Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 63 of 187
Found at i:18449591 original size:27 final size:27
Alignment explanation
Indices: 18449548--18449958 Score: 294
Period size: 27 Copynumber: 15.3 Consensus size: 27
18449538 TGCGATTCGT
* *
18449548 GGTAAAATTACCGAAATACCCCTGAAG
1 GGTAAAATTATCAAAATACCCCTGAAG
*
18449575 GGTAAAATTATCAAAATA-CCC-AAAG
1 GGTAAAATTATCAAAATACCCCTGAAG
*
18449600 GGTAAAATTA-CGAAAATA-CCCTCAAAG
1 GGTAAAATTATC-AAAATACCCCT-GAAG
*
18449627 GGTAAAATTATCAAAATA-TCCTCGAAG
1 GGTAAAATTATCAAAATACCCCT-GAAG
*
18449654 GGTAAAATTA-CTAAAATACCTCTGAAG
1 GGTAAAATTATC-AAAATACCCCTGAAG
*
18449681 GGTAAAATTACCAAAATACCCCTGAAG
1 GGTAAAATTATCAAAATACCCCTGAAG
* * * *
18449708 GGTAAAATTA-CTGAAAT-GCCCTCAAAA
1 GGTAAAATTATC-AAAATACCCCT-GAAG
* * * *
18449735 GGTAAAATTACCGAAAT-GCTCTCGAAG
1 GGTAAAATTATCAAAATACCCCT-GAAG
* * * *
18449762 GGTAAAACTACCCAAATACCTCC-GAAA
1 GGTAAAATTATCAAAATACC-CCTGAAG
* **
18449789 GGTAAAATTATCGAAATACCCCCAAAG
1 GGTAAAATTATCAAAATACCCCTGAAG
* *
18449816 GGTAAAATTAACGAAATA-CCCTCGAAG
1 GGTAAAATTATCAAAATACCCCT-GAAG
* * ** *
18449843 AGTAAAATGA-CTATTATACCCTCGGAA-
1 GGTAAAATTATC-AAAATACCC-CTGAAG
*
18449870 GGTAAAATTATCGAAAT-CCCCTCGAAG
1 GGTAAAATTATCAAAATACCCCT-GAAG
* *
18449897 GGTAAAATTAGCGAAATACCTCC-GAAG
1 GGTAAAATTATCAAAATACC-CCTGAAG
**
18449924 GGTAAAATTATCAAAATACCCCCAAAG
1 GGTAAAATTATCAAAATACCCCTGAAG
18449951 GGTAAAAT
1 GGTAAAAT
18449959 GATTGTTATA
Statistics
Matches: 317, Mismatches: 44, Indels: 46
0.78 0.11 0.11
Matches are distributed among these distances:
24 1 0.00
25 23 0.07
26 23 0.07
27 252 0.79
28 14 0.04
29 4 0.01
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (27 bp):
GGTAAAATTATCAAAATACCCCTGAAG
Found at i:18449672 original size:54 final size:53
Alignment explanation
Indices: 18449548--18449958 Score: 340
Period size: 54 Copynumber: 7.7 Consensus size: 53
18449538 TGCGATTCGT
* * *
18449548 GGTAAAATTACCGAAATACCC-CTGAAGGGTAAAATTATCAAAATACC-CAAAG
1 GGTAAAATTACTGAAATACCCTC-AAAGGGTAAAATTATCAAAATACCTCGAAG
18449600 GGTAAAATTAC-GAAAATACCCTCAAAGGGTAAAATTATCAAAATATCCTCGAAG
1 GGTAAAATTACTG-AAATACCCTCAAAGGGTAAAATTATCAAAATA-CCTCGAAG
* * * *
18449654 GGTAAAATTACTAAAATA-CCTCTGAAGGGTAAAATTACCAAAATACCCCTGAAG
1 GGTAAAATTACTGAAATACCCTC-AAAGGGTAAAATTATCAAAATACCTC-GAAG
* * * * *
18449708 GGTAAAATTACTGAAATGCCCTCAAAAGGTAAAATTACCGAAATGCTCTCGAAG
1 GGTAAAATTACTGAAATACCCTCAAAGGGTAAAATTATCAAAATAC-CTCGAAG
* ** * * *
18449762 GGTAAAACTACCCAAATA-CCTCCGAAA-GGTAAAATTATCGAAATACCCCCAAAG
1 GGTAAAATTACTGAAATACCCT-C-AAAGGGTAAAATTATCAAAATA-CCTCGAAG
* * * **
18449816 GGTAAAATTAAC-GAAATACCCTCGAAGAGTAAAATGA-CTATTATACCCTCGGAA-
1 GGTAAAATT-ACTGAAATACCCTCAAAGGGTAAAATTATC-AAAATA-CCTC-GAAG
* * * *
18449870 GGTAAAATTA-TCGAAATCCCCTCGAAGGGTAAAATTAGCGAAATACCTCCGAAG
1 GGTAAAATTACT-GAAATACCCTCAAAGGGTAAAATTATCAAAATACCT-CGAAG
* *
18449924 GGTAAAATTA-TCAAAATACCCCCAAAGGGTAAAAT
1 GGTAAAATTACT-GAAATACCCTCAAAGGGTAAAAT
18449959 GATTGTTATA
Statistics
Matches: 296, Mismatches: 41, Indels: 42
0.78 0.11 0.11
Matches are distributed among these distances:
51 1 0.00
52 40 0.14
53 23 0.08
54 214 0.72
55 18 0.06
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (53 bp):
GGTAAAATTACTGAAATACCCTCAAAGGGTAAAATTATCAAAATACCTCGAAG
Found at i:18449715 original size:81 final size:80
Alignment explanation
Indices: 18449548--18449958 Score: 399
Period size: 81 Copynumber: 5.1 Consensus size: 80
18449538 TGCGATTCGT
* * *
18449548 GGTAAAATTACCGAAATACCC-CTGAAGGGTAAAATTATCAAAATACC-C-AAAGGGTAAAATTA
1 GGTAAAATTATCGAAATACCCTC-GAAGGGTAAAATTA-CGAAATACCTCTGAAGGGTAAAATTA
* *
18449610 CGAAAATA-CCCTCAAAG
64 CCAAAATACCCCT-GAAG
* * *
18449627 GGTAAAATTATCAAAATATCCTCGAAGGGTAAAATTACTAAAATACCTCTGAAGGGTAAAATTAC
1 GGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTAC-GAAATACCTCTGAAGGGTAAAATTAC
18449692 CAAAATACCCCTGAAG
65 CAAAATACCCCTGAAG
* * * * *
18449708 GGTAAAATTA-CTGAAATGCCCTCAAAAGGTAAAATTACCGAAAT-GCTCTCGAAGGGTAAAACT
1 GGTAAAATTATC-GAAATACCCTCGAAGGGTAAAATTA-CGAAATACCTCT-GAAGGGTAAAATT
* *
18449771 ACCCAAATACCTCC-GAAA
63 ACCAAAATACC-CCTGAAG
* * * *
18449789 GGTAAAATTATCGAAATACCCCCAAAGGGTAAAATTAACGAAATACC-CTCGAAGAGTAAAATGA
1 GGTAAAATTATCGAAATACCCTCGAAGGGTAAAATT-ACGAAATACCTCT-GAAGGGTAAAATTA
* ** *
18449853 CTATTATACCCTCGGAA-
64 CCAAAATACCC-CTGAAG
* * *
18449870 GGTAAAATTATCGAAATCCCCTCGAAGGGTAAAATTAGCGAAATACCTCCGAAGGGTAAAATTAT
1 GGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTA-CGAAATACCTCTGAAGGGTAAAATTAC
**
18449935 CAAAATACCCCCAAAG
65 CAAAATACCCCTGAAG
18449951 GGTAAAAT
1 GGTAAAAT
18449959 GATTGTTATA
Statistics
Matches: 276, Mismatches: 39, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.00
79 40 0.14
80 12 0.04
81 209 0.76
82 14 0.05
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (80 bp):
GGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACGAAATACCTCTGAAGGGTAAAATTACC
AAAATACCCCTGAAG
Found at i:18450165 original size:26 final size:26
Alignment explanation
Indices: 18450136--18450187 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
18450126 TTGCCACATA
*
18450136 TACTGTTACTGGTAGCCTTGCTGCGT
1 TACTGTTACTGGCAGCCTTGCTGCGT
*
18450162 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCCTTGCTGCGT
18450188 CATTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.23, G:0.27, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCCTTGCTGCGT
Found at i:18457620 original size:14 final size:15
Alignment explanation
Indices: 18457584--18457621 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18457574 TTGACTTATT
*
18457584 ATTTAATTATAAATA
1 ATTTAATTTTAAATA
*
18457599 ATTGAATTTTAAA-A
1 ATTTAATTTTAAATA
18457613 ATTTAATTT
1 ATTTAATTT
18457622 AATTAGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTAATTTTAAATA
Found at i:18457750 original size:17 final size:17
Alignment explanation
Indices: 18457725--18457763 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
18457715 TTAAAATTAG
18457725 ATTAAGAAAATTATTTA
1 ATTAAGAAAATTATTTA
* *
18457742 ATTAGGAAATTTATTTA
1 ATTAAGAAAATTATTTA
*
18457759 GTTAA
1 ATTAA
18457764 TTAAATAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (17 bp):
ATTAAGAAAATTATTTA
Found at i:18458334 original size:23 final size:23
Alignment explanation
Indices: 18458305--18458352 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
18458295 GATAAGCTTG
* *
18458305 TTCGGTTGAAAGATATGATCGAC
1 TTCGGTTAAAAGATAGGATCGAC
18458328 TTCGGTTAAAAGATAGGATCGAC
1 TTCGGTTAAAAGATAGGATCGAC
18458351 TT
1 TT
18458353 GATTCTGTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (23 bp):
TTCGGTTAAAAGATAGGATCGAC
Found at i:18469328 original size:3 final size:3
Alignment explanation
Indices: 18469320--18469391 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
18469310 ATACATGGCG
18469320 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18469368 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
18469392 CAATATTAAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18470718 original size:27 final size:27
Alignment explanation
Indices: 18470688--18470744 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
18470678 TCCACTGTGT
** *
18470688 CTTGTTGCTTCGATTTACTCCATTGCA
1 CTTGTTGCTTCGATCCACTCCACTGCA
18470715 CTTGTTGCTTCGATCCACTCCACTGCA
1 CTTGTTGCTTCGATCCACTCCACTGCA
18470742 CTT
1 CTT
18470745 TAGAGAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.32, G:0.14, T:0.40
Consensus pattern (27 bp):
CTTGTTGCTTCGATCCACTCCACTGCA
Found at i:18470891 original size:44 final size:44
Alignment explanation
Indices: 18470830--18471255 Score: 215
Period size: 44 Copynumber: 9.5 Consensus size: 44
18470820 TCCACTACTA
* * * * * *
18470830 CAACTTCAGAGATATAAGATTCATTGTTTTAATCCGTTCCACTG
1 CAACTTCAGGGAGATAAGATTGATTGTTTCAATCTGCTCCACTG
* * *
18470874 CAACTTCAGGGAGATAAGATTGGTAT-CTTCAACCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTGAT-TGTTTCAATCTGCTCCACTG
* * * * *
18470918 CAACTTCAAGGAGATAAGGTTGGTTATCTTCAGTCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTGATTGT-TTCAATCTGCTCCACTG
* *
18470963 CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTT-AATC--CAACCTATTG
1 CAACTTCAGGGAGATAAGA-TTG--AT--T-G-TTTCAATCTGC-TCC-ACTG
* * * * * * *
18471013 TAACTTCAGAGG-TATAGGATTCATCGTTTTAATCTGCTCCATTG
1 CAACTTCAG-GGAGATAAGATTGATTGTTTCAATCTGCTCCACTG
* * * *
18471057 CAACTTCAGGGAGATATGATTAATAGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTGATTGTTTCAATCTGCTCCACTG
* * * *
18471101 AAACTTCAGGGAGATAAGATTGGTAT-CTTCAA-CTTGTTCCACT-
1 CAACTTCAGGGAGATAAGATTGAT-TGTTTCAATC-TGCTCCACTG
* * * * * * *
18471144 CTAACTTCAGGGAGATAAGGTTGGTTATCTTTAGTCTGTTCCACTA
1 C-AACTTCAGGGAGATAAGATTGATTGT-TTCAATCTGCTCCACTG
* * * *
18471190 TAACTTCAGGGAGATAAGACTT-ATTATGGTGT-GATCTGCTCTACTG
1 CAACTTCAGGGAGATAAGA-TTGA-T-T-GTTTCAATCTGCTCCACTG
*
18471236 CAACTTCAGAGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
18471256 CTACTATCTT
Statistics
Matches: 296, Mismatches: 58, Indels: 55
0.72 0.14 0.13
Matches are distributed among these distances:
43 8 0.03
44 153 0.52
45 65 0.22
46 34 0.11
47 4 0.01
48 3 0.01
49 4 0.01
50 20 0.07
51 4 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTGATTGTTTCAATCTGCTCCACTG
Found at i:18470961 original size:45 final size:44
Alignment explanation
Indices: 18470867--18471208 Score: 235
Period size: 44 Copynumber: 7.6 Consensus size: 44
18470857 TTTAATCCGT
18470867 TCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGC
* * **
18470911 TCCACTGCAACTTCAAGGAGATAAGGTTGGTTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAACCTGC
** * **
18470956 TCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCAAC
1 TCCACTGCAACTTCAGGGAGATAAGA-----T-TGGTATCTTCAA-CCTGC
* * * * * * * *
18471007 -CTATTGTAACTTCAGAGG-TATAGGATT--CATCGTTTTAATCTGC
1 TCCACTGCAACTTCAG-GGAGATAAGATTGGTATC--TTCAACCTGC
* * ** * *
18471050 TCCATTGCAACTTCAGGGAGATATGATTAATAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGC
* * *
18471094 TCCACTGAAACTTCAGGGAGATAAGATTGGTATCTTCAACTTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGC
* * ** *
18471138 TCCACT-CTAACTTCAGGGAGATAAGGTTGGTTATCTTTAGTCTGT
1 TCCACTGC-AACTTCAGGGAGATAAGATTGG-TATCTTCAACCTGC
**
18471183 TCCACTATAACTTCAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
18471209 CTTATTATGG
Statistics
Matches: 232, Mismatches: 48, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 125 0.54
45 70 0.30
46 2 0.01
50 23 0.10
51 7 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGC
Found at i:18472062 original size:44 final size:44
Alignment explanation
Indices: 18472014--18472151 Score: 107
Period size: 44 Copynumber: 3.1 Consensus size: 44
18472004 TCCACTACTG
18472014 CTTAGGAAGACAGGATCTACAATCTTCGACCTACTCTACTGCTA
1 CTTAGGAAGACAGGATCTACAATCTTCGACCTACTCTACTGCTA
* * * **** * * * * *
18472058 CTTAGGGAGATAGG-GCTGGTGTTTTCGATCTGCTTTACTGCCA
1 CTTAGGAAGACAGGATCTACAATCTTCGACCTACTCTACTGCTA
* * * * *
18472101 GTATAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGTTA
1 CT-TAGGAAGACAGGATCTACAATCTTCGACCTACTCTACTGCTA
18472146 CTTAGG
1 CTTAGG
18472152 GAGATAATGC
Statistics
Matches: 62, Mismatches: 30, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
43 20 0.32
44 25 0.40
45 17 0.27
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTAGGAAGACAGGATCTACAATCTTCGACCTACTCTACTGCTA
Found at i:18472112 original size:88 final size:88
Alignment explanation
Indices: 18472017--18472480 Score: 669
Period size: 88 Copynumber: 5.3 Consensus size: 88
18472007 ACTACTGCTT
* * * *
18472017 AGGAAGACAGGATCTACAATCTTCGACCTACTCTACTGCTACTTAGGGAGATAGGGCTGGTGTTT
1 AGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTACTTAGGGAGATAAGGCTGGTGTTT
* * *
18472082 TCGATCTGCTTTACTGCCAGTAT
66 TCGATCTACTTCACTGCCAGTAC
* *
18472105 AGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGTTACTTAGGGAGATAATGCTGGTGTTT
1 AGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTACTTAGGGAGATAAGGCTGGTGTTT
* *
18472170 TCGATTTACTTCACTGCCAGTAT
66 TCGATCTACTTCACTGCCAGTAC
* * * * * *
18472193 AGGAAGATAAGATCTACAATCTTCAACCTATTCCACTGTTGCTCAAGGAGATAAGGCTGGTGTTA
1 AGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTACTTAGGGAGATAAGGCTGGTGTT-
* *
18472258 TT-GATCTACTTCACTACCAATAC
65 TTCGATCTACTTCACTGCCAGTAC
* * *
18472281 AAGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTACTTAGGGAGATAAGGCTAGTGTTT
1 AGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTACTTAGGGAGATAAGGCTGGTGTTT
18472346 TCGATCTACTTCACTGCCAGTAC
66 TCGATCTACTTCACTGCCAGTAC
* * *
18472369 AGGAAGGCAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTT
1 AGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTACTTAGGGAGATAAGGCTGGTGTTT
*
18472434 TCGATCTACTTCATTGCCAGTAC
66 TCGATCTACTTCACTGCCAGTAC
*
18472457 AGGAAAACAAGATCTACAATCTTC
1 AGGAAGACAAGATCTACAATCTTC
18472481 TTCAATCCAT
Statistics
Matches: 335, Mismatches: 39, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 2 0.01
88 331 0.99
89 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (88 bp):
AGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTACTTAGGGAGATAAGGCTGGTGTTT
TCGATCTACTTCACTGCCAGTAC
Found at i:18472845 original size:24 final size:24
Alignment explanation
Indices: 18472787--18472847 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
18472777 CGGATTGCCC
*
18472787 CCACTGTAATCTTCAAGGTCCAAT
1 CCACTGTAATTTTCAAGGTCCAAT
*
18472811 CCACTGTAATTTTCAAGGTTCAAT
1 CCACTGTAATTTTCAAGGTCCAAT
18472835 CCACTGTAATTTT
1 CCACTGTAATTTT
18472848 GGGACATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (24 bp):
CCACTGTAATTTTCAAGGTCCAAT
Found at i:18479312 original size:17 final size:17
Alignment explanation
Indices: 18479290--18479322 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18479280 ATACAAAGTA
*
18479290 TATTAATTAATTTGTTT
1 TATTAACTAATTTGTTT
18479307 TATTAACTAATTTGTT
1 TATTAACTAATTTGTT
18479323 CAGAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
TATTAACTAATTTGTTT
Found at i:18479885 original size:47 final size:47
Alignment explanation
Indices: 18479820--18479910 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
18479810 CACATTTCAT
18479820 TGAAACCGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTTGCC
1 TGAAACCGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTTGCC
* * * * *
18479867 TGAAACCGTAATTGAGCTTTGTCTATACTTTTGCAAACTTATTT
1 TGAAACCGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTT
18479911 TTTTAAACCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (47 bp):
TGAAACCGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTTGCC
Found at i:18487610 original size:46 final size:47
Alignment explanation
Indices: 18487560--18487654 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
18487550 ATCATATATA
*
18487560 TGTGGTCAAGCCACTAT-ATTGCAGCCAAGCTGCCAAAACAGAAATG
1 TGTGGTCAAGCCACTATAACTGCAGCCAAGCTGCCAAAACAGAAATG
* * *
18487606 TGTGGTCGAGCCACTATAACTGCAGTCAAGCTGCCATAACAGAAATG
1 TGTGGTCAAGCCACTATAACTGCAGCCAAGCTGCCAAAACAGAAATG
18487653 TG
1 TG
18487655 GTTAAATCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 16 0.36
47 28 0.64
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (47 bp):
TGTGGTCAAGCCACTATAACTGCAGCCAAGCTGCCAAAACAGAAATG
Found at i:18492029 original size:15 final size:15
Alignment explanation
Indices: 18492009--18492040 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18491999 GAACGATCAG
18492009 CTGAAAGATCCTCCT
1 CTGAAAGATCCTCCT
18492024 CTGAAAGATCCTCCT
1 CTGAAAGATCCTCCT
18492039 CT
1 CT
18492041 AAGGGGATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.28
Consensus pattern (15 bp):
CTGAAAGATCCTCCT
Found at i:18499778 original size:14 final size:14
Alignment explanation
Indices: 18499759--18499798 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
18499749 TTTGGACTTG
18499759 AAATATTATATTAA
1 AAATATTATATTAA
*
18499773 AAATATTATAATAA
1 AAATATTATATTAA
*
18499787 ATATATATATAT
1 AAATAT-TATAT
18499799 ATGTAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATATTATATTAA
Found at i:18503744 original size:37 final size:36
Alignment explanation
Indices: 18503703--18503784 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 36
18503693 CGTGCTATTG
* * *
18503703 GTTGGATTAGCTCTTATGATCGTTTGGCGTGTTATCA
1 GTTGGATTAGCTCTCATGAGCATTTGGCGTGTT-TCA
*
18503740 GTTGGATTAGCTCTCATGAGCATTTGGCGTGTTTCG
1 GTTGGATTAGCTCTCATGAGCATTTGGCGTGTTTCA
18503776 GTTGGATTA
1 GTTGGATTA
18503785 CTTAGTACTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 11 0.27
37 30 0.73
ACGTcount: A:0.16, C:0.13, G:0.29, T:0.41
Consensus pattern (36 bp):
GTTGGATTAGCTCTCATGAGCATTTGGCGTGTTTCA
Found at i:18510608 original size:16 final size:15
Alignment explanation
Indices: 18510592--18510622 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
18510582 AACAAAAAGA
18510592 AATAGAAAGAAACAG
1 AATAGAAAGAAACAG
18510607 AATAGAAACGAAACAG
1 AATAGAAA-GAAACAG
18510623 GGAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.65, C:0.10, G:0.19, T:0.06
Consensus pattern (15 bp):
AATAGAAAGAAACAG
Found at i:18510612 original size:15 final size:16
Alignment explanation
Indices: 18510579--18510622 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
18510569 AAGCATAAAA
*
18510579 AGAAAC-AAAAAGAAAT
1 AGAAACGAAACAG-AAT
18510595 AGAAA-GAAACAGAAT
1 AGAAACGAAACAGAAT
18510610 AGAAACGAAACAG
1 AGAAACGAAACAG
18510623 GGAGAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.68, C:0.09, G:0.18, T:0.05
Consensus pattern (16 bp):
AGAAACGAAACAGAAT
Found at i:18510628 original size:26 final size:25
Alignment explanation
Indices: 18510575--18510661 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 25
18510565 ATAAAAGCAT
* * **
18510575 AAAAAGAAACAAAAAGAAATAGAAAG
1 AAAAAGAAA-GAAAAGAAAAAGGGAG
* * *
18510601 AAACAGAATAGAAACGAAACAGGGAG
1 AAAAAGAA-AGAAAAGAAAAAGGGAG
18510627 AAAAAGAAAGAAAAGAAAAAGGGA-
1 AAAAAGAAAGAAAAGAAAAAGGGAG
18510651 AAGAAAGAAAG
1 AA-AAAGAAAG
18510662 GAGAAATAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
24 2 0.04
25 22 0.44
26 25 0.50
27 1 0.02
ACGTcount: A:0.70, C:0.05, G:0.23, T:0.02
Consensus pattern (25 bp):
AAAAAGAAAGAAAAGAAAAAGGGAG
Found at i:18511633 original size:38 final size:36
Alignment explanation
Indices: 18511573--18511663 Score: 85
Period size: 38 Copynumber: 2.4 Consensus size: 36
18511563 GGATAGATTT
* * *
18511573 GATGAGATACTAGGTATCACTTTACTT-AGACTAGGCC
1 GATGAGA-ACTGGGTGTCACTTTACTTCAAACTA-GCC
* *
18511610 GATGAGACACTGGGTGTCAACTTTGCTTCAAACTATCC
1 GATGAGA-ACTGGGTGTC-ACTTTACTTCAAACTAGCC
18511648 GATGAGGAACTGGGTG
1 GATGA-GAACTGGGTG
18511664 ACAATCTGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 15 0.33
38 23 0.51
39 7 0.16
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (36 bp):
GATGAGAACTGGGTGTCACTTTACTTCAAACTAGCC
Found at i:18518013 original size:22 final size:24
Alignment explanation
Indices: 18517973--18518023 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
18517963 TATTTTTAGG
* **
18517973 TTTTTAGTTTAGTTTTATTT-T-C
1 TTTTCAGTTTAGTCATATTTATAC
18517995 TTTTCAGTTTAGTCATATTTATAC
1 TTTTCAGTTTAGTCATATTTATAC
18518019 TTTTC
1 TTTTC
18518024 TTACTACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.71
23 1 0.04
24 6 0.25
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.65
Consensus pattern (24 bp):
TTTTCAGTTTAGTCATATTTATAC
Found at i:18518660 original size:16 final size:16
Alignment explanation
Indices: 18518639--18518670 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18518629 TAATTGGTTG
*
18518639 ATTTTTAGTTTAATTA
1 ATTTTTAGGTTAATTA
18518655 ATTTTTAGGTTAATTA
1 ATTTTTAGGTTAATTA
18518671 GATTAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTTTTAGGTTAATTA
Found at i:18519870 original size:68 final size:68
Alignment explanation
Indices: 18519788--18519961 Score: 197
Period size: 68 Copynumber: 2.6 Consensus size: 68
18519778 GGTTTAATAT
* *
18519788 GTAAGACCATAGCTAGGCTATGACAACATATGGAGTCCACAAAGACAATAAACATGGGTTTATAT
1 GTAAGACCATAGCTAGGCTATGACAACATATGAAGTCCACAAAGACAATAAACATGAGTTTATAT
*
18519853 TGG
66 TAG
** ** * * * *
18519856 GTAAGACCATAGCTAGGCTATGGTAACATATGAAGTCTGCCAGGATAGTAAACATGAGTTTATAT
1 GTAAGACCATAGCTAGGCTATGACAACATATGAAGTCCACAAAGACAATAAACATGAGTTTATAT
*
18519921 TAT
66 TAG
** *
18519924 GTAATG-CCATAGCTAGGCTATGGTAACAAATGAAGTCC
1 GTAA-GACCATAGCTAGGCTATGACAACATATGAAGTCC
18519962 GCCAAAGTGG
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
68 90 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (68 bp):
GTAAGACCATAGCTAGGCTATGACAACATATGAAGTCCACAAAGACAATAAACATGAGTTTATAT
TAG
Found at i:18530528 original size:18 final size:18
Alignment explanation
Indices: 18530505--18530545 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
18530495 GTGTAGATTT
* *
18530505 TTTGTCTATTTTGTTTCG
1 TTTGTCTATTTTCTTTAG
18530523 TTTGTCTATTTTCTTTAG
1 TTTGTCTATTTTCTTTAG
18530541 TTTGT
1 TTTGT
18530546 TTGTTTTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.10, G:0.15, T:0.68
Consensus pattern (18 bp):
TTTGTCTATTTTCTTTAG
Found at i:18535117 original size:111 final size:118
Alignment explanation
Indices: 18534989--18535216 Score: 310
Period size: 116 Copynumber: 2.0 Consensus size: 118
18534979 CAAATAAAAT
* *
18534989 TAAAATAATTGATCAAATAC-CTTTTTCAT-GATAA-G-TTTTTTTTTTTTAAA-TGGATTAGGT
1 TAAAACAATTGATCAAATACTCTTTTTC-TCAATAAGGTTTTTTTTTTTTTAAAGTGGATTAGGT
* *
18535049 ATGGTCCTAAATTAACAC-GAGTTAACATA-C-CTTTTTGGTATAAAGTTTAAA
65 ATGATCCTAAATTAACACTGAGTTAAAATATCGCTTTTTGGTATAAAGTTTAAA
*
18535100 TAAAACAATTGATCAAATACTTTTTTTCTCAATAAGTGTTTTTTTTTTTTTAAAGTGGATTAGGT
1 TAAAACAATTGATCAAATACTCTTTTTCTCAATAAG-GTTTTTTTTTTTTTAAAGTGGATTAGGT
*
18535165 ATGATCCTAAATTAACACTTAGTTAAAATATTCTGCTTTTTGGTATAAAGTT
65 ATGATCCTAAATTAACACTGAGTTAAAATA-TC-GCTTTTTGGTATAAAGTT
18535217 GAAGAAAATG
Statistics
Matches: 100, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
111 20 0.20
112 10 0.10
114 1 0.01
115 15 0.15
116 27 0.27
117 9 0.09
119 1 0.01
121 17 0.17
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (118 bp):
TAAAACAATTGATCAAATACTCTTTTTCTCAATAAGGTTTTTTTTTTTTTAAAGTGGATTAGGTA
TGATCCTAAATTAACACTGAGTTAAAATATCGCTTTTTGGTATAAAGTTTAAA
Found at i:18537063 original size:7 final size:7
Alignment explanation
Indices: 18537051--18537084 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
18537041 CGCATTTGAG
18537051 AGAAAAA
1 AGAAAAA
18537058 AGAAAAA
1 AGAAAAA
18537065 AGAAAAA
1 AGAAAAA
18537072 A-AAAAA
1 AGAAAAA
18537078 A-AAAAA
1 AGAAAAA
18537084 A
1 A
18537085 CATCATGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:18544652 original size:32 final size:32
Alignment explanation
Indices: 18544616--18544677 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
18544606 TCATAAACTT
* * *
18544616 ATAAATTGATTACTTGAACTTAATAACTCATG
1 ATAAATTAATTAATTCAACTTAATAACTCATG
* *
18544648 ATAAATTAATTAATTCAATTTTATAACTCA
1 ATAAATTAATTAATTCAACTTAATAACTCA
18544678 GACCGATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (32 bp):
ATAAATTAATTAATTCAACTTAATAACTCATG
Found at i:18545736 original size:18 final size:18
Alignment explanation
Indices: 18545713--18545747 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
18545703 ATAAATGTAT
18545713 GATTACTTAAAATTTAAA
1 GATTACTTAAAATTTAAA
18545731 GATTACTTAAAATTTAA
1 GATTACTTAAAATTTAA
18545748 GTATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (18 bp):
GATTACTTAAAATTTAAA
Found at i:18545782 original size:15 final size:14
Alignment explanation
Indices: 18545762--18545806 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
18545752 AAAAATATTT
18545762 ATAAATATTAATTAA
1 ATAAATA-TAATTAA
*
18545777 ATAAATATAAAATAA
1 ATAAATAT-AATTAA
18545792 ATAAATA-AATTAA
1 ATAAATATAATTAA
18545805 AT
1 AT
18545807 GGTGCCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 7 0.26
14 1 0.04
15 19 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAATATAATTAA
Found at i:18545912 original size:19 final size:19
Alignment explanation
Indices: 18545872--18545926 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
18545862 CTTGTGTTAT
* * *
18545872 AATTAAAAGA-TATTTATT
1 AATTAAATGATTATTAATA
18545890 AATTAAATGATTATTAATA
1 AATTAAATGATTATTAATA
* *
18545909 AATTATATTATTA-TAATA
1 AATTAAATGATTATTAATA
18545927 TAAAGTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
AATTAAATGATTATTAATA
Found at i:18545971 original size:18 final size:21
Alignment explanation
Indices: 18545948--18545991 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 21
18545938 AATAAAAATA
18545948 AAACAAAAC-AA-AAGA-AAG
1 AAACAAAACAAAGAAGAGAAG
18545966 AAACAAAACAAAGAAGAGAAG
1 AAACAAAACAAAGAAGAGAAG
18545987 AAACA
1 AAACA
18545992 GAGAGCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.39
19 2 0.09
20 4 0.17
21 8 0.35
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.00
Consensus pattern (21 bp):
AAACAAAACAAAGAAGAGAAG
Found at i:18546679 original size:14 final size:14
Alignment explanation
Indices: 18546660--18546688 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18546650 ATTAAAGTAC
18546660 TTGGTAAGTGAAAT
1 TTGGTAAGTGAAAT
18546674 TTGGTAAGTGAAAT
1 TTGGTAAGTGAAAT
18546688 T
1 T
18546689 GAGGTGAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (14 bp):
TTGGTAAGTGAAAT
Found at i:18546739 original size:24 final size:25
Alignment explanation
Indices: 18546711--18546757 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
18546701 AAAATATTGC
18546711 ATTGAATAAAAGTGAA-TGAAATGA
1 ATTGAATAAAAGTGAAGTGAAATGA
**
18546735 ATTGAATCGAAGTGAAGTGAAAT
1 ATTGAATAAAAGTGAAGTGAAAT
18546758 TATCTGAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.26
Consensus pattern (25 bp):
ATTGAATAAAAGTGAAGTGAAATGA
Found at i:18552399 original size:13 final size:13
Alignment explanation
Indices: 18552377--18552421 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
18552367 TTTCTATGCA
*
18552377 AAAATCTTATAAT
1 AAAATATTATAAT
18552390 AAAATATTATGAA-
1 AAAATATTAT-AAT
18552403 AAAATA-T-TAAT
1 AAAATATTATAAT
18552414 AAAATATT
1 AAAATATT
18552422 TTAACCAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
10 2 0.07
11 7 0.25
12 2 0.07
13 15 0.54
14 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAATATTATAAT
Found at i:18556445 original size:14 final size:14
Alignment explanation
Indices: 18556426--18556464 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
18556416 CATACATTTC
18556426 AAAAAATAAAATAA
1 AAAAAATAAAATAA
18556440 AAAAAA-ACAAATAA
1 AAAAAATA-AAATAA
18556454 AAAAATATAAA
1 AAAAA-ATAAA
18556465 GCCAAATACG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.05
14 17 0.77
15 3 0.14
16 1 0.05
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAATAA
Found at i:18557954 original size:22 final size:23
Alignment explanation
Indices: 18557890--18557967 Score: 80
Period size: 22 Copynumber: 3.7 Consensus size: 23
18557880 CTTAACATTG
* **
18557890 TTTTAAATTTATCATTAGTTTTA
1 TTTTAAATTTATCATAAGTACTA
18557913 TTTT-AA--TATCAT-A-TACTA
1 TTTTAAATTTATCATAAGTACTA
18557931 TTTTAAA-TTATCATAAGTACTA
1 TTTTAAATTTATCATAAGTACTA
18557953 -TTTAAATTTATCATA
1 TTTTAAATTTATCATA
18557968 TATCATAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
18 7 0.15
19 3 0.06
20 12 0.25
21 7 0.15
22 15 0.31
23 4 0.08
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (23 bp):
TTTTAAATTTATCATAAGTACTA
Found at i:18557955 original size:40 final size:42
Alignment explanation
Indices: 18557890--18558044 Score: 108
Period size: 45 Copynumber: 3.6 Consensus size: 42
18557880 CTTAACATTG
* ** *
18557890 TTTTAAATTTATCATTAGTTTTATTTTAA-TATCATATACTA
1 TTTTAAATTTATCATAAGTACTATTTAAATTATCATATACTA
18557931 TTTTAAA-TTATCATAAGTACTATTTAAATTTATCATATATCATAA
1 TTTTAAATTTATCATAAGTACTATTTAAA-TTATCATATA-C-T-A
* *
18557976 TTTAAAATTTATCAT--GTACTATAATTTTAAACTTATCATATCATTA
1 TTTTAAATTTATCATAAGTAC--T-A-TTTAAA-TTATCATAT-ACTA
*
18558022 -TTTAGATTTATCAT-A-TACTATTT
1 TTTTAAATTTATCATAAGTACTATTT
18558045 TTTTTGTGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
40 17 0.18
41 10 0.11
42 10 0.11
43 2 0.02
44 5 0.05
45 22 0.24
46 9 0.10
47 2 0.02
48 15 0.16
49 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (42 bp):
TTTTAAATTTATCATAAGTACTATTTAAATTATCATATACTA
Found at i:18557987 original size:24 final size:23
Alignment explanation
Indices: 18557952--18558038 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 23
18557942 CATAAGTACT
18557952 ATTTAAATTTATCATATATCATA
1 ATTTAAATTTATCATATATCATA
*
18557975 ATTTAAAATTTATCATGTA-CTATA
1 ATTT-AAATTTATCATATATC-ATA
* *
18557999 ATTTTAAACTTATC--ATATCATT
1 A-TTTAAATTTATCATATATCATA
*
18558021 ATTTAGATTTATCATATA
1 ATTTAAATTTATCATATA
18558039 CTATTTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 10 0.19
22 5 0.10
23 9 0.17
24 25 0.48
25 3 0.06
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTAAATTTATCATATATCATA
Found at i:18558195 original size:31 final size:32
Alignment explanation
Indices: 18558160--18558238 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
18558150 TCTAAAGAAC
*
18558160 TATATGATAGTA-TTT-T-CATACATTATTAT
1 TATATGATAGTATTTTATACATAAATTATTAT
*
18558189 TATAT-ATA-TATTTTTATATATAAATTATTAT
1 TATATGATAGTA-TTTTATACATAAATTATTAT
*
18558220 TATATGATAGTAATTTATA
1 TATATGATAGTATTTTATA
18558239 TTTTTATTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
27 2 0.05
28 3 0.07
29 8 0.20
30 1 0.02
31 16 0.39
32 9 0.22
33 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (32 bp):
TATATGATAGTATTTTATACATAAATTATTAT
Found at i:18558205 original size:14 final size:14
Alignment explanation
Indices: 18558183--18558224 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
18558173 TTTCATACAT
18558183 TATTATTATATATA
1 TATTATTATATATA
*
18558197 TATTTTTATATATA
1 TATTATTATATATA
*
18558211 AATTATTAT-TATA
1 TATTATTATATATA
18558224 T
1 T
18558225 GATAGTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATTATATATA
Found at i:18564747 original size:133 final size:132
Alignment explanation
Indices: 18564456--18565008 Score: 729
Period size: 133 Copynumber: 4.2 Consensus size: 132
18564446 GGCTTTAACA
* * * * *
18564456 TACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT-T-AG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT-CT-CTATGAG
* * ** * * *
18564519 GGAGACAAGATCTGAAATCTTCAATCTATT-TGCTGCTGCCCAGGGAAGTAGAATTACCGGCTTC
64 GAAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAATTTCTGGCTTC
18564583 AATG
129 AATG
* * *
18564587 TACTCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTGCTCCACTACTGCT-TG-G
1 TACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT-CT-CTATGAG
* * * * *
18564650 GGAGACAATATCTAAAATCTTTTAATCTATTCCACTGCTGACCAAGGAAGTAGAATTTGTGGCTT
64 GAAGACAAGATCTGAAATC-TTTAATCTATTCCACTGCTGACCAGGGAAGTAGAATTTCTGGCTT
18564715 CAATG
128 CAATG
* *
18564720 TACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCTGTCTATGCAGG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTCTCTATG-AGG
* *
18564785 AAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACTAGGGAAGTAGAATTTCTGGCTTCA
65 AAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAATTTCTGGCTTCA
18564850 ATG
130 ATG
* * * *
18564853 TACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTTCGCTGTTTATGCAGG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTCTCTATG-AGG
* *
18564918 AAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAATTTCTAGCTTCA
65 AAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAATTTCTGGCTTCA
18564983 ATG
130 ATG
*
18564986 TACTCCACTGCAACTTCAGGGAG
1 TACTCCACTGCAACCTCAGGGAG
18565009 ATAAGACTGG
Statistics
Matches: 383, Mismatches: 33, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
131 75 0.20
132 13 0.03
133 279 0.73
134 16 0.04
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
TACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTCTCTATGAGGA
AGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAATTTCTGGCTTCAA
TG
Found at i:18565124 original size:50 final size:50
Alignment explanation
Indices: 18565066--18565224 Score: 174
Period size: 50 Copynumber: 3.2 Consensus size: 50
18565056 GGTCTAAAAT
* *
18565066 CTTCAATCTATTCAATTGTAATGTCGGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTATTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* * ** ** *** * *
18565116 CTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTATTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* * *
18565166 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTATTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
18565216 CTTCAATCT
1 CTTCAATCT
18565225 GTTCCGCTAC
Statistics
Matches: 83, Mismatches: 26, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 83 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
CTTCAATCTATTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
Found at i:18565247 original size:100 final size:100
Alignment explanation
Indices: 18565066--18565269 Score: 293
Period size: 100 Copynumber: 2.0 Consensus size: 100
18565056 GGTCTAAAAT
* * *
18565066 CTTCAATCTATTCAATTGTAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTATTCAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
* * *
18565131 CCGCACCGTCAGGGAAGTAAGATCCGCCGTTGTGG
66 CCACACCGTCAAGGAAGTAAGATCCGCCGTTGTGA
* * *
18565166 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCG
1 CTTCAATCTATTCAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
* *
18565231 CTACACTG-CTAAGGAAGTAAGATCCGCCGTTGTGA
66 CCACACCGTC-AAGGAAGTAAGATCCGCCGTTGTGA
18565266 CTTC
1 CTTC
18565270 NNNNNNNNNN
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 1 0.01
100 91 0.99
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (100 bp):
CTTCAATCTATTCAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
CCACACCGTCAAGGAAGTAAGATCCGCCGTTGTGA
Found at i:18573201 original size:18 final size:18
Alignment explanation
Indices: 18573158--18573202 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
18573148 CTTTTATCAC
*
18573158 TAAAAAATTTATTATAAT
1 TAAAAAATTTATTATAAG
*
18573176 TAATAAATTT-TTATAAAG
1 TAAAAAATTTATTAT-AAG
18573194 TAAAAAATT
1 TAAAAAATT
18573203 GGTATTTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TAAAAAATTTATTATAAG
Found at i:18574142 original size:48 final size:49
Alignment explanation
Indices: 18574086--18576211 Score: 1561
Period size: 48 Copynumber: 44.2 Consensus size: 49
18574076 ATTTATGGAC
*
18574086 ATATGGAGGAGGTGGGGAGTGGATTGGTGGTGGTGGAGACTTGTGA-AT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * * *
18574134 ATAAGGAGGGGGTGGTGAATGAACTGGTGGTGGTGGAGACTTGT-AGAT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * *
18574182 ATATGGTGGAGGTGGGGACTGGACTGGTGGTGGTGGAGACTTATAGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * *
18574230 ATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGAGACTTGT-AAAT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * * * * *
18574278 GTAAGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGGGACTTAT-AGAT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * * * * * *
18574326 GTAGGGTGGAGGTGGTGAATGGA-TAGGTGGTGGAGGGGACTTAT-ATAT
1 ATATGGAGGAGGTGGGGAGTGGACT-GGTGGTGGTGGAGACTTGTGACAT
* * * * * * *
18574374 GTAAGGAGGAGGTGGAGAATGGACTGGAGGTGGTGGTGACTTGTG-GAT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * ** *
18574422 ATAAGGAGGGGGTGGTGAATGGACTGGTGAAGGTGGAGATTTGTGGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * *
18574470 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGT-ACAC
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
** * *
18574518 ATATGGAGGAGGTGGATAATGGACTGGTGGTGGTGGAGACTTGT-AAAT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * * * * * *
18574566 GTAAGGAGGGGGCGGTGAATGGACTGGTGGTGGAGGGGACTTGT-ATAT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * *
18574614 ATATGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * *
18574662 ATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTAGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
18574710 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTAGG-GACTTGTAGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGT-GGAGACTTGT-GACAT
* * * * *
18574758 ATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGGGACTTATG-GAT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * * *
18574806 GTAGGGTGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * * *
18574854 ATATGGTGGAGGTGGGGAGTGGACTGGGTGGGTGGGAGGGGGACTTG-G-TAT
1 ATATGGAGGAGGTGGGGAGTGGACT-GGT-GGT-GG-TGGAGACTTGTGACAT
* * * **
18574905 TTAGTGGAGGAGGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTAT-ATTT
1 ATA-TGGAGGA-GGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * *
18574955 GTAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * *
18575003 ATATGGTGGAGGTGGGGAGTGGACTGGT-ATGGGTGGAGATTTGTGGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT-GGTGGAGACTTGT-GACAT
* * * * **
18575051 ATATGGTGGAGGTAGGGAGTGGACTGGTGGAGGAGGAGACTTGT-ATTT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * * * *
18575099 GTAGGGAGGAGGTGGAGAATGGACTGGTGGGGGTGGAGATTTATGGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* **
18575147 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGT-ATTT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * * * *
18575195 ATAGGGAGGGGGTGGAGAATGGACTGGTGGGGGTGGAGATTTGTGA-AC
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * *
18575243 ATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGAGGAGATTTGTGTAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTG-ACAT
* * * * * *
18575291 ATAGGGAGGGGGTGGAGAATGGACTGGTGGAGGTGGAGATTTGTGGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * * *
18575339 ATATGGTGGAAGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGTACAT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTG-ACAT
* * *
18575389 A-A-GGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * *
18575435 ATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGTAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTG-ACAT
* * * **
18575483 ATATGGAGGAGGGGGGGAGTGGACTGGTGGTGGTGGGGACTTAT-ATTT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * *
18575531 GTAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * *
18575579 ATATGGTGGAGGTGGGGAGTGGACTGGT-ATGGGTGGAGATTTGTGGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT-GGTGGAGACTTGT-GACAT
* * * * **
18575627 ATATGGTGGAGGTAGGGAGTGGACTGGTGGAGGAGGAGACTTGT-ATTT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * * * *
18575675 GTAGGGAGGAGGTGGAGAATGGACTGGTGGGGGTGGAGATTTATGGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * * **
18575723 ATATGGAGGAGGTGGGGAGTAGACTGGTGGTGGAGGGGACTTGT-ATTT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * *
18575771 GTAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * *
18575819 ATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * * *
18575867 ATATGGTGGAGGTGGGGAGTGGACTGGTGGAGGAGGAGATTTGTGGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* * * * *
18575915 ATATGGTGGGGGTGGGGAGTGGACTTGTGGGGGTGGAGATTTGTGTAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTG-ACAT
* * **
18575963 ATATGGAGGAGGTGGGGAGTAGACTGGTGGTGGTGGGGACTTGT-ATTT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * * * *
18576011 ATAGGGAGGGGGTGGAGAATGGACTGGTGGGGGTGGAGATTTGTGA-AC
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * **
18576059 ATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGT-ATTT
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
* * * * *
18576107 GTAGGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC--
1 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-GACAT
* ** *
18576155 ATATGGTGG-GGATGAAGAGTGAACTGGTGGTGGTGGAGACTTGT-ACAT
1 ATATGGAGGAGG-TGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
*
18576203 GTATGGAGG
1 ATATGGAGG
18576212 TGATAGTGAT
Statistics
Matches: 1675, Mismatches: 328, Indels: 150
0.78 0.15 0.07
Matches are distributed among these distances:
46 12 0.01
47 14 0.01
48 1564 0.93
49 27 0.02
50 19 0.01
51 7 0.00
52 17 0.01
53 15 0.01
ACGTcount: A:0.21, C:0.05, G:0.49, T:0.25
Consensus pattern (49 bp):
ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTGACAT
Found at i:18574210 original size:96 final size:97
Alignment explanation
Indices: 18574063--18576199 Score: 1787
Period size: 96 Copynumber: 22.2 Consensus size: 97
18574053 ATAAGGTACA
* * * * *
18574063 GGTGGAGGTGGAGATTTATGGACATATGGAGGAGGTGGGGAGTGGATTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* * * *
18574128 GTGA-ATATAAGGAGGGGGTGGTGAATGAACT
66 GTGACATATATGGAGGAGGTGGGGAATGGACT
* * *
18574159 GGTGGTGGTGGAGACTTGTAGATATATGGTGGAGGTGGGGACTGGACTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* * * *
18574224 ATAGAC--ATATGGAGGAGGAGGAGAGTGGACT
66 GT-GACATATATGGAGGAGGTGGGGAATGGACT
* ** * * * * *
18574255 GGTGGTGGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGGGACTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* * * * * *
18574320 AT-AGATGTAGGGTGGAGGTGGTGAATGGA-T
66 GTGACATATATGGAGGAGGTGGGGAATGGACT
* * * * ** * * * * *
18574350 AGGTGGTGGAGGGGACTTATATATGTAAGGAGGAGGTGGAGAATGGACTGGAGGTGGTGGTGACT
1 -GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACT
* * * *
18574415 TGTG-GATATAAGGAGGGGGTGGTGAATGGACT
65 TGTGACATATATGGAGGAGGTGGGGAATGGACT
** * * * *
18574447 GGTGAAGGTGGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* **
18574512 GT-ACACATATGGAGGAGGTGGATAATGGACT
66 GTGACATATATGGAGGAGGTGGGGAATGGACT
* ** * * * * * * *
18574543 GGTGGTGGTGGAGACTTGTAAATGTAAGGAGGGGGCGGTGAATGGACTGGTGGTGGAGGGGACTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* * *
18574608 GT-ATATATATGGAGGGGGTGGTGAATGGACT
66 GTGACATATATGGAGGAGGTGGGGAATGGACT
* * *
18574639 GGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
*
18574704 GTAGAC--ATATGGAGGAGGTGGGGAGTGGACT
66 GT-GACATATATGGAGGAGGTGGGGAATGGACT
* * *
18574735 GGTGGTGGTAGG-GACTTGTAGACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGGGACT
1 GGTGGTGGT-GGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACT
* * * * * * *
18574799 TATG-GATGTAGGGTGGTGGTGGTGAATGGACT
65 TGTGACATATATGGAGGAGGTGGGGAATGGACT
* * *
18574831 GGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGGTGGGTGGGAGGGGG
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACT-GGT-GGT-GG-TGGAG
* * *
18574896 ACTTG-G-TATTTAGTGGAGGAGGGTGGGGAGTGGACT
62 ACTTGTGACATATA-TGGAGGA-GGTGGGGAATGGACT
* * **** * * * *
18574932 GGTGGTGGTGGGGACTTATATTTGTAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* *
18574997 GTAGAC--ATATGGTGGAGGTGGGGAGTGGACT
66 GT-GACATATATGGAGGAGGTGGGGAATGGACT
* * * * * * *
18575028 GGT-ATGGGTGGAGATTTGTGGACATATGGTGGAGGTAGGGAGTGGACTGGTGGAGGAGGAGACT
1 GGTGGT-GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACT
** * * *
18575092 TGT-ATTTGTAGGGAGGAGGTGGAGAATGGACT
65 TGTGACATATATGGAGGAGGTGGGGAATGGACT
* * * * *
18575124 GGTGGGGGTGGAGATTTATGGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
** * * *
18575189 GT-ATTTATAGGGAGGGGGTGGAGAATGGACT
66 GTGACATATATGGAGGAGGTGGGGAATGGACT
* * * * *
18575220 GGTGGGGGTGGAGATTTGT-GAACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGAGGAGATT
1 GGTGGTGGTGGAGACTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACT
* * *
18575284 TGTGTAC--ATAGGGAGGGGGTGGAGAATGGACT
65 TGTG-ACATATATGGAGGAGGTGGGGAATGGACT
* * * * * * *
18575316 GGTGGAGGTGGAGATTTGTGGACATATGGTGGAAGTGGGGAGTGGACTGGTGGGGGTGGAGATTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* *
18575381 GTGTACATA-A-GGAGGTGGTGGTGAATGGACT
66 GTG-ACATATATGGAGGAGGTGGGGAATGGACT
* * *
18575412 GGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* *
18575477 GTGTAC--ATATGGAGGAGGGGGGGAGTGGACT
66 GTG-ACATATATGGAGGAGGTGGGGAATGGACT
* * **** * * * *
18575508 GGTGGTGGTGGGGACTTATATTTGTAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* *
18575573 GTAGAC--ATATGGTGGAGGTGGGGAGTGGACT
66 GT-GACATATATGGAGGAGGTGGGGAATGGACT
* * * * * * *
18575604 GGT-ATGGGTGGAGATTTGTGGACATATGGTGGAGGTAGGGAGTGGACTGGTGGAGGAGGAGACT
1 GGTGGT-GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACT
** * * *
18575668 TGT-ATTTGTAGGGAGGAGGTGGAGAATGGACT
65 TGTGACATATATGGAGGAGGTGGGGAATGGACT
* * * * * * *
18575700 GGTGGGGGTGGAGATTTATGGACATATGGAGGAGGTGGGGAGTAGACTGGTGGTGGAGGGGACTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
** * * * *
18575765 GT-ATTTGTAAGGAGGTGGTGGTGAATGGACT
66 GTGACATATATGGAGGAGGTGGGGAATGGACT
* * *
18575796 GGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* *
18575861 GTGGAC--ATATGGTGGAGGTGGGGAGTGGACT
66 GT-GACATATATGGAGGAGGTGGGGAATGGACT
* * * * * * * * *
18575892 GGTGGAGGAGGAGATTTGTGGACATATGGTGGGGGTGGGGAGTGGACTTGTGGGGGTGGAGATTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* *
18575957 GTGTAC--ATATGGAGGAGGTGGGGAGTAGACT
66 GTG-ACATATATGGAGGAGGTGGGGAATGGACT
* *** * * * * * *
18575988 GGTGGTGGTGGGGACTTGTATTTATAGGGAGGGGGTGGAGAATGGACTGGTGGGGGTGGAGATTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* * *
18576053 GTGA-ACATATGGTGGAGGTGGGGAGTGGACT
66 GTGACATATATGGAGGAGGTGGGGAATGGACT
* * **** * * * *
18576084 GGTGGTGGAGGGGACTTGTATTTGTAGGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
* ** * *
18576149 GTAGAC--ATATGGTGG-GGATGAAGAGTGAACT
66 GT-GACATATATGGAGGAGG-TGGGGAATGGACT
18576180 GGTGGTGGTGGAGACTTGTA
1 GGTGGTGGTGGAGACTTGTA
18576200 CATGTATGGA
Statistics
Matches: 1700, Mismatches: 293, Indels: 96
0.81 0.14 0.05
Matches are distributed among these distances:
94 4 0.00
95 12 0.01
96 1570 0.92
97 27 0.02
98 11 0.01
99 11 0.01
100 15 0.01
101 50 0.03
ACGTcount: A:0.21, C:0.05, G:0.49, T:0.25
Consensus pattern (97 bp):
GGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTT
GTGACATATATGGAGGAGGTGGGGAATGGACT
Found at i:18574689 original size:21 final size:21
Alignment explanation
Indices: 18574665--18574748 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 21
18574655 TGTAGACATA
18574665 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* * *
18574686 TGGTGGGGGTGGAGATTTGTAGAC
1 TGGTGGAGGTGGGGA---GTGGAC
*
18574710 ATATGGAGGAGGTGGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
* *
18574734 TGGTGGTGGTAGGGA
1 TGGTGGAGGTGGGGA
18574749 CTTGTAGACA
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
21 25 0.53
24 10 0.21
27 12 0.26
ACGTcount: A:0.18, C:0.04, G:0.56, T:0.23
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:18575030 original size:21 final size:21
Alignment explanation
Indices: 18575006--18575083 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 21
18574996 TGTAGACATA
18575006 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* *
18575027 TGGTATG-GGTGGAGATTTGTGGAC
1 TGGT-GGAGGTGGGGA---GTGGAC
*
18575051 ATATGGTGGAGGTAGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
18575075 TGGTGGAGG
1 TGGTGGAGG
18575084 AGGAGACTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
21 20 0.45
22 1 0.02
24 12 0.27
26 1 0.02
27 10 0.23
ACGTcount: A:0.18, C:0.04, G:0.54, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:18575606 original size:21 final size:21
Alignment explanation
Indices: 18575582--18575659 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 21
18575572 TGTAGACATA
18575582 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* *
18575603 TGGTATG-GGTGGAGATTTGTGGAC
1 TGGT-GGAGGTGGGGA---GTGGAC
*
18575627 ATATGGTGGAGGTAGGGAGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
18575651 TGGTGGAGG
1 TGGTGGAGG
18575660 AGGAGACTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
21 20 0.45
22 1 0.02
24 12 0.27
26 1 0.02
27 10 0.23
ACGTcount: A:0.18, C:0.04, G:0.54, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:18575888 original size:24 final size:24
Alignment explanation
Indices: 18575816--18575982 Score: 109
Period size: 21 Copynumber: 7.0 Consensus size: 24
18575806 GAGACTTGTA
18575816 GACATATGGTGGAGGTGGGGAGTG
1 GACATATGGTGGAGGTGGGGAGTG
* *
18575840 GAC---TGGTGGGGGTGGAGATTTGTG
1 GACATATGGTGGAGGTGGGGA---GTG
18575864 GACATATGGTGGAGGTGGGGAGTG
1 GACATATGGTGGAGGTGGGGAGTG
* *
18575888 GAC---TGGTGGAGGAGGAGATTTGTG
1 GACATATGGTGGAGGTGGGGA---GTG
*
18575912 GACATATGGTGGGGGTGGGGAGTG
1 GACATATGGTGGAGGTGGGGAGTG
* *
18575936 GAC-T-T-GTGGGGGTGGAGATTTGTG
1 GACATATGGTGGAGGTGGGGA---GTG
* *
18575960 TACATATGGAGGAGGTGGGGAGT
1 GACATATGGTGGAGGTGGGGAGT
18575983 AGACTGGTGG
Statistics
Matches: 111, Mismatches: 14, Indels: 36
0.69 0.09 0.22
Matches are distributed among these distances:
21 38 0.34
22 1 0.01
23 1 0.01
24 34 0.31
25 1 0.01
26 1 0.01
27 35 0.32
ACGTcount: A:0.19, C:0.04, G:0.53, T:0.25
Consensus pattern (24 bp):
GACATATGGTGGAGGTGGGGAGTG
Found at i:18576235 original size:144 final size:144
Alignment explanation
Indices: 18574063--18576211 Score: 1871
Period size: 144 Copynumber: 14.9 Consensus size: 144
18574053 ATAAGGTACA
* * * *
18574063 GGTGGAGGTGGAGA-TT-TATGGACATATGGAGGAGGTGGGGAGTGGATTGGTGGTGGTGGAGAC
1 GGTGGTGGTGGAGACTTGTAT--ACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGAC
* * * * * *
18574126 TTGT-GA-ATATAAGGAGGGGGTGGTGAATGAACTGGTGGTGGTGGAGACTTGTAGATATATGGT
64 TTGTAGACATAT--GGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGA
*
18574189 GGAGGTGGGGACTGGACT
127 GGAGGTGGGGAGTGGACT
* * * * *
18574207 GGTGGTGGTGGAGACTTATAGACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
* ** * * * * * * * * * *
18574272 GTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGGGACTTATAGATGTAGGGTGGAG
66 GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGAGGAG
* *
18574337 GTGGTGAATGGA-T
131 GTGGGGAGTGGACT
* * * ** * * * *
18574350 AGGTGGTGGAGGGGACTTATATATGTAAGGAGGAGGTGGAGAATGGACTGGAGGTGGTGGTGACT
1 -GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACT
* * * * * * ** * ** *
18574415 TGTGGATATAAGGAGGGGGTGGTGAATGGACTGGTGAAGGTGGAGATTTGTGGACATATGGAGGA
65 TGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGAGGA
18574480 GGTGGGGAGTGGACT
130 GGTGGGGAGTGGACT
* * *
18574495 GGTGGTGGAGGGGACTTGTACACATATGGAGGAGGTGGAT-AATGGACTGGTGGTGGTGGAGACT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGG-TGAATGGACTGGTGGTGGTGGAGACT
* ** * * * * * * * * *
18574559 TGTAAATGTAAGGAGGGGGCGGTGAATGGACTGGTGGTGGAGGGGACTTGTATATATATGGAGGG
65 TGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGAGGA
* *
18574624 GGTGGTGAATGGACT
130 GGTGGGGAGTGGACT
* * * * * *
18574639 GGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
* *
18574704 GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTAGG-GACTTGTAGACATATGGAGGA
66 GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGT-GGAGACTTGTACATATATGGAGGA
* *
18574768 GGAGGAGAGTGGACT
130 GGTGGGGAGTGGACT
* * ** ** * * *
18574783 GGTGGTGGTGGGGACTTATGGATGTAGGGTGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
* * * *
18574848 GTAGACATATGGTGGAGGTGGGGAGTGGACTGGGTGGGTGGGAGGGGGACTTGGT--ATTTAGTG
66 GTAGACATATGGAGGAGGTGGGGAGTGGACT-GGT-GGT-GG-TGGAGACTT-GTACATATA-TG
18574911 GAGGAGGGTGGGGAGTGGACT
125 GAGGA-GGTGGGGAGTGGACT
* * *** * *
18574932 GGTGGTGGTGGGGACTTATATTTGTAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
* * * ** * *
18574997 GTAGACATATGGTGGAGGTGGGGAGTGGACTGGT-ATGGGTGGAGATTTGTGGACATATGGTGGA
66 GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT-GGTGGAGACTTGTACATATATGGAGGA
*
18575061 GGTAGGGAGTGGACT
130 GGTGGGGAGTGGACT
* * *** * * * *
18575076 GGTGGAGGAGGAGACTTGTATTTGTAGGGAGGAGGTGGAGAATGGACTGGTGGGGGTGGAGATTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
* * * ** * *
18575141 ATGGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTATTTATAGGGAGGGG
66 GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGAGGAG
* *
18575206 GTGGAGAATGGACT
131 GTGGGGAGTGGACT
* * * * * * *
18575220 GGTGGGGGTGGAGATTTGTGA-ACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGAGGAGATT
1 GGTGGTGGTGGAGACTTGT-ATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACT
* * * * * * ** * *
18575284 TGT-GTACATAGGGAGGGGGTGGAGAATGGACTGGTGGAGGTGGAGATTTGTGGACATATGGTGG
65 TGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGAGG
*
18575348 AAGTGGGGAGTGGACT
129 AGGTGGGGAGTGGACT
* * * * *
18575364 GGTGGGGGTGGAGATTTGTGTACATAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
* * * ** *
18575429 GTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGTACATATGGAGGAG
66 GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGAGGAG
*
18575494 GGGGGGAGTGGACT
131 GTGGGGAGTGGACT
* * *** * *
18575508 GGTGGTGGTGGGGACTTATATTTGTAAGGAGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
* * * ** * *
18575573 GTAGACATATGGTGGAGGTGGGGAGTGGACTGGT-ATGGGTGGAGATTTGTGGACATATGGTGGA
66 GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGT-GGTGGAGACTTGTACATATATGGAGGA
*
18575637 GGTAGGGAGTGGACT
130 GGTGGGGAGTGGACT
* * *** * * * *
18575652 GGTGGAGGAGGAGACTTGTATTTGTAGGGAGGAGGTGGAGAATGGACTGGTGGGGGTGGAGATTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
* * * * * ** * * *
18575717 ATGGACATATGGAGGAGGTGGGGAGTAGACTGGTGGTGGAGGGGACTTGTATTTGTAAGGAGGTG
66 GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGAGGAG
* *
18575782 GTGGTGAATGGACT
131 GTGGGGAGTGGACT
* * * * * *
18575796 GGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
* * * * * ** * * *
18575861 GTGGACATATGGTGGAGGTGGGGAGTGGACTGGTGGAGGAGGAGATTTGTGGACATATGGTGGGG
66 GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGAGGAG
18575926 GTGGGGAGTGGACT
131 GTGGGGAGTGGACT
* * * * * * * *
18575940 TGTGGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGGAGTAGACTGGTGGTGGTGGGGACTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
*** * * * * * * * *
18576005 GTATTTATAGGGAGGGGGTGGAGAATGGACTGGTGGGGGTGGAGATTTGTGA-ACATATGGTGGA
66 GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGT-ACATATATGGAGGA
18576069 GGTGGGGAGTGGACT
130 GGTGGGGAGTGGACT
* * *** * *
18576084 GGTGGTGGAGGGGACTTGTATTTGTAGGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
* ** * *
18576149 GTAGACATATGGTGG-GGATGAAGAGTGAACTGGTGGTGGTGGAGACTTGTACATGTATGGAGG
66 GTAGACATATGGAGGAGG-TGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGAGG
18576212 TGATAGTGAT
Statistics
Matches: 1668, Mismatches: 308, Indels: 58
0.82 0.15 0.03
Matches are distributed among these distances:
143 5 0.00
144 1496 0.90
145 25 0.01
146 14 0.01
147 7 0.00
148 15 0.01
149 106 0.06
ACGTcount: A:0.21, C:0.05, G:0.49, T:0.25
Consensus pattern (144 bp):
GGTGGTGGTGGAGACTTGTATACATATGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTT
GTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTACATATATGGAGGAG
GTGGGGAGTGGACT
Found at i:18582104 original size:40 final size:40
Alignment explanation
Indices: 18582049--18582145 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
18582039 NNNNNNNNNN
* * *
18582049 CAGGCTTAATGCCGGTGAAATATTTAGATTATACGTCTAG
1 CAGGCTTAATGCCGGTGAAATATTCAGACTATACATCTAG
*
18582089 CAGGCTTAATGCCGGTGGAATATTCAGACTATACATCTAG
1 CAGGCTTAATGCCGGTGAAATATTCAGACTATACATCTAG
*
18582129 CAGGCTTCATGCCGGTG
1 CAGGCTTAATGCCGGTG
18582146 TACGGAATCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (40 bp):
CAGGCTTAATGCCGGTGAAATATTCAGACTATACATCTAG
Found at i:18582427 original size:2 final size:2
Alignment explanation
Indices: 18582420--18582458 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
18582410 AACGAAGGCT
* *
18582420 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18582459 GGATGAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:18589403 original size:21 final size:21
Alignment explanation
Indices: 18589379--18589422 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
18589369 TATTAAGATA
18589379 AATAATATTTATATTTATGAT
1 AATAATATTTATATTTATGAT
* *
18589400 AATATTATTTATCTTTATGAT
1 AATAATATTTATATTTATGAT
18589421 AA
1 AA
18589423 GTATTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
AATAATATTTATATTTATGAT
Found at i:18590343 original size:32 final size:31
Alignment explanation
Indices: 18590284--18590356 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
18590274 TCTAAAAAGT
* *
18590284 TTAATTAATCAATTTTAGTTATCAAATTAAA
1 TTAATTAATTAATTTGAGTTATCAAATTAAA
*
18590315 TTAATTAATTAATCTTGAGTTATTAAATTAAA
1 TTAATTAATTAAT-TTGAGTTATCAAATTAAA
* *
18590347 ATAATCAATT
1 TTAATTAATT
18590357 TATAAGTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 12 0.33
32 24 0.67
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (31 bp):
TTAATTAATTAATTTGAGTTATCAAATTAAA
Found at i:18593538 original size:4 final size:4
Alignment explanation
Indices: 18593529--18593583 Score: 53
Period size: 4 Copynumber: 14.0 Consensus size: 4
18593519 CCTGTCTAGG
**
18593529 TTAT TTAT TT-T TATAT ATTAT TTAT TTAT TTAT TTA- TTAT TTCC TT-T
1 TTAT TTAT TTAT T-TAT -TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
18593576 TTAT TTAT
1 TTAT TTAT
18593584 AATTGGTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
3 7 0.16
4 31 0.72
5 4 0.09
6 1 0.02
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:18593772 original size:6 final size:6
Alignment explanation
Indices: 18593731--18593773 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
18593721 ACTTGCACAT
** * *
18593731 TTATTG TTCGTG TTATTA TTATTA TTATTG TTATTG TTATTG T
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG T
18593774 GCGTTCATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.19, C:0.02, G:0.14, T:0.65
Consensus pattern (6 bp):
TTATTG
Found at i:18598932 original size:23 final size:22
Alignment explanation
Indices: 18598875--18598919 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
18598865 AATATTCAAG
*
18598875 TAAAAATATTTTTGCATATTGC
1 TAAAAAGATTTTTGCATATTGC
18598897 TAAAAAGATTTTTGCATATTGC
1 TAAAAAGATTTTTGCATATTGC
18598919 T
1 T
18598920 CTGAAAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (22 bp):
TAAAAAGATTTTTGCATATTGC
Found at i:18599474 original size:45 final size:44
Alignment explanation
Indices: 18599368--18600001 Score: 377
Period size: 44 Copynumber: 13.9 Consensus size: 44
18599358 CATCGTGGCG
** * **
18599368 AATCTTATCTCCTTGAAGTTATAGTGGAGCAGATTAAAGCCA-C-
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* *
18599411 AATCTTATCTCCTTAAAGTTACAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * * **
18599456 AATCTTATCTCTCTAAAGTTGTAATAGAGCAGATTAAACCTA-CA
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * **
18599500 AATATTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATAGTG
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* *
18599545 AATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTGAA-ACTA-CA
1 AATCTTATC-TCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCA
* * * * **
18599589 AATCTTATCTACATAAAGTTACAGTGAAGCAGATTGAAGATAGTG
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * *
18599634 AATCTTATCTCCCTAAAGTTGCAGTGGAACATATTGAAGATAGCA
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * *
18599679 AATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATA
1 AATCTTA-TCTCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG---CA
* *
18599730 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGAT-GCA
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * *
18599774 AATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTTAAAGCCACA
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAG---ATAG---CA
* * * *
18599825 AATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAATAT-GCG
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * * * *
18599869 AATCTTATTTCCCTGAAGTTGTACTAGAACAGATTAAAGCTACAAGCCACA
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG---CA
* * * *
18599920 AACCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCTA-CA
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* *
18599964 AATCTTAT-TCCCTGAAGTTCCAGTGGAACAGATTGAAG
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAG
18600002 CTACAAGTTA
Statistics
Matches: 459, Mismatches: 98, Indels: 68
0.73 0.16 0.11
Matches are distributed among these distances:
43 63 0.14
44 144 0.31
45 135 0.29
46 6 0.01
47 4 0.01
48 6 0.01
49 1 0.00
50 3 0.01
51 97 0.21
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
Found at i:18599536 original size:89 final size:89
Alignment explanation
Indices: 18599367--18599654 Score: 359
Period size: 89 Copynumber: 3.2 Consensus size: 89
18599357 TCATCGTGGC
* * *
18599367 GAATCTTATCTC-CTTGAAGTTATAGTGGAGCAGATTAAAGCC-AC-AATCTTATCTCCTTAAAG
1 GAATCTTATCTCTC-TAAAGTTGTAGTAGAGCAGATTAAA-CCTACAAATCTTATCTCCTTAAAG
*
18599429 TTACAGTGGAGCAGATTGAAGATAGC
64 TTACAGTGGAGCAGATTGAAGATAGT
* * * *
18599455 AAATCTTATCTCTCTAAAGTTGTAATAGAGCAGATTAAACCTACAAATATTATCTCCTTGAAGTT
1 GAATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAAACCTACAAATCTTATCTCCTTAAAGTT
** *
18599520 GTAGTGGAGCAAATTGAAGATAGT
66 ACAGTGGAGCAGATTGAAGATAGT
* * * * *
18599544 GAATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTGAAA-CTACAAATCTTATCTACATAAAGT
1 GAATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATT-AAACCTACAAATCTTATCTCCTTAAAGT
*
18599608 TACAGTGAAGCAGATTGAAGATAGT
65 TACAGTGGAGCAGATTGAAGATAGT
*
18599633 GAATCTTATCTCCCTAAAGTTG
1 GAATCTTATCTCTCTAAAGTTG
18599655 CAGTGGAACA
Statistics
Matches: 169, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
87 2 0.01
88 34 0.20
89 130 0.77
90 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (89 bp):
GAATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAAACCTACAAATCTTATCTCCTTAAAGTT
ACAGTGGAGCAGATTGAAGATAGT
Found at i:18599581 original size:134 final size:133
Alignment explanation
Indices: 18599372--18599723 Score: 324
Period size: 134 Copynumber: 2.6 Consensus size: 133
18599362 GTGGCGAATC
* * * ** * * * *
18599372 TTATCTCCTTGAAGTTATAGTGGAGCAGATTAAAGCCA-CAATCTTATC-TCCTTAAAGTTACAG
1 TTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATAGAAATCTTATCTTTC-TGAAGTTGCAG
* ** *
18599435 TGGAGCAGATTGAAGA-TAGCAAATCTTATCT-CTCTAAAGTTGTAAT-AGAGCAGATTAAACCT
65 TGGAGCAGATTGAA-ACTA-CAAATCTTATCTAC-ATAAAGTTACAATGA-AGCAGATTAAACAT
18599497 A-CAAATA
126 AGCAAATA
*
18599504 TTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATAGTGAATCTTATCTTTCTGAAGTTGCAG
1 TTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATAG-AAATCTTATCTTTCTGAAGTTGCAG
* * * * **
18599569 TAGAGCAGATTGAAACTACAAATCTTATCTACATAAAGTTACAGTGAAGCAGATTGAAGATAGTG
65 TGGAGCAGATTGAAACTACAAATCTTATCTACATAAAGTTACAATGAAGCAGATTAAACATAGCA
*
18599634 AATC
130 AATA
* * * * *
18599638 TTATCTCCCTAAAGTTGCAGTGGAACATATTGAAGATAGCAAATCTTAT-TTTCCTGAAGTTGCA
1 TTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATAG-AAATCTTATCTTT-CTGAAGTTGCA
*
18599702 GTGGAACAGATT-AAAGCTACAA
64 GTGGAGCAGATTGAAA-CTACAA
18599724 GTTATAAATC
Statistics
Matches: 182, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
132 33 0.18
133 40 0.22
134 107 0.59
135 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (133 bp):
TTATCTCCTTGAAGTTGTAGTGGAGCAAATTGAAGATAGAAATCTTATCTTTCTGAAGTTGCAGT
GGAGCAGATTGAAACTACAAATCTTATCTACATAAAGTTACAATGAAGCAGATTAAACATAGCAA
ATA
Found at i:18599763 original size:51 final size:50
Alignment explanation
Indices: 18599634--18600058 Score: 265
Period size: 51 Copynumber: 8.9 Consensus size: 50
18599624 GAAGATAGTG
* * * * *
18599634 AATCTTATCTCCCTAAAGTTGCAGTGGAACATATTGAAG--A-TAG--CA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAGTACA
* * * *
18599679 AATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAG-TACA
* * *
18599730 AATCTTATCTCCCTGAAGTTGTAGT-GAAGCAGATTGAAG-----A-TGCA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAA-CAGATTAAAGCTACAAGTACA
* *
18599774 AATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTTA-AAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGC-TACAAG-TACA
* * * * * * *
18599825 AATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAA--T---A-TGCG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAGTACA
* * * *
18599869 AATCTTATTTCCCTGAAGTTGTACTAGAACAGATTAAAGCTACAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAG-TACA
* * *
18599920 AACCTTATCTCTCTGAAGTTGCAGTGGAGA-AGATTAAAG---C---TACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGA-ACAGATTAAAGCTACAAGTACA
* * *
18599964 AATCTTAT-TCCCTGAAGTTCCAGTGGAACAGATTGAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAG-TACA
* * * * * *
18600014 AGTCTTATCTCCCTAAAGTTGCAGTGGAAAAGATTGAAGCAACAA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAA
18600059 TCCTATACAT
Statistics
Matches: 295, Mismatches: 53, Indels: 58
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 25 0.08
44 76 0.26
45 37 0.13
46 4 0.01
47 1 0.00
48 4 0.01
49 2 0.01
50 14 0.05
51 130 0.44
52 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (50 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAGTACA
Found at i:18599804 original size:95 final size:95
Alignment explanation
Indices: 18599634--18600052 Score: 504
Period size: 95 Copynumber: 4.4 Consensus size: 95
18599624 GAAGATAGTG
* * *
18599634 AATCTTATCTCCCTAAAGTTGCAGTGGAA-CATATTGAAGATAGCAAATCTTATTTTCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGAT-GCAAATCTTATTTCCCTGAAGT
* ** *
18599698 TGCAGTGGAACAGATTAAAGCTACAAGTTATA
64 TGCAGTAGAACAGATTAAAGCTACAAGCCACA
*
18599730 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
18599795 CAGTAGAACAGATTAAAGCTTA-AAGCCACA
66 CAGTAGAACAGATTAAAGC-TACAAGCCACA
* * * * *
18599825 AATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAATATGCGAATCTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
* *
18599890 TACTAGAACAGATTAAAGCTACAAGCCACA
66 CAGTAGAACAGATTAAAGCTACAAGCCACA
* * * * * * * *
18599920 AACCTTATCTCTCTGAAGTTGCAGTGGAGAAGATTAAAGCTACAAATCTTA-TTCCCTGAAGTTC
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
* * **
18599984 CAGTGGAACAGATTGAAGCTACAAGTTACA
66 CAGTAGAACAGATTAAAGCTACAAGCCACA
* * *
18600014 AGTCTTATCTCCCTAAAGTTGCAGTGGAA-AAGATTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAG
18600053 CAACAATCCT
Statistics
Matches: 280, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
94 68 0.24
95 176 0.63
96 36 0.13
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (95 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCAAATCTTATTTCCCTGAAGTTG
CAGTAGAACAGATTAAAGCTACAAGCCACA
Found at i:18599988 original size:43 final size:44
Alignment explanation
Indices: 18599912--18600007 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 44
18599902 TTAAAGCTAC
* * *
18599912 AAGCCACAAACCTTATCTCTCTGAAGTTGCAGTGGAGA-AGATTA
1 AAGCTACAAACCTTATCTCCCTGAAGTTCCAGTGGA-ACAGATTA
* *
18599956 AAGCTACAAATCTTAT-TCCCTGAAGTTCCAGTGGAACAGATTG
1 AAGCTACAAACCTTATCTCCCTGAAGTTCCAGTGGAACAGATTA
18599999 AAGCTACAA
1 AAGCTACAA
18600008 GTTACAAGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 1 0.02
43 31 0.67
44 14 0.30
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (44 bp):
AAGCTACAAACCTTATCTCCCTGAAGTTCCAGTGGAACAGATTA
Found at i:18601811 original size:14 final size:15
Alignment explanation
Indices: 18601761--18601815 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
18601751 TTGTTCGTGT
*
18601761 TATTATTATTATACG
1 TATTATTATTATGCG
*
18601776 TTCATATTTTATTATGCG
1 -T-AT-TATTATTATGCG
18601794 TATTATTATTATGC-
1 TATTATTATTATGCG
18601808 TATTATTA
1 TATTATTA
18601816 CTACAAATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.24
15 10 0.29
16 3 0.09
17 3 0.09
18 10 0.29
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (15 bp):
TATTATTATTATGCG
Found at i:18603921 original size:26 final size:26
Alignment explanation
Indices: 18603879--18603930 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
18603869 CTGACTCTCA
*
18603879 GAATGAACCCGAAGACTTTACTGATG
1 GAATGAACCCGAAGACTTCACTGATG
* *
18603905 GAATGAACTCGAGGACTTCACTGATG
1 GAATGAACCCGAAGACTTCACTGATG
18603931 ATGCCCCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (26 bp):
GAATGAACCCGAAGACTTCACTGATG
Found at i:18606080 original size:30 final size:30
Alignment explanation
Indices: 18606044--18606101 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
18606034 TTGGGCATTT
* * *
18606044 CCACACGGGCTGGCCACACGCCCGTGTGAG
1 CCACACGAGCTGGCCACACACCCATGTGAG
18606074 CCACACGAGCTGGCCACACACCCATGTG
1 CCACACGAGCTGGCCACACACCCATGTG
18606102 CCAACCCGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.41, G:0.28, T:0.10
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACACCCATGTGAG
Found at i:18613427 original size:45 final size:45
Alignment explanation
Indices: 18613319--18614356 Score: 449
Period size: 44 Copynumber: 23.2 Consensus size: 45
18613309 GAGAACAGAC
* * * * * *
18613319 TTGTAGCTTCGAT-CTACTCCGCTACAACTTCAAGGAGATAAGAAT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAG-GT
* * * * *
18613364 TGGTA-ATTTCAACCTGCTCCACTGCAATTTCAGGGAGATAAGGT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
** * * *
18613408 TTGTATTTTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGGA
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * * * * * * *
18613453 TTGTGGCTTCGAT-CTACTCCAATGTAATTTTAGGGAGA-AGAGAT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATA-AGGT
** ** * * * *
18613497 TTGTAGCTTCAAT-CTATTTCGCTAG-AACTTCAAGGAGATAAGAAT
1 TTGTAGCTTTGATCCTGCTCCACT-GCAACTTCAGGGAGATAAG-GT
* * * * *
18613542 TGGTAAC-TTCAACCTGCTCCACTGCAACTTCATGGAGATAAGGT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * * * *
18613586 TTGT-GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGGTAAGGA
1 TTGTAG--CTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * * ** * *
18613632 TTGTGGCTTCGAT-CTGCTCCAATATAATTTCAGGGAGA-AGAGAT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATA-AGGT
** * * * *
18613676 TTGTAGCTTCAAT-CTACTCCGCTGCAACTTCAAGGAGATAAGAAT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAG-GT
* * * * *
18613721 TGGTAAC-TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * *
18613765 TTGT-GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGA
1 TTGTAG--CTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * * * * *
18613811 TTGTGGCTTCGAT-CTGCTCCAATGTAATTTCAGGGAGA-AGAGAT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATA-AGGT
* * * * * * *
18613855 TTGCAGCTTCGAT-CTACTCCTCTGGAACTTCAAGGAGATAAGAAT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAG-GT
* * * * *
18613900 TGGTAAC-TTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * * *
18613944 TTGT-GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGA
1 TTGTAG--CTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * * * * * * *
18613990 TTGTGGCTTCGAT-CTTCTCCAATGTAATTTTAGGGAGA-AGAGAT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATA-AGGT
* * * * * * * *
18614034 TTGAAGCTTCGAT-TTACTCTACTGGAACTTCAAGGAGATAAGAAT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAG-GT
* * * * *
18614079 TGGTAAG--TTCAACCTGCTCTACTGTAACTTCAGGGAGATAAGGT
1 TTGT-AGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * * * *
18614123 TTGT-GTATTTTTATCCTGCTCCACTACAACCTCAGGGAGATAAGGA
1 TTGTAG--CTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * * * * * * * *
18614169 TTATGGCTTCGAT-CTGCTCCAATGTAATTTCAAGGAGATGAGAT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * * * * * *
18614213 TTGTAGCTTCGAT-CTACTTCGCTGGAACTTCAAGGAGATAAGAAT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAG-GT
* * * * *
18614258 TGGTAAC-TTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGT
1 TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* * * *
18614302 TTGT-GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGA
1 TTGTAG--CTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
*
18614348 TTGTGGCTT
1 TTGTAGCTT
18614357 CACCGATCTG
Statistics
Matches: 742, Mismatches: 207, Indels: 88
0.72 0.20 0.08
Matches are distributed among these distances:
42 1 0.00
43 4 0.01
44 305 0.41
45 246 0.33
46 181 0.24
47 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (45 bp):
TTGTAGCTTTGATCCTGCTCCACTGCAACTTCAGGGAGATAAGGT
Found at i:18613490 original size:44 final size:44
Alignment explanation
Indices: 18613319--18614358 Score: 549
Period size: 45 Copynumber: 23.2 Consensus size: 44
18613309 GAGAACAGAC
* * * * * * *
18613319 TTGTAGCTTCGATCTACTCCGCTACAACTTCAAGGAGATAAGAA
1 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
*** * * *
18613363 TTGGTAATTTCAACCTGCTCCACTGCAATTTCAGGGAGATAAGGT
1 TT-GTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
*** **
18613408 TTGTATTTTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGGA
1 TTGTGGCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGGA
* * * * * *
18613453 TTGTGGCTTCGATCTACTCCAATGTAATTTTAGGGAG--AAGAGA
1 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-GA
* ** * * * *
18613496 TTTGTAGCTTCAATCTATTTCGCTAG-AACTTCAAGGAGATAAGAA
1 -TTGTGGCTTCAATCTGCTCCACT-GCAACTTCAGGGAGATAAGGA
** * * *
18613541 TTGGTAACTTCAACCTGCTCCACTGCAACTTCATGGAGATAAGGT
1 TT-GTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
** ** * *
18613586 TTGTGTATTTTTATCCTGCTCCACTACAACTTCAGGGAGGTAAGGA
1 TTGTG-GCTTCAAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGA
* * ** *
18613632 TTGTGGCTTCGATCTGCTCCAATATAATTTCAGGGAG--AAGAGA
1 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-GA
* * * * *
18613675 TTTGTAGCTTCAATCTACTCCGCTGCAACTTCAAGGAGATAAGAA
1 -TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
** * * *
18613720 TTGGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGT
1 TT-GTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
** **
18613765 TTGTGTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGA
1 TTGTG-GCTTCAAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGA
* * * *
18613811 TTGTGGCTTCGATCTGCTCCAATGTAATTTCAGGGAG--AAGAGA
1 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-GA
* * * * * *
18613854 TT-TGCAGCTTCGATCTACTCCTCTGGAACTTCAAGGAGATAAGAA
1 TTGTG--GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
** * * *
18613899 TTGGTAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGT
1 TT-GTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
** ** *
18613944 TTGTGTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGA
1 TTGTG-GCTTCAAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGA
* * * * * *
18613990 TTGTGGCTTCGATCTTCTCCAATGTAATTTTAGGGAG--AAGAGA
1 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-GA
* * * * * * *
18614033 TT-TGAAGCTTCGATTTACTCTACTGGAACTTCAAGGAGATAAGAA
1 TTGTG--GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
* * * * *
18614078 TTGGTAAG-TTCAACCTGCTCTACTGTAACTTCAGGGAGATAAGGT
1 TT-GT-GGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
** ** * *
18614123 TTGTGTATTTTTATCCTGCTCCACTACAACCTCAGGGAGATAAGGA
1 TTGTG-GCTTCAAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGA
* * * * * * *
18614169 TTATGGCTTCGATCTGCTCCAATGTAATTTCAAGGAGATGA-GA
1 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
* * * * * * * *
18614212 TTTGTAGCTTCGATCTACTTCGCTGGAACTTCAAGGAGATAAGAA
1 -TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
** * * *
18614257 TTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGT
1 TT-GTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
** ** *
18614302 TTGTGTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGA
1 TTGTG-GCTTCAAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGA
18614348 TTGTGGCTTCA
1 TTGTGGCTTCA
18614359 CCGATCTGTT
Statistics
Matches: 756, Mismatches: 197, Indels: 85
0.73 0.19 0.08
Matches are distributed among these distances:
42 16 0.02
43 14 0.02
44 262 0.35
45 285 0.38
46 177 0.23
47 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (44 bp):
TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGA
Found at i:18613675 original size:179 final size:179
Alignment explanation
Indices: 18613282--18614357 Score: 1758
Period size: 179 Copynumber: 6.0 Consensus size: 179
18613272 GAATTCGTGT
* * * * * **
18613282 TTCGATCCGCTCTAATGTAATTTTAGGGAGAACAGACTTGTAGCTTCGATCTACTCCGCTACAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* *
18613347 TTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAATTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
* * *
18613412 AT-TTTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGC
* * * * * *
18613460 TTCGATCTACTCCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCAATCTATTTCGCTAGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
18613525 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCATGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
*
18613590 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGGTAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGC
* * *
18613639 TTCGATCTGCTCCAATATAATTTCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCCGCTGCAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
18613704 TTCAAGGAGATAAGAATTGGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
*
18613769 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGC
* *
18613818 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGCAGCTTCGATCTACTCCTCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
18613883 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
18613948 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGC
* * * * **
18613997 TTCGATCTTCTCCAATGTAATTTTAGGGAGAAGAGATTTGAAGCTTCGATTTACTCTACTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * *
18614062 TTCAAGGAGATAAGAATTGGTAAGTTCAACCTGCTCTACTGTAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
* *
18614127 GTATTTTTATCCTGCTCCACTACAACCTCAGGGAGATAAGGATTATGGC
131 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGC
* * *
18614176 TTCGATCTGCTCCAATGTAATTTCAAGGAGATGAGATTTGTAGCTTCGATCTACTTCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
18614241 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
18614306 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGC
18614355 TTC
1 TTC
18614358 ACCGATCTGT
Statistics
Matches: 835, Mismatches: 62, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
178 119 0.14
179 716 0.86
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (179 bp):
TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
GTATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGC
Found at i:18615224 original size:16 final size:16
Alignment explanation
Indices: 18615183--18615224 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 16
18615173 TGGCCTCTCT
18615183 TTTTTCTTTTTCTTTTA
1 TTTTT-TTTTTCTTTTA
18615200 TTTTCTTTTTTCTTTTCA
1 TTTT-TTTTTTCTTTT-A
18615218 TTTTTTT
1 TTTTTTT
18615225 AAAGTGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTTCTTTTA
Found at i:18621929 original size:43 final size:42
Alignment explanation
Indices: 18621862--18621991 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 42
18621852 CATAGGATTT
* *
18621862 TCGAGATGTGTTATCGTGTAAGACCACGTATGGGACGTTGGCA
1 TCGATATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCA
18621905 TCGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGA-TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
*
18621948 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
18621991 T
1 T
18621992 TGTACGAGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
42 3 0.04
43 68 0.89
44 5 0.07
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (42 bp):
TCGATATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:18624076 original size:19 final size:19
Alignment explanation
Indices: 18624052--18624091 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
18624042 TCTGGTTTCG
18624052 TTCTCCCGTTCGTTCTCCC
1 TTCTCCCGTTCGTTCTCCC
*
18624071 TTCTCCCTTTCGTTCTCCC
1 TTCTCCCGTTCGTTCTCCC
18624090 TT
1 TT
18624092 GATTTGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.45, G:0.07, T:0.47
Consensus pattern (19 bp):
TTCTCCCGTTCGTTCTCCC
Found at i:18625794 original size:18 final size:18
Alignment explanation
Indices: 18625771--18625809 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
18625761 TTTACCAACT
18625771 TTATGGATAATAATTTAA
1 TTATGGATAATAATTTAA
18625789 TTATGGATAATAATTTAA
1 TTATGGATAATAATTTAA
18625807 TTA
1 TTA
18625810 AAGATACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (18 bp):
TTATGGATAATAATTTAA
Found at i:18625815 original size:18 final size:18
Alignment explanation
Indices: 18625776--18625815 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
18625766 CAACTTTATG
**
18625776 GATAATAATTTAATTATG
1 GATAATAATTTAATTAAA
18625794 GATAATAATTTAATTAAA
1 GATAATAATTTAATTAAA
18625812 GATA
1 GATA
18625816 CAACATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
GATAATAATTTAATTAAA
Found at i:18626405 original size:32 final size:33
Alignment explanation
Indices: 18626369--18626444 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
18626359 AACTTTTCCG
** *
18626369 GAAAATATTTT-CA-AGAAATCTGTCAAACAGCA
1 GAAAATATTTTACACAG-AATCAATCAAACACCA
*
18626401 GAAAATATTTTACACAGATTCAATCAAACACCA
1 GAAAATATTTTACACAGAATCAATCAAACACCA
18626434 GAAAATATTTT
1 GAAAATATTTT
18626445 TCAGTAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 11 0.29
33 25 0.66
34 2 0.05
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (33 bp):
GAAAATATTTTACACAGAATCAATCAAACACCA
Found at i:18633319 original size:30 final size:30
Alignment explanation
Indices: 18633269--18633355 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 30
18633259 ACCTACAGGG
* * * *
18633269 GTCGCCTGGCCATGTGTCACACACGACCGT
1 GTCGCCTAGCCGTATGTCACACACGACCAT
* * *
18633299 GTCTCCTAGTCGTATGTCACACATGACCAT
1 GTCGCCTAGCCGTATGTCACACACGACCAT
* *
18633329 GTCGCCTGGCCGTGTGTCACACACGAC
1 GTCGCCTAGCCGTATGTCACACACGAC
18633356 TGAGACACAT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.18, C:0.34, G:0.24, T:0.23
Consensus pattern (30 bp):
GTCGCCTAGCCGTATGTCACACACGACCAT
Found at i:18636312 original size:16 final size:16
Alignment explanation
Indices: 18636287--18636324 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18636277 GAAAACGAAG
*
18636287 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
18636302 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
18636318 TAAATTT
1 TAAATTT
18636325 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:18636339 original size:13 final size:13
Alignment explanation
Indices: 18636321--18636348 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18636311 ATACAAATAA
18636321 ATTTAGAAAACTT
1 ATTTAGAAAACTT
18636334 ATTTAGAAAACTT
1 ATTTAGAAAACTT
18636347 AT
1 AT
18636349 AAATTTAGAA
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:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:18636352 original size:61 final size:60
Alignment explanation
Indices: 18636207--18636355 Score: 165
Period size: 62 Copynumber: 2.5 Consensus size: 60
18636197 CTGCCCATGT
* * * * ***
18636207 AACTTATGTAGAAAACTTATAAAATTAATACACATAAATTTATTTCTCCCAAATTTAGAA
1 AACTTATTTAGAAAACTTATAAATTTAATACACATAAATTTAATACAAACAAATTTAGAA
* ** *
18636267 CACTTATTTAGAAAACGAAGTAAATTTAATACTA-ATAAATTTTAATACAAATAAATTTAGAA
1 AACTTATTTAGAAAACTTA-TAAATTTAATAC-ACATAAA-TTTAATACAAACAAATTTAGAA
18636329 AACTTATTTAGAAAACTTATAAATTTA
1 AACTTATTTAGAAAACTTATAAATTTA
18636356 GAAAACTTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
60 15 0.21
61 24 0.33
62 33 0.46
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (60 bp):
AACTTATTTAGAAAACTTATAAATTTAATACACATAAATTTAATACAAACAAATTTAGAA
Found at i:18636356 original size:17 final size:17
Alignment explanation
Indices: 18636317--18636366 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
18636307 TTTAATACAA
18636317 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
18636333 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
18636347 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
18636364 ATA
1 ATA
18636367 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:18637404 original size:27 final size:29
Alignment explanation
Indices: 18637350--18637404 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
18637340 TAATTATCAC
*
18637350 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
18637380 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
18637405 TCAGAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:18637459 original size:9 final size:9
Alignment explanation
Indices: 18637445--18637475 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
18637435 AGTAACAGTT
18637445 ACAGGAAGC
1 ACAGGAAGC
18637454 ACAGGAAGC
1 ACAGGAAGC
18637463 ACAGGAAGC
1 ACAGGAAGC
18637472 ACAG
1 ACAG
18637476 TTACAGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.32, T:0.00
Consensus pattern (9 bp):
ACAGGAAGC
Found at i:18639562 original size:23 final size:24
Alignment explanation
Indices: 18639531--18639586 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
18639521 GATGGAAGGC
*
18639531 ATTTTATTTGCTAT-TAAAAATTA
1 ATTTAATTTGCTATCTAAAAATTA
* *
18639554 ATTTAATTTTGGTATCTAAAAATTT
1 ATTTAA-TTTGCTATCTAAAAATTA
*
18639579 ATATAATT
1 ATTTAATT
18639587 CTATTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.19
24 9 0.33
25 13 0.48
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (24 bp):
ATTTAATTTGCTATCTAAAAATTA
Found at i:18639577 original size:25 final size:24
Alignment explanation
Indices: 18639537--18639586 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
18639527 AGGCATTTTA
*
18639537 TTTGCTATTAAAAATTAATTTAAT
1 TTTGCTATTAAAAATTAATATAAT
* *
18639561 TTTGGTATCTAAAAATTTATATAAT
1 TTTGCTAT-TAAAAATTAATATAAT
18639586 T
1 T
18639587 CTATTATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (24 bp):
TTTGCTATTAAAAATTAATATAAT
Found at i:18639885 original size:7 final size:7
Alignment explanation
Indices: 18639861--18639922 Score: 65
Period size: 7 Copynumber: 8.7 Consensus size: 7
18639851 ATTAACTATA
18639861 AACCCCT
1 AACCCCT
*
18639868 AAACCCAT
1 -AACCCCT
18639876 AACCCCT
1 AACCCCT
18639883 AACCCCT
1 AACCCCT
18639890 AA-CCCT
1 AACCCCT
*
18639896 AAACCCAT
1 -AACCCCT
18639904 AACCCCTT
1 AACCCC-T
18639912 AACCCC-
1 AACCCCT
18639918 AACCC
1 AACCC
18639923 TTAAACCATA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
6 9 0.19
7 22 0.47
8 16 0.34
ACGTcount: A:0.35, C:0.52, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCCT
Found at i:18639892 original size:14 final size:15
Alignment explanation
Indices: 18639861--18639933 Score: 82
Period size: 14 Copynumber: 5.1 Consensus size: 15
18639851 ATTAACTATA
18639861 AACCCCTAAACCCAT
1 AACCCCTAAACCCAT
*
18639876 AACCCCT-AACCCCT
1 AACCCCTAAACCCAT
18639890 AA-CCCTAAACCCAT
1 AACCCCTAAACCCAT
* *
18639904 AACCCCTTAACCC-C
1 AACCCCTAAACCCAT
*
18639918 AACCCTTAAA-CCAT
1 AACCCCTAAACCCAT
18639932 AA
1 AA
18639934 TCCATAAGCC
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
13 6 0.12
14 26 0.54
15 16 0.33
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (15 bp):
AACCCCTAAACCCAT
Found at i:18639900 original size:28 final size:28
Alignment explanation
Indices: 18639864--18639933 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
18639854 AACTATAAAC
18639864 CCCTAAACCCATAACCCC-TAACCCCTAA
1 CCCTAAACCCATAACCCCTTAACCCC-AA
18639892 CCCTAAACCCATAACCCCTTAACCCCAA
1 CCCTAAACCCATAACCCCTTAACCCCAA
18639920 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
18639934 TCCATAAGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 29 0.73
29 11 0.28
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (28 bp):
CCCTAAACCCATAACCCCTTAACCCCAA
Found at i:18639922 original size:21 final size:20
Alignment explanation
Indices: 18639861--18639916 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 20
18639851 ATTAACTATA
*
18639861 AACCCCTAAACCCATAACCCCT
1 AACCCCT-AACCC-TAAACCCT
18639883 AACCCCTAACCCTAAACCCAT
1 AACCCCTAACCCTAAACCC-T
18639904 AACCCCTTAACCC
1 AACCCC-TAACCC
18639917 CAACCCTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 6 0.19
21 12 0.39
22 13 0.42
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (20 bp):
AACCCCTAACCCTAAACCCT
Found at i:18646287 original size:14 final size:13
Alignment explanation
Indices: 18646267--18646300 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
18646257 TCAGGGGAAG
*
18646267 AAGAAAAAATAAA
1 AAGAAAAAAGAAA
18646280 AGAGAAAAAAGAAA
1 A-AGAAAAAAGAAA
18646294 AAGAAAA
1 AAGAAAA
18646301 GGAAATCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:18648357 original size:5 final size:5
Alignment explanation
Indices: 18648347--18648381 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
18648337 TTTATTTCTA
*
18648347 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTT TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
18648382 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:18661104 original size:10 final size:10
Alignment explanation
Indices: 18661091--18661126 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
18661081 AATTTTTTGA
18661091 ATTTTTAAAG
1 ATTTTTAAAG
18661101 ATTTTTAAAG
1 ATTTTTAAAG
*
18661111 ATTGTTAAAG
1 ATTTTTAAAG
18661121 ATTTTT
1 ATTTTT
18661127 TTTATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (10 bp):
ATTTTTAAAG
Found at i:18661849 original size:22 final size:22
Alignment explanation
Indices: 18661824--18661865 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18661814 AAATGACAGC
*
18661824 AAAACAACTAGAAAACAATATG
1 AAAACAACAAGAAAACAATATG
* *
18661846 AAAATAGCAAGAAAACAATA
1 AAAACAACAAGAAAACAATA
18661866 GACTTTTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.12, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAACAACAAGAAAACAATATG
Found at i:18662783 original size:292 final size:292
Alignment explanation
Indices: 18662253--18662817 Score: 1094
Period size: 292 Copynumber: 1.9 Consensus size: 292
18662243 TTTTTAAATA
18662253 AATTCACTGGTGTGACATATCAAAAATAAAAAATGTTACTCAATTGGTAGCTTGAATCAAAAAAG
1 AATTCACTGGTGTGACATATCAAAAATAAAAAATGTTACTCAATTGGTAGCTTGAATCAAAAAAG
*
18662318 AAGAAGACATTATAATAGATTTGAATTTAACAGAGAATTTTAACAGTACGGACAATTCTTAAAAA
66 AAGAAGACATTACAATAGATTTGAATTTAACAGAGAATTTTAACAGTACGGACAATTCTTAAAAA
*
18662383 AATTACGTCTATATTTTAATCAAAATAAAGTATTTAGACTAATTAATGATATTAAATAAGTTGAA
131 AATTACGTCTATATTTTAATCAAAATAAAGTACTTAGACTAATTAATGATATTAAATAAGTTGAA
18662448 TTACAAAATTATGTAAAAAAAAGTTATGGAGTCTCCCGGGGGTAATACTATAATTGTTTGCTCAA
196 TTACAAAATTATGTAAAAAAAAGTTATGGAGTCTCCCGGGGGTAATACTATAATTGTTTGCTCAA
18662513 AAAGTATGCAATTAATGATATTAAATAAGTTG
261 AAAGTATGCAATTAATGATATTAAATAAGTTG
18662545 AATTCACTGGTGTGACATATCAAAAATAAAAAATGTTACTCAATTGGTAGCTTGAATCAAAAAAG
1 AATTCACTGGTGTGACATATCAAAAATAAAAAATGTTACTCAATTGGTAGCTTGAATCAAAAAAG
18662610 AAGAAGACATTACAATAGATTTGAATTTAACAGAGAATTTTAACAGTACGGACAATTCTTAAAAA
66 AAGAAGACATTACAATAGATTTGAATTTAACAGAGAATTTTAACAGTACGGACAATTCTTAAAAA
18662675 AATTACGTCTATATTTTAATCAAAATAAAGTACTTAGACTAATTAATGATATTAAATAAGTTGAA
131 AATTACGTCTATATTTTAATCAAAATAAAGTACTTAGACTAATTAATGATATTAAATAAGTTGAA
*
18662740 TTACAAAATTATGTAAAAAAAAGTTATGGAGTCTCCTGGGGGTAATACTATAATTGTTTGCTCAA
196 TTACAAAATTATGTAAAAAAAAGTTATGGAGTCTCCCGGGGGTAATACTATAATTGTTTGCTCAA
*
18662805 GAAGTATGCAATT
261 AAAGTATGCAATT
18662818 GGGTAATACT
Statistics
Matches: 269, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
292 269 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (292 bp):
AATTCACTGGTGTGACATATCAAAAATAAAAAATGTTACTCAATTGGTAGCTTGAATCAAAAAAG
AAGAAGACATTACAATAGATTTGAATTTAACAGAGAATTTTAACAGTACGGACAATTCTTAAAAA
AATTACGTCTATATTTTAATCAAAATAAAGTACTTAGACTAATTAATGATATTAAATAAGTTGAA
TTACAAAATTATGTAAAAAAAAGTTATGGAGTCTCCCGGGGGTAATACTATAATTGTTTGCTCAA
AAAGTATGCAATTAATGATATTAAATAAGTTG
Found at i:18662844 original size:39 final size:39
Alignment explanation
Indices: 18662779--18662857 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
18662769 AGTCTCCTGG
* *
18662779 GGGTAATACTATAATTGTTTGCTCAAGAAGTATGCAATT
1 GGGTAATACTAAAATTATTTGCTCAAGAAGTATGCAATT
*
18662818 GGGTAATACTAAAATTATTTGTTCAAGAAGTATGCAATT
1 GGGTAATACTAAAATTATTTGCTCAAGAAGTATGCAATT
18662857 G
1 G
18662858 ATAAGCTAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (39 bp):
GGGTAATACTAAAATTATTTGCTCAAGAAGTATGCAATT
Found at i:18681917 original size:16 final size:17
Alignment explanation
Indices: 18681896--18681933 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
18681886 TTATATCAAT
18681896 AAAATAAA-AAATTTTA
1 AAAATAAACAAATTTTA
**
18681912 AAAATAAACTTATTTTA
1 AAAATAAACAAATTTTA
18681929 AAAAT
1 AAAAT
18681934 TCAAATTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAAACAAATTTTA
Found at i:18682021 original size:11 final size:11
Alignment explanation
Indices: 18682007--18682031 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18681997 ATATTAAAAC
18682007 TTATAAAATCA
1 TTATAAAATCA
18682018 TTATAAAATCA
1 TTATAAAATCA
18682029 TTA
1 TTA
18682032 GAAGTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (11 bp):
TTATAAAATCA
Found at i:18682057 original size:21 final size:22
Alignment explanation
Indices: 18682022--18682065 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
18682012 AAATCATTAT
*
18682022 AAAATCATTAGAAGTTATAAAA
1 AAAATCATTAAAAGTTATAAAA
18682044 AAAATCA-TAAAAGTTATAAAA
1 AAAATCATTAAAAGTTATAAAA
18682065 A
1 A
18682066 CCATAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (22 bp):
AAAATCATTAAAAGTTATAAAA
Found at i:18684359 original size:38 final size:38
Alignment explanation
Indices: 18684308--18684397 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
18684298 TGGCTAGAAG
*
18684308 ATGGTTATCTACTATCTCTACGAAGCGACACCATGAAA
1 ATGGTTATCTACTATCTCCACGAAGCGACACCATGAAA
18684346 ATGGTTATCTACTATCTCCACGAAGCGACACCATGAAA
1 ATGGTTATCTACTATCTCCACGAAGCGACACCATGAAA
18684384 ATGGTTATCTACTA
1 ATGGTTATCTACTA
18684398 AGTATATGGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (38 bp):
ATGGTTATCTACTATCTCCACGAAGCGACACCATGAAA
Found at i:18684414 original size:38 final size:38
Alignment explanation
Indices: 18684308--18684429 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
18684298 TGGCTAGAAG
*
18684308 ATGGTTATCTACTATCT-CTACGAAGCGACACCATGAAA
1 ATGGTTATCTACTAACTAC-ACGAAGCGACACCATGAAA
* *
18684346 ATGGTTATCTACTATCTCCACGAAGCGACACCATGAAA
1 ATGGTTATCTACTAACTACACGAAGCGACACCATGAAA
* * * * *
18684384 ATGGTTATCTACTAAGTATATGGAA-TGACACCATGGAA
1 ATGGTTATCTACTAACTACA-CGAAGCGACACCATGAAA
18684422 ATGGTTAT
1 ATGGTTAT
18684430 TGAATCATTG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 71 0.95
39 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (38 bp):
ATGGTTATCTACTAACTACACGAAGCGACACCATGAAA
Found at i:18686149 original size:27 final size:27
Alignment explanation
Indices: 18686119--18686205 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
18686109 ACGTAGTGAC
*
18686119 AGTGGCATTTCGGTGCAAATCAATGAT
1 AGTGGCACTTCGGTGCAAATCAATGAT
*
18686146 AGTGGTACTTCGGTGCAAATCAATGAT
1 AGTGGCACTTCGGTGCAAATCAATGAT
* * * *
18686173 AATGGCACCTCGGTGCAATTCAGTGAT
1 AGTGGCACTTCGGTGCAAATCAATGAT
18686200 AGTGGC
1 AGTGGC
18686206 TCATTGTAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
AGTGGCACTTCGGTGCAAATCAATGAT
Found at i:18688443 original size:13 final size:13
Alignment explanation
Indices: 18688425--18688471 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
18688415 CATGATATGA
18688425 AAAATGAAATTAG
1 AAAATGAAATTAG
18688438 AAAATGAAA-T-G
1 AAAATGAAATTAG
*
18688449 GAAATGAAATTAG
1 AAAATGAAATTAG
18688462 AAAATGAAAT
1 AAAATGAAAT
18688472 GGAAATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 9 0.30
12 2 0.07
13 19 0.63
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (13 bp):
AAAATGAAATTAG
Found at i:18688453 original size:24 final size:24
Alignment explanation
Indices: 18688426--18688482 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
18688416 ATGATATGAA
18688426 AAATGAAATTAGAAAATGAAATGG
1 AAATGAAATTAGAAAATGAAATGG
18688450 AAATGAAATTAGAAAATGAAATGG
1 AAATGAAATTAGAAAATGAAATGG
18688474 AAATGAAAT
1 AAATGAAAT
18688483 GGAATTAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (24 bp):
AAATGAAATTAGAAAATGAAATGG
Found at i:18688455 original size:11 final size:11
Alignment explanation
Indices: 18688439--18688486 Score: 69
Period size: 11 Copynumber: 4.2 Consensus size: 11
18688429 TGAAATTAGA
18688439 AAATGAAATGG
1 AAATGAAATGG
*
18688450 AAATGAAATTAGA
1 AAATGAAA-T-GG
18688463 AAATGAAATGG
1 AAATGAAATGG
18688474 AAATGAAATGG
1 AAATGAAATGG
18688485 AA
1 AA
18688487 TTAACTTGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 22 0.67
12 2 0.06
13 9 0.27
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (11 bp):
AAATGAAATGG
Found at i:18690857 original size:37 final size:37
Alignment explanation
Indices: 18690816--18690895 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 37
18690806 ATACGGAAGA
* * *
18690816 TAAGATAGTCCACTGGACTTGTCCATATGTTTCAAGT
1 TAAGATAGTCCACTGGACTTATCCATACGTTTCAAGC
* * ** *
18690853 TAAGACAGTTCGTTGGACTTATCCTTACGTTTCAAGC
1 TAAGATAGTCCACTGGACTTATCCATACGTTTCAAGC
18690890 TAAGAT
1 TAAGAT
18690896 CGTTTGTCAG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (37 bp):
TAAGATAGTCCACTGGACTTATCCATACGTTTCAAGC
Found at i:18691049 original size:28 final size:28
Alignment explanation
Indices: 18691009--18691075 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
18690999 GTCCAAAGAC
*
18691009 ATGAATCCGTACATATAAATAT-ACATAT
1 ATGATTCCGTACATATAAAT-TCACATAT
*
18691037 ATGATTCCGTACATATGAATTCACATAT
1 ATGATTCCGTACATATAAATTCACATAT
* *
18691065 AAGATTTCGTA
1 ATGATTCCGTA
18691076 TCTATGAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (28 bp):
ATGATTCCGTACATATAAATTCACATAT
Found at i:18691081 original size:28 final size:29
Alignment explanation
Indices: 18691031--18691141 Score: 99
Period size: 28 Copynumber: 3.9 Consensus size: 29
18691021 ATATAAATAT
*
18691031 ACATATATGATTCCGTA-CATATGAATT-C
1 ACATATATGATTTCGTATC-TATGAATTGC
*
18691059 ACATATAAGATTTCGTATCTATGAATCTGC
1 ACATATATGATTTCGTATCTATGAAT-TGC
*
18691089 -C-TATGTGATTTCGTATCTATGAATTTGC
1 ACATATATGATTTCGTATCTATGAA-TTGC
* **
18691117 -C-TATGTGATCACGTATCTATGAATT
1 ACATATATGATTTCGTATCTATGAATT
18691142 CACCAATGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.03
28 66 0.90
29 4 0.05
30 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (29 bp):
ACATATATGATTTCGTATCTATGAATTGC
Found at i:18691150 original size:28 final size:28
Alignment explanation
Indices: 18691072--18691153 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
18691062 TATAAGATTT
**
18691072 CGTATCTATGAA-TCTGCCTATGTGATTT
1 CGTATCTATGAATTC-GCCTATGTGATCA
*
18691100 CGTATCTATGAATTTGCCTATGTGATCA
1 CGTATCTATGAATTCGCCTATGTGATCA
* *
18691128 CGTATCTATGAATTCACCAATGTGAT
1 CGTATCTATGAATTCGCCTATGTGAT
18691154 TTTGCATCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 46 0.98
29 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (28 bp):
CGTATCTATGAATTCGCCTATGTGATCA
Found at i:18695991 original size:38 final size:38
Alignment explanation
Indices: 18695940--18696018 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
18695930 ACCCTAAAGT
18695940 AAACGTTGTCATGTAGATCTCACCGAGGAAATTAATTG
1 AAACGTTGTCATGTAGATCTCACCGAGGAAATTAATTG
18695978 AAACGTTGTCATGTAGATCTCACCGAGGAAATTAATTG
1 AAACGTTGTCATGTAGATCTCACCGAGGAAATTAATTG
18696016 AAA
1 AAA
18696019 GTAAGTAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (38 bp):
AAACGTTGTCATGTAGATCTCACCGAGGAAATTAATTG
Found at i:18696389 original size:12 final size:12
Alignment explanation
Indices: 18696372--18696396 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18696362 TGTTCAAATC
18696372 AATTAATTCTTG
1 AATTAATTCTTG
18696384 AATTAATTCTTG
1 AATTAATTCTTG
18696396 A
1 A
18696397 TAAATTGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
AATTAATTCTTG
Found at i:18701204 original size:17 final size:17
Alignment explanation
Indices: 18701182--18701220 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
18701172 CAGTTTTTGC
18701182 GTTTTGGGTTTCGGTCA
1 GTTTTGGGTTTCGGTCA
18701199 GTTTT-GGTTTCGGTCA
1 GTTTTGGGTTTCGGTCA
18701215 GTTTTG
1 GTTTTG
18701221 CATTTTTGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.05, C:0.10, G:0.33, T:0.51
Consensus pattern (17 bp):
GTTTTGGGTTTCGGTCA
Found at i:18702208 original size:27 final size:27
Alignment explanation
Indices: 18702077--18702197 Score: 163
Period size: 27 Copynumber: 4.5 Consensus size: 27
18702067 ATCGCTTTAA
*
18702077 AGGGTAAAATGACCGAAATACCTCCGA-
1 AGGGTAAAATGACCGAAATACC-CCCAT
* * *
18702104 AGGGTAAAATGATCGAAATACCCTCAA
1 AGGGTAAAATGACCGAAATACCCCCAT
* * *
18702131 AGGATAAAATGATCGAAATACCCCTAT
1 AGGGTAAAATGACCGAAATACCCCCAT
18702158 AGGGTAAAATGACCGAAATACCCCCAT
1 AGGGTAAAATGACCGAAATACCCCCAT
18702185 AGGGTAAAATGAC
1 AGGGTAAAATGAC
18702198 TGTTATGCCC
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.02
27 81 0.98
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
AGGGTAAAATGACCGAAATACCCCCAT
Found at i:18702421 original size:26 final size:26
Alignment explanation
Indices: 18702371--18702421 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
18702361 TTTGCCACAT
* *
18702371 ATACTGTTACTGGTAGCTTCGCTGCG
1 ATACTATTACTGGTAGCTTCACTGCG
*
18702397 ATACTATTACTGGTAGCTTTACTGC
1 ATACTATTACTGGTAGCTTCACTGC
18702422 AATATTAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGTAGCTTCACTGCG
Found at i:18709644 original size:27 final size:27
Alignment explanation
Indices: 18709614--18709754 Score: 171
Period size: 27 Copynumber: 5.3 Consensus size: 27
18709604 ATTCGTGGGC
*
18709614 AAATGACCGAAATACCTTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
18709641 AAATGACCGAAATACCCTCAAAGGATA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
18709668 AAATGACCGAAATACCCTCGAAGAGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
18709695 AAATGATCAAAATACCCTC-ATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
* *
18709722 AAATGACCAAAATACCC-C-ATATGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
18709748 AAATGAC
1 AAATGAC
18709755 TGTTATAGCC
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 16 0.16
27 86 0.84
ACGTcount: A:0.45, C:0.21, G:0.16, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:18710133 original size:28 final size:28
Alignment explanation
Indices: 18710087--18710150 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
18710077 TGCATTGTAT
*
18710087 TGTTACTGTATTGGGCTAAGGCCCACAC
1 TGTTACTGTATCGGGCTAAGGCCCACAC
*
18710115 TGTTACTGTATCGGTCTAAGGCCCACAC
1 TGTTACTGTATCGGGCTAAGGCCCACAC
18710143 TG-TACTGT
1 TGTTACTGT
18710151 TACTGTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 6 0.18
28 28 0.82
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.31
Consensus pattern (28 bp):
TGTTACTGTATCGGGCTAAGGCCCACAC
Found at i:18710155 original size:33 final size:31
Alignment explanation
Indices: 18710082--18710164 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 31
18710072 ATTATTGCAT
* *
18710082 TGTATTGTTACTGTATTGGGCTAAGGCCCAC
1 TGTACTGTTACTGTATCGGGCTAAGGCCCAC
*
18710113 ---ACTGTTACTGTATCGGTCTAAGGCCCACAC
1 TGTACTGTTACTGTATCGGGCTAAGG-CC-CAC
*
18710143 TGTACTGTTACTGTATAGGGCT
1 TGTACTGTTACTGTATCGGGCT
18710165 CAAGCCTAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
28 20 0.48
29 2 0.05
30 3 0.07
33 17 0.40
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (31 bp):
TGTACTGTTACTGTATCGGGCTAAGGCCCAC
Done.