *
117128527 AGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC-GTCATTTCTACCCTACAG
* * * *
117128581 GGGCATTTCGGTATTTCTA-CCTACAAGGGTATTTCGGCATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGTCATTTCTACCCTACAG
*
117128634 AGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
117128650 TTGTAAATCG
Statistics
Matches: 151, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
52 3 0.02
53 81 0.54
54 66 0.44
55 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (54 bp):
GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGTCATTTCTACCCTACAG
Found at i:117128526 original size:80 final size:81
Alignment explanation
Indices: 117128416--117128646 Score: 292
Period size: 80 Copynumber: 2.9 Consensus size: 81
117128406 ATTTTACTGC
* *
117128416 ACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTCATTCTACCCTA-AGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTCATTCTACCCTACAGGGGTATT
*
117128480 TTGGTATTTCTACCCT
66 TCGGTATTTCTACCCT
* * *
117128496 ACAAGGGTATTTCGATAATTCTACCCTACA-GAGGTATTTTAGTAATTCTACCCTACAGGGGTAT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGA-GTATTTCAGTCATTCTACCCTACAGGGGTAT
117128560 TTCGGTATTTCTACCCT
65 TTCGGTATTTCTACCCT
* * * * **
117128577 ACAGGGGCATTTCGGTATTTCTA-CCTACAAGG-GTATTTC-GGCATTTCTACCCTACAAAGGTA
1 ACAAGGGTATTTCGGTAATTCTACCCTAC-AGGAGTATTTCAGTCA-TTCTACCCTACAGGGGTA
117128639 TTTCGGTA
64 TTTCGGTA
117128647 ATTTTGTAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
79 4 0.03
80 82 0.63
81 44 0.34
82 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (81 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTCATTCTACCCTACAGGGGTATT
TCGGTATTTCTACCCT
Found at i:117128541 original size:107 final size:107
Alignment explanation
Indices: 117128430--117128641 Score: 311
Period size: 107 Copynumber: 2.0 Consensus size: 107
117128420 GGGTATCTCG
* * *
117128430 GTAATTCTACCTTACAGGAGTATTTCAGTCA-TTCTACCCTA-AGGGGTATTTTGGTATTTCTAC
1 GTAATTCTACCCTACAGGAGTATTTCAGT-ATTTCTACCCTACAGGGGCATTTCGGTATTTCTA-
* *
117128493 CCTACAAGGGTATTTCGATAATTCTACCCTACAGAGGTATTTTA
64 CCTACAAGGGTATTTCGACAATTCTACCCTACAAAGGTATTTTA
* *
117128537 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGCATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAGGAGTATTTCAGTATTTCTACCCTACAGGGGCATTTCGGTATTTCTACC
* *
117128602 TACAAGGGTATTTCGGCATTTCTACCCTACAAAGGTATTT
66 TACAAGGGTATTTCGACAATTCTACCCTACAAAGGTATTT
117128642 CGGTAATTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
106 1 0.01
107 74 0.79
108 19 0.20
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (107 bp):
GTAATTCTACCCTACAGGAGTATTTCAGTATTTCTACCCTACAGGGGCATTTCGGTATTTCTACC
TACAAGGGTATTTCGACAATTCTACCCTACAAAGGTATTTTA
Found at i:117128817 original size:27 final size:27
Alignment explanation
Indices: 117128684--117128973 Score: 283
Period size: 27 Copynumber: 10.7 Consensus size: 27
117128674 TTCTGTAAAT
* **
117128684 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *** * ***
117128711 CGAGGTTATTTCAATAATTTTATAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
117128738 CAAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
117128765 CAGGGGTATTTTAATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
117128792 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
117128819 TAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
117128846 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
117128873 CAACGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
117128900 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
117128927 CAAGGGTATTTTATTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
117128954 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
117128974 GATAAACTAA
Statistics
Matches: 217, Mismatches: 46, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 217 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:117128980 original size:27 final size:27
Alignment explanation
Indices: 117128741--117128973 Score: 295
Period size: 27 Copynumber: 8.6 Consensus size: 27
117128731 TATAGGTCAA
** * *
117128741 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
117128768 GGGTATTTTAATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
**
117128795 GGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
117128822 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
117128849 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
117128876 CGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
117128903 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
**
117128930 GGGTATTTTATTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
117128957 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
117128974 GATAAACTAA
Statistics
Matches: 176, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 176 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:117130972 original size:6 final size:6
Alignment explanation
Indices: 117130942--117131066 Score: 78
Period size: 6 Copynumber: 20.3 Consensus size: 6
117130932 AAGAAACATT
* * * *
117130942 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTCGGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* * * *
117130991 ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
117131040 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
117131067 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 5 0.06
6 73 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:117131000 original size:31 final size:31
Alignment explanation
Indices: 117130963--117131066 Score: 147
Period size: 31 Copynumber: 3.4 Consensus size: 31
117130953 AATCAAAATG
117130963 AGAATCAGAATCAGAATTCGGTGACAGAATC
1 AGAATCAGAATCAGAATTCGGTGACAGAATC
* *
117130994 AGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATTCGGTGACAGAATC
* *
117131025 AGAATCAGAATCAGTA-TCAGGTAACAGAATC
1 AGAATCAGAATCAGAATTC-GGTGACAGAATC
*
117131056 AAAATCAGAAT
1 AGAATCAGAAT
117131067 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
30 1 0.02
31 64 0.98
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATTCGGTGACAGAATC
Found at i:117131233 original size:27 final size:26
Alignment explanation
Indices: 117131185--117131244 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
117131175 GCGAGGCTGC
* *
117131185 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
117131212 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
117131238 CAGATAT
1 CAGATAT
117131245 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:117131629 original size:27 final size:27
Alignment explanation
Indices: 117131597--117131828 Score: 257
Period size: 27 Copynumber: 8.6 Consensus size: 27
117131587 TACTGCACAA
* *
117131597 GGGTATCTCGGTAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* ** *
117131624 GAGTATTTCAATCATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
117131651 GGGTATTTTGGTATTTCTACCATACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
117131678 TGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
117131705 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
117131732 GGGTATTTCGGTATTTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
117131759 GGGCATTTCGGTATTTTTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
117131786 GGGTATTTCGGCATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
117131813 AGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
117131829 TTGTAAATCG
Statistics
Matches: 169, Mismatches: 36, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 169 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:117131844 original size:27 final size:27
Alignment explanation
Indices: 117131812--117131937 Score: 74
Period size: 27 Copynumber: 4.7 Consensus size: 27
117131802 CTACCCTACA
*
117131812 AAGGTATTTCGGTAATTTTGTAAATCG
1 AAGGTATTTCAGTAATTTTGTAAATCG
* *** * *
117131839 ATGGTAAAACAGTAATTCTGTAAATCA
1 AAGGTATTTCAGTAATTTTGTAAATCG
* ** *
117131866 AAGGTACTTT-GGTAATTTTACAAGTCG
1 AAGGTA-TTTCAGTAATTTTGTAAATCG
* * ** **
117131893 AGGGTATTTCAATAATTTTACAGGTCG
1 AAGGTATTTCAGTAATTTTGTAAATCG
*
117131920 AGGGTATTTCAGTAATTT
1 AAGGTATTTCAGTAATTT
117131938 CACAAATCAG
Statistics
Matches: 75, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
26 3 0.04
27 72 0.96
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
AAGGTATTTCAGTAATTTTGTAAATCG
Found at i:117131935 original size:54 final size:54
Alignment explanation
Indices: 117131877--117132153 Score: 198
Period size: 54 Copynumber: 5.1 Consensus size: 54
117131867 AGGTACTTTG
* *** *
117131877 GTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAG-GGGTATTTCAATAATTTTACAAACCAAGGGTATTTCA
* * **
117131931 GTAATTTCACAAATCAGGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCA
* *** * * **
117131985 GTAATTTTACAAATTAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCA
** ** *** * **
117132039 GTAATTTTGTAAA-CTAACGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATC-AGGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCA
* * * * * * * **
117132093 GTGATTTTATAAACCAAGGGTATTTTATTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCA
117132147 GTAATTT
1 GTAATTT
117132154 GGTAAACTAA
Statistics
Matches: 193, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
54 191 0.99
55 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCA
Found at i:117132160 original size:27 final size:27
Alignment explanation
Indices: 117131921--117132153 Score: 286
Period size: 27 Copynumber: 8.6 Consensus size: 27
117131911 TACAGGTCGA
** * *
117131921 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
117131948 GGGTATTTTAATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
**
117131975 GGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
117132002 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
117132029 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
117132056 CGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
117132083 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
**
117132110 GGGTATTTTATTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
117132137 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
117132154 GGTAAACTAA
Statistics
Matches: 174, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:117134154 original size:6 final size:6
Alignment explanation
Indices: 117134124--117134232 Score: 80
Period size: 6 Copynumber: 17.8 Consensus size: 6
117134114 ACGAAGCATT
* * * *
117134124 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTCGGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* * *
117134173 ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
117134222 ATCAGT ATCAG
1 ATCAGA ATCAG
117134233 GTAACGGAAT
Statistics
Matches: 80, Mismatches: 15, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
5 3 0.04
6 69 0.86
7 6 0.08
8 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:117134174 original size:37 final size:37
Alignment explanation
Indices: 117134133--117134232 Score: 155
Period size: 37 Copynumber: 2.7 Consensus size: 37
117134123 TATCAGAACT
* * *
117134133 AGAATCAAAATGAGAATCAGAATCAGAATTCGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
117134170 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
* *
117134207 AGAATTAGAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAGAATCAG
117134233 GTAACGGAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:117134210 original size:31 final size:31
Alignment explanation
Indices: 117134175--117134254 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
117134165 GTGACAGAAT
* *
117134175 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
117134206 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
117134237 CGGAATCAAAATTAGAAT
1 CAGAATCAGAATCAGAAT
117134255 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:117134250 original size:37 final size:35
Alignment explanation
Indices: 117134134--117134254 Score: 108
Period size: 37 Copynumber: 3.5 Consensus size: 35
117134124 ATCAGAACTA
*
117134134 GAATCAAAATGAGAATCAGAATCAGAATTC-GGTGAC
1 GAATCAAAATTAGAATCAGAATCAGAA-TCAGGT-AC
* * *
117134170 AGAATCAGAATCAGAATCAGAATCAGAATTAGGT--
1 -GAATCAAAATTAGAATCAGAATCAGAATCAGGTAC
* *
117134204 G-A-CAGAATTAGAATCAGAATCAGTATCAGGTAAC
1 GAATCAAAATTAGAATCAGAATCAGAATCAGGT-AC
117134238 GGAATCAAAATTAGAAT
1 -GAATCAAAATTAGAAT
117134255 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
31 26 0.37
32 1 0.01
33 1 0.01
35 1 0.01
36 2 0.03
37 39 0.56
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (35 bp):
GAATCAAAATTAGAATCAGAATCAGAATCAGGTAC
Found at i:117134421 original size:27 final size:26
Alignment explanation
Indices: 117134373--117134432 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
117134363 GCAAGGCTGC
* *
117134373 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
117134400 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
117134426 CAGATAT
1 CAGATAT
117134433 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:117134520 original size:27 final size:26
Alignment explanation
Indices: 117134472--117134523 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
117134462 GCGAGGCTGC
*
117134472 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
117134498 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
117134524 TTGCAGCAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:117134817 original size:27 final size:27
Alignment explanation
Indices: 117134785--117135013 Score: 275
Period size: 27 Copynumber: 8.6 Consensus size: 27
117134775 TACTGCACAA
* *
117134785 GGGTATCTCGGTAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
117134812 GAGTATTTCAGTAATTCTAACCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
117134839 GGGTATTT-GGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
117134865 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
117134892 GGGTATTTTAGTAATTCTACCCTACA-
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
117134918 GGGTATTTCGATATTTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
117134945 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
117134972 GGGTATTTCAG-CATTTTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
117134998 GGGTATTTCGATAATT
1 GGGTATTTCGGTAATT
117135014 TTGTTAATTG
Statistics
Matches: 172, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 65 0.38
27 107 0.62
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:117134899 original size:80 final size:80
Alignment explanation
Indices: 117134781--117135010 Score: 329
Period size: 80 Copynumber: 2.9 Consensus size: 80
117134771 ATTTTACTGC
* * * *
117134781 ACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTAACCTACAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA-GGGTATT
*
117134846 T-GGTATTTCTACCCT
65 TCGATATTTCTACCCT
*
117134861 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGTATTT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATTT
117134926 CGATATTTCTACCCT
66 CGATATTTCTACCCT
* * * * *
117134941 ACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAG-CATTTTACCCTACAAGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAC-AGGGTATT
117135005 TCGATA
65 TCGATA
117135011 ATTTTGTTAA
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 19 0.14
80 117 0.86
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (80 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATTT
CGATATTTCTACCCT
Found at i:117135006 original size:53 final size:53
Alignment explanation
Indices: 117134785--117135013 Score: 284
Period size: 53 Copynumber: 4.3 Consensus size: 53
117134775 TACTGCACAA
* * *
117134785 GGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTAACCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGG-GTATTTCAGTAATTCTACCCTACAG
* *
117134839 GGGTATTT-GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAG
** *
117134892 GGGTATTTTAGTAATTCTACCCTACAGGGTATTTC-GATATTTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGTATTTCAG-TAATTCTACCCTACAG
* * * *
117134945 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAG-CATTTTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAG
*
117134998 GGGTATTTCGATAATT
1 GGGTATTTCGGTAATT
117135014 TTGTTAATTG
Statistics
Matches: 153, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
52 1 0.01
53 117 0.76
54 34 0.22
55 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (53 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGTATTTCAGTAATTCTACCCTACAG
Found at i:117135155 original size:27 final size:27
Alignment explanation
Indices: 117135053--117135365 Score: 315
Period size: 27 Copynumber: 11.6 Consensus size: 27
117135043 GTAAATCAAA
* **
117135053 GGTACTTTGGTAATTTTACAAGTC-GAG
1 GGTATTTTGGTAATTTTACAAACCAG-G
*** **
117135080 GGTATTTCAATAATTTTACAGGCC-GAG
1 GGTATTTTGGTAATTTTACAAACCAG-G
** * *
117135107 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
117135134 GGTATTTTTGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
117135161 GGTATTTTGATTATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* **
117135188 GGTATTTTGGTAATTTTATAAATTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
117135215 GGTATTTTGGTAATTTTATAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* ** *
117135242 GGTACTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
117135269 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * * *
117135296 GGTATTTTGGTGATTTCATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
117135323 GGTATTTTAGTACTTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
117135350 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
117135366 GGTAAACTAA
Statistics
Matches: 239, Mismatches: 46, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
27 238 1.00
28 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:117135557 original size:17 final size:18
Alignment explanation
Indices: 117135537--117135582 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
117135527 AACTTATCCA
117135537 ATTGGGCCCATA-GGCCC
1 ATTGGGCCCATATGGCCC
*
117135554 ATTGGGCCCACATGGCCC
1 ATTGGGCCCATATGGCCC
* *
117135572 TTTCGGCCCAT
1 ATTGGGCCCAT
117135583 CGCAGCCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.15, C:0.37, G:0.26, T:0.22
Consensus pattern (18 bp):
ATTGGGCCCATATGGCCC
Found at i:117136712 original size:26 final size:26
Alignment explanation
Indices: 117136683--117136735 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
117136673 ATAGGCGAAA
117136683 AGCTAAAACTTTGTTAAAAATTATTT
1 AGCTAAAACTTTGTTAAAAATTATTT
117136709 AGCTAAAACTTTGTTAAAAATTATTT
1 AGCTAAAACTTTGTTAAAAATTATTT
117136735 A
1 A
117136736 AGTCCTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (26 bp):
AGCTAAAACTTTGTTAAAAATTATTT
Found at i:117142704 original size:43 final size:43
Alignment explanation
Indices: 117142631--117142713 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
117142621 ATCAACATCA
* * * *
117142631 TATTTGATTTCGTGTAAGACCCTATTTGGGACAGTGGCATCGG
1 TATTTGATTACATGTAAGACACTATCTGGGACAGTGGCATCGG
*
117142674 TATTTGATTACATGTAAGAACAC-ATCTGGGACATTGGCAT
1 TATTTGATTACATGTAAG-ACACTATCTGGGACAGTGGCAT
117142714 TGTACGCGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 31 0.91
44 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
TATTTGATTACATGTAAGACACTATCTGGGACAGTGGCATCGG
Found at i:117146148 original size:37 final size:37
Alignment explanation
Indices: 117146095--117146185 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
117146085 TATAAAAGAA
117146095 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
117146132 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
117146169 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
117146186 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:117146336 original size:49 final size:49
Alignment explanation
Indices: 117146281--117146588 Score: 518
Period size: 49 Copynumber: 6.4 Consensus size: 49
117146271 TTTTACATTA
*
117146281 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* *
117146330 GCCATTAGGCC-CATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
117146378 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
117146427 GCCATTAGGCC---TCACATATACAT-CACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
117146472 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* *
117146521 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
117146570 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
117146589 CATATATGTA
Statistics
Matches: 249, Mismatches: 5, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
45 33 0.13
46 12 0.05
48 59 0.24
49 145 0.58
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
Found at i:117146497 original size:94 final size:96
Alignment explanation
Indices: 117146281--117146588 Score: 521
Period size: 94 Copynumber: 3.2 Consensus size: 96
117146271 TTTTACATTA
*
117146281 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCCATCA
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGG-CCATCA
*
117146346 CATATACATACACTTTCACATTCACCACATCG
65 CATATACATACACTTTCACATTCATCACATCG
*
117146378 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC-TCAC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCATCAC
117146442 ATATACAT-CACTTTCACATTCATCACATCG
66 ATATACATACACTTTCACATTCATCACATCG
117146472 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC--ATC
* *
117146537 ACATATACATACACTTTCACATTCATCGCATTG
64 ACATATACATACACTTTCACATTCATCACATCG
*
117146570 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
117146589 CATATATGTA
Statistics
Matches: 200, Mismatches: 7, Indels: 7
0.93 0.03 0.03
Matches are distributed among these distances:
94 80 0.40
95 12 0.06
96 2 0.01
97 68 0.34
98 38 0.19
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (96 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCATCAC
ATATACATACACTTTCACATTCATCACATCG
Found at i:117146512 original size:143 final size:143
Alignment explanation
Indices: 117146281--117146581 Score: 496
Period size: 143 Copynumber: 2.1 Consensus size: 143
117146271 TTTTACATTA
117146281 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCCATCA
1 GCCATTAGGCC---TCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCCATCA
117146346 CATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTT
63 CATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTT
117146411 CACATTCATCACATCG
128 CACATTCATCACATCG
* *
117146427 GCCATTAGGCCTCACATATACAT-CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 GCCATTAGGCCTCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC-CATCACA
* *
117146491 TATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCA
65 TATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCA
* *
117146556 CATTCATCGCATTG
130 CATTCATCACATCG
*
117146570 GCCATTCGGCCT
1 GCCATTAGGCCT
117146582 TATCACACAT
Statistics
Matches: 147, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
142 32 0.22
143 104 0.71
146 11 0.07
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (143 bp):
GCCATTAGGCCTCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCCATCACAT
ATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCAC
ATTCATCACATCG
Found at i:117154117 original size:48 final size:48
Alignment explanation
Indices: 117154004--117154318 Score: 376
Period size: 48 Copynumber: 6.4 Consensus size: 48
117153994 TACATATATG
* * *
117154004 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
117154053 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATGTATA
1 TGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
117154101 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGT-AAA-TG--TGTATA
1 TGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
117154146 TGTGAT-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
117154193 TGTGATAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATGTATA
1 TGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
117154240 T-TGATGAGGCCTTTGAAAGTATGTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGAT-AGGCC------------TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
117154300 TGTGATAAGGCCTAATGGC
1 TGTGAT-AGGCCTAATGGC
117154319 TAATGTAAAA
Statistics
Matches: 239, Mismatches: 7, Indels: 40
0.84 0.02 0.14
Matches are distributed among these distances:
43 25 0.10
44 3 0.01
45 14 0.06
46 6 0.03
47 43 0.18
48 57 0.24
49 45 0.19
59 14 0.06
60 23 0.10
61 9 0.04
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (48 bp):
TGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:117154177 original size:91 final size:93
Alignment explanation
Indices: 117154004--117154318 Score: 343
Period size: 91 Copynumber: 3.2 Consensus size: 93
117153994 TACATATATG
* * * *
117154004 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGAT-AGGCCTAATGGCCGATGTGGTGAATGTGAAA-TG--TGTATATGTGAT-AGGCCTAAT
117154069 GGCCGATGTGATGAATGTGAAAGTG-ATGTATA
61 GGCCGATGTGATGAATGTGAAAGTGTATGTATA
117154101 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGT-AAATGTGTATATGTGAT-GGCCTAATGGCC
1 TGTGAT-AGGCCTAATGGCCGATGTGGTGAATGTGAAATGTGTATATGTGATAGGCCTAATGGCC
117154164 GATGTGATGAATGTGAAAGTGTATGTATA
65 GATGTGATGAATGTGAAAGTGTATGTATA
117154193 TGTGATAGGCCTAATGGCCGATGT-GTGAATGTGAAAGTGTATGTATAT-TGATGAGGCCTTTGA
1 TGTGATAGGCCTAATGGCCGATGTGGTGAATGTGAAA-TG--TGTATATGTGAT-AGGCC-----
*
117154256 AAGTATGTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
57 -------TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
117154300 TGTGATAAGGCCTAATGGC
1 TGTGAT-AGGCCTAATGGC
117154319 TAATGTAAAA
Statistics
Matches: 192, Mismatches: 6, Indels: 29
0.85 0.03 0.13
Matches are distributed among these distances:
90 8 0.04
91 54 0.28
92 15 0.08
93 16 0.08
94 7 0.04
95 6 0.03
96 3 0.02
97 29 0.15
107 42 0.22
108 12 0.06
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (93 bp):
TGTGATAGGCCTAATGGCCGATGTGGTGAATGTGAAATGTGTATATGTGATAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATGTATA
Found at i:117160247 original size:40 final size:40
Alignment explanation
Indices: 117160097--117160264 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
117160087 CGGAATACAA
* * *
117160097 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
117160137 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
117160177 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
117160217 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
117160257 CCGGATAT
1 CCGGATAT
117160265 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:117161520 original size:17 final size:18
Alignment explanation
Indices: 117161500--117161536 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
117161490 ACTTTTCTTC
*
117161500 CTTTCTTT-TTTTTTTTT
1 CTTTCTTTGTTTTTGTTT
117161517 CTTTCTTTGTTTTTGTTT
1 CTTTCTTTGTTTTTGTTT
117161535 CT
1 CT
117161537 CTCATGTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (18 bp):
CTTTCTTTGTTTTTGTTT
Found at i:117167076 original size:28 final size:29
Alignment explanation
Indices: 117167038--117167106 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
117167028 AAAATTGTAC
*
117167038 AGCACTAAGTGTAAGAGTTTG-AT-TATAT
1 AGCACTAAGTGTAAGAG-CTGAATGTATAT
**
117167066 AGCACTAAGTGTGCGAGCTGAATGTATAT
1 AGCACTAAGTGTAAGAGCTGAATGTATAT
117167095 AGCACTAAGTGT
1 AGCACTAAGTGT
117167107 GCGGATTCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.06
28 17 0.47
29 17 0.47
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (29 bp):
AGCACTAAGTGTAAGAGCTGAATGTATAT
Found at i:117169960 original size:66 final size:66
Alignment explanation
Indices: 117169849--117169981 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
117169839 CGTAGCTCTG
* *
117169849 ATACCACTAAATATAACACCCTTAACTCGTATCCGTCGCTAAAACAGGGTTTCGGAGCATTACCA
1 ATACCACTAAATATAACACCCTTAACTCATATCCGTCGCTAAAACAGGGTTTCGAAGCATTACCA
117169914 A
66 A
*
117169915 ATACCACTAAATATAACACCCTTAACTCATATCCGTCGCTGAAACAGGGTTTCGAAGCATTACCA
1 ATACCACTAAATATAACACCCTTAACTCATATCCGTCGCTAAAACAGGGTTTCGAAGCATTACCA
117169980 A
66 A
117169981 A
1 A
117169982 ACATTCAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (66 bp):
ATACCACTAAATATAACACCCTTAACTCATATCCGTCGCTAAAACAGGGTTTCGAAGCATTACCA
A
Found at i:117172052 original size:20 final size:20
Alignment explanation
Indices: 117172011--117172055 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
117172001 AGCACATGTA
*
117172011 TTCATAAAATTTTAGAAATT
1 TTCATAAAATTTTACAAATT
*
117172031 TTCATCAAAATTTT-CAACTT
1 TTCAT-AAAATTTTACAAATT
117172051 TTCAT
1 TTCAT
117172056 TTTTGATCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTACAAATT
Found at i:117179927 original size:16 final size:16
Alignment explanation
Indices: 117179906--117179942 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
117179896 TTTTGGTTCA
*
117179906 AATTTAGCGTTAATTT
1 AATTTAGCATTAATTT
117179922 AATTTAGCATTAATTT
1 AATTTAGCATTAATTT
117179938 AATTT
1 AATTT
117179943 TTTTATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (16 bp):
AATTTAGCATTAATTT
Done.