Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
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: 9139585
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 37885 characters in sequence are not A, C, G, or T
File 14 of 19
Found at i:5857449 original size:24 final size:24
Alignment explanation
Indices: 5857383--5857443 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
5857373 GATAGTAGGC
* *
5857383 TGACATTGAACACACATATAGGAT
1 TGACAATGAACACACATAAAGGAT
5857407 TGACAATGAACACACATAAAGGAT
1 TGACAATGAACACACATAAAGGAT
5857431 TGACAATGAACAC
1 TGACAATGAACAC
5857444 GTATAACTTG
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:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (24 bp):
TGACAATGAACACACATAAAGGAT
Found at i:5857527 original size:12 final size:12
Alignment explanation
Indices: 5857506--5857535 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5857496 ATAGTCAGGA
5857506 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
5857518 AAAAAGAAAAAG
1 AAAAAAAAAAAG
5857530 AAAAAA
1 AAAAAA
5857536 CCTTTTGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:5857609 original size:3 final size:3
Alignment explanation
Indices: 5857603--5857628 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5857593 TTCTTCTTCT
5857603 TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TC
5857629 TTCTTCCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
TCC
Found at i:5857636 original size:9 final size:9
Alignment explanation
Indices: 5857585--5857647 Score: 63
Period size: 9 Copynumber: 7.0 Consensus size: 9
5857575 TGGCTCTTGC
*
5857585 TCTTGCTCT
1 TCTTCCTCT
*
5857594 TCTTCTTCT
1 TCTTCCTCT
* *
5857603 TCCTCCTCC
1 TCTTCCTCT
* *
5857612 TCCTCCTCC
1 TCTTCCTCT
*
5857621 TCCTCCTCT
1 TCTTCCTCT
5857630 TCTTCCTCT
1 TCTTCCTCT
5857639 TCTTCCTCT
1 TCTTCCTCT
5857648 GCATTTTTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.02, T:0.49
Consensus pattern (9 bp):
TCTTCCTCT
Found at i:5859434 original size:3 final size:3
Alignment explanation
Indices: 5859426--5859488 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
5859416 CTCCCTTGCT
* * *
5859426 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC ATC TTC ATC TTC ATC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
5859474 TTC ATC ATC TTC TTC
1 TTC TTC TTC TTC TTC
5859489 AACCTTTGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (3 bp):
TTC
Found at i:5859489 original size:12 final size:12
Alignment explanation
Indices: 5859426--5859488 Score: 90
Period size: 12 Copynumber: 5.2 Consensus size: 12
5859416 CTCCCTTGCT
*
5859426 TTCTTCTTCTTC
1 TTCTTCATCTTC
*
5859438 TTCTTCTTCTTC
1 TTCTTCATCTTC
5859450 TTCTTCATCTTC
1 TTCTTCATCTTC
*
5859462 ATCTTCATCTTC
1 TTCTTCATCTTC
*
5859474 TTCATCATCTTC
1 TTCTTCATCTTC
5859486 TTC
1 TTC
5859489 AACCTTTGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (12 bp):
TTCTTCATCTTC
Found at i:5860048 original size:20 final size:19
Alignment explanation
Indices: 5860025--5860073 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
5860015 GAACAAATAA
5860025 ATTTTTTAT-TTAACACATTT
1 ATTTTTTATATTAA-A-ATTT
5860045 ATTTTTATATATTAAAATTT
1 ATTTTT-TATATTAAAATTT
5860065 -TTTTTTATA
1 ATTTTTTATA
5860074 AATATAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.15
19 5 0.19
20 10 0.37
21 4 0.15
22 4 0.15
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTTATATTAAAATTT
Found at i:5865715 original size:4 final size:4
Alignment explanation
Indices: 5865706--5865756 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
5865696 TTGAAAAGGT
5865706 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
5865754 ATA
1 ATA
5865757 TATAAACCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:5879806 original size:6 final size:6
Alignment explanation
Indices: 5879792--5879826 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
5879782 GCTGAGAAGA
*
5879792 ATGTGT ATGTAT ATGTAT ATGTAT ATGTAT ATGTA
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTA
5879827 ATTACACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (6 bp):
ATGTAT
Found at i:5894547 original size:30 final size:30
Alignment explanation
Indices: 5894513--5894573 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
5894503 TATGATTTTA
* * *
5894513 AACAATCCTTATATAAGTCGAAGTATAATG
1 AACAATCCTTATATAAATCGAAATAAAATG
5894543 AACAATCCTTATATAAATCGAAATAAAATG
1 AACAATCCTTATATAAATCGAAATAAAATG
5894573 A
1 A
5894574 TTTTAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (30 bp):
AACAATCCTTATATAAATCGAAATAAAATG
Found at i:5896646 original size:22 final size:22
Alignment explanation
Indices: 5896614--5896672 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
5896604 CCTAAACTTT
*
5896614 CAAAATCCTAAAATTGGATTTCC
1 CAAAA-CCTAAAACTGGATTTCC
*
5896637 CAAAACCTAAAACTGGATTTTC
1 CAAAACCTAAAACTGGATTTCC
5896659 CAAAACCTTAAAAC
1 CAAAACC-TAAAAC
5896673 CGGGTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (22 bp):
CAAAACCTAAAACTGGATTTCC
Found at i:5896680 original size:23 final size:22
Alignment explanation
Indices: 5896614--5896680 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
5896604 CCTAAACTTT
** *
5896614 CAAAATCCTAAAATTGGATTTCC
1 CAAAA-CCTAAAACCGGATTTTC
*
5896637 CAAAACCTAAAACTGGATTTTC
1 CAAAACCTAAAACCGGATTTTC
*
5896659 CAAAACCTTAAAACCGGGTTTT
1 CAAAACC-TAAAACCGGATTTT
5896681 TCTAGAATCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 22 0.56
23 17 0.44
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.28
Consensus pattern (22 bp):
CAAAACCTAAAACCGGATTTTC
Found at i:5909727 original size:27 final size:27
Alignment explanation
Indices: 5909696--5909752 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
5909686 AAAAAAGAAT
*
5909696 TAAATTATTA-ATTATGTT-TAAATAATA
1 TAAA-TATTATATTATATTATAAA-AATA
5909723 TAAATATTATATTATATTATAAAAATA
1 TAAATATTATATTATATTATAAAAATA
5909750 TAA
1 TAA
5909753 TTACTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 5 0.19
27 18 0.67
28 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
TAAATATTATATTATATTATAAAAATA
Found at i:5909841 original size:15 final size:16
Alignment explanation
Indices: 5909807--5909843 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5909797 ATTTTTTATT
5909807 TTATAAAAGTTATAAC
1 TTATAAAAGTTATAAC
5909823 TTATAAAA-TTATTAA-
1 TTATAAAAGTTA-TAAC
5909838 TTATAA
1 TTATAA
5909844 TATATGTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (16 bp):
TTATAAAAGTTATAAC
Found at i:5910163 original size:16 final size:15
Alignment explanation
Indices: 5910133--5910166 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
5910123 TAACGTTGTA
*
5910133 AAAATTATAATTTAT
1 AAAATTATAAATTAT
5910148 AAAATTATTAAATTAT
1 AAAATTA-TAAATTAT
5910164 AAA
1 AAA
5910167 TATATATACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATTATAAATTAT
Found at i:5920812 original size:21 final size:21
Alignment explanation
Indices: 5920782--5920878 Score: 95
Period size: 21 Copynumber: 4.6 Consensus size: 21
5920772 TGGAACTGGT
*
5920782 GGTGGTGGTGGTGAGTAAACC
1 GGTGGTGGTGGTGAGTAAACA
* * * **
5920803 GGTGGAGGTGGGGATTGTACA
1 GGTGGTGGTGGTGAGTAAACA
*
5920824 GGTGGTGGTGGTGAGTAAACT
1 GGTGGTGGTGGTGAGTAAACA
* * **
5920845 GGTGGAGGTGGAGAGTGGACA
1 GGTGGTGGTGGTGAGTAAACA
5920866 GGTGGTGGTGGTG
1 GGTGGTGGTGGTG
5920879 GTGGTGGAGA
Statistics
Matches: 57, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.18, C:0.05, G:0.54, T:0.24
Consensus pattern (21 bp):
GGTGGTGGTGGTGAGTAAACA
Found at i:5920838 original size:42 final size:42
Alignment explanation
Indices: 5920782--5920878 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
5920772 TGGAACTGGT
* * *
5920782 GGTGGTGGTGGTGAGTAAACCGGTGGAGGTGGGGATTGTACA
1 GGTGGTGGTGGTGAGTAAACCGGTGGAGGTGGAGAGTGGACA
*
5920824 GGTGGTGGTGGTGAGTAAACTGGTGGAGGTGGAGAGTGGACA
1 GGTGGTGGTGGTGAGTAAACCGGTGGAGGTGGAGAGTGGACA
5920866 GGTGGTGGTGGTG
1 GGTGGTGGTGGTG
5920879 GTGGTGGAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.18, C:0.05, G:0.54, T:0.24
Consensus pattern (42 bp):
GGTGGTGGTGGTGAGTAAACCGGTGGAGGTGGAGAGTGGACA
Found at i:5920885 original size:30 final size:29
Alignment explanation
Indices: 5920844--5920910 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 29
5920834 GTGAGTAAAC
* *
5920844 TGGTGGAGGTGGAGAGTGGACAGGTGGTGG
1 TGGTGGTGGTGGAGAGTAGACAGGT-GTGG
*
5920874 TGGTGGTGGTGGAGAGTAGACGGGTGTGG
1 TGGTGGTGGTGGAGAGTAGACAGGTGTGG
*
5920903 GGGTGGTG
1 TGGTGGTG
5920911 AATGGACAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 11 0.33
30 22 0.67
ACGTcount: A:0.13, C:0.03, G:0.61, T:0.22
Consensus pattern (29 bp):
TGGTGGTGGTGGAGAGTAGACAGGTGTGG
Found at i:5920902 original size:23 final size:21
Alignment explanation
Indices: 5920875--5920973 Score: 74
Period size: 23 Copynumber: 4.5 Consensus size: 21
5920865 AGGTGGTGGT
5920875 GGTGGTGGTGGAGAGTAGACGG
1 GGTGGTGGTGG-GAGTAGACGG
* * * *
5920897 GTGTGGGGGTGGTGAATGGAC-A
1 G-GTGGTGGTGG-GAGTAGACGG
* **
5920919 GGTGGTGGAGGGGAGTAGACTT
1 GGTGGTGG-TGGGAGTAGACGG
5920941 GGTGGTGGTGGGAGTAGACAGG
1 GGTGGTGGTGGGAGTAGAC-GG
5920963 AGGTGGTGGTG
1 -GGTGGTGGTG
5920974 AATGGACTGG
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
21 22 0.37
22 12 0.20
23 25 0.42
ACGTcount: A:0.17, C:0.04, G:0.58, T:0.21
Consensus pattern (21 bp):
GGTGGTGGTGGGAGTAGACGG
Found at i:5920955 original size:21 final size:21
Alignment explanation
Indices: 5920874--5920992 Score: 78
Period size: 21 Copynumber: 5.6 Consensus size: 21
5920864 CAGGTGGTGG
5920874 TGGTGGTGGTGGAGAGTAGAC
1 TGGTGGTGGTGGAGAGTAGAC
* * * * *
5920895 GGGTGTGGGGGTGGTGAATGGAC
1 -TG-GTGGTGGTGGAGAGTAGAC
* * *
5920918 AGGTGGTGGAGGGGAGTAGAC
1 TGGTGGTGGTGGAGAGTAGAC
5920939 TTGGTGGTGGTGG-GAGTAGAC
1 -TGGTGGTGGTGGAGAGTAGAC
* * * * *
5920960 AGGAGGTGGTGGTGAATGGAC
1 TGGTGGTGGTGGAGAGTAGAC
*
5920981 TGGTGGAGGTGG
1 TGGTGGTGGTGG
5920993 TGAATACACA
Statistics
Matches: 74, Mismatches: 20, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
20 10 0.14
21 37 0.50
22 12 0.16
23 15 0.20
ACGTcount: A:0.18, C:0.04, G:0.56, T:0.22
Consensus pattern (21 bp):
TGGTGGTGGTGGAGAGTAGAC
Found at i:5920992 original size:24 final size:24
Alignment explanation
Indices: 5920961--5921126 Score: 102
Period size: 27 Copynumber: 7.1 Consensus size: 24
5920951 GGAGTAGACA
5920961 GGAGGTGGTGGTGAATGGACTGGT
1 GGAGGTGGTGGTGAATGGACTGGT
** *
5920985 GGA---GGTGGTGAATACACAGGT
1 GGAGGTGGTGGTGAATGGACTGGT
* * *
5921006 GGCGGTGGTGGGGGTGAGTAGACTGGT
1 GGAGGTGGT---GGTGAATGGACTGGT
5921033 GGAGGTGGTGAGTGAAT----TGGT
1 GGAGGTGGTG-GTGAATGGACTGGT
* *
5921054 GG-GGTGGT-GAGAA--GACAGGT
1 GGAGGTGGTGGTGAATGGACTGGT
5921074 GGAGGTGGTGGTGGAGAATGGACTGGT
1 GGAGGTGGTGGT---GAATGGACTGGT
* *
5921101 GGTGGCGGTGGTGAATGGACTGGT
1 GGAGGTGGTGGTGAATGGACTGGT
5921125 GG
1 GG
5921127 CGGGGGTGAG
Statistics
Matches: 110, Mismatches: 15, Indels: 34
0.69 0.09 0.21
Matches are distributed among these distances:
18 4 0.04
20 11 0.10
21 29 0.26
22 1 0.01
24 21 0.19
25 8 0.07
27 36 0.33
ACGTcount: A:0.18, C:0.05, G:0.54, T:0.22
Consensus pattern (24 bp):
GGAGGTGGTGGTGAATGGACTGGT
Found at i:5920993 original size:21 final size:21
Alignment explanation
Indices: 5920899--5921083 Score: 81
Period size: 21 Copynumber: 8.6 Consensus size: 21
5920889 GTAGACGGGT
* * *
5920899 GTGGGGGTGGTGAATGGACAG
1 GTGGAGGTGGTGAATAGACTG
* * * *
5920920 GTGGTGGAGGGGAGTAGACTTG
1 GTGGAGGTGGTGAATAGAC-TG
* * *
5920942 GTGGTGGTGG-GAGTAGACAG
1 GTGGAGGTGGTGAATAGACTG
* * *
5920962 GAGGTGGTGGTGAATGGACTG
1 GTGGAGGTGGTGAATAGACTG
*
5920983 GTGGAGGTGGTGAATACACAGGTGGCG
1 GTGGAGGTGGTGAATAGAC---T---G
* * *
5921010 GTGGTGGGGGTGAGTAGACTG
1 GTGGAGGTGGTGAATAGACTG
* *
5921031 GTGGAGGTGGTGAGT-GAATTG
1 GTGGAGGTGGTGAATAG-ACTG
*
5921052 GTGG-GGTGGTGAGA-AGACAG
1 GTGGAGGTGGTGA-ATAGACTG
5921072 GTGGAGGTGGTG
1 GTGGAGGTGGTG
5921084 GTGGAGAATG
Statistics
Matches: 126, Mismatches: 26, Indels: 24
0.72 0.15 0.14
Matches are distributed among these distances:
20 25 0.20
21 73 0.58
22 10 0.08
24 2 0.02
27 16 0.13
ACGTcount: A:0.19, C:0.05, G:0.55, T:0.22
Consensus pattern (21 bp):
GTGGAGGTGGTGAATAGACTG
Found at i:5921014 original size:42 final size:43
Alignment explanation
Indices: 5920875--5921015 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 43
5920865 AGGTGGTGGT
* * ** * *
5920875 GGTGGTGGTGGAGAGTAGACGGGTGTGGGGGTGGTGAATGGACA
1 GGTGGTGGTGGTGAATAGACTTG-GTGGAGGTGGTGAATAGACA
* * * * *
5920919 GGTGGTGGAGGGGAGTAGACTTGGTGGTGGTGG-GAGTAGACA
1 GGTGGTGGTGGTGAATAGACTTGGTGGAGGTGGTGAATAGACA
* * *
5920961 GGAGGTGGTGGTGAATGGAC-TGGTGGAGGTGGTGAATACACA
1 GGTGGTGGTGGTGAATAGACTTGGTGGAGGTGGTGAATAGACA
*
5921003 GGTGGCGGTGGTG
1 GGTGGTGGTGGTG
5921016 GGGGTGAGTA
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 11 0.14
42 40 0.51
43 9 0.11
44 19 0.24
ACGTcount: A:0.18, C:0.06, G:0.55, T:0.21
Consensus pattern (43 bp):
GGTGGTGGTGGTGAATAGACTTGGTGGAGGTGGTGAATAGACA
Found at i:5921060 original size:89 final size:90
Alignment explanation
Indices: 5920919--5921083 Score: 207
Period size: 89 Copynumber: 1.8 Consensus size: 90
5920909 TGAATGGACA
* * *
5920919 GGTGGTGGAGGGGAGTAGACTTGGTGGTGGTGGGAGTAGACAGGAGGTGGTGGTGA-ATGGACTG
1 GGTGGTGGAGGGGAGTAGACTTGGTGGAGGTGGGAGTAGACAGGAGGTGGTGGTGAGA-AGACAG
5920983 GTGGAGGTGGTGAATACACAGGTGGC
65 GTGGAGGTGGTGAATACACAGGTGGC
*
5921009 GGTGGTGG-GGGTGAGTAGAC-TGGTGGAGGTGGTGAGT-GA-ATTGGTGG-GGTGGTGAGAAGA
1 GGTGGTGGAGGG-GAGTAGACTTGGTGGAGGTGG-GAGTAGACA--GGAGGTGGTGGTGAGAAGA
5921069 CAGGTGGAGGTGGTG
62 CAGGTGGAGGTGGTG
5921084 GTGGAGAATG
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
88 1 0.02
89 40 0.61
90 25 0.38
ACGTcount: A:0.19, C:0.05, G:0.55, T:0.22
Consensus pattern (90 bp):
GGTGGTGGAGGGGAGTAGACTTGGTGGAGGTGGGAGTAGACAGGAGGTGGTGGTGAGAAGACAGG
TGGAGGTGGTGAATACACAGGTGGC
Found at i:5921073 original size:68 final size:68
Alignment explanation
Indices: 5920941--5921116 Score: 196
Period size: 68 Copynumber: 2.6 Consensus size: 68
5920931 GAGTAGACTT
* * * * *
5920941 GGTGGTGGTGGGAGTAGACAGGAGGTGGTGGTGAATGGACTGGTGGAGGTGGTGAATACACAGGT
1 GGTGGTGGTGGGAGTAGACTGGTGGTGGTGGTGAGTGAATTGGTGGAGGTGGTGAATACACAGGT
*
5921006 GGC
66 GGA
* * *
5921009 GGTGGTGGGGGTGAGTAGACTGGTGGAGGTGGTGAGTGAATTGGTGG-GGTGGTGAGA-AGACAG
1 GGTGGTGGTGG-GAGTAGACTGGTGGTGGTGGTGAGTGAATTGGTGGAGGTGGTGA-ATACACAG
5921072 GTGGA
64 GTGGA
* * *
5921077 GGTGGTGGTGGAGAATGGACTGGTGGTGGCGGTG-GTGAAT
1 GGTGGTGGTGG-GAGTAGACTGGTGGTGGTGGTGAGTGAAT
5921117 GGACTGGTGG
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
67 6 0.07
68 55 0.60
69 30 0.33
ACGTcount: A:0.19, C:0.05, G:0.54, T:0.22
Consensus pattern (68 bp):
GGTGGTGGTGGGAGTAGACTGGTGGTGGTGGTGAGTGAATTGGTGGAGGTGGTGAATACACAGGT
GGA
Found at i:5921101 original size:27 final size:26
Alignment explanation
Indices: 5921056--5921126 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 26
5921046 GAATTGGTGG
*
5921056 GGTGGT-GAGAA--GACAGGTGGAGGT
1 GGTGGTGGAGAATGGACTGGTGG-GGT
5921080 GGTGGTGGAGAATGGACTGGT--GGT
1 GGTGGTGGAGAATGGACTGGTGGGGT
* *
5921104 GGCGGTGGTGAATGGACTGGTGG
1 GGTGGTGGAGAATGGACTGGTGG
5921127 CGGGGGTGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 28 0.72
25 5 0.13
27 6 0.15
ACGTcount: A:0.18, C:0.06, G:0.55, T:0.21
Consensus pattern (26 bp):
GGTGGTGGAGAATGGACTGGTGGGGT
Found at i:5921127 original size:21 final size:21
Alignment explanation
Indices: 5921077--5921156 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
5921067 GACAGGTGGA
* *
5921077 GGTGGTGGTGGAGAATGGACTGGT
1 GGTGGCGGTGGTGAATGGAC---T
5921101 GGTGGCGGTGGTGAATGGACT
1 GGTGGCGGTGGTGAATGGACT
* * * *
5921122 GGTGGCGGGGGTGAGTGCACG
1 GGTGGCGGTGGTGAATGGACT
*
5921143 GGTGGGGGTGGTGA
1 GGTGGCGGTGGTGA
5921157 GTAGACTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 30 0.62
24 18 0.38
ACGTcount: A:0.12, C:0.07, G:0.59, T:0.21
Consensus pattern (21 bp):
GGTGGCGGTGGTGAATGGACT
Found at i:5921134 original size:24 final size:24
Alignment explanation
Indices: 5921083--5921134 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
5921073 TGGAGGTGGT
*
5921083 GGTGGAGAATGGACTGGTGGTGGC
1 GGTGGAGAATGGACTGGTGGCGGC
* *
5921107 GGTGGTGAATGGACTGGTGGCGGG
1 GGTGGAGAATGGACTGGTGGCGGC
5921131 GGTG
1 GGTG
5921135 AGTGCACGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.13, C:0.08, G:0.58, T:0.21
Consensus pattern (24 bp):
GGTGGAGAATGGACTGGTGGCGGC
Found at i:5926323 original size:27 final size:28
Alignment explanation
Indices: 5926270--5926330 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
5926260 AATATTCGAG
* *
5926270 TATTTAATTTATTAAGTAATATATGATT
1 TATTTTATTTATTAAGTAAGATATGATT
*
5926298 T-TTTTATTTATTGAA-TAAGATTTGATT
1 TATTTTATTTATT-AAGTAAGATATGATT
5926325 TATTTT
1 TATTTT
5926331 TTCAAGTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (28 bp):
TATTTTATTTATTAAGTAAGATATGATT
Found at i:5933032 original size:17 final size:17
Alignment explanation
Indices: 5932982--5933032 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
5932972 CTAATGCTTG
5932982 TTTATCTGTCATTTTGA
1 TTTATCTGTCATTTTGA
*
5932999 TTTA-ATG-C---TTG-
1 TTTATCTGTCATTTTGA
5933010 TTTATCTGTCATTTTGA
1 TTTATCTGTCATTTTGA
5933027 TTTATC
1 TTTATC
5933033 ATTAAGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 12
0.65 0.05 0.30
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 1 0.04
15 1 0.04
16 5 0.19
17 10 0.38
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (17 bp):
TTTATCTGTCATTTTGA
Found at i:5933042 original size:28 final size:28
Alignment explanation
Indices: 5932973--5933030 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
5932963 TTTGTTTTAC
5932973 TAATGCTTGTTTATCTGTCATTTTGATT
1 TAATGCTTGTTTATCTGTCATTTTGATT
5933001 TAATGCTTGTTTATCTGTCATTTTGATT
1 TAATGCTTGTTTATCTGTCATTTTGATT
5933029 TA
1 TA
5933031 TCATTAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.10, G:0.14, T:0.57
Consensus pattern (28 bp):
TAATGCTTGTTTATCTGTCATTTTGATT
Found at i:5943827 original size:2 final size:2
Alignment explanation
Indices: 5943822--5943851 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5943812 TTTTTGAGTA
5943822 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5943852 CGAGCACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:5944119 original size:3 final size:3
Alignment explanation
Indices: 5944111--5944135 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5944101 CTTTCTTCAG
5944111 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
5944136 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:5949002 original size:129 final size:130
Alignment explanation
Indices: 5948811--5949066 Score: 338
Period size: 129 Copynumber: 2.0 Consensus size: 130
5948801 AAGGATTTTA
* *
5948811 TTGTTCATAACCAGTATCACTCTACGACCTCCCTCATCCCATCCCATTGACAAACCTTAATAAAC
1 TTGTTCATAACCAGTATCACTCTACGACATCCCTCATCCCATCCCATTGACAAACCTCAATAAAC
* * * * * * *
5948876 ATTTCTTAATTTTGTTTGATATGTAAAATAGTTTTTGAGTTTGACCAACCAATGTTGAGTAGTAG
66 ATTTCATAATTCTGCTTAATATGTAAAATAATTTTCGAGTTTGACCAACCAATGTTCAGTAGTAG
* * * *
5948941 TTGTTCATAGCCCA-TATCACTGTACG-CATCTCTCATCCCATCCCATTGTCAAATCC-CAATAA
1 TTGTTCATA-ACCAGTATCACTCTACGACATCCCTCATCCCATCCCATTGACAAA-CCTCAATAA
* *
5949003 ACATTTCATAATTCTGCTTAATATGTAAAGTAATTTTCGAGTTTGACCAATCAATGTTCAGTAG
64 ACATTTCATAATTCTGCTTAATATGTAAAATAATTTTCGAGTTTGACCAACCAATGTTCAGTAG
5949067 CACCCAATCT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
129 84 0.77
130 22 0.20
131 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (130 bp):
TTGTTCATAACCAGTATCACTCTACGACATCCCTCATCCCATCCCATTGACAAACCTCAATAAAC
ATTTCATAATTCTGCTTAATATGTAAAATAATTTTCGAGTTTGACCAACCAATGTTCAGTAGTAG
Found at i:5961152 original size:16 final size:16
Alignment explanation
Indices: 5961133--5961163 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5961123 TTCTTAATGT
*
5961133 TTTTGTTTTTGTTTTA
1 TTTTGATTTTGTTTTA
5961149 TTTTGATTTTGTTTT
1 TTTTGATTTTGTTTT
5961164 GCAGTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.00, G:0.13, T:0.81
Consensus pattern (16 bp):
TTTTGATTTTGTTTTA
Found at i:5962543 original size:17 final size:17
Alignment explanation
Indices: 5962521--5962560 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
5962511 TTTAAGTTTT
*
5962521 TTTTAAAAAAATTTATC
1 TTTTAAAAAAAGTTATC
*
5962538 TTTTAAAAAAAGTTATT
1 TTTTAAAAAAAGTTATC
5962555 TTTTAA
1 TTTTAA
5962561 GAGCTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTAAAAAAAGTTATC
Found at i:5962902 original size:74 final size:75
Alignment explanation
Indices: 5962824--5962964 Score: 239
Period size: 75 Copynumber: 1.9 Consensus size: 75
5962814 ATAAATGAAA
*
5962824 TAAATCTTACTAATAATTATAAT-AAAAAATATTTCAATGATCATTATTTGATGAATACACATTT
1 TAAATCTTACTAATAATTATAATAAAAAAATATTTCAATGATCATTATTTAATGAATACACATTT
5962888 ATGGTAGATT
66 ATGGTAGATT
* * *
5962898 TAAATCTTACTAATAATTATAATAAAAAAATATTTTAATGATCGTTATTTAATGAATACATATTT
1 TAAATCTTACTAATAATTATAATAAAAAAATATTTCAATGATCATTATTTAATGAATACACATTT
5962963 AT
66 AT
5962965 AAGTATAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 23 0.37
75 39 0.63
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (75 bp):
TAAATCTTACTAATAATTATAATAAAAAAATATTTCAATGATCATTATTTAATGAATACACATTT
ATGGTAGATT
Found at i:5963942 original size:22 final size:22
Alignment explanation
Indices: 5963894--5963948 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
5963884 TATAAATTTT
*
5963894 ATATAAATTTAAAATATATAAA
1 ATATTAATTTAAAATATATAAA
* *
5963916 ATATT-ATTTATAATAATATATA
1 ATATTAATTTAAAAT-ATATAAA
*
5963938 TTATTAATTTA
1 ATATTAATTTA
5963949 GTCTTTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 14 0.52
23 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTAATTTAAAATATATAAA
Found at i:5965200 original size:41 final size:42
Alignment explanation
Indices: 5965090--5965223 Score: 146
Period size: 41 Copynumber: 3.2 Consensus size: 42
5965080 TATTGAATAA
* * * * * *
5965090 AAGGTAAAAGTAAAAAATGTATGTCAAAAGGTATAAGAGAAT
1 AAGGTAAGAGAAAAAAATGTACGTAAAAAGATATAAGAAAAT
* *
5965132 AAGATAAAGAGAAAAAAATGTACGTAAAAAGATATAAAAAAAT
1 AAGGT-AAGAGAAAAAAATGTACGTAAAAAGATATAAGAAAAT
*
5965175 AAGGTAAGA-AAAAAAATATTA-GTAAAAAGATATAAGAAAAT
1 AAGGTAAGAGAAAAAAAT-GTACGTAAAAAGATATAAGAAAAT
*
5965216 AAAGTAAG
1 AAGGTAAG
5965224 GGTAAGAAAG
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
41 34 0.44
42 10 0.13
43 34 0.44
ACGTcount: A:0.63, C:0.01, G:0.17, T:0.19
Consensus pattern (42 bp):
AAGGTAAGAGAAAAAAATGTACGTAAAAAGATATAAGAAAAT
Found at i:5977710 original size:17 final size:19
Alignment explanation
Indices: 5977688--5977733 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
5977678 AAGTACTATC
5977688 AATATTTCA-TATAAAT-T
1 AATATTTCATTATAAATAT
*
5977705 AATATTTCATTATATATAT
1 AATATTTCATTATAAATAT
5977724 AATATGTTCA
1 AATAT-TTCA
5977734 ATGGAATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 9 0.36
18 6 0.24
19 6 0.24
20 4 0.16
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (19 bp):
AATATTTCATTATAAATAT
Found at i:5980161 original size:105 final size:105
Alignment explanation
Indices: 5979979--5980202 Score: 360
Period size: 105 Copynumber: 2.1 Consensus size: 105
5979969 TCAATTATTT
* * *
5979979 TTTTTTCTCTAAAGACATCAATTTTATAGACAATTCACAAATTAATCGATATAATGCTCACATCA
1 TTTTTTCTCTAAAGACATCAATTTTATAAACAACTAACAAATTAATCGATATAATGCTCACATCA
*
5980044 TCCCAATTATATATAACACTAAAAA-CAAATTAATTTTCAG
66 CCCCAATTATATATAACACTAAAAAGC-AATTAATTTTCAG
*
5980084 TTTTTTCTCTAAAGACATCAATTTTATAAACAACTAACAAATTAATTGATATAATGCTCACATCA
1 TTTTTTCTCTAAAGACATCAATTTTATAAACAACTAACAAATTAATCGATATAATGCTCACATCA
*
5980149 CCCCAATTATATATAACACTAAAAAGCAATTATTTTTCAG
66 CCCCAATTATATATAACACTAAAAAGCAATTAATTTTCAG
* *
5980189 TTTTCTCTCAAAAG
1 TTTTTTCTCTAAAG
5980203 GCTAAATAAG
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
105 109 0.99
106 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (105 bp):
TTTTTTCTCTAAAGACATCAATTTTATAAACAACTAACAAATTAATCGATATAATGCTCACATCA
CCCCAATTATATATAACACTAAAAAGCAATTAATTTTCAG
Found at i:5996978 original size:2 final size:2
Alignment explanation
Indices: 5996973--5997006 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5996963 AAACACACAC
*
5996973 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5997007 GGTTGACCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6000711 original size:49 final size:49
Alignment explanation
Indices: 6000652--6000751 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
6000642 AAGTAGAATT
*
6000652 CTTCTTCACTTCAATCTTGTAGTGTGCCCCAGTAACTGTATCGTCCTCC
1 CTTCTTCACTTCAATCTTGTAGTGTGCCCCAGTAACTCTATCGTCCTCC
*
6000701 CTTCTTCACTTCAATTTTGTAGTGTGCCCCAGTAACTCTATCGTCCTCC
1 CTTCTTCACTTCAATCTTGTAGTGTGCCCCAGTAACTCTATCGTCCTCC
6000750 CT
1 CT
6000752 GTAAAAGAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.16, C:0.33, G:0.13, T:0.38
Consensus pattern (49 bp):
CTTCTTCACTTCAATCTTGTAGTGTGCCCCAGTAACTCTATCGTCCTCC
Found at i:6001697 original size:25 final size:25
Alignment explanation
Indices: 6001652--6001700 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6001642 TTTAATTTTA
*
6001652 AATTAAATAAATTTTTATAATTAAT
1 AATTAAATAAATTATTATAATTAAT
6001677 AATTAAAT-AATTATTATTAATTAA
1 AATTAAATAAATTATTA-TAATTAA
6001701 AATATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTAAATAAATTATTATAATTAAT
Found at i:6001722 original size:19 final size:20
Alignment explanation
Indices: 6001666--6001722 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
6001656 AAATAAATTT
* *
6001666 TTATAATTAATAATTAAATAA
1 TTATTATTAATTA-TAAATAA
*
6001687 TTATTATTAATTA-AAATAT
1 TTATTATTAATTATAAATAA
6001706 TTATTATT-ATTATAAAT
1 TTATTATTAATTATAAAT
6001723 CACGTGACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 4 0.12
19 17 0.53
21 11 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATTATTAATTATAAATAA
Found at i:6012638 original size:26 final size:26
Alignment explanation
Indices: 6012609--6012689 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
6012599 GTACGAGGGT
6012609 ACCTAATTGATTGAAAACCAGCACAC
1 ACCTAATTGATTGAAAACCAGCACAC
* *
6012635 ACCTAATTGAGTGAAAAGCAGCACAC
1 ACCTAATTGATTGAAAACCAGCACAC
* *
6012661 ACCAAATTGATTGAAAACCAGCACGC
1 ACCTAATTGATTGAAAACCAGCACAC
6012687 ACC
1 ACC
6012690 AAACTATCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.16
Consensus pattern (26 bp):
ACCTAATTGATTGAAAACCAGCACAC
Found at i:6023426 original size:121 final size:120
Alignment explanation
Indices: 6023213--6023437 Score: 342
Period size: 121 Copynumber: 1.9 Consensus size: 120
6023203 AAGCCTTACA
* * * * **
6023213 AAAGAAAGCTACCCAACTACCCAGCTATACAGATTCCCGTCTTTTACACAGGTCAACATACTTTG
1 AAAGAAAGCTACCCAACAACCCAGCTATACACATTCCCATCTTCTACACAGGTCAACATACACTG
*
6023278 TGTTAGAAATGATGTTTGGTAGAGAGTTTAGTCTAGTTCAAATACATTGTGTTAG
66 TGTTAGAAATGATGTTTGGTACAGAGTTTAGTCTAGTTCAAATACATTGTGTTAG
* *
6023333 AAAGAAAGCTACCCAACAACCCAGCTATACACATTCTCCATCTTCTACTCAGGTCAACATTCACT
1 AAAGAAAGCTACCCAACAACCCAGCTATACACATTC-CCATCTTCTACACAGGTCAACATACACT
**
6023398 GTGTTATCAATGATGTTTGGTACAGAGTTTAGTCTAGTTC
65 GTGTTAGAAATGATGTTTGGTACAGAGTTTAGTCTAGTTC
6023438 TGATATCATC
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
120 34 0.37
121 59 0.63
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (120 bp):
AAAGAAAGCTACCCAACAACCCAGCTATACACATTCCCATCTTCTACACAGGTCAACATACACTG
TGTTAGAAATGATGTTTGGTACAGAGTTTAGTCTAGTTCAAATACATTGTGTTAG
Found at i:6025353 original size:16 final size:16
Alignment explanation
Indices: 6025332--6025362 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6025322 ATCTTTTGTG
*
6025332 TTTTCTTTTTATCTTT
1 TTTTCTTTTGATCTTT
6025348 TTTTCTTTTGATCTT
1 TTTTCTTTTGATCTT
6025363 GAATTAAGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.13, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTCTTTTGATCTTT
Found at i:6041055 original size:36 final size:36
Alignment explanation
Indices: 6040957--6041161 Score: 225
Period size: 36 Copynumber: 5.7 Consensus size: 36
6040947 ATTTGTTCTC
* * * * *
6040957 TGCCCATAACCCTGCCCAGAGCCAGCAGTTGCTCCT
1 TGCCCATAACTCTGCCCATAGCCAGGATTTGCCCCT
* ** * * **
6040993 GGCCCATAGTTCTGACCAGATG-CAGGATTTGATCCT
1 TGCCCATAACTCTGCCCATA-GCCAGGATTTGCCCCT
*
6041029 TGCCCATAACTCTGTCCATAGCCAGGATTTGCCCCT
1 TGCCCATAACTCTGCCCATAGCCAGGATTTGCCCCT
6041065 TGCCCGAT-ACTCTGCCCATAGCCAGGATTTGCCCCT
1 TGCCC-ATAACTCTGCCCATAGCCAGGATTTGCCCCT
* *
6041101 TGCCCAAAATTCTGCCCATAGCCAGGATTTGCCCCT
1 TGCCCATAACTCTGCCCATAGCCAGGATTTGCCCCT
* *
6041137 TGCCCAAAATTCTGCCCATAGCCAG
1 TGCCCATAACTCTGCCCATAGCCAG
6041162 AACTCGGTCC
Statistics
Matches: 147, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
35 2 0.01
36 142 0.97
37 3 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (36 bp):
TGCCCATAACTCTGCCCATAGCCAGGATTTGCCCCT
Found at i:6041177 original size:72 final size:72
Alignment explanation
Indices: 6041026--6041184 Score: 212
Period size: 72 Copynumber: 2.2 Consensus size: 72
6041016 AGGATTTGAT
* * * * *
6041026 CCTTGCCCATAACTCTGTCCATAGCCAGGATTTGCCCCTTGCCCGATACTCTGCCCATAGCCAGG
1 CCTTGCCCATAATTCTGCCCATAGCCAGGATTTGCCCCTTGCCCAAAACTCTGCCCATAGCCAGA
**
6041091 ATTTGCC
66 ATCGGCC
* *
6041098 CCTTGCCCAAAATTCTGCCCATAGCCAGGATTTGCCCCTTGCCCAAAATTCTGCCCATAGCCAGA
1 CCTTGCCCATAATTCTGCCCATAGCCAGGATTTGCCCCTTGCCCAAAACTCTGCCCATAGCCAGA
*
6041163 ACTCGGTC
66 A-TCGGCC
6041171 CC-TGCCCATAATTC
1 CCTTGCCCATAATTC
6041185 CCACCTTGTG
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
72 70 0.93
73 5 0.07
ACGTcount: A:0.21, C:0.38, G:0.16, T:0.25
Consensus pattern (72 bp):
CCTTGCCCATAATTCTGCCCATAGCCAGGATTTGCCCCTTGCCCAAAACTCTGCCCATAGCCAGA
ATCGGCC
Found at i:6042912 original size:21 final size:21
Alignment explanation
Indices: 6042886--6042927 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6042876 GCCTTTAATT
*
6042886 ACATTTTTACATAAAGTTTCA
1 ACATTTGTACATAAAGTTTCA
6042907 ACATTTGTACATAAAGTTTCA
1 ACATTTGTACATAAAGTTTCA
6042928 TGTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (21 bp):
ACATTTGTACATAAAGTTTCA
Found at i:6053830 original size:16 final size:18
Alignment explanation
Indices: 6053809--6053846 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
6053799 GCCAAAAACA
6053809 AACAGAG-ATAAAC-AGC
1 AACAGAGAATAAACAAGC
6053825 AACAGAGAATAAACAAGC
1 AACAGAGAATAAACAAGC
6053843 AACA
1 AACA
6053847 ATGGTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 6 0.30
18 7 0.35
ACGTcount: A:0.61, C:0.18, G:0.16, T:0.05
Consensus pattern (18 bp):
AACAGAGAATAAACAAGC
Found at i:6061479 original size:171 final size:171
Alignment explanation
Indices: 6061247--6061566 Score: 441
Period size: 171 Copynumber: 1.9 Consensus size: 171
6061237 TGAATTTTAC
* * * * * * *
6061247 TCATTTTTAGTTAAAACATATCATATTTTGCTATTTGCATTGAGAAATATGAAATGAAAGCCATC
1 TCATTTTTAGTTAAAACATACCATAATTGGATATTTGCATAGAGAAACATGAAACGAAAGCCATC
* *
6061312 CATTGACAAGAAAAGTCCATTTATAATCACTCAT-TCATTCGAAA-ACCTTGTTACTTGCTTTAA
66 CATTGACAAGAAAAGTCCATTTATAATCACTCATATC-TTCGAAAGA-CTAGTTACTTACTTTAA
*
6061375 GTGGTTGTATAA-TCTTATAAATGATTTTAAATCAACATTTGTT
129 GTGGTTATATAACT-TTATAAATGATTTTAAATCAACATTTGTT
* * *
6061418 TCATTTTTGGTTAAAACATACCATAATTGGATGTTTGCATCAGA-AAACATGAAGCGAAAGCCAT
1 TCATTTTTAGTTAAAACATACCATAATTGGATATTTGCAT-AGAGAAACATGAAACGAAAGCCAT
* *
6061482 CCATTGATAAGAAAAGTCCATTTATAATCACTCATATCTTTGAAAGACTAGTTACTTACTTTAAG
65 CCATTGACAAGAAAAGTCCATTTATAATCACTCATATCTTCGAAAGACTAGTTACTTACTTTAAG
6061547 TGGTTATATAACTTTATAAA
130 TGGTTATATAACTTTATAAA
6061567 ACAATTTGAG
Statistics
Matches: 130, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
171 124 0.95
172 6 0.05
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (171 bp):
TCATTTTTAGTTAAAACATACCATAATTGGATATTTGCATAGAGAAACATGAAACGAAAGCCATC
CATTGACAAGAAAAGTCCATTTATAATCACTCATATCTTCGAAAGACTAGTTACTTACTTTAAGT
GGTTATATAACTTTATAAATGATTTTAAATCAACATTTGTT
Found at i:6067689 original size:15 final size:15
Alignment explanation
Indices: 6067671--6067709 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
6067661 ATGCAAAGGC
6067671 AGAAGATGTA-GAGGA
1 AGAAGATG-AGGAGGA
*
6067686 AGAAGAAGAGGAGGA
1 AGAAGATGAGGAGGA
6067701 AGAAGATGA
1 AGAAGATGA
6067710 ATACGAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.51, C:0.00, G:0.41, T:0.08
Consensus pattern (15 bp):
AGAAGATGAGGAGGA
Found at i:6069086 original size:46 final size:46
Alignment explanation
Indices: 6069017--6069107 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
6069007 GCGTTGTCGA
* *
6069017 AATCAGGTGGGAGAGAGTATCATAAAAAGTGCCTTTATCCCACATG
1 AATCAAGTGGGAGAGAGTATCATAAAAAGTGCCTCTATCCCACATG
*
6069063 AATCAAGTGGGAGAGAGTGTCATAAAAAGTGCCTCTATCCCACAT
1 AATCAAGTGGGAGAGAGTATCATAAAAAGTGCCTCTATCCCACAT
6069108 TAGACATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (46 bp):
AATCAAGTGGGAGAGAGTATCATAAAAAGTGCCTCTATCCCACATG
Found at i:6070422 original size:2 final size:2
Alignment explanation
Indices: 6070415--6070464 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6070405 GAATAAGAAT
6070415 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6070457 GA GA GA GA
1 GA GA GA GA
6070465 CCTAGAAAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6075491 original size:86 final size:86
Alignment explanation
Indices: 6075379--6075548 Score: 254
Period size: 86 Copynumber: 2.0 Consensus size: 86
6075369 CAAACAATTG
* * *
6075379 ATGTTTTTCTGTGATTCGTTCGTAAGATTTATTGATTGCATTATGTTACATAATTTC-AAGAATC
1 ATGTTTTTCTCTGATTCGTTCATAAGATTTATTGATTGCATTATATTACATAA-TTCAAAGAATC
*
6075443 AAAGGAGCACATTTCTTAGTTA
65 AAAGGAACACATTTCTTAGTTA
6075465 ATGTTTTTCTCTGATTTC-TTCATAAGATTTATTGATTGCATTATATTACATAATTCAAAGAATC
1 ATGTTTTTCTCTGA-TTCGTTCATAAGATTTATTGATTGCATTATATTACATAATTCAAAGAATC
* *
6075529 CAAGGAACACTTTTCTTAGT
65 AAAGGAACACATTTCTTAGT
6075549 CTCAATCCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 3 0.04
86 70 0.92
87 3 0.04
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.44
Consensus pattern (86 bp):
ATGTTTTTCTCTGATTCGTTCATAAGATTTATTGATTGCATTATATTACATAATTCAAAGAATCA
AAGGAACACATTTCTTAGTTA
Found at i:6091608 original size:6 final size:6
Alignment explanation
Indices: 6091599--6091632 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
6091589 GAGAGAGAGA
*
6091599 CTTTGG CTTTGG CTTTGG CTCTGG CTTTGG CTTT
1 CTTTGG CTTTGG CTTTGG CTTTGG CTTTGG CTTT
6091633 CGTTATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.29, T:0.50
Consensus pattern (6 bp):
CTTTGG
Found at i:6102629 original size:15 final size:14
Alignment explanation
Indices: 6102622--6102659 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 14
6102612 AAAGGAGAAA
6102622 GAAAGAAAGAAAAG
1 GAAAGAAAGAAAAG
6102636 GAAAAGAAAAGAAAAG
1 G-AAAG-AAAGAAAAG
6102652 GAAAGAAA
1 GAAAGAAA
6102660 AGAAGGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 8 0.36
16 10 0.45
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
GAAAGAAAGAAAAG
Found at i:6102637 original size:20 final size:20
Alignment explanation
Indices: 6102612--6102663 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
6102602 TGCCCTTTTG
6102612 AAAGGAGAAAG-AAAGAAAGA
1 AAAGGA-AAAGAAAAGAAAGA
*
6102632 AAAGGAAAAGAAAAGAAAAGG
1 AAAGGAAAAGAAAAG-AAAGA
6102653 AAA-GAAAAGAA
1 AAAGGAAAAGAA
6102664 GGAACTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 4 0.14
20 18 0.62
21 7 0.24
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (20 bp):
AAAGGAAAAGAAAAGAAAGA
Found at i:6102644 original size:5 final size:5
Alignment explanation
Indices: 6102619--6102663 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
6102609 TTGAAAGGAG
*
6102619 AAAG- AAAG- AAAGA AAAGGA AAAGA AAAGA AAAGG AAAGA AAAGA A
1 AAAGA AAAGA AAAGA AAA-GA AAAGA AAAGA AAAGA AAAGA AAAGA A
6102664 GGAACTTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 8 0.22
5 24 0.65
6 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:6102660 original size:15 final size:15
Alignment explanation
Indices: 6102622--6102663 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
6102612 AAAGGAGAAA
6102622 GAAAG-AAAGAAAAG
1 GAAAGAAAAGAAAAG
6102636 GAAAAGAAAAGAAAAG
1 G-AAAGAAAAGAAAAG
6102652 GAAAGAAAAGAA
1 GAAAGAAAAGAA
6102664 GGAACTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.04
15 15 0.58
16 10 0.38
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAGAAAAG
Found at i:6116922 original size:26 final size:25
Alignment explanation
Indices: 6116883--6116938 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 25
6116873 TAATATATAA
6116883 ATTA-TTTTTAAATAATAATTAAAT
1 ATTATTTTTTAAATAATAATTAAAT
*
6116907 ATTATTTTTTGAAATAATATTTAAAT
1 ATTATTTTTT-AAATAATAATTAAAT
6116933 ATTATT
1 ATTATT
6116939 AATATATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 4 0.14
25 5 0.17
26 20 0.69
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTATTTTTTAAATAATAATTAAAT
Found at i:6117044 original size:16 final size:17
Alignment explanation
Indices: 6117016--6117057 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
6117006 CAGATTTAGT
*
6117016 AATATTATTAAATATATA
1 AATATT-TTAAATAAATA
6117034 AA-ATTTTAAATAAATA
1 AATATTTTAAATAAATA
6117050 AATATTTT
1 AATATTTT
6117058 TTAAATTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 12 0.55
17 8 0.36
18 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATTTTAAATAAATA
Found at i:6117538 original size:20 final size:21
Alignment explanation
Indices: 6117505--6117547 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
6117495 TAAACAACAA
*
6117505 AATTTTTTTAAAAATGAAATG
1 AATTTTCTTAAAAATGAAATG
6117526 AATTTTCTT-AAAATGAAATG
1 AATTTTCTTAAAAATGAAATG
6117546 AA
1 AA
6117548 AAAAGACAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (21 bp):
AATTTTCTTAAAAATGAAATG
Found at i:6122218 original size:10 final size:8
Alignment explanation
Indices: 6122189--6122214 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6122179 TGAATCACTT
6122189 CAAAGGCA
1 CAAAGGCA
6122197 CAAAGGCA
1 CAAAGGCA
6122205 CAAAGGCA
1 CAAAGGCA
6122213 CA
1 CA
6122215 CAAATAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.23, T:0.00
Consensus pattern (8 bp):
CAAAGGCA
Found at i:6138822 original size:21 final size:21
Alignment explanation
Indices: 6138776--6138822 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
6138766 GCTGAAGGTG
6138776 AGGCAGCTAAGGTAAAAGAAA
1 AGGCAGCTAAGGTAAAAGAAA
*
6138797 GGGCAGCT-AGG-AAAATGAAA
1 AGGCAGCTAAGGTAAAA-GAAA
6138817 CAGGCA
1 -AGGCA
6138823 AGCTCTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 7 0.32
21 11 0.50
ACGTcount: A:0.47, C:0.13, G:0.32, T:0.09
Consensus pattern (21 bp):
AGGCAGCTAAGGTAAAAGAAA
Found at i:6140483 original size:22 final size:23
Alignment explanation
Indices: 6140435--6140483 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
6140425 ATAAATAAAA
*
6140435 ATAATACTTAAAAAACTATAATT
1 ATAATACTTAAAAAACAATAATT
* *
6140458 -TAATA-TTAAAAATCAATATTT
1 ATAATACTTAAAAAACAATAATT
6140479 ATAAT
1 ATAAT
6140484 TAGATTCGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAATACTTAAAAAACAATAATT
Found at i:6146823 original size:438 final size:438
Alignment explanation
Indices: 6145249--6147439 Score: 3386
Period size: 439 Copynumber: 5.0 Consensus size: 438
6145239 TTTGACTTGG
* * * *
6145249 GATATTTGGGTATGGATTATTTGCGGGTGAAATAGGTTATTGATAGGTATCTAGAGCTTTGTGCA
1 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTGTCTAGAGCTTTGAGCA
*
6145314 TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTCGACACTCTTATTTCCTTTC
66 TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTAGACACTCTTATTTCCTTTC
* * *
6145379 ATGAACTCTTGTTAGTGTTTAGTTTGATATTTGGATTTTATGCTTGGGCTTGAGTTTCAAAGTAA
131 ATGAACTCTTGTTAGTGTTTAGTTTGATTTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTAA
* * * *
6145444 TTTTATGCAAATAAGATTAAATCCTAGATTTGATATAAGAAGCAAGGCAAAAACA-AGGAGGCAA
196 TTTTATGCGAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAA-AGAGGAGGCTA
* * * *
6145508 GGAGTGGATGACCAGTACGAAGGGAATGCTGGCTGAATTTGGTAAGCATATTAAGGATAGAGACT
260 GGAGTGGATGACCAGTAAGAAGGGAAAGTTGGCTGAATTTGGTAAGCATATTAAGGATAGAGAAT
* *
6145573 ATGC-CGAGTATTTGACACTCGAAC-AAAAGAGGACTCACTGTCGGGCGAAGACAAAAAAGTGTG
325 AT-CTCGAGTATTTGACA--CAAACAAAAAGAGGACTCACTGTCGGGCAAAGACAAAAAAGTGTG
6145636 TTACAATGTTTCGATGACAT--CA--T----ATC-GGATGCAATGATGGAGGT
387 TTACAATGTTTCGATGACATGACATTTCCACATCAGG-TGCAATGATGGAGGT
** * *
6145680 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGCAATTGATGGGTGTCTAGCGCTTTGAGCA
1 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTGTCTAGAGCTTTGAGCA
* **
6145745 TTTGTTGGTCAGGCTATTTTACTAAGGTAGAGTACACTAGAGGCTAGACACTCTTATTTCCTTTC
66 TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTAGACACTCTTATTTCCTTTC
* *
6145810 ATGAACTCATGTTAGTGTTTAGTTTGATCTTTTGGATTTTACTCTTGGGTTTGAGTTTCAAAGTA
131 ATGAACTCTTGTTAGTGTTTAGTTTGAT-TTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTA
* * *
6145875 AGTTTATGCGAACAAAATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAAAGAGGAGGCTA
195 ATTTTATGCGAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAAAGAGGAGGCTA
*
6145940 GGAGTGGATGACCAGTAAGAAGGGAAAGTTGGTTGAATTTGGTAAGCATATTAAGGATAGAGAAT
260 GGAGTGGATGACCAGTAAGAAGGGAAAGTTGGCTGAATTTGGTAAGCATATTAAGGATAGAGAAT
* * * * *
6146005 ATGTGGAGTATTTGACACAAACAAAAAGAGGACTCACTGTTGGGCGAAGACCAAAAAGTGTGTTA
325 ATCTCGAGTATTTGACACAAACAAAAAGAGGACTCACTGTCGGGCAAAGACAAAAAAGTGTGTTA
*
6146070 CAATGTTTCGACGACATGACATTTCCACATCAGGTGCAATGATGGAGGT
390 CAATGTTTCGATGACATGACATTTCCACATCAGGTGCAATGATGGAGGT
6146119 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTG-CATAGAGCTTTGAGC
1 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTGTC-TAGAGCTTTGAGC
* *
6146183 ATTTGTTGGTCAGGCTATTTTACTAAGGTAGAGTATGCTAGAGGCTAGACGCTCTTATTTCCTTT
65 ATTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTAGACACTCTTATTTCCTTT
* *
6146248 CATGAACTCATGCTAGTGTTTAGTTTGATCTTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGT
130 CATGAACTCTTGTTAGTGTTTAGTTTGAT-TTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGT
*
6146313 AATTTTATGCGAATAAGATTAAATTCTAGATTTTATATTAGAAGCAAGGCAAAAAAGAGGAGGCT
194 AATTTTATGCGAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAAAGAGGAGGCT
* * * *
6146378 GGGAGTGGATGACCAGCAAGAAGGGAAAGTTGCCTGAATTTGGTAAGCATATCAAGGATAGAGAA
259 AGGAGTGGATGACCAGTAAGAAGGGAAAGTTGGCTGAATTTGGTAAGCATATTAAGGATAGAGAA
* *
6146443 TATCTCGAGTATTTGACACAAACAAAAAGAGGACTCATTGTCGGTCAAAGACAAAAAAGTGTGTT
324 TATCTCGAGTATTTGACACAAACAAAAAGAGGACTCACTGTCGGGCAAAGACAAAAAAGTGTGTT
*
6146508 ACAATGTTTCGATGACATGACATTTCCACATCAGGTGCAATTATGGAGGT
389 ACAATGTTTCGATGACATGACATTTCCACATCAGGTGCAATGATGGAGGT
6146558 GATATTTGGGTAT-GATTATTTGCAGGTGAAATAGGTGATTGATAGGTGTCTAGAGCTTTGAGCA
1 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTGTCTAGAGCTTTGAGCA
* *
6146622 TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGCATGCTAGAGGCTAGACACTTTTATTTCCTTTC
66 TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTAGACACTCTTATTTCCTTTC
*
6146687 ATGAACTCTTTGTTAGTGTTTAGTTTTATTTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTA
131 ATGAACTC-TTGTTAGTGTTTAGTTTGATTTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTA
* * * *
6146752 ATTTTATGGGAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGAAAAAAAAAAGAGGCTA
195 ATTTTATGCGAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAAAGAGGAGGCTA
*
6146817 GGAGTGGATGACCAGTAAGGAGGGAAAGTTGGCTGAATTTGGTAAGCATATTAAGGATAGAGAAT
260 GGAGTGGATGACCAGTAAGAAGGGAAAGTTGGCTGAATTTGGTAAGCATATTAAGGATAGAGAAT
* * * * *
6146882 ATCTCTAGTATTTGACACAAACAAAAGGACGACTCATTGTCAGGCAAAGACAAAAAAGTGTGTTA
325 ATCTCGAGTATTTGACACAAACAAAAAGAGGACTCACTGTCGGGCAAAGACAAAAAAGTGTGTTA
* *
6146947 CAATGTTTTGATGACATGACATTTCCACATCAGGTGAAATGATGGAGGT
390 CAATGTTTCGATGACATGACATTTCCACATCAGGTGCAATGATGGAGGT
* *
6146996 GATATTTGGGTATGGATTATTTGCAGGTGAAGTAGGTGATTGATAGGTGTCTAGAGCTTCGAGCA
1 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTGTCTAGAGCTTTGAGCA
* *
6147061 TTTGTTGGTCAGGCTATTTTCCTAACGTAGAGTCTGCTAGAGGCTAGACACTCTTATTTCCTTTC
66 TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTAGACACTCTTATTTCCTTTC
* **
6147126 ATGAACTCTTGTAAGTGTTTAGTTTGATTTTTGGATTTTATTCTCAGGTTTGAGTTTCAAAGTAA
131 ATGAACTCTTGTTAGTGTTTAGTTTGATTTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTAA
* * *
6147191 TTTTATGCAAATAAGATTAAATTCTAGATTTGATATTTGAAGCAAGGCAAAAAAGAGGAGGCTGG
196 TTTTATGCGAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAAAGAGGAGGCTAG
** ** *
6147256 GAGTGGACAACCAGCGAGAAGGGAAAGTTGGCTGAATTTGGTAAAGCATAATAAGGATAGAGAAT
261 GAGTGGATGACCAGTAAGAAGGGAAAGTTGGCTGAATTTGGT-AAGCATATTAAGGATAGAGAAT
* * * *
6147321 ATGTCGAGTATTTGACACAAACAAAAAGAGGACTCACTGTTGGGTGAAA-ACAAAAAAGTTTGTT
325 ATCTCGAGTATTTGACACAAACAAAAAGAGGACTCACTGTCGGG-CAAAGACAAAAAAGTGTGTT
* * * * *
6147385 GCAATGTTTTGAAGACATGAAATTTCCACATAAGGTGCAATGATGGAGGT
389 ACAATGTTTCGATGACATGACATTTCCACATCAGGTGCAATGATGGAGGT
6147435 GATAT
1 GATAT
6147440 AAATTGGGGT
Statistics
Matches: 1618, Mismatches: 123, Indels: 30
0.91 0.07 0.02
Matches are distributed among these distances:
430 4 0.00
431 203 0.13
432 162 0.10
433 2 0.00
435 1 0.00
438 542 0.33
439 699 0.43
440 5 0.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (438 bp):
GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTGTCTAGAGCTTTGAGCA
TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTAGACACTCTTATTTCCTTTC
ATGAACTCTTGTTAGTGTTTAGTTTGATTTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTAA
TTTTATGCGAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAAAGAGGAGGCTAG
GAGTGGATGACCAGTAAGAAGGGAAAGTTGGCTGAATTTGGTAAGCATATTAAGGATAGAGAATA
TCTCGAGTATTTGACACAAACAAAAAGAGGACTCACTGTCGGGCAAAGACAAAAAAGTGTGTTAC
AATGTTTCGATGACATGACATTTCCACATCAGGTGCAATGATGGAGGT
Found at i:6146940 original size:877 final size:874
Alignment explanation
Indices: 6145249--6147439 Score: 3386
Period size: 877 Copynumber: 2.5 Consensus size: 874
6145239 TTTGACTTGG
* * * *
6145249 GATATTTGGGTATGGATTATTTGCGGGTGAAATAGGTTATTGATAGGTATCTAGAGCTTTGTGCA
1 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGT-GCTAGAGCTTTGAGCA
*
6145314 TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTCGACACTCTTATTTCCTTTC
65 TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTAGACACTCTTATTTCCTTTC
* * *
6145379 ATGAACTCTTGTTAGTGTTTAGTTTGATATTTGGATTTTATGCTTGGGCTTGAGTTTCAAAGTAA
130 ATGAACTCTTG-TAGTGTTTAGTTTGATTTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTAA
* * **
6145444 TTTTATGCAAATAAGATTAAATCCTAGATTTGATATAAGAAGCAAGGCAAAAACA-AGGAGGCAA
194 TTTTATGCAAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAA-AGAGGAGGCTG
* * * * *
6145508 GGAGTGGATGACCAGTACGAAGGGAATGCTGGCTGAATTTGGTAAGCATATTAAGGATAGAGACT
258 GGAGTGGATGACCAGCAAGAAGGGAAAGTTGGCTGAATTTGGTAAGCATA-TAAGGATAGAGAAT
* * *
6145573 ATGC-CGAGTATTTGACACTCGAAC-AAAAGAGGACTCACTGTCGGGCGAAGACAAAAAAGTGTG
322 AT-CTCGAGTATTTGACA--CAAACAAAAAGAGGACTCACTGTCGGTCAAAGACAAAAAAGTGTG
6145636 TTACAATGTTTCGATGACAT--CA--T----ATC-GGATGCAATGATGGAGGTGATATTTGGGTA
384 TTACAATGTTTCGATGACATGACATTTCCACATCAGG-TGCAATGATGGAGGTGATATTTGGGTA
* *
6145692 TGGATTATTTGCAGGTGAAATAGGCAATTGATGGGTGTCTAGCGCTTTGAGCATTTGTTGGTCAG
448 TGGATTATTTGCAGGTGAAATAGGCAATTGATAGGTGTCTAGAGCTTTGAGCATTTGTTGGTCAG
*
6145757 GCTATTTTACTAAGGTAGAGTACACTAGAGGCTAGACACTCTTATTTCCTTTCATGAACTCATGT
513 GCTATTTTACTAAGGTAGAGCACACTAGAGGCTAGACACTCTTATTTCCTTTCATGAACTCATGT
6145822 TAGTGTTTAGTTTGATCTTTTGGATTTTACTCTTGGGTTTGAGTTTCAAAGTAAGTTTATGCGAA
578 TAGTGTTTAGTTTGATCTTTTGGATTTTACTCTTGGGTTTGAGTTTCAAAGTAAGTTTATGCGAA
* * *
6145887 CAAAATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAAAGAGGAGGCTAGGAGTGGATGAC
643 CAAAATTAAATTCTAGATTTGATATTAGAAGCAAGGAAAAAAAAAAGAGGCTAGGAGTGGATGAC
* * *
6145952 CAGTAAGAAGGGAAAGTTGGTTGAATTTGGTAAGCATATTAAGGATAGAGAATATGTGGAGTATT
708 CAGTAAGAAGGGAAAGTTGGCTGAATTTGGTAAGCATATTAAGGATAGAGAATATCTCGAGTATT
* ** * *
6146017 TGACACAAACAAAAAGAGGACTCACTGTTGGGCGAAGACCAAAAAGTGTGTTACAATGTTTCGAC
773 TGACACAAACAAAAAGACGACTCACTGTCAGGCAAAGACAAAAAAGTGTGTTACAATGTTTCGAC
*
6146082 GACATGACATTTCCACATCAGGTGCAATGATGGAGGT
838 GACATGACATTTCCACATCAGGTGAAATGATGGAGGT
6146119 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTGCATAGAGCTTTGAGCA
1 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTGC-TAGAGCTTTGAGCA
* *
6146184 TTTGTTGGTCAGGCTATTTTACTAAGGTAGAGTATGCTAGAGGCTAGACGCTCTTATTTCCTTTC
65 TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTAGACACTCTTATTTCCTTTC
*
6146249 ATGAACTCATGCTAGTGTTTAGTTTGATCTTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTA
130 ATGAACTCTTG-TAGTGTTTAGTTTGAT-TTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTA
* *
6146314 ATTTTATGCGAATAAGATTAAATTCTAGATTTTATATTAGAAGCAAGGCAAAAAAGAGGAGGCTG
193 ATTTTATGCAAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAAAGAGGAGGCTG
*
6146379 GGAGTGGATGACCAGCAAGAAGGGAAAGTTGCCTGAATTTGGTAAGCATATCAAGGATAGAGAAT
258 GGAGTGGATGACCAGCAAGAAGGGAAAGTTGGCTGAATTTGGTAAGCATAT-AAGGATAGAGAAT
*
6146444 ATCTCGAGTATTTGACACAAACAAAAAGAGGACTCATTGTCGGTCAAAGACAAAAAAGTGTGTTA
322 ATCTCGAGTATTTGACACAAACAAAAAGAGGACTCACTGTCGGTCAAAGACAAAAAAGTGTGTTA
*
6146509 CAATGTTTCGATGACATGACATTTCCACATCAGGTGCAATTATGGAGGTGATATTTGGGTAT-GA
387 CAATGTTTCGATGACATGACATTTCCACATCAGGTGCAATGATGGAGGTGATATTTGGGTATGGA
**
6146573 TTATTTGCAGGTGAAATAGGTGATTGATAGGTGTCTAGAGCTTTGAGCATTTGTTGGTCAGGCTA
452 TTATTTGCAGGTGAAATAGGCAATTGATAGGTGTCTAGAGCTTTGAGCATTTGTTGGTCAGGCTA
* ** * *
6146638 TTTTCCTAAGGTAGAGCATGCTAGAGGCTAGACACTTTTATTTCCTTTCATGAACTCTTTGTTAG
517 TTTTACTAAGGTAGAGCACACTAGAGGCTAGACACTCTTATTTCCTTTCATGAACTC-ATGTTAG
* * * * *
6146703 TGTTTAGTTTTAT-TTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTAATTTTATGGGAATAA
581 TGTTTAGTTTGATCTTTTGGATTTTACTCTTGGGTTTGAGTTTCAAAGTAAGTTTATGCGAACAA
*
6146767 GATTAAATTCTAGATTTGATATTAGAAGCAAGGAAAAAAAAAAGAGGCTAGGAGTGGATGACCAG
646 AATTAAATTCTAGATTTGATATTAGAAGCAAGGAAAAAAAAAAGAGGCTAGGAGTGGATGACCAG
* *
6146832 TAAGGAGGGAAAGTTGGCTGAATTTGGTAAGCATATTAAGGATAGAGAATATCTCTAGTATTTGA
711 TAAGAAGGGAAAGTTGGCTGAATTTGGTAAGCATATTAAGGATAGAGAATATCTCGAGTATTTGA
* * * *
6146897 CACAAACAAAAGGACGACTCATTGTCAGGCAAAGACAAAAAAGTGTGTTACAATGTTTTGATGAC
776 CACAAACAAAAAGACGACTCACTGTCAGGCAAAGACAAAAAAGTGTGTTACAATGTTTCGACGAC
6146962 ATGACATTTCCACATCAGGTGAAATGATGGAGGT
841 ATGACATTTCCACATCAGGTGAAATGATGGAGGT
* *
6146996 GATATTTGGGTATGGATTATTTGCAGGTGAAGTAGGTGATTGATAGGTGTCTAGAGCTTCGAGCA
1 GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTG-CTAGAGCTTTGAGCA
* *
6147061 TTTGTTGGTCAGGCTATTTTCCTAACGTAGAGTCTGCTAGAGGCTAGACACTCTTATTTCCTTTC
65 TTTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTAGACACTCTTATTTCCTTTC
**
6147126 ATGAACTCTTGTAAGTGTTTAGTTTGATTTTTGGATTTTATTCTCAGGTTTGAGTTTCAAAGTAA
130 ATGAACTCTTGT-AGTGTTTAGTTTGATTTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTAA
*
6147191 TTTTATGCAAATAAGATTAAATTCTAGATTTGATATTTGAAGCAAGGCAAAAAAGAGGAGGCTGG
194 TTTTATGCAAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAAAGAGGAGGCTGG
** *
6147256 GAGTGGACAACCAGCGAGAAGGGAAAGTTGGCTGAATTTGGTAAAGCATAATAAGGATAGAGAAT
259 GAGTGGATGACCAGCAAGAAGGGAAAGTTGGCTGAATTTGGT-AAGCAT-ATAAGGATAGAGAAT
* * * *
6147321 ATGTCGAGTATTTGACACAAACAAAAAGAGGACTCACTGTTGGGTGAAA-ACAAAAAAGTTTGTT
322 ATCTCGAGTATTTGACACAAACAAAAAGAGGACTCACTG-TCGGTCAAAGACAAAAAAGTGTGTT
* * * * *
6147385 GCAATGTTTTGAAGACATGAAATTTCCACATAAGGTGCAATGATGGAGGTGATAT
386 ACAATGTTTCGATGACATGACATTTCCACATCAGGTGCAATGATGGAGGTGATAT
6147440 AAATTGGGGT
Statistics
Matches: 1210, Mismatches: 90, Indels: 35
0.91 0.07 0.03
Matches are distributed among these distances:
869 5 0.00
870 206 0.17
871 162 0.13
872 2 0.00
874 1 0.00
876 136 0.11
877 638 0.53
878 58 0.05
879 2 0.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (874 bp):
GATATTTGGGTATGGATTATTTGCAGGTGAAATAGGTGATTGATAGGTGCTAGAGCTTTGAGCAT
TTGTTGGTCAGGCTATTTTCCTAAGGTAGAGTATGCTAGAGGCTAGACACTCTTATTTCCTTTCA
TGAACTCTTGTAGTGTTTAGTTTGATTTTTGGATTTTATTCTTGGGTTTGAGTTTCAAAGTAATT
TTATGCAAATAAGATTAAATTCTAGATTTGATATTAGAAGCAAGGCAAAAAAGAGGAGGCTGGGA
GTGGATGACCAGCAAGAAGGGAAAGTTGGCTGAATTTGGTAAGCATATAAGGATAGAGAATATCT
CGAGTATTTGACACAAACAAAAAGAGGACTCACTGTCGGTCAAAGACAAAAAAGTGTGTTACAAT
GTTTCGATGACATGACATTTCCACATCAGGTGCAATGATGGAGGTGATATTTGGGTATGGATTAT
TTGCAGGTGAAATAGGCAATTGATAGGTGTCTAGAGCTTTGAGCATTTGTTGGTCAGGCTATTTT
ACTAAGGTAGAGCACACTAGAGGCTAGACACTCTTATTTCCTTTCATGAACTCATGTTAGTGTTT
AGTTTGATCTTTTGGATTTTACTCTTGGGTTTGAGTTTCAAAGTAAGTTTATGCGAACAAAATTA
AATTCTAGATTTGATATTAGAAGCAAGGAAAAAAAAAAGAGGCTAGGAGTGGATGACCAGTAAGA
AGGGAAAGTTGGCTGAATTTGGTAAGCATATTAAGGATAGAGAATATCTCGAGTATTTGACACAA
ACAAAAAGACGACTCACTGTCAGGCAAAGACAAAAAAGTGTGTTACAATGTTTCGACGACATGAC
ATTTCCACATCAGGTGAAATGATGGAGGT
Found at i:6156200 original size:19 final size:19
Alignment explanation
Indices: 6156157--6156231 Score: 98
Period size: 18 Copynumber: 3.9 Consensus size: 19
6156147 TTAAAAAATT
*
6156157 AAAATAAAATATATAATATAA
1 AAAATAAAAT-TAAAATA-AA
* *
6156178 AAAATTATATTAAAATAAA
1 AAAATAAAATTAAAATAAA
6156197 AAAATAAAATTAAAAT-AA
1 AAAATAAAATTAAAATAAA
6156215 AAAATAAAATTAAAATA
1 AAAATAAAATTAAAATA
6156232 CATGATATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 18 0.38
19 16 0.33
20 6 0.12
21 8 0.17
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATAAAATTAAAATAAA
Found at i:6158537 original size:2 final size:2
Alignment explanation
Indices: 6158530--6158562 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6158520 GGTTGTCACT
6158530 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6158563 AGATCTCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6176537 original size:15 final size:15
Alignment explanation
Indices: 6176517--6176546 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6176507 AAAACTCGCT
6176517 TCATTTCTGATTGAC
1 TCATTTCTGATTGAC
6176532 TCATTTCTGATTGAC
1 TCATTTCTGATTGAC
6176547 GTGAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (15 bp):
TCATTTCTGATTGAC
Found at i:6180929 original size:2 final size:2
Alignment explanation
Indices: 6180924--6180954 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6180914 ATTGCGTGTG
*
6180924 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6180955 TTGATGTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6183569 original size:93 final size:92
Alignment explanation
Indices: 6183468--6183642 Score: 255
Period size: 93 Copynumber: 1.9 Consensus size: 92
6183458 TATAAATAGA
* * *
6183468 AAATAAAAATTATATTAATAATTTAATAATAAATTATT-A-ATGTTTAAGATTTTAATGAAAATA
1 AAATAAAAATCATATTAATAATTTAATAATAAATTATTAACAT-TTTAAAAATTTAATGAAAATA
*
6183531 GAAATTGAAAGATTAAAAAATACAAATAC
65 -AAATTAAAAGATTAAAAAATACAAATAC
* *
6183560 AAATAAAAAATCATATTAATAATTTAGTAATAAATTATTAACATTTTAAAAATTTAATGACAATA
1 AAAT-AAAAATCATATTAATAATTTAATAATAAATTATTAACATTTTAAAAATTTAATGAAAATA
6183625 AAATTAAAAGATTAAAAA
65 AAATTAAAAGATTAAAAA
6183643 GAAAAAATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
92 4 0.05
93 49 0.66
94 19 0.26
95 2 0.03
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (92 bp):
AAATAAAAATCATATTAATAATTTAATAATAAATTATTAACATTTTAAAAATTTAATGAAAATAA
AATTAAAAGATTAAAAAATACAAATAC
Found at i:6183853 original size:18 final size:19
Alignment explanation
Indices: 6183824--6183859 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
6183814 AATCAAATTG
6183824 TATAATAATAATTATTTTT
1 TATAATAATAATTATTTTT
6183843 TATAA-AATAATTATTTT
1 TATAATAATAATTATTTT
6183860 ATTCTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATAATAATAATTATTTTT
Found at i:6184431 original size:7 final size:7
Alignment explanation
Indices: 6184419--6184447 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
6184409 ATATTTTTTT
6184419 GGGTTTA
1 GGGTTTA
6184426 GGGTTTA
1 GGGTTTA
6184433 GGGTTTA
1 GGGTTTA
6184440 GGGTTTA
1 GGGTTTA
6184447 G
1 G
6184448 ATTTTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:6184604 original size:19 final size:20
Alignment explanation
Indices: 6184577--6184623 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
6184567 AAATCGAATT
6184577 AATCAAATTTA-ATTAATTTA
1 AATC-AATTTATATTAATTTA
*
6184597 AATCAA-TTATTTTAATTTA
1 AATCAATTTATATTAATTTA
*
6184616 CATCAATT
1 AATCAATT
6184624 AATACTCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 15 0.65
20 5 0.22
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (20 bp):
AATCAATTTATATTAATTTA
Found at i:6200202 original size:44 final size:42
Alignment explanation
Indices: 6200135--6200216 Score: 128
Period size: 44 Copynumber: 1.9 Consensus size: 42
6200125 TTTTTTGAAC
*
6200135 AAAATAAAAAATGAAAATCAATTTTAACATTTACATTATATT
1 AAAATAAAAAATGAAAATAAATTTTAACATTTACATTATATT
*
6200177 AAAATAAAAAAATTGAAACTAAATTTTAACATTTACATTA
1 AAAAT-AAAAAA-TGAAAATAAATTTTAACATTTACATTA
6200217 GTGTATAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 5 0.14
43 6 0.17
44 25 0.69
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (42 bp):
AAAATAAAAAATGAAAATAAATTTTAACATTTACATTATATT
Found at i:6203164 original size:12 final size:13
Alignment explanation
Indices: 6203147--6203175 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6203137 TACATATTAT
6203147 ATAAATTTT-TTA
1 ATAAATTTTCTTA
6203159 ATAAATTTTCTTA
1 ATAAATTTTCTTA
6203172 ATAA
1 ATAA
6203176 CCTACCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAAATTTTCTTA
Found at i:6203281 original size:19 final size:19
Alignment explanation
Indices: 6203248--6203316 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
6203238 CGTGACTCAA
*
6203248 TTTTAATGTTGTTTTTGTTT
1 TTTTAAT-TTATTTTTGTTT
*
6203268 TTTTAATTTATTTTTATTAT
1 TTTTAATTTATTTTTGTT-T
* *
6203288 TTTTTATTTATTTATTGTTA
1 TTTTAATTTATTT-TTGTTT
6203308 TTTT-ATTTA
1 TTTTAATTTA
6203317 CTCATATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 14 0.33
20 24 0.57
21 4 0.10
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (19 bp):
TTTTAATTTATTTTTGTTT
Found at i:6203292 original size:21 final size:21
Alignment explanation
Indices: 6203266--6203311 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6203256 TTGTTTTTGT
6203266 TTTTTTAATTTATTT-TTATTA
1 TTTTTT-ATTTATTTATTATTA
*
6203287 TTTTTTATTTATTTATTGTTA
1 TTTTTTATTTATTTATTATTA
6203308 TTTT
1 TTTT
6203312 ATTTACTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTTATTTATTTATTATTA
Found at i:6203300 original size:24 final size:23
Alignment explanation
Indices: 6203265--6203309 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
6203255 GTTGTTTTTG
*
6203265 TTTTTTTAATTTATTTTTATTAT
1 TTTTTTTAATTTATTGTTATTAT
*
6203288 TTTTTATTTATTTATTGTTATT
1 TTTTT-TTAATTTATTGTTATT
6203310 TTATTTACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTTTAATTTATTGTTATTAT
Found at i:6204149 original size:2 final size:2
Alignment explanation
Indices: 6204142--6204178 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6204132 CCATTCAGTC
6204142 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6204179 ACACCATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6209172 original size:78 final size:78
Alignment explanation
Indices: 6208937--6209513 Score: 587
Period size: 78 Copynumber: 7.4 Consensus size: 78
6208927 AGAAAAGTCA
* * * *
6208937 TCATTTGCTAACGATTTCGAGCCGAGGCCGAGTGTTACTGCTTACACTGACGATGTTGGCCTTAA
1 TCATTTGCTAAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACACCGACGATGTTGGCCTTAA
*** *
6209002 AGGGAAGAAATTG
66 AAAAAAGAAGTTG
* * * ** * * **
6209015 TCATCATTTGCTAAAAGCTTT-GACCCCAAACCAAGTGCTACAGCTTATACTC-ACGACATTGG-
1 ---TCATTTGCT-AAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACAC-CGACGATGTTGGC
** *
6209077 -TT-CTAAAGAGAAGTTG
61 CTTAAAAAAAAGAAGTTG
** * * * * * * * *
6209093 TCAAGTGCTAATGATTTCGAACCGAGACCAGGTGTTCCTGCTTGCACCGACGATGTTGGCCTTAG
1 TCATTTGCTAAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACACCGACGATGTTGGCCTTAA
*
6209158 AGAAAAGAAGTTG
66 AAAAAAGAAGTTG
* * * * *
6209171 TCATTTGCTAATGATTTCGAGCCGAGGCCAGGTGTTACTGCTTACACAGACGATGTTGGTCTTAA
1 TCATTTGCTAAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACACCGACGATGTTGGCCTTAA
* * *
6209236 AGAAAACAAATTG
66 AAAAAAGAAGTTG
* ***
6209249 GCATTTGCTAAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACGTTGACGATGTTGGCCTTAA
1 TCATTTGCTAAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACACCGACGATGTTGGCCTTAA
6209314 AAAAAAGAAGTTG
66 AAAAAAGAAGTTG
* ***
6209327 GCATTTGCTAAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACGTTGACGATGTTGGCCTTAA
1 TCATTTGCTAAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACACCGACGATGTTGGCCTTAA
6209392 AAAAAAGAAGTTG
66 AAAAAAGAAGTTG
*
6209405 ACATTTGCTAAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACACCGACGATGTTGGCC-T-A
1 TCATTTGCTAAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACACCGACGATGTTGGCCTTAA
6209468 AAAAAA-AAGTTG
66 AAAAAAGAAGTTG
* *
6209480 TCATTTGTTAATGATTTC-ACGCCGAGGCCAAGTG
1 TCATTTGCTAAAGATTTCGA-GCCGAGGCCAAGTG
6209514 TTGCCGTTGA
Statistics
Matches: 420, Mismatches: 68, Indels: 22
0.82 0.13 0.04
Matches are distributed among these distances:
74 8 0.02
75 70 0.17
76 7 0.02
77 3 0.01
78 286 0.68
79 2 0.00
81 38 0.09
82 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (78 bp):
TCATTTGCTAAAGATTTCGAGCCGAGGCCAAGTGCTACTGCTTACACCGACGATGTTGGCCTTAA
AAAAAAGAAGTTG
Found at i:6210167 original size:14 final size:14
Alignment explanation
Indices: 6210148--6210184 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6210138 GTTTGCATAT
6210148 ATATATATATACAC
1 ATATATATATACAC
*
6210162 ATATATATATACAT
1 ATATATATATACAC
*
6210176 ATATGTATA
1 ATATATATA
6210185 ATTAATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (14 bp):
ATATATATATACAC
Found at i:6210184 original size:12 final size:12
Alignment explanation
Indices: 6210144--6210184 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
6210134 ATAAGTTTGC
*
6210144 ATATATATATAT
1 ATATACATATAT
*
6210156 ATACACATATAT
1 ATATACATATAT
6210168 ATATACATATAT
1 ATATACATATAT
*
6210180 GTATA
1 ATATA
6210185 ATTAATGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (12 bp):
ATATACATATAT
Found at i:6212122 original size:2 final size:2
Alignment explanation
Indices: 6212115--6212141 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6212105 ATTTAATTCA
6212115 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6212142 GATTTGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6212190 original size:19 final size:19
Alignment explanation
Indices: 6212163--6212203 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
6212153 ATTGAATAAA
* * *
6212163 AAATTATTTAAATTTTTTT
1 AAATAATTTAAAATTTTAT
6212182 AAATAATTTAAAATTTTAT
1 AAATAATTTAAAATTTTAT
6212201 AAA
1 AAA
6212204 AATATTATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATAATTTAAAATTTTAT
Found at i:6213721 original size:45 final size:45
Alignment explanation
Indices: 6213638--6213866 Score: 225
Period size: 45 Copynumber: 5.2 Consensus size: 45
6213628 CACATTAAGA
* * *
6213638 TGTTACACACCATG-ACAGAAACATGTCACACG-CTATGGTTAGGT
1 TGTTACACGCCATGTACAAAAACATGTGACACGTC-ATGGTTAGGT
* * *
6213682 TGTTATACGCCATGTACAAAAACGTGTGACACGTCATGGTTAGAT
1 TGTTACACGCCATGTACAAAAACATGTGACACGTCATGGTTAGGT
* * *
6213727 TGTTACACGCTATGTACAAAAACATGTTG-CATGTCATGATTAGGT
1 TGTTACACGCCATGTACAAAAACATG-TGACACGTCATGGTTAGGT
* * * * *
6213772 TGTTATACGTCATGTACAAAAACGTGTGACACGTTATGGTTAAGT
1 TGTTACACGCCATGTACAAAAACATGTGACACGTCATGGTTAGGT
* * * * * *
6213817 TGTTAAACGCTATGT--AAAAATATGTTACATGCCATGGTTAGGT
1 TGTTACACGCCATGTACAAAAACATGTGACACGTCATGGTTAGGT
6213860 TGTTACA
1 TGTTACA
6213867 TACTATGTTA
Statistics
Matches: 150, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
43 27 0.18
44 14 0.09
45 106 0.71
46 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (45 bp):
TGTTACACGCCATGTACAAAAACATGTGACACGTCATGGTTAGGT
Found at i:6213811 original size:90 final size:88
Alignment explanation
Indices: 6213656--6213864 Score: 285
Period size: 90 Copynumber: 2.4 Consensus size: 88
6213646 ACCATGACAG
* * * *
6213656 AAACATGTCACACGCTATGGTTAGGTTGTTATACGCCATGTACAAAAACGTGTGACACGTCATGG
1 AAACATGTTACATGCCATGATTAGGTTGTTATACGCCATGTACAAAAACGTGTGACACGTCATGG
*
6213721 TT-AGATTGTTACACGCTATGTACAA
66 TTAAG-TTGTTAAACGCTATGT--AA
* * * *
6213746 AAACATGTTGCATGTCATGATTAGGTTGTTATACGTCATGTACAAAAACGTGTGACACGTTATGG
1 AAACATGTTACATGCCATGATTAGGTTGTTATACGCCATGTACAAAAACGTGTGACACGTCATGG
6213811 TTAAGTTGTTAAACGCTATGTAA
66 TTAAGTTGTTAAACGCTATGTAA
* *
6213834 AAATATGTTACATGCCATGGTTAGGTTGTTA
1 AAACATGTTACATGCCATGATTAGGTTGTTA
6213865 CATACTATGT
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
88 29 0.28
90 74 0.70
91 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (88 bp):
AAACATGTTACATGCCATGATTAGGTTGTTATACGCCATGTACAAAAACGTGTGACACGTCATGG
TTAAGTTGTTAAACGCTATGTAA
Found at i:6226709 original size:33 final size:33
Alignment explanation
Indices: 6226653--6226739 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
6226643 TCCATCATCT
* * * *
6226653 TCATCTTCATCCTCTTCACCACCACCACC-CCC
1 TCATCGTCATCATCATCATCACCACCACCACCC
*
6226685 GTCATCGTCATTATCATCATCACCACCACCACCC
1 -TCATCGTCATCATCATCATCACCACCACCACCC
*
6226719 TCTTCGTCATCATCATCATCA
1 TCATCGTCATCATCATCATCA
6226740 TCGTCACCCC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
33 43 0.93
34 3 0.07
ACGTcount: A:0.23, C:0.46, G:0.03, T:0.28
Consensus pattern (33 bp):
TCATCGTCATCATCATCATCACCACCACCACCC
Found at i:6226715 original size:36 final size:38
Alignment explanation
Indices: 6226653--6226754 Score: 118
Period size: 39 Copynumber: 2.7 Consensus size: 38
6226643 TCCATCATCT
* * *
6226653 TCATCTTCATCCTCTTCACCACCACCACCC-C-CGTCA
1 TCATCATCATCATCATCACCACCACCACCCTCTCGTCA
* *
6226689 TCGTCATTATCATCATCACCACCACCACCCTCTTCGTCA
1 TCATCATCATCATCATCACCACCACCACCCTC-TCGTCA
* *
6226728 TCATCATCATCATCGTCACCCCCACCA
1 TCATCATCATCATCATCACCACCACCA
6226755 TCACCTCCAC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
36 25 0.46
37 1 0.02
39 28 0.52
ACGTcount: A:0.23, C:0.48, G:0.04, T:0.25
Consensus pattern (38 bp):
TCATCATCATCATCATCACCACCACCACCCTCTCGTCA
Found at i:6257838 original size:24 final size:24
Alignment explanation
Indices: 6257817--6257866 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
6257807 AAGCTATAAT
*
6257817 TATATTATATTATATATATATATA
1 TATATTAAATTATATATATATATA
* *
6257841 TATATTAAATTTTATATATTTATA
1 TATATTAAATTATATATATATATA
6257865 TA
1 TA
6257867 ATAATAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TATATTAAATTATATATATATATA
Found at i:6257840 original size:26 final size:25
Alignment explanation
Indices: 6257811--6257869 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
6257801 AGATGAAAGC
*
6257811 TATAATTATATTATATTATATATATA
1 TATAA-TATATTAAATTATATATATA
*
6257837 TAT-ATATATTAAATTTTATATATTTA
1 TATAATATATTAAA--TTATATATATA
6257863 TATAATA
1 TATAATA
6257870 ATAAAAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 8 0.29
25 1 0.04
26 16 0.57
27 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TATAATATATTAAATTATATATATA
Found at i:6260128 original size:17 final size:18
Alignment explanation
Indices: 6260094--6260134 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
6260084 ATGTAAATCA
*
6260094 AATAT-TATTTAATATTT
1 AATATATATCTAATATTT
6260111 AATATATATCTAAT-TTT
1 AATATATATCTAATATTT
6260128 AATATAT
1 AATATAT
6260135 TTTTTATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
AATATATATCTAATATTT
Found at i:6292842 original size:2 final size:2
Alignment explanation
Indices: 6292835--6292860 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6292825 TCTTTGCTTT
6292835 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
6292861 CAAATCCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6301852 original size:37 final size:38
Alignment explanation
Indices: 6301811--6301899 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 38
6301801 TATTTCCTTG
* * *
6301811 TTCTCATCTTTT-ATCCCTCTCCAGATCCATCATTTTC
1 TTCTCCTCTTTTCATACCTCTCCAGATCCATCATCTTC
* * *
6301848 TTCTCCTCTTCTTCCATATCTCTCCAGCTCCGTCATCTTC
1 TTCTCCTCTT-TT-CATACCTCTCCAGATCCATCATCTTC
6301888 TTCTCCTCTTTT
1 TTCTCCTCTTTT
6301900 TTCATCAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
37 9 0.21
38 2 0.05
39 2 0.05
40 30 0.70
ACGTcount: A:0.11, C:0.38, G:0.03, T:0.47
Consensus pattern (38 bp):
TTCTCCTCTTTTCATACCTCTCCAGATCCATCATCTTC
Found at i:6302817 original size:20 final size:20
Alignment explanation
Indices: 6302792--6302829 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6302782 AAATTGAAAT
6302792 AATTT-AATTATTTAATTTTA
1 AATTTAAATTA-TTAATTTTA
6302812 AATTTAAATTATTAATTT
1 AATTTAAATTATTAATTT
6302830 GAATCTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTTAAATTATTAATTTTA
Found at i:6304715 original size:15 final size:15
Alignment explanation
Indices: 6304695--6304733 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
6304685 TTCTTTTACC
* *
6304695 TTTTTAATTTATTTG
1 TTTTTAATTTAATTA
6304710 TTTTTAATTTAATTA
1 TTTTTAATTTAATTA
6304725 TTTTTAATT
1 TTTTTAATT
6304734 CAGATCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTTAATTTAATTA
Found at i:6305061 original size:27 final size:27
Alignment explanation
Indices: 6304947--6305065 Score: 73
Period size: 27 Copynumber: 4.3 Consensus size: 27
6304937 TGGTGGCGGC
*
6304947 GGTGGATATGGAGGT---CGCCGTGAG
1 GGTGGATACGGAGGTGGACGCCGTGAG
* * *
6304971 GGAGGTTACGGAGGTGGTCGCCGTGAG
1 GGTGGATACGGAGGTGGACGCCGTGAG
* * *** *
6304998 GGTGGATATGGAAATGGTGGAGGATATGGCGG
1 GGTGGATACGG--A-GGTGGACGCCGT-G-AG
6305030 TGGTGGATACGGAGGTGGACGCCGTGAG
1 -GGTGGATACGGAGGTGGACGCCGTGAG
6305058 GGTGGATA
1 GGTGGATA
6305066 TGGTGATGGT
Statistics
Matches: 68, Mismatches: 18, Indels: 15
0.67 0.18 0.15
Matches are distributed among these distances:
24 12 0.18
27 25 0.37
28 1 0.01
29 2 0.03
30 15 0.22
31 2 0.03
32 1 0.01
33 10 0.15
ACGTcount: A:0.19, C:0.10, G:0.50, T:0.20
Consensus pattern (27 bp):
GGTGGATACGGAGGTGGACGCCGTGAG
Found at i:6317305 original size:3 final size:3
Alignment explanation
Indices: 6317297--6317323 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6317287 CATTTTGAAG
6317297 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
6317324 AAAAATCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6322858 original size:17 final size:18
Alignment explanation
Indices: 6322826--6322859 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6322816 TAAACTTTTT
*
6322826 TTTAAAAAAATTTTATTC
1 TTTAAAAAAATATTATTC
6322844 TTTAAAAAAA-ATTATT
1 TTTAAAAAAATATTATT
6322860 ATTTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAAAAAAATATTATTC
Found at i:6322865 original size:18 final size:18
Alignment explanation
Indices: 6322823--6322868 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
6322813 CTTTAAACTT
*
6322823 TTTTTTAAAAAAATTTTA
1 TTTTTAAAAAAAATTTTA
6322841 TTCTTTAAAAAAAATTATTA
1 TT-TTTAAAAAAAATT-TTA
6322861 -TTTTAAAA
1 TTTTTAAAA
6322869 CTTTTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 9 0.36
19 13 0.52
20 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTTAAAAAAAATTTTA
Found at i:6325377 original size:28 final size:28
Alignment explanation
Indices: 6325337--6325391 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
6325327 AAAGTGATGA
6325337 TCACCAATGAGTTCTCCCATAATCTTCT
1 TCACCAATGAGTTCTCCCATAATCTTCT
6325365 TCACCAATGAGTTCTCCCATAATCTTC
1 TCACCAATGAGTTCTCCCATAATCTTC
6325392 CTCAACGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.33, G:0.07, T:0.35
Consensus pattern (28 bp):
TCACCAATGAGTTCTCCCATAATCTTCT
Found at i:6333534 original size:15 final size:16
Alignment explanation
Indices: 6333503--6333537 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6333493 ATAATTTTTT
*
6333503 AATTTTTAAAAATTAA
1 AATTATTAAAAATTAA
6333519 AATTATTAAAAA-TAA
1 AATTATTAAAAATTAA
6333534 AATT
1 AATT
6333538 TACATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTATTAAAAATTAA
Found at i:6343151 original size:30 final size:29
Alignment explanation
Indices: 6343115--6343193 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
6343105 TCTTCTTCTA
* *
6343115 CTTCTTCTTCTCCATT-GTCTTCATCAACCT
1 CTTCTTCTTCT-C-TTCCTCTTCATCAACAT
*
6343145 CTTCTTCTTCATCTTCCTCTTCATCATCAT
1 CTTCTTCTTC-TCTTCCTCTTCATCAACAT
6343175 CTTCTTC-T-TCTTCCTCTTC
1 CTTCTTCTTCTCTTCCTCTTC
6343194 CCTATCCCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 11 0.25
29 3 0.07
30 29 0.66
31 1 0.02
ACGTcount: A:0.10, C:0.38, G:0.01, T:0.51
Consensus pattern (29 bp):
CTTCTTCTTCTCTTCCTCTTCATCAACAT
Found at i:6343159 original size:12 final size:12
Alignment explanation
Indices: 6343104--6343187 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
6343094 CTTCATCGCT
*
6343104 ATCTTCTTCTAC
1 ATCTTCTTCTTC
* *
6343116 TTCTTCTTCTCC
1 ATCTTCTTCTTC
*
6343128 AT-TGTCTTCATC
1 ATCT-TCTTCTTC
6343140 AACCTCTTCTTCTTC
1 -A--TCTTCTTCTTC
*
6343155 ATCTTCCTCTTC
1 ATCTTCTTCTTC
* *
6343167 ATCATCATCTTC
1 ATCTTCTTCTTC
*
6343179 TTCTTCTTC
1 ATCTTCTTC
6343188 CTCTTCCCTA
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
11 1 0.02
12 43 0.78
13 1 0.02
14 1 0.02
15 8 0.15
16 1 0.02
ACGTcount: A:0.12, C:0.36, G:0.01, T:0.51
Consensus pattern (12 bp):
ATCTTCTTCTTC
Found at i:6343163 original size:18 final size:18
Alignment explanation
Indices: 6343132--6343187 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
6343122 TTCTCCATTG
**
6343132 TCTTCATCAACCTCTTCT
1 TCTTCATCTTCCTCTTCT
*
6343150 TCTTCATCTTCCTCTTCA
1 TCTTCATCTTCCTCTTCT
* *
6343168 TCATCATCTTCTTCTTCT
1 TCTTCATCTTCCTCTTCT
6343186 TC
1 TC
6343188 CTCTTCCCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.12, C:0.38, G:0.00, T:0.50
Consensus pattern (18 bp):
TCTTCATCTTCCTCTTCT
Found at i:6353307 original size:28 final size:28
Alignment explanation
Indices: 6353247--6353306 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
6353237 TTTTAAATTA
* *
6353247 TTTTAATAAATTTAAATAATTTTTTATT
1 TTTTAATAAATTTAAATAATCTTATATT
* *
6353275 TTTTATTAAATTTAATTAAGTCTTATATT
1 TTTTAATAAATTTAAATAA-TCTTATATT
6353304 TTT
1 TTT
6353307 AATTTTGATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTAATAAATTTAAATAATCTTATATT
Found at i:6361738 original size:33 final size:33
Alignment explanation
Indices: 6361663--6361731 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
6361653 TGTTATAATT
6361663 AAATAAAAATTATTAAAACAAAATATATAATATAA
1 AAATAAAAA--ATTAAAACAAAATATATAATATAA
* *
6361698 GAATAAAAAATTAAAATAAAATA-A-AATATAA
1 AAATAAAAAATTAAAACAAAATATATAATATAA
6361729 AAA
1 AAA
6361732 ATTAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 9 0.29
32 1 0.03
33 13 0.42
35 8 0.26
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (33 bp):
AAATAAAAAATTAAAACAAAATATATAATATAA
Found at i:6361809 original size:50 final size:51
Alignment explanation
Indices: 6361686--6361815 Score: 131
Period size: 50 Copynumber: 2.5 Consensus size: 51
6361676 TAAAACAAAA
*
6361686 TATATAATATAAGAATAAAAAATTAAAATAAAATAAAATATAAAAAATTAAAATT
1 TATATAATA-AA-AAT-AAAAA-TAAAATAAAATAAAATATAAAAAATAAAAATT
* ** * * *
6361741 TATATAATATAGGT-AAAATAAATTAAAATAAAATATATAATATAAAAA-T
1 TATATAATAAAAATAAAAATAAAATAAAATAAAATATAAAAAATAAAAATT
6361790 TATATTAA-AAAAATAAAAATAAAATA
1 TATA-TAATAAAAATAAAAATAAAATA
6361816 TATAAGATTA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
49 8 0.13
50 39 0.63
51 4 0.06
53 1 0.02
54 1 0.02
55 9 0.15
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (51 bp):
TATATAATAAAAATAAAAATAAAATAAAATAAAATATAAAAAATAAAAATT
Found at i:6361813 original size:55 final size:55
Alignment explanation
Indices: 6361705--6361815 Score: 127
Period size: 55 Copynumber: 2.0 Consensus size: 55
6361695 TAAGAATAAA
* * * * **
6361705 AAATTAAAATAAAATAAAATATAAAAAATTAAAATTTATATAATATAGGTAAAAT
1 AAATTAAAATAAAATAAAATATAAAAAATTAAAATTAAAAAAATAAAAATAAAAT
*
6361760 AAATTAAAATAAAATATATAATAT-AAAAATT-ATATTAAAAAAATAAAAATAAAAT
1 AAATTAAAATAAAATA-A-AATATAAAAAATTAAAATTAAAAAAATAAAAATAAAAT
6361815 A
1 A
6361816 TATAAGATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
55 34 0.72
56 8 0.17
57 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (55 bp):
AAATTAAAATAAAATAAAATATAAAAAATTAAAATTAAAAAAATAAAAATAAAAT
Found at i:6361816 original size:33 final size:33
Alignment explanation
Indices: 6361765--6361851 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 33
6361755 AAAATAAATT
* *
6361765 AAAATAAAATATATAATATA-AAAATTATATTAAA
1 AAAATAAAA-ATAAAATATATAAAATTATAAT-AA
*
6361799 AAAATAAAAATAAAATATATAAGATTATAATAA
1 AAAATAAAAATAAAATATATAAAATTATAATAA
*
6361832 TAAATAAAAATAAAATATAT
1 AAAATAAAAATAAAATATAT
6361852 GACATTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
33 30 0.62
34 18 0.38
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (33 bp):
AAAATAAAAATAAAATATATAAAATTATAATAA
Found at i:6361841 original size:40 final size:39
Alignment explanation
Indices: 6361760--6361846 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
6361750 TAGGTAAAAT
* * * *
6361760 AAATTAAAATAAAATATATAATATAAAAATTATATTAAAA
1 AAATAAAAATAAAATATATAAGATAAAAATAATAAT-AAA
* *
6361800 AAATAAAAATAAAATATATAAGATTATAATAATAA-ATAA
1 AAATAAAAATAAAATATATAAGATAAAAATAATAATA-AA
6361839 AAATAAAA
1 AAATAAAA
6361847 TATATGACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.03
39 10 0.25
40 29 0.73
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (39 bp):
AAATAAAAATAAAATATATAAGATAAAAATAATAATAAA
Found at i:6364159 original size:39 final size:39
Alignment explanation
Indices: 6364116--6364201 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
6364106 CGATTTATTT
* * * *
6364116 TTTAAATAAAAGATCATATATTAATTAATAAATTAAATA
1 TTTAAATAAAAGATCATACATCAACTAATAAATCAAATA
* *
6364155 TTTAAATAAAATATTATACATCAACTAATAAATCAAATA
1 TTTAAATAAAAGATCATACATCAACTAATAAATCAAATA
*
6364194 TTCAAATA
1 TTTAAATA
6364202 TTATTTTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.36
Consensus pattern (39 bp):
TTTAAATAAAAGATCATACATCAACTAATAAATCAAATA
Found at i:6369312 original size:59 final size:59
Alignment explanation
Indices: 6369217--6369340 Score: 230
Period size: 59 Copynumber: 2.1 Consensus size: 59
6369207 TACAAATATC
6369217 TTGATATGCTATATCAACTTGGCTATGATTAAAATTATCACAAGATTTTTCAGTGATGT
1 TTGATATGCTATATCAACTTGGCTATGATTAAAATTATCACAAGATTTTTCAGTGATGT
* *
6369276 TTGATGTGCTATATCAACTTGGCTATGATTATAATTATCACAAGATTTTTCAGTGATGT
1 TTGATATGCTATATCAACTTGGCTATGATTAAAATTATCACAAGATTTTTCAGTGATGT
6369335 TTGATA
1 TTGATA
6369341 AAATTTAAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (59 bp):
TTGATATGCTATATCAACTTGGCTATGATTAAAATTATCACAAGATTTTTCAGTGATGT
Found at i:6369668 original size:25 final size:26
Alignment explanation
Indices: 6369635--6369735 Score: 82
Period size: 25 Copynumber: 4.0 Consensus size: 26
6369625 AGATTATAGG
* * *
6369635 TATCCATCCATTTTTATTG-TAAAAT
1 TATCCATCCACTTCTAGTGATAAAAT
*
6369660 TATCTATCCACTTCTAGTGATAAAAT
1 TATCCATCCACTTCTAGTGATAAAAT
* ** * * *
6369686 TATTC-TTAAATTCAAATGATAAAA-
1 TATCCATCCACTTCTAGTGATAAAAT
*
6369710 TATCCATCCACTTCTAGTGGTAAAAT
1 TATCCATCCACTTCTAGTGATAAAAT
6369736 AATAATTAAA
Statistics
Matches: 55, Mismatches: 18, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
24 4 0.07
25 42 0.76
26 9 0.16
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (26 bp):
TATCCATCCACTTCTAGTGATAAAAT
Found at i:6369988 original size:53 final size:54
Alignment explanation
Indices: 6369852--6369989 Score: 143
Period size: 53 Copynumber: 2.5 Consensus size: 54
6369842 AATGATGCCG
* * *
6369852 CATTCACTTCAGGGAATGAATGAATTTATAATTTTTTTTATTAGTATCTTATTTGTCA
1 CATTCACTTCAGGGAATGAA-G-ATTCATAA--TTTTTTATTAGTAGCTCATTTGTCA
** ** *
6369910 CATTCACAACAGAAAATGAATATTCATAA-TTTTTATTAGTAGCTCATTTGTCA
1 CATTCACTTCAGGGAATGAAGATTCATAATTTTTTATTAGTAGCTCATTTGTCA
* *
6369963 TATTCACTTCAGGGAATGGAGATTCAT
1 CATTCACTTCAGGGAATGAAGATTCAT
6369990 GGTTTTTCAT
Statistics
Matches: 65, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
53 42 0.65
56 7 0.11
58 16 0.25
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (54 bp):
CATTCACTTCAGGGAATGAAGATTCATAATTTTTTATTAGTAGCTCATTTGTCA
Found at i:6370550 original size:17 final size:18
Alignment explanation
Indices: 6370509--6370550 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
6370499 AATATTCATA
*
6370509 ATAATAAATTAAATATAT
1 ATAAAAAATTAAATATAT
*
6370527 ATAAAAAATTTAATA-AT
1 ATAAAAAATTAAATATAT
*
6370544 TTAAAAA
1 ATAAAAA
6370551 CTTCTTTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAAAAATTAAATATAT
Done.