Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 169 of 320
Found at i:55851530 original size:325 final size:325
Alignment explanation
Indices: 55850912--55851878 Score: 1674
Period size: 325 Copynumber: 3.0 Consensus size: 325
55850902 GTTGATGAAG
55850912 ACCCTGGCATGTTTTTGACTCTCTCTC-T--TCTTGGAAACAATCATTGTATCAAGACAATAATT
1 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
*
55850974 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAATATTTTAGA
66 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
*
55851039 GGGATAATAATGAAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
131 GGGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
* ** *
55851104 GAGGTTGAGACACTTATTATTGTATGGGGTAATTTATAAATATAGGAACTGGTCGAGTAAATGCC
196 GAGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCTAGTAAATGCC
*
55851169 GTTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
261 TTTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
*
55851234 ACCCTGGCATGTTTTTGCCTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
1 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
*
55851299 TCTGTCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
66 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
*
55851364 GGGATAATAACGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
131 GGGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
* *
55851429 GAGGTTGAGACACTTATTGTTTTATGGGGTAATTTATCCATATGGGAACTGGTCTAGTAAATGCC
196 GAGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCTAGTAAATGCC
* * * *
55851494 TTTATGATCAGTTGAATCTTAAATAACCTTGGGGCTTGCCCCATGCGTGGTTACCTTTTTATTTT
261 TTTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
55851559 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
1 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
*
55851624 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAGCA-TTTAGA
66 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
*
55851688 GAGATAATAATGTAGAGAAGGGAAATCATAGTG-TTTTTTATTTTATTTCAAGCAAGCAACAGAG
131 GGGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
* * * *
55851752 GAGGTTGAAACACTTACTGTTGTATGGGGTAATTTATCCATATAGCAACTGTTCTTGAGTAAATG
196 GAGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTC-T-AGTAAATG
*
55851817 CCTTTCTGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTT
259 CCTTTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTT
55851879 CTCCAAAGGG
Statistics
Matches: 608, Mismatches: 32, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
322 26 0.04
323 80 0.13
324 38 0.06
325 464 0.76
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (325 bp):
ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
GGGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
GAGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCTAGTAAATGCC
TTTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
Found at i:55865784 original size:24 final size:24
Alignment explanation
Indices: 55865757--55865803 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
55865747 TTTTTACTTT
*
55865757 TTTATGTGATTG-ATATTTTAATAA
1 TTTAT-TGATTGAATATATTAATAA
*
55865781 TTTATTTATTGAATATATTAATA
1 TTTATTGATTGAATATATTAATA
55865804 TAATTGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (24 bp):
TTTATTGATTGAATATATTAATAA
Found at i:55866801 original size:18 final size:19
Alignment explanation
Indices: 55866757--55866805 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
55866747 GGTATCAATT
**
55866757 TCACATTTTATTTCTAAAA
1 TCACATTTTATTTAAAAAA
*
55866776 TAAC-TTTTA-TTAAAAAA
1 TCACATTTTATTTAAAAAA
55866793 TCACATTTT-TTTA
1 TCACATTTTATTTA
55866806 TATTTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TCACATTTTATTTAAAAAA
Found at i:55867142 original size:19 final size:20
Alignment explanation
Indices: 55867109--55867163 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
55867099 TTTAAAAAAA
*
55867109 TATAAA-ATTTGGAATTT-T
1 TATAAATATTTTGAATTTAT
55867127 TATAAATATTTTGAATTTAT
1 TATAAATATTTTGAATTTAT
*
55867147 GA-AAATTATTTTGAATT
1 TATAAA-TATTTTGAATT
55867164 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.19
19 13 0.41
20 13 0.41
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (20 bp):
TATAAATATTTTGAATTTAT
Found at i:55871761 original size:27 final size:27
Alignment explanation
Indices: 55871722--55871899 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
55871712 ACATTGAGCC
* * * *
55871722 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
55871749 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
55871776 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
55871804 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55871831 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
55871858 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
55871885 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
55871900 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55871861 original size:82 final size:81
Alignment explanation
Indices: 55871743--55871898 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
55871733 TGCTATATAA
* * * **
55871743 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
55871808 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55871825 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
55871889 CCCTTAGTGC
65 CACTTAGTGC
55871899 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55879748 original size:27 final size:27
Alignment explanation
Indices: 55879709--55879886 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
55879699 ACATTGAGCC
* * * *
55879709 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
55879736 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
55879763 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
55879791 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55879818 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
55879845 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
55879872 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
55879887 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55879848 original size:82 final size:81
Alignment explanation
Indices: 55879730--55879885 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
55879720 TGCTATATAA
* * * **
55879730 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
55879795 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55879812 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
55879876 CCCTTAGTGC
65 CACTTAGTGC
55879886 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55883902 original size:41 final size:40
Alignment explanation
Indices: 55883805--55883916 Score: 135
Period size: 41 Copynumber: 2.9 Consensus size: 40
55883795 TACAAAGGGT
* *
55883805 AATGCGATG-CATGTCC-ACATGGTCTTACA-TGTCTTAC
1 AATGCGATGCCATGTCCAACATGGTCTTACACTGACCTAC
*
55883842 ATCAGGC-ATGCCATGTCCAACATGGTCTTACACTGACCTATC
1 A--ATGCGATGCCATGTCCAACATGGTCTTACACTGACCTA-C
55883884 AATGCGATGCCATGTCCAACATGGTC-TACACTG
1 AATGCGATGCCATGTCCAACATGGTCTTACACTG
55883917 CTCAATTCGA
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
37 1 0.02
38 3 0.05
39 10 0.16
40 23 0.36
41 25 0.39
42 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (40 bp):
AATGCGATGCCATGTCCAACATGGTCTTACACTGACCTAC
Found at i:55900900 original size:27 final size:27
Alignment explanation
Indices: 55900883--55901089 Score: 216
Period size: 27 Copynumber: 7.6 Consensus size: 27
55900873 ATATTAAGTC
55900883 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
55900910 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
55900938 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
55900965 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
55900993 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
55901020 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
55901048 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
55901075 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
55901090 GCACAATTTA
Statistics
Matches: 173, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
27 93 0.54
28 80 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:55900967 original size:55 final size:55
Alignment explanation
Indices: 55900883--55901089 Score: 369
Period size: 55 Copynumber: 3.8 Consensus size: 55
55900873 ATATTAAGTC
* * * *
55900883 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
55900938 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
55900993 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
55901048 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
55901090 GCACAATTTA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:55908835 original size:28 final size:27
Alignment explanation
Indices: 55908772--55908923 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
55908762 ATATTAAGTC
* * *
55908772 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
55908799 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
55908827 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
55908854 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* *
55908882 CGCACACTTAGTACTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
55908909 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55908924 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:55908856 original size:55 final size:55
Alignment explanation
Indices: 55908772--55908923 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
55908762 ATATTAAGTC
* * *
55908772 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
55908827 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
55908882 CGCACACTTAGTACTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
55908924 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:55917948 original size:53 final size:52
Alignment explanation
Indices: 55917807--55917966 Score: 191
Period size: 52 Copynumber: 3.1 Consensus size: 52
55917797 TGACAGAAAA
* * *
55917807 GATGTGATATATGATTCCGTATAAGACCATAGTC-GGGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATA-TCTGGGATATGGCATCGGTAT
* * * *
55917859 AATGTGAT-TCGTG-TTCCCGTATAAGACCATAGCTGGGTTATGGCATCGGTGT
1 GATGTGATAT-GTGATT-CCGTATAAGACCATATCTGGGATATGGCATCGGTAT
*
55917911 GATGTGATAATGTGATTTCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
55917964 GAT
1 GAT
55917967 ATGTGATCCG
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
51 4 0.04
52 46 0.51
53 38 0.42
54 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
Found at i:55917985 original size:46 final size:52
Alignment explanation
Indices: 55917810--55918010 Score: 154
Period size: 52 Copynumber: 4.0 Consensus size: 52
55917800 CAGAAAAGAT
* * ***
55917810 GTGAT-ATATGATTCCGTATAAGACCATAG-TCGGGCTATGGCATCGGTACAA
1 GTGATAATGTGATTCCGTATAAGACCATAGCT-GGGATATGGCATCGGTGTGA
*
55917861 TGTGAT--TCGTG-TTCCCGTATAAGACCATAGCTGGGTTATGGCATCGGTGTGA
1 -GTGATAAT-GTGATT-CCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGA
* *
55917913 TGTGATAATGTGATTTCGTATAAGACCATATCTGGGATATGGCATC-G-GT-A
1 -GTGATAATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGA
* * * * * *
55917963 -TGAT-ATGTGA-TCCGTGTAAGACCATGGCAGGGCTATTGCTTCGGTGTG
1 GTGATAATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTG
55918011 TTATGTGTGA
Statistics
Matches: 124, Mismatches: 16, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
46 24 0.19
47 7 0.06
48 6 0.05
50 1 0.01
51 5 0.04
52 46 0.37
53 32 0.26
54 3 0.02
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (52 bp):
GTGATAATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGA
Found at i:55918747 original size:20 final size:20
Alignment explanation
Indices: 55918721--55918778 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
55918711 TGCCCATGGG
55918721 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTTC
* *
55918741 TAGGCCACACGGGCGTGTTC
1 CAGGCCACACGGGCATGTTC
*
55918761 CAAGCCACACGGGCATGT
1 CAGGCCACACGGGCATGT
55918779 GCCCCTATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.16
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Found at i:55919665 original size:30 final size:31
Alignment explanation
Indices: 55919641--55919699 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
55919631 GTAAATACTC
55919641 AAAATTTGAGAGG-CTAA-AGTGTAAATATGA
1 AAAATTTGA-AGGACTAATAGTGTAAATATGA
*
55919671 AAAATTTGAAGGACTAATAGTGCAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
55919700 TTTAAAGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.12
30 13 0.50
31 10 0.38
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:55919955 original size:13 final size:13
Alignment explanation
Indices: 55919937--55919971 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
55919927 TTACTTTATT
55919937 AATATTTTAATAA
1 AATATTTTAATAA
55919950 AATATTTTAATAA
1 AATATTTTAATAA
*
55919963 GATATTTTA
1 AATATTTTA
55919972 TTATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (13 bp):
AATATTTTAATAA
Found at i:55923333 original size:27 final size:27
Alignment explanation
Indices: 55923303--55923499 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
55923293 TACTGAAATG
**
55923303 CCCTCGATTTGTAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
55923330 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
55923357 CCCTCGATTTGCAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
55923384 CCCTCGA-TTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
55923410 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
55923437 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
**
55923464 CCCTC-ACTTTACAAAATTACTGTTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
55923491 CCCTCGATT
1 CCCTCGATT
55923500 GTGAAATTAC
Statistics
Matches: 151, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
26 23 0.15
27 127 0.84
28 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:55923509 original size:80 final size:80
Alignment explanation
Indices: 55923315--55923499 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
55923305 CTCGATTTGT
* * * *
55923315 AAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTGCAAAATTACCGT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTACAAAATTACCAT
*
55923380 TTTACCCTCGATTAT
66 TTTACCCTCGATTAC
* *
55923395 AGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTACAAAATTACCAT
55923460 TTTACCCTC-ACTTTAC
66 TTTACCCTCGA--TTAC
**
55923476 AAAATTACTGTTTTACCCTCGATT
1 AAAATTACCATTTTACCCTCGATT
55923500 GTGAAATTAC
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.73
81 24 0.26
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (80 bp):
AAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTACAAAATTACCAT
TTTACCCTCGATTAC
Found at i:55923509 original size:107 final size:107
Alignment explanation
Indices: 55923303--55923499 Score: 297
Period size: 107 Copynumber: 1.8 Consensus size: 107
55923293 TACTGAAATG
** * * * *
55923303 CCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTG
1 CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGATTTA
55923368 CAAAATTACCGTTTTACCCTCGATTATAGAATTACCATTTTA
66 CAAAATTACCGTTTTACCCTCGATTATAGAATTACCATTTTA
* *
55923410 CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-ACTTT
1 CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGA-TTT
*
55923474 ACAAAATTACTGTTTTACCCTCGATT
65 ACAAAATTACCGTTTTACCCTCGATT
55923500 GTGAAATTAC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 1 0.01
107 79 0.99
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (107 bp):
CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGATTTA
CAAAATTACCGTTTTACCCTCGATTATAGAATTACCATTTTA
Found at i:55923519 original size:107 final size:106
Alignment explanation
Indices: 55923289--55923519 Score: 286
Period size: 107 Copynumber: 2.2 Consensus size: 106
55923279 TTAGTTTACC
* ** * * *
55923289 AAATTACTGAAATGCCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTT
1 AAATTACTGAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATT
*
55923354 TCACCCTCGATTTGCAAAATTACCGTTTTACCCTCGATTAT
66 TCACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTAT
* ** *
55923395 AGAATTAC-CATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCA
1 A-AATTACTGA-AATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCA
* * *
55923459 TTTTACCCTC-ACTTTACAAAATTACTGTTTTACCCTCGATTGT
64 TTTCACCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATTAT
55923502 GAAATTACTGAAATACCC
1 -AAATTACTGAAATACCC
55923520 CTGTAGGATA
Statistics
Matches: 103, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
106 3 0.03
107 98 0.95
108 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (106 bp):
AAATTACTGAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATT
TCACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTAT
Found at i:55923521 original size:27 final size:26
Alignment explanation
Indices: 55923498--55923629 Score: 122
Period size: 27 Copynumber: 4.9 Consensus size: 26
55923488 TTACCCTCGA
*
55923498 TTGTGAAATTACTGAAATACCCCTGT
1 TTGTGAAATTACCGAAATACCCCTGT
** *
55923524 AGGAT-AGAATTACCAAAATACCCCTAGT
1 TTG-TGA-AATTACCGAAATACCCCT-GT
* *
55923552 TTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCGAAATACCCCT-GT
* *
55923579 TTGTGAAATTACCGAAATACCCTTAAT
1 TTGTGAAATTACCGAAATACCCCT-GT
* *
55923606 TTGTAAAATTACCAAAATACCCCT
1 TTGTGAAATTACCGAAATACCCCT
55923630 AATTTACAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 79 0.93
28 4 0.05
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (26 bp):
TTGTGAAATTACCGAAATACCCCTGT
Found at i:55923572 original size:54 final size:54
Alignment explanation
Indices: 55923498--55923629 Score: 151
Period size: 54 Copynumber: 2.4 Consensus size: 54
55923488 TTACCCTCGA
* * *
55923498 TTGTGAAATTACTGAAATACCCCT-GTAGGAT-AGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTGGTAGG-TGA-AATTACCAAAATACCCCTAAT
* ** * *
55923552 TTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTTAAT
1 TTGTAAAATTACCGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCCTAAT
*
55923606 TTGTAAAATTACCAAAATACCCCT
1 TTGTAAAATTACCGAAATACCCCT
55923630 AATTTACAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
54 62 0.94
55 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (54 bp):
TTGTAAAATTACCGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCCTAAT
Found at i:55923616 original size:81 final size:81
Alignment explanation
Indices: 55923531--55923708 Score: 203
Period size: 81 Copynumber: 2.2 Consensus size: 81
55923521 TGTAGGATAG
* ** ** *** *
55923531 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCACTGGTTTACAAAATTACCAAAA
55923596 TACCCTTAATTTGTAA
66 TACCCTTAATTTGTAA
* * *
55923612 AATTACCAAAATACCCCTAATTTACAAAATTATAAAAATACCATTGGTTTACAAAATTACTAAAA
1 AATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCACTGGTTTACAAAATTACCAAAA
** *
55923677 TACCCTTGGTTTGTAG
66 TACCCTTAATTTGTAA
* *
55923693 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
55923709 TTGTAGGATG
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCACTGGTTTACAAAATTACCAAAA
TACCCTTAATTTGTAA
Found at i:55923632 original size:27 final size:27
Alignment explanation
Indices: 55923531--55923653 Score: 138
Period size: 27 Copynumber: 4.6 Consensus size: 27
55923521 TGTAGGATAG
*
55923531 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * ** *
55923558 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
55923585 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
**
55923612 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
**
55923639 AATTATAAAAATACC
1 AATTACCAAAATACC
55923654 ATTGGTTTAC
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:55923662 original size:27 final size:27
Alignment explanation
Indices: 55923632--55923688 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
55923622 ATACCCCTAA
55923632 TTTACAAAATTA-TAAAAATACCATTGG
1 TTTACAAAATTACT-AAAATACCATTGG
*
55923659 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACTAAAATACCATTGG
55923686 TTT
1 TTT
55923689 GTAGATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCATTGG
Found at i:55923794 original size:27 final size:27
Alignment explanation
Indices: 55923706--55923805 Score: 80
Period size: 27 Copynumber: 3.7 Consensus size: 27
55923696 TACCAAAACA
* * *
55923706 CCCTTGTAGGATGAAATGACTAAAATAC
1 CCCTTGTAGG-TAAAATGACCATAATAC
** * *
55923734 CCCTAATAGGTAAAAAGACCGTAA-AGC
1 CCCTTGTAGGTAAAATGACCATAATA-C
55923761 CCC-TGTAGGATAAAATGACCATAATA-
1 CCCTTGTAGG-TAAAATGACCATAATAC
55923787 CCCTTGTATGGTAAAATGA
1 CCCTTGTA-GGTAAAATGA
55923806 AGAATATGCC
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
26 8 0.14
27 37 0.66
28 11 0.20
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (27 bp):
CCCTTGTAGGTAAAATGACCATAATAC
Found at i:55924691 original size:24 final size:25
Alignment explanation
Indices: 55924615--55924684 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
55924605 AGGAAGTGCT
* * *
55924615 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
55924640 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
55924665 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
55924685 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:55924697 original size:24 final size:24
Alignment explanation
Indices: 55924640--55924711 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
55924630 CAGTTTACCG
*
55924640 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCTAG-TTATC
*
55924664 AAAA-AGGGCTTTGCCCTAGTTATT
1 AAAAGA-GGCTTTGCCCTAGTTATC
**
55924688 AAAAGAGGCTAGGCCTCTAGTTAT
1 AAAAGAGGCTTTGCC-CTAGTTAT
55924712 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 19 0.47
25 21 0.52
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCTAGTTATC
Found at i:55924955 original size:31 final size:31
Alignment explanation
Indices: 55924904--55924986 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
55924894 CACTTACAAT
*
55924904 AAAGGCTTCGG-CGAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
55924934 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
55924965 AAATGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
55924987 TCGAGACTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 15 0.32
31 32 0.68
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:55927163 original size:27 final size:27
Alignment explanation
Indices: 55927133--55927325 Score: 228
Period size: 27 Copynumber: 7.2 Consensus size: 27
55927123 TACTGAAATG
* *
55927133 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * *
55927160 CCCTTGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
55927187 CCCTCAATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
55927214 CCCTCGATTTAT-AAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
55927240 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
** *
55927267 CCCTTAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
55927294 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAAAATTACCATTTTA
55927321 CCCTC
1 CCCTC
55927326 AATTGTGAAA
Statistics
Matches: 145, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
26 26 0.18
27 119 0.82
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:55927249 original size:80 final size:80
Alignment explanation
Indices: 55927133--55927325 Score: 280
Period size: 80 Copynumber: 2.4 Consensus size: 80
55927123 TACTGAAATG
* * *
55927133 CCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCGTTTCACCCTCAATTTA
1 CCCTCGATTTATA-AATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTA
*
55927198 CAAAATTACCGTTTTA
65 CAAAATTACCATTTTA
* *
55927214 CCCTCGATTTATAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTAC
1 CCCTCGATTTATAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTAC
55927279 AAAATTACCATTTTA
66 AAAATTACCATTTTA
* *
55927294 CCCTC-AGTTTACAAAATTACCGTTTTACCCTC
1 CCCTCGA-TTTA-TAAATTACCATTTTACCCTC
55927326 AATTGTGAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 1 0.01
80 71 0.70
81 30 0.29
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (80 bp):
CCCTCGATTTATAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTAC
AAAATTACCATTTTA
Found at i:55927305 original size:107 final size:107
Alignment explanation
Indices: 55927133--55927325 Score: 323
Period size: 107 Copynumber: 1.8 Consensus size: 107
55927123 TACTGAAATG
* * * * *
55927133 CCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCGTTTCACCCTCAATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTTCACCCTCAATTTA
55927198 CAAAATTACCGTTTTACCCTCGATTTATAAATTACCATTTTA
66 CAAAATTACCGTTTTACCCTCGATTTATAAATTACCATTTTA
* *
55927240 CCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTTTACCCTCAGTTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTTCACCCTCAATTTA
55927305 CAAAATTACCGTTTTACCCTC
66 CAAAATTACCGTTTTACCCTC
55927326 AATTGTGAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 79 1.00
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (107 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTTCACCCTCAATTTA
CAAAATTACCGTTTTACCCTCGATTTATAAATTACCATTTTA
Found at i:55927349 original size:107 final size:107
Alignment explanation
Indices: 55927119--55927349 Score: 313
Period size: 107 Copynumber: 2.2 Consensus size: 107
55927109 TTAGTTTACC
* * * * * *
55927119 AAATTACTGAAATGCCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCGTT
1 AAATTACTGAAATACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATT
* *
55927184 TCACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTAT
66 TCACCCTCAATTTACAAAATTACCGTTTTACCCTCAATTTAG
* **
55927226 AAATTAC-CATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCAT
1 AAATTACTGA-AATACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCAT
* *
55927290 TTTACCCTCAGTTTACAAAATTACCGTTTTACCCTCAATTGT-G
65 TTCACCCTCAATTTACAAAATTACCGTTTTACCCTCAATT-TAG
55927333 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
55927350 CTGTAGGATA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
106 1 0.01
107 102 0.97
108 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (107 bp):
AAATTACTGAAATACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATT
TCACCCTCAATTTACAAAATTACCGTTTTACCCTCAATTTAG
Found at i:55927391 original size:27 final size:27
Alignment explanation
Indices: 55927361--55927460 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
55927351 TGTAGGATAG
55927361 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
55927388 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
55927415 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
55927442 AATTATCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
55927461 ATTTACAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:55927402 original size:54 final size:54
Alignment explanation
Indices: 55927328--55927459 Score: 142
Period size: 54 Copynumber: 2.4 Consensus size: 54
55927318 TTACCCTCAA
* * *
55927328 TTGTGAAATTACTGAAATACCCCT-GTAGGAT-AGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTGGTAGG-TGA-AATTACCAAAATACCCCTAAT
* ** * *
55927382 TTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTTAAT
1 TTGTAAAATTACCGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCCTAAT
* *
55927436 TTGTAAAATTATCAAAATACCCCT
1 TTGTAAAATTACCGAAATACCCCT
55927460 AATTTACAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 61 0.94
55 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (54 bp):
TTGTAAAATTACCGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCCTAAT
Found at i:55927462 original size:27 final size:27
Alignment explanation
Indices: 55927361--55927473 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 27
55927351 TGTAGGATAG
*
55927361 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * ** *
55927388 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
55927415 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* **
55927442 AATTATCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
55927469 AATTA
1 AATTA
55927474 TAGAAATACC
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:55927472 original size:54 final size:54
Alignment explanation
Indices: 55927361--55927538 Score: 169
Period size: 54 Copynumber: 3.3 Consensus size: 54
55927351 TGTAGGATAG
* * * * * ***
55927361 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTTAATTTGTAAAATTATCAAAATACCACTGGTTTACAA
* **
55927415 AATTACCGAAATACCCTTAATTTGTAAAATTATCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTTAATTTGTAAAATTATCAAAATACCACTGGTTTACAA
** * * *
55927469 AATTATAGAAATACCCTTGACTTTCTGAAAATTAT-AGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTT-AATTTGT-AAAATTATCA-AAATACCACTGGTTTACAA
*
55927525 AATTACTGAAATAC
1 AATTACCGAAATAC
55927539 TTTTGGTTTG
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
54 59 0.59
55 6 0.06
56 35 0.35
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTTAATTTGTAAAATTATCAAAATACCACTGGTTTACAA
Found at i:55927474 original size:27 final size:27
Alignment explanation
Indices: 55927414--55927484 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
55927404 CTGGTTTGTG
* * * **
55927414 AAATTACCGAAATACCCTTAATTTGTA
1 AAATTATCAAAATACCCCTAATTTACA
55927441 AAATTATCAAAATACCCCTAATTTACA
1 AAATTATCAAAATACCCCTAATTTACA
55927468 AAATTAT-AGAAATACCC
1 AAATTATCA-AAATACCC
55927485 TTGACTTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (27 bp):
AAATTATCAAAATACCCCTAATTTACA
Found at i:55927544 original size:27 final size:27
Alignment explanation
Indices: 55927462--55927547 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
55927452 ATACCCCTAA
* *
55927462 TTTACAAAATTATAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
55927490 TTT-CTGAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
**
55927518 TTTACAAAATTACT-GAAATACTTTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
55927545 TTT
1 TTT
55927548 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 22 0.44
28 7 0.14
29 21 0.42
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:55927662 original size:27 final size:27
Alignment explanation
Indices: 55927600--55927665 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
55927590 TACCCCTAAT
* *
55927600 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCATAAAGCCCCTGTA
*
55927627 AGGTAAAATGACCATAATA-CCCTTGTA
1 AGGTAAAATGACCATAA-AGCCCCTGTA
*
55927654 TGGTAAAATGAC
1 AGGTAAAATGAC
55927666 GAATATGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACCATAAAGCCCCTGTA
Found at i:55927676 original size:27 final size:27
Alignment explanation
Indices: 55927600--55927677 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
55927590 TACCCCTAAT
* ** * *
55927600 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACAATAATGCCCTTGTA
* *
55927627 AGGTAAAATGACCATAATACCCTTGTA
1 AGGTAAAATGACAATAATGCCCTTGTA
*
55927654 TGGTAAAATGACGAAT-ATGCCCTT
1 AGGTAAAATGAC-AATAATGCCCTT
55927678 ATGTTCCGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 40 0.95
28 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
AGGTAAAATGACAATAATGCCCTTGTA
Found at i:55928435 original size:16 final size:16
Alignment explanation
Indices: 55928414--55928444 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55928404 CAAATATGGG
*
55928414 CATGACATTTTGCATA
1 CATGACATGTTGCATA
55928430 CATGACATGTTGCAT
1 CATGACATGTTGCAT
55928445 GGGTTGGGTT
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:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:55928513 original size:25 final size:25
Alignment explanation
Indices: 55928475--55928544 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
55928465 AGGAAGTGCT
* *
55928475 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
55928500 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
55928525 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55928545 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:55928557 original size:24 final size:24
Alignment explanation
Indices: 55928474--55928569 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
55928464 GAGGAAGTGC
*
55928474 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
55928499 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
55928523 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
55928547 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
55928570 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:55928568 original size:50 final size:50
Alignment explanation
Indices: 55928475--55928569 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
55928465 AGGAAGTGCT
**
55928475 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
55928525 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
55928570 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:55929470 original size:26 final size:25
Alignment explanation
Indices: 55929441--55929560 Score: 97
Period size: 26 Copynumber: 4.8 Consensus size: 25
55929431 GGGTGTTACA
*
55929441 CTCTTTGTGAGCATCCTGTTTAAAGG
1 CTCTTTGTGAGCTTCCTG-TTAAAGG
* *
55929467 CTCTTCT-TGAGCTTCCTAATTAAAAG
1 CTCTT-TGTGAGCTTCCT-GTTAAAGG
*
55929493 TTCTTTGTGAGCTTCCTG--AAAGG
1 CTCTTTGTGAGCTTCCTGTTAAAGG
* * *
55929516 CTCTTTTTGAGCTTCTTGATTTAA-G
1 CTCTTTGTGAGCTTCCTG-TTAAAGG
*
55929541 CTC-TTATGAGCTTCCTGTTA
1 CTCTTTGTGAGCTTCCTGTTA
55929561 TTGCTCGGAT
Statistics
Matches: 75, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
23 21 0.28
24 12 0.16
25 5 0.07
26 36 0.48
27 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.42
Consensus pattern (25 bp):
CTCTTTGTGAGCTTCCTGTTAAAGG
Found at i:55929526 original size:23 final size:24
Alignment explanation
Indices: 55929462--55929530 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
55929452 CATCCTGTTT
* *
55929462 AAAGGCTCTTCTTGAGCTTCCTAATT
1 AAAGGCTCTTTTTGAGCTTCC--ATG
* * *
55929488 AAAAGTTCTTTGTGAGCTTCC-TG
1 AAAGGCTCTTTTTGAGCTTCCATG
55929511 AAAGGCTCTTTTTGAGCTTC
1 AAAGGCTCTTTTTGAGCTTC
55929531 TTGATTTAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 18 0.51
26 17 0.49
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (24 bp):
AAAGGCTCTTTTTGAGCTTCCATG
Found at i:55933931 original size:23 final size:23
Alignment explanation
Indices: 55933900--55933950 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
55933890 CTGAAATACC
*
55933900 TTTATAGGTGGACAATTTACAGA
1 TTTACAGGTGGACAATTTACAGA
55933923 TTTACAGGTGGACAATTTACAGA
1 TTTACAGGTGGACAATTTACAGA
55933946 TTTAC
1 TTTAC
55933951 CCCTAGGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (23 bp):
TTTACAGGTGGACAATTTACAGA
Found at i:55936693 original size:23 final size:24
Alignment explanation
Indices: 55936635--55936740 Score: 69
Period size: 23 Copynumber: 4.5 Consensus size: 24
55936625 GAGTCATGAT
*
55936635 CGGTAAGCTCCTCCTGAGCTGATGAA
1 CGGTAAGCT-CTACTGAGCTGA-GAA
* *
55936661 CAGTAAGCTCTATTGAGCTGA-AA
1 CGGTAAGCTCTACTGAGCTGAGAA
**
55936684 CGGTAAGCTCTGA-AAAGCT--GAA
1 CGGTAAGCTCT-ACTGAGCTGAGAA
*
55936706 CAGTAAGCTCATAC-GAGCTGAGAA
1 CGGTAAGCTC-TACTGAGCTGAGAA
**
55936730 TAGTAAGCTCT
1 CGGTAAGCTCT
55936741 TACATTCTGA
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
22 16 0.25
23 18 0.28
24 13 0.20
25 10 0.15
26 8 0.12
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (24 bp):
CGGTAAGCTCTACTGAGCTGAGAA
Found at i:55936737 original size:24 final size:26
Alignment explanation
Indices: 55936706--55936775 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 26
55936696 AAAAGCTGAA
55936706 CAGTAAGCTCATACGAGCTGAGA-AT
1 CAGTAAGCTCATACGAGCTGAGATAT
* * *
55936731 -AGTAAGCTCTTAC-ATTCTGATATAT
1 CAGTAAGCTCATACGA-GCTGAGATAT
*
55936756 CAGTAAACTCATACGAGCTG
1 CAGTAAGCTCATACGAGCTG
55936776 TGGTGAGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
23 1 0.03
24 17 0.49
25 2 0.06
26 14 0.40
27 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (26 bp):
CAGTAAGCTCATACGAGCTGAGATAT
Found at i:55940256 original size:46 final size:46
Alignment explanation
Indices: 55940189--55940364 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
55940179 TGTAACCCGC
* *
55940189 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * *
55940235 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCAT
* *
55940285 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
55940328 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55940365 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 61 0.56
47 26 0.24
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:55940309 original size:93 final size:93
Alignment explanation
Indices: 55940196--55940367 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
55940186 CGCCCATAAG
* *
55940196 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
55940261 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
* *
55940289 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
55940354 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
55940368 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:55951798 original size:23 final size:23
Alignment explanation
Indices: 55951768--55951846 Score: 83
Period size: 22 Copynumber: 3.4 Consensus size: 23
55951758 GCTGATGAAT
*
55951768 AGTAAGCTCTATTGAGCTAAAAC
1 AGTAAGCTCTATAGAGCTAAAAC
*
55951791 AGTAAGCTTTGA-AGAGCT-AAAC
1 AGTAAGCTCT-ATAGAGCTAAAAC
*
55951813 AGTAAGCT-TATACGAGCTGAGAAC
1 AGTAAGCTCTATA-GAGCT-AAAAC
55951837 AGTAAGCTCT
1 AGTAAGCTCT
55951847 TACGAGTTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.02
21 2 0.04
22 17 0.36
23 14 0.30
24 12 0.26
25 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTATAGAGCTAAAAC
Found at i:55965544 original size:27 final size:27
Alignment explanation
Indices: 55965492--55965597 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
55965482 CATGGCTGCT
* * *
55965492 AGAACAGATAA-TGTGACAGGGTCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
*
55965518 AAAACAGATAATTGTGGCAGAGCCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
*
55965545 AGAACAGAT-ATATGTGGTAGAGCCACC
1 AGAACAGATAAT-TGTGGCAGAGCCACC
** *
55965572 AGATTAGATAATTGTGGCATAGCCAC
1 AGAACAGATAATTGTGGCAGAGCCAC
55965598 TAGCACGCTT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.18
27 53 0.79
28 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (27 bp):
AGAACAGATAATTGTGGCAGAGCCACC
Found at i:55967226 original size:28 final size:28
Alignment explanation
Indices: 55967189--55967314 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
55967179 TAAATTGTAC
* *
55967189 AGCACTAAGTGTGCGAGTTTGTTTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
55967217 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
55967245 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
55967273 AGCACTAAGCGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
55967300 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55967315 GACTTAATAT
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
27 22 0.24
28 69 0.76
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:55986638 original size:56 final size:56
Alignment explanation
Indices: 55986542--55986732 Score: 238
Period size: 56 Copynumber: 3.4 Consensus size: 56
55986532 TCCCAGATAG
* * *** * * *
55986542 GGTCTTACTCGCACACATAAATTGGAATCGCATTTTGATGCCAATGTATTAAACGT
1 GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAATGTATTAAACGT
*
55986598 GGTCTTACTCACACATATATATCAAAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAATGTATTAAACGT
* * **
55986654 GGTCTTACTCGCACACATATATCAAAATCACATATTGATGCCAACATATTAAACGT
1 GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAATGTATTAAACGT
* * *
55986710 GGTTTTACTCGCACGCATATATC
1 GGTCTTACTCACACACATATATC
55986733 GATGCCATGG
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAATGTATTAAACGT
Found at i:55992651 original size:27 final size:27
Alignment explanation
Indices: 55992621--55992858 Score: 323
Period size: 27 Copynumber: 8.8 Consensus size: 27
55992611 ATTACCAAAG
* * *
55992621 TACCCTCGATTTACAGAATAACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
55992648 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
55992675 TATCCTCGATTTGTAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
55992702 TACTCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
55992729 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
55992756 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
55992783 TACCATCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
55992810 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
55992837 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
55992859 TGAAATACCC
Statistics
Matches: 190, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:55992867 original size:27 final size:27
Alignment explanation
Indices: 55992810--55992948 Score: 95
Period size: 27 Copynumber: 5.2 Consensus size: 27
55992800 ATTACTGTTT
* * ***
55992810 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTTGATTTACAAAATTACCGAAA
*
55992837 TACCCTTGATTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* *
55992864 TACCCTT-AGTTTCCAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCGAAA
* * *
55992891 TACCCCTGATTTTA-GAAATTATCGAAA
1 TACCCTTGA-TTTACAAAATTACCGAAA
* * ** *
55992918 TACTCTTAATTTGTAAAA-TATCGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
55992944 TACCC
1 TACCC
55992949 CTGTAGGGTA
Statistics
Matches: 88, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
26 16 0.18
27 68 0.77
28 4 0.05
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCGAAA
Found at i:55992884 original size:54 final size:54
Alignment explanation
Indices: 55992709--55992887 Score: 137
Period size: 54 Copynumber: 3.3 Consensus size: 54
55992699 TTTTACTCTC
* * * * * * ** *
55992709 GATTTATAAAATTACCATTTTACCCTTGATTTATAGAATTAC-CATTTTACCCTC
1 GATTTACAAAATTACCATTTTACCATCGATTTACAAAATTACTGA-AATACCCTA
* * * *** *
55992763 GATTTATAGAATTACCATTTTACCATCGATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAAAATTACCATTTTACCATCGATTTACAAAATTACTGAAATACCCTA
* * * *
55992817 GATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACTGAAATACCCTTA
1 GATTTACAAAATTACCATTTTACCATCGATTTACAAAATTACTGAAATACCC-TA
*
55992872 G-TTTCCAAAATTACCA
1 GATTTACAAAATTACCA
55992888 AAATACCCCT
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
54 103 0.98
55 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (54 bp):
GATTTACAAAATTACCATTTTACCATCGATTTACAAAATTACTGAAATACCCTA
Found at i:55992910 original size:54 final size:54
Alignment explanation
Indices: 55992852--55992977 Score: 132
Period size: 53 Copynumber: 2.4 Consensus size: 54
55992842 TTGATTTACA
* ***
55992852 AAATTACTGAAATACCCTTAGTTTCCAAAATTACCAAAATACCCCTG-ATTTTAG
1 AAATTACTGAAATACCCTTAATTTCCAAAA-TACCAAAATACCCCTGTAGGGTAG
* ** * *
55992906 AAATTA-TCGAAATACTCTTAATTTGTAAAATATCGAAATACCCCTGTAGGGTAG
1 AAATTACT-GAAATACCCTTAATTTCCAAAATACCAAAATACCCCTGTAGGGTAG
55992960 -AATTACTGAAATACCCTT
1 AAATTACTGAAATACCCTT
55992978 GTAGGGTAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
53 30 0.51
54 29 0.49
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACTGAAATACCCTTAATTTCCAAAATACCAAAATACCCCTGTAGGGTAG
Found at i:55992980 original size:27 final size:27
Alignment explanation
Indices: 55992940--55993246 Score: 343
Period size: 27 Copynumber: 11.4 Consensus size: 27
55992930 GTAAAATATC
*
55992940 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
* *
55992967 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
55992994 GAAATACCCCTGTAGGATAGAATTATT
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
55993021 AAAATAACCC-TATAGGGTAAAATTA-T
1 GAAAT-ACCCTTGTAGGGTAGAATTACT
* * *
55993047 CGAAATACCCCTGTACGGTAGAATTACC
1 -GAAATACCCTTGTAGGGTAGAATTACT
*
55993075 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
*
55993102 GAAATAACCC-TGTAGGGTAGAATTACC
1 GAAAT-ACCCTTGTAGGGTAGAATTACT
55993129 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
55993156 GAAAGACCCTTGTAGGATAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
55993183 GAAATACCCTTATAGGGTAAAAATACT
1 GAAATACCCTTGTAGGGTAGAATTACT
* *
55993210 GAAATACCGC-TGTAGTGTAGAATTACC
1 GAAATACC-CTTGTAGGGTAGAATTACT
*
55993237 GAGATACCCT
1 GAAATACCCT
55993247 CGGGTAAATT
Statistics
Matches: 236, Mismatches: 36, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 10 0.04
27 217 0.92
28 9 0.04
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACT
Found at i:55992998 original size:54 final size:54
Alignment explanation
Indices: 55992933--55993246 Score: 380
Period size: 54 Copynumber: 5.8 Consensus size: 54
55992923 TTAATTTGTA
* *
55992933 AAATATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* *** *
55992987 AAATACCGAAATACCCCTGTAGGATAGAATTATTAAAATAACCC-TATAGGGTA-
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT-ACCCTTGTAGGGTAG
* * *
55993040 AAATTATCGAAATACCCCTGTACGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AAA-TACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * *
55993095 AATTACTGAAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * * * * *
55993149 AATTACTGAAAGACCCTTGTAGGATAGAATTACCGAAATACCCTTATAGGGTAA
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * *
55993203 AAATACTGAAATACCGCTGTAGTGTAGAATTACCGAGATACCCT
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCT
55993247 CGGGTAAATT
Statistics
Matches: 225, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
53 7 0.03
54 212 0.94
55 6 0.03
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (54 bp):
AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
Found at i:55993045 original size:81 final size:81
Alignment explanation
Indices: 55992940--55993245 Score: 393
Period size: 81 Copynumber: 3.8 Consensus size: 81
55992930 GTAAAATATC
* * * *
55992940 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
1 GAAATAACCCTATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCT
*
55993005 GTAGGATAGAATTATT
66 GTAGGATAGAATTACT
* * *
55993021 AAAATAACCCTATAGGGTAAAATTA-TCGAAATACCCCTGTACGGTAGAATTACCGAAATACCCC
1 GAAATAACCCTATAGGGTAAAATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCC
*
55993085 TGTAGGGTAGAATTACT
65 TGTAGGATAGAATTACT
* * * * * *
55993102 GAAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAAGACCCTT
1 GAAATAACCCTATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCT
*
55993167 GTAGGATAGAATTACC
66 GTAGGATAGAATTACT
* * *
55993183 GAAAT-ACCCTTATAGGGTAAAAATACTGAAATACCGC-TGTAGTGTAGAATTACCGAGATACCC
1 GAAATAACCC-TATAGGGTAAAATTACTGAAATACC-CTTGTAGGGTAGAATTACCGAAATACCC
55993246 TCGGGTAAAT
Statistics
Matches: 193, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
80 5 0.03
81 187 0.97
82 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
GAAATAACCCTATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCT
GTAGGATAGAATTACT
Found at i:55993530 original size:25 final size:25
Alignment explanation
Indices: 55993463--55993532 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
55993453 AGGAAGTGCT
* *
55993463 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
55993488 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
55993513 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55993533 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:55996019 original size:27 final size:27
Alignment explanation
Indices: 55995989--55996226 Score: 296
Period size: 27 Copynumber: 8.8 Consensus size: 27
55995979 ATTACCAAAG
*
55995989 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
55996016 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
55996043 CACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
** * *
55996070 TATTCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
55996097 TACCTTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
55996124 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
55996151 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
55996178 TACTCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
55996205 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
55996227 TAAAATACCC
Statistics
Matches: 180, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 180 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:55996089 original size:81 final size:81
Alignment explanation
Indices: 55995989--55996226 Score: 332
Period size: 81 Copynumber: 2.9 Consensus size: 81
55995979 ATTACCAAAG
* * *
55995989 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTATTTCACCCTCGATT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
*
55996054 TATAGAATTACCGTTT
66 TATAGAATTACCATTT
** * * * * *
55996070 TATTCTCGATTTACAGAATTACCATTTTACCTTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
55996135 TATAGAATTACCATTT
66 TATAGAATTACCATTT
* * *
55996151 TACCCTCAATTTACAGAATTACCGTTTTACTCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
* *
55996216 TACAAAATTAC
66 TATAGAATTAC
55996227 TAAAATACCC
Statistics
Matches: 134, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 134 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
TATAGAATTACCATTT
Found at i:55996235 original size:27 final size:27
Alignment explanation
Indices: 55996205--55996278 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
55996195 ATTACCGTTT
*
55996205 TACCCTCGA-TTTACAAAATTACTAAAA
1 TACCCTCGAGTTTA-AAAATTACCAAAA
*
55996232 TACCCT-TAGTTTAAAAATTACCAAAA
1 TACCCTCGAGTTTAAAAATTACCAAAA
*
55996258 TACCC-CTGATTTTAAAAATTA
1 TACCCTC-GAGTTTAAAAATTA
55996279 TCGAAATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 18 0.45
27 22 0.55
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.32
Consensus pattern (27 bp):
TACCCTCGAGTTTAAAAATTACCAAAA
Found at i:55996236 original size:81 final size:80
Alignment explanation
Indices: 55995964--55996237 Score: 305
Period size: 81 Copynumber: 3.4 Consensus size: 80
55995954 TAGTGAAATG
* * * *
55995964 CCCTCAATTTGTAAAATTACCAAAGTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAAAATTACCAAATTACCCTCAATTTACAGAATTACCGTTTTA-CCTCGATTTA
* *
55996029 TAAAATTACTATTTCA
65 TAAAATTACTGTTTTA
* *** ** * *
55996045 CCCTCGATTTATAGAATTACCGTTTTATTCTCGATTTACAGAATTACCATTTTACCTTCGATTTA
1 CCCTCGATTTATAAAATTACCAAATTACCCTCAATTTACAGAATTACCGTTTTACC-TCGATTTA
*
55996110 TAGAATTACTGTTTTA
65 TAAAATTACTGTTTTA
* * **
55996126 CCCTTGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACTCTCGATTTA
1 CCCTCGATTTATAAAATTACCAAATTACCCTCAATTTACAGAATTACCGTTTTAC-CTCGATTTA
* *
55996191 CAAAATTACCGTTTTA
65 TAAAATTACTGTTTTA
* * *
55996207 CCCTCGATTTACAAAATTACTAAAATACCCT
1 CCCTCGATTTATAAAATTACCAAATTACCCT
55996238 TAGTTTAAAA
Statistics
Matches: 160, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
80 2 0.01
81 157 0.98
82 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (80 bp):
CCCTCGATTTATAAAATTACCAAATTACCCTCAATTTACAGAATTACCGTTTTACCTCGATTTAT
AAAATTACTGTTTTA
Found at i:55996257 original size:26 final size:27
Alignment explanation
Indices: 55996214--55996278 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
55996204 TTACCCTCGA
* *
55996214 TTTACAAAATTACTAAAATA-CCCTTAG
1 TTTA-AAAATTACCAAAATACCCCTGAG
*
55996241 TTTAAAAATTACCAAAATACCCCTGAT
1 TTTAAAAATTACCAAAATACCCCTGAG
55996268 TTTAAAAATTA
1 TTTAAAAATTA
55996279 TCGAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (27 bp):
TTTAAAAATTACCAAAATACCCCTGAG
Found at i:55996347 original size:27 final size:27
Alignment explanation
Indices: 55996308--55996629 Score: 439
Period size: 27 Copynumber: 12.0 Consensus size: 27
55996298 TAAAATATCA
55996308 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
55996335 AAATACCCTTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
55996362 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
55996389 AAATACCCCTATAGGATAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
55996416 AAATAACCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
55996443 AAATA-CCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
55996469 AAATACCCCTGTAGGGTAAAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
55996496 AAATAACCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
55996523 AAATACCCCTGTAGGATAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
55996550 AAATACCCTTGTCGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
55996577 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
55996604 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
55996630 ATTTTGCCCC
Statistics
Matches: 259, Mismatches: 35, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
26 26 0.10
27 233 0.90
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:55996870 original size:25 final size:25
Alignment explanation
Indices: 55996832--55996901 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
55996822 AGGAAGTGCT
* *
55996832 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
55996857 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
55996882 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55996902 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:55996914 original size:24 final size:24
Alignment explanation
Indices: 55996831--55996926 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
55996821 TAGGAAGTGC
*
55996831 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
55996856 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
55996880 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
55996904 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
55996927 ATAAGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:55996925 original size:50 final size:50
Alignment explanation
Indices: 55996832--55996926 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
55996822 AGGAAGTGCT
**
55996832 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
55996882 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
55996927 ATAAGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:56005378 original size:40 final size:40
Alignment explanation
Indices: 56005320--56005523 Score: 313
Period size: 40 Copynumber: 5.1 Consensus size: 40
56005310 TGGATGATAA
* * *
56005320 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
56005360 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
56005400 CTGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
56005440 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56005480 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
56005520 CCGG
1 CCGG
56005524 TTAAATCCTG
Statistics
Matches: 152, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 3 0.02
40 149 0.98
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56007175 original size:122 final size:120
Alignment explanation
Indices: 56006960--56007182 Score: 383
Period size: 122 Copynumber: 1.8 Consensus size: 120
56006950 AAAATAGCCG
*
56006960 TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAATTTCGATTTAACACAAAATGTA
1 TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAATCTCGATTTAACACAAAATGTA
*
56007025 TGATAACTAACCTAAGAATGCAAATTAAATTATAGACATTGGCATGGTAATAGCA
66 TGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCA
* * *
56007080 TGAGAATGAGCATAGTAATGTCATGGGTATGAGGTTTTCCTAATAACTCGATTTAACACGAAATG
1 TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAAT--CTCGATTTAACACAAAATG
56007145 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
64 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
56007183 ATAATGAGCA
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
120 42 0.44
122 54 0.56
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (120 bp):
TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAATCTCGATTTAACACAAAATGTA
TGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCA
Found at i:56009731 original size:28 final size:28
Alignment explanation
Indices: 56009695--56009750 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
56009685 TTTAAGGGTC
56009695 TAATTAAGTTTTATTTAACTTTAATTTG
1 TAATTAAGTTTTATTTAACTTTAATTTG
56009723 TAATTAAGTTTTATTTAACTTTAATTTG
1 TAATTAAGTTTTATTTAACTTTAATTTG
56009751 ACCCTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (28 bp):
TAATTAAGTTTTATTTAACTTTAATTTG
Found at i:56009763 original size:28 final size:28
Alignment explanation
Indices: 56009704--56009766 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
56009694 CTAATTAAGT
* **
56009704 TTTATTTAACTTTAATTTGTAATTAAGT
1 TTTATTTAACTTTAATTTGTAACTAAAA
*
56009732 TTTATTTAACTTTAATTTG-ACCCTAAAA
1 TTTATTTAACTTTAATTTGTA-ACTAAAA
56009760 TTTATTT
1 TTTATTT
56009767 TGTTTTCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTATTTAACTTTAATTTGTAACTAAAA
Found at i:56010312 original size:3 final size:3
Alignment explanation
Indices: 56010264--56010298 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
56010254 TATACATTTA
*
56010264 TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
56010299 GTTTTGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:56013593 original size:55 final size:54
Alignment explanation
Indices: 56013498--56013647 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
56013488 CTACTTTGTT
* ** * *
56013498 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
56013552 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
56013607 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
56013648 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:56013610 original size:27 final size:27
Alignment explanation
Indices: 56013470--56013647 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
56013460 TAAATTGTAC
56013470 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
56013497 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
56013523 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
56013551 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
56013579 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
56013606 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
56013633 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56013648 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:56013611 original size:82 final size:81
Alignment explanation
Indices: 56013471--56013626 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
56013461 AAATTGTACA
* * * *
56013471 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
56013536 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
56013552 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
56013615 TGTGCGAGTTGA
63 TGTGCGAATTGA
56013627 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:56018062 original size:9 final size:9
Alignment explanation
Indices: 56018048--56018079 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
56018038 CAACGCTTTT
56018048 TTGCATTCA
1 TTGCATTCA
56018057 TTGCATTCA
1 TTGCATTCA
56018066 TTGCATTCA
1 TTGCATTCA
56018075 -TGCAT
1 TTGCAT
56018080 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:56034975 original size:27 final size:27
Alignment explanation
Indices: 56034944--56035121 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56034934 TAAATTGTAC
56034944 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56034971 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56034997 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56035025 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56035053 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56035080 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56035107 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56035122 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56035058 original size:82 final size:81
Alignment explanation
Indices: 56034945--56035100 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56034935 AAATTGTACA
* *
56034945 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56035009 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56035026 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56035091 TGCGAGTTGA
65 TGCGAATTGA
56035101 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56035112 original size:82 final size:81
Alignment explanation
Indices: 56034941--56035121 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56034931 GATTAAATTG
* *
56034941 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56035006 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56035022 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56035086 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56035104 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56035122 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56035132 original size:27 final size:27
Alignment explanation
Indices: 56035026--56035132 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
56035016 TGACCATGCG
* * * *
56035026 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
56035054 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
56035081 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
56035108 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
56035133 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:56042987 original size:27 final size:27
Alignment explanation
Indices: 56042932--56043107 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
56042922 TAAATTGTAC
56042932 AGCACTAAG-GTGCG-ATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
56042957 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
56042983 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
56043011 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
56043039 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
56043066 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
56043093 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56043108 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
25 8 0.06
26 5 0.04
27 92 0.72
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:56043044 original size:82 final size:79
Alignment explanation
Indices: 56042933--56043086 Score: 211
Period size: 82 Copynumber: 1.9 Consensus size: 79
56042923 AAATTGTACA
* *
56042933 GCACTAAGGTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTG
1 GCACTAAGGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTG
56042997 CGAATTGACCATGCG
65 CGAATTGACCATGCG
** *
56043012 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAG-GTGCGA--TTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56043077 TGCGAGTTGA
63 TGCGAATTGA
56043087 TTATATAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
79 8 0.12
80 6 0.09
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (79 bp):
GCACTAAGGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
GAATTGACCATGCG
Found at i:56043098 original size:82 final size:80
Alignment explanation
Indices: 56042929--56043107 Score: 209
Period size: 82 Copynumber: 2.2 Consensus size: 80
56042919 GATTAAATTG
* *
56042929 TACAGCACTAAG-GTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAG
1 TACAGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
56042993 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
* * ** *
56043008 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA--TTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56043072 AAGTGTGCGAGTTGATTA
63 AAGTGTGCGAATTGACCA
* *
56043090 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56043108 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 10 0.12
80 6 0.07
81 1 0.01
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (80 bp):
TACAGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:56043118 original size:27 final size:27
Alignment explanation
Indices: 56043012--56043118 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
56043002 TGACCATGCG
* * * *
56043012 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
56043040 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
56043067 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
56043094 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
56043119 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:56050925 original size:27 final size:27
Alignment explanation
Indices: 56050895--56051071 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 27
56050885 AAATTGTACA
* * *
56050895 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
56050922 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
56050949 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
** *
56050976 GCACTAAGTGTGCGAGCCTGACTATGTA
1 GCACTAAGTGTGCGA-ATTGACTATGTG
* * *
56051004 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * * *
56051031 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTG
*
56051058 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
56051072 GGCTCAATGT
Statistics
Matches: 122, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:56051008 original size:82 final size:81
Alignment explanation
Indices: 56050895--56051050 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
56050885 AAATTGTACA
** * * *
56050895 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGACCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
56050959 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
56050976 GCACTAAGTGTGCGAGCCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-CCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
56051041 TGCGAGTTGA
65 TGCGAATTGA
56051051 TTATATAGCA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGACCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56051062 original size:82 final size:81
Alignment explanation
Indices: 56050891--56051071 Score: 193
Period size: 82 Copynumber: 2.2 Consensus size: 81
56050881 GATTAAATTG
* ** * * *
56050891 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGACCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56050956 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56050972 TGCGGCACTAAGTGTGCGAGCCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-CCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56051036 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56051054 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56051072 GGCTCAATGT
Statistics
Matches: 80, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
81 17 0.21
82 63 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGACCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56053907 original size:57 final size:58
Alignment explanation
Indices: 56053762--56053909 Score: 140
Period size: 57 Copynumber: 2.6 Consensus size: 58
56053752 ATTGATCTTG
* * ** *
56053762 TTATAGAAAGGATTTAGCCTGGACGGGTAATCCCGATAAAATACCTCTTGAGCATACA
1 TTATATAAAGGATTTAGCCTGGACTGGTAATCCAAATAAAATACCTCTTAAGCATACA
* * * * * ** *
56053820 TTATGAT-TAGGGTTTAGCCTTGACTAGTAATCTAAATCAAGCT-CCTC-TAAGCTTACA
1 TTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCAAAT-AAAATACCTCTTAAGCATACA
56053877 TTATATAAAGGATTTAGCCTGGACTGGTAATCC
1 TTATATAAAGGATTTAGCCTGGACTGGTAATCC
56053910 TGTTATATGA
Statistics
Matches: 69, Mismatches: 18, Indels: 7
0.73 0.19 0.07
Matches are distributed among these distances:
56 2 0.03
57 33 0.48
58 30 0.43
59 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (58 bp):
TTATATAAAGGATTTAGCCTGGACTGGTAATCCAAATAAAATACCTCTTAAGCATACA
Found at i:56066197 original size:20 final size:20
Alignment explanation
Indices: 56066169--56066212 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
56066159 AACTAACTTG
* *
56066169 CAACTTACCATAATCTTTCA
1 CAACATACCATAAGCTTTCA
*
56066189 CAACATACCATAGGCTTTCA
1 CAACATACCATAAGCTTTCA
56066209 CAAC
1 CAAC
56066213 TTAAACATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.32, G:0.05, T:0.27
Consensus pattern (20 bp):
CAACATACCATAAGCTTTCA
Found at i:56066407 original size:41 final size:42
Alignment explanation
Indices: 56066298--56066418 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
56066288 TACCATACTA
* *
56066298 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* *
56066340 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
56066383 AT-TCATATCCCAGATATGGTCTTACACGTAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
56066419 ACTAACCCTA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
41 27 0.39
42 8 0.12
43 33 0.48
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:56069856 original size:70 final size:70
Alignment explanation
Indices: 56069724--56069856 Score: 194
Period size: 70 Copynumber: 1.9 Consensus size: 70
56069714 ATGAATATAG
* * * * *
56069724 TGATTGGTAGTAATTCCACATATGTTGTGGACTATCGTAGCTCTGTGTGAGCATCGAGGTATAAG
1 TGATTGGTAGTAATTCCACATATGTTATGGACTACCGTAGCTCTATGTGAGCATCAAAGTATAAG
56069789 CTTAA
66 CTTAA
** *
56069794 TGATTGGTAGTAATTCTGCATATGTTATGGATTACCGTAGCTCTATGTGAGCATCAAAGTATA
1 TGATTGGTAGTAATTCCACATATGTTATGGACTACCGTAGCTCTATGTGAGCATCAAAGTATA
56069857 TGATTTTCCC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (70 bp):
TGATTGGTAGTAATTCCACATATGTTATGGACTACCGTAGCTCTATGTGAGCATCAAAGTATAAG
CTTAA
Found at i:56076130 original size:92 final size:94
Alignment explanation
Indices: 56075998--56076168 Score: 231
Period size: 92 Copynumber: 1.8 Consensus size: 94
56075988 ATATCAAGCT
* *
56075998 GATGCCATGTCCCAGACATGGTCTTACGCTAGCTTGCACAACG-CGACTGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTGCACAACGTCGACT-ATACATGTCCCAGAC
*
56076062 ATCTCTTCCACTGGCTCTCGTCTCAAAGTC
65 ATCTCTTACACTGGCTCTCGTCTCAAAGTC
* * * * *
56076092 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTTCACAATGTGGCCTATACATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTGCACAACGTCGACTATACATGTCCCAGACA
*
56076155 TGTCTTACACTGGC
66 TCTCTTACACTGGC
56076169 ACACATATCA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 46 0.69
93 17 0.25
94 4 0.06
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTTGCACAACGTCGACTATACATGTCCCAGACA
TCTCTTACACTGGCTCTCGTCTCAAAGTC
Found at i:56080565 original size:42 final size:41
Alignment explanation
Indices: 56080485--56080634 Score: 144
Period size: 41 Copynumber: 3.6 Consensus size: 41
56080475 GAGCTTGGTC
56080485 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
56080526 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * * *
56080568 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--TCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
* *
56080609 TCGAAGGGCTTTTGATCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
56080635 GAGTCGAACT
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
39 4 0.05
40 9 0.10
41 35 0.40
42 28 0.32
43 12 0.14
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:56085722 original size:53 final size:53
Alignment explanation
Indices: 56085654--56085758 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
56085644 TTCCTTTTTA
* *
56085654 AACTTACCATTTCCATGTCTTCACATGGTCTTACAT-GGTATCCTTGCCTTATG
1 AACTCACCATTTCCATGCCTTCACATGGTCTTACATAGG-ATCCTTGCCTTATG
** *
56085707 AACTCACCATTTCCATGCCTTGGCATGGTCTTACATAGGATCTTTGCCTTAT
1 AACTCACCATTTCCATGCCTTCACATGGTCTTACATAGGATCCTTGCCTTAT
56085759 AGTAGTTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 44 0.96
54 2 0.04
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (53 bp):
AACTCACCATTTCCATGCCTTCACATGGTCTTACATAGGATCCTTGCCTTATG
Found at i:56092145 original size:163 final size:163
Alignment explanation
Indices: 56091946--56092268 Score: 540
Period size: 163 Copynumber: 2.0 Consensus size: 163
56091936 GCCAATCCCC
* * *
56091946 TCGGTACTCCAGGTGCAGTGCACTGACTATGAATAATACAGACTTAACATGCCGCC-AGTACTCC
1 TCGGTACGCCAGGTGCAGTGCACTGACTACGAATAATACAGACTTAACATGCCACCGA-TACTCC
* * * *
56092010 ATGGAACTCCTCTGTCAACCACAAAATCCCAACCCATTGCATATGCAATATGTCACACAATCTCA
65 ACGGAACTCCTCCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCA
56092075 TACATAATCATGTCTCAATACTTTTCACATTTGA
130 TACATAATCATGTCTCAATACTTTTCACATTTGA
* * *
56092109 TCGGTACGCTAGGTGCAGTGCACTGACTACGAATAATACGGACTTAATATGCCACCGATACTCCA
1 TCGGTACGCCAGGTGCAGTGCACTGACTACGAATAATACAGACTTAACATGCCACCGATACTCCA
56092174 CGGAACTCCTCCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCAT
66 CGGAACTCCTCCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCAT
56092239 ACATAATCATGTCTCAATACTTTTCACATT
131 ACATAATCATGTCTCAATACTTTTCACATT
56092269 CATTTGACAT
Statistics
Matches: 149, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
163 148 0.99
164 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (163 bp):
TCGGTACGCCAGGTGCAGTGCACTGACTACGAATAATACAGACTTAACATGCCACCGATACTCCA
CGGAACTCCTCCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCAT
ACATAATCATGTCTCAATACTTTTCACATTTGA
Found at i:56096893 original size:31 final size:31
Alignment explanation
Indices: 56096857--56096966 Score: 177
Period size: 31 Copynumber: 3.5 Consensus size: 31
56096847 TTTAATGGTT
56096857 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
* *
56096888 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
56096919 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
56096950 ACTGGG-CAGAAGCCTTT
1 ACTGGGCCA-AAGCCTTT
56096967 ACTGTAAACG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
30 1 0.01
31 73 0.99
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAATCATATC
Found at i:56097217 original size:25 final size:25
Alignment explanation
Indices: 56097185--56097254 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
56097175 CTCTTTTAAT
*
56097185 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
56097210 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
56097235 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
56097255 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:56098092 original size:27 final size:26
Alignment explanation
Indices: 56098062--56098165 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 26
56098052 GGGCATATTC
56098062 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* *
56098089 GTCACTTTACCCTACAGGGG-CTTACG
1 GTCATTTTA-CCTACAGGGGTATTACG
* * ***
56098115 GTCTTTTTACCTATTAGGGGTATTTTA
1 GTCATTTTACCTA-CAGGGGTATTACG
* *
56098142 GTCATTTCATCCTACAAGGGTATT
1 GTCATTTTA-CCTACAGGGGTATT
56098166 TTGGTAAATC
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
25 4 0.07
26 17 0.28
27 33 0.55
28 6 0.10
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:56098123 original size:26 final size:27
Alignment explanation
Indices: 56098062--56098138 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
56098052 GGGCATATTC
56098062 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
56098089 GTCACTTTACCCTACAGGGG-CTTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
56098115 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
56098139 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.05
26 19 0.46
27 20 0.49
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:56098210 original size:27 final size:27
Alignment explanation
Indices: 56098180--56098264 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
56098170 TAAATCTACT
*
56098180 AACCAAGGGTATTTCAATAATTTTGTA
1 AACCAAGGGTATTTCTATAATTTTGTA
*
56098207 AACCAATGGTATTTCTATAATTTT-TAGA
1 AACCAAGGGTATTTCTATAATTTTGT--A
* *
56098235 AAGTCAAGGGTATTTCTGTAATTTTGTA
1 AA-CCAAGGGTATTTCTATAATTTTGTA
56098263 AA
1 AA
56098265 TCAGGGATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 6 0.12
29 19 0.39
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.40
Consensus pattern (27 bp):
AACCAAGGGTATTTCTATAATTTTGTA
Found at i:56098282 original size:27 final size:27
Alignment explanation
Indices: 56098241--56098365 Score: 121
Period size: 27 Copynumber: 4.6 Consensus size: 27
56098231 TAGAAAGTCA
**
56098241 AGGGTATTTCT-GTAATTTTGTAAA-TC
1 AGGGTATTT-TGGTAATTTTACAAACTC
* *
56098267 AGGGATATTTTGGTAATTTTACAAATTG
1 AGGG-TATTTTGGTAATTTTACAAACTC
* * * *
56098295 AGGGTATTTCGGTAATTTCAAAAACTA
1 AGGGTATTTTGGTAATTTTACAAACTC
*
56098322 ATGGTATTTTGGTAATTTTACAAACT-
1 AGGGTATTTTGGTAATTTTACAAACTC
56098348 AGGGGTATTTTGGTAATT
1 A-GGGTATTTTGGTAATT
56098366 CTACCCTATA
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 6 0.07
27 71 0.87
28 5 0.06
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACTC
Found at i:56098284 original size:56 final size:54
Alignment explanation
Indices: 56098183--56098312 Score: 129
Period size: 56 Copynumber: 2.4 Consensus size: 54
56098173 ATCTACTAAC
* * *
56098183 CAAGGGTATTTCAATAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAA-TTTTACAAA-T
* * *
56098239 CAAGGGTATTTCTGTAATTTTGTAAATC-AGGGATATTT-TGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGG-TATTTCT-ATAATTTTACAAAT
** *
56098293 TGAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
56098313 CAAAAACTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
54 18 0.29
55 12 0.19
56 33 0.52
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTTTACAAAT
Found at i:56098384 original size:54 final size:54
Alignment explanation
Indices: 56098241--56098365 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 54
56098231 TAGAAAGTCA
* *** * *
56098241 AGGGTATTTCTGTAATTTTGTAAA-TCAGGGATATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCAAAAACTAAGGG-TATTTTGGTAATTTTACAAATAG
*
56098295 AGGGTATTTCGGTAATTTCAAAAACTAATGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCAAAAACTAAGGGTATTTTGGTAATTTTACAAA-TAG
*
56098350 -GGGTATTTTGGTAATT
1 AGGGTATTTCGGTAATT
56098366 CTACCCTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 55 0.90
55 6 0.10
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCAAAAACTAAGGGTATTTTGGTAATTTTACAAATAG
Found at i:56098416 original size:26 final size:27
Alignment explanation
Indices: 56098385--56098487 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
56098375 AAGGGTATTT
56098385 CAGTAATT-TCAT-AATCGAGGGTAAAA
1 CAGTAATTCT-ATAAATCGAGGGTAAAA
* *
56098411 CGGTAATT-TCA-CAATCGAGGGTAAAA
1 CAGTAATTCT-ATAAATCGAGGGTAAAA
* *
56098437 CAGTAATTCTGTAAATCAAGGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
*
56098464 TAGTAATTCTATAAATCGAGGGTA
1 CAGTAATTCTATAAATCGAGGGTA
56098488 GTTTGGTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 31 0.47
27 35 0.53
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (27 bp):
CAGTAATTCTATAAATCGAGGGTAAAA
Found at i:56100518 original size:20 final size:20
Alignment explanation
Indices: 56100484--56100528 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
56100474 AGAGACTAAA
* *
56100484 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
* *
56100504 ATGAAAAATTCTAAATTTTT
1 ATGAAAAATTCTAAAATTTG
56100524 ATGAA
1 ATGAA
56100529 TACATGTGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:56104559 original size:16 final size:16
Alignment explanation
Indices: 56104540--56104570 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56104530 CTTCTTCACT
56104540 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
56104556 TACTTACTTACTTAA
1 TACTCACTTACTTAA
56104571 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:56104576 original size:20 final size:20
Alignment explanation
Indices: 56104537--56104576 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
56104527 AAACTTCTTC
* *
56104537 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
56104557 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
56104577 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:56104947 original size:55 final size:54
Alignment explanation
Indices: 56104757--56105011 Score: 215
Period size: 55 Copynumber: 4.8 Consensus size: 54
56104747 ACGCGGGTAC
* * * *
56104757 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTA----T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAG-AA
* * *
56104806 CTTACCATTGCCATGTCTTGATATGGTCTTACATGGTATCC-TTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTTGCCTTATAGAA
* * * * *
56104859 CTCAGCAATGCCATGCCTTGGCATTGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAG-AA
* * * * *
56104914 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTT-CCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTTGCCTTATAGAA
*
56104967 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
56105012 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 35 0.21
52 2 0.01
53 44 0.26
54 14 0.08
55 68 0.40
56 5 0.03
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAGAA
Found at i:56104948 original size:108 final size:110
Alignment explanation
Indices: 56104804--56105004 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
56104794 ATCCTTTTGA
* * * *
56104804 AACTTACCATTGCCATGTCTTGATATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCAGCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
56104867 -TGCCATGCCTTGGCATTGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
56104912 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
56104977 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
56105005 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.58
109 6 0.07
110 27 0.33
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:56111607 original size:43 final size:42
Alignment explanation
Indices: 56111526--56111638 Score: 102
Period size: 43 Copynumber: 2.7 Consensus size: 42
56111516 CACACGATAT
* * **
56111526 CCCAGATATGGTCTTACATGGGATCTCATATCAATGCCAATAG
1 CCCAAATATGGTCTTACACGAAATCTCATATCAATGCC-ATAG
* ** * ** *
56111569 CCTATCTATGGTCTTACACGAAATCTCGTATCGGTGCCATAT
1 CCCAAATATGGTCTTACACGAAATCTCATATCAATGCCATAG
56111611 CCCAAATATGGTCTTACACGTAAA-CTCA
1 CCCAAATATGGTCTTACACG-AAATCTCA
56111639 AATAACCCTA
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
42 23 0.42
43 32 0.58
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
CCCAAATATGGTCTTACACGAAATCTCATATCAATGCCATAG
Found at i:56117469 original size:19 final size:20
Alignment explanation
Indices: 56117439--56117476 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
56117429 TTTAAGAGCC
56117439 ACACGTCCATGTGGCTAGGG
1 ACACGTCCATGTGGCTAGGG
*
56117459 ACACG-CCATGTGGGTAGG
1 ACACGTCCATGTGGCTAGG
56117477 CTGTGTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.24, G:0.37, T:0.18
Consensus pattern (20 bp):
ACACGTCCATGTGGCTAGGG
Found at i:56118532 original size:43 final size:42
Alignment explanation
Indices: 56118463--56118583 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 42
56118453 CATACAATAC
* *
56118463 CATACCAATGCC-ATATCCCAAATATGGTCTTACATGGGATCT
1 CATATCAATGCCAATATCCC-AATATGGTCTTACATGAGATCT
* * * * *
56118505 CATATCAATGCCAATAGCCCAACTATGGTGTTAAACGAGTTCT
1 CATATCAATGCCAATATCCCAA-TATGGTCTTACATGAGATCT
**
56118548 CATATTGATG-CAATATCCCAGATATGGTCTTACATG
1 CATATCAATGCCAATATCCCA-ATATGGTCTTACATG
56118584 TAATCTTAGT
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 33 0.52
43 30 0.48
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (42 bp):
CATATCAATGCCAATATCCCAATATGGTCTTACATGAGATCT
Done.