Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 224 of 316
Found at i:73417768 original size:79 final size:77
Alignment explanation
Indices: 73417670--73417930 Score: 344
Period size: 79 Copynumber: 3.3 Consensus size: 77
73417660 GCCACTAGCT
* *
73417670 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAA-GCCTTCGGGACTTAGCCCGG
73417735 TATAATAACTCGCA
65 -ATAATAACTCGCA
* *
73417749 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAA-GCCTTCGGGACTTAGCCCGG
*
73417814 ATAAAGTAGCTCGCA
65 AT-AA-TAACTCGCA
* * *
73417829 CGAATCCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAAGCCTTCGGGACTTAGCCCGGA
* *
73417894 -ATTAGCCACTAGCA
66 TAATA---ACTCGCA
*
73417908 CAAATGCTTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
73417931 AATTATCATC
Statistics
Matches: 160, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
76 2 0.01
77 1 0.01
78 2 0.01
79 107 0.67
80 48 0.30
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAAGCCTTCGGGACTTAGCCCGGA
TAATAACTCGCA
Found at i:73417909 original size:119 final size:121
Alignment explanation
Indices: 73417655--73417930 Score: 368
Period size: 119 Copynumber: 2.3 Consensus size: 121
73417645 GTTTAGCCGG
* * * * *
73417655 ATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTT
1 ATATAGCCACTAGCACAAATGCCTTTGGGACTTAGCCCGGATAAAGTAACTCGCACAAATCCCTT
73417720 CGGGACTTAGCCCGGTATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
66 CGGGACTTAGCCCGGTATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
* * * *
73417776 ATAATAG---CTCGCACAAACGCCTTTGGGACTTAGCCCGGATAAAGTAGCTCGCACGAATCCCT
1 AT-ATAGCCACTAGCACAAATGCCTTTGGGACTTAGCCCGGATAAAGTAACTCGCACAAATCCCT
* * *
73417838 TCGGGACTTAGCCCGGATATAGTAGCTCGCACGAA-GCCTTCGGGACTTAGCCCGGA-
65 TCGGGACTTAGCCCGG-TATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
73417894 AT-TAGCCACTAGCACAAATG-CTTTCGGGACTTAGCCC
1 ATATAGCCACTAGCACAAATGCCTTT-GGGACTTAGCCC
73417931 AATTATCATC
Statistics
Matches: 135, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
116 3 0.02
118 6 0.04
119 105 0.78
120 15 0.11
121 2 0.01
122 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (121 bp):
ATATAGCCACTAGCACAAATGCCTTTGGGACTTAGCCCGGATAAAGTAACTCGCACAAATCCCTT
CGGGACTTAGCCCGGTATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
Found at i:73425895 original size:40 final size:39
Alignment explanation
Indices: 73425851--73426071 Score: 264
Period size: 40 Copynumber: 5.6 Consensus size: 39
73425841 GCCACTAGCT
* *
73425851 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATATAGTAGCTCGCA
* * *
73425891 CAAATGCCTTCGGGACTTATCCCGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATATAGTAGCTCGCA
*
73425930 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATATAGTAGCTCGCA
* *
73425970 C-AACGTCCTTCGGGACTTAGCCCGGATAAAGTAGCTCGCA
1 CAAATG-CCTTCGGGACTTAGCCC-GATATAGTAGCTCGCA
* * * **
73426010 CGAATGCCTTTGGTACTTAGCCCGAATATAGTAGCTTTCA
1 CAAATGCCTTCGGGACTTAGCCCG-ATATAGTAGCTCGCA
*
73426050 CGAATGCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
73426072 TGGAATTAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.25
40 118 0.73
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATATAGTAGCTCGCA
Found at i:73426096 original size:40 final size:39
Alignment explanation
Indices: 73425828--73426114 Score: 242
Period size: 40 Copynumber: 7.2 Consensus size: 39
73425818 CCTTCGGAGT
* * *
73425828 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-AACTCGCACAAATGCCTTCGGGAC
* *
73425867 TTAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-AACTCGCACAAATGCCTTCGGGAC
* *
73425907 TTATCCC-GATATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGAACTCGCACAAATGCCTTCGGGAC
*
73425946 TTAGCCCGGATATA-ATAGCTCGCAC-AACGTCCTTCGGGAC
1 TTAGCCCGGATATAGA-A-CTCGCACAAATG-CCTTCGGGAC
* * * * *
73425986 TTAGCCCGGATAAAGTAGCTCGCACGAATGCCTTTGGTAC
1 TTAGCCCGGATATAG-AACTCGCACAAATGCCTTCGGGAC
* * ** *
73426026 TTAGCCCGAATATAGTAGCTTTCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-AACTCGCACAAATGCCTTCGGGAC
* * * * *
73426066 TTAGCCTGGA-ATTAGCCACTAGCACAAATGCTTTCGAGAC
1 TTAGCCCGGATA-TAG-AACTCGCACAAATGCCTTCGGGAC
73426106 TTAGCCCGG
1 TTAGCCCGG
73426115 TTATCATCCG
Statistics
Matches: 205, Mismatches: 33, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.00
39 44 0.21
40 156 0.76
41 3 0.01
42 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAGAACTCGCACAAATGCCTTCGGGAC
Found at i:73426096 original size:80 final size:78
Alignment explanation
Indices: 73425828--73426113 Score: 281
Period size: 80 Copynumber: 3.6 Consensus size: 78
73425818 CCTTCGGAGT
* * *
73425828 TTAGCCGGATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCC-AGTTATAGTAACTCGCAC
1 TTAGCCGGATATAGCCACTAGCACAAATGCCTTCGGGACTTAGCCCGA-ATATAGTAGCTCGCAC
73425892 AAATGCCTTCGGGAC
65 -AATGCCTTCGGGAC
* * *** * * *
73425907 TTATCCCGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACA
1 TTAGCCGGATATAGCCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAGCTCGCACA
*
73425972 ACGTCCTTCGGGAC
66 ATG-CCTTCGGGAC
* * * * * * **
73425986 TTAGCCCGGATAAAG-TAGCTCGCACGAATGCCTTTGGTACTTAGCCCGAATATAGTAGCTTTCA
1 TTAG-CCGGATATAGCCA-CTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAGCTCGCA
73426050 CGAATGCCTTCGGGAC
64 C-AATGCCTTCGGGAC
* *
73426066 TTAGCCTGGA-ATTAGCCACTAGCACAAATGCTTTCGAGACTTAGCCCG
1 TTAGCC-GGATA-TAGCCACTAGCACAAATGCCTTCGGGACTTAGCCCG
73426114 GTTATCATCC
Statistics
Matches: 166, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
78 3 0.02
79 69 0.42
80 90 0.54
81 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
TTAGCCGGATATAGCCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAGCTCGCACA
ATGCCTTCGGGAC
Found at i:73431384 original size:43 final size:43
Alignment explanation
Indices: 73431336--73431447 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
73431326 CTGGCATTAC
* *
73431336 GCCTGCTAGGCACAAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
73431379 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
73431422 GCCTGCTAGGCACGAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
73431448 TAATACCAGT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:73438487 original size:30 final size:30
Alignment explanation
Indices: 73438453--73438512 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
73438443 CTTTAATACC
* *
73438453 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
* *
73438483 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
73438513 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:73453386 original size:27 final size:27
Alignment explanation
Indices: 73453352--73453551 Score: 222
Period size: 27 Copynumber: 7.4 Consensus size: 27
73453342 TGGATAAGTT
* * *
73453352 GTAGAATTATCGAAATACCTCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
73453379 GTAGAATTACCGAAATTCCCCTGTATG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
73453406 GTAGAATTATTGAAATACCCCGGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
73453433 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * **
73453460 ATAGAATTACTGAAATACCTTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
73453487 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
73453514 GTAGAATTACTGAGATA-CCCTAGTGGG
1 GTAGAATTACCGAAATACCCCT-GTAGG
*
73453541 GTAAAATTACC
1 GTAGAATTACC
73453552 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 4 0.03
27 139 0.97
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:73454297 original size:31 final size:32
Alignment explanation
Indices: 73454259--73454320 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
73454249 CTCACTGCAA
* *
73454259 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCATAGCCACAATATATATATCTGT
*
73454290 TCTGGTGGCATAGCCACAATATCTATATCTG
1 TCTGGTGGCATAGCCACAATATATATATCTG
73454321 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCATAGCCACAATATATATATCTGT
Found at i:73460910 original size:54 final size:54
Alignment explanation
Indices: 73460730--73460929 Score: 233
Period size: 54 Copynumber: 3.7 Consensus size: 54
73460720 TGGATAAGTT
** * * * *
73460730 GTAGAATTAGCGAATTACCCCTGTAAGGTAGAATTACCGAAATACCCCTGCAGG
1 GTAGAATTATTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* *
73460784 GTAGAATTATTGAAATACTCC-TGTAGGGTAGAATTACCGAAATACCACTTTAGG
1 GTAGAATTATTGAAATAC-CCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* ** *
73460838 ATAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTATTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
** *
73460892 GTAGAATTATTGTGATACCCTTGTGGGGTA-ATATTACC
1 GTAGAATTATTGAAATACCCTTGTAGGGTAGA-ATTACC
73460930 ATTTTGCCAT
Statistics
Matches: 123, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
53 3 0.02
54 118 0.96
55 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (54 bp):
GTAGAATTATTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
Found at i:73460911 original size:27 final size:27
Alignment explanation
Indices: 73460730--73460900 Score: 234
Period size: 27 Copynumber: 6.3 Consensus size: 27
73460720 TGGATAAGTT
* * *
73460730 GTAGAATTAGCGAATTACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
73460757 GTAGAATTACCGAAATACCCCTGCAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
73460784 GTAGAATTATTGAAATACTCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
73460811 GTAGAATTACCGAAATACCACTTTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
73460838 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
73460865 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
73460892 GTAGAATTA
1 GTAGAATTA
73460901 TTGTGATACC
Statistics
Matches: 123, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:73461686 original size:31 final size:32
Alignment explanation
Indices: 73461648--73461709 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
73461638 CTCGCTGCAA
* *
73461648 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
73461679 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
73461710 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:73462778 original size:36 final size:36
Alignment explanation
Indices: 73462734--73462802 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
73462724 GAACTCTGAT
* *
73462734 TTCAATTGTTCTGAATGAATGGGTTACGTGGGATGA
1 TTCAATTGTTCGGAAAGAATGGGTTACGTGGGATGA
73462770 TTCAATTGTTCGGAAAGAATGGGTTACGTGGGA
1 TTCAATTGTTCGGAAAGAATGGGTTACGTGGGA
73462803 CTTCATTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.33
Consensus pattern (36 bp):
TTCAATTGTTCGGAAAGAATGGGTTACGTGGGATGA
Found at i:73480779 original size:24 final size:24
Alignment explanation
Indices: 73480729--73480782 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
73480719 AATCGAATTT
*
73480729 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
73480753 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
73480777 GCACAC
1 GCACAC
73480783 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:73488819 original size:47 final size:47
Alignment explanation
Indices: 73488761--73489135 Score: 552
Period size: 47 Copynumber: 8.0 Consensus size: 47
73488751 TTTAGGATTT
* *
73488761 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
73488808 AATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
73488855 AATGTGATTAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
73488902 AATGTGGTGAATATGAACATGCATATATGTGATAAGGCTGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
73488949 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
73488996 TATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
73489043 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * * *
73489090 AATGTGGTGAATATGAACATGCATAAATATGGTAAAGCCGAATGGC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
73489136 TAGTGTGAAA
Statistics
Matches: 296, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 296 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:73488952 original size:22 final size:22
Alignment explanation
Indices: 73488927--73489003 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
73488917 AACATGCATA
73488927 TATGTGATAAGGCTGAATGGCC
1 TATGTGATAAGGCTGAATGGCC
* *
73488949 TATGTGATGAATG-TGAACAT-GCATA
1 TATGTGAT-AAGGCTG-A-ATGGC--C
*
73488974 TATGTGATAAGGCCGAATGGCC
1 TATGTGATAAGGCTGAATGGCC
73488996 TATGTGAT
1 TATGTGAT
73489004 GAATGTGAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 18 0.42
23 8 0.19
24 8 0.19
25 9 0.21
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.30
Consensus pattern (22 bp):
TATGTGATAAGGCTGAATGGCC
Found at i:73489099 original size:25 final size:25
Alignment explanation
Indices: 73489024--73489099 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
73489014 ATGCATATAT
73489024 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
73489049 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
73489071 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
73489096 GTGA
1 GTGA
73489100 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:73489143 original size:94 final size:94
Alignment explanation
Indices: 73488761--73489135 Score: 624
Period size: 94 Copynumber: 4.0 Consensus size: 94
73488751 TTTAGGATTT
73488761 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
*
73488826 ATGTATATATGTGATAAGGCCGAATGGCC
66 ATGCATATATGTGATAAGGCCGAATGGCC
*
73488855 AATGTGATTAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
*
73488920 ATGCATATATGTGATAAGGCTGAATGGCC
66 ATGCATATATGTGATAAGGCCGAATGGCC
* * * * * * *
73488949 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAGC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
73489014 ATGCATATATGTGATAAGGCCGAATGGCC
66 ATGCATATATGTGATAAGGCCGAATGGCC
73489043 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* * * *
73489108 ATGCATAAATATGGTAAAGCCGAATGGC
66 ATGCATATATGTGATAAGGCCGAATGGC
73489136 TAGTGTGAAA
Statistics
Matches: 258, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 258 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (94 bp):
AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
ATGCATATATGTGATAAGGCCGAATGGCC
Found at i:73489350 original size:37 final size:37
Alignment explanation
Indices: 73489298--73489443 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
73489288 GGAAATATAT
* * *
73489298 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
73489335 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
73489372 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
73489409 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
73489444 CGTCTGAGCT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:73499403 original size:26 final size:26
Alignment explanation
Indices: 73499374--73499457 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
73499364 TGATACAAAT
* *
73499374 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
73499400 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
73499426 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
73499452 TGATAA
1 TGATAA
73499458 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:73502629 original size:43 final size:43
Alignment explanation
Indices: 73502568--73502735 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 43
73502558 AGGATTTTCA
73502568 ATATGTG-TTATCATGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATATGTGATTA-CATGTAAGACCACGTCTGGGACGTTGGCATCG
** * * *
73502611 ATATGTGATTATGTGTAAGACCATGTCTGGAACATTGGCATCG
1 ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATCG
* * **
73502654 -TATTTGATT-CGTGTAAGACCTTGTCTGGGACAG-TGGCATCG
1 ATATGTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCATCG
** * *
73502695 ATATGTGATGGCATGTAAGATCGCGTCTGGGACGTTGGCAT
1 ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
73502736 TGTACGATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 27 0.26
42 16 0.15
43 58 0.56
44 3 0.03
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:73502723 original size:84 final size:84
Alignment explanation
Indices: 73502581--73502735 Score: 195
Period size: 84 Copynumber: 1.8 Consensus size: 84
73502571 TGTGTTATCA
* ** *
73502581 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTATGTGTAAGACCATGTCTGGAACAT
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATGACATGTAAGACCACGTCTGGAACAT
73502646 TGGCATCGTATTTGATTCG
66 TGGCATCGTATTTGATTCG
** * * * * *
73502665 TGTAAGACCTTGTCTGGGACAG-TGGCATCGATATGTGATGGCATGTAAGATCGCGTCTGGGACG
1 TGTAAGACCACGTCTGGGAC-GTTGGCATCGATATGTGATGACATGTAAGACCACGTCTGGAACA
73502729 TTGGCAT
65 TTGGCAT
73502736 TGTACGATAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 58 0.98
85 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (84 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATGACATGTAAGACCACGTCTGGAACAT
TGGCATCGTATTTGATTCG
Found at i:73511430 original size:45 final size:45
Alignment explanation
Indices: 73511379--73511470 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
73511369 ATTGTCAATT
73511379 AATAAACACTTAGTAAGTCTCATATTATCATTCGATTCTAATCCA
1 AATAAACACTTAGTAAGTCTCATATTATCATTCGATTCTAATCCA
73511424 AATAAACACTTAGTAAGTCTCATATTATCATTCGATTCTAATCCA
1 AATAAACACTTAGTAAGTCTCATATTATCATTCGATTCTAATCCA
73511469 AA
1 AA
73511471 AGCATTTATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.35
Consensus pattern (45 bp):
AATAAACACTTAGTAAGTCTCATATTATCATTCGATTCTAATCCA
Found at i:73526967 original size:26 final size:25
Alignment explanation
Indices: 73526938--73526993 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
73526928 TTTACTAAAG
*
73526938 TACCCTAAGTATG-AAAATTACCATTA
1 TACCCT-AG-ATGCAAAATGACCATTA
73526964 TACCCCTAGATGCAAAATGACCATTA
1 TA-CCCTAGATGCAAAATGACCATTA
73526990 TACC
1 TACC
73526994 GTTAGGGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 5 0.19
26 18 0.67
27 4 0.15
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (25 bp):
TACCCTAGATGCAAAATGACCATTA
Found at i:73527142 original size:28 final size:28
Alignment explanation
Indices: 73527102--73527217 Score: 155
Period size: 28 Copynumber: 4.2 Consensus size: 28
73527092 GGAGGAAGCA
*
73527102 TTCTGGTGGCTCTGCTACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
73527130 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
73527158 TTCTGGTGGCCCTGCCACAATTATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
73527186 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
73527212 TTCTGG
1 TTCTGG
73527218 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.06
27 6 0.08
28 66 0.86
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:73539119 original size:50 final size:46
Alignment explanation
Indices: 73538916--73539135 Score: 250
Period size: 46 Copynumber: 4.7 Consensus size: 46
73538906 TTTGTGGGCC
* * *
73538916 AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATTGGCA-CGAGATGTGAGCT
* * * * *
73538963 AGTGTAAGACATGTATGGGACAT-GCATCGGCCTCGTGATGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATTGG-CACGAGATGTGAGCT
*
73539009 AGTGTAAGACATGTCTGGGACAT-GCATTGGCTACGAGATGTG-TC-
1 AGTGTAAGACATGTCTGGGACATGGCATTGGC-ACGAGATGTGAGCT
*
73539053 AGTGTAAGACTATGTCTGGGACATGGCATTGGCACGGAGATGTGGGAGCA
1 AGTGTAAGAC-ATGTCTGGGACATGGCATTGGCAC-GAGATGT--GAGCT
73539103 AGTGTAAGACCATGTCTGGGACATGGCATTGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATTGGC
73539136 CTCAATTTCG
Statistics
Matches: 150, Mismatches: 13, Indels: 17
0.83 0.07 0.09
Matches are distributed among these distances:
44 10 0.07
45 17 0.11
46 66 0.44
47 23 0.15
48 1 0.01
49 1 0.01
50 31 0.21
51 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATTGGCACGAGATGTGAGCT
Found at i:73539174 original size:49 final size:47
Alignment explanation
Indices: 73538915--73539175 Score: 184
Period size: 46 Copynumber: 5.5 Consensus size: 47
73538905 ATTTGTGGGC
* * ** * *
73538915 CAGTGTAAGAC-ATGTCTGGGACATGGCATCGGCATTGAGATG-AGAG
1 CAGTGTAAGACTATGTCTGGGACATGGCATTGGCCTCAATATGTAG-T
* * *
73538961 CTAGTGTAAGAC-ATGTATGGGACAT-GCATCGGCCTC-GTGATGTAAG-
1 C-AGTGTAAGACTATGTCTGGGACATGGCATTGGCCTCAAT-ATGT-AGT
* *
73539007 CTAGTGTAAGAC-ATGTCTGGGACAT-GCATTGG-CTACGAGATGT-GT
1 C-AGTGTAAGACTATGTCTGGGACATGGCATTGGCCT-CAATATGTAGT
** * *
73539052 CAGTGTAAGACTATGTCTGGGACATGGCATTGGCACGGAGATGTGGGAG-
1 CAGTGTAAGACTATGTCTGGGACATGGCATTGGC-CTCA-ATAT-GTAGT
* *
73539101 CAAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCAATTTCGATAGT
1 C-AGTGTAAGACTATGTCTGGGACATGGCATTGGCCTCAATAT-G-TAGT
73539151 CAGTGTAAGACTATGTCTGGGACAT
1 CAGTGTAAGACTATGTCTGGGACAT
73539176 ACCTTATGTT
Statistics
Matches: 176, Mismatches: 22, Indels: 31
0.77 0.10 0.14
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 55 0.31
47 22 0.12
48 9 0.05
49 29 0.16
50 34 0.19
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (47 bp):
CAGTGTAAGACTATGTCTGGGACATGGCATTGGCCTCAATATGTAGT
Found at i:73540331 original size:21 final size:21
Alignment explanation
Indices: 73540303--73540358 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
73540293 GTTATAATGG
73540303 CCACACGGGCGTGTTCCCCTT
1 CCACACGGGCGTGTTCCCCTT
* * *
73540324 CTACACGGACGTGTTTCCCTT
1 CCACACGGGCGTGTTCCCCTT
*
73540345 CCACACAGGCGTGT
1 CCACACGGGCGTGT
73540359 GCCCTGTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.14, C:0.38, G:0.23, T:0.25
Consensus pattern (21 bp):
CCACACGGGCGTGTTCCCCTT
Found at i:73545367 original size:13 final size:13
Alignment explanation
Indices: 73545349--73545373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73545339 CACAAAGCAA
73545349 GACACGGCCATGC
1 GACACGGCCATGC
73545362 GACACGGCCATG
1 GACACGGCCATG
73545374 TGCACCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.36, G:0.32, T:0.08
Consensus pattern (13 bp):
GACACGGCCATGC
Found at i:73547036 original size:7 final size:6
Alignment explanation
Indices: 73547002--73547040 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
73546992 GTTTAAAAAC
* * *
73547002 TTTTTA TTTTTA TTTTTA TTTTCA CTTTTA TCTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
73547041 ATCTTAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:73554689 original size:29 final size:28
Alignment explanation
Indices: 73554653--73554730 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
73554643 TCATGAGATT
73554653 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
73554683 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
73554710 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
73554731 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.31
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:73554948 original size:174 final size:174
Alignment explanation
Indices: 73554683--73555010 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
73554673 AAATTGTACA
73554683 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* * *
73554748 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
73554813 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
73554857 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
73554922 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
73554987 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
73555011 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:73556476 original size:40 final size:40
Alignment explanation
Indices: 73556445--73556628 Score: 250
Period size: 40 Copynumber: 4.6 Consensus size: 40
73556435 GTGTTAGTGA
* *
73556445 CTATATCCGGACTAAGAT-CCGAAGGCTTTTGTGCTAG-TG
1 CTATATCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTG
* * *
73556484 ACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTG
1 -CTATATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTG
*
73556525 CTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG
1 CTATATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTG
73556565 CTATATCC-GAGCTAAGTCCCGAAGGCATTTGTGCGAGTTG
1 CTATATCCGGA-CTAAGTCCCGAAGGCATTTGTGCGAGTTG
*
73556605 CTATATCCGG-CTAAATCCCGAAGG
1 CTATATCCGGACTAAGTCCCGAAGG
73556629 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
39 15 0.11
40 114 0.86
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CTATATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTG
Found at i:73560710 original size:47 final size:47
Alignment explanation
Indices: 73560655--73560785 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
73560645 CACAATCGAT
* * *
73560655 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATCTTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCA
* * *
73560702 GAGTACCTATACCATGGCCCGTAGCTAAATCAAGGTAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCA
* * * *
73560749 AAATACTTATATCATGGCCCGTAGCCAAATCTAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
73560786 TTATTTGCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCA
Found at i:73573151 original size:55 final size:55
Alignment explanation
Indices: 73573090--73573266 Score: 237
Period size: 55 Copynumber: 3.2 Consensus size: 55
73573080 ATATTAAGTC
* * * *
73573090 CGCACACTCATTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
73573145 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
73573200 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
73573256 CGCACACTTAG
1 CGCACACTTAG
73573267 CGCCAATCTC
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
55 92 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:73573153 original size:28 final size:27
Alignment explanation
Indices: 73573090--73573241 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
73573080 ATATTAAGTC
* * *
73573090 CGCACACTCATTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
73573117 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
73573145 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
73573172 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
73573200 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
73573227 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73573242 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:73585648 original size:40 final size:40
Alignment explanation
Indices: 73585499--73585641 Score: 200
Period size: 40 Copynumber: 3.6 Consensus size: 40
73585489 NNNNNNNNNN
* * *
73585499 CGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA-C
* * *
73585538 CGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAAC
73585578 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAAC
*
73585618 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
73585642 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
39 7 0.07
40 85 0.90
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAAC
Found at i:73585655 original size:40 final size:39
Alignment explanation
Indices: 73585499--73585660 Score: 193
Period size: 40 Copynumber: 4.1 Consensus size: 39
73585489 NNNNNNNNNN
* *
73585499 CGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA-C
* *
73585538 CGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAAC
73585578 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATAAC
* ** *
73585618 CGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAAC
73585658 CGG
1 CGG
73585661 TTAAATTCCG
Statistics
Matches: 109, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
39 9 0.08
40 98 0.90
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAAC
Found at i:73593773 original size:40 final size:40
Alignment explanation
Indices: 73593539--73593759 Score: 281
Period size: 40 Copynumber: 5.5 Consensus size: 40
73593529 ATGATGTCCA
* * * *
73593539 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCG
* *
73593579 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACCG
*
73593619 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
*
73593658 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
73593698 GGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
73593738 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
73593760 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 35 0.22
40 117 0.72
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:73593781 original size:119 final size:119
Alignment explanation
Indices: 73593542--73593792 Score: 296
Period size: 119 Copynumber: 2.1 Consensus size: 119
73593532 ATGTCCAGGC
*
73593542 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
* * **
73593607 TTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
66 TCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGGGT
* * * *
73593661 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * *
73593724 AGTCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGT
64 AGTCACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCCGGGT
* *
73593780 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
73593793 TACGTGATTT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 79 0.70
120 31 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
TCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGGGT
Found at i:73603012 original size:52 final size:52
Alignment explanation
Indices: 73602897--73603075 Score: 208
Period size: 52 Copynumber: 3.5 Consensus size: 52
73602887 GCTAGTGACT
* * *
73602897 CAAGTGTAGTACTTTGTGAAGGCCA-TTT-TG-AGAAGAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAA-AGATAGCTTTGGACA
73602946 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGACA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGACA
* * * *
73602998 CAAGTGTTGTACTATGGGAAGGCCAATTTGTGAAG-AAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGAC-A
* *
73603049 CAAGGGGTGGTACTATGTGCAGGCCAC
1 CAA-GTGTGGTACTATGTGAAGGCCAC
73603076 CAGGCATCTG
Statistics
Matches: 112, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
49 23 0.21
50 6 0.05
51 23 0.21
52 60 0.54
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.27
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGACA
Found at i:73609466 original size:21 final size:21
Alignment explanation
Indices: 73609435--73609504 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
73609425 CGGTGCACAT
*
73609435 GCCCGTGTGATAAAGGGACAC
1 GCCCGTGTGATCAAGGGACAC
**
73609456 GCCTTTGTGATCAAGGGACAC
1 GCCCGTGTGATCAAGGGACAC
*
73609477 GCCCGTGTGATCAAGGGAGAC
1 GCCCGTGTGATCAAGGGACAC
73609498 GCCCGTG
1 GCCCGTG
73609505 CTTCATGTCG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (21 bp):
GCCCGTGTGATCAAGGGACAC
Found at i:73609659 original size:27 final size:27
Alignment explanation
Indices: 73609629--73609685 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
73609619 CGGCCAAGAT
* *
73609629 ACACGCCCGTGTT-TTAGGCCTTGTAGC
1 ACACACCCGTGTTCTGA-GCCTTGTAGC
*
73609656 ACACACGCGTGTTCTGAGCCTTGTAGC
1 ACACACCCGTGTTCTGAGCCTTGTAGC
73609683 ACA
1 ACA
73609686 TACGGTTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (27 bp):
ACACACCCGTGTTCTGAGCCTTGTAGC
Found at i:73621192 original size:18 final size:18
Alignment explanation
Indices: 73621166--73621200 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
73621156 TCGTAACATT
*
73621166 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
73621184 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
73621201 CGTCTTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:73621841 original size:26 final size:26
Alignment explanation
Indices: 73621769--73621983 Score: 267
Period size: 26 Copynumber: 8.3 Consensus size: 26
73621759 CTGGAGGCCT
*
73621769 AGCCTCTTTT-AAT-AACTGGGGCAGA
1 AGCC-CTTTTCAATAAACTGGGGCATA
** * *
73621794 AGCCC-TTTCGGTAATCTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
73621819 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** * *
73621845 AGCCCTTTTCGGTAAACTAGGGCGTA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
73621871 AACCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
73621897 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
73621923 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
73621949 AGCCCTTTTCGGTAAACTAGGGG-ATA
1 AGCCCTTTTCAATAAACT-GGGGCATA
73621975 AGCCCTTTT
1 AGCCCTTTT
73621984 GCACTTCCTC
Statistics
Matches: 165, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
23 3 0.02
24 2 0.01
25 18 0.11
26 138 0.84
27 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:73621877 original size:52 final size:52
Alignment explanation
Indices: 73621769--73621983 Score: 319
Period size: 52 Copynumber: 4.2 Consensus size: 52
73621759 CTGGAGGCCT
* *
73621769 AGCCTCTTTT-AAT-AACTGGGGCAGAAGCCC-TTTCGGTAATCTAGGGCATA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
*
73621819 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCGTA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
* * ** *
73621871 AACCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
*
73621923 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGGATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
73621975 AGCCCTTTT
1 AGCCCTTTT
73621984 GCACTTCCTC
Statistics
Matches: 147, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 5 0.03
50 7 0.05
51 16 0.11
52 119 0.81
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
Found at i:73622058 original size:20 final size:20
Alignment explanation
Indices: 73622033--73622107 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
73622023 TTATGAATAC
*
73622033 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
73622053 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
73622073 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
73622093 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
73622108 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:73622064 original size:11 final size:11
Alignment explanation
Indices: 73622033--73622088 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
73622023 TTATGAATAC
73622033 ATCATGTGCAT
1 ATCATGTGCAT
* *
73622044 TTCA--TACAT
1 ATCATGTGCAT
73622053 ATCATGTGCAT
1 ATCATGTGCAT
*
73622064 ATCA--TACAT
1 ATCATGTGCAT
73622073 ATCATGTGCAT
1 ATCATGTGCAT
73622084 ATCAT
1 ATCAT
73622089 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:73622105 original size:9 final size:10
Alignment explanation
Indices: 73622050--73622106 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
73622040 GCATTTCATA
73622050 CATATCATGT
1 CATATCATGT
*
73622060 GCATATCAT-A
1 -CATATCATGT
73622070 CATATCATGT
1 CATATCATGT
*
73622080 GCATATCATAT
1 -CATATCATGT
73622091 CA-ATCATGT
1 CATATCATGT
73622100 -ATATCAT
1 CATATCAT
73622107 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:73622163 original size:25 final size:25
Alignment explanation
Indices: 73622135--73622182 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
73622125 ATAATTAAAC
* * *
73622135 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
73622160 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
73622183 CATACTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:73630007 original size:26 final size:26
Alignment explanation
Indices: 73629935--73630071 Score: 154
Period size: 26 Copynumber: 5.3 Consensus size: 26
73629925 CTGGAGGCCT
*
73629935 AGCCTCTTTT-AAT-AACTAGGGCAGA
1 AGCC-CTTTTCAATAAACTAGGGCATA
** *
73629960 AGCCC-TTTCGGTAATCTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
** *
73629985 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
*
73630011 AGCCCTTTTCAAAAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
**
73630037 AGCCCTTTTCAATAAACCGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
73630063 AGCCCTTTT
1 AGCCCTTTT
73630072 GCACTTCCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 19 0.20
26 72 0.75
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTAGGGCATA
Found at i:73630146 original size:20 final size:20
Alignment explanation
Indices: 73630121--73630177 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
73630111 TTTTGAATAC
73630121 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
73630140 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
73630161 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
73630178 CCACGTATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.28
20 24 0.67
21 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:73630159 original size:5 final size:5
Alignment explanation
Indices: 73630129--73630177 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
73630119 ACATCATGTG
* *
73630129 CATAT CATA- CATAT CATGT GCATAT CATAT CA-AT CATGT -ATAT CATAT
1 CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CATAT CATAT CATAT
73630177 C
1 C
73630178 CCACGTATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
4 11 0.31
5 21 0.58
6 4 0.11
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (5 bp):
CATAT
Found at i:73630173 original size:9 final size:10
Alignment explanation
Indices: 73630121--73630174 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 10
73630111 TTTTGAATAC
73630121 ATCATGTGCAT
1 ATCATGT-CAT
*
73630132 ATCAT-ACAT
1 ATCATGTCAT
73630141 ATCATGTGCAT
1 ATCATGT-CAT
*
73630152 ATCATATCA-
1 ATCATGTCAT
73630161 ATCATGT-AT
1 ATCATGTCAT
73630170 ATCAT
1 ATCAT
73630175 ATCCCACGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.03
9 19 0.53
10 2 0.06
11 14 0.39
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:73634186 original size:12 final size:12
Alignment explanation
Indices: 73634168--73634197 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
73634158 CATTTTCATT
73634168 ATTTTTCTTTTG
1 ATTTTTCTTTTG
*
73634180 GTTTTTCTTTTG
1 ATTTTTCTTTTG
73634192 ATTTTT
1 ATTTTT
73634198 TTTAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.77
Consensus pattern (12 bp):
ATTTTTCTTTTG
Found at i:73636750 original size:46 final size:46
Alignment explanation
Indices: 73636698--73636873 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
73636688 TGGTTGAGCA
73636698 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
73636744 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
73636789 CATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73636837 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73636874 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73636854 original size:93 final size:93
Alignment explanation
Indices: 73636695--73636866 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
73636685 GGATGGTTGA
* * * **
73636695 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73636760 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
73636788 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73636853 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
73636867 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73640226 original size:59 final size:59
Alignment explanation
Indices: 73640158--73640271 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 59
73640148 AGCCTGCACA
* *
73640158 TAGTACTACACATGCGACCAATTATCCAGAACACG-AAGTAGCTTGCACTTAGTACCACT
1 TAGTACTACACACGCGACCAATTATCCAGAACACGTAA-TAGCCTGCACTTAGTACCACT
* *
73640217 TAGTACTACACACGTGACCAATTATCCAGTACACGTAATAGCCTGCACTTAGTAC
1 TAGTACTACACACGCGACCAATTATCCAGAACACGTAATAGCCTGCACTTAGTAC
73640272 TACACACGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 48 0.96
60 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (59 bp):
TAGTACTACACACGCGACCAATTATCCAGAACACGTAATAGCCTGCACTTAGTACCACT
Found at i:73640378 original size:51 final size:49
Alignment explanation
Indices: 73640213--73640378 Score: 206
Period size: 50 Copynumber: 3.3 Consensus size: 49
73640203 CACTTAGTAC
* *
73640213 CACTTAGTACTACACACGTGACCAATTATCCAGTACACGTAATAGCCTG
1 CACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAGTAGCCTG
** * * *
73640262 CACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCCTG
1 CACTTAGTACTACACACGTGACC-AATTATCCGGTACACGTAGTAGCCTG
* * * *
73640312 CACTTAGTACTACACACGTGATCACAGTTTTCGGGTACACATAGTAGCCTG
1 CACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACGTAGTAGCCTG
73640363 CACTTAGTACTACACA
1 CACTTAGTACTACACA
73640379 TGCGACCTCC
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 23 0.23
50 40 0.40
51 35 0.35
52 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
CACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAGTAGCCTG
Found at i:73645383 original size:30 final size:29
Alignment explanation
Indices: 73645349--73645413 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 29
73645339 ATGAATTGAA
*
73645349 AGCTTTGGCATTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
*
73645379 AGCTTTTGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
73645408 AGCTTT
1 AGCTTT
73645414 AGCTACTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:73651833 original size:29 final size:29
Alignment explanation
Indices: 73651791--73651863 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
73651781 GGCCTAATCT
* * *
73651791 CATTTATATGGCCCATCAAGCCTAATTCA
1 CATTCATATAGCCCATCAAGCCCAATTCA
* *
73651820 CATTCTTATAGCCCATCAGGCCCAATTCA
1 CATTCATATAGCCCATCAAGCCCAATTCA
* *
73651849 TATTCATATGGCCCA
1 CATTCATATAGCCCA
73651864 GATCACATGC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.30
Consensus pattern (29 bp):
CATTCATATAGCCCATCAAGCCCAATTCA
Found at i:73651967 original size:9 final size:9
Alignment explanation
Indices: 73651955--73652000 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
73651945 AGTCCATCGG
73651955 GCCCATTTA
1 GCCCATTTA
73651964 GCCCATTTCA
1 GCCCATTT-A
*
73651974 GCCCGTTTA
1 GCCCATTTA
*
73651983 GCCCATTTC
1 GCCCATTTA
73651992 GTCCCATTT
1 G-CCCATTT
73652001 GGCCAATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 17 0.53
10 15 0.47
ACGTcount: A:0.15, C:0.37, G:0.13, T:0.35
Consensus pattern (9 bp):
GCCCATTTA
Found at i:73651982 original size:19 final size:19
Alignment explanation
Indices: 73651955--73652000 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
73651945 AGTCCATCGG
73651955 GCCCATTTAGCCCATTTCA
1 GCCCATTTAGCCCATTTCA
*
73651974 GCCCGTTTAGCCCATTTC-
1 GCCCATTTAGCCCATTTCA
73651992 GTCCCATTT
1 G-CCCATTT
73652001 GGCCAATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.15, C:0.37, G:0.13, T:0.35
Consensus pattern (19 bp):
GCCCATTTAGCCCATTTCA
Found at i:73655699 original size:49 final size:49
Alignment explanation
Indices: 73655646--73655870 Score: 267
Period size: 49 Copynumber: 4.5 Consensus size: 49
73655636 CTGGTACGCA
73655646 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
** * *
73655695 TAGTAGCCTGCACTTAGTACTACACACATG-G-CCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACT--ACACATGCGACC-AATTATCCGGTACATG
* * * * * *
73655745 TAGTAGCCTTCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-TCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACAT-G
*
73655796 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
*
73655845 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
73655871 CGTGACCTCA
Statistics
Matches: 147, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
48 6 0.04
49 59 0.40
50 39 0.27
51 43 0.29
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
Found at i:73655815 original size:101 final size:98
Alignment explanation
Indices: 73655646--73655877 Score: 281
Period size: 100 Copynumber: 2.3 Consensus size: 98
73655636 CTGGTACGCA
* * * *
73655646 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACATATAGTAGCCTGCACTTA
* *
73655711 GTACTACACACATG-G-CCTAACCATCTGATACATG
66 GTACT--ACACATGCGACC-AACCATCCGATACACG
* * *
73655745 TAGTAGCCTTCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-TCATAGTAGCCTGCAC
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACAT-ATAGTAGCCTGCAC
** *
73655809 TTAGTACTACACATGCGACCAATTATCCGGTACACG
63 TTAGTACTACACATGCGACCAACCATCCGATACACG
73655845 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTACACTTAGTACTACACACGTGACC
73655878 TCACAATAGA
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
99 36 0.31
100 46 0.40
101 33 0.29
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACATATAGTAGCCTGCACTTA
GTACTACACATGCGACCAACCATCCGATACACG
Found at i:73656154 original size:27 final size:27
Alignment explanation
Indices: 73656124--73656177 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
73656114 TCATACAACC
* *
73656124 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
73656151 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
73656178 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:73658045 original size:108 final size:109
Alignment explanation
Indices: 73657855--73658071 Score: 409
Period size: 108 Copynumber: 2.0 Consensus size: 109
73657845 TACTCTTTTA
73657855 GTTTACTACTCACTATCACATTTTCCTTATTTTTCTTGAAACACATTACCCTTCATACCACAGTG
1 GTTTACTACTCACTATCACATTTTCCTTATTTTTCTTGAAACACATTACCCTTCATACCACAGTG
*
73657920 CATTACTGAAAATTAGGAAATCTTTACTCAATGCAGATTAGTCC
66 CATTACTGAAAATTAGGAAATCTTTACCCAATGCAGATTAGTCC
73657964 GTTTACTACTCACTATCACATTTTCCTTA-TTTTCTTGAAACACATTACCCTTCATACCACAGTG
1 GTTTACTACTCACTATCACATTTTCCTTATTTTTCTTGAAACACATTACCCTTCATACCACAGTG
*
73658028 CATTGCTGAAAATTAGGAAATCTTTACCCAATGCAGATTAGTCC
66 CATTACTGAAAATTAGGAAATCTTTACCCAATGCAGATTAGTCC
73658072 AGTTCAGACG
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
108 77 0.73
109 29 0.27
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (109 bp):
GTTTACTACTCACTATCACATTTTCCTTATTTTTCTTGAAACACATTACCCTTCATACCACAGTG
CATTACTGAAAATTAGGAAATCTTTACCCAATGCAGATTAGTCC
Found at i:73666381 original size:40 final size:40
Alignment explanation
Indices: 73666322--73666403 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
73666312 GAGATGGTGG
*
73666322 AACTATGTGAGATAGGCATAAAACTATAGCGAACAAAATA
1 AACTATGTGAGATACGCATAAAACTATAGCGAACAAAATA
* *
73666362 AACTATGTGAGATACGCATAAAATTGTAGCGAACAAAATA
1 AACTATGTGAGATACGCATAAAACTATAGCGAACAAAATA
73666402 AA
1 AA
73666404 ACCATATCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (40 bp):
AACTATGTGAGATACGCATAAAACTATAGCGAACAAAATA
Found at i:73669125 original size:42 final size:42
Alignment explanation
Indices: 73669066--73669151 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
73669056 CCTCGATCTA
73669066 AATCTGAATTCCTCCTTTCTTGATCTATATGTTTTCAAAATT
1 AATCTGAATTCCTCCTTTCTTGATCTATATGTTTTCAAAATT
73669108 AATCTGAATTCCTCCTTTCTTGATCTATATGTTTTCAAAATT
1 AATCTGAATTCCTCCTTTCTTGATCTATATGTTTTCAAAATT
73669150 AA
1 AA
73669152 CCCTTTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (42 bp):
AATCTGAATTCCTCCTTTCTTGATCTATATGTTTTCAAAATT
Found at i:73674401 original size:16 final size:16
Alignment explanation
Indices: 73674382--73674427 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
73674372 TTGAAATACC
* *
73674382 GAAATGTCGAAATGTG
1 GAAATGCCGAAAAGTG
* *
73674398 GAAATACCGAAAAGTT
1 GAAATGCCGAAAAGTG
73674414 GAAATGCCGAAAAG
1 GAAATGCCGAAAAG
73674428 CTGAAAGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.26, T:0.17
Consensus pattern (16 bp):
GAAATGCCGAAAAGTG
Found at i:73674401 original size:24 final size:24
Alignment explanation
Indices: 73674374--73674419 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
73674364 GACAAAAGTT
*
73674374 GAAATACCGAAATGTCGAAATGTG
1 GAAATACCGAAAAGTCGAAATGTG
*
73674398 GAAATACCGAAAAGTTGAAATG
1 GAAATACCGAAAAGTCGAAATG
73674420 CCGAAAAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.20
Consensus pattern (24 bp):
GAAATACCGAAAAGTCGAAATGTG
Found at i:73674425 original size:24 final size:24
Alignment explanation
Indices: 73674374--73674425 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
73674364 GACAAAAGTT
* **
73674374 GAAATACCGAAATGTCGAAATGTG
1 GAAATACCGAAAAGTCGAAATGCC
*
73674398 GAAATACCGAAAAGTTGAAATGCC
1 GAAATACCGAAAAGTCGAAATGCC
73674422 GAAA
1 GAAA
73674426 AGCTGAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.17
Consensus pattern (24 bp):
GAAATACCGAAAAGTCGAAATGCC
Found at i:73674432 original size:16 final size:16
Alignment explanation
Indices: 73674398--73674433 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
73674388 TCGAAATGTG
*
73674398 GAAATACCGAAAAGTT
1 GAAATACCGAAAAGCT
*
73674414 GAAATGCCGAAAAGCT
1 GAAATACCGAAAAGCT
73674430 GAAA
1 GAAA
73674434 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.22, T:0.14
Consensus pattern (16 bp):
GAAATACCGAAAAGCT
Found at i:73674757 original size:28 final size:29
Alignment explanation
Indices: 73674643--73674757 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
73674633 GTAAGCATGA
* *
73674643 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
73674671 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
73674700 ATAT-ATAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
73674729 ATATGAATGTGA-TTGGGCTTAATGAGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
73674757 A
1 A
73674758 GATACAGGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 27 0.35
29 49 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:73689240 original size:27 final size:26
Alignment explanation
Indices: 73689205--73689316 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
73689195 AGCATGGCTT
* *
73689205 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
73689231 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
73689259 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
73689286 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
73689313 CCAG
1 CCAG
73689317 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:73689269 original size:54 final size:54
Alignment explanation
Indices: 73689205--73689316 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
73689195 AGCATGGCTT
* *
73689205 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
73689259 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
73689313 CCAG
1 CCAG
73689317 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:73689762 original size:8 final size:8
Alignment explanation
Indices: 73689735--73689765 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
73689725 TCGAAATACT
73689735 GGCTTTTC
1 GGCTTTTC
*
73689743 GGCATTTC
1 GGCTTTTC
73689751 GGCTTTTC
1 GGCTTTTC
73689759 GGCTTTT
1 GGCTTTT
73689766 GCCTATCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:73691384 original size:46 final size:46
Alignment explanation
Indices: 73691334--73691462 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
73691324 TGGTTGAGCA
*
73691334 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
73691380 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
73691426 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73691463 GGGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:73698810 original size:46 final size:46
Alignment explanation
Indices: 73698754--73698929 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
73698744 TGGTTGAGCA
73698754 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73698800 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTTGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--T-G
*
73698845 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73698893 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73698930 GCGGATTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73698910 original size:93 final size:93
Alignment explanation
Indices: 73698751--73698922 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
73698741 GGATGGTTGA
* *
73698751 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73698816 TGAGTCCGAGTTCGTGAGATGTAACTTG
66 TGAGTCCGAGTTCGTGAGATGTAACTTG
*
73698844 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73698909 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
73698923 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTTG
Found at i:73704598 original size:27 final size:26
Alignment explanation
Indices: 73704563--73704674 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
73704553 AGCATGGCTG
* *
73704563 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
73704589 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
73704617 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
73704644 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
73704671 CCAG
1 CCAG
73704675 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:73704627 original size:54 final size:54
Alignment explanation
Indices: 73704563--73704674 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
73704553 AGCATGGCTG
* *
73704563 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
73704617 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
73704671 CCAG
1 CCAG
73704675 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:73706128 original size:24 final size:24
Alignment explanation
Indices: 73706090--73706184 Score: 136
Period size: 24 Copynumber: 4.0 Consensus size: 24
73706080 AACACTGTTC
* * *
73706090 TCCCTAATCAGCTCCTAAATCCTC
1 TCCCTTATCAACTCCTAAATCCTA
* *
73706114 TCCCTTATGAACTCCTAAATTCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
73706138 TCTCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
73706162 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
73706185 CTCCTGACAG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.27, C:0.36, G:0.02, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:73707106 original size:29 final size:30
Alignment explanation
Indices: 73707061--73707123 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
73707051 AGCTTACATC
*
73707061 TTTA-TATTTTTTAAATGATTAAA-TAAAAT
1 TTTATTATTTTTTAAATG-TCAAAGTAAAAT
*
73707090 TTTATTATTTTTT-AATGTCAAAGTATAAT
1 TTTATTATTTTTTAAATGTCAAAGTAAAAT
73707119 TTTAT
1 TTTAT
73707124 CGCCCTTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.13
29 18 0.60
30 8 0.27
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (30 bp):
TTTATTATTTTTTAAATGTCAAAGTAAAAT
Found at i:73707364 original size:16 final size:14
Alignment explanation
Indices: 73707334--73707376 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
73707324 TAACATTTTA
73707334 AAAATTAAATTATT
1 AAAATTAAATTATT
73707348 AAAATATAAATTTATT
1 AAAAT-TAAA-TTATT
*
73707364 AATAATTTAATTA
1 AA-AATTAAATTA
73707377 CGTTAACGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 10 0.40
17 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTAAATTATT
Found at i:73707863 original size:25 final size:27
Alignment explanation
Indices: 73707835--73707886 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
73707825 ATATTTTTTG
73707835 TAATTT-TT-TTATATTTATTAATATT
1 TAATTTATTATTATATTTATTAATATT
*
73707860 TAATTTAATTATTGTATTTATTAATAT
1 TAATTT-ATTATTATATTTATTAATAT
73707887 AATTATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
27 2 0.09
28 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TAATTTATTATTATATTTATTAATATT
Found at i:73708392 original size:4 final size:4
Alignment explanation
Indices: 73708367--73708406 Score: 53
Period size: 4 Copynumber: 9.2 Consensus size: 4
73708357 AATATAATCT
73708367 TAAA TGAAA TAGAA TAAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA T-AAA TA-AA T-AAA TAAA TAAA TAAA TAAA TAAA T
73708407 TTATTCTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 22 0.67
5 10 0.30
6 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:73711940 original size:15 final size:15
Alignment explanation
Indices: 73711920--73711971 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
73711910 ACTACAAAAC
73711920 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
73711935 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
73711954 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
73711969 ATT
1 ATT
73711972 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:73712035 original size:16 final size:16
Alignment explanation
Indices: 73712004--73712040 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
73711994 ATGAGAATAA
73712004 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
73712020 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
73712036 TATTA
1 TATTA
73712041 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:73712092 original size:22 final size:22
Alignment explanation
Indices: 73712052--73712107 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
73712042 AATAAAATTG
*
73712052 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
73712072 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
73712094 TATTAATAATTTAT
1 AAATAATAAATTAT
73712108 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:73712392 original size:19 final size:19
Alignment explanation
Indices: 73712356--73712393 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
73712346 TCCTGTAAGT
* *
73712356 TATTTTCTGTTAACCAAAC
1 TATTTTCTGTGAAACAAAC
73712375 TATTTTCTGTGAAACAAAC
1 TATTTTCTGTGAAACAAAC
73712394 ACAGAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (19 bp):
TATTTTCTGTGAAACAAAC
Found at i:73713721 original size:25 final size:22
Alignment explanation
Indices: 73713677--73713721 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 22
73713667 ATATTTAGAT
*
73713677 AATAATAATTAAAATTAATTTG
1 AATAATAATTAAAATAAATTTG
73713699 AATAATAATATATAAATCAAATT
1 AATAATAAT-TA-AAAT-AAATT
73713722 ATGGTAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 4 0.21
25 4 0.21
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATAATAATTAAAATAAATTTG
Found at i:73716310 original size:24 final size:25
Alignment explanation
Indices: 73716276--73716328 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
73716266 TAAAAAGAAT
*
73716276 TTTTATATTTTTATTAATT-TATATA
1 TTTTATATTTTT-TGAATTCTATATA
*
73716301 TTTTA-ATTTTTTGAATTCTATATC
1 TTTTATATTTTTTGAATTCTATATA
73716325 TTTT
1 TTTT
73716329 TTAATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 15 0.60
25 5 0.20
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (25 bp):
TTTTATATTTTTTGAATTCTATATA
Found at i:73735496 original size:26 final size:26
Alignment explanation
Indices: 73735467--73735549 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
73735457 ACGAGGTCGC
*
73735467 CCATTTCAAATACGCCACAAAGGCTT
1 CCATTTCAAATATGCCACAAAGGCTT
* * *
73735493 CCATTTTAGATATGCTACAAAGGCTT
1 CCATTTCAAATATGCCACAAAGGCTT
* *
73735519 -CA-TTCAAGATATGGCATAAAGGCTT
1 CCATTTCAA-ATATGCCACAAAGGCTT
73735544 CCATTT
1 CCATTT
73735550 TATTGATTAC
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
24 3 0.07
25 16 0.36
26 24 0.53
27 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (26 bp):
CCATTTCAAATATGCCACAAAGGCTT
Found at i:73735528 original size:25 final size:25
Alignment explanation
Indices: 73735482--73735544 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
73735472 TCAAATACGC
**
73735482 CACAAAGGCTTCCATTTTAGATAT-G
1 CACAAAGGCTT-CATTCAAGATATGG
73735507 CTACAAAGGCTTCATTCAAGATATGG
1 C-ACAAAGGCTTCATTCAAGATATGG
*
73735533 CATAAAGGCTTC
1 CACAAAGGCTTC
73735545 CATTTTATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 21 0.64
26 12 0.36
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
CACAAAGGCTTCATTCAAGATATGG
Found at i:73744697 original size:21 final size:21
Alignment explanation
Indices: 73744671--73744742 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
73744661 GAAAAGAGAT
73744671 TAGAATAAACTTGATTTTATG
1 TAGAATAAACTTGATTTTATG
* **** *
73744692 TAGAATGAAGAACATTGTA-G
1 TAGAATAAACTTGATTTTATG
* *
73744712 TAAAATAAACTTGGATTTGATG
1 TAGAATAAACTT-GATTTTATG
73744734 TAGAATAAA
1 TAGAATAAA
73744743 GAATAGTGTA
Statistics
Matches: 34, Mismatches: 15, Indels: 3
0.65 0.29 0.06
Matches are distributed among these distances:
20 8 0.24
21 17 0.50
22 9 0.26
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.33
Consensus pattern (21 bp):
TAGAATAAACTTGATTTTATG
Found at i:73744735 original size:42 final size:41
Alignment explanation
Indices: 73744674--73744757 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 41
73744664 AAGAGATTAG
* * *
73744674 AATAAACTTGATTTTATGTAGAATGAAGAACATTGTAGTAA
1 AATAAACTTGATTTGATGTAGAATAAAGAACAGTGTAGTAA
*
73744715 AATAAACTTGGATTTGATGTAGAATAAAGAATAGTGTAGTAA
1 AATAAACTT-GATTTGATGTAGAATAAAGAACAGTGTAGTAA
73744757 A
1 A
73744758 TCTCTCGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 9 0.24
42 29 0.76
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (41 bp):
AATAAACTTGATTTGATGTAGAATAAAGAACAGTGTAGTAA
Found at i:73748084 original size:21 final size:21
Alignment explanation
Indices: 73748058--73748104 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
73748048 ACGTTCTTAC
73748058 ATGATATGGTCTTTTTCCCAT
1 ATGATATGGTCTTTTTCCCAT
73748079 ATGATATGGTCTTTTTCCCAT
1 ATGATATGGTCTTTTTCCCAT
73748100 ATGAT
1 ATGAT
73748105 GTCTTAACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (21 bp):
ATGATATGGTCTTTTTCCCAT
Found at i:73763339 original size:119 final size:120
Alignment explanation
Indices: 73763161--73763425 Score: 394
Period size: 119 Copynumber: 2.2 Consensus size: 120
73763151 GCTACTCGTT
*
73763161 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
73763226 ATTTAGTAACTCGCACCAATGCCTTCGGA-CTTAGCCCGGAATTAGTAACTCGCA
66 ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGAATTAGTAACTCGCA
* *
73763280 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * * *
73763344 GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA
65 GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGAAT-TAGTAAC-TCGCA
*
73763401 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
73763426 CATCATTTGA
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
118 3 0.02
119 88 0.67
120 30 0.23
121 11 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGAATTAGTAACTCGCA
Found at i:73763425 original size:40 final size:40
Alignment explanation
Indices: 73763142--73763425 Score: 355
Period size: 40 Copynumber: 7.1 Consensus size: 40
73763132 CGGAATTTAA
** *
73763142 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
73763182 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
73763222 CCGGATTTAGTAACTCGCACCAATGCCTTC-GGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
73763261 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
73763301 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
73763341 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
73763381 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
73763421 CCGGA
1 CCGGA
73763426 CATCATTTGA
Statistics
Matches: 214, Mismatches: 22, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
39 42 0.20
40 157 0.73
41 15 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:73767589 original size:46 final size:48
Alignment explanation
Indices: 73767461--73767719 Score: 236
Period size: 46 Copynumber: 5.5 Consensus size: 48
73767451 ACGCCAACGC
* * * *
73767461 CATGTCCCGGACATGGTCTTACACTGGCTCTCACATATCCGT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-ACATCT-TGTAGCCGATG
** *
73767510 CCATGTCCCAGACATGGTCTTGTACTA--AC-ACATCTTGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTACATCTTGTAGCCGATG
*
73767556 CATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTTG-AGGCCGATA
1 CATGTCCCAGACATGGTCTTACACTAGCTCTACATCTTGTA-GCCGATG
* **
73767602 CATGTCCCAGACAT-GTCTTACACTAGCTCT-TATC-TCAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTACATCTTGTA-GCCGATG
* ** *
73767648 CCATGTCCCAGACATGGTCTTACACTAGCTCT-CGTAATGTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTACATCTTGTAGCCGATG
*
73767696 CATGTTCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
73767720 GGCGCACAAA
Statistics
Matches: 177, Mismatches: 22, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 74 0.42
47 28 0.16
48 25 0.14
49 1 0.01
50 22 0.12
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTACATCTTGTAGCCGATG
Found at i:73767668 original size:94 final size:92
Alignment explanation
Indices: 73767549--73767719 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 92
73767539 ACATCTTGTA
**
73767549 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTTGAGGCCGATACATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATAATGAGGCCGATACATGTCCCAGA
73767613 CATGTCTTACACTAGCTCTTATCTCAAT
65 CATGTCTTACACTAGCTCTTATCTCAAT
* * * *
73767641 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATGTGGCCGATGCATGTTCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGAGGCCGATACATGTCCCAG
73767706 ACATGTCTTACACT
64 ACATGTCTTACACT
73767720 GGCGCACAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 48 0.69
95 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCCGATACATGTCCCAGAC
ATGTCTTACACTAGCTCTTATCTCAAT
Found at i:73767706 original size:140 final size:140
Alignment explanation
Indices: 73767461--73767719 Score: 353
Period size: 140 Copynumber: 1.8 Consensus size: 140
73767451 ACGCCAACGC
* * **
73767461 CATGTCCCGGACATGGTCTTACACTGGCTCTCACATATCCGTGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-ACATATCAATGCCGATGCCATGTCCCAGACATG
**
73767526 GTCTTGTACTAACACATCTTGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCT
65 GTCTTACACTAACACATCTTGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCT
73767591 TGAGGCCGATA
130 TGAGGCCGATA
* *
73767602 CATGTCCCAGACAT-GTCTTACACTAGCTCT-TATCTCAATGCCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCATGTCCCAGACATGG
* * * *
73767665 TCTTACACTAGCTC-TCGTAATGTGGCCGATGCATGTTCCAGACATGTCTTACACT
66 TCTTACACTAACACATC-T--TGTAGCCGATGCATGTCCCAGACATGTCTTACACT
73767720 GGCGCACAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
137 2 0.02
138 40 0.39
140 48 0.47
141 13 0.13
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCATGTCCCAGACATGG
TCTTACACTAACACATCTTGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTT
GAGGCCGATA
Found at i:73773623 original size:33 final size:33
Alignment explanation
Indices: 73773582--73773647 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
73773572 TAGCACACGG
73773582 GTGTGTGCCTTGGCCGTGTGCCTCAAAATAAAT
1 GTGTGTGCCTTGGCCGTGTGCCTCAAAATAAAT
*
73773615 GTGTGTGCCTTGTCCGTGTGCCTCAAAATAAAT
1 GTGTGTGCCTTGGCCGTGTGCCTCAAAATAAAT
73773648 AATGATGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (33 bp):
GTGTGTGCCTTGGCCGTGTGCCTCAAAATAAAT
Found at i:73780633 original size:19 final size:18
Alignment explanation
Indices: 73780569--73780634 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
73780559 TTTTAGAATT
*
73780569 TTTTGAAATCTTTATAATTA
1 TTTTGAAATTTTTATAA--A
*
73780589 TTTTGAAA---ATATAAA
1 TTTTGAAATTTTTATAAA
73780604 TTTTGAAATTTTTATAAA
1 TTTTGAAATTTTTATAAA
*
73780622 TATTTTAAATTTT
1 T-TTTGAAATTTT
73780635 GAAAATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 9 0.23
17 5 0.13
18 7 0.18
19 10 0.26
20 8 0.21
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTTGAAATTTTTATAAA
Found at i:73780644 original size:19 final size:20
Alignment explanation
Indices: 73780588--73780647 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 20
73780578 CTTTATAATT
73780588 ATTTTGAAAATATAAATTTTGAA
1 ATTTTGAAAAT-T--ATTTTGAA
*
73780611 ATTTTTATAAA-TATTTT-AA
1 ATTTTGA-AAATTATTTTGAA
73780630 ATTTTGAAAATTATTTTG
1 ATTTTGAAAATTATTTTG
73780648 TATTTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 3 0.09
19 14 0.44
20 5 0.16
22 1 0.03
23 6 0.19
24 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTTGAAAATTATTTTGAA
Found at i:73781382 original size:5 final size:5
Alignment explanation
Indices: 73781371--73781410 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
73781361 AACAAAAATA
* *
73781371 AAAAG AATAG AAAAAG AATAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
73781411 CCTAAACTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (5 bp):
AAAAG
Found at i:73781386 original size:11 final size:11
Alignment explanation
Indices: 73781370--73781405 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
73781360 CAACAAAAAT
73781370 AAAAAGAATAG
1 AAAAAGAATAG
73781381 AAAAAGAATAG
1 AAAAAGAATAG
*
73781392 -AAAAGAAAAG
1 AAAAAGAATAG
73781402 AAAA
1 AAAA
73781406 GAAAACCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (11 bp):
AAAAAGAATAG
Found at i:73781395 original size:10 final size:10
Alignment explanation
Indices: 73781367--73781408 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
73781357 CTACAACAAA
73781367 AATA-AAAAG
1 AATAGAAAAG
73781376 AATAGAAAAAG
1 AATAG-AAAAG
73781387 AATAGAAAAG
1 AATAGAAAAG
*
73781397 AAAAGAAAAG
1 AATAGAAAAG
73781407 AA
1 AA
73781409 AACCTAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 4 0.13
10 16 0.53
11 10 0.33
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (10 bp):
AATAGAAAAG
Found at i:73782934 original size:40 final size:40
Alignment explanation
Indices: 73782857--73783074 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
73782847 AAACCAAGTA
* * *
73782857 CCTTCGGGATTTAG-CCGGATATAGCT-ACACGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
73782896 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
73782936 CCTTCGGGACTTAGCCCGGGTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
73782976 CCTTTGGGACTTAGCCCAGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
73783016 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
73783056 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
73783075 TTATCATCTG
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 14 0.08
40 151 0.92
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:73794922 original size:24 final size:24
Alignment explanation
Indices: 73794895--73794946 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
73794885 CCATTTTCAA
73794895 AATTCAAATT-TTTAATTAAATAAT
1 AATTC-AATTGTTTAATTAAATAAT
73794919 AATTCAATTGTTTAATTAAATAAT
1 AATTCAATTGTTTAATTAAATAAT
73794943 AATT
1 AATT
73794947 GAAAGAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTCAATTGTTTAATTAAATAAT
Found at i:73796946 original size:42 final size:42
Alignment explanation
Indices: 73796900--73797051 Score: 198
Period size: 42 Copynumber: 3.6 Consensus size: 42
73796890 AGACTTCAAA
*
73796900 TAAGACCATATCTGGGATATGGTATCGATATGAGACTTCGTG
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTG
73796942 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTG
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTG
* * * * **
73796984 TAAGACCATAGCTGGGCTATTGGCGTCGATATGCGA-TTCCAAG
1 TAAGACCATATCTGGGATA-TGGCATCGATATGAGACTT-CGTG
* *
73797027 TGAGACTATATCTGGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
73797052 TGGAACAGTA
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
42 65 0.68
43 31 0.32
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTG
Found at i:73801374 original size:20 final size:20
Alignment explanation
Indices: 73801346--73801384 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
73801336 GACCACACGG
73801346 CCAAACCACACGGGCGTGTC
1 CCAAACCACACGGGCGTGTC
*
73801366 CCAAGCCACACGGGCGTGT
1 CCAAACCACACGGGCGTGT
73801385 GACTCCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.28, T:0.10
Consensus pattern (20 bp):
CCAAACCACACGGGCGTGTC
Found at i:73802476 original size:37 final size:37
Alignment explanation
Indices: 73802416--73802512 Score: 133
Period size: 37 Copynumber: 2.6 Consensus size: 37
73802406 TGTGTACGTG
* *
73802416 TAAGACCATAGTTGGACTT-TGGCATCATAATAACATA
1 TAAGACCATAGCTGG-GTTATGGCATCATAATAACATA
* *
73802453 TAAGACCATAGCTGGGTTATGGCATCATAATGACATG
1 TAAGACCATAGCTGGGTTATGGCATCATAATAACATA
*
73802490 TAAGACCATAGCTGGGCTATGGC
1 TAAGACCATAGCTGGGTTATGGC
73802513 TTGGTGATAC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 2 0.04
37 52 0.96
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (37 bp):
TAAGACCATAGCTGGGTTATGGCATCATAATAACATA
Found at i:73806358 original size:42 final size:42
Alignment explanation
Indices: 73806255--73806370 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 42
73806245 CTGAAGTAAA
*
73806255 TATATT-ACACATAAGTGCATCATCAGATAAACCGAAACAAT
1 TATATTGACACATAAGTGCACCATCAGATAAACCGAAACAAT
* * * *
73806296 TATATTGACACATAAATGCACCATCAGATATACCGAAGCGAT
1 TATATTGACACATAAGTGCACCATCAGATAAACCGAAACAAT
* ** * *
73806338 TATATTGGCGTATAAGTGCACCATTAGCTAAAC
1 TATATTGACACATAAGTGCACCATCAGATAAAC
73806371 TGAAGTATAA
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 6 0.10
42 56 0.90
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.26
Consensus pattern (42 bp):
TATATTGACACATAAGTGCACCATCAGATAAACCGAAACAAT
Found at i:73808087 original size:14 final size:14
Alignment explanation
Indices: 73808042--73808087 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
73808032 TTATTTATTA
73808042 TTTTATATATATGT
1 TTTTATATATATGT
*
73808056 TTTTTTA-ATTAT-T
1 TTTTATATA-TATGT
73808069 ATTTTATATATATGT
1 -TTTTATATATATGT
73808084 TTTT
1 TTTT
73808088 TAAAAAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 2 0.08
14 22 0.85
15 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (14 bp):
TTTTATATATATGT
Found at i:73809792 original size:16 final size:16
Alignment explanation
Indices: 73809773--73809803 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
73809763 CTTCTTCACT
73809773 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
73809789 TACTTACTTACTTAA
1 TACTCACTTACTTAA
73809804 TCAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:73809809 original size:20 final size:20
Alignment explanation
Indices: 73809770--73809809 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
73809760 AAACTTCTTC
* *
73809770 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
73809790 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
73809810 TAATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:73811435 original size:21 final size:19
Alignment explanation
Indices: 73811396--73811435 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
73811386 AAGATACAAT
*
73811396 ATTTAAACTAAATAAAATA
1 ATTTAAACTAAAGAAAATA
73811415 ATTTAAAACTAAAAGAAAATA
1 ATTT-AAACT-AAAGAAAATA
73811436 GGGATTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (19 bp):
ATTTAAACTAAAGAAAATA
Found at i:73820393 original size:49 final size:49
Alignment explanation
Indices: 73820313--73820413 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
73820303 TCCTATAGAG
* * *
73820313 AACATATGTAAAGCATTAAACACATTGTATTCTTTCCAAAAAGAATTAT
1 AACATATGGAAAGCATTAAAAACATTATATTCTTTCCAAAAAGAATTAT
* *
73820362 AACATATGGAAAGTATTAAAAACGTTATATTCTTTCCAAAAAGAATTAT
1 AACATATGGAAAGCATTAAAAACATTATATTCTTTCCAAAAAGAATTAT
73820411 AAC
1 AAC
73820414 TACCATGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.32
Consensus pattern (49 bp):
AACATATGGAAAGCATTAAAAACATTATATTCTTTCCAAAAAGAATTAT
Done.