Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 181 of 322
Found at i:59339474 original size:38 final size:39
Alignment explanation
Indices: 59339381--59339486 Score: 187
Period size: 39 Copynumber: 2.7 Consensus size: 39
59339371 TCACCACCAC
*
59339381 CGAATGCCTTCGGGACTTAGCCTGGATATAATACCAGCA
1 CGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCA
*
59339420 CGAATGCCTTCAGGACTTAGCCCGGATATAATACCAGCA
1 CGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCA
59339459 -GAATGCCTTCGGGACTTAGCCCGGATAT
1 CGAATGCCTTCGGGACTTAGCCCGGATAT
59339487 TTTTCTAGCA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 27 0.42
39 37 0.58
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (39 bp):
CGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCA
Found at i:59339522 original size:77 final size:77
Alignment explanation
Indices: 59339382--59339603 Score: 218
Period size: 77 Copynumber: 2.9 Consensus size: 77
59339372 CACCACCACC
* * * * * *
59339382 GAATGCCTTCGGGACTTAGCCTGGATATAATACCAGCACGAATGCCTTCAGGAC-TT-AGCCCGG
1 GAATGCCTTCGGGACTTAGCCCGGATATATTTCCAGCACTAA-GCCTGC-GGACTTTAAGTCCGG
59339445 ATATAATACCAGCA
64 ATATAATACCAGCA
* * *
59339459 GAATGCCTTCGGGACTTAGCCCGGATATTTTTCTAGCACTTAGCCTGCGGACTTTAAGTCCGGAT
1 GAATGCCTTCGGGACTTAGCCCGGATATATTTCCAGCACTAAGCCTGCGGACTTTAAGTCCGGAT
* *
59339524 ATATTTCCAGCA
66 ATAATACCAGCA
* * * * * *
59339536 TAAAGCCTGC-GGACTTCAAGTCCGGATATATTTCCAGCA-TAAAGCCTGTGGACTTCAAGTCCG
1 GAATGCCTTCGGGACTT--AGCCCGGATATATTTCCAGCACT-AAGCCTGCGGACTTTAAGTCCG
59339599 GATAT
63 GATAT
59339604 TTTTCCAATA
Statistics
Matches: 120, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
75 4 0.03
76 13 0.11
77 61 0.51
78 42 0.35
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (77 bp):
GAATGCCTTCGGGACTTAGCCCGGATATATTTCCAGCACTAAGCCTGCGGACTTTAAGTCCGGAT
ATAATACCAGCA
Found at i:59339524 original size:39 final size:39
Alignment explanation
Indices: 59339500--59339610 Score: 195
Period size: 39 Copynumber: 2.8 Consensus size: 39
59339490 TCTAGCACTT
*
59339500 AGCCTGCGGACTTTAAGTCCGGATATATTTCCAGCATAA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
59339539 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
* *
59339578 AGCCTGTGGACTTCAAGTCCGGATATTTTTCCA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCA
59339611 ATACCATGCA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (39 bp):
AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
Found at i:59342269 original size:22 final size:22
Alignment explanation
Indices: 59342238--59342283 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
59342228 CTATCTATTC
*
59342238 ATGTTTTCATGATTAGTCTCCA
1 ATGTTGTCATGATTAGTCTCCA
59342260 ATGTTGTCATGATTAGTCTCCA
1 ATGTTGTCATGATTAGTCTCCA
59342282 AT
1 AT
59342284 TATAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (22 bp):
ATGTTGTCATGATTAGTCTCCA
Found at i:59344744 original size:39 final size:40
Alignment explanation
Indices: 59344627--59344849 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
59344617 GCTCCTCGTT
* *
59344627 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
59344667 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
59344707 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
59344746 CAAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
59344785 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
59344826 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59344850 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:59344745 original size:79 final size:80
Alignment explanation
Indices: 59344627--59344849 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 80
59344617 GCTCCTCGTT
* * *
59344627 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCC
*
59344690 GGATTTAGTAACTCGCA
64 GGAATTAGTAACTCGCA
*
59344707 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCTGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
59344770 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * *
59344785 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTAATC-TCGCACAAATGCCTTCGGGACTTAGCC
59344846 CGGA
63 CGGA
59344850 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 45 0.36
79 57 0.45
80 24 0.19
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:59348209 original size:21 final size:21
Alignment explanation
Indices: 59348183--59348223 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
59348173 ACAAGAGACA
59348183 AGGTTTATTCATATTAAAAAT
1 AGGTTTATTCATATTAAAAAT
*
59348204 AGGTTTCTTCATATTAAAAA
1 AGGTTTATTCATATTAAAAA
59348224 CAAAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (21 bp):
AGGTTTATTCATATTAAAAAT
Found at i:59353499 original size:22 final size:22
Alignment explanation
Indices: 59353450--59353492 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
59353440 TAACATATGT
59353450 CACATATA-TCATGAGCTCAGAC
1 CACATA-ACTCATGAGCTCAGAC
59353472 CACATAACTCATGAGCTCAGA
1 CACATAACTCATGAGCTCAGA
59353493 TTGCATAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (22 bp):
CACATAACTCATGAGCTCAGAC
Found at i:59355573 original size:27 final size:27
Alignment explanation
Indices: 59355531--59355584 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
59355521 GTGTCATGTG
* *
59355531 AAATTGAATGGCAAATTATTGTTACAT
1 AAATTGAATGGCAAATTACTATTACAT
**
59355558 AAATTGAATGTTAAATTACTATTACAT
1 AAATTGAATGGCAAATTACTATTACAT
59355585 GGGTTGTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (27 bp):
AAATTGAATGGCAAATTACTATTACAT
Found at i:59356009 original size:50 final size:48
Alignment explanation
Indices: 59355831--59356053 Score: 261
Period size: 50 Copynumber: 4.6 Consensus size: 48
59355821 CTATTGTGAG
* *
59355831 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
59355879 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 -GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TT
* * *
59355930 GATTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTT
1 G-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
59355979 ACGTCACGTGTGTAGTACTAAGCGCAGGCTACTATGTGTACCAGATAATT
1 --GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
59356029 GGCA--TGTGTAGTACTAAGTGCAGGC
1 GTCACGTGTGTAGTACTAAGTGCAGGC
59356054 AACTGAGTAT
Statistics
Matches: 148, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
46 20 0.14
48 3 0.02
49 42 0.28
50 43 0.29
51 40 0.27
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (48 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:59363396 original size:24 final size:24
Alignment explanation
Indices: 59363362--59363454 Score: 118
Period size: 24 Copynumber: 3.9 Consensus size: 24
59363352 TACCAATATA
*
59363362 TCAGCTCGTAAGAGCTTACTTTTT
1 TCAGCTCGTAAGAGCTTACTGTTT
*
59363386 TTAGCTCGTAAGAGCTTACTGTTT
1 TCAGCTCGTAAGAGCTTACTGTTT
* *
59363410 TCAGCTCGTCAGAGCTTACCG-TT
1 TCAGCTCGTAAGAGCTTACTGTTT
*
59363433 TCAGCTC-AATAGAGCTTACTGT
1 TCAGCTCGTA-AGAGCTTACTGT
59363455 CCATCAGCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 19 0.32
24 40 0.68
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (24 bp):
TCAGCTCGTAAGAGCTTACTGTTT
Found at i:59365279 original size:56 final size:56
Alignment explanation
Indices: 59365212--59365324 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
59365202 CTAATTTCAT
59365212 ATTTGAAGATGTAAATTTAAAACCATATATGTTTGAAAACTCTTTCGAAGAAAAAA
1 ATTTGAAGATGTAAATTTAAAACCATATATGTTTGAAAACTCTTTCGAAGAAAAAA
59365268 ATTTGAAGATGTAAATTTAAAACCATATATGTTTGAAAACTCTTTCGAAGAAAAAA
1 ATTTGAAGATGTAAATTTAAAACCATATATGTTTGAAAACTCTTTCGAAGAAAAAA
59365324 A
1 A
59365325 ATACTTTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (56 bp):
ATTTGAAGATGTAAATTTAAAACCATATATGTTTGAAAACTCTTTCGAAGAAAAAA
Found at i:59365387 original size:22 final size:21
Alignment explanation
Indices: 59365362--59365426 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
59365352 TCCTAAAAAT
59365362 TATTATTTTAATTTTGTTTATA
1 TATTATTTTAATTTT-TTTATA
59365384 TATTA-TTTAGATTTTTTTA-A
1 TATTATTTTA-ATTTTTTTATA
59365404 -A-TATTTATAATTTTATTTATA
1 TATTATTT-TAATTTT-TTTATA
59365425 TA
1 TA
59365427 CTTTAGAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.05
19 8 0.22
20 7 0.19
21 9 0.24
22 11 0.30
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TATTATTTTAATTTTTTTATA
Found at i:59365436 original size:21 final size:20
Alignment explanation
Indices: 59365378--59365443 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 20
59365368 TTTAATTTTG
*
59365378 TTTATATAT-TATTTAG-AT
1 TTTATTTATATATTTAGAAT
* *
59365396 TTT-TTTAAATATTTATAAT
1 TTTATTTATATATTTAGAAT
59365415 TTTATTTATATACTTTAGAATT
1 TTTATTTATATA-TTTAGAA-T
59365437 TTTATTT
1 TTTATTT
59365444 TTTTAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 3 0.08
18 9 0.24
19 5 0.13
20 7 0.18
21 6 0.16
22 8 0.21
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTATTTATATATTTAGAAT
Found at i:59380475 original size:48 final size:48
Alignment explanation
Indices: 59380380--59380603 Score: 168
Period size: 48 Copynumber: 4.7 Consensus size: 48
59380370 TGATATGTGT
*
59380380 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCACTATATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACCACTATATGAGA
* * * * * * *
59380428 GCTAGTGTAAGGCGATGTTTGGAACATGGCATCGGCGA-TGTTGTGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACCACT-ATATGAGA
* * * ** * *
59380476 GCCAGTGTAAGACCATGTCTAGG-ACATGGCAT-TAGCGTTAATATGTGC
1 GCCAGTGTAAGACCATGT-TTGGAACATGGCATCGACCACT-ATATGAGA
* * * * * * *
59380524 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TTGACATGTGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACCACT-ATATGAGA
* *
59380572 GCCAGTGTAAGACCATGTTTAGAGCATGGCAT
1 GCCAGTGTAAGACCATGTTTGGAACATGGCAT
59380604 AGGCAATTCA
Statistics
Matches: 135, Mismatches: 36, Indels: 10
0.75 0.20 0.06
Matches are distributed among these distances:
47 3 0.02
48 128 0.95
49 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACCACTATATGAGA
Found at i:59380551 original size:96 final size:96
Alignment explanation
Indices: 59380380--59380603 Score: 254
Period size: 96 Copynumber: 2.3 Consensus size: 96
59380370 TGATATGTGT
* * *
59380380 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCACTATATGAGAGCTAGTGTAAGGCGATG
1 GCCAGTGTAAGACCATGTTTAGGACATGGCATCGACCACTATATGAGAGCTAGTGTAAGACCATG
* * ***
59380445 TTTGGAACATGGCATCGGCGATGTTGTGAGA
66 TCTGGAACATGGCATCGGCCATGACATGAGA
* * * ** * *
59380476 GCCAGTGTAAGACCATGTCTAGGACATGGCAT-TAGCGTTAATATGTGCGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTTTAGGACATGGCATCGACCACT-ATATGAGAGCTAGTGTAAGACCAT
* * *
59380540 GTCTGGGACATGGCATCGGCCTTGACATGTGA
65 GTCTGGAACATGGCATCGGCCATGACATGAGA
59380572 GCCAGTGTAAGACCATGTTTA-GAGCATGGCAT
1 GCCAGTGTAAGACCATGTTTAGGA-CATGGCAT
59380604 AGGCAATTCA
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
95 5 0.05
96 102 0.95
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTTTAGGACATGGCATCGACCACTATATGAGAGCTAGTGTAAGACCATG
TCTGGAACATGGCATCGGCCATGACATGAGA
Found at i:59381473 original size:55 final size:55
Alignment explanation
Indices: 59381384--59381488 Score: 174
Period size: 55 Copynumber: 1.9 Consensus size: 55
59381374 ACACACGGGT
*
59381384 GTGTGTCTAGGCCGTCTGTGACACACGGTCTGCCCCACTAGCATGTAGTCCGCCC
1 GTGTGTCTAGGCCGTCTGTGACACACGGTCTGCCCCACGAGCATGTAGTCCGCCC
* * *
59381439 GTGTGTCTTGGCCGTCTGTGACACACGGTTTGCCCCACGAGCGTGTAGTC
1 GTGTGTCTAGGCCGTCTGTGACACACGGTCTGCCCCACGAGCATGTAGTC
59381489 TGATCGTGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.13, C:0.31, G:0.30, T:0.26
Consensus pattern (55 bp):
GTGTGTCTAGGCCGTCTGTGACACACGGTCTGCCCCACGAGCATGTAGTCCGCCC
Found at i:59385426 original size:19 final size:19
Alignment explanation
Indices: 59385402--59385441 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59385392 TGTGTCATCA
*
59385402 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
59385421 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
59385440 TA
1 TA
59385442 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:59388386 original size:12 final size:12
Alignment explanation
Indices: 59388366--59388396 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
59388356 ATCATACTGT
*
59388366 CCCTTGAATGGA
1 CCCTCGAATGGA
59388378 CCCTCGAATGGA
1 CCCTCGAATGGA
59388390 CCCTCGA
1 CCCTCGA
59388397 GGTCCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.19
Consensus pattern (12 bp):
CCCTCGAATGGA
Found at i:59397409 original size:39 final size:40
Alignment explanation
Indices: 59397205--59397427 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
59397195 TTGAATGCTG
* * * * * *
59397205 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
59397245 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
59397285 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
59397325 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
59397365 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
59397404 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
59397428 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:59397447 original size:79 final size:80
Alignment explanation
Indices: 59397280--59397462 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
59397270 GTGCGAGATA
* * *
59397280 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
59397345 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
59397360 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
59397424 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
59397439 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
59397463 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:59403127 original size:40 final size:40
Alignment explanation
Indices: 59403096--59403226 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 40
59403086 GGACTAAGAT
* **
59403096 CCGAAGGCATTTGTGCGACTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGACATACAAATTCCGGGTTAAGTC
* *
59403136 CCGAAGGCCTTTGTGCGAGATACAAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGACATACAAATTCCGGGTTAAGTC
* ** ** *
59403176 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGACATACAAATTCCGGGTTAAGTC
59403216 CCGAAGGCATT
1 CCGAAGGCATT
59403227 GTATGAGTTA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGACATACAAATTCCGGGTTAAGTC
Found at i:59403256 original size:39 final size:40
Alignment explanation
Indices: 59403043--59403263 Score: 130
Period size: 40 Copynumber: 5.5 Consensus size: 40
59403033 TTGAATGCTG
* * * * *
59403043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTAC-GAGT-TCTAAAA
* * * * * * *
59403083 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGACTTATTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTACGAGTTCTAAAA
* * * * * *
59403123 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATAC-AAAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTACGAG-TTCTAAAA
* * *
59403163 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTACGAGTTCTAAAA
* * *
59403203 TCCGGGTTAAGTCCCGAAGGCATT-GTATGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTACGAGTT-CTAAAA
*
59403243 T-CGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
59403264 CTTGAACGAG
Statistics
Matches: 149, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
39 28 0.19
40 112 0.75
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTACGAGTTCTAAAA
Found at i:59406898 original size:87 final size:87
Alignment explanation
Indices: 59406752--59406924 Score: 337
Period size: 87 Copynumber: 2.0 Consensus size: 87
59406742 ATTGTTCGTG
59406752 AAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAGCTGAATAAAGTGACGATAAA
1 AAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAGCTGAATAAAGTGACGATAAA
*
59406817 GAACAAATATCCGTTGCCGCGC
66 GAACAAATATCCGTTACCGCGC
59406839 AAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAGCTGAATAAAGTGACGATAAA
1 AAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAGCTGAATAAAGTGACGATAAA
59406904 GAACAAATATCCGTTACCGCG
66 GAACAAATATCCGTTACCGCG
59406925 TATCGATGAT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.20
Consensus pattern (87 bp):
AAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAGCTGAATAAAGTGACGATAAA
GAACAAATATCCGTTACCGCGC
Found at i:59407327 original size:93 final size:93
Alignment explanation
Indices: 59407166--59407351 Score: 327
Period size: 93 Copynumber: 2.0 Consensus size: 93
59407156 AGTTGTGTTC
* * *
59407166 ATTGATGACATTTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAGCATCTGAGGCTAGTGCT
1 ATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAGCACCTGAGACTAGTGCT
*
59407231 GCAAATTTTGCGGGATAAGCAGTTATAT
66 GCAAATTTTGCAGGATAAGCAGTTATAT
*
59407259 ATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAGCACCTGAGACTAGTGTT
1 ATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAGCACCTGAGACTAGTGCT
59407324 GCAAATTTTGCAGGATAAGCAGTTATAT
66 GCAAATTTTGCAGGATAAGCAGTTATAT
59407352 GCTAAGTTCA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (93 bp):
ATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAGCACCTGAGACTAGTGCT
GCAAATTTTGCAGGATAAGCAGTTATAT
Found at i:59407663 original size:101 final size:101
Alignment explanation
Indices: 59407505--59407707 Score: 379
Period size: 101 Copynumber: 2.0 Consensus size: 101
59407495 GAGCTTTTTG
59407505 GGGCTCGCCGGTTATTACCGACGATTTGTCAAAGGTTTCTCGATGATAGCCACACCAATGACGAA
1 GGGCTCGCCGGTTATTACCGACGATTTGTCAAAGGTTTCTCGATGATAGCCACACCAATGACGAA
*
59407570 GCTACTTCAAAAGGATGTTAAGTTCGAGTGGACGGA
66 GCTACTTCAAAAGGATGTTAAGTTCGAATGGACGGA
59407606 GGGCTCGCCGGTTATTACCGACGATTTGTCAAAGGTTTCTCGATGATAGCCACACCAATGACGAA
1 GGGCTCGCCGGTTATTACCGACGATTTGTCAAAGGTTTCTCGATGATAGCCACACCAATGACGAA
* *
59407671 GTTGCTTCAAAAGGATGTTAAGTTCGAATGGACGGA
66 GCTACTTCAAAAGGATGTTAAGTTCGAATGGACGGA
59407707 G
1 G
59407708 AAATGTCAGA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (101 bp):
GGGCTCGCCGGTTATTACCGACGATTTGTCAAAGGTTTCTCGATGATAGCCACACCAATGACGAA
GCTACTTCAAAAGGATGTTAAGTTCGAATGGACGGA
Found at i:59409006 original size:79 final size:79
Alignment explanation
Indices: 59408875--59409032 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 79
59408865 TTTTAGCACT
59408875 GCTTTTCACCCCCAAACCGATGGTCAATCCGAGCGGATAATTCAGATACTTGAGGATATGTTGAG
1 GCTTTTCACCCCCAAACCGATGGTCAATCCGAGCGGATAATTCAGATACTTGAGGATATGTTGAG
59408940 ATGTTGCATCCTCG
66 ATGTTGCATCCTCG
* *
59408954 GCTTTTCATCCCCAAACCGATGGTCAATCTGAGCGGATAATTCAGATACTTGAGGATATGTTGAG
1 GCTTTTCACCCCCAAACCGATGGTCAATCCGAGCGGATAATTCAGATACTTGAGGATATGTTGAG
59409019 ATGTTGCATCCTCG
66 ATGTTGCATCCTCG
59409033 AGTTCAGTAG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (79 bp):
GCTTTTCACCCCCAAACCGATGGTCAATCCGAGCGGATAATTCAGATACTTGAGGATATGTTGAG
ATGTTGCATCCTCG
Found at i:59413887 original size:46 final size:46
Alignment explanation
Indices: 59413820--59413995 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
59413810 TATTTTGGCA
* *
59413820 TCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * *
59413866 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
** *
59413913 TTTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* ** * *
59413959 CCCGGGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59413996 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 66 0.64
47 35 0.34
48 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:59416989 original size:15 final size:15
Alignment explanation
Indices: 59416969--59417020 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
59416959 CTTGGGTTTT
59416969 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
59416984 TTTATTCTGTG-TTTC
1 TTTATTCTG-GATTTC
* *
59416999 -TCAATCTTGGATTTC
1 TTTATTC-TGGATTTC
59417014 TTTATTC
1 TTTATTC
59417021 GGTTTTCTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 5 0.17
15 19 0.66
16 5 0.17
ACGTcount: A:0.13, C:0.15, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:59424399 original size:101 final size:99
Alignment explanation
Indices: 59424265--59424458 Score: 246
Period size: 101 Copynumber: 1.9 Consensus size: 99
59424255 CGACCAACAA
*
59424265 TTCAGTACACATAGTAGCCTCCACTTAGTACTACACGCAT-GACCTAACCATCTAATACATGTAG
1 TTCAGTACACATAGTAGCCTCCACTTAGTACTACA--CATCGACCTAACCATCTAATACACGTAG
59424329 TAGCCTACACTTAGTACTACACACATGACTGAAGTT
64 TAGCCTACACTTAGTACTACACACATGACTGAAGTT
* * * * **
59424365 TTCAGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAG
1 TTCA-GTACACATAGTAGCCTCCACTTAGTACTACACAT-CGACCTAACCATCTAATACACGTAG
* * * *
59424430 TAGTCTGCACTTAGTACTACCCACGTGAC
64 TAGCCTACACTTAGTACTACACACATGAC
59424459 CTAAAACCAT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
99 3 0.04
100 4 0.05
101 73 0.91
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (99 bp):
TTCAGTACACATAGTAGCCTCCACTTAGTACTACACATCGACCTAACCATCTAATACACGTAGTA
GCCTACACTTAGTACTACACACATGACTGAAGTT
Found at i:59424439 original size:50 final size:50
Alignment explanation
Indices: 59424213--59424506 Score: 233
Period size: 50 Copynumber: 5.8 Consensus size: 50
59424203 GTAACCGAAG
* *
59424213 CTATCTAGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACC-AA
1 CTATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
* *
59424262 CAAT-TCAGTACACATAGTAGCCTCCACTTAGTACTACAC--GCATGACCTAA
1 CTATCT-AGTACACATAGTAGCCTGCACTTAGTACTACACATGC--GACCTAA
* * ** * ***
59424312 CCATCTAATACATGTAGTAGCCTACACTTAGTACTACACACATGA-CTGAA
1 CTATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AA
* * * *
59424362 GT-TTTCAGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTAA
1 CTATCT-A-GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
* * * * * *
59424413 CTATCTGGTACACGTAGTAGTCTGCACTTAGTACTACCCACGTGACCTAAAA
1 CTATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT--AA
* * *
59424465 CCATCTTA-AACACATAGTAGCCTGCACATAGTACTACACATG
1 CTATC-TAGTACACATAGTAGCCTGCACTTAGTACTACACATG
59424507 TGTTCTCACA
Statistics
Matches: 189, Mismatches: 41, Indels: 27
0.74 0.16 0.11
Matches are distributed among these distances:
47 2 0.01
48 1 0.01
49 41 0.22
50 73 0.39
51 33 0.17
52 38 0.20
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (50 bp):
CTATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
Found at i:59429106 original size:18 final size:18
Alignment explanation
Indices: 59429083--59429133 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
59429073 ACAATTATTT
59429083 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCTCC
* *
59429101 TCTCTTCATCTATTTCTTC
1 TCTCTTCTTCT-TTTCTCC
59429120 T-TCTTCTTCTTTTC
1 TCTCTTCTTCTTTTC
59429134 CTCTACAGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 18 0.62
19 7 0.24
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (18 bp):
TCTCTTCTTCTTTTCTCC
Found at i:59430399 original size:28 final size:28
Alignment explanation
Indices: 59430362--59430477 Score: 137
Period size: 28 Copynumber: 4.2 Consensus size: 28
59430352 GGAGGAAGTG
59430362 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
** *
59430390 TTCTGGTGGCTCTATCACAAATATCAGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
59430418 TTCTGGTGGCCCTGCCACGATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
59430446 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
59430472 TTCTGG
1 TTCTGG
59430478 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 5 0.07
27 7 0.10
28 61 0.84
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:59430451 original size:56 final size:54
Alignment explanation
Indices: 59430361--59430477 Score: 153
Period size: 56 Copynumber: 2.1 Consensus size: 54
59430351 TGGAGGAAGT
* * *
59430361 GTTCTGGTGGCTCTGCCACAAATATCTGTTTCTGGTGGCTCTATCACAAATATCA
1 GTTCTGGTGGCCCTGCCACAAATATCTGTATCTGGTGACTCTATCAC-AATATCA
* * * *
59430416 GTTTCTGGTGGCCCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAATATCT
1 G-TTCTGGTGGCCCTGCCACAAATATCTGTATCTGGTGACTCTATCACAATATCA
59430471 GTTCTGG
1 GTTCTGG
59430478 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 6 0.11
55 8 0.15
56 40 0.74
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
GTTCTGGTGGCCCTGCCACAAATATCTGTATCTGGTGACTCTATCACAATATCA
Found at i:59439944 original size:18 final size:18
Alignment explanation
Indices: 59439921--59439957 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
59439911 TTCTGAGTGC
59439921 TGGTTACATGATTAACCT
1 TGGTTACATGATTAACCT
59439939 TGGTTACATGATTAACCT
1 TGGTTACATGATTAACCT
59439957 T
1 T
59439958 ATCTGATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (18 bp):
TGGTTACATGATTAACCT
Found at i:59458242 original size:13 final size:13
Alignment explanation
Indices: 59458224--59458248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59458214 CTCGGCAGGG
59458224 ACATGCCCGTGTA
1 ACATGCCCGTGTA
59458237 ACATGCCCGTGT
1 ACATGCCCGTGT
59458249 GCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (13 bp):
ACATGCCCGTGTA
Found at i:59459222 original size:13 final size:13
Alignment explanation
Indices: 59459204--59459228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59459194 CTCGGCAGGG
59459204 ACATGCCCGTGTA
1 ACATGCCCGTGTA
59459217 ACATGCCCGTGT
1 ACATGCCCGTGT
59459229 GCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (13 bp):
ACATGCCCGTGTA
Found at i:59481426 original size:27 final size:27
Alignment explanation
Indices: 59481396--59481573 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59481386 ATATTGAGTC
* * * *
59481396 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59481423 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59481450 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
59481478 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
59481505 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59481532 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59481559 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59481574 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59481535 original size:82 final size:81
Alignment explanation
Indices: 59481417--59481572 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59481407 TGCTATATAA
* *
59481417 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59481482 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59481499 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59481563 CACTTAGTGC
65 CACTTAGTGC
59481573 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59482567 original size:93 final size:94
Alignment explanation
Indices: 59482454--59482643 Score: 355
Period size: 93 Copynumber: 2.0 Consensus size: 94
59482444 CTCCTTAACA
* *
59482454 TCAATTTATTCACATCTTTAATCATGCTACATTCGACCATTATTTAACAATAATTCATGCATCGT
1 TCAATTTATGCACATCTTTAATCATGCTACATTCGACCATTATTTAACAATAATTCATGCATCCT
59482519 TTTTATTAAACACTCAAAATCAACCAT-T
66 TTTTATTAAACACTCAAAATCAACCATCT
59482547 TCAATTTATGCACATCTTTAATCATGCTACATTCGACCATTATTTAACAATAATTCATGCATCCT
1 TCAATTTATGCACATCTTTAATCATGCTACATTCGACCATTATTTAACAATAATTCATGCATCCT
59482612 TTTTATTAAACACTCAAAATCAACCATCT
66 TTTTATTAAACACTCAAAATCAACCATCT
59482641 TCA
1 TCA
59482644 TACCTCATCA
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 90 0.96
94 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (94 bp):
TCAATTTATGCACATCTTTAATCATGCTACATTCGACCATTATTTAACAATAATTCATGCATCCT
TTTTATTAAACACTCAAAATCAACCATCT
Found at i:59496447 original size:25 final size:24
Alignment explanation
Indices: 59496411--59496463 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
59496401 AAGTTCAAGC
59496411 GAGCCATATCAGGAA-GCTCATAAA
1 GAGCCATATCA-GAATGCTCATAAA
*
59496435 GAGCCTATATCAGAATGCTCATAGA
1 GAGCC-ATATCAGAATGCTCATAAA
59496460 GAGC
1 GAGC
59496464 TGCATTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGAATGCTCATAAA
Found at i:59496995 original size:21 final size:21
Alignment explanation
Indices: 59496956--59496995 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
59496946 TCAATTTAAC
* *
59496956 ATCATTTTAATCCATTTCATT
1 ATCAATTTAATCCAATTCATT
*
59496977 ATCAATTTAATTCAATTCA
1 ATCAATTTAATCCAATTCA
59496996 CACCCTAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.47
Consensus pattern (21 bp):
ATCAATTTAATCCAATTCATT
Found at i:59500316 original size:15 final size:15
Alignment explanation
Indices: 59500296--59500327 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
59500286 TAAAACTCAT
*
59500296 GTGAGCTTAAAATGG
1 GTGAGCCTAAAATGG
59500311 GTGAGCCTAAAATGG
1 GTGAGCCTAAAATGG
59500326 GT
1 GT
59500328 TTGGGTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.25
Consensus pattern (15 bp):
GTGAGCCTAAAATGG
Found at i:59515202 original size:26 final size:26
Alignment explanation
Indices: 59515173--59515224 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
59515163 TTGCCATGTT
59515173 TTAAAATTCTTTCCTGTGAATTTCGA
1 TTAAAATTCTTTCCTGTGAATTTCGA
59515199 TTAAAATTCTTTCCTGTGAATTTCGA
1 TTAAAATTCTTTCCTGTGAATTTCGA
59515225 AGGCTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (26 bp):
TTAAAATTCTTTCCTGTGAATTTCGA
Found at i:59521002 original size:118 final size:118
Alignment explanation
Indices: 59520794--59521032 Score: 451
Period size: 118 Copynumber: 2.0 Consensus size: 118
59520784 ACACAACCAG
*
59520794 GAACACGTTGGATACTCCCGGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
1 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
*
59520859 CAATATTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
66 CAATACTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
59520912 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
1 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
*
59520977 CAATACTTCATTTCAAAGGTTCGAGGCCACAAACCTACATATTGAAGGTAAAA
66 CAATACTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
59521030 GAA
1 GAA
59521033 AAGCACCAAT
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (118 bp):
GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
CAATACTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
Found at i:59523330 original size:26 final size:26
Alignment explanation
Indices: 59523301--59523439 Score: 233
Period size: 26 Copynumber: 5.3 Consensus size: 26
59523291 TGATACAAAT
*
59523301 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59523327 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59523353 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59523379 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59523405 TGATAATGGGTTAGGTAAATGTCCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59523431 TGATAATGG
1 TGATAATGG
59523440 NNNNNNNNNN
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59534493 original size:27 final size:26
Alignment explanation
Indices: 59534463--59534513 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
59534453 ACCACTACTG
59534463 ATCAGGATGCTCACAGAAACTATATAT
1 ATCAGGATGCTCA-AGAAACTATATAT
* *
59534490 ATCAGTATGCTCAAGAGACTATAT
1 ATCAGGATGCTCAAGAAACTATAT
59534514 CGGGATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (26 bp):
ATCAGGATGCTCAAGAAACTATATAT
Found at i:59537374 original size:29 final size:30
Alignment explanation
Indices: 59537320--59537378 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
59537310 GAATTAAATC
*
59537320 AAATTAAAATTTCATATATAAAATTGCACA
1 AAATTAAAATTTCATAAATAAAATTGCACA
*
59537350 AAATTAAAATTT-ATAAATACAATTGCACA
1 AAATTAAAATTTCATAAATAAAATTGCACA
59537379 TTAAATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATTAAAATTTCATAAATAAAATTGCACA
Found at i:59537814 original size:10 final size:10
Alignment explanation
Indices: 59537799--59537825 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
59537789 AGTGATAGAT
59537799 AAAAAAAAAG
1 AAAAAAAAAG
59537809 AAAAAAAAAG
1 AAAAAAAAAG
59537819 AAAAAAA
1 AAAAAAA
59537826 CAATGTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:59538224 original size:22 final size:23
Alignment explanation
Indices: 59538194--59538239 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
59538184 CTGTTTTACA
*
59538194 TAAATAAAA-TTAGCACAAATTT
1 TAAAAAAAAGTTAGCACAAATTT
*
59538216 TAAAAAAAAGTTAGCACAACTTT
1 TAAAAAAAAGTTAGCACAAATTT
59538239 T
1 T
59538240 TTATGTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (23 bp):
TAAAAAAAAGTTAGCACAAATTT
Found at i:59542247 original size:24 final size:24
Alignment explanation
Indices: 59542215--59542262 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
59542205 ATTGAGCTAA
*
59542215 AACAGTAAGCTCTGACAAGTTGAG
1 AACAGTAAGCTCTGACAAGCTGAG
*
59542239 AACAGTAAGCTCTTACAAGCTGAG
1 AACAGTAAGCTCTGACAAGCTGAG
59542263 GTGAGTCCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (24 bp):
AACAGTAAGCTCTGACAAGCTGAG
Found at i:59542669 original size:13 final size:13
Alignment explanation
Indices: 59542651--59542716 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
59542641 AGTTTGGCAA
*
59542651 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
59542664 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
59542677 GGCTATGGAAAAG
1 TGCTTTTGAAAAG
59542690 TGCTTTT-AAGAAG
1 TGCTTTTGAA-AAG
59542703 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
59542716 T
1 T
59542717 TTAATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:59546516 original size:18 final size:19
Alignment explanation
Indices: 59546493--59546528 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59546483 AACTTGGCAC
*
59546493 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
59546511 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
59546529 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:59550619 original size:48 final size:48
Alignment explanation
Indices: 59550548--59552024 Score: 2540
Period size: 48 Copynumber: 30.8 Consensus size: 48
59550538 TACAAGATAA
* * * * * * *
59550548 ATATATATGTGTGGTGAAGCCGAATAGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
59550596 ATATGTGTATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
59550644 ATTTGTATATGTAGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59550692 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59550740 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59550788 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59550836 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59550884 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59550932 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59550980 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551028 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551076 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551124 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551172 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551220 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551268 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551316 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551364 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551412 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
59551460 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
59551508 ATATGTATATGTGGTAAAGCCAAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551556 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551604 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551652 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551700 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551748 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551796 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551844 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
59551892 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
59551940 ATATGTATATGTGGTAAAGTCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
59551988 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
59552025 TGTTGTAACA
Statistics
Matches: 1361, Mismatches: 68, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 1361 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:59552119 original size:37 final size:37
Alignment explanation
Indices: 59552069--59552171 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
59552059 GGAAATGTAT
*
59552069 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
*
59552106 TCCGGGTAAGACCCGATGACTACATGCGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
* *
59552143 TCCGGGTAAGATCCGATAACTACATGTGG
1 TCCGGGTAAGACCCGATGACTACATGTGG
59552172 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
Found at i:59556017 original size:49 final size:49
Alignment explanation
Indices: 59555954--59556086 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
59555944 GCACATCAAA
* * *
59555954 GTCGATGCCATGTCCCAGATAGGTCTTACATTGACTTTCATATATTGAG-
1 GTCGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCG-GT
* * * *
59556003 GTCGATGCCGTGTCCCAGATAGGTCGTACACTGGCTCTCATCTATCGGT
1 GTCGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGT
* * *
59556052 GTCGTTGCCATGTCCTAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGATAGGTCTTACACTGAC
59556087 ACACAACAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 69 0.99
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGT
Found at i:59556161 original size:48 final size:48
Alignment explanation
Indices: 59556104--59556366 Score: 302
Period size: 48 Copynumber: 5.6 Consensus size: 48
59556094 AAGCTGACGC
* *
59556104 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* * ** * *
59556152 CATGTCCCAGACATGTCATACACTAGCT-CT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* *
59556198 CATGTCCCAAACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* * * *
59556246 CATGTCCTAGACATATCTTACACTTGCTGGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* * *
59556294 CATGTCCCAGACATGTCTTACACTAGCT-CTCA-ATAT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGT-ATATCTCGAGGCCGATG
** *
59556340 CATGTCATAGACATGTTTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
59556367 ACACATATCA
Statistics
Matches: 182, Mismatches: 30, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
46 69 0.38
47 6 0.03
48 107 0.59
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
Found at i:59556220 original size:94 final size:96
Alignment explanation
Indices: 59556104--59556321 Score: 296
Period size: 94 Copynumber: 2.3 Consensus size: 96
59556094 AAGCTGACGC
* * *
59556104 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATATC
* *
59556169 ATACACTAGCT-CT-CGTCTCAATGCCGATG
66 ATACACTAGCTGCTACATCTCAAGGCCGATG
* * *
59556198 CATGTCCCAAACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCTAGACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATATC
* * * * * *
59556263 TTACACTTGCTGGTATATCTCGAGGCTGATG
66 ATACACTAGCTGCTACATCTCAAGGCCGATG
59556294 CATGTCCCAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
59556322 CTCAATATGT
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 68 0.64
95 1 0.01
96 37 0.35
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (96 bp):
CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATATC
ATACACTAGCTGCTACATCTCAAGGCCGATG
Found at i:59556336 original size:94 final size:92
Alignment explanation
Indices: 59556104--59556366 Score: 287
Period size: 94 Copynumber: 2.8 Consensus size: 92
59556094 AAGCTGACGC
* *
59556104 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGC-T-TATATCTCGAGGCCGATGCATGTCCTAGACATGTC
* * *
59556169 ATACACTAGCTCTCGTCTCAATGCCGATG
64 TTACACTAGCTCTCATCTCAAGGCCGATG
* * *
59556198 CATGTCCCAAACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCTAGACATATC
1 CATGTCCCAGACATGTCTTACACTAGCT--TATATCTCGAGGCCGATGCATGTCCTAGACATGTC
* * * * *
59556263 TTACACTTGCTGGTATATCTCGAGGCTGATG
64 TTACACTAGCT-CT-CATCTCAAGGCCGATG
* * * *
59556294 CATGTCCCAGACATGTCTTACACTAGCTCTCA-ATAT-GTGGCCGATGCATGTCATAGACATGTT
1 CATGTCCCAGACATGTCTTACACTAGCT-T-ATATCTCGAGGCCGATGCATGTCCTAGACATGTC
59556357 TTACACTAGC
64 TTACACTAGC
59556367 ACACATATCA
Statistics
Matches: 143, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 99 0.69
95 5 0.03
96 38 0.27
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATCTCGAGGCCGATGCATGTCCTAGACATGTCTT
ACACTAGCTCTCATCTCAAGGCCGATG
Found at i:59556361 original size:142 final size:141
Alignment explanation
Indices: 59556104--59556363 Score: 362
Period size: 142 Copynumber: 1.8 Consensus size: 141
59556094 AAGCTGACGC
*
59556104 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAAGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * *
59556169 ATACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAAACATGTCTTACACTGGCTGGTATATC
66 ATACACTAGCTCTCATAT-AATGCCGATGCATGTCACAAACATGTCTTACACTGGCTGGTATATC
59556234 TCGAGGCCGATG
130 TCGAGGCCGATG
* * *
59556246 CATGTCCTAGACATA-TCTTACACTTGCTGGTATATCTCGAGGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACA-AGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGT
* * * * *
59556310 CTTACACTAGCTCTCA-ATATGTGGCCGATGCATGTCATAGACATGTTTTACACT
65 CATACACTAGCTCTCATATA-AT-GCCGATGCATGTCACAAACATGTCTTACACT
59556364 AGCACACATA
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
140 1 0.01
141 2 0.02
142 99 0.96
143 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (141 bp):
CATGTCCCAGACAAGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
ATACACTAGCTCTCATATAATGCCGATGCATGTCACAAACATGTCTTACACTGGCTGGTATATCT
CGAGGCCGATG
Found at i:59565569 original size:29 final size:30
Alignment explanation
Indices: 59565521--59565582 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
59565511 TACCGAATTT
*
59565521 ATTCGTAAAAGTGTACACATGAATTTAATA
1 ATTCGTAAAAGTGTAAACATGAATTTAATA
* *
59565551 ATTC-TAACAGTGTAAACATGAGTTTAATA
1 ATTCGTAAAAGTGTAAACATGAATTTAATA
59565580 ATT
1 ATT
59565583 TTGAGTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (30 bp):
ATTCGTAAAAGTGTAAACATGAATTTAATA
Found at i:59568095 original size:48 final size:49
Alignment explanation
Indices: 59567972--59568298 Score: 380
Period size: 48 Copynumber: 6.6 Consensus size: 49
59567962 AGGATAAGAT
* *
59567972 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATTG-G
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAT-TAGAG
* * *
59568021 TACCGATGCCATGTTCCAAACTTGGTCTTACACTAGCTCACATATTA-AG
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAGAG
* * *
59568070 GCCGATACCATG-TCCAAGACATGGTCTTACACTAGCTCTCATATCGAGGCTG
1 GCCGATGCCATGTTCCAA-ACATGGTCTTACACTAGCTCTCATAT-TA-G-AG
* *
59568122 GCCGATACCATG-TCCAAGACATGGTCTTACACTAGCTCTCATATATTG-G
1 GCCGATGCCATGTTCCAA-ACATGGTCTTACACTAGCTCTCATAT-TAGAG
* * *
59568171 TACCGATGCCATGTTCCAAACTTGGTCTTACACTAGCTCACATATTA-AG
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAGAG
* * *
59568220 GCCGATACCATGTTCCAAACATGGTCTTACACTAGCTCTCATA-TAAAA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAGAG
59568268 GCCGATGCCATGTTCCAAACATGGTCTTACA
1 GCCGATGCCATGTTCCAAACATGGTCTTACA
59568299 TTGGCTTACA
Statistics
Matches: 242, Mismatches: 25, Indels: 22
0.84 0.09 0.08
Matches are distributed among these distances:
47 7 0.03
48 104 0.43
49 6 0.02
50 74 0.31
51 6 0.02
52 45 0.19
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAGAG
Found at i:59568243 original size:150 final size:150
Alignment explanation
Indices: 59567972--59568263 Score: 543
Period size: 150 Copynumber: 1.9 Consensus size: 150
59567962 AGGATAAGAT
*
59567972 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATTGGTACCGATGCCATGTTC
1 GCCGATACCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATTGGTACCGATGCCATGTTC
59568037 CAAACTTGGTCTTACACTAGCTCACATATTAAGGCCGATACCATGTCCAAGACATGGTCTTACAC
66 CAAACTTGGTCTTACACTAGCTCACATATTAAGGCCGATACCATGTCCAAGACATGGTCTTACAC
59568102 TAGCTCTCATATCGAGGCTG
131 TAGCTCTCATATCGAGGCTG
59568122 GCCGATACCATGT-CCAAGACATGGTCTTACACTAGCTCTCATATATTGGTACCGATGCCATGTT
1 GCCGATACCATGTCCCAA-ACATGGTCTTACACTAGCTCTCATATATTGGTACCGATGCCATGTT
59568186 CCAAACTTGGTCTTACACTAGCTCACATATTAAGGCCGATACCATGTTCCAA-ACATGGTCTTAC
65 CCAAACTTGGTCTTACACTAGCTCACATATTAAGGCCGATACCATG-TCCAAGACATGGTCTTAC
59568250 ACTAGCTCTCATAT
129 ACTAGCTCTCATAT
59568264 AAAAGCCGAT
Statistics
Matches: 139, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
149 4 0.03
150 130 0.94
151 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (150 bp):
GCCGATACCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATTGGTACCGATGCCATGTTC
CAAACTTGGTCTTACACTAGCTCACATATTAAGGCCGATACCATGTCCAAGACATGGTCTTACAC
TAGCTCTCATATCGAGGCTG
Found at i:59568261 original size:98 final size:97
Alignment explanation
Indices: 59567972--59568298 Score: 412
Period size: 98 Copynumber: 3.3 Consensus size: 97
59567962 AGGATAAGAT
* * *
59567972 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA-TATTGGTACCGATGCCATGTT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAGTGG--CCGATACCATGTT
* *
59568036 CCAAACTTGGTCTTACACTAGCTCACATAT-TAAG
64 CCAAACATGGTCTTACACTAGCTCTCATATAT-AG
* *
59568070 GCCGATACCATG-TCCAAGACATGGTCTTACACTAGCTCTCATATCGAGGCTGGCCGATACCATG
1 GCCGATGCCATGTTCCAA-ACATGGTCTTACACTAGCTCTCATAT-TA-G-TGGCCGATACCATG
*
59568134 -TCCAAGACATGGTCTTACACTAGCTCTCATATATTG
62 TTCCAA-ACATGGTCTTACACTAGCTCTCATATATAG
* * *
59568170 GTACCGATGCCATGTTCCAAACTTGGTCTTACACTAGCTCACATATTA-AGGCCGATACCATGTT
1 G--CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAGTGGCCGATACCATGTT
* *
59568234 CCAAACATGGTCTTACACTAGCTCTCATATAAAA
64 CCAAACATGGTCTTACACTAGCTCTCATATATAG
59568268 GCCGATGCCATGTTCCAAACATGGTCTTACA
1 GCCGATGCCATGTTCCAAACATGGTCTTACA
59568299 TTGGCTTACA
Statistics
Matches: 201, Mismatches: 17, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
96 29 0.14
97 4 0.02
98 77 0.38
99 10 0.05
100 37 0.18
101 2 0.01
102 37 0.18
103 5 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (97 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATTAGTGGCCGATACCATGTTCC
AAACATGGTCTTACACTAGCTCTCATATATAG
Found at i:59571791 original size:11 final size:11
Alignment explanation
Indices: 59571775--59571799 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59571765 TGAATGCTTT
59571775 ATGTATGTTAA
1 ATGTATGTTAA
59571786 ATGTATGTTAA
1 ATGTATGTTAA
59571797 ATG
1 ATG
59571800 GAGTGTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (11 bp):
ATGTATGTTAA
Found at i:59575320 original size:47 final size:48
Alignment explanation
Indices: 59575196--59575324 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
59575186 ATGTGAATGA
** *
59575196 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTAGGGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGGAGAAGT
* *
59575244 TACCTTGATTTGGCTATGGGCCATGGTATAGGTATTCCA-GGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGGAGAAGT
* * * *
59575291 TGCCTTGATTTTGCTACGGGTCATAGTATAGGTA
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
59575325 CTTACCGATT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 35 0.49
48 36 0.51
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGGAGAAGT
Found at i:59579757 original size:47 final size:49
Alignment explanation
Indices: 59579688--59579812 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
59579678 ATAGGGTATA
* * * **
59579688 ATGTCACAGACATGGTCTTACACTGGCTCATC-CATCAA-GTAGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCAAGGCAGACACC
* * *
59579735 ATGTCCCAGACGTGGTCTTACACTGAC-CATCGAAATCAAGGCCGACACC
1 ATGTCCCAGACATGGTCTTACACTGGCTCATC-AAATCAAGGCAGACACC
*
59579784 ATGTCCCAGACATGGTCTTACACTAGCTC
1 ATGTCCCAGACATGGTCTTACACTGGCTC
59579813 TCACATATCC
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 4 0.06
47 24 0.38
48 5 0.08
49 29 0.46
50 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (49 bp):
ATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCAAGGCAGACACC
Found at i:59579911 original size:46 final size:46
Alignment explanation
Indices: 59579791--59579947 Score: 146
Period size: 46 Copynumber: 3.4 Consensus size: 46
59579781 ACCATGTCCC
* * *
59579791 AGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCGATGCCATGTCCT
1 AGACATAGTCTTACACTGGCT-T-ACATCT-CGTAGCCGATG-CATGT-CT
*
59579841 AGACATAGTCTTACACTGAC--ACATCTCGTAGCCGATGCATGTCT
1 AGACATAGTCTTACACTGGCTTACATCTCGTAGCCGATGCATGTCT
*
59579885 AAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCGATGCATGTCCC
1 -AGACATAGTCTTACACTGGCTTACATCTCGTA-GCCGATGCATGT-CT
*
59579932 AGACAT-GACTTACACT
1 AGACATAGTCTTACACT
59579948 AGCTCTCGTC
Statistics
Matches: 94, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
44 14 0.15
45 15 0.16
46 47 0.50
47 1 0.01
50 17 0.18
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
AGACATAGTCTTACACTGGCTTACATCTCGTAGCCGATGCATGTCT
Found at i:59584397 original size:15 final size:15
Alignment explanation
Indices: 59584377--59584413 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
59584367 TCCAAACTCG
59584377 AAATTCGCATAAACC
1 AAATTCGCATAAACC
*
59584392 AAATTCACATAAACC
1 AAATTCGCATAAACC
59584407 AAATTCG
1 AAATTCG
59584414 TATACTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (15 bp):
AAATTCGCATAAACC
Found at i:59586620 original size:40 final size:40
Alignment explanation
Indices: 59586530--59586749 Score: 225
Period size: 40 Copynumber: 5.5 Consensus size: 40
59586520 ACCCAAGTAT
* ** * *
59586530 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
59586568 CTTCGGGTCTTAGCCTGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
59586608 CTTTGGGACTTAGCTCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
59586648 CTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* * *
59586688 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
59586728 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
59586750 CATTCGAATA
Statistics
Matches: 147, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 113 0.77
41 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:59589269 original size:80 final size:79
Alignment explanation
Indices: 59589185--59589356 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
59589175 GGACTAAGAT
*
59589185 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
59589249 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
59589265 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
59589330 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
59589344 CCGAAGGCATTTG
1 CCGAAGGCATTTG
59589357 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:59589336 original size:39 final size:39
Alignment explanation
Indices: 59589132--59589354 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
59589122 TTGAATGCTG
* * * * *
59589132 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
59589172 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
59589211 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
59589252 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
59589292 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
59589331 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
59589355 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:59589374 original size:79 final size:80
Alignment explanation
Indices: 59589212--59589389 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
59589202 AGATACAAAT
* * * *
59589212 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
59589277 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
59589292 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
59589356 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
59589371 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59589390 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:59596263 original size:150 final size:150
Alignment explanation
Indices: 59596083--59596385 Score: 588
Period size: 150 Copynumber: 2.0 Consensus size: 150
59596073 TGCTAAATGG
59596083 AGAAGAATCGGCTAGCAAGATGTGTGCTAAGGCCGAATGTAACTTTGCATGTTAATGAGCAATGC
1 AGAAGAATCGGCTAGCAAGATGTGTGCTAAGGCCGAATGTAACTTTGCATGTTAATGAGCAATGC
59596148 ATGTGTTAAATTGATGAAAAGGGGGAGGATGCTTTACTAGTGTGTGTATATGTGTGTATTAAGTG
66 ATGTGTTAAATTGATGAAAAGGGGGAGGATGCTTTACTAGTGTGTGTATATGTGTGTATTAAGTG
59596213 TTGAAATCGACCCCAAAAAT
131 TTGAAATCGACCCCAAAAAT
*
59596233 AGAAGAATCGGCTAGCAAGATGTGTGCTAAGGTCGAATGTAACTTTGCATGTTAATGAGCAATGC
1 AGAAGAATCGGCTAGCAAGATGTGTGCTAAGGCCGAATGTAACTTTGCATGTTAATGAGCAATGC
59596298 ATGTGTTAAATTGATGAAAAGGGGGAGGATGCTTTACTAGTGTGTGTATATGTGTGTATTAAGTG
66 ATGTGTTAAATTGATGAAAAGGGGGAGGATGCTTTACTAGTGTGTGTATATGTGTGTATTAAGTG
*
59596363 TTGAGATCGACCCCAAAAAT
131 TTGAAATCGACCCCAAAAAT
59596383 AGA
1 AGA
59596386 CATGCATATT
Statistics
Matches: 151, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (150 bp):
AGAAGAATCGGCTAGCAAGATGTGTGCTAAGGCCGAATGTAACTTTGCATGTTAATGAGCAATGC
ATGTGTTAAATTGATGAAAAGGGGGAGGATGCTTTACTAGTGTGTGTATATGTGTGTATTAAGTG
TTGAAATCGACCCCAAAAAT
Found at i:59596948 original size:80 final size:79
Alignment explanation
Indices: 59596864--59597035 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
59596854 GGACTAAGAT
*
59596864 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
59596928 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
59596944 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
59597009 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
59597023 CCGAAGGCATTTG
1 CCGAAGGCATTTG
59597036 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:59597015 original size:39 final size:39
Alignment explanation
Indices: 59596811--59597033 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
59596801 TTGAATGCTG
* * * * *
59596811 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
59596851 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
59596890 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
59596931 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
59596971 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
59597010 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
59597034 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:59597053 original size:79 final size:80
Alignment explanation
Indices: 59596891--59597068 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
59596881 AGATACAAAT
* * * *
59596891 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
59596956 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
59596971 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
59597035 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
59597050 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59597069 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:59599021 original size:40 final size:39
Alignment explanation
Indices: 59598964--59599100 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 39
59598954 CCAGCATGAT
* *
59598964 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGC-CGGATATATCACTAGCACGAA
* *
59599004 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAG-CCGGATATATCACTAGCACGAA
* * * * *
59599044 TGCTCTTCGGGACTTAGCCTGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAGCC-GGATATA-TCACTAGCACGAA
*
59599085 TGC-CTTCGGATCTTAG
1 TGCTCTTCGGAACTTAG
59599101 TTTGGATATG
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 2 0.02
40 66 0.81
41 13 0.16
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (39 bp):
TGCTCTTCGGAACTTAGCCGGATATATCACTAGCACGAA
Found at i:59599050 original size:80 final size:80
Alignment explanation
Indices: 59598951--59599100 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
59598941 CGAATACACG
* * * *
59598951 TCACCAGCATGATTGCTCTTCGGGATTTAGCAC-GGATATA-TCACTAGCACGAATGCTCTTCGG
1 TCACCAGCATGAATGCTCTTCGGGACTTAGC-CTGGATATAGTAACTAGCACCAATGC-CTTCGG
59599014 AACTTAGCCCGGATACA
64 AACTTAGCCCGGATACA
* * * *
59599031 TCACTAGCATGAATGCTCTTCGGGACTTAGCCTGGATTTAGTAACTCGCACCAATGCCTTCGGAT
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCCTGGATATAGTAACTAGCACCAATGCCTTCGGAA
59599096 CTTAG
66 CTTAG
59599101 TTTGGATATG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 1 0.02
80 46 0.77
81 13 0.22
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (80 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCCTGGATATAGTAACTAGCACCAATGCCTTCGGAA
CTTAGCCCGGATACA
Found at i:59599495 original size:29 final size:29
Alignment explanation
Indices: 59599456--59599534 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
59599446 CTTAATAATC
*
59599456 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
59599486 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
59599515 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
59599535 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:59599577 original size:43 final size:43
Alignment explanation
Indices: 59599516--59599661 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
59599506 TGCATTTCAA
59599516 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
59599559 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
59599602 GCCCGCACACTTAGTGCGAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
59599645 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
59599662 TGAAAACCAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:59605264 original size:316 final size:316
Alignment explanation
Indices: 59604691--59605315 Score: 1180
Period size: 316 Copynumber: 2.0 Consensus size: 316
59604681 CTAATGCCCC
59604691 TGCGGTATTTATGGATTTGATGAATCGGATCTTCAGACCATATTTGGATCGGTTCGTAGTTGTGT
1 TGCGGTATTTATGGATTTGATGAATCGGATCTTCAGACCATATTTGGATCGGTTCGTAGTTGTGT
*
59604756 TCATTGATGACATCTTGGTCTATTCTAGAGATGAGACCGAACATGCTGAGCACTTGAGACTAGTG
66 TCATTGATGACATCTTGGTCTATTCTAGAGATGAGACCGAACATGCTGAGCACTTGAGACAAGTG
59604821 TTGCAAATTTTGCGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTATGAGTTCTGATTAAGAGA
131 TTGCAAATTTTGCGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTATGAGTTCTGATTAAGAGA
59604886 GGTTAGCTTCTTGGGTCATGTGGTATCTGCATCGGGTATTCAAGTTGACCCGAGCAAAATTTCAG
196 GGTTAGCTTCTTGGGTCATGTGGTATCTGCATCGGGTATTCAAGTTGACCCGAGCAAAATTTCAG
* *
59604951 CCATACTTAACTGGAAGCCTCCAAGAAATATTACCGAAGTTCGGAGCTTCCTGGGG
261 CCATACTTAACTGGAAGCCTCCAAGAAACATTACCGAAGTCCGGAGCTTCCTGGGG
59605007 TGCGGTATTTATGGATTTGATGAATCGGATCTTCAGACCATATTTGGATCGGTTCGTAGTTGTGT
1 TGCGGTATTTATGGATTTGATGAATCGGATCTTCAGACCATATTTGGATCGGTTCGTAGTTGTGT
*
59605072 TCATTGATGACATCTTGGTCTATTCTAGAGATGAGACCGAACATGCTGAGCA-TCTGAGGCAAGT
66 TCATTGATGACATCTTGGTCTATTCTAGAGATGAGACCGAACATGCTGAGCACT-TGAGACAAGT
59605136 GTTGCAAATTTTGCGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTATGAGTTCTGATTAAGAG
130 GTTGCAAATTTTGCGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTATGAGTTCTGATTAAGAG
59605201 AGGTTAGCTTCTTGGGTCATGTGGTATCTGCATCGGGTATTCAAGTTGACCCGAGCAAAATTTCA
195 AGGTTAGCTTCTTGGGTCATGTGGTATCTGCATCGGGTATTCAAGTTGACCCGAGCAAAATTTCA
* *
59605266 GCCATACTTAACTGGAAGCCTCCGAGAAACGTTACCGAAGTCCGGAGCTT
260 GCCATACTTAACTGGAAGCCTCCAAGAAACATTACCGAAGTCCGGAGCTT
59605316 TCTAGGGCTC
Statistics
Matches: 302, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
315 1 0.00
316 301 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (316 bp):
TGCGGTATTTATGGATTTGATGAATCGGATCTTCAGACCATATTTGGATCGGTTCGTAGTTGTGT
TCATTGATGACATCTTGGTCTATTCTAGAGATGAGACCGAACATGCTGAGCACTTGAGACAAGTG
TTGCAAATTTTGCGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTATGAGTTCTGATTAAGAGA
GGTTAGCTTCTTGGGTCATGTGGTATCTGCATCGGGTATTCAAGTTGACCCGAGCAAAATTTCAG
CCATACTTAACTGGAAGCCTCCAAGAAACATTACCGAAGTCCGGAGCTTCCTGGGG
Found at i:59606166 original size:50 final size:50
Alignment explanation
Indices: 59606108--59606207 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
59606098 CGATGATTCT
59606108 GAACGAAGCCCATTGTAGCCGAATGTCAATTCACCCGGGGAGTACGAAAA
1 GAACGAAGCCCATTGTAGCCGAATGTCAATTCACCCGGGGAGTACGAAAA
59606158 GAACGAAGCCCATTGTAGCCGAATGTCAATTCACCCGGGGAGTACGAAAA
1 GAACGAAGCCCATTGTAGCCGAATGTCAATTCACCCGGGGAGTACGAAAA
59606208 TGTACAACGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (50 bp):
GAACGAAGCCCATTGTAGCCGAATGTCAATTCACCCGGGGAGTACGAAAA
Found at i:59612956 original size:40 final size:40
Alignment explanation
Indices: 59612889--59613065 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 40
59612879 ACCCAAGTAT
* *
59612889 CTTCGGGAT-TTAG-CCGGATATAACAACTCGTACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
59612928 CTTCGGGTCCTAGCCCGGATACAGCAACTCGCACAAATGA
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
59612968 ATTCGGGTCTTAGCCTGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
59613008 CTTCAGGTCTTAGCTCGGATATAGAAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
59613048 CTTCGGGTCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
59613066 TTATCATCCG
Statistics
Matches: 119, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 108 0.91
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:59619840 original size:28 final size:27
Alignment explanation
Indices: 59619791--59619844 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
59619781 GATCAAGGAA
* *
59619791 AATGAGATTAGGGCATAGATTGAGAATG
1 AATGAGATTAGGACATAAATTG-GAATG
59619819 AATGAGATTATGGAC-TAAATTGGAAT
1 AATGAGATTA-GGACATAAATTGGAAT
59619845 AAATAGCCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 16 0.70
29 3 0.13
ACGTcount: A:0.41, C:0.04, G:0.28, T:0.28
Consensus pattern (27 bp):
AATGAGATTAGGACATAAATTGGAATG
Found at i:59620193 original size:50 final size:50
Alignment explanation
Indices: 59620074--59620369 Score: 265
Period size: 50 Copynumber: 5.9 Consensus size: 50
59620064 ATTGTGAGAA
* * *** *
59620074 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
** *
59620126 CATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
59620176 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * * *
59620227 CACGTGTGTATTACTAAGTGCAGGCCACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
59620277 CATC-TCTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGT-TTTTGGT
1 CA-CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
** * * *
59620326 CGTATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
59620370 CTTCAGTTAC
Statistics
Matches: 194, Mismatches: 44, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
49 40 0.21
50 79 0.41
51 39 0.20
52 36 0.19
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:59620274 original size:101 final size:101
Alignment explanation
Indices: 59620129--59620314 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 101
59620119 TTTAGGTCAT
* *
59620129 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTC-GCATGTGTAGTACTAA
1 GTGTGTAGTACTAAGTGCAGGCCACTACATGTACCAGATAGTTAGGTCAGC-TCTGTAGTACTAA
*
59620193 GTGCAGGCTACTATGTGTACCTGACAACTTCAATCAC
65 GTGCAGGCTACTACGTGTACCTGACAACTTCAATCAC
* * * * *
59620230 GTGTGTATTACTAAGTGCAGGCCACTACGTGTATCAGATGGTTAGGTCATCTCTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCCACTACATGTACCAGATAGTTAGGTCAGCTCTGTAGTACTAAG
59620295 TGCAGGCTACTACGTGTACC
66 TGCAGGCTACTACGTGTACC
59620315 AGGTTTTTGG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
101 75 0.99
102 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (101 bp):
GTGTGTAGTACTAAGTGCAGGCCACTACATGTACCAGATAGTTAGGTCAGCTCTGTAGTACTAAG
TGCAGGCTACTACGTGTACCTGACAACTTCAATCAC
Found at i:59620398 original size:150 final size:152
Alignment explanation
Indices: 59620081--59620401 Score: 385
Period size: 150 Copynumber: 2.1 Consensus size: 152
59620071 GAACACATGT
* * * * * *
59620081 GTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCATGTGTGTAGTACTAAGTG
1 GTAGTAATATGTGCAGGCCACTACGTGTATAAGATGG-TTTAGGTCATCTCTGTAGTACTAAGTG
*
59620146 CAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGT
65 CAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
* ** *
59620211 ACCTGACAACTTCAATCACGTGT
130 ACCAGACAACTTCAATCACAAGG
* * * *
59620234 GTATTACTAAGTGCAGGCCACTACGTGTATCAGATGG-TTAGGTCATCTCTGTAGTACTAAGTGC
1 GTAGTAATATGTGCAGGCCACTACGTGTATAAGATGGTTTAGGTCATCTCTGTAGTACTAAGTGC
* * * * * *
59620298 AGGCTACTACGTGTACCAGGT-TTTTGGTCGTATGTGTAGTACTAAGTGCAGGCTATTATGCGTA
66 AGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
* * * *
59620362 CCAGATAGCTTCAGTTACAAGG
131 CCAGACAACTTCAATCACAAGG
*
59620384 GTGGTAATATGTGCAGGC
1 GTAGTAATATGTGCAGGC
59620402 AACCTTGTAT
Statistics
Matches: 141, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
150 66 0.47
151 44 0.31
153 31 0.22
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (152 bp):
GTAGTAATATGTGCAGGCCACTACGTGTATAAGATGGTTTAGGTCATCTCTGTAGTACTAAGTGC
AGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
CCAGACAACTTCAATCACAAGG
Found at i:59627976 original size:27 final size:27
Alignment explanation
Indices: 59627937--59628114 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
59627927 TTATTGAGCC
* * * *
59627937 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59627964 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59627991 CGCACACTTAGTGCCACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAAAT
** * *
59628019 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * **
59628046 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59628073 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59628100 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59628115 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59630022 original size:59 final size:59
Alignment explanation
Indices: 59629948--59630065 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
59629938 AGGTGCCATC
59629948 TTAATCCTTGATTGGAAACTATTGTTGTAAGCGAATTCGATCAAAGGTACATACCGTTG
1 TTAATCCTTGATTGGAAACTATTGTTGTAAGCGAATTCGATCAAAGGTACATACCGTTG
59630007 TTAATCCTTGATTGGAAACTATTGTTGTAAGCGAATTCGATCAAAGGTACATACCGTTG
1 TTAATCCTTGATTGGAAACTATTGTTGTAAGCGAATTCGATCAAAGGTACATACCGTTG
59630066 CCATGAACCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (59 bp):
TTAATCCTTGATTGGAAACTATTGTTGTAAGCGAATTCGATCAAAGGTACATACCGTTG
Found at i:59647526 original size:289 final size:289
Alignment explanation
Indices: 59647003--59647579 Score: 989
Period size: 289 Copynumber: 2.0 Consensus size: 289
59646993 TGAATGTCCG
59647003 TAATAAATATAATAAATTTTATAATCACTTTTGATCATTAAAGTCAATTTGGACATTTGAAGATT
1 TAATAAATATAATAAATTTTATAATCACTTTTGATCATTAAAGTCAATTTGGACATTTGAAGATT
59647068 TTGGCATATTCCCTGAAGTGAATATTGTAACACCCCGAACCCGATACTGTCGCCGGAGTCGAACA
66 TTGGCATATTCCCTGAAGTGAATATTGTAACACCCCGAACCCGATACTGTCGCCGGAGTCGAACA
* * * * *
59647133 CGAGGTGTTAACAGACTTCAAACCACTTATTCGACATTTCCCAGACAAGCTGCCGATCTGCGTAC
131 CGAGGTGTTAACAGACTTCAAACCACTTATTCAAAATTTCCCAGACAAGCTACCAATCTGCATAC
* * *
59647198 TAGTCGCTTTAAAAATCATATCTTGAGTTTCACAACTCGAAAAT-CAGTTTCGTGATTTTTCCCT
196 TAGTCGCTTTAAAAATCATATCTTGAGTCTCACAACTCG-AAATCCAGTTCCGTGAATTTTCCCT
*
59647262 GAAACTAGACTCATATGCCCATCTCCATAA
260 GAAACTAGACTCATATGCCCATCTACATAA
59647292 TAATAAATATAATAAATTTTATAATCACTTTTGATCATTAAAGTCAATTTGGACATTTGAAGATT
1 TAATAAATATAATAAATTTTATAATCACTTTTGATCATTAAAGTCAATTTGGACATTTGAAGATT
59647357 TTGGCATATTCCCTGAAGTGAATATTGTAACACCCCGAACCCGATACTGTCGCCGGAGTCGAACA
66 TTGGCATATTCCCTGAAGTGAATATTGTAACACCCCGAACCCGATACTGTCGCCGGAGTCGAACA
* *
59647422 CGAGGTGTTAACAGACTTCAAACCACTTATT-AAAATTTTTCCAGACAAGCTATCAATCTGCATA
131 CGAGGTGTTAACAGACTTCAAACCACTTATTCAAAA-TTTCCCAGACAAGCTACCAATCTGCATA
**
59647486 CTAGTCGCTTTAAAAATCATATCTTGAG-CTCTGGAACTCGAAATCCAGTTCCGTGAATTTTCCC
195 CTAGTCGCTTTAAAAATCATATCTTGAGTCTC-ACAACTCGAAATCCAGTTCCGTGAATTTTCCC
59647550 TGAAACTAGACTCATATGCCCATCTACATA
259 TGAAACTAGACTCATATGCCCATCTACATA
59647580 TTTTTTTTAG
Statistics
Matches: 272, Mismatches: 13, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
288 8 0.03
289 264 0.97
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (289 bp):
TAATAAATATAATAAATTTTATAATCACTTTTGATCATTAAAGTCAATTTGGACATTTGAAGATT
TTGGCATATTCCCTGAAGTGAATATTGTAACACCCCGAACCCGATACTGTCGCCGGAGTCGAACA
CGAGGTGTTAACAGACTTCAAACCACTTATTCAAAATTTCCCAGACAAGCTACCAATCTGCATAC
TAGTCGCTTTAAAAATCATATCTTGAGTCTCACAACTCGAAATCCAGTTCCGTGAATTTTCCCTG
AAACTAGACTCATATGCCCATCTACATAA
Found at i:59648985 original size:28 final size:28
Alignment explanation
Indices: 59648922--59649127 Score: 263
Period size: 28 Copynumber: 7.4 Consensus size: 28
59648912 ATAATAAGTC
* *
59648922 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
59648949 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
59648977 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
59649005 CGCACACTTAGTGCTATATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
59649033 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
59649061 CGAACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
59649088 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
59649117 CGCACACTTAG
1 CGCACACTTAG
59649128 CGCCAATCTC
Statistics
Matches: 160, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
27 42 0.26
28 105 0.66
29 13 0.08
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:59652840 original size:18 final size:18
Alignment explanation
Indices: 59652793--59652844 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
59652783 AATTTATATC
59652793 AAAATCCCTA-AAGGATTT
1 AAAATCCC-AGAAGGATTT
* **
59652811 AAATTCTTAGAAGGATTT
1 AAAATCCCAGAAGGATTT
59652829 AAAATCCCAGAAGGAT
1 AAAATCCCAGAAGGAT
59652845 ATAGAGTTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (18 bp):
AAAATCCCAGAAGGATTT
Found at i:59661465 original size:15 final size:17
Alignment explanation
Indices: 59661435--59661466 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
59661425 TTGACACTTG
59661435 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
59661452 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
59661467 AAACATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:59664081 original size:43 final size:43
Alignment explanation
Indices: 59664020--59664136 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 43
59664010 TCTCAGGCGT
* * * * *
59664020 GGTCTTACATGTAATCAAATATCGATGTCATTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAACAG
* *
59664063 GGTCTTACACGAAATCAAATA-CTATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAACAG
*
59664105 GGTCTTACACATAAATCACAA-ATCGATGCCAA
1 GGTCTTACAC-GAAATCA-AATATCGATGCCAA
59664137 CATCCCATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
42 26 0.42
43 26 0.42
44 10 0.16
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAACAG
Found at i:59664110 original size:42 final size:43
Alignment explanation
Indices: 59664019--59664160 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 43
59664009 GTCTCAGGCG
* * * * *
59664019 TGGTCTTACATGTAATCAAATATCGATGTCATTGTCCCAGACA
1 TGGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAACA
* *
59664062 GGGTCTTACACGAAATCAAATA-CTATGCCAATGTCCCAAACA
1 TGGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAACA
* ** * **
59664104 TGGTCTTACACATAAATCACAA-ATCGATGCCAACATCCCATATG
1 TGGTCTTACAC-GAAATCA-AATATCGATGCCAATGTCCCAAACA
59664148 TGGTCTTACACGA
1 TGGTCTTACACGA
59664161 TAACACATCG
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 26 0.32
43 27 0.34
44 27 0.34
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
TGGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAACA
Found at i:59664143 original size:44 final size:43
Alignment explanation
Indices: 59664053--59664163 Score: 100
Period size: 44 Copynumber: 2.6 Consensus size: 43
59664043 GATGTCATTG
* * * * **
59664053 TCCCAGACAGGGTCTTACAC-GAAATCAAATACTATGCCAATG
1 TCCCAAACATGGTCTTACACATAAATCAAATACGATGCCAACA
59664095 TCCCAAACATGGTCTTACACATAAATCACAA-ATCGATGCCAACA
1 TCCCAAACATGGTCTTACACATAAATCA-AATA-CGATGCCAACA
* **
59664139 TCCCATATGTGGTCTTACACGATAA
1 TCCCAAACATGGTCTTACAC-ATAA
59664164 CACATCGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 18 0.32
43 7 0.12
44 27 0.48
45 4 0.07
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (43 bp):
TCCCAAACATGGTCTTACACATAAATCAAATACGATGCCAACA
Found at i:59669724 original size:15 final size:15
Alignment explanation
Indices: 59669704--59669736 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
59669694 TAAAGCACGA
59669704 AAATTT-CACAGATAT
1 AAATTTACACAGA-AT
59669719 AAATTTACACAGAAT
1 AAATTTACACAGAAT
59669734 AAA
1 AAA
59669737 CACTGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (15 bp):
AAATTTACACAGAAT
Found at i:59671241 original size:28 final size:28
Alignment explanation
Indices: 59671176--59671242 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
59671166 TCATACATTG
* * *
59671176 AAATAAAAAAATAAGTTAAAATAAATTA
1 AAATAAAAATATAAGTAAAAATAAATAA
**
59671204 AAATTCAAATAT-AGTAAAAATCAAATAA
1 AAATAAAAATATAAGTAAAAAT-AAATAA
59671232 AAATAAAAATA
1 AAATAAAAATA
59671243 CGGATCTATG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (28 bp):
AAATAAAAATATAAGTAAAAATAAATAA
Found at i:59691314 original size:29 final size:28
Alignment explanation
Indices: 59691278--59691355 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
59691268 TCATGAGATT
59691278 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
59691308 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
59691335 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
59691356 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:59691577 original size:174 final size:174
Alignment explanation
Indices: 59691308--59691635 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
59691298 AAATTGTACA
*
59691308 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * * *
59691373 TGTGCGAACCCAATATATATTTTTTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTACGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
59691438 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
59691482 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
59691547 TGTACGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTACGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
59691612 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
59691636 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTACGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:59695672 original size:75 final size:75
Alignment explanation
Indices: 59695542--59695691 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 75
59695532 CATTGATGAC
*
59695542 ATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAACACCTGAGACTGGTGTTGAAAATTTT
1 ATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAACACCTGAGACTAGTGTTGAAAATTTT
59695607 GCGGGATAAG
66 GCGGGATAAG
* * * *
59695617 ATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAGCATCTGAGGCTAGTGTTGCAAATTTT
1 ATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAACACCTGAGACTAGTGTTGAAAATTTT
59695682 GCGGGATAAG
66 GCGGGATAAG
59695692 CAGTTATATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (75 bp):
ATCTTGGTCTATTCAAGAGATGAGACCGAACATGCTGAACACCTGAGACTAGTGTTGAAAATTTT
GCGGGATAAG
Found at i:59699587 original size:42 final size:42
Alignment explanation
Indices: 59699540--59699649 Score: 157
Period size: 42 Copynumber: 2.6 Consensus size: 42
59699530 ACAGCCAAGC
* * * *
59699540 CACACGCCCGTGTGCCAAGTCGTGTACCCTTTGAAGTAACCT
1 CACACGCCTGTGTGCCAGGCCGTGTACCCTTCGAAGTAACCT
*
59699582 CACACGCCTGTGTACCAGGCCGTGTACCCTTCGAAGTAACCT
1 CACACGCCTGTGTGCCAGGCCGTGTACCCTTCGAAGTAACCT
* *
59699624 TACACGCCTATGTGCCAGGCCGTGTA
1 CACACGCCTGTGTGCCAGGCCGTGTA
59699650 ACAGCTTGAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.21, C:0.34, G:0.23, T:0.23
Consensus pattern (42 bp):
CACACGCCTGTGTGCCAGGCCGTGTACCCTTCGAAGTAACCT
Found at i:59699716 original size:15 final size:15
Alignment explanation
Indices: 59699696--59699731 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
59699686 ACACACAGCC
59699696 GTGTCACCTGGTCGT
1 GTGTCACCTGGTCGT
59699711 GTGTCA-CTGGTCGT
1 GTGTCACCTGGTCGT
*
59699725 GTTTCAC
1 GTGTCAC
59699732 ACATGGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.08, C:0.25, G:0.31, T:0.36
Consensus pattern (15 bp):
GTGTCACCTGGTCGT
Found at i:59700331 original size:17 final size:17
Alignment explanation
Indices: 59700309--59700349 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
59700299 AGCTTTGACA
*
59700309 AGCTTCTAACTTGAACG
1 AGCTTCCAACTTGAACG
* *
59700326 AGCTTCCAACTTTAATG
1 AGCTTCCAACTTGAACG
59700343 AGCTTCC
1 AGCTTCC
59700350 GAATAACTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (17 bp):
AGCTTCCAACTTGAACG
Found at i:59700835 original size:24 final size:25
Alignment explanation
Indices: 59700783--59700835 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
59700773 GTACATGTAT
* *
59700783 GCTCATATGAGCTCTGAATCGGTAT
1 GCTCATATGAGCTCTAAATCGGTAA
* *
59700808 GCTCTTATGAGCTGTAAAT-GGTAA
1 GCTCATATGAGCTCTAAATCGGTAA
59700832 GCTC
1 GCTC
59700836 CTCCAAGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (25 bp):
GCTCATATGAGCTCTAAATCGGTAA
Found at i:59700894 original size:25 final size:24
Alignment explanation
Indices: 59700799--59700905 Score: 72
Period size: 25 Copynumber: 4.4 Consensus size: 24
59700789 ATGAGCTCTG
* * **
59700799 AATCGGTATGCTCTTATGAGCTGTA
1 AATCGGTAAGCTCATACAAGCTG-A
* * *
59700824 AAT-GGTAAGCTCCTCCAAGGTGA
1 AATCGGTAAGCTCATACAAGCTGA
* *
59700847 ATAACGGTAAGCTCATGCAAGCTGA
1 A-ATCGGTAAGCTCATACAAGCTGA
* * *
59700872 GTATCGGTAAGCTTATACGAGCTGA
1 -AATCGGTAAGCTCATACAAGCTGA
59700897 AATCGGTAA
1 AATCGGTAA
59700906 CACTAATGAC
Statistics
Matches: 63, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
23 2 0.03
24 22 0.35
25 39 0.62
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (24 bp):
AATCGGTAAGCTCATACAAGCTGA
Found at i:59703819 original size:49 final size:49
Alignment explanation
Indices: 59703763--59704000 Score: 255
Period size: 49 Copynumber: 4.8 Consensus size: 49
59703753 TAGACAAGGA
*
59703763 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
** * *
59703812 TATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACT-TGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA-TGCGACC-AAT
* * * * * *
59703862 TATTTGATCCACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * *
59703913 TATCGGGTACGCATAGTAGCCTGCACTTAGTGCTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
** * *
59703962 TATCCAGTACA-AGTAGTAGCCTGCACTCAATACTACACA
1 TATCTGGTACACA-TAGTAGCCTGCACTTAGTACTACACA
59704001 CGTGACCTCA
Statistics
Matches: 155, Mismatches: 28, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 72 0.46
50 45 0.29
51 37 0.24
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:59704273 original size:27 final size:27
Alignment explanation
Indices: 59704233--59704286 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
59704223 AGGTACAACC
* *
59704233 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
59704260 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
59704287 TCACATGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:59704616 original size:30 final size:30
Alignment explanation
Indices: 59704582--59704640 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
59704572 CCAAAATCAT
*
59704582 ACTTTGGAAAAATTACAATTTTGCCCCTAA
1 ACTTTGGAAAAAGTACAATTTTGCCCCTAA
** *
59704612 ACTTTGTCAAAAGTACATTTTTGCCCCTA
1 ACTTTGGAAAAAGTACAATTTTGCCCCTA
59704641 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (30 bp):
ACTTTGGAAAAAGTACAATTTTGCCCCTAA
Found at i:59705098 original size:16 final size:16
Alignment explanation
Indices: 59705077--59705110 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
59705067 CTAATTTGGC
59705077 TTATTTCCCTTTTTAA
1 TTATTTCCCTTTTTAA
59705093 TTATTTCCCTTTTTAA
1 TTATTTCCCTTTTTAA
59705109 TT
1 TT
59705111 CTTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTCCCTTTTTAA
Found at i:59709623 original size:49 final size:49
Alignment explanation
Indices: 59709553--59709787 Score: 256
Period size: 49 Copynumber: 4.7 Consensus size: 49
59709543 TAGACAAGGC
* *
59709553 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
59709602 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACT-TGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA-TGCGACC-AAT
* * * * * * *
59709652 CATCTGATACACATAGTAGCCTGCACTTAGTGCTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* ** *
59709703 TATCGGGTATGCATAGTAGCCTGCACTTAATACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
59709752 TATTCGGTACACGTAGTAGCCTGCACTCAGTACTAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTAC
59709788 CCACGTGAAC
Statistics
Matches: 151, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 70 0.46
50 45 0.30
51 36 0.24
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:59710064 original size:27 final size:27
Alignment explanation
Indices: 59710024--59710077 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
59710014 AGGTACAACC
* *
59710024 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
59710051 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
59710078 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:59712418 original size:48 final size:48
Alignment explanation
Indices: 59712366--59712706 Score: 199
Period size: 48 Copynumber: 7.4 Consensus size: 48
59712356 TATCCGAAGT
59712366 ATGGTCTTA-ATTGGGATCACATATCGATGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACA-TGGGATCACATATCGATGCCAACGCCATGTCCCAGAC
* *
59712414 ATGGTCTTACGTGGGATCATGCATATCGAAG-C--CG--ATAG-CCCAG-C
1 ATGGTCTTACATGGGATCA--CATATCGATGCCAACGCCAT-GTCCCAGAC
* * * * * *
59712458 TATGGTCTTACACGATGA-CTCATATTGATGCCAATGCCATGTCCTAGAC
1 -ATGGTCTTACATG-GGATCACATATCGATGCCAACGCCATGTCCCAGAC
* * * *
59712507 ATGGTCTTACATGGGATCATATTTCGATACCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAGAC
* ** *
59712555 ATGGTCTTACACGGGAT--CATA-C-ATATCAAAGCCAATAG-CCCAG-C
1 ATGGTCTTACATGGGATCACATATCGATGCCAACGCC-AT-GTCCCAGAC
* * * * *
59712599 TATGGTCTTACACGATGA-CTCATATTGAT----ACG-AATG---CAGAC
1 -ATGGTCTTACATG-GGATCACATATCGATGCCAACGCCATGTCCCAGAC
* * * *
59712640 ATGGTCTTACATGGGATCACATTTTGATACCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAGAC
59712688 ATGGTCTTACATGGGATCA
1 ATGGTCTTACATGGGATCA
59712707 TGCATATCCC
Statistics
Matches: 228, Mismatches: 33, Indels: 64
0.70 0.10 0.20
Matches are distributed among these distances:
39 2 0.01
40 24 0.11
41 1 0.00
42 1 0.00
43 10 0.04
44 14 0.06
45 45 0.20
46 9 0.04
47 9 0.04
48 100 0.44
49 4 0.02
50 9 0.04
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAGAC
Found at i:59712597 original size:141 final size:140
Alignment explanation
Indices: 59712343--59712714 Score: 519
Period size: 141 Copynumber: 2.7 Consensus size: 140
59712333 CACATAGTCG
* * * * *
59712343 GATGCCAATGCCATATCC-GAAGTATGGTCTTA-ATTGGGATCACATATCGATGCCAACGCCATG
1 GATGCCAATGCCATGTCCAG-A-CATGGTCTTACA-TGGGATCACATTTCGATACCAATGCCATG
* * *
59712406 TCCCAGACATGGTCTTACGTGGGATCATGCATATCGAAGCCGATAGCCCAGCTATGGTCTTACAC
63 TCCCAGACATGGTCTTACATGGGATCATGCATATCAAAGCCAATAGCCCAGCTATGGTCTTACAC
59712471 GATGACTCATATT
128 GATGACTCATATT
*
59712484 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCATATTTCGATACCAATGCCATGTC
1 GATGCCAATGCCATGTCC-AGACATGGTCTTACATGGGATCACATTTCGATACCAATGCCATGTC
* *
59712549 CCAGACATGGTCTTACACGGGATCATACATATCAAAGCCAATAGCCCAGCTATGGTCTTACACGA
65 CCAGACATGGTCTTACATGGGATCATGCATATCAAAGCCAATAGCCCAGCTATGGTCTTACACGA
59712614 TGACTCATATT
130 TGACTCATATT
* * *
59712625 GAT----ACG-AATG--CAGACATGGTCTTACATGGGATCACATTTTGATACCAATGCCATGTCC
1 GATGCCAATGCCATGTCCAGACATGGTCTTACATGGGATCACATTTCGATACCAATGCCATGTCC
59712683 CAGACATGGTCTTACATGGGATCATGCATATC
66 CAGACATGGTCTTACATGGGATCATGCATATC
59712715 CCTAACGTTA
Statistics
Matches: 211, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
133 75 0.36
134 1 0.00
136 3 0.01
137 2 0.01
141 127 0.60
142 2 0.01
143 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (140 bp):
GATGCCAATGCCATGTCCAGACATGGTCTTACATGGGATCACATTTCGATACCAATGCCATGTCC
CAGACATGGTCTTACATGGGATCATGCATATCAAAGCCAATAGCCCAGCTATGGTCTTACACGAT
GACTCATATT
Found at i:59719994 original size:48 final size:48
Alignment explanation
Indices: 59719754--59719995 Score: 180
Period size: 48 Copynumber: 5.1 Consensus size: 48
59719744 GAAATCACAT
* ** **
59719754 TCACATAGTCTGATGCCAATGCCAAATCCCAGGTATGGTCTTACATAGGA
1 TCACATA-T-TGATACCAATGCCATGTCCCAGACATGGTCTTACATAGGA
* * *
59719804 TTACATATTGATACTAATGCCATGTCCTAGACATGGTCTTACATAGGA
1 TCACATATTGATACCAATGCCATGTCCCAGACATGGTCTTACATAGGA
* *
59719852 TCATGCATATCGA-AGCCGAT---A-G-CCCAG-CTATGGTCTTAC--AGGA
1 TCA--CATATTGATA-CCAATGCCATGTCCCAGAC-ATGGTCTTACATAGGA
* * * * * *
59719895 TAACTCATATTGATGCCAATGTCATATCTCAGACATGGTCTTACATGGGA
1 T--CACATATTGATACCAATGCCATGTCCCAGACATGGTCTTACATAGGA
*
59719945 TCACAT-TTCGATACCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TCACATATT-GATACCAATGCCATGTCCCAGACATGGTCTTACATAGGA
59719993 TCA
1 TCA
59719996 TGCATATCCC
Statistics
Matches: 151, Mismatches: 25, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
43 16 0.11
44 1 0.01
45 15 0.10
46 2 0.01
47 3 0.02
48 91 0.60
49 3 0.02
50 20 0.13
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (48 bp):
TCACATATTGATACCAATGCCATGTCCCAGACATGGTCTTACATAGGA
Found at i:59720384 original size:30 final size:30
Alignment explanation
Indices: 59720340--59720398 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
59720330 CATAAATCAT
* * *
59720340 ACTTTGACAAAATTATAATTTTGCCCTTAA
1 ACTTTCACAAAATTACAAATTTGCCCTTAA
* *
59720370 ACTTTCACATAATTACAAATTTGTCCTTA
1 ACTTTCACAAAATTACAAATTTGCCCTTA
59720399 GGCTAGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.41
Consensus pattern (30 bp):
ACTTTCACAAAATTACAAATTTGCCCTTAA
Found at i:59721828 original size:33 final size:32
Alignment explanation
Indices: 59721790--59721853 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
59721780 TATTTATAGG
*
59721790 GAAAGATAGAGAAACCCTAGTGGAATTAGTAT
1 GAAAGATAGAGAAACCATAGTGGAATTAGTAT
* *
59721822 NGAAAGATAGAGAAACCATCGTTGAATTAGTA
1 -GAAAGATAGAGAAACCATAGTGGAATTAGTA
59721854 CAATACAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.22
Consensus pattern (32 bp):
GAAAGATAGAGAAACCATAGTGGAATTAGTAT
Found at i:59727495 original size:35 final size:35
Alignment explanation
Indices: 59727449--59727578 Score: 154
Period size: 35 Copynumber: 3.7 Consensus size: 35
59727439 ATAGAATTTT
* *
59727449 TAGTAGGCATGCTTTACATGTGAATTAGAATTAGTA
1 TAGT-GGCATGCTTAACATGCGAATTAGAATTAGTA
* * * *
59727485 CAGTGGCATGCTTAACATGCGAA-TCGTATTTAATA
1 TAGTGGCATGCTTAACATGCGAATTAG-AATTAGTA
* *
59727520 TAGTGGCATGCTTAACATGCGAATCAAAATTAGTA
1 TAGTGGCATGCTTAACATGCGAATTAGAATTAGTA
*
59727555 TAGTGGAATGCTTAACATGCGAAT
1 TAGTGGCATGCTTAACATGCGAAT
59727579 AAGATTATCA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
34 2 0.03
35 74 0.94
36 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.32
Consensus pattern (35 bp):
TAGTGGCATGCTTAACATGCGAATTAGAATTAGTA
Found at i:59734441 original size:7 final size:7
Alignment explanation
Indices: 59734409--59734451 Score: 50
Period size: 7 Copynumber: 5.6 Consensus size: 7
59734399 GGATTTATAA
59734409 AAAATAT
1 AAAATAT
59734416 AAACATATTT
1 AAA-ATA--T
59734426 AATAATAT
1 AA-AATAT
59734434 AAAATAT
1 AAAATAT
59734441 AAAATAT
1 AAAATAT
59734448 AAAA
1 AAAA
59734452 AAATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 19 0.59
8 6 0.19
10 6 0.19
11 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAATAT
Done.