Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 205 of 318
Found at i:64782971 original size:27 final size:26
Alignment explanation
Indices: 64782925--64782976 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
64782915 GGGAGGCTGC
64782925 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
* *
64782951 CAGATATATGTGGCGAGGTCACCAGA
1 CAGATAT-TGTGACGAAGTCACCAGA
64782977 TTGTAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:64783629 original size:27 final size:27
Alignment explanation
Indices: 64783599--64783932 Score: 347
Period size: 27 Copynumber: 12.4 Consensus size: 27
64783589 GAGGCAAAAT
* * *
64783599 GGTAATTTTACCCCACGAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
64783626 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
64783653 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
64783680 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
64783707 GGT-ATTTCTACCCTACAAGGGT-TTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
64783733 GGTAATTCTGCCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
64783760 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
64783787 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
64783814 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
64783841 AGTAATTCTACCCGACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
64783868 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
64783895 GAT-ATTTCTACCTTACAACGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
64783922 GGTAATTTTAC
1 GGTAATTTTAC
64783933 AAATCAGGAG
Statistics
Matches: 265, Mismatches: 35, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
26 26 0.10
27 232 0.88
28 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:64783682 original size:54 final size:54
Alignment explanation
Indices: 64783600--64783928 Score: 419
Period size: 54 Copynumber: 6.1 Consensus size: 54
64783590 AGGCAAAATG
* * * *
64783600 GTAATTTTACCCCAC-GAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAG-GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* **
64783654 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * * * *
64783708 GTATTTCTACCCTACAAGGGT-TTTCGGTAATTCTGCCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* *
64783761 GTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * *
64783815 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCGACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * * * * * *
64783869 GTATTTCTACCCTACAAGGGTATTTCGATATTTCTACCTTACAACGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
64783923 GTAATT
1 GTAATT
64783929 TTACAAATCA
Statistics
Matches: 237, Mismatches: 36, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
53 45 0.19
54 191 0.81
55 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
Found at i:64783863 original size:81 final size:81
Alignment explanation
Indices: 64783600--64783928 Score: 455
Period size: 81 Copynumber: 4.1 Consensus size: 81
64783590 AGGCAAAATG
* * * * * *
64783600 GTAATTTTACCCCACGAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
*
64783665 CTACAGGGGTATTTCG
66 CTACAGGGGTATTTCA
* * * *
64783681 GTATTTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGT-TTTCGGTAATTCTGCC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
*
64783745 CTATAGGGGTATTTCA
66 CTACAGGGGTATTTCA
* *
64783761 GTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
64783826 CTACAGGGGTATTTCA
66 CTACAGGGGTATTTCA
* *
64783842 GTAATTCTACCCGACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-GATATTTCTAC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAG-TAATTCTAC
* ** *
64783906 CTTACAACGGTATTTCG
65 CCTACAGGGGTATTTCA
64783923 GTAATT
1 GTAATT
64783929 TTACAAATCA
Statistics
Matches: 219, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
80 73 0.33
81 146 0.67
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
CTACAGGGGTATTTCA
Found at i:64783945 original size:27 final size:27
Alignment explanation
Indices: 64783914--64783983 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
64783904 ACCTTACAAC
*
64783914 GGTATTTCGGTAATTTTACAAATC-AG
1 GGTATTTTGGTAATTTTACAAATCGAG
* *
64783940 GAGTATTTTGGTAATTTTGCTAATCGAG
1 G-GTATTTTGGTAATTTTACAAATCGAG
64783968 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
64783984 GGTAAACTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 35 0.90
28 3 0.08
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCGAG
Found at i:64802437 original size:47 final size:47
Alignment explanation
Indices: 64802371--64802799 Score: 696
Period size: 47 Copynumber: 9.1 Consensus size: 47
64802361 GAAATGATAG
64802371 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
64802418 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
64802467 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
64802514 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
64802561 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
64802608 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
64802655 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
64802702 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * ** *
64802749 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTACATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
64802796 TAAG
1 TAAG
64802800 TCCCGAAGGG
Statistics
Matches: 360, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 313 0.87
49 47 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:64802974 original size:37 final size:37
Alignment explanation
Indices: 64802918--64802996 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
64802908 CCGAGCTCTA
* *
64802918 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
64802955 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
64802992 AAGAC
1 AAGAC
64802997 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:64808781 original size:13 final size:14
Alignment explanation
Indices: 64808763--64808791 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
64808753 TCAATAGCAT
64808763 TTCAAATCTAA-AA
1 TTCAAATCTAAGAA
64808776 TTCAAATCTAAGAA
1 TTCAAATCTAAGAA
64808790 TT
1 TT
64808792 TTTCAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (14 bp):
TTCAAATCTAAGAA
Found at i:64809074 original size:32 final size:32
Alignment explanation
Indices: 64809033--64809099 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
64809023 TACTCAATTG
* *
64809033 AATTTTCGTACATATCTGTACCATATCGTACC
1 AATTTTCGTACATACCTGCACCATATCGTACC
* *
64809065 AATTTTCGTACATACCTGCATCATCTCGTACC
1 AATTTTCGTACATACCTGCACCATATCGTACC
64809097 AAT
1 AAT
64809100 CTTATACTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (32 bp):
AATTTTCGTACATACCTGCACCATATCGTACC
Found at i:64809190 original size:28 final size:28
Alignment explanation
Indices: 64809150--64809328 Score: 89
Period size: 28 Copynumber: 6.4 Consensus size: 28
64809140 CAATGTCTCA
* *
64809150 CACACT-AGATGCCATACCCGATACTTTG
1 CACACTAAG-TGCCATTCCGGATACTTTG
* * *
64809178 CACACTAAGTGCCGTTCTGGAT-GTTTCG
1 CACACTAAGTGCCATTCCGGATACTTT-G
* * * *
64809206 CACACT-AGATGACATACCTGATACCTTG
1 CACACTAAG-TGCCATTCCGGATACTTTG
* * * *
64809234 CACA-TAAGTGTCGTTCTGGATGCTTTG
1 CACACTAAGTGCCATTCCGGATACTTTG
* * *
64809261 CACACTAAGTGCCATTCTGGAT-GTATCG
1 CACACTAAGTGCCATTCCGGATACT-TTG
* * * *
64809289 CACACTAAGCGCCATCCCCGATACTTCG
1 CACACTAAGTGCCATTCCGGATACTTTG
**
64809317 CACGTTAAGTGC
1 CACACTAAGTGC
64809329 TACATATAAA
Statistics
Matches: 112, Mismatches: 31, Indels: 16
0.70 0.19 0.10
Matches are distributed among these distances:
27 23 0.21
28 84 0.75
29 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (28 bp):
CACACTAAGTGCCATTCCGGATACTTTG
Found at i:64809262 original size:27 final size:28
Alignment explanation
Indices: 64809173--64809303 Score: 110
Period size: 28 Copynumber: 4.7 Consensus size: 28
64809163 ATACCCGATA
*
64809173 CTTTGCACACTAAGTGCCGTTCTGGATG
1 CTTTGCACACTAAGTGCCATTCTGGATG
* * *
64809201 -TTTCGCACACT-AGATGACATACCT-GATA
1 CTTT-GCACACTAAG-TGCCAT-TCTGGATG
* * *
64809229 CCTTGCACA-TAAGTGTCGTTCTGGATG
1 CTTTGCACACTAAGTGCCATTCTGGATG
64809256 CTTTGCACACTAAGTGCCATTCTGGATG
1 CTTTGCACACTAAGTGCCATTCTGGATG
* *
64809284 -TATCGCACACTAAGCGCCAT
1 CT-TTGCACACTAAGTGCCAT
64809304 CCCCGATACT
Statistics
Matches: 81, Mismatches: 14, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
26 2 0.02
27 22 0.27
28 53 0.65
29 4 0.05
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (28 bp):
CTTTGCACACTAAGTGCCATTCTGGATG
Found at i:64809267 original size:55 final size:56
Alignment explanation
Indices: 64809150--64809267 Score: 177
Period size: 56 Copynumber: 2.1 Consensus size: 56
64809140 CAATGTCTCA
* *
64809150 CACACTAGATGCCATACCCGATACTTTGCACACTAAGTGCCGTTCTGGATGTTTCG
1 CACACTAGATGACATACCCGATACCTTGCACACTAAGTGCCGTTCTGGATGTTTCG
* *
64809206 CACACTAGATGACATACCTGATACCTTGCACA-TAAGTGTCGTTCTGGATGCTTT-G
1 CACACTAGATGACATACCCGATACCTTGCACACTAAGTGCCGTTCTGGATG-TTTCG
64809261 CACACTA
1 CACACTA
64809268 AGTGCCATTC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
55 25 0.44
56 32 0.56
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (56 bp):
CACACTAGATGACATACCCGATACCTTGCACACTAAGTGCCGTTCTGGATGTTTCG
Found at i:64815508 original size:32 final size:32
Alignment explanation
Indices: 64815467--64815533 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
64815457 TACTCAATTG
64815467 AATTTTCGTACATACCTGTACCATATCGTACC
1 AATTTTCGTACATACCTGTACCATATCGTACC
* *
64815499 AATTTTCGTACATACCTGTATCATCTCGTACC
1 AATTTTCGTACATACCTGTACCATATCGTACC
64815531 AAT
1 AAT
64815534 ATCATACTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (32 bp):
AATTTTCGTACATACCTGTACCATATCGTACC
Found at i:64815624 original size:28 final size:28
Alignment explanation
Indices: 64815583--64815849 Score: 141
Period size: 28 Copynumber: 9.5 Consensus size: 28
64815573 TCAATGTCTC
*
64815583 GCACACT-AGATGCCATACTCGATACCTT
1 GCACACTAAG-TGCCATTCTCGATACCTT
* * **
64815611 GCACACTAAGTGCCGTTCTGGAT-GTTT
1 GCACACTAAGTGCCATTCTCGATACCTT
* * *
64815638 CACACACT-AGATGACATACTCGATACCTT
1 -GCACACTAAG-TGCCATTCTCGATACCTT
* * ***
64815667 GCACACTAAGTGCCTTTCTGGATGTTTT
1 GCACACTAAGTGCCATTCTCGATACCTT
* *
64815695 GCACACT-AGATGCCATACCCGATACCTT
1 GCACACTAAG-TGCCATTCTCGATACCTT
* * * ***
64815723 GCACACTAAGTGTCGTTCTGGATGTTTT
1 GCACACTAAGTGCCATTCTCGATACCTT
**
64815751 GCACACTAAGTGCCACCCTC-ATTA-CTT
1 GCACACTAAGTGCCATTCTCGA-TACCTT
* *** *
64815778 CGCACACTAAGTGCCATTCTGGATGTATC
1 -GCACACTAAGTGCCATTCTCGATACCTT
* * *
64815807 GCACACTAAGTGCCATCCCCGATACTTT
1 GCACACTAAGTGCCATTCTCGATACCTT
**
64815835 GCACGTTAAGTGCCA
1 GCACACTAAGTGCCA
64815850 CATATAAATA
Statistics
Matches: 171, Mismatches: 57, Indels: 22
0.68 0.23 0.09
Matches are distributed among these distances:
27 9 0.05
28 152 0.89
29 10 0.06
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCGATACCTT
Found at i:64815646 original size:56 final size:56
Alignment explanation
Indices: 64815576--64815848 Score: 329
Period size: 56 Copynumber: 4.9 Consensus size: 56
64815566 TGAATATTCA
*
64815576 ATGTCTCGCACACTAGATGCCATACTCGATACCTTGCACACTAAGTGCCGTTCTGG
1 ATGTTTCGCACACTAGATGCCATACTCGATACCTTGCACACTAAGTGCCGTTCTGG
* * *
64815632 ATGTTTCACACACTAGATGACATACTCGATACCTTGCACACTAAGTGCCTTTCTGG
1 ATGTTTCGCACACTAGATGCCATACTCGATACCTTGCACACTAAGTGCCGTTCTGG
* * *
64815688 ATGTTTTGCACACTAGATGCCATACCCGATACCTTGCACACTAAGTGTCGTTCTGG
1 ATGTTTCGCACACTAGATGCCATACTCGATACCTTGCACACTAAGTGCCGTTCTGG
* ** *
64815744 ATGTTTTGCACACTA-AGTGCCACCCTC-ATTA-CTTCGCACACTAAGTGCCATTCTGG
1 ATGTTTCGCACACTAGA-TGCCATACTCGA-TACCTT-GCACACTAAGTGCCGTTCTGG
* * * * **
64815800 ATGTATCGCACACTA-AGTGCCATCCCCGATACTTTGCACGTTAAGTGCC
1 ATGTTTCGCACACTAGA-TGCCATACTCGATACCTTGCACACTAAGTGCC
64815849 ACATATAAAT
Statistics
Matches: 190, Mismatches: 22, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
55 5 0.03
56 182 0.96
57 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (56 bp):
ATGTTTCGCACACTAGATGCCATACTCGATACCTTGCACACTAAGTGCCGTTCTGG
Found at i:64818883 original size:27 final size:27
Alignment explanation
Indices: 64818848--64818921 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
64818838 CCCTAGATTT
* *
64818848 TAAAGTTACTGAAATACCCTCGGTTCA
1 TAAAATTACTGAAATACCCTAGGTTCA
**
64818875 TAAAATTACCT-AAATACCCTAGGTTTG
1 TAAAATTA-CTGAAATACCCTAGGTTCA
64818902 TAAAATTA-TCGAAATACCCT
1 TAAAATTACT-GAAATACCCT
64818922 TGTAATGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTAGGTTCA
Found at i:64818958 original size:27 final size:27
Alignment explanation
Indices: 64818901--64818960 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
64818891 CCCTAGGTTT
* * * *
64818901 GTAAAATTATCGAAATACCCTTGTAAT
1 GTAAAATTACCGAAATACCCCTATAAG
64818928 GTAAAATTACCGAAATACCCCTATAAG
1 GTAAAATTACCGAAATACCCCTATAAG
64818955 GTAAAA
1 GTAAAA
64818961 GCACTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.27
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTATAAG
Found at i:64819449 original size:28 final size:28
Alignment explanation
Indices: 64819409--64819470 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
64819399 ATTACACTGT
* * *
64819409 ACTGATACTGTATTGGGCTTAGGCCCAC
1 ACTGTTACTGTATAGGGCTAAGGCCCAC
*
64819437 ACTGTTACTGTATAGGGCTAAGGCCCAG
1 ACTGTTACTGTATAGGGCTAAGGCCCAC
64819465 ACTGTT
1 ACTGTT
64819471 TTGCATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (28 bp):
ACTGTTACTGTATAGGGCTAAGGCCCAC
Found at i:64819889 original size:27 final size:27
Alignment explanation
Indices: 64819857--64820029 Score: 240
Period size: 27 Copynumber: 6.4 Consensus size: 27
64819847 CCCCAAAATA
* *
64819857 GGTAAAATGATCGTAATACCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
64819884 GGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
64819911 GGTAAAATGACCGTAATA-CCCTCGTAG
1 GGTAAAATGACCGTAATACCCCT-GTAG
*
64819938 GGTAAAATGACTGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
64819965 AGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
64819992 GGTAAAATGATCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
64820019 GGTAAAATGAC
1 GGTAAAATGAC
64820030 AATTATGCCA
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.03
27 119 0.94
28 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:64850859 original size:43 final size:43
Alignment explanation
Indices: 64850755--64850859 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
64850745 TTCAATGAAC
* * *
64850755 TCGCACACTTAATGCCAACTAATTAGCTGAAACTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAACTATAATTGTA
* **
64850798 ACGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAACTATAATTGTA
64850841 TCGCACACTTAGTGCCAAT
1 TCGCACACTTAGTGCCAAT
64850860 ACATTAAACC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAGCCGAAACTATAATTGTA
Found at i:64857862 original size:13 final size:13
Alignment explanation
Indices: 64857844--64857869 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64857834 GTCTAAAATG
64857844 TGCAGTATCTCTA
1 TGCAGTATCTCTA
64857857 TGCAGTATCTCTA
1 TGCAGTATCTCTA
64857870 CTGAAGGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TGCAGTATCTCTA
Found at i:64861118 original size:42 final size:42
Alignment explanation
Indices: 64861039--64861133 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
64861029 ACAAGGTCTT
* ** *
64861039 GTATAAGACCATATCTGGGATATGACGTTGATATGAGATTTC
1 GTATAAGACCATATCTGGGATATGACATCAATATGAGATCTC
* *
64861081 GTATAAGACCATATCTGGGATATGGCATCAATGTGAGATCTC
1 GTATAAGACCATATCTGGGATATGACATCAATATGAGATCTC
*
64861123 ATATAAGACCA
1 GTATAAGACCA
64861134 CGTTTGAGAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (42 bp):
GTATAAGACCATATCTGGGATATGACATCAATATGAGATCTC
Found at i:64864086 original size:56 final size:56
Alignment explanation
Indices: 64864000--64864119 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
64863990 ACAAGGGATG
64864000 ATGGGCAAAACATGTAATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTAATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
64864056 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTAATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
64864112 ATGGGCAA
1 ATGGGCAA
64864120 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTAATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:64866046 original size:47 final size:47
Alignment explanation
Indices: 64865992--64866539 Score: 773
Period size: 47 Copynumber: 11.6 Consensus size: 47
64865982 TATTTGAGTA
*
64865992 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
64866039 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
64866088 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
64866135 AATGTGAAAGTGTATATATGTGATAAGGCTGAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
64866182 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
64866231 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
64866278 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
64866325 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATATGATT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
64866372 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
64866419 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
64866466 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
64866513 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
64866540 TCCCGAAGGG
Statistics
Matches: 463, Mismatches: 32, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 372 0.80
49 89 0.19
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:64866253 original size:143 final size:141
Alignment explanation
Indices: 64865992--64866518 Score: 783
Period size: 143 Copynumber: 3.7 Consensus size: 141
64865982 TATTTGAGTA
* * *
64865992 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TAT
* * * * *
64866056 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTA
63 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGA
*
64866120 ATGGCCGATGTGATG
127 ATGGCCAATGTGATG
* * * *
64866135 AATGTGAA-AGTGTATATATGTGATAAGGCTGAATGACCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TAT
64866199 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAA
63 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAA
64866264 TGGCCAATGTGATG
128 TGGCCAATGTGATG
*
64866278 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTAT
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATAT
* * *
64866342 GTGTGATAAGGCCGAATGGCCAATATGATTAATGTGAACATGTGTATGTGTGATAAGGCCGAATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATG
*
64866407 ACCAATGTGATG
130 GCCAATGTGATG
64866419 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
64866484 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
64866519 GAAGTGTATA
Statistics
Matches: 357, Mismatches: 23, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
140 1 0.00
141 170 0.48
143 183 0.51
144 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (141 bp):
AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGG
CCAATGTGATG
Found at i:64873785 original size:20 final size:21
Alignment explanation
Indices: 64873751--64873790 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
64873741 TCAAAAAAAA
*
64873751 TTAAAACTTTGTTTTAAAATT
1 TTAAAACTTTCTTTTAAAATT
64873772 TTAAAA-TTTCTTTTAAAAT
1 TTAAAACTTTCTTTTAAAAT
64873791 GACTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (21 bp):
TTAAAACTTTCTTTTAAAATT
Found at i:64873789 original size:144 final size:145
Alignment explanation
Indices: 64873580--64873847 Score: 405
Period size: 144 Copynumber: 1.9 Consensus size: 145
64873570 AAAATCAAAA
* * * *
64873580 TTTTATTTTGAAATAGTTGAAAAAAAATCAAAATTTTGTTTTAAAAATTTAAACTTTCCTCTAAA
1 TTTTACTTTGAAATAGTTCAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAAATTTCCTCTAAA
* *
64873645 ATGACTAAAAAAATAGATTTTTAT-TTTTCAAAATCTAAAGTTTCTCCTTTTAAAAAAAACACTA
66 ATGACTAAAAAAACAGATTTTTATATTTT-AAAATCTAAACTTTCTCCTTTTAAAAAAAACACTA
64873709 TTTTTCTTAATAAAGC
130 TTTTTCTTAATAAAGC
* * * *
64873725 TTTTACTTTGAAATAG-TCAAAAAAAATTAAAACTTTGTTTTAAAATTTTAAAATTTCTTTTAAA
1 TTTTACTTTGAAATAGTTCAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAAATTTCCTCTAAA
* *
64873789 ATGACTAAAAAAACATATTTTTATATTTTAAAATCTAAACTTTCTCTTTTTAAAAAAAA
66 ATGACTAAAAAAACAGATTTTTATATTTTAAAATCTAAACTTTCTCCTTTTAAAAAAAA
64873848 TCAAAATTAT
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
144 91 0.83
145 19 0.17
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (145 bp):
TTTTACTTTGAAATAGTTCAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAAATTTCCTCTAAA
ATGACTAAAAAAACAGATTTTTATATTTTAAAATCTAAACTTTCTCCTTTTAAAAAAAACACTAT
TTTTCTTAATAAAGC
Found at i:64877298 original size:40 final size:40
Alignment explanation
Indices: 64877243--64877464 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
64877233 TATTCGAATG
64877243 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
64877283 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
64877323 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
* *
64877363 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
* * *
64877403 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAG-TGACT
*
64877443 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
64877465 TACTTGGGTT
Statistics
Matches: 174, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 14 0.08
40 158 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
Found at i:64883118 original size:30 final size:29
Alignment explanation
Indices: 64883033--64883126 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
64883023 TTACTTAAAA
** *
64883033 GTGATGCCTTTGTGATTGAATATGTTATAT
1 GTGA-GCCTTTGTGGCTGAATTTGTTATAT
64883063 GTGAGCCTTTGTGGCTGAATTTGTTATAT
1 GTGAGCCTTTGTGGCTGAATTTGTTATAT
* *
64883092 GTTAGCCTTTGTGGCT-ATTCTTTGTTATAT
1 GTGAGCCTTTGTGGCTGA--ATTTGTTATAT
64883122 GTGAG
1 GTGAG
64883127 GTTTAGTGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.02
29 37 0.66
30 18 0.32
ACGTcount: A:0.18, C:0.10, G:0.26, T:0.47
Consensus pattern (29 bp):
GTGAGCCTTTGTGGCTGAATTTGTTATAT
Found at i:64886655 original size:38 final size:38
Alignment explanation
Indices: 64886604--64886679 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
64886594 TTAAATGAGT
64886604 AAAAATGGAGTATATCTCAACTCATCTTGACCCAAAAG
1 AAAAATGGAGTATATCTCAACTCATCTTGACCCAAAAG
64886642 AAAAATGGAGTATATCTCAACTCATCTTGACCCAAAAG
1 AAAAATGGAGTATATCTCAACTCATCTTGACCCAAAAG
64886680 CCTAACATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (38 bp):
AAAAATGGAGTATATCTCAACTCATCTTGACCCAAAAG
Found at i:64886823 original size:32 final size:32
Alignment explanation
Indices: 64886776--64886842 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
64886766 TACTCAATTG
* *
64886776 AATTTTCGTACATACCTATACCATATTGTACC
1 AATTTCCGTACATACCTATACCATATCGTACC
* * *
64886808 AATTTCCGTATATACCTATATCATCTCGTACC
1 AATTTCCGTACATACCTATACCATATCGTACC
64886840 AAT
1 AAT
64886843 CTCATACTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (32 bp):
AATTTCCGTACATACCTATACCATATCGTACC
Found at i:64886951 original size:28 final size:28
Alignment explanation
Indices: 64886920--64887019 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 28
64886910 CTGATCCCTT
* *
64886920 GCACACTAAGTGTCGTTCTGGATGTTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
* * * **
64886948 GCACACTAAGTGCCATCCTCGTTACTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
*
64886976 GCACACTAAGTGCCATTCTGGATGTCTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
*
64887004 ACACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
64887020 CCCCGATACT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTGGATGTTTC
Found at i:64886962 original size:56 final size:56
Alignment explanation
Indices: 64886885--64887046 Score: 161
Period size: 56 Copynumber: 2.9 Consensus size: 56
64886875 TGAATATTCA
* * * *
64886885 ATGTATCGCACA-TTAGATGCCATACCT-GATCCCTT-GCACACTAAGTGTCGTTCTGG
1 ATGTATCGCACACTAAG-TGCCAT-CCTCG-TCACTTCGCACACTAAGTGCCATTCTGG
* *
64886941 ATGTTTCGCACACTAAGTGCCATCCTCGTTACTTCGCACACTAAGTGCCATTCTGG
1 ATGTATCGCACACTAAGTGCCATCCTCGTCACTTCGCACACTAAGTGCCATTCTGG
* * * **
64886997 ATGTCTCACACACTAAGTGCCATCCCCGAT-ACTTCGCACGTTAAGTGCCA
1 ATGTATCGCACACTAAGTGCCATCCTCG-TCACTTCGCACACTAAGTGCCA
64887047 CATATAATTA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
55 7 0.08
56 80 0.88
57 4 0.04
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (56 bp):
ATGTATCGCACACTAAGTGCCATCCTCGTCACTTCGCACACTAAGTGCCATTCTGG
Found at i:64889049 original size:24 final size:23
Alignment explanation
Indices: 64889020--64889067 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
64889010 GCGATGCTAA
64889020 ATTGAAACTGTCTATCTAAAGCAC
1 ATTGAAACTGTCTATC-AAAGCAC
* * *
64889044 ATTGAAATTTTCTATCAAATCAC
1 ATTGAAACTGTCTATCAAAGCAC
64889067 A
1 A
64889068 ATATAGAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (23 bp):
ATTGAAACTGTCTATCAAAGCAC
Found at i:64891896 original size:27 final size:27
Alignment explanation
Indices: 64891857--64891914 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
64891847 AGCATGGCTG
* *
64891857 CCAG-TACAGATATTGTGATAGAGACA
1 CCAGATACAAATATTGTGACAGAGACA
* *
64891883 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGATACAAATATTGTGACAGAGACA
64891910 CCAGA
1 CCAGA
64891915 ACGCTTCCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGATACAAATATTGTGACAGAGACA
Found at i:64892113 original size:43 final size:43
Alignment explanation
Indices: 64892052--64892137 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
64892042 CACCTAGGGG
* *
64892052 TATAATGGTAATTTTCATATTTAAGGGTATTTTAGTAAATTTA
1 TATAATGGTAATTTTCATACTTAAGGGCATTTTAGTAAATTTA
*
64892095 TATAATGGTAATTTTCATACTTAGGGGCATTTTAGTAAATTTA
1 TATAATGGTAATTTTCATACTTAAGGGCATTTTAGTAAATTTA
64892138 CTATTTTAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.47
Consensus pattern (43 bp):
TATAATGGTAATTTTCATACTTAAGGGCATTTTAGTAAATTTA
Found at i:64904222 original size:56 final size:56
Alignment explanation
Indices: 64904126--64904231 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
64904116 CCATGGCATC
* * * **
64904126 GATATATGTGTGCGAGTAAGACCACGTTTTGTACGTTGGCATCGATATGTTACTCT
1 GATATATGTGTGCGAGTAAGACCACGTCTGGGACAATGGCATCGATATGTTACTCT
*
64904182 GATATATGTGTGCGAGTAAGACC-CTGTCTGGGACAATGGCATCGGTATGT
1 GATATATGTGTGCGAGTAAGACCAC-GTCTGGGACAATGGCATCGATATGT
64904232 GATTACATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 1 0.02
56 42 0.98
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTCTGGGACAATGGCATCGATATGTTACTCT
Found at i:64906662 original size:23 final size:24
Alignment explanation
Indices: 64906632--64906677 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
64906622 AGAACTTTTA
* *
64906632 ATCAGGAA-GCTCACGAAGAGCCT
1 ATCAGGAATACTCACAAAGAGCCT
64906655 ATCAGGAATACTCACAAAGAGCC
1 ATCAGGAATACTCACAAAGAGCC
64906678 ATGTAACAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (24 bp):
ATCAGGAATACTCACAAAGAGCCT
Found at i:64906909 original size:25 final size:24
Alignment explanation
Indices: 64906881--64906937 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 24
64906871 TACCAATCAA
64906881 GATGCTCGCAAGA-ACTATATAACAG
1 GATGCTC-CAAGAGACT-TATAACAG
*
64906906 GATGCT-CAAGAGGCTTATAACAG
1 GATGCTCCAAGAGACTTATAACAG
64906929 GATTGCTCC
1 GA-TGCTCC
64906938 TCCGATCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 15 0.54
24 6 0.21
25 7 0.25
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (24 bp):
GATGCTCCAAGAGACTTATAACAG
Found at i:64912371 original size:26 final size:27
Alignment explanation
Indices: 64912325--64912385 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
64912315 TAATTATGTT
* * *
64912325 AATATAAT-AATATAATAAAATTAA-A
1 AATAAAATAAATAAAATAAAATAAAGA
* *
64912350 CATAAAATAAATAAAATGAAATAAAGA
1 AATAAAATAAATAAAATAAAATAAAGA
64912377 AATAAAATA
1 AATAAAATA
64912386 GAAAAAGAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
25 6 0.21
26 13 0.46
27 9 0.32
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (27 bp):
AATAAAATAAATAAAATAAAATAAAGA
Found at i:64913283 original size:44 final size:44
Alignment explanation
Indices: 64913234--64913325 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
64913224 TGTTTATGGA
* * *
64913234 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTACTGC
1 TACTTCGA-CTTCAAGTCAATGAGGCACCATAAGTGTCGTACTGC
** *
64913278 TACTTCGACTTCAAGTCAATGAGGCACCATGTGTGTCGTACTGT
1 TACTTCGACTTCAAGTCAATGAGGCACCATAAGTGTCGTACTGC
64913322 TACT
1 TACT
64913326 GTTACTTAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 3 0.07
44 38 0.93
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (44 bp):
TACTTCGACTTCAAGTCAATGAGGCACCATAAGTGTCGTACTGC
Found at i:64916265 original size:17 final size:18
Alignment explanation
Indices: 64916243--64916283 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
64916233 ATGCGAGTGA
64916243 GAGGAATG-TTGAGAAAT
1 GAGGAATGATTGAGAAAT
*
64916260 GAGGAATGATTTGAGAAGT
1 GAGGAATGA-TTGAGAAAT
64916279 GAGGA
1 GAGGA
64916284 TGGCAAGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
19 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.22
Consensus pattern (18 bp):
GAGGAATGATTGAGAAAT
Found at i:64920060 original size:37 final size:37
Alignment explanation
Indices: 64919990--64920198 Score: 222
Period size: 37 Copynumber: 5.7 Consensus size: 37
64919980 AGTACACAAA
* * ** * *
64919990 TAATCCAACCGA-AACATGCCAACCGCTCGTAAGAGT
1 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
* * * * *
64920026 TAATCCAACCTATAACAGGCCAAATGTTCATAAGAAC
1 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
* ** *
64920063 TAATCCACCCGATAACATTCTAAATGCTCATAAGAGC
1 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
* * *
64920100 TAATCCATCCAATAATACGCCAAATACTCATAAGAGC
1 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
*
64920137 TAATCCATCCGATAACACACCAAATGCTCATAAGAGC
1 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
* *
64920174 TAATCCATTCGATAACATGCCAAAT
1 TAATCCATCCGATAACACGCCAAAT
64920199 CAGGGAGTAT
Statistics
Matches: 143, Mismatches: 29, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
36 11 0.08
37 132 0.92
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (37 bp):
TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
Found at i:64926194 original size:25 final size:21
Alignment explanation
Indices: 64926174--64926220 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 21
64926164 TATATTGCAT
64926174 ATATAAATAATAATATTTATTCA
1 ATATAAA-AATAA-ATTTATTCA
64926197 ATATAAAAATAAA-TT-TTCA
1 ATATAAAAATAAATTTATTCA
64926216 ATATA
1 ATATA
64926221 TATGATACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.38
20 2 0.08
21 1 0.04
22 5 0.21
23 7 0.29
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATAAAAATAAATTTATTCA
Found at i:64926836 original size:28 final size:28
Alignment explanation
Indices: 64926800--64926853 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
64926790 CTCTCTTGTC
* * *
64926800 CATTTTATATTTCTTTTAGTTTTATATT
1 CATTCTATACTTCTTTTAATTTTATATT
64926828 CATTCTATACTTCTTTTAATTTTATA
1 CATTCTATACTTCTTTTAATTTTATA
64926854 ACACGTTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (28 bp):
CATTCTATACTTCTTTTAATTTTATATT
Found at i:64937621 original size:49 final size:49
Alignment explanation
Indices: 64937453--64937679 Score: 292
Period size: 49 Copynumber: 4.6 Consensus size: 49
64937443 TATGAGGTTG
* * * * * *
64937453 CATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTGTGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCA
* * * * **
64937504 CGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCA
*
64937554 CATGTGTGGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCA
* *
64937603 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCA
64937652 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
64937680 TGCGTACCAG
Statistics
Matches: 153, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
49 79 0.52
50 42 0.27
51 32 0.21
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCA
Found at i:64937636 original size:99 final size:100
Alignment explanation
Indices: 64937453--64937687 Score: 321
Period size: 99 Copynumber: 2.4 Consensus size: 100
64937443 TATGAGGTTG
* *
64937453 CATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTGTGATCACGTGTATAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTATAGTACTA
* **
64937518 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
66 AGTGCAGGCTACTACGTGTACCAGATAATT-GGTCA
* * * * * *
64937554 CATGTGTGGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTATAGTACTA
* *
64937617 AGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
66 AGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
*
64937652 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
64937688 AGATAGCTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 37 0.31
99 44 0.37
100 1 0.01
101 36 0.31
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTATAGTACTA
AGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
Found at i:64940297 original size:40 final size:40
Alignment explanation
Indices: 64940242--64940333 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
64940232 ATTCGTACAA
* *
64940242 GGCACTTAGTTTGTGATTTGACATTGCTTCGGCTATAGAT
1 GGCACTTAGTGTGTGATTTGACATAGCTTCGGCTATAGAT
* * *
64940282 GGCACTTAGTGTGTGATTTGAGATAGCTTCGTCTATATAT
1 GGCACTTAGTGTGTGATTTGACATAGCTTCGGCTATAGAT
*
64940322 GACACTTAGTGT
1 GGCACTTAGTGT
64940334 ACGAGATATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (40 bp):
GGCACTTAGTGTGTGATTTGACATAGCTTCGGCTATAGAT
Found at i:64943709 original size:11 final size:10
Alignment explanation
Indices: 64943683--64943716 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
64943673 GGAGAGCACC
*
64943683 AAGAGTCAAA
1 AAGAGCCAAA
64943693 AAGAGCCAAA
1 AAGAGCCAAA
64943703 AACGAGCCAAA
1 AA-GAGCCAAA
64943714 AAG
1 AAG
64943717 GGACAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:64952755 original size:35 final size:36
Alignment explanation
Indices: 64952685--64952756 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
64952675 AAATGTATGT
*
64952685 TTTATATTATTTTTTTAAGGTAATACTTCGTAACCC
1 TTTATATTATATTTTTAAGGTAATACTTCGTAACCC
*
64952721 TTTATATTATATTTTTACGGTAA-ACTTCGTAACCC
1 TTTATATTATATTTTTAAGGTAATACTTCGTAACCC
64952756 T
1 T
64952757 ATTTCGACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (36 bp):
TTTATATTATATTTTTAAGGTAATACTTCGTAACCC
Found at i:64955790 original size:15 final size:17
Alignment explanation
Indices: 64955760--64955791 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
64955750 TTTTAATTGA
64955760 AATGATAAATTTAAAAT
1 AATGATAAATTTAAAAT
64955777 AATGA-AAA-TTAAAAT
1 AATGATAAATTTAAAAT
64955792 TTTTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
AATGATAAATTTAAAAT
Found at i:64956932 original size:19 final size:18
Alignment explanation
Indices: 64956890--64956935 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
64956880 TTTGATAAAT
*
64956890 GAATATTTTATTAATTTAT
1 GAATA-TTTATTAATTTAA
*
64956909 CAATATTTATTAATTTAGA
1 GAATATTTATTAATTTA-A
64956928 GAATATTT
1 GAATATTT
64956936 CATACTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (18 bp):
GAATATTTATTAATTTAA
Found at i:64957051 original size:35 final size:37
Alignment explanation
Indices: 64957009--64957081 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
64956999 GAATCAAAGC
*
64957009 TAATTGGTTCATGTAA-C-AAAGAAAAAAGAGTTAAT
1 TAATTGGTTCATGTAACCAAAAGAAAAAAAAGTTAAT
*
64957044 TAATTGGTTCGTGTAACCAAAAAGAAAAAAAAGTTAAT
1 TAATTGGTTCATGTAACC-AAAAGAAAAAAAAGTTAAT
64957082 GGTTTCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 15 0.45
36 1 0.03
38 17 0.52
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.27
Consensus pattern (37 bp):
TAATTGGTTCATGTAACCAAAAGAAAAAAAAGTTAAT
Found at i:64957646 original size:53 final size:53
Alignment explanation
Indices: 64957566--64957671 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
64957556 ATTTAACTTC
64957566 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
1 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
64957619 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
1 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
64957672 AAGATTTGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.32
Consensus pattern (53 bp):
TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
Found at i:64979816 original size:16 final size:16
Alignment explanation
Indices: 64979797--64979829 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
64979787 TAACAAGAGT
64979797 AACCAATAACTCAATC
1 AACCAATAACTCAATC
64979813 AACCAATAACTCAATC
1 AACCAATAACTCAATC
64979829 A
1 A
64979830 TCATTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (16 bp):
AACCAATAACTCAATC
Found at i:64982614 original size:35 final size:35
Alignment explanation
Indices: 64982540--64982615 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
64982530 TGATTTGCAT
* * *
64982540 ATCTGTATCTGAAATGGGCTCAAGCCTGAATCTGT
1 ATCTGTATCTGAAATGGGCCCAAGCCCGAATCTGA
* * * *
64982575 ATCTGTATCTGACATGGGCCCAGGCCCGATTGTGA
1 ATCTGTATCTGAAATGGGCCCAAGCCCGAATCTGA
64982610 ATCTGT
1 ATCTGT
64982616 TTGATTTGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (35 bp):
ATCTGTATCTGAAATGGGCCCAAGCCCGAATCTGA
Found at i:64985824 original size:23 final size:22
Alignment explanation
Indices: 64985767--64985830 Score: 56
Period size: 25 Copynumber: 2.7 Consensus size: 22
64985757 TTATATTTAG
*
64985767 ATATAAATATATTTATATGGAT
1 ATATAAATATATTTACATGGAT
* *
64985789 ATAATTAAGATATATTTGCATGTAT
1 AT-A-TAA-ATATATTTACATGGAT
64985814 ATATAATATATAATTTA
1 ATATAA-ATAT-ATTTA
64985831 TTTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
22 2 0.06
23 8 0.24
24 8 0.24
25 15 0.45
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (22 bp):
ATATAAATATATTTACATGGAT
Found at i:64988271 original size:20 final size:20
Alignment explanation
Indices: 64988246--64988285 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
64988236 AAAATATTAA
64988246 TTTTTTAGTGATGTTGGTGT
1 TTTTTTAGTGATGTTGGTGT
64988266 TTTTTTAGTGATGTTGGTGT
1 TTTTTTAGTGATGTTGGTGT
64988286 GGCAACCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.30, T:0.60
Consensus pattern (20 bp):
TTTTTTAGTGATGTTGGTGT
Found at i:64992023 original size:27 final size:28
Alignment explanation
Indices: 64991939--64992036 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
64991929 CATGAGATTG
* * * *
64991939 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
64991968 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
64991996 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64992023 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
64992037 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64992047 original size:27 final size:27
Alignment explanation
Indices: 64991967--64992049 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
64991957 TAAATTGTAC
* *
64991967 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
64991995 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
64992022 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
64992049 A
1 A
64992050 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:64992050 original size:29 final size:27
Alignment explanation
Indices: 64991939--64992050 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
64991929 CATGAGATTG
** * *
64991939 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
64991968 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
64991996 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
64992023 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
64992051 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:65006695 original size:47 final size:47
Alignment explanation
Indices: 65006608--65007142 Score: 885
Period size: 47 Copynumber: 11.4 Consensus size: 47
65006598 CAGCCAAGAC
*
65006608 AGTGTATATGTGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65006654 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65006701 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65006748 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65006795 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65006842 TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
65006889 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
65006936 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65006983 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65007030 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
65007077 AGTGTATATATGTGA-CAGGGCTGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAA
* *
65007124 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
65007143 TCCCGAAGGG
Statistics
Matches: 462, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 24 0.05
47 436 0.94
48 2 0.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:65007319 original size:37 final size:37
Alignment explanation
Indices: 65007261--65007339 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
65007251 CCGAGCTCTA
* * *
65007261 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAG-ATTATGTCCGGGT
*
65007298 AAGACCCGATAACTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
65007335 AAGAC
1 AAGAC
65007340 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:65026008 original size:79 final size:81
Alignment explanation
Indices: 65025872--65026054 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
65025862 TCGAATGATG
* *
65025872 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
65025936 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
65025951 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
65026013 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
65026031 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
65026055 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:65026070 original size:40 final size:40
Alignment explanation
Indices: 65025873--65026056 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
65025863 CGAATGATGT
* * * *
65025873 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
65025913 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
65025953 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65025991 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65026032 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
65026057 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:65026078 original size:79 final size:79
Alignment explanation
Indices: 65025925--65026079 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
65025915 GGACTAAGAT
* **
65025925 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
65025990 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
65026004 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
65026067 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
65026080 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:65027788 original size:28 final size:28
Alignment explanation
Indices: 65027748--65027814 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
65027738 GCTCAATGGG
* * *
65027748 TCGCGCACTAAGTGCCATACTCGATATC
1 TCGCACACTAAGTACCACACTCGATATC
*
65027776 TCGCACACTAAGTACCACACTTGATATC
1 TCGCACACTAAGTACCACACTCGATATC
*
65027804 TCACACACTAA
1 TCGCACACTAA
65027815 ATACTGTACA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.33, G:0.12, T:0.24
Consensus pattern (28 bp):
TCGCACACTAAGTACCACACTCGATATC
Found at i:65037730 original size:89 final size:92
Alignment explanation
Indices: 65037567--65037744 Score: 249
Period size: 89 Copynumber: 2.0 Consensus size: 92
65037557 GATGACTGAG
* * *
65037567 TTTTCTCTCACTTTTGTGACTTTTCTATTTTTTCACTTGACTTTTTACTCTTTTCTTAGTGCTTT
1 TTTTCTCTCACTTTTGTGACTATTCTATTTTGTCACTGGACTTTTTACTCTTTTCTTAGTGCTTT
* * *
65037632 GTTTCTGTTCGGTACTTTTTTCCACCCC
66 GTATCTGTTCGATAC-TCTTTCCACCCC
65037660 TTTTCTCTCACTTTTGTG-C-ATT-T-TTTTGTCACTGGACTTTTTACTCTTTTCTTAGTGCTTT
1 TTTTCTCTCACTTTTGTGACTATTCTATTTTGTCACTGGACTTTTTACTCTTTTCTTAGTGC-TT
65037721 TGTAT-TGTTCGATACTCTTTCCAC
65 TGTATCTGTTCGATACTCTTTCCAC
65037745 TCATTTTTAC
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
88 8 0.10
89 42 0.54
90 7 0.09
91 2 0.03
92 1 0.01
93 18 0.23
ACGTcount: A:0.11, C:0.22, G:0.11, T:0.56
Consensus pattern (92 bp):
TTTTCTCTCACTTTTGTGACTATTCTATTTTGTCACTGGACTTTTTACTCTTTTCTTAGTGCTTT
GTATCTGTTCGATACTCTTTCCACCCC
Found at i:65038886 original size:20 final size:20
Alignment explanation
Indices: 65038861--65038898 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65038851 CACAAATAAT
65038861 ATTAATAA-AATAAATAAATG
1 ATTAATAATAAT-AATAAATG
65038881 ATTAATAATAATAATAAA
1 ATTAATAATAATAATAAA
65038899 GTACAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
ATTAATAATAATAATAAATG
Found at i:65041694 original size:42 final size:42
Alignment explanation
Indices: 65041648--65041770 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
65041638 ACATCAATAT
65041648 GAGACTATGTGTAAGACCATATCTGGGATATGGCATTGATAC
1 GAGACTATGTGTAAGACCATATCTGGGATATGGCATTGATAC
* * * * *
65041690 GAGACT-TCGTATAAGACCATAGCTGGGCTATTGACATCGATAC
1 GAGACTAT-GTGTAAGACCATATCTGGGATA-TGGCATTGATAC
* **
65041733 GAGATTACATGTAAGACCATATCTGGGATATGGCATTG
1 GAGACTATGTGTAAGACCATATCTGGGATATGGCATTG
65041771 GTATGTTATC
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 31 0.48
43 33 0.51
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
GAGACTATGTGTAAGACCATATCTGGGATATGGCATTGATAC
Found at i:65041891 original size:34 final size:34
Alignment explanation
Indices: 65041848--65041916 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
65041838 AACGAGTACG
65041848 TCAAAGATGAATTGTGTGTAAATCAAATTTGAGA
1 TCAAAGATGAATTGTGTGTAAATCAAATTTGAGA
*
65041882 TCAAAGATGAATTGTGTGTAAATCCAATTTGAGA
1 TCAAAGATGAATTGTGTGTAAATCAAATTTGAGA
65041916 T
1 T
65041917 GACTCAGGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (34 bp):
TCAAAGATGAATTGTGTGTAAATCAAATTTGAGA
Found at i:65044275 original size:46 final size:46
Alignment explanation
Indices: 65044172--65044290 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
65044162 TGTCTTCGAC
** * *
65044172 ATGGACTTACATGAATTATTCCTGTCTCCAATGCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCA-ATATATATAAT
* * *
65044219 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGTC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAG-CAATATATATAAT
*
65044265 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
65044291 CTATCCTGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 33 0.53
47 28 0.45
48 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCAATATATATAAT
Found at i:65050114 original size:46 final size:47
Alignment explanation
Indices: 65050010--65050129 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 47
65050000 TGTCTTCGAC
** * *
65050010 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATAAT
* * *
65050058 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
*
65050104 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
65050130 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 33 0.52
48 30 0.48
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
Found at i:65053885 original size:18 final size:18
Alignment explanation
Indices: 65053862--65053897 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
65053852 CCAAGGATTG
65053862 ATGACTTGTTTGATCAGT
1 ATGACTTGTTTGATCAGT
65053880 ATGACTTGTTTGATCAGT
1 ATGACTTGTTTGATCAGT
65053898 TGAGAGGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (18 bp):
ATGACTTGTTTGATCAGT
Found at i:65057086 original size:39 final size:38
Alignment explanation
Indices: 65057043--65057121 Score: 131
Period size: 39 Copynumber: 2.1 Consensus size: 38
65057033 TGATGTCTAA
* *
65057043 TGGTAGAAAATGTATGTTTGGAATATGGTAAACAACTTT
1 TGGTAGAAAATGCATGTTTGGAATATGAT-AACAACTTT
65057082 TGGTAGAAAATGCATGTTTGGAATATGATAACAACTTT
1 TGGTAGAAAATGCATGTTTGGAATATGATAACAACTTT
65057120 TG
1 TG
65057122 CTAGGTGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 11 0.29
39 27 0.71
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.35
Consensus pattern (38 bp):
TGGTAGAAAATGCATGTTTGGAATATGATAACAACTTT
Found at i:65057632 original size:42 final size:42
Alignment explanation
Indices: 65057573--65057655 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
65057563 AGGATTAATG
*
65057573 AGACTACGTGTAAGACCATATCT-GGAATATGGCATCAATATA
1 AGACTACGTGTAAGACCATATCTAAG-ATATGGCATCAATATA
*
65057615 AGACTACGTGTAAGACCATATCTAAGATATGGCATCGATAT
1 AGACTACGTGTAAGACCATATCTAAGATATGGCATCAATAT
65057656 GAGATTTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTAAGATATGGCATCAATATA
Found at i:65057718 original size:43 final size:42
Alignment explanation
Indices: 65057572--65057719 Score: 120
Period size: 42 Copynumber: 3.5 Consensus size: 42
65057562 TAGGATTAAT
* * * * * *
65057572 GAGACTACGTGTAAGACCATATCT-GGAATATGGCATCAATAT
1 GAGATTACATGTAAGACCATAGCTAAG-ATATGGCATCGATAC
* * * * *
65057614 AAGACTACGTGTAAGACCATATCTAAGATATGGCATCGATAT
1 GAGATTACATGTAAGACCATAGCTAAGATATGGCATCGATAC
* * * *
65057656 GAGATTTCATATGAA-ACCATAGCTAGGCTATTGGCATCGATAC
1 GAGATTACATGT-AAGACCATAGCTAAGATA-TGGCATCGATAC
65057699 GAGATTACATGTAAGACCATA
1 GAGATTACATGTAAGACCATA
65057720 TGTAACACCC
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 58 0.66
43 30 0.34
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATAGCTAAGATATGGCATCGATAC
Found at i:65058424 original size:18 final size:18
Alignment explanation
Indices: 65058401--65058439 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
65058391 TTGTAGTAAT
65058401 AGTAATCAGTACAATAAC
1 AGTAATCAGTACAATAAC
* *
65058419 AGTAATCAGTGCAGTAAC
1 AGTAATCAGTACAATAAC
65058437 AGT
1 AGT
65058440 TTAAACAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (18 bp):
AGTAATCAGTACAATAAC
Found at i:65058822 original size:27 final size:27
Alignment explanation
Indices: 65058781--65058941 Score: 216
Period size: 27 Copynumber: 6.0 Consensus size: 27
65058771 ATATATCCAT
* *
65058781 CACACAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
**
65058808 CACATAAGGGAAAAATTGTCATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
65058835 CACATAA-GGACAAAACAGTCATTTTAC
1 CACATAAGGGA-AAAACAGTCATTTTAC
* *
65058862 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
*
65058889 CACATAAGGGAAAAACAATCATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
* * *
65058916 CTCATAAGGGAAAAATAATCATTTTA
1 CACATAAGGGAAAAACAGTCATTTTA
65058942 TCGATTAAGG
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
26 3 0.03
27 114 0.96
28 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (27 bp):
CACATAAGGGAAAAACAGTCATTTTAC
Found at i:65058952 original size:81 final size:81
Alignment explanation
Indices: 65058786--65058941 Score: 242
Period size: 81 Copynumber: 1.9 Consensus size: 81
65058776 TCCATCACAC
***
65058786 AAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAATTGTCATTTTACCACATAAGGACAAAAC
1 AAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAACAATCATTTTACCACATAAGGACAAAAC
*
65058851 AGTCATTTTACCATAT
66 AATCATTTTACCATAT
*
65058867 AAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAACAATCATTTTACCTCATAAGGGA-AAAA
1 AAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAACAATCATTTTACCACATAA-GGACAAAA
*
65058931 TAATCATTTTA
65 CAATCATTTTA
65058942 TCGATTAAGG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 65 0.96
82 3 0.04
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (81 bp):
AAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAACAATCATTTTACCACATAAGGACAAAAC
AATCATTTTACCATAT
Found at i:65061234 original size:39 final size:40
Alignment explanation
Indices: 65061117--65061301 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
65061107 GCTACTCGTT
* * *
65061117 CAAATGCCTTCGGGACATAGCCC-GCTTATAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
65061157 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
65061197 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
65061236 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
65061277 CAAA-GCCTTCGGGACATAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65061302 CATCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 73 0.60
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:65077932 original size:28 final size:28
Alignment explanation
Indices: 65077866--65077991 Score: 200
Period size: 28 Copynumber: 4.5 Consensus size: 28
65077856 ATATTAAGTC
* * *
65077866 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
65077893 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
65077921 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65077949 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65077977 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65077992 GCACAATTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
27 20 0.22
28 71 0.78
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:65078015 original size:29 final size:28
Alignment explanation
Indices: 65077866--65078016 Score: 169
Period size: 28 Copynumber: 5.4 Consensus size: 28
65077856 ATATTAAGTC
* * * *
65077866 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACACAATCAAACT
* *
65077893 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACACAATCAAACT
* *
65077921 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACACAATCAAACT
*
65077949 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACACAATCAAACT
* * *
65077977 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACACAA-TCAAACT
*
65078006 CGCACTCTTAG
1 CGCACACTTAG
65078017 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
27 20 0.18
28 75 0.68
29 15 0.14
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACACAATCAAACT
Found at i:65084827 original size:47 final size:47
Alignment explanation
Indices: 65084772--65085184 Score: 718
Period size: 47 Copynumber: 8.8 Consensus size: 47
65084762 ATTTAGGATT
*
65084772 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65084819 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65084866 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
65084913 CGATGTGATGAATGTGAAAGTGTATATATGTGATCAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
65084960 CGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
65085007 CGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65085054 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
65085101 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
65085148 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65085185 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 352 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:65085359 original size:37 final size:37
Alignment explanation
Indices: 65085303--65085381 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65085293 CCGAGCTCTA
* * *
65085303 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
65085340 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
65085377 AAGAC
1 AAGAC
65085382 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:65086639 original size:40 final size:40
Alignment explanation
Indices: 65086595--65087053 Score: 657
Period size: 40 Copynumber: 11.4 Consensus size: 40
65086585 GAGAATTGAG
*
65086595 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
65086635 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
65086675 AGTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
65086715 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
65086755 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* *
65086795 ACTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
65086835 AGTGATGTATCCAGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* *
65086875 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * ** *
65086915 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * ** *
65086955 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * * * * * *
65086995 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* *
65087035 GGTGACGTGTATTCGGGCT
1 AGTGA--TGTATCCGGGCT
65087054 TTCATGCCTA
Statistics
Matches: 386, Mismatches: 31, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
40 376 0.97
42 10 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
Found at i:65090929 original size:47 final size:47
Alignment explanation
Indices: 65090874--65091333 Score: 830
Period size: 47 Copynumber: 9.8 Consensus size: 47
65090864 ATTTAGGATT
*
65090874 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65090921 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65090968 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65091015 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
**
65091062 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAAC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65091109 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65091156 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65091203 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
65091250 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * *
65091297 CGACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65091334 TCCCGAAGGG
Statistics
Matches: 399, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 399 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:65091508 original size:37 final size:37
Alignment explanation
Indices: 65091452--65091530 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65091442 CCGAGCTCTA
* * *
65091452 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
65091489 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
65091526 AAGAC
1 AAGAC
65091531 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:65095462 original size:39 final size:39
Alignment explanation
Indices: 65095408--65095531 Score: 131
Period size: 39 Copynumber: 3.2 Consensus size: 39
65095398 CAGTGATGTT
* *
65095408 TATCCGGGCTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAATTA
* *
65095447 TATCCGGATTTAGGGTCCGCATGCTATGTGCTAGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAATTA
* * * * * ** *
65095486 TAACTGAACTTAAGGTCTGCAGGCTACATGCTAGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAATTA
*
65095525 TGTCCGG
1 TATCCGG
65095532 GCTAAAGTCC
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAATTA
Found at i:65108637 original size:21 final size:21
Alignment explanation
Indices: 65108613--65108654 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
65108603 GTGATTGGTT
65108613 AGGAGCATGTACATAGCTTAA
1 AGGAGCATGTACATAGCTTAA
65108634 AGGAGCATGTACATAGCTTAA
1 AGGAGCATGTACATAGCTTAA
65108655 CTATATTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (21 bp):
AGGAGCATGTACATAGCTTAA
Found at i:65115160 original size:7 final size:7
Alignment explanation
Indices: 65115148--65115173 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
65115138 CCATTCTTAA
65115148 TCATCCC
1 TCATCCC
65115155 TCATCCC
1 TCATCCC
65115162 TCATCCC
1 TCATCCC
65115169 TCATC
1 TCATC
65115174 ATTCTCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCCC
Found at i:65115742 original size:56 final size:56
Alignment explanation
Indices: 65115656--65115775 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
65115646 ACAAGGGATG
65115656 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
65115712 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
65115768 AAGGGCAA
1 ATGGGCAA
65115776 TAGACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:65117287 original size:47 final size:47
Alignment explanation
Indices: 65117234--65117732 Score: 704
Period size: 47 Copynumber: 10.6 Consensus size: 47
65117224 TATTTGAATA
* *
65117234 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65117281 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65117330 AATGTGAAAGTGTATATATGTGATAA-G-CTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
65117375 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
65117422 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65117471 AATGTGAACA-TGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65117518 AATGTGAACA-TGTGTATGTGTGATAAGGCTGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
** *
65117565 AATGTGAACA-TGTGCATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65117612 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
65117659 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65117706 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
65117733 TCCCGAAGGG
Statistics
Matches: 425, Mismatches: 19, Indels: 16
0.92 0.04 0.03
Matches are distributed among these distances:
45 44 0.10
46 3 0.01
47 285 0.67
49 92 0.22
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:65117587 original size:25 final size:25
Alignment explanation
Indices: 65117511--65117588 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
65117501 GAATGGCCAA
*
65117511 TGTGATGAATGTGAACATGTGTATG
1 TGTGATGAATGTGAACATGTGCATG
* *
65117536 TGTGAT-AAGGCTG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGTG-CATG
65117558 TGTGATGAATGTGAACATGTGCATG
1 TGTGATGAATGTGAACATGTGCATG
65117583 TGTGAT
1 TGTGAT
65117589 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 9 0.22
25 15 0.37
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGTGCATG
Found at i:65117704 original size:22 final size:22
Alignment explanation
Indices: 65117583--65117704 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
65117573 CATGTGCATG
65117583 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
65117605 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
65117630 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
65117652 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
65117677 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
65117699 TGTGAT
1 TGTGAT
65117705 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:65120097 original size:40 final size:39
Alignment explanation
Indices: 65120052--65120136 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
65120042 AAGTGACCAT
* *
65120052 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
* *
65120092 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGACTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
65120131 ATCCGG
1 ATCCGG
65120137 GTTAAGTCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 30 0.75
40 10 0.25
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
ATCCGGACTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
Found at i:65120114 original size:39 final size:40
Alignment explanation
Indices: 65120013--65120156 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 40
65120003 TCGAATGATG
* * *
65120013 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
65120052 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
65120093 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
65120132 TCCGGGTTAAGTCCCGTAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
65120157 CATGCTAGTG
Statistics
Matches: 89, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
39 35 0.39
40 39 0.44
41 15 0.17
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:65120176 original size:40 final size:40
Alignment explanation
Indices: 65120131--65120646 Score: 791
Period size: 40 Copynumber: 12.9 Consensus size: 40
65120121 GAGTTACTAA
* * *
65120131 ATCCGGGTTAAGTCCCGTAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
65120171 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
65120211 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
* *
65120251 ATCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
65120291 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
*
65120331 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
* * * *
65120371 ATCCGGGCTAAGTTCCGAAAAGCATTCATACTAGTGGTAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
*
65120411 ATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
*
65120450 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
*
65120490 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
*
65120530 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
* *** * * * *
65120570 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
* * * *
65120610 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA
65120647 CATGTATTCG
Statistics
Matches: 441, Mismatches: 34, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
39 34 0.08
40 407 0.92
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
Found at i:65120850 original size:25 final size:25
Alignment explanation
Indices: 65120809--65120860 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
65120799 TGTGTAATAA
65120809 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
* *
65120834 TGAATG-ATTAGAGGCACTGTGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
65120859 TG
1 TG
65120861 CGAATTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:65122005 original size:56 final size:56
Alignment explanation
Indices: 65121914--65122033 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
65121904 ACAAGGGATG
*
65121914 ATGGGCAAAACATGTCATGAAACATGTTGTTTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
65121970 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
65122026 ATGGGCAA
1 ATGGGCAA
65122034 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:65123568 original size:49 final size:47
Alignment explanation
Indices: 65123489--65124087 Score: 855
Period size: 47 Copynumber: 12.6 Consensus size: 47
65123479 TATTTGAATA
* *
65123489 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
65123536 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65123585 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65123634 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65123681 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATCTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
65123730 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
65123777 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65123826 AATGTGAACA-TGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65123873 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65123920 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTCATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65123967 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
65124014 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65124061 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
65124088 TCCCGAAGGG
Statistics
Matches: 523, Mismatches: 21, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 336 0.64
49 185 0.35
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:65123601 original size:96 final size:94
Alignment explanation
Indices: 65123489--65124087 Score: 855
Period size: 96 Copynumber: 6.3 Consensus size: 94
65123479 TATTTGAATA
* *
65123489 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
*
65123554 TATGTGATAAGGCCTAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65123585 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
65123650 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65123681 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATCTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
65123746 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
65123777 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
* *
65123841 ATGTGAGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65123873 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
* *
65123936 TGTGTGATAAGGCCGAATGGCCAATGTCATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65123967 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
65124031 ATGTGATAAGGCCGAATGGCCAATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65124061 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
65124088 TCCCGAAGGG
Statistics
Matches: 469, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
93 2 0.00
94 183 0.39
96 237 0.51
97 2 0.00
98 45 0.10
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:65126159 original size:37 final size:37
Alignment explanation
Indices: 65126098--65126176 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
65126088 TTATTACGAA
* * * *
65126098 GTCTTACCCAGACATAATCTCCACATGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
65126135 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
65126172 GTCTT
1 GTCTT
65126177 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:65126371 original size:49 final size:49
Alignment explanation
Indices: 65126294--65126471 Score: 315
Period size: 49 Copynumber: 3.7 Consensus size: 49
65126284 GCCCTTCGGG
65126294 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
65126344 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
65126393 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
65126440 ACTTTCACATTCATCACATCAGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
65126472 ATACTATCAT
Statistics
Matches: 126, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
47 39 0.31
49 83 0.66
50 4 0.03
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.30
Consensus pattern (49 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
Found at i:65133393 original size:39 final size:39
Alignment explanation
Indices: 65133197--65133391 Score: 302
Period size: 39 Copynumber: 5.0 Consensus size: 39
65133187 AATTATATTA
* *
65133197 CCAGCACAAAGCCTGCGGAACTTTAG-CCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
65133235 CCAACATGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
65133274 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
65133313 CCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * * *
65133352 CTACCACAAAGCCTGCGAGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
65133391 C
1 C
65133392 TAGTGTCTTG
Statistics
Matches: 144, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
38 22 0.15
39 122 0.85
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:65139484 original size:93 final size:93
Alignment explanation
Indices: 65139372--65139543 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
65139362 CGCCCATAAG
* *
65139372 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65139437 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
65139465 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
65139530 ATGAGTTCGGATGC
66 ACGAGTTCGGATGC
65139544 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:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65139540 original size:46 final size:46
Alignment explanation
Indices: 65139365--65139540 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
65139355 TGTAACCCGC
* * * *
65139365 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
65139411 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
65139461 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
65139504 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65139541 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:65144078 original size:37 final size:38
Alignment explanation
Indices: 65144026--65144106 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 38
65144016 TATCTAAACC
65144026 CAGAAGAAAATCAAATATGATTTGAACAACAATCAATG
1 CAGAAGAAAATCAAATATGATTTGAACAACAATCAATG
* * * *
65144064 CAGAAG-AAATCAAATTTGGTTTGAATAGCAATCAATG
1 CAGAAGAAAATCAAATATGATTTGAACAACAATCAATG
65144101 CAGAAG
1 CAGAAG
65144107 CACAACTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 33 0.85
38 6 0.15
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.22
Consensus pattern (38 bp):
CAGAAGAAAATCAAATATGATTTGAACAACAATCAATG
Found at i:65149674 original size:13 final size:13
Alignment explanation
Indices: 65149656--65149681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65149646 ATATTATAAT
65149656 TATTTTATGTTAA
1 TATTTTATGTTAA
65149669 TATTTTATGTTAA
1 TATTTTATGTTAA
65149682 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:65151237 original size:40 final size:40
Alignment explanation
Indices: 65151182--65151257 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
65151172 TATTCAGATG
* *
65151182 ATATCCGGACTAAGATCCGAGGGCATTTGTGCTAGTCACT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTCACT
65151222 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGT
65151258 TATTATAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTCACT
Found at i:65151282 original size:40 final size:40
Alignment explanation
Indices: 65151198--65151334 Score: 152
Period size: 40 Copynumber: 3.4 Consensus size: 40
65151188 GGACTAAGAT
* * * * * *
65151198 CCGAGGGCATTTGTGCTAGTCACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGGGCTAAG-TC
*
65151238 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTAGTTATTATAACCGGGCTAAGTC
* **
65151278 CCGAAGGCATTCATGCGGGTTATTATAACCGGGCTAAGTC
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGGGCTAAGTC
65151318 CCGAAGGCATTCGTGCT
1 CCGAAGGCATTCGTGCT
65151335 GGTTGTTACA
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.05
40 75 0.91
41 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTAGTTATTATAACCGGGCTAAGTC
Found at i:65157974 original size:13 final size:13
Alignment explanation
Indices: 65157956--65157981 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65157946 ATATTATAAT
65157956 TATTTTATGTTAA
1 TATTTTATGTTAA
65157969 TATTTTATGTTAA
1 TATTTTATGTTAA
65157982 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:65163118 original size:28 final size:28
Alignment explanation
Indices: 65163055--65163208 Score: 283
Period size: 28 Copynumber: 5.5 Consensus size: 28
65163045 ATATTAAGTC
* *
65163055 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
65163082 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65163110 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65163138 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65163166 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65163194 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65163209 GTACAATTTA
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 21 0.17
28 103 0.83
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:65163615 original size:28 final size:28
Alignment explanation
Indices: 65163552--65163733 Score: 330
Period size: 28 Copynumber: 6.5 Consensus size: 28
65163542 TCTTCCAAGC
* *
65163552 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
65163579 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65163607 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65163635 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65163663 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65163691 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65163719 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65163734 GTACAATTTA
Statistics
Matches: 152, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
27 22 0.14
28 130 0.86
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:65164068 original size:525 final size:524
Alignment explanation
Indices: 65163055--65164077 Score: 2028
Period size: 525 Copynumber: 2.0 Consensus size: 524
65163045 ATATTAAGTC
65163055 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
65163120 GTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACAT
66 GTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACAT
65163185 AATCAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACACTTAGCGCCAATCTCATGATC
131 AATCAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACACTTAGCGCCAATCTCATGATC
65163250 ATAAATGTTTATACCCGCACTCTTAGTGCCGAGATCAACAACTCAATACATCTCACCTCTTTTCT
196 ATAAATGTTTATACCCGCACTCTTAGTGCCGAGATCAACAACTCAATACATCTCACCTCTTTTCT
65163315 TTTCATTCAACACTTTCGTCACCACATACATACATGTATATATATATATATTTATCATTCCATTC
261 TTTCATTCAACACTTTCGTCACCACATACATACATGTATATATATATATATTTATCATTCCATTC
65163380 AGCATCATTACATAGACGTTATGACCATTTAAATTAATACAAACTATATGCTTAATGACTTACTT
326 AGCATCATTACATAGACGTTATGACCATTTAAATTAATACAAACTATATGCTTAATGACTTACTT
65163445 TATGTTGGGTAAAGTAATCCCAAGTCGGCTACTCGATGACCTTCGATTTCCCCTTGTTGGACGCC
391 TATGTTGGGTAAAGTAATCCCAAGTCGGCTACTCGATGACCTTCGATTTCCCCTTGTTGGACGCC
65163510 TCTCCTTTAGGATCTTGAGCTCATTCTAGCCATCTTCCAAGCCGCACACTCAGTGCTATATAATC
456 TCTCCTTTAGGATCTTGAGCTCATTCTAGCCATCTTCCAAGCCGCACACTCAGTGCTATATAATC
65163575 AACT
521 AACT
*
65163579 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
65163644 AGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACA
65 AGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACA
65163709 TAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACACTTAGCGCCAATCTCATGAT
130 TAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACACTTAGCGCCAATCTCATGAT
65163774 CATAAATGTTTATACCCGCACTCTTAGTGCCGAGATCAACAACTCAATACATCTCACCTCTTTTC
195 CATAAATGTTTATACCCGCACTCTTAGTGCCGAGATCAACAACTCAATACATCTCACCTCTTTTC
65163839 TTTTCATTCAACACTTTCGTCACCACATACATACATGTATATATATATATATTTATCATTCCATT
260 TTTTCATTCAACACTTTCGTCACCACATACATACATGTATATATATATATATTTATCATTCCATT
65163904 CAGCATCATTACATAGACGTTATGACCATTTAAATTAATACAAACTATATGCTTAATGACTTACT
325 CAGCATCATTACATAGACGTTATGACCATTTAAATTAATACAAACTATATGCTTAATGACTTACT
65163969 TTATGTTGGGTAAAGTAATCCCAAGTCGGCTACTCGATGACCTTCGATTTCCCCTTGTTGGACGC
390 TTATGTTGGGTAAAGTAATCCCAAGTCGGCTACTCGATGACCTTCGATTTCCCCTTGTTGGACGC
65164034 CTCTCCTTTAGGATCTTGAGCTCATTCTAGCCATCTTCCAAGCC
455 CTCTCCTTTAGGATCTTGAGCTCATTCTAGCCATCTTCCAAGCC
65164078 AAAATCCAAT
Statistics
Matches: 497, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
524 22 0.04
525 475 0.96
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (524 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACAT
AATCAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACACTTAGCGCCAATCTCATGATC
ATAAATGTTTATACCCGCACTCTTAGTGCCGAGATCAACAACTCAATACATCTCACCTCTTTTCT
TTTCATTCAACACTTTCGTCACCACATACATACATGTATATATATATATATTTATCATTCCATTC
AGCATCATTACATAGACGTTATGACCATTTAAATTAATACAAACTATATGCTTAATGACTTACTT
TATGTTGGGTAAAGTAATCCCAAGTCGGCTACTCGATGACCTTCGATTTCCCCTTGTTGGACGCC
TCTCCTTTAGGATCTTGAGCTCATTCTAGCCATCTTCCAAGCCGCACACTCAGTGCTATATAATC
AACT
Found at i:65170929 original size:28 final size:28
Alignment explanation
Indices: 65170866--65170991 Score: 227
Period size: 28 Copynumber: 4.5 Consensus size: 28
65170856 ATATTAAGTC
* *
65170866 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
65170893 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65170921 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65170949 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65170977 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65170992 GTACAATTTA
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 21 0.22
28 75 0.78
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:65183108 original size:6 final size:6
Alignment explanation
Indices: 65183097--65183133 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
65183087 ATTCGTGTAT
65183097 TTAGTA TTAGTA TTAGTA -TAGTA TTATGTA TTAGTA T
1 TTAGTA TTAGTA TTAGTA TTAGTA TTA-GTA TTAGTA T
65183134 ATAAGAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TTAGTA
Found at i:65183129 original size:18 final size:17
Alignment explanation
Indices: 65183098--65183134 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
65183088 TTCGTGTATT
65183098 TAGTATTAGTATTAGTA
1 TAGTATTAGTATTAGTA
65183115 TAGTATTATGTATTAGTA
1 TAGTATTA-GTATTAGTA
65183133 TA
1 TA
65183135 TAAGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
TAGTATTAGTATTAGTA
Found at i:65187644 original size:125 final size:126
Alignment explanation
Indices: 65187250--65187751 Score: 801
Period size: 126 Copynumber: 4.0 Consensus size: 126
65187240 TTATAGCCTC
* *
65187250 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
* * *
65187315 ACAGTGTATCCTGCTTGAAGCGTTTTCGAGACTATTTGTTCAGAAACGGCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
*
65187376 ATTTTTCTACGAACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
* * * * **
65187441 ACAGTGCATCTTGCTTGAAGCGTTTTTGACACTATTTATTTAGAAATATCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
65187502 ATTTTTCTACGAACTACTGTAGCAAAATAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
*
65187567 ACAGTGCATCCTAC-TGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
65187627 ATTTTTCTACGAACTACT-TAGCAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
* * *
65187691 ACAGTGTATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
65187752 GTTCTTGTAG
Statistics
Matches: 343, Mismatches: 32, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
124 53 0.15
125 103 0.30
126 187 0.55
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:65188305 original size:20 final size:19
Alignment explanation
Indices: 65188280--65188350 Score: 85
Period size: 19 Copynumber: 3.8 Consensus size: 19
65188270 ACGACTATGT
65188280 ATCAATTAACCTTAAGTTTA
1 ATCAATTAACCTTAA-TTTA
*
65188300 ATCAATTAAACTTAATTTA
1 ATCAATTAACCTTAATTTA
*
65188319 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCTTAATTTA
*
65188335 ATCAATTAACCCTAAT
1 ATCAATTAACCTTAAT
65188351 ACCCTAAACT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
16 13 0.29
17 1 0.02
18 1 0.02
19 16 0.36
20 14 0.31
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.38
Consensus pattern (19 bp):
ATCAATTAACCTTAATTTA
Done.