Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 70 of 284
Found at i:24296963 original size:18 final size:18
Alignment explanation
Indices: 24296942--24296979 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
24296932 TGAAGTTAAT
24296942 TATTTTTTCAAGGGTACC
1 TATTTTTTCAAGGGTACC
24296960 TATTTTTTCAAGGGTACC
1 TATTTTTTCAAGGGTACC
24296978 TA
1 TA
24296980 GTGTATTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (18 bp):
TATTTTTTCAAGGGTACC
Found at i:24297725 original size:34 final size:35
Alignment explanation
Indices: 24297676--24297751 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 35
24297666 TTAATTATTA
*
24297676 TTTTTACTTACATTAATTAGTTTTATTTTGAAATT
1 TTTTTACTTACATTAAATAGTTTTATTTTGAAATT
* * * *
24297711 TTTTTAGTTA-ATTAAATATTTTTATTTTTAATTT
1 TTTTTACTTACATTAAATAGTTTTATTTTGAAATT
24297745 TTTTTAC
1 TTTTTAC
24297752 CTTGTCAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
34 26 0.74
35 9 0.26
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (35 bp):
TTTTTACTTACATTAAATAGTTTTATTTTGAAATT
Found at i:24304833 original size:35 final size:35
Alignment explanation
Indices: 24304787--24304859 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
24304777 GATTTTCCAA
24304787 AGTTGGAACAAGGGATCACGAAGTCACTCTAAACC
1 AGTTGGAACAAGGGATCACGAAGTCACTCTAAACC
24304822 AGTTGGAACAAGGGATCACGAAGTCACTCTAAACC
1 AGTTGGAACAAGGGATCACGAAGTCACTCTAAACC
24304857 AGT
1 AGT
24304860 CTTATAGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (35 bp):
AGTTGGAACAAGGGATCACGAAGTCACTCTAAACC
Found at i:24305531 original size:53 final size:53
Alignment explanation
Indices: 24305464--24305568 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
24305454 TTCCTTTTTA
* * * *
24305464 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTACCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTATG
* * *
24305517 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTAT
24305569 AGTAGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTATG
Found at i:24305671 original size:41 final size:41
Alignment explanation
Indices: 24305614--24305700 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
24305604 ACATGATTTC
*
24305614 CTTACCTTGTAAAACTTACCAATGCCATGCCTTGGCATGGT
1 CTTACCTTGTAAAACTTACCAATGCCATGCCTTGACATGGT
* *
24305655 CTTACCTTGTAAAACTTACCAATGCCATGGCTTGACTTGGT
1 CTTACCTTGTAAAACTTACCAATGCCATGCCTTGACATGGT
24305696 CTTAC
1 CTTAC
24305701 TTGGTATCCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.33
Consensus pattern (41 bp):
CTTACCTTGTAAAACTTACCAATGCCATGCCTTGACATGGT
Found at i:24311306 original size:46 final size:46
Alignment explanation
Indices: 24311221--24311339 Score: 166
Period size: 46 Copynumber: 2.6 Consensus size: 46
24311211 CGCCCCTAAG
* * * * * *
24311221 TGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAA
* *
24311267 TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAA
24311313 TGAACTCGGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
24311340 GGATGCTCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAA
Found at i:24318421 original size:16 final size:15
Alignment explanation
Indices: 24318392--24318428 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 15
24318382 CCGATTAGAA
24318392 AAAAATATAATAAAT
1 AAAAATATAATAAAT
24318407 AAAAATATAAT---T
1 AAAAATATAATAAAT
24318419 AAAAATATAA
1 AAAAATATAA
24318429 AAGTGAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.50
15 11 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATATAATAAAT
Found at i:24318458 original size:6 final size:6
Alignment explanation
Indices: 24318447--24318487 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
24318437 GAGGTCTAGG
*
24318447 AAAATA AAAATA AAACTA AAAAT- AAAAT- AAAAT- AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
24318488 TGGACTCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 15 0.47
6 17 0.53
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:24318461 original size:5 final size:5
Alignment explanation
Indices: 24318447--24318487 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
24318437 GAGGTCTAGG
24318447 AAAAT AAAAAT AAAACT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT -AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAA
24318488 TGGACTCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 22 0.67
6 7 0.21
7 4 0.12
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:24318480 original size:10 final size:11
Alignment explanation
Indices: 24318447--24318487 Score: 66
Period size: 12 Copynumber: 3.7 Consensus size: 11
24318437 GAGGTCTAGG
24318447 AAAATAAAAAT
1 AAAATAAAAAT
24318458 AAAACTAAAAAT
1 AAAA-TAAAAAT
24318470 AAAAT-AAAAT
1 AAAATAAAAAT
24318480 AAAATAAA
1 AAAATAAA
24318488 TGGACTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.36
11 7 0.25
12 11 0.39
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:24321220 original size:26 final size:26
Alignment explanation
Indices: 24321158--24321264 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
24321148 TGATACAAAT
24321158 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
24321184 -GATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24321209 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24321235 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24321261 TGAT
1 TGAT
24321265 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:24322453 original size:8 final size:8
Alignment explanation
Indices: 24322440--24322469 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
24322430 AGATCAGCAC
24322440 AAGCCGAA
1 AAGCCGAA
24322448 AAGCCGAA
1 AAGCCGAA
*
24322456 ATGCCGAA
1 AAGCCGAA
24322464 AAGCCG
1 AAGCCG
24322470 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:24322901 original size:27 final size:27
Alignment explanation
Indices: 24322859--24322999 Score: 139
Period size: 27 Copynumber: 5.2 Consensus size: 27
24322849 AGGAAGCTTC
* *
24322859 CTGGTGGCTATGCCACA-ATTATTTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* *
24322886 TTGGTGGCTCTACCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
24322912 CCTAGTGGCTATGCCACA-ATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
24322940 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACATATATCTGA-T
*
24322967 CTGGTGGCTCTGCCGCA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
24322994 CTGGTG
1 CTGGTG
24323000 ACTTCGTCAC
Statistics
Matches: 95, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
26 9 0.09
27 82 0.86
28 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:24322945 original size:54 final size:54
Alignment explanation
Indices: 24322857--24322999 Score: 198
Period size: 54 Copynumber: 2.6 Consensus size: 54
24322847 GGAGGAAGCT
* * *
24322857 TCCTGGTGGCTATGCCACAATTATTTGATTTGGTGGCTCTACCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTA
* *
24322911 TCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTA
* * *
24322965 TTCTGGTGGCTCTGCCGCAA-TATCTGTATCTGGTG
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
24323000 ACTTCGTCAC
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 6 0.08
54 73 0.92
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTA
Found at i:24324334 original size:48 final size:48
Alignment explanation
Indices: 24324282--24324491 Score: 147
Period size: 48 Copynumber: 4.4 Consensus size: 48
24324272 CGATGCTATG
* * *
24324282 TCCCAGACATCGTCTTATACGGGA-CCTCATA-TCGATGCCAATGTCATA
1 TCCCAGACATGGTCTTATACGGGATCC-CATACT-GATGACAATGCCATA
* * * *
24324330 TCCCAGATATGGTCTTAGATGGGATCCCATACTGATGACAATGCCATG
1 TCCCAGACATGGTCTTATACGGGATCCCATACTGATGACAATGCCATA
* * * * * * * *
24324378 TCCCAAACGTGGTCTTATACGGGATCTCTTATTGATGTCGATGCAATA
1 TCCCAGACATGGTCTTATACGGGATCCCATACTGATGACAATGCCATA
* * * ** ** * *
24324426 -CCTCAAATATGGTCTTATAGGGGATTTCATTTTGATGCCGATGCCATA
1 TCC-CAGACATGGTCTTATACGGGATCCCATACTGATGACAATGCCATA
*
24324474 TCCCAGATATGGTCTTAT
1 TCCCAGACATGGTCTTAT
24324492 TTGATATCTC
Statistics
Matches: 130, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
47 2 0.02
48 123 0.95
49 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (48 bp):
TCCCAGACATGGTCTTATACGGGATCCCATACTGATGACAATGCCATA
Found at i:24324487 original size:96 final size:96
Alignment explanation
Indices: 24324269--24324491 Score: 234
Period size: 96 Copynumber: 2.3 Consensus size: 96
24324259 CTCATAACGG
* *
24324269 TGCCGATGCTATGTCCCAGACATCGTCTTATACGGGACCTCATATCGATGCCAATGTCATATCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCAATGTCATATCCC
* *
24324334 AGATATGGTCTTAGATGGGATCCCATACTGA
66 AAATATGGTCTTAGAGGGGATCCCATACTGA
* * * * * * * * *
24324365 TGACAATGCCATGTCCCAAACGTGGTCTTATACGGGATCTCTTATTGATGTCGATG-CA-ATACC
1 TGCCGATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCAATGTCATAT-CC
* ** **
24324428 TCAAATATGGTCTTATAGGGGATTTCATTTTGA
65 -CAAATATGGTCTTAGAGGGGATCCCATACTGA
* *
24324461 TGCCGATGCCATATCCCAGATATGGTCTTAT
1 TGCCGATGCCATGTCCCAGACATGGTCTTAT
24324492 TTGATATCTC
Statistics
Matches: 101, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
94 2 0.02
95 4 0.04
96 95 0.94
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (96 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCAATGTCATATCCC
AAATATGGTCTTAGAGGGGATCCCATACTGA
Found at i:24327433 original size:82 final size:82
Alignment explanation
Indices: 24327333--24327532 Score: 384
Period size: 82 Copynumber: 2.5 Consensus size: 82
24327323 AAAAAAATAA
24327333 TAAAGTTTGAAATTATAAAAAGGATATAAATAAATAAGTGAAAATAAGAATAATATTAGTAATAA
1 TAAAGTTTGAAATTATAAAAAGGATATAAATAAATAAGTGAAAATAAGAATAATATTAGTAATAA
24327398 TAAAATAGTAAATAATC
66 TAAAATAGTAAATAATC
24327415 TAAAGTTTGAAATTATAAAAAGGATATAAATAAATAAGTGAAAATAAGAATAATATTAGTAATAA
1 TAAAGTTTGAAATTATAAAAAGGATATAAATAAATAAGTGAAAATAAGAATAATATTAGTAATAA
24327480 TAAAATAGTAAATAATC
66 TAAAATAGTAAATAATC
*
24327497 TAAAGTTTGAAATTAT-AAAAGGATATAAGTAAATAA
1 TAAAGTTTGAAATTATAAAAAGGATATAAATAAATAA
24327533 ATAATAGAAT
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 19 0.16
82 98 0.84
ACGTcount: A:0.58, C:0.01, G:0.12, T:0.29
Consensus pattern (82 bp):
TAAAGTTTGAAATTATAAAAAGGATATAAATAAATAAGTGAAAATAAGAATAATATTAGTAATAA
TAAAATAGTAAATAATC
Found at i:24329330 original size:44 final size:44
Alignment explanation
Indices: 24329112--24329666 Score: 321
Period size: 44 Copynumber: 12.1 Consensus size: 44
24329102 AAAGGTATAG
* * *
24329112 GATTTGTCA-CTTTAAACTGCTCTATTGCAACTTCAGGGAGAT-T
1 GATTTGT-AGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* * * * * *
24329155 GTACTTGTGGCTTTAATCTACTCCACTACAACTTCTGAGG-GATAA
1 G-ATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAG-GGAGATAA
*
24329200 GATTTGTAGCCTGTCTTCAATCTGCTCTGCTGCAACTTCAGGGAGATAA
1 GATTTGTAG-C--T-TT-AATCTGCTCTACTGCAACTTCAGGGAGATAA
* ** * *
24329249 GATTTATTTATTTTTAA-CTTGCTCCACTGCAAATTCAGGGAGATAA
1 GA-TT-TGTAGCTTTAATC-TGCTCTACTGCAACTTCAGGGAGATAA
* *
24329295 GGTTTGTAGCTTTAATCTGCTCTACCGCAACTTCAGGGAGATAAGA
1 GATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGAT-A-A
** * * *
24329341 TTTGTAATTTGTAGCTTTAATCTATTCCACTACAACTTCAGGGAAATAA
1 ---G--ATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* ** * * * * * *
24329390 GATTCGCTATATTCAGTCTGCTCTATTACAACTTCAGAGAAATAA
1 GATTTG-TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* * * * * * * *
24329435 GACTCGTA-ATTTCAACCTGTTCTATTGCAACTTCAGAGTGATAA
1 GATTTGTAGCTTT-AATCTGCTCTACTGCAACTTCAGGGAGATAA
* * * * *
24329479 GGTTTATAGCTTTAATCTACTCTATTGCAACTTCAGAGAGATAA
1 GATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* * * *
24329523 GATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
1 GATTTG-TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* * * * *
24329568 GATCTGTGGCTTTAATTTGCTCCACTACAACTTCAGGGAGATAAGA
1 GATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGAT-A-A
*
24329614 TTTGTAATTTGTAGCTTTAATCTGTTAC-ACTGCAACTTCAGGGAGATAA
1 ---G--ATTTGTAGCTTTAATCTGCT-CTACTGCAACTTCAGGGAGATAA
24329663 GATT
1 GATT
24329667 CGCCATAATG
Statistics
Matches: 397, Mismatches: 82, Indels: 65
0.73 0.15 0.12
Matches are distributed among these distances:
43 4 0.01
44 164 0.41
45 85 0.21
46 31 0.08
47 3 0.01
48 5 0.01
49 29 0.07
50 4 0.01
51 71 0.18
52 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (44 bp):
GATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
Found at i:24329377 original size:51 final size:51
Alignment explanation
Indices: 24329297--24329393 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 51
24329287 GGAGATAAGG
* * * *
24329297 TTTGTAGCTTTAATCTGCTCTACCGCAACTTCAGGGAGATAAGATTTGTAA
1 TTTGTAGCTTTAATCTACTCCACCACAACTTCAGGGAAATAAGATTTGTAA
* *
24329348 TTTGTAGCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATT
1 TTTGTAGCTTTAATCTACTCCACCACAACTTCAGGGAAATAAGATT
24329394 CGCTATATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (51 bp):
TTTGTAGCTTTAATCTACTCCACCACAACTTCAGGGAAATAAGATTTGTAA
Found at i:24329554 original size:89 final size:88
Alignment explanation
Indices: 24329112--24329666 Score: 364
Period size: 89 Copynumber: 6.0 Consensus size: 88
24329102 AAAGGTATAG
* * * * **
24329112 GATTTGTCA-CTTTAAACTGCTCTATTGCAACTTCAGGGAGAT-TGTACTTGTGGCTTTAATCTA
1 GATTTGT-AGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAG-ATTTGTATCTTTAATCTA
* *
24329175 CTCCACTACAACTTCTGAGG-GATAA
64 CTCCACTGCAACTTCAG-GGAGATAA
* * *
24329200 GATTTGTAGCCTGTCTTCAATCTGCTCTGCTGCAACTTCAGGGAGATAAGATTTATTTATTTTTA
1 GATTTGTAG-C--T-TT-AATCTGCTCTACTGCAACTTCAGGGAGATAAGA-TT-TGTATCTTTA
* *
24329265 A-CTTGCTCCACTGCAAATTCAGGGAGATAA
59 ATC-TACTCCACTGCAACTTCAGGGAGATAA
* *
24329295 GGTTTGTAGCTTTAATCTGCTCTACCGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGCTTTA
1 GATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGT-A----T--CTTTA
* * *
24329360 ATCTATTCCACTACAACTTCAGGGAAATAA
59 ATCTACTCCACTGCAACTTCAGGGAGATAA
* ** * * * * * * * * * * *
24329390 GATTCGCTATATTCAGTCTGCTCTATTACAACTTCAGAGAAATAAGACTCGTAAT-TTCAACCTG
1 GATTTG-TAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGT-ATCTTTAATCTA
* * * * *
24329454 TTCTATTGCAACTTCAGAGTGATAA
64 CTCCACTGCAACTTCAGGGAGATAA
* * * * * *
24329479 GGTTTATAGCTTTAATCTACTCTATTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTAC
1 GATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG-TATCTTTAATCTAC
24329544 TCCACTGCAACTTCAGGGAGATAA
65 TCCACTGCAACTTCAGGGAGATAA
* * * * *
24329568 GATCTGTGGCTTTAATTTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAATTTGTAGCTTTA
1 GATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGT-A----T--CTTTA
** *
24329633 ATCTGTTACACTGCAACTTCAGGGAGATAA
59 ATCTACTCCACTGCAACTTCAGGGAGATAA
24329663 GATT
1 GATT
24329667 CGCCATAATG
Statistics
Matches: 359, Mismatches: 79, Indels: 51
0.73 0.16 0.10
Matches are distributed among these distances:
87 1 0.00
88 47 0.13
89 101 0.28
90 31 0.09
91 3 0.01
92 4 0.01
93 29 0.08
94 6 0.02
95 100 0.28
96 37 0.10
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (88 bp):
GATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAATCTACT
CCACTGCAACTTCAGGGAGATAA
Found at i:24329599 original size:133 final size:133
Alignment explanation
Indices: 24329128--24329666 Score: 361
Period size: 133 Copynumber: 3.9 Consensus size: 133
24329118 TCACTTTAAA
* * * * *
24329128 CTGCTCTATTGCAACTTCAGGGAGAT-TG-TACTTGTGGCTTTAATCTACTCCACTACAACTTCT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGAT-C-TGTGGCTTTAATCTGCTCCACTACAACTTCA
* * * * *
24329191 GAGGGATAAGATTTGTAGCCTGTCTTCAATCTGCTCTGCTGCAACTTCAGGGAGATAAGATTTAT
64 GAGAGATAAGGTTTGTAG-C--T-TT-AATCTACTCTACTGCAACTTCAGGGAGATAAGATTT-G
* * *
24329256 TTATTTTTAA-
123 CTATATTCAAT
* * * * * **
24329266 CTTGCTCCACTGCAAATTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTACCGCAACTTCAG
1 C-TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGCTTTAATCTGCTCCACTACAACTTCAG
* * * * * *
24329331 GGAGATAAGATTTGTAATTTGTAGCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTCG
65 AGAGATAAG----G---TTTGTAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAAGATTTG
*
24329396 CTATATTCAGT
123 CTATATTCAAT
* * * * * ** * * * * *
24329407 CTGCTCTATTACAACTTCAGAGAAATAAGA-CTCGT-AATTTCAACCTGTTCTATTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGCTTT-AATCTGCTCCACTACAACTTCA
* * * * *
24329470 GAGTGATAAGGTTTATAGCTTTAATCTACTCTATTGCAACTTCAGAGAGATAAGATTTGCTATCT
64 GAGAGATAAGGTTTGTAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAAGATTTGCTATAT
24329535 TCAAT
129 TCAAT
* * *
24329540 CTACTCCACTGCAACTTCAGGGAGATAAGATCTGTGGCTTTAATTTGCTCCACTACAACTTCAGG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGCTTTAATCTGCTCCACTACAACTTCAGA
**
24329605 GAGATAAGATTTGTAATTTGTAGCTTTAATCTGTTAC-ACTGCAACTTCAGGGAGATAAGATT
66 GAGATAAG----G---TTTGTAGCTTTAATCTACT-CTACTGCAACTTCAGGGAGATAAGATT
24329667 CGCCATAATG
Statistics
Matches: 305, Mismatches: 73, Indels: 44
0.72 0.17 0.10
Matches are distributed among these distances:
133 99 0.32
134 5 0.02
136 1 0.00
137 1 0.00
138 1 0.00
139 59 0.19
140 96 0.31
141 32 0.10
142 2 0.01
143 1 0.00
145 1 0.00
146 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (133 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGCTTTAATCTGCTCCACTACAACTTCAGA
GAGATAAGGTTTGTAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAAGATTTGCTATATTC
AAT
Found at i:24336753 original size:37 final size:37
Alignment explanation
Indices: 24336694--24336802 Score: 146
Period size: 37 Copynumber: 2.9 Consensus size: 37
24336684 AGCTCAGACG
* * *
24336694 AAATCTCCACACGAAGTTATCGGGCCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
24336731 AAATCTCCATACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
24336768 TACTCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
24336803 ATATATTTCC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:24337003 original size:48 final size:48
Alignment explanation
Indices: 24336949--24337083 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
24336939 GCACATCGCC
24336949 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* *
24336997 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* * * *
24337045 TACATATGTCACATTAGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
24337084 TGCATGTTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
Found at i:24337120 original size:47 final size:47
Alignment explanation
Indices: 24337053--24337387 Score: 526
Period size: 47 Copynumber: 7.1 Consensus size: 47
24337043 CATACATATG
* * *
24337053 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* * *
24337100 TCATATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
24337147 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* * *
24337194 TCATATTGGCCATTCAGCCTTATCACACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
24337241 TCATATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
24337288 TCACATTGACCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
24337335 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
24337382 TCACAT
1 TCACAT
24337388 AAAATCCTAA
Statistics
Matches: 266, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 266 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:24337291 original size:25 final size:25
Alignment explanation
Indices: 24337262--24337339 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
24337252 ATTCGGCCTT
24337262 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
24337287 AT--CACAT-TGACCAT--TCGGCCTT-
1 ATCACACATATG--CATGCTC-ACATTC
24337309 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
24337334 ATCACA
1 ATCACA
24337340 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.31, C:0.32, G:0.09, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:24344102 original size:18 final size:19
Alignment explanation
Indices: 24344076--24344111 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
24344066 TTAAACTAAA
*
24344076 TTAATTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
24344094 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
24344112 ATTTTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:24351309 original size:27 final size:26
Alignment explanation
Indices: 24351256--24351309 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
24351246 AAGACTTGCG
* **
24351256 TCTTTCTTTCTCTTTTTCTTTTTCTT
1 TCTTTCTTTCTATTTTTCTTTGGCTT
*
24351282 TCTTTCCTTTCTATTTTTGTTTGGCTT
1 TCTTT-CTTTCTATTTTTCTTTGGCTT
24351309 T
1 T
24351310 GACTTTCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.02, C:0.20, G:0.06, T:0.72
Consensus pattern (26 bp):
TCTTTCTTTCTATTTTTCTTTGGCTT
Found at i:24361558 original size:20 final size:20
Alignment explanation
Indices: 24361524--24361597 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
24361514 CAGCCCTTTT
*
24361524 AAAATT-TAAATATTATTTA
1 AAAATTATAAAAATTATTTA
* **
24361543 AAAATCATAAAAATTATAAA
1 AAAATTATAAAAATTATTTA
24361563 AAAATTATAAAAA--ATTT-
1 AAAATTATAAAAATTATTTA
24361580 AAAATTATAAAAAATTAT
1 AAAATTAT-AAAAATTAT
24361598 AAATTATAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
17 8 0.18
18 7 0.16
19 5 0.11
20 24 0.55
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTATAAAAATTATTTA
Found at i:24361567 original size:11 final size:10
Alignment explanation
Indices: 24361542--24361600 Score: 72
Period size: 10 Copynumber: 6.2 Consensus size: 10
24361532 AATATTATTT
*
24361542 AAAAATCAT-
1 AAAAATTATA
24361551 AAAAATTATAA
1 AAAAATTAT-A
24361562 AAAAATTATA
1 AAAAATTATA
24361572 AAAAATT-T-
1 AAAAATTATA
24361580 -AAAATTATA
1 AAAAATTATA
24361589 AAAAATTATA
1 AAAAATTATA
24361599 AA
1 AA
24361601 TTATAAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
7 6 0.14
8 1 0.02
9 9 0.20
10 19 0.43
11 9 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:24361585 original size:17 final size:16
Alignment explanation
Indices: 24361563--24361607 Score: 72
Period size: 17 Copynumber: 2.7 Consensus size: 16
24361553 AAATTATAAA
24361563 AAAATTATAAAAAATTT
1 AAAATTATAAAAAA-TT
24361580 AAAATTATAAAAAATT
1 AAAATTATAAAAAATT
24361596 ATAAATTATAAA
1 A-AAATTATAAA
24361608 TTTTTGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 3 0.11
17 24 0.89
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTATAAAAAATT
Found at i:24361739 original size:9 final size:9
Alignment explanation
Indices: 24361713--24361766 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
24361703 TTATTTTTAA
*
24361713 TATAAGTTT
1 TATAATTTT
24361722 TATAA-TTT
1 TATAATTTT
24361730 TATAATTTT
1 TATAATTTT
24361739 TATAATTTT
1 TATAATTTT
*
24361748 TATGATTTT
1 TATAATTTT
*
24361757 AATAATTTT
1 TATAATTTT
24361766 T
1 T
24361767 TAAATTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
8 8 0.20
9 32 0.80
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (9 bp):
TATAATTTT
Found at i:24361739 original size:17 final size:17
Alignment explanation
Indices: 24361713--24361765 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
24361703 TTATTTTTAA
*
24361713 TATAAGTTTTATAATTT
1 TATAATTTTTATAATTT
24361730 TATAATTTTTATAATTTT
1 TATAATTTTTATAA-TTT
* *
24361748 TATGATTTTAATAATTT
1 TATAATTTTTATAATTT
24361765 T
1 T
24361766 TTAAATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 17 0.53
18 15 0.47
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
TATAATTTTTATAATTT
Found at i:24361774 original size:17 final size:17
Alignment explanation
Indices: 24361719--24361775 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
24361709 TTAATATAAG
*
24361719 TTTT-ATAATTTTATAA
1 TTTTAATAATTTTTTAA
* *
24361735 TTTTTATAATTTTTATGA
1 TTTTAATAATTTTT-TAA
24361753 TTTTAATAATTTTTTAA
1 TTTTAATAATTTTTTAA
*
24361770 ATTTAA
1 TTTTAA
24361776 AAGGGCTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 4 0.12
17 15 0.44
18 15 0.44
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTAATAATTTTTTAA
Found at i:24363421 original size:27 final size:24
Alignment explanation
Indices: 24363382--24363446 Score: 58
Period size: 27 Copynumber: 2.5 Consensus size: 24
24363372 TTTATCCAAT
*
24363382 TTAAATAATTAATTCAAACTCAAATTA
1 TTAAA-AA-TAATTCAAAAT-AAATTA
* *
24363409 TTAATGAAATAATTTAAAATGAATTA
1 TTAA--AAATAATTCAAAATAAATTA
24363435 TTAAAAATAATT
1 TTAAAAATAATT
24363447 TTATATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 8 0.24
26 9 0.27
27 13 0.39
28 2 0.06
29 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (24 bp):
TTAAAAATAATTCAAAATAAATTA
Found at i:24365917 original size:46 final size:46
Alignment explanation
Indices: 24365850--24366025 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
24365840 TATTTGGGCA
24365850 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
24365896 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* *
24365941 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
24365989 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
24366026 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.05
45 2 0.02
46 62 0.56
47 28 0.25
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:24366005 original size:93 final size:93
Alignment explanation
Indices: 24365846--24366017 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
24365836 AGGATATTTG
*
24365846 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
24365911 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
24365939 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTC-CGAACTCGTTGA
24366003 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
24366018 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:24376656 original size:8 final size:8
Alignment explanation
Indices: 24376645--24376678 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
24376635 CTTTAAATTT
*
24376645 ATATTTAA
1 ATATATAA
24376653 ATATATAA
1 ATATATAA
24376661 ATATATAA
1 ATATATAA
24376669 ATATA-AA
1 ATATATAA
24376676 ATA
1 ATA
24376679 CAACATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATAA
Found at i:24378340 original size:18 final size:18
Alignment explanation
Indices: 24378313--24378350 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24378303 TATTCTTCTT
*
24378313 AGATCCAGTCCTGAATCC
1 AGATCCAGTCCTAAATCC
*
24378331 AGATCTAGTCCTAAATCC
1 AGATCCAGTCCTAAATCC
24378349 AG
1 AG
24378351 TCTGATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (18 bp):
AGATCCAGTCCTAAATCC
Found at i:24380490 original size:18 final size:18
Alignment explanation
Indices: 24380467--24380503 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24380457 ACTAAGATCG
24380467 CGATGGAGAAGACAATAC
1 CGATGGAGAAGACAATAC
24380485 CGATGGAGAAGACAATAC
1 CGATGGAGAAGACAATAC
24380503 C
1 C
24380504 CAAGGAAATA
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:0.43, C:0.19, G:0.27, T:0.11
Consensus pattern (18 bp):
CGATGGAGAAGACAATAC
Found at i:24385645 original size:47 final size:46
Alignment explanation
Indices: 24385572--24385790 Score: 200
Period size: 47 Copynumber: 4.7 Consensus size: 46
24385562 GATTTCTTGT
* *
24385572 GTGCCAGTGTAACACATGTCTGGGACATGCATCAGC-CACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCA-AATATGA
* * *
24385618 GTGCCAGTGTAAGACCATGTCTAGGACATGACATCGGCTTAAATATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG-CATCAGCTCAAATATGA
* *
24385666 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTC-GATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGC-TCAAAT-ATGA
* * * * *
24385713 -TAGCCAGTGTAAGACGTGTCTGGGACCTGCATCGGCT-AAGA-GTCA
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCAA-ATATGA
*
24385758 -TGCTAGTGTAAGACATGT-TCGGGACATGCATCA
1 GTGCCAGTGTAAGACATGTCT-GGGACATGCATCA
24385791 ACACGTATAT
Statistics
Matches: 147, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 26 0.18
45 3 0.02
46 24 0.16
47 66 0.45
48 26 0.18
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCAAATATGA
Found at i:24385733 original size:94 final size:92
Alignment explanation
Indices: 24385572--24385790 Score: 250
Period size: 94 Copynumber: 2.4 Consensus size: 92
24385562 GATTTCTTGT
* *
24385572 GTGCCAGTGTAACACATGTCTGGGACATGCATCAGCCACATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGTGCCAGTGTAAGACCATG
*
24385637 TCTAGGACATGACATCGGCTTAA-ATATGA
66 TCTAGGACATG-CATCGGC-TAAGA-ATCA
* ** *
24385666 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTCGATGATGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGT-GCCAGTGTAAGACCA
* * *
24385729 TGTCTGGGACCTGCATCGGCTAAGAGTCA
64 TGTCTAGGACATGCATCGGCTAAGAATCA
*
24385758 -TGCTAGTGTAAGACATGT-TCGGGACATGCATCA
1 GTGCCAGTGTAAGACATGTCT-GGGACATGCATCA
24385791 ACACGTATAT
Statistics
Matches: 109, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
90 1 0.01
91 29 0.27
92 5 0.05
93 8 0.07
94 48 0.44
95 18 0.17
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (92 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGTGCCAGTGTAAGACCATG
TCTAGGACATGCATCGGCTAAGAATCA
Found at i:24393081 original size:47 final size:45
Alignment explanation
Indices: 24393015--24393275 Score: 197
Period size: 47 Copynumber: 5.6 Consensus size: 45
24393005 TGTGTGCCAA
* * *
24393015 TGTAACACATGTCTAGGACATGCATCGGCCATATTATGAGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCC-TATGATGAGTGCTAG
* * * *
24393061 TGTAAGACCATGTCTGGGACATGGCATCCGCGTAGAGATGAGTGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTA-TGATGAGTGCTAG
*
24393109 TGTAAGACATGTCTGGGACATGCATCGGCCTCAATGATGA-TAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCT--ATGATGAGT-GCTAG
** * * *
24393156 TGTAAGAGGTGTCTGGGACATGCATCTG-CTAAGA-GTCGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTATGATG-AGTGCTAG
* * * *
24393200 TGTAAGACATGT-TCAGGACATGCATCAGCACGTATATATGAGAGCTAG
1 TGTAAGACATGTCT-GGGACATGCATCGGC-C-TAT-GATGAGTGCTAG
* *
24393248 TATAGGACCATGTCTGGGACATGGCATC
1 TGTAAGA-CATGTCTGGGACAT-GCATC
24393276 TGCAACTTAT
Statistics
Matches: 171, Mismatches: 27, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
44 29 0.17
45 1 0.01
46 18 0.11
47 66 0.39
48 37 0.22
49 12 0.07
50 6 0.04
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTATGATGAGTGCTAG
Found at i:24393169 original size:94 final size:91
Alignment explanation
Indices: 24393008--24393275 Score: 251
Period size: 94 Copynumber: 2.9 Consensus size: 91
24392998 GATTTCTTGT
* * * *
24393008 GTGCCAATGTAACACATGTCTAGGACATGCATCGGCCATATTATGAGTGCTAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCATATGATGAGTGCCAGTGTAAGACCATG
24393073 TCTGGGACATGGCATCCGCGT-AGAGATGA
66 TCTGGGACAT-GCATCCGC-TAAGAG-T-A
* *
24393102 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAATGATGA-TAGCCAGTGTAAGA-G
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCAT--ATGATGAGT-GCCAGTGTAAGACC
* * *
24393164 GTGTCTGGGACATGCATCTGCTAAGAGTC
63 ATGTCTGGGACATGCATCCGCTAAGAGTA
* * * * * *
24393193 GTGCTAGTGTAAGACATGT-TCAGGACATGCATCAGCACGTATAT-ATGAGAGCTAGTATAGGAC
1 GTGCCAGTGTAAGACATGTCT-AGGACATGCATCGGC-C--ATATGATGAGTGCCAGTGTAAGAC
24393256 CATGTCTGGGACATGGCATC
62 CATGTCTGGGACAT-GCATC
24393276 TGCAACTTAT
Statistics
Matches: 144, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
90 1 0.01
91 31 0.22
92 16 0.11
93 26 0.18
94 52 0.36
95 18 0.12
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCATATGATGAGTGCCAGTGTAAGACCATG
TCTGGGACATGCATCCGCTAAGAGTA
Found at i:24395212 original size:24 final size:23
Alignment explanation
Indices: 24395151--24395213 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
24395141 GATGAAAGGG
*
24395151 GAAAAGAAAGGGAAGGAAAAAGAA
1 GAAAGGAAAGGGAA-GAAAAAGAA
*
24395175 GAAAGG-ATGAGGAAGAAGGAAAG-A
1 GAAAGGAAAG-GGAAGAA--AAAGAA
24395199 GAAAGGAAAGGGAAG
1 GAAAGGAAAGGGAAG
24395214 GGGAAGGGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 5 0.16
24 21 0.66
25 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.40, T:0.02
Consensus pattern (23 bp):
GAAAGGAAAGGGAAGAAAAAGAA
Found at i:24404169 original size:22 final size:23
Alignment explanation
Indices: 24404131--24404183 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
24404121 TACACCACAT
**
24404131 CAGAGAGCACTGTAGTGCTAA-A
1 CAGAGAGCACTAAAGTGCTAATA
*
24404153 CAGAGAGCACTAAAGTGTTAATA
1 CAGAGAGCACTAAAGTGCTAATA
24404176 -AGAGAGCA
1 CAGAGAGCA
24404184 AAGAAATGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.17
Consensus pattern (23 bp):
CAGAGAGCACTAAAGTGCTAATA
Found at i:24405133 original size:19 final size:19
Alignment explanation
Indices: 24405118--24405154 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24405108 AATAATTAGT
24405118 CTAA-TTAACTATAATTAA
1 CTAACTTAACTATAATTAA
*
24405136 CTAACTTAATTATAATTAA
1 CTAACTTAACTATAATTAA
24405155 AAAAGTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (19 bp):
CTAACTTAACTATAATTAA
Found at i:24407066 original size:124 final size:121
Alignment explanation
Indices: 24406858--24407091 Score: 308
Period size: 124 Copynumber: 1.9 Consensus size: 121
24406848 CACCACGTTT
* **
24406858 CAAATTTAGATGAATGTTCATTGCTTTAAAAAAAACATTTCTAGCTTAATGTGTTAGCTACCATG
1 CAAATTTAGATGAATGTTCATTACTTTAAAAAAAACATTTCTAGCTTAATGCATTAGCTACCATG
*
24406923 TTAGATTTACCCAGATGATAGTTGGTAATCAGATCGTAATATTTCCCATCACATTG
66 TTAGATTTACCCAGATGATAGTTGGTAATCAAATCGTAATATTTCCCATCACATTG
* * *
24406979 CAAAGTTT-GATGAGTGTTCATTACTTTAAAAAAACAAAGATTTCTGGCTTAATGCATTAGCTAC
1 CAAA-TTTAGATGAATGTTCATTACTTT--AAAAA-AAACATTTCTAGCTTAATGCATTAGCTAC
* *** * *
24407043 CATGTTAGCTTTACTTGGATGATAGTTGGTAATCAAATTGTAATCTTTC
62 CATGTTAGATTTACCCAGATGATAGTTGGTAATCAAATCGTAATATTTC
24407092 AACAACTCGA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
121 21 0.22
122 3 0.03
123 5 0.05
124 67 0.70
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (121 bp):
CAAATTTAGATGAATGTTCATTACTTTAAAAAAAACATTTCTAGCTTAATGCATTAGCTACCATG
TTAGATTTACCCAGATGATAGTTGGTAATCAAATCGTAATATTTCCCATCACATTG
Found at i:24409232 original size:27 final size:27
Alignment explanation
Indices: 24409202--24409561 Score: 288
Period size: 27 Copynumber: 13.3 Consensus size: 27
24409192 AGGTAGTCCA
*
24409202 TTCAGAGTTCACCACAAAGGTTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
*** * ***
24409229 TTCAGAGTTTGTCATAAAAAATATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
* * * *
24409256 TTTAGAGTTCACCATAGAGGCTATTTT
1 TTCAGAGTTCACCACAAAGGCTATTCT
* * **
24409283 TTCAAAATTTGCCACAAAGGCTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
* ** *
24409310 TTCAGAATTCACCATGAAGGTTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
* ** *
24409337 TTCAAAGTTTGCCACGAAGGCTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
*
24409364 TTCAGAGTTCACCACGAAGGCTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
* **
24409391 TTTAGAGTTTGCCACAAAGGCTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
*
24409418 TTCAGAGTTCGCCACAAAGGCTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
** * * * *
24409445 TTCAGAGTTTGCTATAGAGGATATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
* * * * * *
24409472 TTCAAAGTTCATCATAGAGGATATTCG
1 TTCAGAGTTCACCACAAAGGCTATTCT
* * * * *
24409499 TTCAAAGTTCAGCATAGAGGTTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
* *
24409526 TTTAGAGTTCACCACAAAGGTTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
24409553 TTCAGAGTT
1 TTCAGAGTT
24409562 AAGGGCTTTG
Statistics
Matches: 268, Mismatches: 65, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 268 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (27 bp):
TTCAGAGTTCACCACAAAGGCTATTCT
Found at i:24409268 original size:54 final size:54
Alignment explanation
Indices: 24409184--24409561 Score: 364
Period size: 54 Copynumber: 7.0 Consensus size: 54
24409174 AATCCGGGTA
* * *
24409184 TGCCACAAAGG-TAGTCCATTCAGAGTTCACCACAAAGGTTATTCTTTCAGAGTT
1 TGCCACAAAGGCTA-TTCTTTCAGAGTTCACCACAAAGGCTATTCTTTCAGAGTT
* * *** * * * * * *
24409238 TGTCATAAAAAATATTCTTTTAGAGTTCACCATAGAGGCTATTTTTTCAAAATT
1 TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTTCAGAGTT
* ** * *
24409292 TGCCACAAAGGCTATTCTTTCAGAATTCACCATGAAGGTTATTCTTTCAAAGTT
1 TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTTCAGAGTT
* * *
24409346 TGCCACGAAGGCTATTCTTTCAGAGTTCACCACGAAGGCTATTCTTTTAGAGTT
1 TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTTCAGAGTT
*
24409400 TGCCACAAAGGCTATTCTTTCAGAGTTCGCCACAAAGGCTATTCTTTCAGAGTT
1 TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTTCAGAGTT
* * * * * * * * * * *
24409454 TGCTATAGAGGATATTCTTTCAAAGTTCATCATAGAGGATATTCGTTCAAAGTT
1 TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTTCAGAGTT
* * * * * *
24409508 CAG-CATAGAGGTTATTCTTTTAGAGTTCACCACAAAGGTTATTCTTTCAGAGTT
1 -TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTTCAGAGTT
24409562 AAGGGCTTTG
Statistics
Matches: 264, Mismatches: 58, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
54 261 0.99
55 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (54 bp):
TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTTCAGAGTT
Found at i:24409373 original size:108 final size:107
Alignment explanation
Indices: 24409184--24409561 Score: 404
Period size: 108 Copynumber: 3.5 Consensus size: 107
24409174 AATCCGGGTA
* * * *
24409184 TGCCACAAAGG-TAGTCCATTCAGAGTTCACCACAAAGGTTATTCTTTCAGAGTTTGTCATAAAA
1 TGCCACAAAGGCTA-TTCTTTCAGAGTTCACCACAAAGGTTATTCTTTCAGAGTTTGCCA-AAAG
* * *
24409248 AATATTCTTTTAGAGTTCACCATAGAGGCTATTTTTTCAAAATT
64 GATATTCTTTCAGAGTTCACCATAGAGGCTATTTTTTCAAAGTT
* ** * *
24409292 TGCCACAAAGGCTATTCTTTCAGAATTCACCATGAAGGTTATTCTTTCAAAGTTTGCCACGAAGG
1 TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGTTATTCTTTCAGAGTTTGCCA-AAAGG
* * *
24409357 CTATTCTTTCAGAGTTCACCA-CGAAGGCTATTCTTTT-AGAGTT
65 ATATTCTTTCAGAGTTCACCATAG-AGGCTATT-TTTTCAAAGTT
* * * *
24409400 TGCCACAAAGGCTATTCTTTCAGAGTTCGCCACAAAGGCTATTCTTTCAGAGTTTGCTATAGAGG
1 TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGTTATTCTTTCAGAGTTTGCCA-AAAGG
* * * **
24409465 ATATTCTTTCAAAGTTCATCATAGAGGATATTCGTTCAAAGTT
65 ATATTCTTTCAGAGTTCACCATAGAGGCTATTTTTTCAAAGTT
* * * * *
24409508 CAG-CATAGAGGTTATTCTTTTAGAGTTCACCACAAAGGTTATTCTTTCAGAGTT
1 -TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGTTATTCTTTCAGAGTT
24409562 AAGGGCTTTG
Statistics
Matches: 223, Mismatches: 41, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
107 3 0.01
108 212 0.95
109 8 0.04
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (107 bp):
TGCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGTTATTCTTTCAGAGTTTGCCAAAAGGA
TATTCTTTCAGAGTTCACCATAGAGGCTATTTTTTCAAAGTT
Found at i:24412831 original size:27 final size:27
Alignment explanation
Indices: 24412793--24413051 Score: 288
Period size: 27 Copynumber: 9.6 Consensus size: 27
24412783 GATGTTACAA
*
24412793 TTCGCCATAAAGGCTATTCTTTTAGAG
1 TTCGCCATAAAGGCTATTCTTTCAGAG
* * *
24412820 TTCGCCATAAAGGATATTCTTTTAGAT
1 TTCGCCATAAAGGCTATTCTTTCAGAG
* * * *
24412847 TTCGCCACAGAGGTTATTCTTTCAGTG
1 TTCGCCATAAAGGCTATTCTTTCAGAG
* * *
24412874 TTCGCCACAAAGGATATTCTTTTAGAG
1 TTCGCCATAAAGGCTATTCTTTCAGAG
* * *
24412901 TTCACCATAAAGGATATTCTTTCAAAG
1 TTCGCCATAAAGGCTATTCTTTCAGAG
* *
24412928 TTCGCCACAAAGCCTATTCTTTCAGAG
1 TTCGCCATAAAGGCTATTCTTTCAGAG
*
24412955 CTT-GCCACAGAA-GCTATTCTTTCAGAG
1 -TTCGCCATA-AAGGCTATTCTTTCAGAG
* *
24412982 TTCGCCATAAAGGATATTCTTTCAAAG
1 TTCGCCATAAAGGCTATTCTTTCAGAG
* *
24413009 TTTGTCATAAAGGCTATTCTTTCAGAG
1 TTCGCCATAAAGGCTATTCTTTCAGAG
*
24413036 TTCGCCATAGAGGCTA
1 TTCGCCATAAAGGCTA
24413052 ACCAAATGCC
Statistics
Matches: 196, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.02
27 188 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (27 bp):
TTCGCCATAAAGGCTATTCTTTCAGAG
Found at i:24412932 original size:81 final size:81
Alignment explanation
Indices: 24412793--24413051 Score: 342
Period size: 81 Copynumber: 3.2 Consensus size: 81
24412783 GATGTTACAA
* * * * *
24412793 TTCGCCATAAAGGCTATTCTTTTAGAGTTCGCCATAAAGGATATTCTTTTAGATTTCGCCACAGA
1 TTCGCCACAAAGGCTATTCTTTTAGAGTTCGCCATAAAGGATATTCTTTCAAAGTTCGCCACAAA
* *
24412858 GGTTATTCTTTCAGTG
66 GGCTATTCTTTCAGAG
* *
24412874 TTCGCCACAAAGGATATTCTTTTAGAGTTCACCATAAAGGATATTCTTTCAAAGTTCGCCACAAA
1 TTCGCCACAAAGGCTATTCTTTTAGAGTTCGCCATAAAGGATATTCTTTCAAAGTTCGCCACAAA
*
24412939 GCCTATTCTTTCAGAG
66 GGCTATTCTTTCAGAG
* * * *
24412955 CTT-GCCACAGAA-GCTATTCTTTCAGAGTTCGCCATAAAGGATATTCTTTCAAAGTTTGTCATA
1 -TTCGCCACA-AAGGCTATTCTTTTAGAGTTCGCCATAAAGGATATTCTTTCAAAGTTCGCCACA
24413018 AAGGCTATTCTTTCAGAG
64 AAGGCTATTCTTTCAGAG
* *
24413036 TTCGCCATAGAGGCTA
1 TTCGCCACAAAGGCTA
24413052 ACCAAATGCC
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
80 3 0.02
81 148 0.95
82 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (81 bp):
TTCGCCACAAAGGCTATTCTTTTAGAGTTCGCCATAAAGGATATTCTTTCAAAGTTCGCCACAAA
GGCTATTCTTTCAGAG
Found at i:24415894 original size:20 final size:20
Alignment explanation
Indices: 24415857--24415910 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
24415847 TGCAAATCTG
* * *
24415857 TCAAAAATAATCAGAATTAA
1 TCAAAATTAATTATAATTAA
*
24415877 TCAAAATTTATTATAATTAA
1 TCAAAATTAATTATAATTAA
*
24415897 TTAAAATTAATTAT
1 TCAAAATTAATTAT
24415911 GTTAATAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.39
Consensus pattern (20 bp):
TCAAAATTAATTATAATTAA
Found at i:24415908 original size:10 final size:10
Alignment explanation
Indices: 24415871--24415909 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
24415861 AAATAATCAG
*
24415871 AATTAATCAA
1 AATTAATTAA
* *
24415881 AATTTATTAT
1 AATTAATTAA
24415891 AATTAATTAA
1 AATTAATTAA
24415901 AATTAATTA
1 AATTAATTA
24415910 TGTTAATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (10 bp):
AATTAATTAA
Found at i:24432388 original size:23 final size:23
Alignment explanation
Indices: 24432355--24432409 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
24432345 CTTCGTTGCT
*
24432355 TTCTAAAACCTAGTTCCTACTAA
1 TTCTAACACCTAGTTCCTACTAA
24432378 TTCTAACACCTAGTTCCTACTAA
1 TTCTAACACCTAGTTCCTACTAA
24432401 TTCTAACAC
1 TTCTAACAC
24432410 AAAATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (23 bp):
TTCTAACACCTAGTTCCTACTAA
Found at i:24434832 original size:20 final size:20
Alignment explanation
Indices: 24434809--24434849 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24434799 TTGTTAGGTA
24434809 CTTAGGTTGAATGTTTTTGG
1 CTTAGGTTGAATGTTTTTGG
24434829 CTTAGGTTGAATGTTTTTGG
1 CTTAGGTTGAATGTTTTTGG
24434849 C
1 C
24434850 ATGTTTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.07, G:0.29, T:0.49
Consensus pattern (20 bp):
CTTAGGTTGAATGTTTTTGG
Found at i:24434855 original size:31 final size:31
Alignment explanation
Indices: 24434819--24434878 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
24434809 CTTAGGTTGA
**
24434819 ATGTTTTTGGCTTAGGTTGAATGT-TTTTGGC
1 ATGTTTTAAGCTT-GGTTGAATGTGTTTTGGC
*
24434850 ATGTTTTAAGCTTGTTTGAATGTGTTTTG
1 ATGTTTTAAGCTTGGTTGAATGTGTTTTG
24434879 AAGTCATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.15, C:0.05, G:0.27, T:0.53
Consensus pattern (31 bp):
ATGTTTTAAGCTTGGTTGAATGTGTTTTGGC
Found at i:24438941 original size:32 final size:32
Alignment explanation
Indices: 24438905--24438967 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
24438895 CATCAAACCC
*
24438905 CTAATGTTTTATTTATAGAAGTGTTGGCAACT
1 CTAATGTCTTATTTATAGAAGTGTTGGCAACT
24438937 CTAATGTCTTATTTATAGAAGTGTTGGCAAC
1 CTAATGTCTTATTTATAGAAGTGTTGGCAAC
24438968 CCAAATTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (32 bp):
CTAATGTCTTATTTATAGAAGTGTTGGCAACT
Found at i:24443304 original size:13 final size:13
Alignment explanation
Indices: 24443286--24443319 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
24443276 TTGAGCTTCC
24443286 TTTTTTTCTCTTT
1 TTTTTTTCTCTTT
24443299 TTTTTTTC-CTTT
1 TTTTTTTCTCTTT
24443311 TTTTTTTCT
1 TTTTTTTCT
24443320 ATCGAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTCTCTTT
Found at i:24443316 original size:11 final size:11
Alignment explanation
Indices: 24443282--24443316 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
24443272 TAGATTGAGC
24443282 TTCCTTTTTTT
1 TTCCTTTTTTT
* *
24443293 CTCTTTTTTTT
1 TTCCTTTTTTT
24443304 TTCCTTTTTTT
1 TTCCTTTTTTT
24443315 TT
1 TT
24443317 TCTATCGAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTCCTTTTTTT
Found at i:24444231 original size:13 final size:13
Alignment explanation
Indices: 24444213--24444241 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24444203 ATTACAGCAC
24444213 GACACAAGTTTAG
1 GACACAAGTTTAG
24444226 GACACAAGTTTAG
1 GACACAAGTTTAG
24444239 GAC
1 GAC
24444242 TAAGCAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (13 bp):
GACACAAGTTTAG
Found at i:24444566 original size:6 final size:7
Alignment explanation
Indices: 24444549--24444574 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24444539 TTAAAATTTA
24444549 AAAAAAT
1 AAAAAAT
24444556 AAAAAAT
1 AAAAAAT
24444563 AAAAAAT
1 AAAAAAT
24444570 AAAAA
1 AAAAA
24444575 CAAATATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:24449801 original size:18 final size:17
Alignment explanation
Indices: 24449774--24449807 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24449764 AGAAAATATT
*
24449774 TTATTTTTTATAATTAAG
1 TTATTGTTTAT-ATTAAG
24449792 TTATTGTTTATATTAA
1 TTATTGTTTATATTAA
24449808 TAAAACCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TTATTGTTTATATTAAG
Found at i:24451095 original size:18 final size:17
Alignment explanation
Indices: 24451057--24451095 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
24451047 GGTTTGAAAA
24451057 TTTTAATTAATTAAATTT
1 TTTTAATTAA-TAAATTT
24451075 TTTTAATTAA-AAATTT
1 TTTTAATTAATAAATTT
24451091 ATTTT
1 -TTTT
24451096 CATCCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATTAATAAATTT
Found at i:24451381 original size:32 final size:33
Alignment explanation
Indices: 24451345--24451413 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
24451335 AGATTAATTT
* *
24451345 ATATTTTATGTATTATTA-ATTAAATTATTTAA
1 ATATTTCATGTATAATTATATTAAATTATTTAA
24451377 ATATTTCATGTATAATTATATTAAATTATTTAA
1 ATATTTCATGTATAATTATATTAAATTATTTAA
24451410 ATAT
1 ATAT
24451414 AATTTATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 16 0.47
33 18 0.53
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (33 bp):
ATATTTCATGTATAATTATATTAAATTATTTAA
Found at i:24451423 original size:28 final size:30
Alignment explanation
Indices: 24451357--24451449 Score: 84
Period size: 33 Copynumber: 3.0 Consensus size: 30
24451347 ATTTTATGTA
*
24451357 TTATTA-ATTAAATTATTTAAATATTTCATG
1 TTATTATATTAAATTATTTAAATA-TTAATG
24451387 TATAATTATATTAAATTATTTAAATA-TAAT-
1 T-T-ATTATATTAAATTATTTAAATATTAATG
** *
24451417 TTATTATATTTCATTTTTTAAAATATGTAATG
1 TTATTATATTAAATTATTT-AAATAT-TAATG
24451449 T
1 T
24451450 ATCATTGATT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
28 14 0.27
29 6 0.12
30 2 0.04
31 8 0.15
32 5 0.10
33 17 0.33
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (30 bp):
TTATTATATTAAATTATTTAAATATTAATG
Found at i:24453692 original size:93 final size:93
Alignment explanation
Indices: 24453580--24453751 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24453570 CGCCCATAAG
* *
24453580 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24453645 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
24453673 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24453738 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
24453752 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:24453748 original size:46 final size:46
Alignment explanation
Indices: 24453573--24453748 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
24453563 TGTAACCCGC
* * *
24453573 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
24453619 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
24453669 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
24453712 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
24453749 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:24458795 original size:43 final size:43
Alignment explanation
Indices: 24458734--24458819 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
24458724 TCTCGAGTTC
24458734 CCTACATTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACAT
1 CCTACATTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACAT
24458777 CCTACACTT-GCTGCAGAAGTATTCTGAGATTTAGGACCCACAT
1 CCTACA-TTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACAT
24458820 TTTGCTTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
43 40 0.95
44 2 0.05
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
CCTACATTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACAT
Found at i:24464310 original size:124 final size:124
Alignment explanation
Indices: 24464161--24464803 Score: 645
Period size: 124 Copynumber: 5.2 Consensus size: 124
24464151 GTTTTCATAA
* * * *
24464161 TTTT-AGTACTTTTACTGATAGTGCATCCTGTTTAAAGCGTTTTTGACACTATTTTTCAAAATCA
1 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTCAAAATCA
* * *
24464225 TCTTCTCAGAATTATTTTTTCAGAAACTACTATGGAAAAAGAGCATCCAACTTGGAGCT
66 TCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAACTTGGAGCT
*
24464284 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAATC
1 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTA-TTTTTCAAAATC
* * * * * **
24464349 ATTTTCTCAAAATTATTTTTTCAGAAACTATTGTAAAAAAAGAGCGT-CTAGGTGGAAGCTTT
65 ATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAACTTGG-AGC--T
* * * * *
24464411 TTTTCAGTATTTTTGTTGACAGTGAATCCTGCTTGAAGCGTTTTTTACACTATTTTTCAAAACCA
1 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTCAAAATCA
* * * * *
24464476 CCTTCTCGAAATTATATTTTCAGAAACTACTGTAGAAAAATAGCTTCC-A-TGTGAGAGCT
66 TCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAACT-TG-GAGCT
* * * * * * * *
24464535 TTTTTAGTACTTTTGCTAAAAGGGCATCCTGTTTGAAGCGTTTTTGGCCCTATTTTTTCATAATC
1 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTA-TTTTTCAAAATC
** * * ** * ** *
24464600 ATCTTCAAAAAATTATCTTTTCAAAAACTGTTGTAGAAAACGAG-AGTCCAGGTAGGAGCTT
65 ATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCA-TCCAACTTGGAGC-T
* * * *
24464661 TTTTCACTACTTTTGCTGACAGTGCATCCTGCTTAAAGCGTTTTT-ACCCTATTTTTCAGAATCA
1 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTCAAAATCA
* * * * *
24464725 TCTTCTTAAAATTA-TTTTTCAGAAATTACTGTATAAAAATAGCATCCATC-TGAGAGCT
66 TCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAACTTG-GAGCT
* *
24464783 TGTTTTAGTACTTTTGTTGAC
1 T-TTTCAGTACTTTTGCTGAC
24464804 TGAACAAAAA
Statistics
Matches: 423, Mismatches: 81, Indels: 32
0.79 0.15 0.06
Matches are distributed among these distances:
122 3 0.01
123 48 0.11
124 115 0.27
125 110 0.26
126 95 0.22
127 52 0.12
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (124 bp):
TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTCAAAATCA
TCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAACTTGGAGCT
Found at i:24464352 original size:14 final size:14
Alignment explanation
Indices: 24464335--24464374 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
24464325 TTTTGACACT
24464335 ATTTTTTCAGAATC
1 ATTTTTTCAGAATC
* * *
24464349 ATTTTCTCAAAATT
1 ATTTTTTCAGAATC
24464363 ATTTTTTCAGAA
1 ATTTTTTCAGAA
24464375 ACTATTGTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (14 bp):
ATTTTTTCAGAATC
Found at i:24464409 original size:125 final size:124
Alignment explanation
Indices: 24464161--24464803 Score: 686
Period size: 125 Copynumber: 5.2 Consensus size: 124
24464151 GTTTTCATAA
* * * *
24464161 TTTT-AGTACTTTTACTGATAGTGCATCCTGTTTAAAGCGTTTTTGACACTATTTTTCAAAATCA
1 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTCAAAATCA
* * * * **
24464225 TCTTCTCAGAATTATTTTTTCAGAAACTACTATGGAAAAAGAGCATCCAACTTGGAGC-T
66 TCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCC-AGGTGGAGCTT
*
24464284 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAATC
1 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTA-TTTTTCAAAATC
* * * *
24464349 ATTTTCTCAAAATTATTTTTTCAGAAACTATTGTAAAAAAAGAGCGTCTAGGTGGAAGCTTT
65 ATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGGTGG-AGC-TT
* * * * *
24464411 TTTTCAGTATTTTTGTTGACAGTGAATCCTGCTTGAAGCGTTTTTTACACTATTTTTCAAAACCA
1 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTCAAAATCA
* * * * * *
24464476 CCTTCTCGAAATTATATTTTCAGAAACTACTGTAGAAAAATAGCTTCCATGTGAGAGCTT
66 TCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGGTG-GAGCTT
* * * * * * *
24464536 TTTT-AGTACTTTTGCTAAAAGGGCATCCTGTTTGAAGCGTTTTTGGCCCTATTTTTTCATAATC
1 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTA-TTTTTCAAAATC
** * * ** * *
24464600 ATCTTCAAAAAATTATCTTTTCAAAAACTGTTGTAGAAAACGAGAGTCCAGGTAGGAGCTT
65 ATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGGT-GGAGCTT
* * * *
24464661 TTTTCACTACTTTTGCTGACAGTGCATCCTGCTTAAAGCGTTTTT-ACCCTATTTTTCAGAATCA
1 TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTCAAAATCA
* * * * * **
24464725 TCTTCTTAAAATTA-TTTTTCAGAAATTACTGTATAAAAATAGCATCCATCTGAGAGCTT
66 TCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGGTG-GAGCTT
*
24464784 GTTTT-AGTACTTTTGTTGAC
1 -TTTTCAGTACTTTTGCTGAC
24464804 TGAACAAAAA
Statistics
Matches: 429, Mismatches: 80, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
122 1 0.00
123 48 0.11
124 112 0.26
125 126 0.29
126 92 0.21
127 50 0.12
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (124 bp):
TTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTCAAAATCA
TCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGGTGGAGCTT
Found at i:24464662 original size:251 final size:247
Alignment explanation
Indices: 24464167--24464798 Score: 793
Period size: 251 Copynumber: 2.5 Consensus size: 247
24464157 ATAATTTTAG
* * * *
24464167 TACTTTTACTGATAGTGCATCCTGTTTAAAGCGTTTTTGACACTATTTTTCAAAATCATCTTCTC
1 TACTTTTGCTGACAGTGCATCCTGCTTAAAGCGTTTTTTACACTATTTTTCAAAATCATCTTCTC
* * * *
24464232 AGAATTATTTTTTCAGAAACTACTATGGAAAAAGAGCATCCAACTTG-GAGCTTTTTCAGTACTT
66 A-AATTA-TTTTTCAGAAACTACTGTAGAAAAATAGCATCC-A-TTGAGAGCTTTTTTAGTACTT
* * * * **
24464296 TTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAATCATTTTCTCAAAA
127 TTGCTAAAAGGGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAATCATCTTCAAAAAA
* * * * *
24464361 TTATTTTTTCAGAAACTATTGTAAAAAAAGAGCGTCTAGGTGGAAGCTTTTTTTCAG
192 TTATCTTTTCAAAAACTATTGTAAAAAAAGAGAGTCCAGGTGGAAGC-TTTTTTCAC
* * * * * *
24464418 TATTTTTGTTGACAGTGAATCCTGCTTGAAGCGTTTTTTACACTATTTTTCAAAACCACCTTCTC
1 TACTTTTGCTGACAGTGCATCCTGCTTAAAGCGTTTTTTACACTATTTTTCAAAATCATCTTCTC
*
24464483 GAAATTATATTTTCAGAAACTACTGTAGAAAAATAGCTTCCATGTGAGAGCTTTTTTAGTACTTT
66 -AAATTAT-TTTTCAGAAACTACTGTAGAAAAATAGCATCCAT-TGAGAGCTTTTTTAGTACTTT
* * * *
24464548 TGCTAAAAGGGCATCCTGTTTGAAGCGTTTTTGGCCCTATTTTTTCATAATCATCTTCAAAAAAT
128 TGCTAAAAGGGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAATCATCTTCAAAAAAT
* * *
24464613 TATCTTTTCAAAAACTGTTGTAGAAAACGAGAGTCCAGGTAGG-AGCTTTTTTCAC
193 TATCTTTTCAAAAACTATTGTAAAAAAAGAGAGTCCAGGT-GGAAGCTTTTTTCAC
* *
24464668 TACTTTTGCTGACAGTGCATCCTGCTTAAAGCG-TTTTTACCCTATTTTTCAGAATCATCTTCTT
1 TACTTTTGCTGACAGTGCATCCTGCTTAAAGCGTTTTTTACACTATTTTTCAAAATCATCTTC-T
* * *
24464732 AAAATTATTTTTCAGAAATTACTGTATAAAAATAGCATCCATCTGAGAGCTTGTTTTAGTACTTT
65 CAAATTATTTTTCAGAAACTACTGTAGAAAAATAGCATCCAT-TGAGAGCTT-TTTTAGTACTTT
24464797 TG
128 TG
24464799 TTGACTGAAC
Statistics
Matches: 328, Mismatches: 46, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
248 40 0.12
249 47 0.14
250 42 0.13
251 196 0.60
252 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (247 bp):
TACTTTTGCTGACAGTGCATCCTGCTTAAAGCGTTTTTTACACTATTTTTCAAAATCATCTTCTC
AAATTATTTTTCAGAAACTACTGTAGAAAAATAGCATCCATTGAGAGCTTTTTTAGTACTTTTGC
TAAAAGGGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAATCATCTTCAAAAAATTAT
CTTTTCAAAAACTATTGTAAAAAAAGAGAGTCCAGGTGGAAGCTTTTTTCAC
Found at i:24465001 original size:28 final size:30
Alignment explanation
Indices: 24464957--24465030 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 30
24464947 TATTTTTAAA
*
24464957 AAAATCAT-AAACACTAATTTGA-TTT-TT-
1 AAAATCCTAAAACACTAATTT-ATTTTCTTC
*
24464984 AAAATCCTAAAACCCTAATTTATTTTCTTC
1 AAAATCCTAAAACACTAATTTATTTTCTTC
24465014 AAAATCCT-AAACACTAA
1 AAAATCCTAAAACACTAA
24465031 ATATATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.20
28 14 0.35
29 10 0.25
30 8 0.20
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (30 bp):
AAAATCCTAAAACACTAATTTATTTTCTTC
Found at i:24465105 original size:14 final size:15
Alignment explanation
Indices: 24465074--24465106 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24465064 CCTAACCCCC
24465074 AAACCCTAAACATCT
1 AAACCCTAAACATCT
*
24465089 AAACCCTAAGC-TCT
1 AAACCCTAAACATCT
24465103 AAAC
1 AAAC
24465107 ATGCAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.45, C:0.33, G:0.03, T:0.18
Consensus pattern (15 bp):
AAACCCTAAACATCT
Found at i:24474633 original size:3 final size:3
Alignment explanation
Indices: 24474625--24474668 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
24474615 GGAGTATTAA
24474625 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24474669 CGATGATGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24474676 original size:3 final size:3
Alignment explanation
Indices: 24474670--24474729 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
24474660 TAATAATAAC
24474670 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
24474718 GAT GAT GAT GAT
1 GAT GAT GAT GAT
24474730 TAAAAAGTAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:24479668 original size:18 final size:16
Alignment explanation
Indices: 24479625--24479673 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 16
24479615 CAAAATACCA
24479625 TTGATATTATATTTAG
1 TTGATATTATATTTAG
24479641 TTGATATTATATTTAG
1 TTGATATTATATTTAG
*
24479657 TTGGAGTATTATTTTTA
1 TT-GA-TATTATATTTA
24479674 TGCATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 18 0.60
17 2 0.07
18 10 0.33
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (16 bp):
TTGATATTATATTTAG
Found at i:24485241 original size:22 final size:23
Alignment explanation
Indices: 24485196--24485253 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
24485186 ATTTTGGTGA
*
24485196 TGGTTATAAATGACATGCTATTT
1 TGGTTATAAATGACATGATATTT
*
24485219 T-GTTATAAATGACTTTGAT-TTT
1 TGGTTATAAATGAC-ATGATATTT
24485241 TGGCTTATAAATG
1 TGG-TTATAAATG
24485254 TCTATGTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 16 0.53
23 5 0.17
24 9 0.30
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (23 bp):
TGGTTATAAATGACATGATATTT
Found at i:24506083 original size:28 final size:28
Alignment explanation
Indices: 24506037--24506093 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
24506027 ATTGTTTACA
24506037 AAAATTAACTATTCTTTTTATAAATATT
1 AAAATTAACTATTCTTTTTATAAATATT
*
24506065 AAAATTAACTATCTCTTTTTGTAAATATT
1 AAAATTAACTAT-TCTTTTTATAAATATT
24506094 GTAAAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (28 bp):
AAAATTAACTATTCTTTTTATAAATATT
Found at i:24506175 original size:15 final size:16
Alignment explanation
Indices: 24506155--24506184 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24506145 TAACAAGTAA
24506155 TATATAAT-TATATTT
1 TATATAATGTATATTT
24506170 TATATAATGTATATT
1 TATATAATGTATATT
24506185 AATAGTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TATATAATGTATATTT
Found at i:24506976 original size:17 final size:19
Alignment explanation
Indices: 24506941--24506978 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24506931 GTTTCAATTT
*
24506941 ATTGAATTATTTTATGAAA
1 ATTGAATTATTTGATGAAA
24506960 ATTGAATT-TTTGA-GAAA
1 ATTGAATTATTTGATGAAA
24506977 AT
1 AT
24506979 ATTTGTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (19 bp):
ATTGAATTATTTGATGAAA
Found at i:24508198 original size:21 final size:21
Alignment explanation
Indices: 24508174--24508213 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24508164 TTGATCCATA
*
24508174 ATAAATAAGTACCAATACCTG
1 ATAAACAAGTACCAATACCTG
* *
24508195 ATAAACATGTATCAATACC
1 ATAAACAAGTACCAATACC
24508214 ACTTTTCAAG
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:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (21 bp):
ATAAACAAGTACCAATACCTG
Found at i:24510828 original size:49 final size:48
Alignment explanation
Indices: 24510765--24510943 Score: 214
Period size: 49 Copynumber: 3.7 Consensus size: 48
24510755 ACACTTCTTT
** * * *
24510765 TATTTTATTTTGATTAGAATATGGTTTTTCAACCTTACTACACTTCATC
1 TATTTTACGTTGATTAGAATAAGGTGTTTCAACCTTACTAGAC-TCATC
* * ** * *
24510814 TATGTAATATTGATTAGACTAAGGTGTTTCGACCTTACTAGACTCACTC
1 TATTTTACGTTGATTAGAATAAGGTGTTTCAACCTTACTAGACTCA-TC
*
24510863 TATTTTACGTTGATTAGAATAAGGTGTTTCAACCTTACTAGACTCGTTC
1 TATTTTACGTTGATTAGAATAAGGTGTTTCAACCTTACTAGACTC-ATC
*
24510912 TATTTTACGTTGATTAGAATAAGGTTTTTCAA
1 TATTTTACGTTGATTAGAATAAGGTGTTTCAA
24510944 ACTATAAATA
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
48 3 0.03
49 109 0.97
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (48 bp):
TATTTTACGTTGATTAGAATAAGGTGTTTCAACCTTACTAGACTCATC
Found at i:24515382 original size:49 final size:47
Alignment explanation
Indices: 24515319--24515461 Score: 162
Period size: 49 Copynumber: 3.0 Consensus size: 47
24515309 TCCATATAGA
* *
24515319 ACTACACT-TTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTCTCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
* * *
24515365 ACTACACTTCATCTATTTGATATTGATTTGAATAAGGTGTTTCAACCTT
1 ACTACAC-TC-TCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
* * * *
24515414 ACTACGCTCTTTATATTTGACATTGATTATAATAAGGTTTTTCAACCT
1 ACTACACTCTCTAT-TTT-ATATTGATTAGAATAAGGTTTTTCAACCT
24515462 ATAAGTAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
46 7 0.09
47 5 0.06
48 4 0.05
49 64 0.80
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.45
Consensus pattern (47 bp):
ACTACACTCTCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
Found at i:24515601 original size:21 final size:22
Alignment explanation
Indices: 24515559--24515604 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
24515549 CCCAAAAGGA
24515559 TTTCACCTAAAATCTATGTGTTC
1 TTTCACCTAAAATC-ATGTGTTC
24515582 TTTCACCTAAAATC-TGTGTTC
1 TTTCACCTAAAATCATGTGTTC
24515603 TT
1 TT
24515605 GTTTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.39
23 14 0.61
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.46
Consensus pattern (22 bp):
TTTCACCTAAAATCATGTGTTC
Found at i:24516011 original size:20 final size:20
Alignment explanation
Indices: 24515978--24516016 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24515968 AAATGAGCTT
*
24515978 TTAGTGTTGTTTTATGACCTG
1 TTAGTGTTGATTTA-GACCTG
24515999 TTAG-GTTGATTTAGACCT
1 TTAGTGTTGATTTAGACCT
24516017 AAAGAGGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.18, C:0.10, G:0.23, T:0.49
Consensus pattern (20 bp):
TTAGTGTTGATTTAGACCTG
Found at i:24518188 original size:15 final size:15
Alignment explanation
Indices: 24518168--24518265 Score: 96
Period size: 14 Copynumber: 6.8 Consensus size: 15
24518158 GTTTTAATTA
*
24518168 ACATATAGGGTTCAC
1 ACATATAGGGTTCGC
**
24518183 ACATAT-GGGTTTAC
1 ACATATAGGGTTCGC
*
24518197 ACATA-GGGGTTCGC
1 ACATATAGGGTTCGC
* *
24518211 ACATATAAGGTTTGC
1 ACATATAGGGTTCGC
*
24518226 ACATATAGGGTTCGT
1 ACATATAGGGTTCGC
24518241 ACATATA-GGTTCGC
1 ACATATAGGGTTCGC
*
24518255 ATATAT-GGGTT
1 ACATATAGGGTT
24518266 TGCATGTTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
14 38 0.55
15 31 0.45
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (15 bp):
ACATATAGGGTTCGC
Found at i:24518198 original size:14 final size:15
Alignment explanation
Indices: 24518168--24518249 Score: 78
Period size: 15 Copynumber: 5.6 Consensus size: 15
24518158 GTTTTAATTA
24518168 ACATATAGGGTTCAC
1 ACATATAGGGTTCAC
*
24518183 ACATAT-GGGTTTAC
1 ACATATAGGGTTCAC
* *
24518197 ACATA-GGGGTTCGC
1 ACATATAGGGTTCAC
* **
24518211 ACATATAAGGTTTGC
1 ACATATAGGGTTCAC
**
24518226 ACATATAGGGTTCGT
1 ACATATAGGGTTCAC
24518241 ACATATAGG
1 ACATATAGG
24518250 TTCGCATATA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
14 23 0.41
15 33 0.59
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (15 bp):
ACATATAGGGTTCAC
Found at i:24518415 original size:23 final size:23
Alignment explanation
Indices: 24518385--24518465 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 23
24518375 GCGTATACAT
24518385 ATAGGGTTCGCATGTCATAGTAG
1 ATAGGGTTCGCATGTCATAGTAG
* * * **
24518408 ATATGGTTCACATG-CAAAACAG
1 ATAGGGTTCGCATGTCATAGTAG
* * * *
24518430 TTAGGGTTTGTATGTAATAGTAG
1 ATAGGGTTCGCATGTCATAGTAG
24518453 ATAGGGTTCGCAT
1 ATAGGGTTCGCAT
24518466 ATCCTAACAG
Statistics
Matches: 40, Mismatches: 17, Indels: 2
0.68 0.29 0.03
Matches are distributed among these distances:
22 14 0.35
23 26 0.65
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (23 bp):
ATAGGGTTCGCATGTCATAGTAG
Found at i:24518639 original size:17 final size:18
Alignment explanation
Indices: 24518595--24518642 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
24518585 AGAGGCTTGC
*
24518595 ACATGCAA-GGAGGTTTG
1 ACATGCAAGGGGGGTTTG
*
24518612 TACATGAAAGGGGGGTTTG
1 -ACATGCAAGGGGGGTTTG
24518631 -CATGCAAGGGGG
1 ACATGCAAGGGGG
24518643 CTCACCTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 11 0.42
18 7 0.27
19 8 0.31
ACGTcount: A:0.27, C:0.10, G:0.42, T:0.21
Consensus pattern (18 bp):
ACATGCAAGGGGGGTTTG
Found at i:24528629 original size:14 final size:14
Alignment explanation
Indices: 24528610--24528639 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24528600 TGGAAATTTA
24528610 ATCTTGGGAGCTTG
1 ATCTTGGGAGCTTG
24528624 ATCTTGGGAGCTTG
1 ATCTTGGGAGCTTG
24528638 AT
1 AT
24528640 TTTCATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.13, G:0.33, T:0.37
Consensus pattern (14 bp):
ATCTTGGGAGCTTG
Found at i:24528729 original size:22 final size:20
Alignment explanation
Indices: 24528693--24528734 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
24528683 TCATAGTTGA
*
24528693 GAAATTGATAAATTAGGCTT
1 GAAATTGATAAATTAAGCTT
24528713 GAAATTGATAGATATTAAGCTT
1 GAAATTGATA-A-ATTAAGCTT
24528735 AGATAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (20 bp):
GAAATTGATAAATTAAGCTT
Found at i:24529226 original size:28 final size:28
Alignment explanation
Indices: 24529181--24529236 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
24529171 GATGCAAGGA
*
24529181 ACACACGGCCAAACCACATGCCCATGTG
1 ACACACGGCCAAACCACACGCCCATGTG
*
24529209 ACACACGGCCAAGA-CACACGTCCATGTG
1 ACACACGGCCAA-ACCACACGCCCATGTG
24529237 CCTACCAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.32, C:0.38, G:0.20, T:0.11
Consensus pattern (28 bp):
ACACACGGCCAAACCACACGCCCATGTG
Found at i:24533314 original size:22 final size:22
Alignment explanation
Indices: 24533286--24533330 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
24533276 TTTGTAAAAG
24533286 TAGTTTATTTGTCAACAACCTT
1 TAGTTTATTTGTCAACAACCTT
24533308 TAGTTTATTTGTCAACAACCTT
1 TAGTTTATTTGTCAACAACCTT
24533330 T
1 T
24533331 CATATTCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.47
Consensus pattern (22 bp):
TAGTTTATTTGTCAACAACCTT
Found at i:24548275 original size:40 final size:40
Alignment explanation
Indices: 24548197--24548459 Score: 336
Period size: 40 Copynumber: 6.5 Consensus size: 40
24548187 ACCCAAGTAT
* *
24548197 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
24548236 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
24548276 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
24548316 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
24548359 CTTCGGGACTTAG-TCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
24548398 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
24548438 CTTCGGGAATTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
24548460 CATCCGAATA
Statistics
Matches: 199, Mismatches: 17, Indels: 15
0.86 0.07 0.06
Matches are distributed among these distances:
39 35 0.18
40 129 0.65
41 1 0.01
42 11 0.06
43 23 0.12
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:24548411 original size:122 final size:120
Alignment explanation
Indices: 24548197--24548459 Score: 377
Period size: 122 Copynumber: 2.2 Consensus size: 120
24548187 ACCCAAGTAT
* *
24548197 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGAATTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* ** * *
24548261 CACTAGCATGAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGC
* * *
24548316 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAG-TCGGATAT
1 CTTCGGGAATTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
* *
24548380 AGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGC
24548438 CTTCGGGAATTAGCCCGGATAT
1 CTTCGGGAATTAGCCCGGATAT
24548460 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
119 12 0.09
120 10 0.08
121 1 0.01
122 78 0.61
123 26 0.20
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (120 bp):
CTTCGGGAATTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGC
Found at i:24551898 original size:35 final size:35
Alignment explanation
Indices: 24551859--24552037 Score: 207
Period size: 35 Copynumber: 5.1 Consensus size: 35
24551849 TCCATGGAAA
*
24551859 AGTTATGACACGTAGGTATGGTATTATCCATACTG
1 AGTTATGATACGTAGGTATGGTATTATCCATACTG
* *
24551894 AGTTATGATACGTAGGTATGGTATTTTCCATATTG
1 AGTTATGATACGTAGGTATGGTATTATCCATACTG
* * ** *
24551929 AGCTATGATACGTAGGAATGGTATCCTCCATACCG
1 AGTTATGATACGTAGGTATGGTATTATCCATACTG
* * *
24551964 AGCTATAATACGTAGGTATGGTATT-TCCCATACCG
1 AGTTATGATACGTAGGTATGGTATTAT-CCATACTG
* * * *
24551999 AGTTGTAAAACGTAGGTATGGTATTAACCATACTG
1 AGTTATGATACGTAGGTATGGTATTATCCATACTG
24552034 AGTT
1 AGTT
24552038 GTGAATCATG
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
34 1 0.01
35 124 0.99
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (35 bp):
AGTTATGATACGTAGGTATGGTATTATCCATACTG
Found at i:24555645 original size:57 final size:57
Alignment explanation
Indices: 24555512--24555664 Score: 161
Period size: 57 Copynumber: 2.7 Consensus size: 57
24555502 CCATTGACCT
* * * *
24555512 TGTTATATAAAGGATTTATCCCGAACAAGTAATCCTGATATAATACCTCTCGAGCATA
1 TGTTATATAAAGGATTTAGCCTGGACTAGTAATCCT-ATATAATACCTCTCGAGCATA
* * *
24555570 CGTTATGAT-TAGGGTTTAGCCTGGACTAGTAATCCTA-ATCAAGCT-CCTCT-GAGCATA
1 TGTTAT-ATAAAGGATTTAGCCTGGACTAGTAATCCTATAT-AA--TACCTCTCGAGCATA
*
24555627 TGTTATATAAAGGATTTAGCCTGGACTACTAATCCTAT
1 TGTTATATAAAGGATTTAGCCTGGACTAGTAATCCTAT
24555665 TATACGATAA
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
56 4 0.05
57 40 0.51
58 31 0.40
59 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (57 bp):
TGTTATATAAAGGATTTAGCCTGGACTAGTAATCCTATATAATACCTCTCGAGCATA
Found at i:24558517 original size:43 final size:43
Alignment explanation
Indices: 24558454--24558539 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
24558444 TATGTGATTC
24558454 CGATATGTGTTAACGAGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGTTAACGAGTAAGACCAC-GTCTGGGAC-GTTGGCAT
24558497 CGATATGTGATT-AC-ATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTG-TTAACGA-GTAAGACCACGTCTGGGACGTTGGCAT
24558540 TGTTCAACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
42 2 0.05
43 34 0.87
44 3 0.08
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (43 bp):
CGATATGTGTTAACGAGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:24562520 original size:217 final size:217
Alignment explanation
Indices: 24562145--24562579 Score: 870
Period size: 217 Copynumber: 2.0 Consensus size: 217
24562135 TTAACATGAA
24562145 TAATTAAGTTACACGAACTTACCTCGATAATAGTTCGTATAAGAAAATCTACTAACCTAAAACTT
1 TAATTAAGTTACACGAACTTACCTCGATAATAGTTCGTATAAGAAAATCTACTAACCTAAAACTT
24562210 TCTCTTTTCCTCGATCTAGCTTCGAATTTGAGTTATCCGGATCTATATAAATGAATTTAATCATC
66 TCTCTTTTCCTCGATCTAGCTTCGAATTTGAGTTATCCGGATCTATATAAATGAATTTAATCATC
24562275 AATTTAATACAATTCATATTCAATTATATTCAATTTATACTCTAGGCAAAATTACCATTTTGCCT
131 AATTTAATACAATTCATATTCAATTATATTCAATTTATACTCTAGGCAAAATTACCATTTTGCCT
24562340 CTAAACTTTCATAAATTCTAAC
196 CTAAACTTTCATAAATTCTAAC
24562362 TAATTAAGTTACACGAACTTACCTCGATAATAGTTCGTATAAGAAAATCTACTAACCTAAAACTT
1 TAATTAAGTTACACGAACTTACCTCGATAATAGTTCGTATAAGAAAATCTACTAACCTAAAACTT
24562427 TCTCTTTTCCTCGATCTAGCTTCGAATTTGAGTTATCCGGATCTATATAAATGAATTTAATCATC
66 TCTCTTTTCCTCGATCTAGCTTCGAATTTGAGTTATCCGGATCTATATAAATGAATTTAATCATC
24562492 AATTTAATACAATTCATATTCAATTATATTCAATTTATACTCTAGGCAAAATTACCATTTTGCCT
131 AATTTAATACAATTCATATTCAATTATATTCAATTTATACTCTAGGCAAAATTACCATTTTGCCT
24562557 CTAAACTTTCATAAATTCTAAC
196 CTAAACTTTCATAAATTCTAAC
24562579 T
1 T
24562580 TCGTCCCTAG
Statistics
Matches: 218, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 218 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (217 bp):
TAATTAAGTTACACGAACTTACCTCGATAATAGTTCGTATAAGAAAATCTACTAACCTAAAACTT
TCTCTTTTCCTCGATCTAGCTTCGAATTTGAGTTATCCGGATCTATATAAATGAATTTAATCATC
AATTTAATACAATTCATATTCAATTATATTCAATTTATACTCTAGGCAAAATTACCATTTTGCCT
CTAAACTTTCATAAATTCTAAC
Found at i:24567436 original size:160 final size:159
Alignment explanation
Indices: 24567266--24567556 Score: 494
Period size: 160 Copynumber: 1.8 Consensus size: 159
24567256 AAGTAAATAT
24567266 ATATATATATTATATTTTTGAAGTAATGCTTGAATAGTCGAATAATGACAAGTTTAAAATTGTTG
1 ATATATATATTATATTTTTGAAGTAATGCTTGAATAGTCGAATAATGACAAGTTTAAAATTGTTG
* * ** *
24567331 AATTTAAGCTCAAGAGCATAGAGGGTCAAAGTT-GGATAGGGGAAAAGAGAAAGTAATTGAGTAG
66 AATTTAAGCTCAAGAGCATAGAGGGGCAAA-TTCGGATAAGAAAAAAGAGAAAGTAATTGAATAG
24567395 CCTTTCCGCAACCGTTCAAGTATATCCGAG
130 CCTTTCCGCAACCGTTCAAGTATATCCGAG
*
24567425 NATATATATATTATATTTTTGAAGTAATGCTTGAATAGTCGAATAATGACTAGTTTAAAATTGTT
1 -ATATATATATTATATTTTTGAAGTAATGCTTGAATAGTCGAATAATGACAAGTTTAAAATTGTT
*
24567490 GAATTTAAGCTCAAGAGCATAGAGGGGCAAATTCGGATAAGAAAAAAGAGAAAGTAGTTGAATAG
65 GAATTTAAGCTCAAGAGCATAGAGGGGCAAATTCGGATAAGAAAAAAGAGAAAGTAATTGAATAG
24567555 CC
130 CC
24567557 GATCTAAGAC
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
159 2 0.02
160 121 0.98
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (159 bp):
ATATATATATTATATTTTTGAAGTAATGCTTGAATAGTCGAATAATGACAAGTTTAAAATTGTTG
AATTTAAGCTCAAGAGCATAGAGGGGCAAATTCGGATAAGAAAAAAGAGAAAGTAATTGAATAGC
CTTTCCGCAACCGTTCAAGTATATCCGAG
Found at i:24567971 original size:45 final size:45
Alignment explanation
Indices: 24567903--24568079 Score: 284
Period size: 45 Copynumber: 4.0 Consensus size: 45
24567893 TATTGTACAG
*
24567903 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
24567948 TACTATTCGGGCCTTTGACCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
24567993 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
24568038 CATTATTCGGGCC-TTGAGCCTAGCAGGCTATAATGTCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
24568080 ATGAATTCGG
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
44 27 0.22
45 95 0.78
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:24569761 original size:19 final size:19
Alignment explanation
Indices: 24569739--24569778 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24569729 ATTAATTTTG
* *
24569739 ATCAAGTAAATTTAAATTA
1 ATCAAATAAATTAAAATTA
*
24569758 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
24569777 AT
1 AT
24569779 ATGATATTTT
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:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:24570338 original size:14 final size:15
Alignment explanation
Indices: 24570321--24570373 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 15
24570311 TCTTAGATAT
24570321 GATATG-CAATCTTA
1 GATATGACAATCTTA
24570335 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
24570352 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
24570370 GATA
1 GATA
24570374 CGATATGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.18
15 1 0.03
17 14 0.42
18 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:24570371 original size:35 final size:37
Alignment explanation
Indices: 24570302--24570397 Score: 137
Period size: 35 Copynumber: 2.6 Consensus size: 37
24570292 AATCTTCAAT
*
24570302 GATAGGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAC
24570340 GATA-CAATCTTAGATATGAT-TGCAATCTTAGATAC
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAC
24570375 GATATGCAATCTTAGA-A-GATATG
1 GATA-GCAATCTTAGATATGATATG
24570398 ATTTTGTAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
35 21 0.39
36 19 0.35
37 10 0.19
38 4 0.07
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAC
Found at i:24570397 original size:17 final size:19
Alignment explanation
Indices: 24570300--24570390 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
24570290 ATAATCTTCA
*
24570300 ATGATAGGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24570319 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24570338 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24570355 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
24570373 ACGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
24570391 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.22
19 36 0.54
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:24570700 original size:17 final size:18
Alignment explanation
Indices: 24570678--24570714 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
24570668 CATGTTTCCC
*
24570678 TAATTTTTTTTAT-ATTT
1 TAATTTTTTTAATAATTT
24570695 TAATTTTTTTAATAATTT
1 TAATTTTTTTAATAATTT
24570713 TA
1 TA
24570715 GTATCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TAATTTTTTTAATAATTT
Found at i:24582502 original size:78 final size:78
Alignment explanation
Indices: 24582402--24582670 Score: 409
Period size: 78 Copynumber: 3.4 Consensus size: 78
24582392 CGTTGACAAA
*
24582402 GAGCAGAGCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGAATCTC
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGAATCTC
24582467 TGTATTAGACGGG
66 TGTATTAGACGGG
*
24582480 GAGCAGATCGAAGACACT-GCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
1 GAGCAGATCGAAGACA-TAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGAATCT
* *
24582544 CTATATTAGACAGG
65 CTGTATTAGACGGG
* * *
24582558 GAGCAGATCAAATACATAACAGAT-TGGACCTTCATTGAAGCAGATCCAAGATGATTT-GACATC
1 GAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGA-ATC
24582621 TCTGTATTAGACGGG
64 TCTGTATTAGACGGG
* *
24582636 GAGCAAATCGAAGACATAGTAGATCTGACCTTCAT
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
24582671 GTGTTTACAT
Statistics
Matches: 171, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
77 3 0.02
78 166 0.97
79 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (78 bp):
GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGAATCTC
TGTATTAGACGGG
Found at i:24582717 original size:20 final size:20
Alignment explanation
Indices: 24582692--24582732 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24582682 GAAGCAAATC
*
24582692 CAAGATGACAGATTTGGCAT
1 CAAGATAACAGATTTGGCAT
24582712 CAAGATAACAGATTTGGCAT
1 CAAGATAACAGATTTGGCAT
24582732 C
1 C
24582733 TCTGTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (20 bp):
CAAGATAACAGATTTGGCAT
Found at i:24582783 original size:44 final size:45
Alignment explanation
Indices: 24582713--24582858 Score: 204
Period size: 45 Copynumber: 3.3 Consensus size: 45
24582703 ATTTGGCATC
* * *
24582713 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
1 AAGATAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
* *
24582758 AAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGAAAATCG
1 AAGATAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
** * *
24582802 AAGATAATAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCA
1 AAGATAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
24582847 AAGATAGCAGAT
1 AAGATAGCAGAT
24582859 ATCACCTTCT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 39 0.45
45 48 0.55
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.25
Consensus pattern (45 bp):
AAGATAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
Found at i:24583246 original size:14 final size:15
Alignment explanation
Indices: 24583229--24583284 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
24583219 TCTTAGATAT
24583229 GATATG-CAATCTTA
1 GATATGACAATCTTA
24583243 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
24583260 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
24583278 GATATGA
1 GATATGA
24583285 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:24583279 original size:35 final size:37
Alignment explanation
Indices: 24583208--24583305 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
24583198 ATAATCTTCG
24583208 ATGATAGGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
24583246 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
24583281 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
24583306 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:24583305 original size:17 final size:19
Alignment explanation
Indices: 24583208--24583298 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
24583198 ATAATCTTCG
*
24583208 ATGATAGGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24583227 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24583246 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24583263 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24583281 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
24583299 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:24583324 original size:22 final size:22
Alignment explanation
Indices: 24583208--24583321 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
24583198 ATAATCTTCG
*
24583208 ATGATAGGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
24583227 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
24583246 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
24583263 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
24583281 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
24583303 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
24583322 GATTTAATTT
Statistics
Matches: 85, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 33 0.39
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:24584327 original size:17 final size:17
Alignment explanation
Indices: 24584305--24584404 Score: 61
Period size: 17 Copynumber: 5.9 Consensus size: 17
24584295 TTTATTTTAA
24584305 TAATTTAATATTAAATT
1 TAATTTAATATTAAATT
24584322 TAATTTAATACTT--ATCT
1 TAATTTAATA-TTAAAT-T
* * *
24584339 TAA--CAGTATT-TA-T
1 TAATTTAATATTAAATT
24584352 TAATTTAATATTAAAGTGAT
1 TAATTTAATATTAAA-T--T
24584372 T-ATCTTAATATTAAATT
1 TAAT-TTAATATTAAATT
24584389 TAATTTAATATATAAA
1 TAATTTAATAT-TAAA
24584405 CATTCTATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 25
0.68 0.05 0.26
Matches are distributed among these distances:
13 4 0.06
14 2 0.03
15 9 0.14
16 3 0.05
17 23 0.35
18 8 0.12
19 3 0.05
20 13 0.20
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (17 bp):
TAATTTAATATTAAATT
Found at i:24584568 original size:17 final size:17
Alignment explanation
Indices: 24584546--24584645 Score: 61
Period size: 17 Copynumber: 5.9 Consensus size: 17
24584536 TTTATTTTAA
24584546 TAATTTAATATTAAATT
1 TAATTTAATATTAAATT
24584563 TAATTTAATACTT--ATCT
1 TAATTTAATA-TTAAAT-T
* * *
24584580 TAA--CAGTATT-TA-T
1 TAATTTAATATTAAATT
24584593 TAATTTAATATTAAAGTGAT
1 TAATTTAATATTAAA-T--T
24584613 T-ATCTTAATATTAAATT
1 TAAT-TTAATATTAAATT
24584630 TAATTTAATATATAAA
1 TAATTTAATAT-TAAA
24584646 CATTCTATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 25
0.68 0.05 0.26
Matches are distributed among these distances:
13 4 0.06
14 2 0.03
15 9 0.14
16 3 0.05
17 23 0.35
18 8 0.12
19 3 0.05
20 13 0.20
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (17 bp):
TAATTTAATATTAAATT
Found at i:24584597 original size:241 final size:241
Alignment explanation
Indices: 24584174--24584659 Score: 965
Period size: 241 Copynumber: 2.0 Consensus size: 241
24584164 GGCGACTCCC
24584174 GTTTTCGTTTTCCAAAAGTCGATCCCCATTTTTCAAACATCCCTTTAAAAAATGGTTTCGACAGC
1 GTTTTCGTTTTCCAAAAGTCGATCCCCATTTTTCAAACATCCCTTTAAAAAATGGTTTCGACAGC
24584239 TTCTACTGGGACTCTACCAGAGAATTTGATATCAAATTAACTATTTCAAAAATAATTTTATTTTA
66 TTCTACTGGGACTCTACCAGAGAATTTGATATCAAATTAACTATTTCAAAAATAATTTTATTTTA
24584304 ATAATTTAATATTAAATTTAATTTAATACTTATCTTAACAGTATTTATTAATTTAATATTAAAGT
131 ATAATTTAATATTAAATTTAATTTAATACTTATCTTAACAGTATTTATTAATTTAATATTAAAGT
24584369 GATTATCTTAATATTAAATTTAATTTAATATATAAACATTCTATTT
196 GATTATCTTAATATTAAATTTAATTTAATATATAAACATTCTATTT
24584415 GTTTTCGTTTTCCAAAAGTCGATCCCCATTTTTCAAACATCCCTTTAAAAAATGGTTTCGACAGC
1 GTTTTCGTTTTCCAAAAGTCGATCCCCATTTTTCAAACATCCCTTTAAAAAATGGTTTCGACAGC
24584480 TTCTACTGGGACTCTACCAGAGAATTTGATATCAAATTAACTATTTCAAAAATAATTTTATTTTA
66 TTCTACTGGGACTCTACCAGAGAATTTGATATCAAATTAACTATTTCAAAAATAATTTTATTTTA
24584545 ATAATTTAATATTAAATTTAATTTAATACTTATCTTAACAGTATTTATTAATTTAATATTAAAGT
131 ATAATTTAATATTAAATTTAATTTAATACTTATCTTAACAGTATTTATTAATTTAATATTAAAGT
24584610 GATTATCTTAATATTAAATTTAATTTAATATATAAACATTCTATTT
196 GATTATCTTAATATTAAATTTAATTTAATATATAAACATTCTATTT
24584656 -TTTT
1 GTTTT
24584660 AGTAAGATTT
Statistics
Matches: 245, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
240 4 0.02
241 241 0.98
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.44
Consensus pattern (241 bp):
GTTTTCGTTTTCCAAAAGTCGATCCCCATTTTTCAAACATCCCTTTAAAAAATGGTTTCGACAGC
TTCTACTGGGACTCTACCAGAGAATTTGATATCAAATTAACTATTTCAAAAATAATTTTATTTTA
ATAATTTAATATTAAATTTAATTTAATACTTATCTTAACAGTATTTATTAATTTAATATTAAAGT
GATTATCTTAATATTAAATTTAATTTAATATATAAACATTCTATTT
Found at i:24585470 original size:6 final size:6
Alignment explanation
Indices: 24585461--24585485 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24585451 ACATATATAT
24585461 ATTTGA ATTTGA ATTTGA ATTTGA A
1 ATTTGA ATTTGA ATTTGA ATTTGA A
24585486 ATGGTTACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTTGA
Found at i:24587491 original size:23 final size:24
Alignment explanation
Indices: 24587448--24587498 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
24587438 AGGATAATTA
*
24587448 TTTAGGATTTTTATTAGATTTAAT
1 TTTAGGATTTTTATTACATTTAAT
*
24587472 TTTAGGATTTATT-TT-CATTTATT
1 TTTAGGATTT-TTATTACATTTAAT
24587495 TTTA
1 TTTA
24587499 ATTATCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.42
24 12 0.50
25 2 0.08
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (24 bp):
TTTAGGATTTTTATTACATTTAAT
Done.