Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 62 of 349
Found at i:18072774 original size:27 final size:28
Alignment explanation
Indices: 18072717--18072774 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
18072707 ATATTCTATC
* * * * *
18072717 AAAATATGAATAGACATTGTTTTATATT
1 AAAATAAGAATACACATTGTGTTAAAAT
18072745 AAAATAAGAATACA-ATTGTGTTAAAAT
1 AAAATAAGAATACACATTGTGTTAAAAT
18072772 AAA
1 AAA
18072775 TTAAAAACTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.34
Consensus pattern (28 bp):
AAAATAAGAATACACATTGTGTTAAAAT
Found at i:18075523 original size:23 final size:23
Alignment explanation
Indices: 18075493--18075539 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
18075483 AAGGATTTGT
18075493 TTACATAGTTCGATTTTCCTACA
1 TTACATAGTTCGATTTTCCTACA
18075516 TTACATAGTTCGATTTTCCTACA
1 TTACATAGTTCGATTTTCCTACA
18075539 T
1 T
18075540 CCGTGGAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.45
Consensus pattern (23 bp):
TTACATAGTTCGATTTTCCTACA
Found at i:18081751 original size:22 final size:23
Alignment explanation
Indices: 18081701--18081752 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
18081691 CTCATAAAAT
*
18081701 CTTACTATTCTTAGCTCGTATGAG
1 CTTACTATTC-TAGCTCGTAGGAG
*
18081725 CTTACTATTC-AGCTCGTCGGAG
1 CTTACTATTCTAGCTCGTAGGAG
*
18081747 TTTACT
1 CTTACT
18081753 GTTTCAACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 15 0.60
24 10 0.40
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (23 bp):
CTTACTATTCTAGCTCGTAGGAG
Found at i:18085235 original size:7 final size:7
Alignment explanation
Indices: 18085225--18085256 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
18085215 AATATTAAAA
18085225 TATATTT
1 TATATTT
18085232 TATATTT
1 TATATTT
18085239 TATATTT
1 TATATTT
18085246 TATATTT
1 TATATTT
18085253 TATA
1 TATA
18085257 CAATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TATATTT
Found at i:18086994 original size:21 final size:20
Alignment explanation
Indices: 18086961--18086999 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18086951 CACAAACTCC
*
18086961 ACTACTGTTCTAACTTCACT
1 ACTACAGTTCTAACTTCACT
*
18086981 ACTACAGTATCTAATTTCA
1 ACTACAGT-TCTAACTTCA
18087000 TCACTATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (20 bp):
ACTACAGTTCTAACTTCACT
Found at i:18087005 original size:21 final size:20
Alignment explanation
Indices: 18086960--18087010 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
18086950 ACACAAACTC
*
18086960 CACTACTGT-TCTAACTTCA
1 CACTACAGTATCTAACTTCA
*
18086979 CTACTACAGTATCTAATTTCA
1 C-ACTACAGTATCTAACTTCA
*
18087000 TCACTATAGTA
1 -CACTACAGTA
18087011 ATTAATCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 7 0.27
21 17 0.65
22 1 0.04
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (20 bp):
CACTACAGTATCTAACTTCA
Found at i:18087916 original size:23 final size:24
Alignment explanation
Indices: 18087865--18087923 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
18087855 AATTTTAAAA
18087865 TTATTTTA-AAATATATTGAACTAC
1 TTATTTTATAAATATATT-AACTAC
*
18087889 ATATTTTATAAATATATT-ACT-C
1 TTATTTTATAAATATATTAACTAC
*
18087911 GTTATTTTTTAAA
1 -TTATTTTATAAA
18087924 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 1 0.03
23 13 0.43
24 7 0.23
25 9 0.30
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (24 bp):
TTATTTTATAAATATATTAACTAC
Found at i:18089918 original size:23 final size:23
Alignment explanation
Indices: 18089874--18089916 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18089864 TGCTCATATC
* *
18089874 TCTACTAGTATTAAATCATTTAT
1 TCTACTACTACTAAATCATTTAT
18089897 TCTACTACTACTAAAT-ATTT
1 TCTACTACTACTAAATCATTT
18089917 TAGTGTGTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (23 bp):
TCTACTACTACTAAATCATTTAT
Found at i:18095740 original size:3 final size:3
Alignment explanation
Indices: 18095732--18095809 Score: 63
Period size: 3 Copynumber: 26.7 Consensus size: 3
18095722 TTAATTTATT
* **
18095732 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-C TAA T-A TAA -AA CCA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
18095777 TAA TGT TAA TTAA TAA TTA TAA TAA TTA TAA TA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
18095810 TTTAAATATA
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
2 5 0.09
3 50 0.86
4 3 0.05
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:18099103 original size:71 final size:71
Alignment explanation
Indices: 18098966--18099110 Score: 182
Period size: 71 Copynumber: 2.0 Consensus size: 71
18098956 TACAAGCTTT
* *** * * ***
18098966 ATTTGATGTTGCTCACTCAAACTGTCGAGAATCTGTAATATATGCTGGATCTCAGCCATTGGTAA
1 ATTTGATGTTGCTCACTCAAACTATCGAGAATCCACAACATATGCCGGATCTCAGCCATCAATAA
18099031 AGAATA
66 AGAATA
* *
18099037 ATTTGATGTTGCTCACTCAAGCTATCGAGAATCCACAACATATGCCGGATCTCATCCATCAATAA
1 ATTTGATGTTGCTCACTCAAACTATCGAGAATCCACAACATATGCCGGATCTCAGCCATCAATAA
*
18099102 AGTATA
66 AGAATA
18099108 ATT
1 ATT
18099111 CATATTCAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (71 bp):
ATTTGATGTTGCTCACTCAAACTATCGAGAATCCACAACATATGCCGGATCTCAGCCATCAATAA
AGAATA
Found at i:18101134 original size:34 final size:34
Alignment explanation
Indices: 18101091--18101160 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
18101081 AACATGATCA
*
18101091 AAACTAAGCACCAACTAGGCCATATATCAAGATT
1 AAACTAAGCACAAACTAGGCCATATATCAAGATT
*
18101125 AAACTAAGCACAAATTAGGCCATATATCAAGATT
1 AAACTAAGCACAAACTAGGCCATATATCAAGATT
18101159 AA
1 AA
18101161 CATACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.21
Consensus pattern (34 bp):
AAACTAAGCACAAACTAGGCCATATATCAAGATT
Found at i:18112811 original size:6 final size:6
Alignment explanation
Indices: 18112800--18112829 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
18112790 TCGCTGTGAC
18112800 TGCCTT TGCCTT TGCCTT TGCCTT TGCCTT
1 TGCCTT TGCCTT TGCCTT TGCCTT TGCCTT
18112830 AGCTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
TGCCTT
Found at i:18118533 original size:23 final size:23
Alignment explanation
Indices: 18118507--18118553 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
18118497 ACACTTCTTA
*
18118507 TAAATAATATATTTTTTCATTAC
1 TAAATAATATATTTTGTCATTAC
18118530 TAAATAATATATTTTGTCATTAC
1 TAAATAATATATTTTGTCATTAC
18118553 T
1 T
18118554 TTTAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (23 bp):
TAAATAATATATTTTGTCATTAC
Found at i:18119719 original size:44 final size:44
Alignment explanation
Indices: 18119656--18119740 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
18119646 TGATCAATGG
18119656 TAGAACACAAAAAGTGGAATATGAAGCTTTATCTACTATCTATT
1 TAGAACACAAAAAGTGGAATATGAAGCTTTATCTACTATCTATT
18119700 TAGAACACAAAAAGTGGAATATGAAGCTTTATCTACTATCT
1 TAGAACACAAAAAGTGGAATATGAAGCTTTATCTACTATCT
18119741 GTTTTCATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (44 bp):
TAGAACACAAAAAGTGGAATATGAAGCTTTATCTACTATCTATT
Found at i:18129752 original size:39 final size:38
Alignment explanation
Indices: 18129685--18129778 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 38
18129675 ACCAATATGG
*
18129685 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAA-AGTTGA
* * *
18129724 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAAAGTTGA
* * *
18129762 TACCCGGTACCTCATCG
1 CACCCAGTGCCTCATCG
18129779 AATCTATCCG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 18 0.39
39 25 0.54
40 3 0.07
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAAAGTTGA
Found at i:18140362 original size:31 final size:30
Alignment explanation
Indices: 18140327--18140387 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
18140317 GAAACAGAAT
*
18140327 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
18140358 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
18140388 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:18141879 original size:38 final size:39
Alignment explanation
Indices: 18141837--18141917 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
18141827 ATGAGGTACC
*
18141837 GGGTACCAACT-TTACTTCG-GCTAGGCCGATGAGACACT
1 GGGTACCAACTATTACTTCGAACTA-GCCGATGAGACACT
* * *
18141875 GGGTATCAACTATTACTTCGAACTATCCGATGAGGCACT
1 GGGTACCAACTATTACTTCGAACTAGCCGATGAGACACT
18141914 GGGT
1 GGGT
18141918 GCCATATTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 10 0.27
39 24 0.65
40 3 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
GGGTACCAACTATTACTTCGAACTAGCCGATGAGACACT
Found at i:18147570 original size:13 final size:13
Alignment explanation
Indices: 18147549--18147600 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
18147539 AATAAACCGC
*
18147549 TAATAAAATCAAT
1 TAATCAAATCAAT
* *
18147562 TGATCAAATTAAT
1 TAATCAAATCAAT
*
18147575 TAATAAAATCAAT
1 TAATCAAATCAAT
*
18147588 TAATCAAACCAAT
1 TAATCAAATCAAT
18147601 CGCCGCAATC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (13 bp):
TAATCAAATCAAT
Found at i:18153756 original size:52 final size:51
Alignment explanation
Indices: 18153639--18153843 Score: 173
Period size: 52 Copynumber: 3.9 Consensus size: 51
18153629 CACATATCAT
* * * *
18153639 ACCGATGCCATATCCCAGATATGGGCTTATACG-GAGGCACGTTATCAC-AT-C
1 ACCGATG-CATAGCCCAGCTATGGTCTTATACGAGA-GCAC-ATATCACAATGC
* * * * *
18153690 ATACTGATGCCATAGCCCAGCCATGGTATTATATGAGAGTACATATCACAATGC
1 --ACCGATG-CATAGCCCAGCTATGGTCTTATACGAGAGCACATATCACAATGC
* * * *
18153744 ACCGATGTCATAGCCCAGCTTTGGTCTTATACGGGTGCACATATCACAATGT
1 ACCGATG-CATAGCCCAGCTATGGTCTTATACGAGAGCACATATCACAATGC
* * *
18153796 ACCAATGCTATAGCCCAGCTATGGTCTTATACGGGTGCACATATCACA
1 ACCGATGC-ATAGCCCAGCTATGGTCTTATACGAGAGCACATATCACA
18153844 TCTATTCCGT
Statistics
Matches: 127, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
51 1 0.01
52 92 0.72
53 31 0.24
54 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (51 bp):
ACCGATGCATAGCCCAGCTATGGTCTTATACGAGAGCACATATCACAATGC
Found at i:18155439 original size:24 final size:24
Alignment explanation
Indices: 18155410--18155576 Score: 90
Period size: 24 Copynumber: 6.8 Consensus size: 24
18155400 CTGTATAATG
*
18155410 GGAAGCTCATAAGAGCCATAATTA
1 GGAAGCTCAGAAGAGCCATAATTA
* * **
18155434 GGAAGCTCATATGAGCCAATAA-CG
1 GGAAGCTCAGAAGAGCC-ATAATTA
*
18155458 GGTAGCTTC-GAAGAGCCATTAATTA
1 GGAAGC-TCAGAAGAGCCA-TAATTA
* * *
18155483 GAAAGCTCGGAATAGCCAT-ATTA
1 GGAAGCTCAGAAGAGCCATAATTA
* * * *
18155506 GGAAGCTCCGGAGAGTCATTAATCA
1 GGAAGCTCAGAAGAGCCA-TAATTA
* **
18155531 GGAAGCTCTCA-AAGAGCCTTTAATCG
1 GGAAG--CTCAGAAGAGCC-ATAATTA
*
18155557 GGAAGCTCCGAAGAGCCATA
1 GGAAGCTCAGAAGAGCCATA
18155577 TATCGGGACG
Statistics
Matches: 108, Mismatches: 24, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
23 18 0.17
24 39 0.36
25 33 0.31
26 15 0.14
27 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (24 bp):
GGAAGCTCAGAAGAGCCATAATTA
Found at i:18155535 original size:25 final size:25
Alignment explanation
Indices: 18155410--18155575 Score: 115
Period size: 25 Copynumber: 6.8 Consensus size: 25
18155400 CTGTATAATG
** *
18155410 GGAAGCTCATAAGAGCCA-TAATTA
1 GGAAGCTCCGAAGAGCCATTAATCA
** * * *
18155434 GGAAGCTCATATGAGCCAATAA-CG
1 GGAAGCTCCGAAGAGCCATTAATCA
* * *
18155458 GGTAGCTTCGAAGAGCCATTAATTA
1 GGAAGCTCCGAAGAGCCATTAATCA
* * * *
18155483 GAAAGCTCGGAATAGCCA-T-ATTA
1 GGAAGCTCCGAAGAGCCATTAATCA
* *
18155506 GGAAGCTCCGGAGAGTCATTAATCA
1 GGAAGCTCCGAAGAGCCATTAATCA
* * *
18155531 GGAAGCTCTCAAAGAGCCTTTAATCG
1 GGAAGCTC-CGAAGAGCCATTAATCA
18155557 GGAAGCTCCGAAGAGCCAT
1 GGAAGCTCCGAAGAGCCAT
18155576 ATATCGGGAC
Statistics
Matches: 108, Mismatches: 29, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
23 17 0.16
24 35 0.32
25 36 0.33
26 20 0.19
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
GGAAGCTCCGAAGAGCCATTAATCA
Found at i:18155553 original size:26 final size:25
Alignment explanation
Indices: 18155505--18155573 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
18155495 TAGCCATATT
** * *
18155505 AGGAAGCTCCGGAGAGTCATTAATC
1 AGGAAGCTCCAAAGAGCCTTTAATC
18155530 AGGAAGCTCTCAAAGAGCCTTTAATC
1 AGGAAGCTC-CAAAGAGCCTTTAATC
* *
18155556 GGGAAGCTCCGAAGAGCC
1 AGGAAGCTCCAAAGAGCC
18155574 ATATATCGGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 17 0.46
26 20 0.54
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (25 bp):
AGGAAGCTCCAAAGAGCCTTTAATC
Found at i:18163563 original size:13 final size:13
Alignment explanation
Indices: 18163530--18163557 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18163520 TGAAATTTGA
18163530 TTACTTTTCTACT
1 TTACTTTTCTACT
18163543 TTACTTTTCTACT
1 TTACTTTTCTACT
18163556 TT
1 TT
18163558 GATTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.64
Consensus pattern (13 bp):
TTACTTTTCTACT
Found at i:18164059 original size:10 final size:10
Alignment explanation
Indices: 18164035--18164079 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
18164025 TTTAAGTATA
*
18164035 TATATAAAAT
1 TATATAATAT
*
18164045 AATATAATAT
1 TATATAATAT
*
18164055 TATATTATAT
1 TATATAATAT
*
18164065 TATATTATAT
1 TATATAATAT
18164075 TATAT
1 TATAT
18164080 TATACTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TATATAATAT
Found at i:18164080 original size:10 final size:10
Alignment explanation
Indices: 18164046--18164083 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
18164036 ATATAAAATA
*
18164046 ATATAATATT
1 ATATTATATT
18164056 ATATTATATT
1 ATATTATATT
18164066 ATATTATATT
1 ATATTATATT
18164076 ATATTATA
1 ATATTATA
18164084 CTAATTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATATTATATT
Found at i:18164080 original size:15 final size:15
Alignment explanation
Indices: 18164046--18164083 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
18164036 ATATAAAATA
*
18164046 ATATAATATTATATT
1 ATATTATATTATATT
18164061 ATATTATATTATATT
1 ATATTATATTATATT
18164076 ATATTATA
1 ATATTATA
18164084 CTAATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATATTATATT
Found at i:18164162 original size:13 final size:14
Alignment explanation
Indices: 18164146--18164180 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
18164136 GAAACAGGGG
18164146 AAAGAAAGAA-GAA
1 AAAGAAAGAACGAA
*
18164159 AAAGAGAGAACGAA
1 AAAGAAAGAACGAA
18164173 AAAGAAAG
1 AAAGAAAG
18164181 GGGGAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAACGAA
Found at i:18168740 original size:6 final size:5
Alignment explanation
Indices: 18168710--18168739 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
18168700 GCCCTTTGTG
18168710 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
18168740 ACACAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:18169101 original size:29 final size:29
Alignment explanation
Indices: 18169068--18169143 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
18169058 TGACACGAAT
*
18169068 TCTCAATGAACAAGTTCTTCATCGTGAAC
1 TCTCAACGAACAAGTTCTTCATCGTGAAC
*
18169097 TCTCAACGAACAAGTTCTTCATTGTGAAC
1 TCTCAACGAACAAGTTCTTCATCGTGAAC
18169126 TCTCAACGAACAAGTTCT
1 TCTCAACGAACAAGTTCT
18169144 CCACCGCTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (29 bp):
TCTCAACGAACAAGTTCTTCATCGTGAAC
Found at i:18173207 original size:6 final size:5
Alignment explanation
Indices: 18173177--18173206 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
18173167 CCAATTTTTG
18173177 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
18173207 ACACACAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:18190412 original size:14 final size:14
Alignment explanation
Indices: 18190393--18190487 Score: 50
Period size: 14 Copynumber: 6.8 Consensus size: 14
18190383 GTTCATTTGA
*
18190393 ATTCATAGATACAT
1 ATTCATAGATACAG
* *
18190407 ATTCATATATGCAG
1 ATTCATAGATACAG
* *
18190421 ATTCATAAATGC-G
1 ATTCATAGATACAG
* **
18190434 AATTCATACAT-GTG
1 -ATTCATAGATACAG
*
18190448 AATTCATAGATACAA
1 -ATTCATAGATACAG
* * *
18190463 ATTCATACATGCGG
1 ATTCATAGATACAG
18190477 ATTCATAGATA
1 ATTCATAGATA
18190488 TAATCCATAA
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
13 1 0.02
14 61 0.98
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (14 bp):
ATTCATAGATACAG
Found at i:18190438 original size:28 final size:28
Alignment explanation
Indices: 18190393--18190510 Score: 96
Period size: 28 Copynumber: 4.2 Consensus size: 28
18190383 GTTCATTTGA
* * *
18190393 ATTCATAGATACATATTCATATATGCAG
1 ATTCATAAATACAAATTCATACATGCAG
* * *
18190421 ATTCATAAATGCGAATTCATACATG-TG
1 ATTCATAAATACAAATTCATACATGCAG
* *
18190448 AATTCATAGATACAAATTCATACATGCGG
1 -ATTCATAAATACAAATTCATACATGCAG
* * * * *
18190477 ATTCATAGATA-TAATCCATAAATGTAG
1 ATTCATAAATACAAATTCATACATGCAG
18190504 ATTCATA
1 ATTCATA
18190511 CATGTGAATT
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
27 19 0.26
28 53 0.73
29 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (28 bp):
ATTCATAAATACAAATTCATACATGCAG
Found at i:18190515 original size:14 final size:14
Alignment explanation
Indices: 18190407--18190515 Score: 53
Period size: 14 Copynumber: 7.9 Consensus size: 14
18190397 ATAGATACAT
* *
18190407 ATTCATATATGCAG
1 ATTCATACATGTAG
* *
18190421 ATTCATAAATG-CG
1 ATTCATACATGTAG
18190434 AATTCATACATGT-G
1 -ATTCATACATGTAG
* ** *
18190448 AATTCATAGATACAA
1 -ATTCATACATGTAG
**
18190463 ATTCATACATGCGG
1 ATTCATACATGTAG
* *
18190477 ATTCATAGATATA-
1 ATTCATACATGTAG
* *
18190490 ATCCATAAATGTAG
1 ATTCATACATGTAG
18190504 ATTCATACATGT
1 ATTCATACATGT
18190516 GAATTGATAG
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
13 11 0.15
14 60 0.85
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (14 bp):
ATTCATACATGTAG
Found at i:18198111 original size:48 final size:48
Alignment explanation
Indices: 18198028--18198123 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
18198018 CAATAATTAT
**
18198028 ACATAACATATAACACATACAGAGTTATATCAACTTACTCTT-TTCAAA
1 ACATAACATATAACACATACAGAGCCATATCAACTTACT-TTATTCAAA
* *
18198076 ACATAACATATATCACATACAGAGCCAT-CCTAACTTACTTTATTCAAA
1 ACATAACATATAACACATACAGAGCCATATC-AACTTACTTTATTCAAA
18198124 TTCTTTCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 3 0.07
48 39 0.93
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (48 bp):
ACATAACATATAACACATACAGAGCCATATCAACTTACTTTATTCAAA
Found at i:18198429 original size:49 final size:48
Alignment explanation
Indices: 18198362--18198497 Score: 130
Period size: 49 Copynumber: 2.8 Consensus size: 48
18198352 ACCAGTGGCC
* * *
18198362 GCCAACCTGGTTAACAACTAAAATGTCCTACCAGTGGCCCA-ACATACTT
1 GCCAATCTAGTTAGCAACTAAAATGTCCTACCAGTGGCCCACACAT-C-T
** * * *
18198411 GCCAATCTAGTTAGCAACTAGTATGCCCTACCAATGGTCCATCACATCT
1 GCCAATCTAGTTAGCAACTAAAATGTCCTACCAGTGGCCCA-CACATCT
* * * *
18198460 ACCATTCTAGTTTGCAACTAACATGTCCTACCAGTGGC
1 GCCAATCTAGTTAGCAACTAAAATGTCCTACCAGTGGC
18198498 TCTTCATCTC
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
49 64 0.93
50 1 0.01
51 4 0.06
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (48 bp):
GCCAATCTAGTTAGCAACTAAAATGTCCTACCAGTGGCCCACACATCT
Found at i:18200428 original size:12 final size:12
Alignment explanation
Indices: 18200411--18200440 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
18200401 ATTAATAAGT
18200411 ATGATGTGCTTC
1 ATGATGTGCTTC
18200423 ATGATGTGCTTC
1 ATGATGTGCTTC
18200435 ACTGAT
1 A-TGAT
18200441 AATATGTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (12 bp):
ATGATGTGCTTC
Found at i:18202895 original size:138 final size:136
Alignment explanation
Indices: 18202472--18203029 Score: 828
Period size: 138 Copynumber: 4.0 Consensus size: 136
18202462 AGAAAAATGG
*
18202472 ATTATATTCTTTCCAAAAGAATATTGATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATT-AATTTCATGTCTTTTATATTTTGACCGAAATTAATTAAT
* * *
18202537 ATAACTTTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTT
65 ATAAC-GTTTATATAAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
18202602 ATATATATTA
129 ATATA-A-TA
18202612 ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAA-TTTCATGTCTTTTATATTTTGACCGAAATTAATTAAT
* * * *
18202677 ATAAATGTTTATATTAATTAAATTTAGTAAAATATATACGATTAATATTTTGTATGAATCAAATT
65 AT-AACGTTTATA-TAAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
18202742 CATATATTA
128 CATATAATA
* * **
18202751 ATTATATTCTTTTCAAAAGAATACTAATTTCAATGTCTTTTATATTTTGACTAAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAATTTC-ATGTCTTTTATATTTTGACCGAAATTAATTAAT
* *
18202816 ATAACGATTTATATAAATAAATTCAGTAATATATATAGAATTAATATTTTGTATGAATCAAATTC
65 ATAACG-TTTATATAAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
18202881 ATATAATA
129 ATATAATA
* *
18202889 AATATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAATTT-CATGTCTTTTATATTTTGACCGAAATTAATTAAT
* * *
18202954 ATAACTCTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
65 ATAAC-GTTTATATAAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
*
18203019 ATATATTA
129 ATATAATA
18203027 ATT
1 ATT
18203030 TTATCTATGT
Statistics
Matches: 380, Mismatches: 31, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
138 188 0.49
139 68 0.18
140 70 0.18
141 54 0.14
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (136 bp):
ATTATATTCTTTCCAAAAGAATATTAATTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
TAACGTTTATATAAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
ATAATA
Found at i:18204924 original size:45 final size:45
Alignment explanation
Indices: 18204875--18205005 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 45
18204865 TCCTGTTTGC
* * *
18204875 CATGATGTCATATCATCTTTTAGCCATGGTCTTACTAATTTATAT
1 CATGATGTCATAACATCTTTTAGCTATGGTCTTACTCATTTATAT
* * * * ** *
18204920 CATGACGCCATAGCATCTTTTAGCTATGGTCGTACTCATCCATGT
1 CATGATGTCATAACATCTTTTAGCTATGGTCTTACTCATTTATAT
* *
18204965 CATGATGTCATAACATCTTTCAGCTATGGCCTTACTCATTT
1 CATGATGTCATAACATCTTTTAGCTATGGTCTTACTCATTT
18205006 CAGGCTATAG
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (45 bp):
CATGATGTCATAACATCTTTTAGCTATGGTCTTACTCATTTATAT
Found at i:18207174 original size:21 final size:21
Alignment explanation
Indices: 18207140--18207221 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 21
18207130 ATTGATTGTC
*
18207140 TTTTTGTTCAAATCAATT-AT
1 TTTTTGTTTAAATCAATTCAT
*
18207160 TTTTCTGTTTGAATCAATTCAT
1 TTTT-TGTTTAAATCAATTCAT
*
18207182 TTTTTGTTTAAACCAATTC-T
1 TTTTTGTTTAAATCAATTCAT
* *
18207202 TTGTTGTTTAACTCAATTCA
1 TTTTTGTTTAAATCAATTCA
18207222 AACTCCAACA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
20 21 0.40
21 25 0.48
22 6 0.12
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTTTGTTTAAATCAATTCAT
Found at i:18208723 original size:23 final size:23
Alignment explanation
Indices: 18208697--18208740 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18208687 ATATGATGAG
* *
18208697 ATATTTTTTTATTTATAAAAATA
1 ATATTTGTTGATTTATAAAAATA
*
18208720 ATATTTGTTGATTTCTAAAAA
1 ATATTTGTTGATTTATAAAAA
18208741 AAAACTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (23 bp):
ATATTTGTTGATTTATAAAAATA
Found at i:18209740 original size:13 final size:13
Alignment explanation
Indices: 18209722--18209755 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18209712 GGACTTAGGG
*
18209722 TTTTGTTTTTCGT
1 TTTTGTTTTTCAT
18209735 TTTTGTTTTTCAT
1 TTTTGTTTTTCAT
*
18209748 CTTTGTTT
1 TTTTGTTT
18209756 CCCCTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.03, C:0.09, G:0.12, T:0.76
Consensus pattern (13 bp):
TTTTGTTTTTCAT
Found at i:18210384 original size:43 final size:44
Alignment explanation
Indices: 18210334--18210422 Score: 144
Period size: 43 Copynumber: 2.0 Consensus size: 44
18210324 CATGAAGGAG
* **
18210334 CTGGAAAGTTTCTATAAGGATAGGTCATTGGAA-TTCAAGCCCC
1 CTGGAAAGTTTCTATAAGGAGAACTCATTGGAATTTCAAGCCCC
18210377 CTGGAAAGTTTCTATAAGGAGAACTCATTGGAATTTCAAGCCCC
1 CTGGAAAGTTTCTATAAGGAGAACTCATTGGAATTTCAAGCCCC
18210421 CT
1 CT
18210423 AAATTTTATG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 30 0.71
44 12 0.29
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
CTGGAAAGTTTCTATAAGGAGAACTCATTGGAATTTCAAGCCCC
Found at i:18215643 original size:44 final size:43
Alignment explanation
Indices: 18215579--18215665 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
18215569 AATCTGATTG
* *
18215579 TTGTTTTATCTATTTTCTGATTGATGCAAATATTGTTGATGTA
1 TTGTTTTATCTATTTCCTGATTGATGCAAATATTCTTGATGTA
*
18215622 TTGTTTTATTCTATTTCCTGATTGATGCAAATTTTCTTGATGTA
1 TTGTTTTA-TCTATTTCCTGATTGATGCAAATATTCTTGATGTA
18215666 GACTGATTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 8 0.20
44 32 0.80
ACGTcount: A:0.22, C:0.09, G:0.15, T:0.54
Consensus pattern (43 bp):
TTGTTTTATCTATTTCCTGATTGATGCAAATATTCTTGATGTA
Found at i:18216070 original size:22 final size:22
Alignment explanation
Indices: 18216042--18216084 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
18216032 AGTTAATCAC
18216042 ATCGATAAGCACGCAAAAAATG
1 ATCGATAAGCACGCAAAAAATG
18216064 ATCGATAAGCACGCAAAAAAT
1 ATCGATAAGCACGCAAAAAAT
18216085 TCATGTGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (22 bp):
ATCGATAAGCACGCAAAAAATG
Found at i:18217898 original size:3 final size:3
Alignment explanation
Indices: 18217890--18217924 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18217880 TTGTAAATGT
18217890 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
18217925 GTATGTAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:18226174 original size:31 final size:31
Alignment explanation
Indices: 18226130--18226201 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
18226120 GATAGTTCGG
* *
18226130 AAGTGTATGAATCAAACTAATACAAAATGAT
1 AAGTATATTAATCAAACTAATACAAAATGAT
18226161 AAGTATATTAATCAAACTAATACAAAATGAT
1 AAGTATATTAATCAAACTAATACAAAATGAT
18226192 AAGTATATTA
1 AAGTATATTA
18226202 CTGAGTATCG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (31 bp):
AAGTATATTAATCAAACTAATACAAAATGAT
Found at i:18228399 original size:12 final size:11
Alignment explanation
Indices: 18228382--18228423 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
18228372 TTTCGTTAGC
*
18228382 AAAAAAAAGGA
1 AAAAAAAAAGA
18228393 AAAAAAAAAGA
1 AAAAAAAAAGA
18228404 AGAAAAAAAAGA
1 A-AAAAAAAAGA
18228416 AAAAAAAA
1 AAAAAAAA
18228424 GATGAGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:18229316 original size:3 final size:3
Alignment explanation
Indices: 18229308--18229341 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18229298 AGATATTTAC
18229308 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18229342 CAATTAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18229516 original size:19 final size:20
Alignment explanation
Indices: 18229468--18229520 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
18229458 TTAATTTAGT
* *
18229468 AAATGAAAGAAATAAATAAT
1 AAATAAAAGAAATAAATAAC
18229488 AAATAAAAGAAATAAA-AAC
1 AAATAAAAGAAATAAATAAC
18229507 AAGA-AAAAGAAATA
1 AA-ATAAAAGAAATA
18229521 GAGAAGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.13
Consensus pattern (20 bp):
AAATAAAAGAAATAAATAAC
Found at i:18229536 original size:16 final size:14
Alignment explanation
Indices: 18229512--18229548 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
18229502 AAAACAAGAA
18229512 AAAGAAATAGAGAAG
1 AAAGAAATAGA-AAG
18229527 AAACGAAATAGAAAG
1 AAA-GAAATAGAAAG
18229542 AAAGAAA
1 AAAGAAA
18229549 GAAGAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 8 0.38
ACGTcount: A:0.70, C:0.03, G:0.22, T:0.05
Consensus pattern (14 bp):
AAAGAAATAGAAAG
Found at i:18229551 original size:26 final size:25
Alignment explanation
Indices: 18229512--18229570 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
18229502 AAAACAAGAA
* * *
18229512 AAAGAAATAGAGAAGAAACGAAATAG
1 AAAGAAAGAAAGAAGAAAAGAAA-AG
18229538 AAAGAAAGAAAGAAGAAAAGAAAAG
1 AAAGAAAGAAAGAAGAAAAGAAAAG
18229563 AAA-AAAGA
1 AAAGAAAGA
18229571 GAAATTAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 5 0.17
25 5 0.17
26 20 0.67
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.03
Consensus pattern (25 bp):
AAAGAAAGAAAGAAGAAAAGAAAAG
Found at i:18236786 original size:5 final size:5
Alignment explanation
Indices: 18236776--18236834 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
18236766 AAATAAAAAC
* *
18236776 AAGAA AAGAA ACAGAG AAGAA ACGAA ATAG-A AAG-A AAGAAA GAAGAA
1 AAGAA AAGAA A-AGAA AAGAA AAGAA A-AGAA AAGAA AAG-AA -AAGAA
18236823 AAGAA AAGAA AA
1 AAGAA AAGAA AA
18236835 AAGAGAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 6 0.13
5 28 0.62
6 8 0.18
7 3 0.07
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:18236809 original size:26 final size:25
Alignment explanation
Indices: 18236780--18236833 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
18236770 AAAAACAAGA
* *
18236780 AAAGAAACAGAGAAGAAACGAAATAG
1 AAAGAAACAAAGAAGAAAAGAAA-AG
*
18236806 AAAGAAAGAAAGAAGAAAAGAAAAG
1 AAAGAAACAAAGAAGAAAAGAAAAG
18236831 AAA
1 AAA
18236834 AAAGAGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.02
Consensus pattern (25 bp):
AAAGAAACAAAGAAGAAAAGAAAAG
Found at i:18236841 original size:26 final size:26
Alignment explanation
Indices: 18236790--18236842 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
18236780 AAAGAAACAG
* *
18236790 AGAAGAAACGAAATAGAAAGAAAGAA
1 AGAAGAAAAGAAATAGAAAAAAAGAA
18236816 AGAAGAAAAGAAA-AGAAAAAAGAGAA
1 AGAAGAAAAGAAATAGAAAAAA-AGAA
18236842 A
1 A
18236843 TTAGGGTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.02
Consensus pattern (26 bp):
AGAAGAAAAGAAATAGAAAAAAAGAA
Found at i:18241908 original size:43 final size:43
Alignment explanation
Indices: 18241843--18241933 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
18241833 TTCGTGAGAT
*
18241843 ATGTG-GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGG
1 ATGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGG
* *
18241885 GTGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTGTGG
1 ATGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGG
18241928 ATGTGA
1 ATGTGA
18241934 TGCCTGTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 4 0.09
43 40 0.91
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.31
Consensus pattern (43 bp):
ATGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGG
Found at i:18242493 original size:12 final size:12
Alignment explanation
Indices: 18242476--18242508 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
18242466 AAAATTATGG
18242476 AAATTGAATTAT
1 AAATTGAATTAT
18242488 AAATTGAATTAT
1 AAATTGAATTAT
18242500 AAATTGAAT
1 AAATTGAAT
18242509 AAGATATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (12 bp):
AAATTGAATTAT
Found at i:18253688 original size:27 final size:23
Alignment explanation
Indices: 18253649--18253702 Score: 54
Period size: 23 Copynumber: 2.2 Consensus size: 23
18253639 TGCTTTGGTG
18253649 GCTTTGCAACGTTTACTGTTATTAGCA
1 GCTTTGCAACG-TTAC---TATTAGCA
**
18253676 GCTTTGCTGCGTTACTATTAGCA
1 GCTTTGCAACGTTACTATTAGCA
18253699 GCTT
1 GCTT
18253703 CACTGCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 12 0.48
26 4 0.16
27 9 0.36
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (23 bp):
GCTTTGCAACGTTACTATTAGCA
Found at i:18253900 original size:33 final size:34
Alignment explanation
Indices: 18253849--18253913 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
18253839 CCACACCGTA
*
18253849 ACTATATAGGGCTAAGGCCCAGACTA-TACTGTT
1 ACTAAATAGGGCTAAGGCCCAGACTATTACTGTT
*
18253882 ACTAAATAGGGCTTAGGCCCAGACTATTACTG
1 ACTAAATAGGGCTAAGGCCCAGACTATTACTG
18253914 CATGCATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
ACTAAATAGGGCTAAGGCCCAGACTATTACTGTT
Found at i:18254902 original size:29 final size:31
Alignment explanation
Indices: 18254860--18254925 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
18254850 GTGAAAATGT
*
18254860 AAAT-TATGGATTAAATTGTGAAAT-ATGAA
1 AAATATATGGATTAAAATGTGAAATAATGAA
18254889 AAATATATGG-TTAAAATGTGAAATAAATGAA
1 AAATATATGGATTAAAATGTGAAAT-AATGAA
18254920 AAATAT
1 AAATAT
18254926 GGGCTGATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 17 0.52
30 5 0.15
31 11 0.33
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (31 bp):
AAATATATGGATTAAAATGTGAAATAATGAA
Found at i:18254926 original size:29 final size:30
Alignment explanation
Indices: 18254854--18254927 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
18254844 TTTTTAGTGA
* * *
18254854 AAATGTAAATTATGGATTAAATTGTGAAAT
1 AAATGAAAAATATGGATTAAAATGTGAAAT
18254884 --ATGAAAAATATATGG-TTAAAATGTGAAAT
1 AAATG-AAAA-ATATGGATTAAAATGTGAAAT
18254913 AAATGAAAAATATGG
1 AAATGAAAAATATGG
18254928 GCTGATATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
28 3 0.08
29 22 0.59
30 9 0.24
31 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (30 bp):
AAATGAAAAATATGGATTAAAATGTGAAAT
Found at i:18257502 original size:17 final size:17
Alignment explanation
Indices: 18257463--18257505 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
18257453 ACAAAAATGG
*
18257463 ATAGAAATGGAAAAGTT
1 ATAGAAATGGAAAAATT
*
18257480 AAAGAAATGGAGAAAATT
1 ATAGAAATGGA-AAAATT
18257498 -TAGAAATG
1 ATAGAAATG
18257506 AATGTGGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (17 bp):
ATAGAAATGGAAAAATT
Found at i:18257818 original size:54 final size:54
Alignment explanation
Indices: 18257754--18257863 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
18257744 TATTTGGGAA
*
18257754 ATAGAAAAATAAATATTGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
1 ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
18257808 ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
1 ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
18257862 AT
1 AT
18257864 GAAGTACTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (54 bp):
ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
Found at i:18259286 original size:19 final size:19
Alignment explanation
Indices: 18259258--18259294 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18259248 ACAAAACCCG
18259258 ATAAACGATAATGCCTGAA
1 ATAAACGATAATGCCTGAA
* *
18259277 ATAAATGATAATGTCTGA
1 ATAAACGATAATGCCTGA
18259295 TAGATGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (19 bp):
ATAAACGATAATGCCTGAA
Found at i:18268750 original size:29 final size:29
Alignment explanation
Indices: 18268704--18268773 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
18268694 CTAACATAAC
* *
18268704 AAGCACTAAGTGTGCGAGTTTGATTATGT
1 AAGCACTAAGTGTCCGAGTTTGATTATAT
18268733 AAGCACTAAGTGTCCGAGTTTGATTATAT
1 AAGCACTAAGTGTCCGAGTTTGATTATAT
18268762 AA-CACTAAGTGT
1 AAGCACTAAGTGT
18268774 GCGGACTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 10 0.26
29 29 0.74
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (29 bp):
AAGCACTAAGTGTCCGAGTTTGATTATAT
Found at i:18276655 original size:28 final size:28
Alignment explanation
Indices: 18276589--18276745 Score: 215
Period size: 29 Copynumber: 5.5 Consensus size: 28
18276579 CATGAGATTG
* * **
18276589 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
18276618 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
18276646 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
18276675 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
18276704 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
18276732 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
18276746 GACTTACTAT
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
28 45 0.38
29 73 0.62
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:18276678 original size:57 final size:58
Alignment explanation
Indices: 18276589--18276744 Score: 219
Period size: 57 Copynumber: 2.7 Consensus size: 58
18276579 CATGAGATTG
* * * *
18276589 GCACTAAGTGTGCGGGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATAT-A
1 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCAAGTTTGATTATATAA
* *
18276646 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
*
18276704 GCACTAAGTGTGCGAGTTTGATTATATAA-CACTAAGTGTGC
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGC
18276745 GGACTTACTA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 58 0.64
58 32 0.36
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
Found at i:18282360 original size:17 final size:19
Alignment explanation
Indices: 18282338--18282375 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
18282328 TTTCTGTTGG
18282338 TGACATT-TC-CAACTCTT
1 TGACATTGTCACAACTCTT
18282355 TGACATTGGTCACAACTCTT
1 TGACATT-GTCACAACTCTT
18282375 T
1 T
18282376 ATATATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (19 bp):
TGACATTGTCACAACTCTT
Found at i:18293437 original size:46 final size:46
Alignment explanation
Indices: 18293372--18293736 Score: 509
Period size: 46 Copynumber: 8.0 Consensus size: 46
18293362 TTATCTTTGA
* * * * * *
18293372 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ***
18293418 CATGCTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
18293464 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
18293510 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGCATATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * ** *
18293556 CAGGTTGCCATGGTATCTTTCAACCGTGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
18293601 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
18293647 CATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
18293693 CATATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
18293737 TTCAGAGAGC
Statistics
Matches: 284, Mismatches: 33, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
45 44 0.15
46 240 0.85
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:18293628 original size:183 final size:183
Alignment explanation
Indices: 18293377--18293741 Score: 552
Period size: 183 Copynumber: 2.0 Consensus size: 183
18293367 TTTGACATGA
* * *
18293377 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGCTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCA-TTTCTGTCACGCTGCCATGGTATCTTTCAAC
*** *
18293442 CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
65 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCGTACACATTTCA
* * *
18293507 TATCATGTTGCCATGGTATCTTTCAACCATGGTCTTGCATATTTCATATCAGGT
130 TATCATATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * * *
18293561 TGCCATGGTATCTTTCAACCGTGGTCTTATTC-TTTCATGTCACGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTC-TGTCACGCTGCCATGGTATCTTTCAAC
* *
18293625 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCA
65 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCGTACACATTTCA
*
18293690 TATCATATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
130 TATCATATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
18293742 AGAGCACACT
Statistics
Matches: 163, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
182 4 0.02
183 132 0.81
184 27 0.17
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (183 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCTGTCACGCTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCGTACACATTTCAT
ATCATATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:18293643 original size:137 final size:138
Alignment explanation
Indices: 18293423--18293736 Score: 540
Period size: 137 Copynumber: 2.3 Consensus size: 138
18293413 TCTGTCATGC
*
18293423 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
* *
18293488 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTGCATATTTCA
66 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCA
*
18293553 TATCAGGT
131 TATCAGAT
* *
18293561 TGCCATGGTATCTTTCAACCGTGGTCTTATTC-TTTCATGTCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
18293625 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCA
66 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCA
*
18293690 TATCATAT
131 TATCAGAT
**
18293698 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
18293737 TTCAGAGAGC
Statistics
Matches: 165, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
137 129 0.78
138 36 0.22
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCA
TATCAGAT
Found at i:18295862 original size:3 final size:3
Alignment explanation
Indices: 18295848--18295896 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
18295838 TTTTATACTA
*
18295848 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18295891 AA- AAT A
1 AAT AAT A
18295897 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:18295870 original size:11 final size:11
Alignment explanation
Indices: 18295854--18295892 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
18295844 ACTAAATAAT
18295854 TAATAATAAAA
1 TAATAATAAAA
*
18295865 TAATAATGAAA
1 TAATAATAAAA
18295876 TAATAATAAAA
1 TAATAATAAAA
18295887 TAATAA
1 TAATAA
18295893 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:18295879 original size:19 final size:19
Alignment explanation
Indices: 18295855--18295896 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
18295845 CTAAATAATT
*
18295855 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
18295874 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
18295893 AATA
1 AATA
18295897 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:18295919 original size:20 final size:21
Alignment explanation
Indices: 18295866--18295941 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
18295856 ATAATAAAAT
* *
18295866 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
18295885 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
18295906 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
18295927 TAATCATAAAATATC
1 -AATAATAAAATATC
18295942 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:18302439 original size:42 final size:42
Alignment explanation
Indices: 18302392--18302480 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
18302382 GACGTCGAGA
* * *
18302392 GAGCACCAGCATCGTTAACACTCACGACGTCTACTTTTTATG
1 GAGCACCAGCATCGTCAACACTCACGACGCCTACTTTCTATG
* * *
18302434 GAGCACCGGCGTTGTCAACACTCACGACGCCTACTTTCTATG
1 GAGCACCAGCATCGTCAACACTCACGACGCCTACTTTCTATG
18302476 GAGCA
1 GAGCA
18302481 TGGTGAACGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (42 bp):
GAGCACCAGCATCGTCAACACTCACGACGCCTACTTTCTATG
Found at i:18304223 original size:18 final size:18
Alignment explanation
Indices: 18304191--18304236 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
18304181 TTCTTAAAAA
*
18304191 ATATATATACA--TATAT
1 ATATATATACATGTATAC
*
18304207 ATATGTATACATGTATAC
1 ATATATATACATGTATAC
18304225 ATATATATACAT
1 ATATATATACAT
18304237 ATTAGTAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.40
18 15 0.60
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (18 bp):
ATATATATACATGTATAC
Found at i:18304238 original size:8 final size:8
Alignment explanation
Indices: 18304193--18304231 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
18304183 CTTAAAAAAT
18304193 ATATATAC
1 ATATATAC
*
18304201 ATATATAT
1 ATATATAC
*
18304209 ATGTATAC
1 ATATATAC
*
18304217 ATGTATAC
1 ATATATAC
18304225 ATATATA
1 ATATATA
18304232 TACATATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (8 bp):
ATATATAC
Found at i:18311865 original size:26 final size:27
Alignment explanation
Indices: 18311814--18311870 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
18311804 AGGTCGTTAT
*
18311814 ATGACCGTAATGCCCCTGTAGAGTAAA
1 ATGACAGTAATGCCCCTGTAGAGTAAA
*
18311841 ATGACAGTAATG-CCCTGTAGGGTAAA
1 ATGACAGTAATGCCCCTGTAGAGTAAA
18311867 ATGA
1 ATGA
18311871 TCGAGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (27 bp):
ATGACAGTAATGCCCCTGTAGAGTAAA
Found at i:18311927 original size:27 final size:26
Alignment explanation
Indices: 18311897--18311963 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 26
18311887 TAATGTCCTA
18311897 GTAGGGTAAAATGACCA-TAACGCCCCT
1 GTAGGGTAAAATGA-CAGTAACG-CCCT
*
18311924 GTAGGGTAAAATGACAGTAATGCCCT
1 GTAGGGTAAAATGACAGTAACGCCCT
18311950 GTAGGGTAAAATGA
1 GTAGGGTAAAATGA
18311964 TCGAGTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 20 0.53
27 18 0.47
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (26 bp):
GTAGGGTAAAATGACAGTAACGCCCT
Found at i:18311956 original size:26 final size:27
Alignment explanation
Indices: 18311886--18311963 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
18311876 TAAAATAATT
*
18311886 GTAATGTCCTAGTAGGGTAAAATGACCA
1 GTAATGCCCT-GTAGGGTAAAATGACCA
*
18311914 -TAACGCCCCTGTAGGGTAAAATGA-CA
1 GTAATG-CCCTGTAGGGTAAAATGACCA
18311940 GTAATGCCCTGTAGGGTAAAATGA
1 GTAATGCCCTGTAGGGTAAAATGA
18311964 TCGAGTGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 20 0.44
27 22 0.49
28 3 0.07
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.23
Consensus pattern (27 bp):
GTAATGCCCTGTAGGGTAAAATGACCA
Found at i:18311975 original size:93 final size:93
Alignment explanation
Indices: 18311814--18312057 Score: 375
Period size: 93 Copynumber: 2.6 Consensus size: 93
18311804 AGGTCGTTAT
* * *
18311814 ATGACCGTAATGCCCCTGTAGAGTAAAATGACAGTAATGCCCTGTAGGGTAAAATGATCGAGTAA
1 ATGACCATAACGCCCCTGTAGGGTAAAATGACAGTAATGCCCTGTAGGGTAAAATGATCGAGTAA
*
18311879 AATAATTGTAATGT-CCTAGTAGGGTAAA
66 AATAACTGTAATGTCCCT-GTAGGGTAAA
*
18311907 ATGACCATAACGCCCCTGTAGGGTAAAATGACAGTAATGCCCTGTAGGGTAAAATGATCGAGTGA
1 ATGACCATAACGCCCCTGTAGGGTAAAATGACAGTAATGCCCTGTAGGGTAAAATGATCGAGTAA
18311972 AATAACTGTAATGTCCCTGTAGGGTAAA
66 AATAACTGTAATGTCCCTGTAGGGTAAA
* **
18312000 ATGACCATAACGCCCCTGTAGGGTAAAATGACCA-TAATACCCTTGTATAGTAAAATGA
1 ATGACCATAACGCCCCTGTAGGGTAAAATGA-CAGTAATGCCC-TGTAGGGTAAAATGA
18312058 CTATTATGCC
Statistics
Matches: 140, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
93 122 0.87
94 18 0.13
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (93 bp):
ATGACCATAACGCCCCTGTAGGGTAAAATGACAGTAATGCCCTGTAGGGTAAAATGATCGAGTAA
AATAACTGTAATGTCCCTGTAGGGTAAA
Found at i:18312046 original size:27 final size:27
Alignment explanation
Indices: 18311986--18312058 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
18311976 ACTGTAATGT
*
18311986 CCCTGTAGGGTAAAATGACCATAACGC
1 CCCTGTAGGGTAAAATGACCATAACAC
*
18312013 CCCTGTAGGGTAAAATGACCATAATAC
1 CCCTGTAGGGTAAAATGACCATAACAC
* **
18312040 CCTTGTATAGTAAAATGAC
1 CCCTGTAGGGTAAAATGAC
18312059 TATTATGCCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (27 bp):
CCCTGTAGGGTAAAATGACCATAACAC
Found at i:18312069 original size:27 final size:27
Alignment explanation
Indices: 18311980--18312070 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
18311970 GAAATAACTG
*
18311980 TAATGTCCC-TGTAGGGTAAAATGACCA
1 TAATG-CCCTTGTAGAGTAAAATGACCA
* * *
18312007 TAACGCCCCTGTAGGGTAAAATGACCA
1 TAATGCCCTTGTAGAGTAAAATGACCA
* * *
18312034 TAATACCCTTGTATAGTAAAATGACTA
1 TAATGCCCTTGTAGAGTAAAATGACCA
*
18312061 TTATGCCCTT
1 TAATGCCCTT
18312071 ATGCTTCGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.06
27 51 0.94
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (27 bp):
TAATGCCCTTGTAGAGTAAAATGACCA
Found at i:18319038 original size:26 final size:26
Alignment explanation
Indices: 18319009--18319116 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
18318999 TGGTACAAAT
18319009 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18319035 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18319061 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18319087 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18319113 TGAT
1 TGAT
18319117 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18328733 original size:51 final size:50
Alignment explanation
Indices: 18328651--18328810 Score: 212
Period size: 51 Copynumber: 3.2 Consensus size: 50
18328641 CTGATCACAT
* *
18328651 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACAACTTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* * * *
18328702 TTATCACTTGTCACTGATCAGATAGGAGTAGCTGAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
18328752 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
18328803 TTGTCACT
1 TTATCACT
18328811 GATCAGAAGT
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
50 42 0.44
51 53 0.56
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:18332885 original size:16 final size:16
Alignment explanation
Indices: 18332864--18332894 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18332854 GAGTCTATAA
18332864 AAATGACAAAGATTAT
1 AAATGACAAAGATTAT
18332880 AAATGACAAAGATTA
1 AAATGACAAAGATTA
18332895 GATCGGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.23
Consensus pattern (16 bp):
AAATGACAAAGATTAT
Found at i:18333963 original size:44 final size:43
Alignment explanation
Indices: 18333900--18334059 Score: 203
Period size: 44 Copynumber: 3.5 Consensus size: 43
18333890 CTGATCACAT
18333900 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCAC
* *
18333944 TTATCACTTGTCACTGATCAGATAAGAGTAGCTGAGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCAC
* *
18333987 TTATCATTTGTCACTTATCATTGATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGT--C--A-C--TGATCAGATAAGTGTAGCT-AAGCTACCAC
18334038 TTATCACTTGTCACTGATCAGA
1 TTATCACTTGTCACTGATCAGA
18334060 AGTACTCAAA
Statistics
Matches: 101, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
43 19 0.19
44 40 0.40
45 1 0.01
46 1 0.01
47 2 0.02
48 1 0.01
49 1 0.01
50 18 0.18
51 18 0.18
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (43 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCAC
Found at i:18334001 original size:50 final size:51
Alignment explanation
Indices: 18333941--18334057 Score: 173
Period size: 50 Copynumber: 2.3 Consensus size: 51
18333931 CTAAAGCTAC
* *
18333941 CACTTATCACTTGTCACTGATCAGATAAGAGTAGCTGA-GCTACCACTTAT
1 CACTTGTCACTTATCACTGATCAGATAAGAGTAGCTGAGGCTACCACTTAT
* * *
18333991 CATTTGTCACTTATCATTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
1 CACTTGTCACTTATCACTGATCAGATAAGAGTAGCTGAGGCTACCACTTAT
*
18334042 CACTTGTCACTGATCA
1 CACTTGTCACTTATCA
18334058 GAAGTACTCA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 33 0.56
51 26 0.44
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (51 bp):
CACTTGTCACTTATCACTGATCAGATAAGAGTAGCTGAGGCTACCACTTAT
Found at i:18336905 original size:36 final size:37
Alignment explanation
Indices: 18336856--18336944 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
18336846 TATTTACATA
* * * *
18336856 TCACTTTTTAATATATTAAGTAAATATCATTT-CATG
1 TCACGTTTCAATATATCAAGTAAATATCATTTCCAAG
* *
18336892 TCATGTTTCAATATATCAAGTAAATATCTTTTCCAAG
1 TCACGTTTCAATATATCAAGTAAATATCATTTCCAAG
18336929 TCACGTTTCAATATAT
1 TCACGTTTCAATATAT
18336945 ATACCGGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 27 0.60
37 18 0.40
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.44
Consensus pattern (37 bp):
TCACGTTTCAATATATCAAGTAAATATCATTTCCAAG
Found at i:18338706 original size:17 final size:17
Alignment explanation
Indices: 18338663--18338712 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 17
18338653 AGGCCGTGCC
18338663 TTCCTTTCTTCTTTATCTTT
1 TTCCTTTCTT-TTTA--TTT
18338683 TTCCTTTGCTTTTTATTT
1 TTCCTTT-CTTTTTATTT
18338701 TT-CTTTCTTTTT
1 TTCCTTTCTTTTT
18338713 CGTTTGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.21
17 4 0.14
18 5 0.17
20 11 0.38
21 3 0.10
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (17 bp):
TTCCTTTCTTTTTATTT
Found at i:18338711 original size:28 final size:28
Alignment explanation
Indices: 18338678--18338738 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
18338668 TTCTTCTTTA
18338678 TCTTTTTCCTTTGCTTTT-TATTTTTCTT
1 TCTTTTTCCTTTGCTTTTCTA-TTTTCTT
* * *
18338706 TCTTTTTCGTTTGGTTTTCTATTTTGTT
1 TCTTTTTCCTTTGCTTTTCTATTTTCTT
18338734 TCTTT
1 TCTTT
18338739 CTTTATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.03, C:0.15, G:0.08, T:0.74
Consensus pattern (28 bp):
TCTTTTTCCTTTGCTTTTCTATTTTCTT
Found at i:18338841 original size:14 final size:12
Alignment explanation
Indices: 18338812--18338837 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18338802 AAACAGTAAG
18338812 AATATATATAAT
1 AATATATATAAT
18338824 AATATATATAAT
1 AATATATATAAT
18338836 AA
1 AA
18338838 AATAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATATATAAT
Found at i:18342755 original size:18 final size:18
Alignment explanation
Indices: 18342732--18342817 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
18342722 GAACGATTAT
* *
18342732 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
18342750 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
18342768 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
18342786 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
18342805 TTATTCAGTAACA
1 TTATTCAGTAACA
18342818 GTCGATCTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 41 0.73
19 15 0.27
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:18342773 original size:36 final size:37
Alignment explanation
Indices: 18342732--18342820 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
18342722 GAACGATTAT
* *
18342732 TTATTCAGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * *
18342768 TTATTCAATAATAATCAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
18342805 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
18342821 GATCTTTCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 28 0.64
37 16 0.36
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:18343025 original size:47 final size:47
Alignment explanation
Indices: 18342956--18343061 Score: 178
Period size: 47 Copynumber: 2.3 Consensus size: 47
18342946 ACAATAGCAA
*
18342956 TACGGTACACAGAGTACCTCATCGGAACAAATCCGGAACAGTAACAG
1 TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAG
*
18343003 TACGGTACACAGAGTACCTCATCGGAACAAATTCGAAACAGTAACAG
1 TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAG
18343050 TAACGGTA-ACAG
1 T-ACGGTACACAG
18343062 TAACAATATC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
47 50 0.89
48 6 0.11
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (47 bp):
TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAG
Found at i:18343050 original size:53 final size:50
Alignment explanation
Indices: 18342939--18343053 Score: 146
Period size: 47 Copynumber: 2.3 Consensus size: 50
18342929 CCAAAACAGT
* *
18342939 AACAGTAACAATAGCAATACGGTACACAGAGTACCTCATCGGAACAAATC
1 AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATC
* *
18342989 --C-GGAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATTC
1 AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAA-TC
18343037 GAAACAGTAACAGTAAC
1 --AACAGTAACAGTAAC
18343054 GGTAACAGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
47 40 0.74
48 3 0.06
52 1 0.02
53 10 0.19
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (50 bp):
AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATC
Found at i:18343290 original size:20 final size:21
Alignment explanation
Indices: 18343242--18343290 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
18343232 CACTTTTCAG
18343242 TTTTCAATTAATTCATATTTT
1 TTTTCAATTAATTCATATTTT
** *
18343263 AATT-AATTAATT-ATTTTTT
1 TTTTCAATTAATTCATATTTT
18343282 TTTTCAATT
1 TTTTCAATT
18343291 CAATATAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTCAATTAATTCATATTTT
Found at i:18344910 original size:31 final size:33
Alignment explanation
Indices: 18344875--18344943 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 33
18344865 TATTTATTAC
*
18344875 ATAAAAATC-TTAT-AAT-ATAAATATTTAACTA
1 ATAAAAATCTTTATAAATAATAAATATCT-ACTA
*
18344906 ATAAATATCTTTTATAAATAATAAATATCTACTA
1 ATAAAAATC-TTTATAAATAATAAATATCTACTA
18344940 ATAA
1 ATAA
18344944 TTAAATATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 8 0.25
33 4 0.12
34 11 0.34
35 9 0.28
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAATCTTTATAAATAATAAATATCTACTA
Found at i:18349676 original size:18 final size:18
Alignment explanation
Indices: 18349653--18349738 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
18349643 GAACGATTAT
* *
18349653 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
18349671 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
18349689 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
18349707 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
18349726 TTATTCAGTAACA
1 TTATTCAGTAACA
18349739 GTCGATCTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 41 0.73
19 15 0.27
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:18349694 original size:36 final size:37
Alignment explanation
Indices: 18349653--18349741 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
18349643 GAACGATTAT
* *
18349653 TTATTCAGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * *
18349689 TTATTCAATAATAATCAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
18349726 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
18349742 GATCTTTCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 28 0.64
37 16 0.36
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:18354341 original size:21 final size:20
Alignment explanation
Indices: 18354296--18354341 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
18354286 TTGTTGGAAT
18354296 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
18354315 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
18354336 GGTTGA
1 GGTTGA
18354342 TTGCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:18360343 original size:22 final size:22
Alignment explanation
Indices: 18360318--18360362 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
18360308 TTTATATGTA
18360318 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
18360340 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
18360362 T
1 T
18360363 GGGTTAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:18362171 original size:68 final size:64
Alignment explanation
Indices: 18362085--18362306 Score: 232
Period size: 67 Copynumber: 3.4 Consensus size: 64
18362075 TAATACGGGA
* *
18362085 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGGGTGATACT
18362150 ATG
62 ATG
* * * * * *
18362153 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAAG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGT-GATACTA-
18362217 TG
63 TG
* * ** * *
18362219 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
18362283 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
18362307 CAAAATTATG
Statistics
Matches: 127, Mismatches: 22, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
63 20 0.16
64 21 0.17
65 10 0.08
66 19 0.15
67 29 0.23
68 27 0.21
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:18368619 original size:38 final size:38
Alignment explanation
Indices: 18368503--18368620 Score: 148
Period size: 38 Copynumber: 3.1 Consensus size: 38
18368493 TGTTATTCAA
*
18368503 GCTTAGTGCCGGTGTTATTCAA-GCTTAGCGCCTAGCAG
1 GCTTAGTGCCGGTGTTATT-AAGGCTTAGTGCCTAGCAG
* * * * *
18368541 GATTAGTGCCGATTTTATTCAGGCTTAGTGCCTAGTAG
1 GCTTAGTGCCGGTGTTATTAAGGCTTAGTGCCTAGCAG
* *
18368579 GCTTAGTGTCGGTGTTATTAAGGCTTAGTGCTTAGCAG
1 GCTTAGTGCCGGTGTTATTAAGGCTTAGTGCCTAGCAG
18368617 GCTT
1 GCTT
18368621 TGAGCTTGTG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
37 1 0.02
38 65 0.98
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.35
Consensus pattern (38 bp):
GCTTAGTGCCGGTGTTATTAAGGCTTAGTGCCTAGCAG
Found at i:18376767 original size:46 final size:46
Alignment explanation
Indices: 18376702--18377021 Score: 419
Period size: 46 Copynumber: 7.0 Consensus size: 46
18376692 TTATCTTTGA
* * * * * *
18376702 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
** *
18376748 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *** **
18376794 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
18376840 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
18376886 CA-GGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
18376931 CAGGCTGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
18376977 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
18377022 CCAGAGAGCA
Statistics
Matches: 247, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
45 47 0.19
46 200 0.81
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:18376938 original size:137 final size:138
Alignment explanation
Indices: 18376702--18377021 Score: 446
Period size: 137 Copynumber: 2.3 Consensus size: 138
18376692 TTATCTTTGA
* * * * * * *
18376702 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGGTGCCATGGTATCT
** * ***
18376766 TTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTT
65 TTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACAC
*
18376831 ATTTCCCAT
130 ATTTCACAT
*
18376840 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCA-GGTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGGTGCCATGGTATCTT
* *
18376904 TCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATTTTTCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
18376969 TTTCATAT
131 TTTCACAT
*
18376977 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
18377022 CCAGAGAGCA
Statistics
Matches: 161, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
137 125 0.78
138 36 0.22
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (138 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGGTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
TTTCACAT
Found at i:18379205 original size:18 final size:20
Alignment explanation
Indices: 18379190--18379226 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18379180 TAATAATAAA
*
18379190 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
18379210 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
18379227 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:18391669 original size:5 final size:5
Alignment explanation
Indices: 18391655--18391716 Score: 117
Period size: 5 Copynumber: 12.6 Consensus size: 5
18391645 TAATTCCAAC
18391655 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
18391704 TATAT TATAT TAT
1 TATAT TATAT TAT
18391717 TATCATTATC
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.07
5 53 0.93
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:18406950 original size:121 final size:119
Alignment explanation
Indices: 18406724--18406958 Score: 301
Period size: 121 Copynumber: 1.9 Consensus size: 119
18406714 GTAAAAAAAA
* * *
18406724 TTTGGTTCTGGCTTCTTACGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGCATTTTTCTTAT
1 TTTGGTTCTGCCTTCTAACGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGCATTTTTCTTAC
* * * * * * *
18406789 TTTTCTACATTGATTGTCGGCACTAGACCAGTAATTTTTAAAAACAATTTTTTTT
66 TTTTCTACACTGATGGCCGACACCAAACCAGTAA-TTTTAAAAAAAATTTTTTTT
* * *
18406844 TTTGGTTCTAGCCTTCTAATGGCCGGCACCAGAGACTTTTTTCGTGTCCTAATGCAATTTTTTTT
1 TTTGGTTCT-GCCTTCTAACGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGC-A-TTTTTCT
*
18406909 TACTTTTCTACACTGATGGCCTACACCAAACCAGTAA-TTTAAAAAAAATT
63 TACTTTTCTACACTGATGGCCGACACCAAACCAGTAATTTTAAAAAAAATT
18406959 ACTAGTGTAT
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
120 9 0.09
121 53 0.54
122 1 0.01
123 35 0.36
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (119 bp):
TTTGGTTCTGCCTTCTAACGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGCATTTTTCTTAC
TTTTCTACACTGATGGCCGACACCAAACCAGTAATTTTAAAAAAAATTTTTTTT
Found at i:18407008 original size:46 final size:46
Alignment explanation
Indices: 18406957--18407051 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
18406947 TTAAAAAAAA
* *
18406957 TTACTAGTGTATTGCCGGCCATTAGAAGGTCAGAA-CTAATTTTTTT
1 TTACTAGTGTAGTGCCGGCCATTAGAAGGCCAGAATC-AATTTTTTT
*
18407003 TTACTAGTGTGGTGCCGGCCATTAGAAGGCCAGAATCAATTTTTTT
1 TTACTAGTGTAGTGCCGGCCATTAGAAGGCCAGAATCAATTTTTTT
18407049 TTA
1 TTA
18407052 TTTTTTTCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (46 bp):
TTACTAGTGTAGTGCCGGCCATTAGAAGGCCAGAATCAATTTTTTT
Found at i:18407064 original size:54 final size:54
Alignment explanation
Indices: 18406998--18407146 Score: 176
Period size: 54 Copynumber: 2.7 Consensus size: 54
18406988 AGAACTAATT
*
18406998 TTTTTTTACTAGTGTGGTGCCGGCCATTAGAAGGCCAGAATC-AATTTTTTTTTA
1 TTTTTTTACTAGTGTGGTGCC-GCCATTAGAAGGCCAGAATCTAAATTTTTTTTA
* * * *
18407052 TTTTTTTCCTAGTGTGGTGCTCACCATTAGAAGGTCAGAA-CTAAATTTTTTTTC
1 TTTTTTTACTAGTGTGGTGC-CGCCATTAGAAGGCCAGAATCTAAATTTTTTTTA
* * * *
18407106 TTTTTTTACTAGTGTAGTGGTCGCTATTAGAAGACCAGAAT
1 TTTTTTTACTAGTGTGGT-GCCGCCATTAGAAGGCCAGAAT
18407147 AAAAAAAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 76 0.96
55 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (54 bp):
TTTTTTTACTAGTGTGGTGCCGCCATTAGAAGGCCAGAATCTAAATTTTTTTTA
Found at i:18409028 original size:3 final size:3
Alignment explanation
Indices: 18409020--18409048 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18409010 TCTTAATCTA
18409020 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18409049 AAGAAACCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18409265 original size:23 final size:24
Alignment explanation
Indices: 18409221--18409266 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
18409211 AGATATAATC
* **
18409221 AAAATCTATAATAAAATTGTTAAA
1 AAAATCTAAAATAAAAAGGTTAAA
18409245 AAAAT-TAAAATAAAAAGGTTAA
1 AAAATCTAAAATAAAAAGGTTAA
18409267 TTGTACAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (24 bp):
AAAATCTAAAATAAAAAGGTTAAA
Found at i:18414748 original size:14 final size:15
Alignment explanation
Indices: 18414729--18414765 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
18414719 ATAATTTAAA
18414729 ATATAATAATAAT-G
1 ATATAATAATAATAG
18414743 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
18414757 TTATAATAA
1 ATATAATAA
18414766 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:18418335 original size:46 final size:44
Alignment explanation
Indices: 18418276--18418390 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
18418266 ACAGGACAGA
* *
18418276 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
18418322 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
18418366 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
18418391 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:18418371 original size:44 final size:45
Alignment explanation
Indices: 18418276--18418409 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
18418266 ACAGGACAGA
* *
18418276 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
18418322 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
18418366 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
18418410 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:18425701 original size:46 final size:44
Alignment explanation
Indices: 18425642--18425756 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
18425632 ACAGGACAGA
* *
18425642 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
18425688 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
18425732 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
18425757 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:18425737 original size:44 final size:45
Alignment explanation
Indices: 18425642--18425775 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
18425632 ACAGGACAGA
* *
18425642 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
18425688 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
18425732 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
18425776 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:18432948 original size:50 final size:50
Alignment explanation
Indices: 18432868--18432972 Score: 192
Period size: 50 Copynumber: 2.1 Consensus size: 50
18432858 TTGGCTTAAA
* *
18432868 TAAGACTTGAAACATGATATTTGTCAATATGTATGGGTATGTGTTATGGT
1 TAAGGCTTGAAACATGATATTTGTCAATATGTATAGGTATGTGTTATGGT
18432918 TAAGGCTTGAAACATGATATTTGTCAATATGTATAGGTATGTGTTATGGT
1 TAAGGCTTGAAACATGATATTTGTCAATATGTATAGGTATGTGTTATGGT
18432968 TAAGG
1 TAAGG
18432973 TAGGTGAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (50 bp):
TAAGGCTTGAAACATGATATTTGTCAATATGTATAGGTATGTGTTATGGT
Found at i:18433434 original size:33 final size:33
Alignment explanation
Indices: 18433396--18433458 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
18433386 TTCTGATATG
* *
18433396 ATATGACATTTTGATATGATATATGCTTCTGAA
1 ATATGACATTCTAATATGATATATGCTTCTGAA
* *
18433429 ATATGACATTCTAATATTATATATGTTTCT
1 ATATGACATTCTAATATGATATATGCTTCT
18433459 AGTGATGCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (33 bp):
ATATGACATTCTAATATGATATATGCTTCTGAA
Done.