Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 18 of 284
Found at i:6092792 original size:47 final size:47
Alignment explanation
Indices: 6092559--6092772 Score: 320
Period size: 47 Copynumber: 4.6 Consensus size: 47
6092549 ATACATGAGC
* * * *
6092559 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGG
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* *
6092606 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* *
6092653 TAAGGCCGAATGGCCAATGTGAAGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* * *
6092700 TGAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATACATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
6092747 TAAGGCAGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
6092773 CGTGGATGTG
Statistics
Matches: 149, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 149 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
Found at i:6092805 original size:47 final size:47
Alignment explanation
Indices: 6092560--6092806 Score: 291
Period size: 47 Copynumber: 5.3 Consensus size: 47
6092550 TACATGAGCT
* * *
6092560 AAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTG-G
1 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAG
* * *
6092606 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGAT
1 -AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAG
* *
6092654 AAGGCCGAATGGCCAATGTGAAGAATATGAACATGCATATATGTGATG
1 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA-G
* * *
6092702 -AGGCCGAATGGCCAATGTGATAAATGTGAACATGCATACATGTGAT
1 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAG
* * * ** * *
6092748 AAGGCAGAATGGCCAATGTGATGAACGTGGATGTGTATATATGTGGG
1 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAG
*
6092795 AAAGCCGAATGG
1 AAGGCCGAATGG
6092807 TTAATGCGAA
Statistics
Matches: 169, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
47 169 1.00
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.25
Consensus pattern (47 bp):
AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAG
Found at i:6092839 original size:46 final size:46
Alignment explanation
Indices: 6092786--6092876 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
6092776 GGATGTGTAT
* * *
6092786 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
6092832 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
6092877 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:6095141 original size:49 final size:50
Alignment explanation
Indices: 6095061--6095306 Score: 316
Period size: 49 Copynumber: 4.9 Consensus size: 50
6095051 AGCTATTGTG
*
6095061 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
6095111 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * ** *
6095161 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
6095211 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
6095261 -GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
6095307 GCTTCGGCTT
Statistics
Matches: 168, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
49 82 0.49
50 48 0.29
51 38 0.23
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:6098087 original size:16 final size:15
Alignment explanation
Indices: 6098038--6098087 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
6098028 GTGTTGTAAA
6098038 TTGGATTCTCG-TATC
1 TTGGATT-TCGTTATC
* *
6098053 ATGGATTTCTTTATC
1 TTGGATTTCGTTATC
6098068 TTGGATTTCGTTATTC
1 TTGGATTTCGTTA-TC
6098084 TTGG
1 TTGG
6098088 CTTCTCTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 2 0.07
15 21 0.72
16 6 0.21
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (15 bp):
TTGGATTTCGTTATC
Found at i:6100920 original size:49 final size:49
Alignment explanation
Indices: 6100841--6101085 Score: 319
Period size: 49 Copynumber: 4.9 Consensus size: 49
6100831 GCTATTGTGA
* *
6100841 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
6100890 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TT
** * * **
6100941 AATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
6100990 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
6101040 GGTCACATGTGTAGTACTAAGTACAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
6101086 GCTTCGGCTA
Statistics
Matches: 168, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 85 0.51
50 44 0.26
51 39 0.23
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:6100977 original size:28 final size:28
Alignment explanation
Indices: 6100945--6101028 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
6100935 AACTTTAATC
6100945 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
6100973 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
6100995 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
6101023 ACGTGT
1 ACGTGT
6101029 ACCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:6106763 original size:39 final size:39
Alignment explanation
Indices: 6106709--6107043 Score: 528
Period size: 39 Copynumber: 8.5 Consensus size: 39
6106699 TAATGGAGAA
*
6106709 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
6106748 TTATATCCGGGCTAAGTCCCAAAGGCATTCATGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
6106787 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
6106826 TTATATCCGGGCTAAGTTCGGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
6106865 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
6106904 TTATATCCGGGCTAAGTTCGGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
6106943 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
6106982 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
6107021 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
6107044 CATGCTTTGT
Statistics
Matches: 274, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 252 0.92
40 22 0.08
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:6117435 original size:47 final size:45
Alignment explanation
Indices: 6117371--6117536 Score: 165
Period size: 47 Copynumber: 3.6 Consensus size: 45
6117361 ATGATAGCCC
* *
6117371 GTGTAAGACCACGTCTGGGACATGGCATCGGTGTAGAGGTAAGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTAGAGGTAAGTGCCA
* * *
6117419 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGATG-ATGTTAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGG-CTAGAGGTAAG-T-GCCA
* * ** **
6117466 GTGTAAGACGTGTCTGGGACATGCATCGGCTA-AGTTTCGTGCTT
1 GTGTAAGACATGTCTGGGACATGCATCGGCTAGAGGTAAGTGCCA
6117510 GTGTAAGACATGTCTGGGACATGCATC
1 GTGTAAGACATGTCTGGGACATGCATC
6117537 AGCACGTATA
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
44 28 0.28
45 4 0.04
46 15 0.15
47 45 0.45
48 8 0.08
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCTAGAGGTAAGTGCCA
Found at i:6117481 original size:94 final size:93
Alignment explanation
Indices: 6117284--6117584 Score: 286
Period size: 94 Copynumber: 3.2 Consensus size: 93
6117274 GGGGTGTTAC
* * * * ** *
6117284 ACCATGTCTGGGACATGGCTTCGGCATTGAGATGAGGGCTAGTGTAAGATGTGTCTAGGACATGC
1 ACCATGTCTGGGACATGGCATCGG-ATAGAGATAAGTGCTAGTGTAAGACATGTCTGGGACATGC
*
6117349 ATCAGTCGCATCATGATAGCCCGTGTAAG
65 ATCAGTCGCATCATGATAGCCAGTGTAAG
* * * *
6117378 ACCACGTCTGGGACATGGCATCGGTGTAGAGGTAAGTGCCAGTGTAAGACATGTCTGGGACATGC
1 ACCATGTCTGGGACATGGCATCGG-ATAGAGATAAGTGCTAGTGTAAGACATGTCTGGGACATGC
* * *
6117443 ATCGGCCTCG-ATGATGTTAGCCAGTGTAAG
65 ATCAG--TCGCATCATGATAGCCAGTGTAAG
* * * ** *
6117473 A-CGTGTCTGGGACAT-GCATCGGCTA-AGTTTCGTGCTTGTGTAAGACATGTCTGGGACATGCA
1 ACCATGTCTGGGACATGGCATCGGATAGAGATAAGTGCTAGTGTAAGACATGTCTGGGACATGCA
* * * * *
6117535 TCAGCACGTATACACGAGAGCTAGTGTAAG
66 TCAG-TCGCAT-CATGATAGCCAGTGTAAG
6117565 ACCATGTCTGGGACATGGCA
1 ACCATGTCTGGGACATGGCA
6117585 GCGGCAACTT
Statistics
Matches: 169, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
90 3 0.02
91 37 0.22
92 16 0.09
93 20 0.12
94 72 0.43
95 18 0.11
96 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.25
Consensus pattern (93 bp):
ACCATGTCTGGGACATGGCATCGGATAGAGATAAGTGCTAGTGTAAGACATGTCTGGGACATGCA
TCAGTCGCATCATGATAGCCAGTGTAAG
Found at i:6120858 original size:55 final size:54
Alignment explanation
Indices: 6120743--6120859 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 54
6120733 CTTAAATTTT
* * * *
6120743 TAAA-TCAGTATTGTCCACGGTTAGGCCACACGGGCGTATGCCATAGCCGTGTC
1 TAAAGTCAATATTGCCCACGGGTAGGCCACACGGGCGTATGCCATAGCCGTGCC
* * * *
6120796 TATAAGTCAATATTGCCCACGGGTAGGCCACACGGGCGTGTGTCATGGTCGTGCCC
1 TA-AAGTCAATATTGCCCACGGGTAGGCCACACGGGCGTATGCCATAGCCGTG-CC
6120852 TAAAGTCA
1 TAAAGTCA
6120860 GTGTCGCACA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 46 0.87
56 3 0.06
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (54 bp):
TAAAGTCAATATTGCCCACGGGTAGGCCACACGGGCGTATGCCATAGCCGTGCC
Found at i:6120872 original size:55 final size:55
Alignment explanation
Indices: 6120758--6120873 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
6120748 CAGTATTGTC
* * * *
6120758 CACGGTTAGGCCACACGGGCGTATGCCATAGCCGTGTCTATAAGTCAATATTGCC
1 CACGGGTAGGCCACACGGGCGTATGCCATAGCCGTGCCTATAAGTCAATATCGCA
* * * * * *
6120813 CACGGGTAGGCCACACGGGCGTGTGTCATGGTCGTGCCCTA-AAGTCAGTGTCGCA
1 CACGGGTAGGCCACACGGGCGTATGCCATAGCCGTG-CCTATAAGTCAATATCGCA
6120868 CACGGG
1 CACGGG
6120874 CTGAGAAAGT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 47 0.94
56 3 0.06
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (55 bp):
CACGGGTAGGCCACACGGGCGTATGCCATAGCCGTGCCTATAAGTCAATATCGCA
Found at i:6129252 original size:17 final size:17
Alignment explanation
Indices: 6129222--6129255 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6129212 ATCCAATCAT
**
6129222 ATATATATTCATATAAA
1 ATATATATAAATATAAA
6129239 ATATATATAAATATAAA
1 ATATATATAAATATAAA
6129256 TAATTATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATATATAAATATAAA
Found at i:6129797 original size:43 final size:43
Alignment explanation
Indices: 6129716--6129799 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
6129706 AAGTCGTACA
* **
6129716 ATGCCAACGTCCCAGACATGGTCTTACATGTAGTCACATATTG
1 ATGCCAACGTCCCAGACAGGGTCTTACATGTAAACACATATTG
*
6129759 ATGCC-ACTGTCCCAGATAGGGTCTTAC-TCGTAAACACATAT
1 ATGCCAAC-GTCCCAGACAGGGTCTTACAT-GTAAACACATAT
6129800 CGTAATCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 3 0.09
43 32 0.91
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACATGTAAACACATATTG
Found at i:6131858 original size:48 final size:46
Alignment explanation
Indices: 6131792--6131915 Score: 144
Period size: 45 Copynumber: 2.7 Consensus size: 46
6131782 GTCGAGGCTG
*****
6131792 TGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCCAACGCCA
1 TGTCCAACATGGTCTTACACTGGCTCTCATATCAACACCAACGCCA
* *
6131838 TGTCCCAGACATGGTCTTACACTGGCT-TACA-ATCAACACCGATGCCA
1 TGT-CCA-ACATGGTCTTACACTGGCTCT-CATATCAACACCAACGCCA
6131885 TGTCCAACATGGTCTTACACTGGCTCTCATA
1 TGTCCAACATGGTCTTACACTGGCTCTCATA
6131916 ACATAGCCGA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
45 21 0.32
46 8 0.12
47 16 0.24
48 21 0.32
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
TGTCCAACATGGTCTTACACTGGCTCTCATATCAACACCAACGCCA
Found at i:6131943 original size:93 final size:94
Alignment explanation
Indices: 6131792--6132006 Score: 249
Period size: 93 Copynumber: 2.3 Consensus size: 94
6131782 GTCGAGGCTG
*** * * *
6131792 TGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCCAACGCCATGTCCCAGACATGGTCTTA
1 TGTCCAACATGGTCTTACACTGGCTCTCATAACATAGCCAACGCCATCTCCCAAACATGGTCTTA
6131857 CACTGGC-T-T-ACAAT-CAACACCGATGCCA
66 CACTGGCATATGA-AATGC-A-ACCGATGCCA
* * * *
6131885 TGTCCAACATGGTCTTACACTGGCTCTCATAACATAGCCGATGTCATCTTCCAAACATGGTCTTA
1 TGTCCAACATGGTCTTACACTGGCTCTCATAACATAGCCAACGCCATCTCCCAAACATGGTCTTA
*
6131950 CACTGGCATATGAAATGCAGCCGATGCCA
66 CACTGGCATATGAAATGCAACCGATGCCA
*
6131979 TGTCCCAAACATGGTCTTACACTAGCTC
1 TGT-CC-AACATGGTCTTACACTGGCTC
6132007 ACACATCACC
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
93 62 0.60
94 13 0.12
95 7 0.07
96 22 0.21
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (94 bp):
TGTCCAACATGGTCTTACACTGGCTCTCATAACATAGCCAACGCCATCTCCCAAACATGGTCTTA
CACTGGCATATGAAATGCAACCGATGCCA
Found at i:6131954 original size:48 final size:49
Alignment explanation
Indices: 6131734--6132006 Score: 198
Period size: 48 Copynumber: 5.8 Consensus size: 49
6131724 TGCAAGCGAG
* * * * *
6131734 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTC-TCA-A
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCAACATA
* * ** *** *
6131781 TGTCGAGGCTGTGT-CC-AACATGGTCTTACACTGGCTCTCAT-ATGGTG
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCAACATA
* * *
6131828 GCCAACGCCATGTCCCAGACATGGTCTTACACTGGCT-TACAATCAAC--A
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-C-ATCAACATA
6131876 -CCGATGCCATGT-CC-AACATGGTCTTACACTGGCTCTCAT-AACATA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCAACATA
* * * * *
6131921 GCCGATGTCATCTTCCAAACATGGTCTTACACTGGC-AT-ATGAA-ATGCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCAACAT--A
*
6131969 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
6132007 ACACATCACC
Statistics
Matches: 177, Mismatches: 31, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
43 3 0.02
44 2 0.01
45 21 0.12
46 48 0.27
47 19 0.11
48 81 0.46
49 2 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCAACATA
Found at i:6132662 original size:72 final size:72
Alignment explanation
Indices: 6132545--6132687 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
6132535 GACTTTCGAA
*
6132545 ATTTACTATTTTTCCCCTAGGCTCGTAAAACGATTTTTATCAAATTTTCTCACTAGCCAAGCCTC
1 ATTTACTATTTTTCCCCTAGGCTCGTAAAACAATTTTTATCAAATTTTCTCACTAGCCAAGCCTC
6132610 GCAAAAG
66 GCAAAAG
6132617 ATTTACTATTTTTCCCCTAGGCTCGTAAAACAATTTTTATCAAATTTTCTCACTAGCCAAGCCTC
1 ATTTACTATTTTTCCCCTAGGCTCGTAAAACAATTTTTATCAAATTTTCTCACTAGCCAAGCCTC
6132682 GCAAAA
66 GCAAAA
6132688 TTCTTTTTAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (72 bp):
ATTTACTATTTTTCCCCTAGGCTCGTAAAACAATTTTTATCAAATTTTCTCACTAGCCAAGCCTC
GCAAAAG
Found at i:6132664 original size:36 final size:36
Alignment explanation
Indices: 6132552--6132664 Score: 101
Period size: 36 Copynumber: 3.1 Consensus size: 36
6132542 GAAATTTACT
6132552 ATTTTTCCCCTAGGCTCGTAAAACGATTTTTATCAA
1 ATTTTTCCCCTAGGCTCGTAAAACGATTTTTATCAA
* * * *
6132588 ATTTTCTCACTAGCCAAGCCTCGCAAAA-GA--TTTA-C-T
1 ATTTT-TC-C---CCTAGGCTCGTAAAACGATTTTTATCAA
*
6132624 ATTTTTCCCCTAGGCTCGTAAAACAATTTTTATCAA
1 ATTTTTCCCCTAGGCTCGTAAAACGATTTTTATCAA
6132660 ATTTT
1 ATTTT
6132665 CTCACTAGCC
Statistics
Matches: 58, Mismatches: 9, Indels: 20
0.67 0.10 0.23
Matches are distributed among these distances:
31 12 0.21
32 1 0.02
34 5 0.09
35 3 0.05
36 15 0.26
37 3 0.05
38 5 0.09
40 2 0.03
41 12 0.21
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (36 bp):
ATTTTTCCCCTAGGCTCGTAAAACGATTTTTATCAA
Found at i:6145447 original size:18 final size:18
Alignment explanation
Indices: 6145424--6145460 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6145414 AAATATATTT
*
6145424 ATAATTTGTATTTTTTAA
1 ATAATTTGTAATTTTTAA
*
6145442 ATAATTTTTAATTTTTAA
1 ATAATTTGTAATTTTTAA
6145460 A
1 A
6145461 AATAACTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATAATTTGTAATTTTTAA
Found at i:6145708 original size:18 final size:18
Alignment explanation
Indices: 6145687--6145723 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6145677 AAAGAACAGA
6145687 TAAAATATTATGTGTTTT
1 TAAAATATTATGTGTTTT
6145705 TAAAATATTATGTGTTTT
1 TAAAATATTATGTGTTTT
6145723 T
1 T
6145724 CTATCCACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TAAAATATTATGTGTTTT
Found at i:6150128 original size:29 final size:29
Alignment explanation
Indices: 6150053--6150141 Score: 110
Period size: 28 Copynumber: 3.1 Consensus size: 29
6150043 CATCTCATTC
* ** *
6150053 ATATGGCCCATTAGGCCCAATTCATATTC
1 ATATGGCCCATTAGGCCCAAATCACCTTT
*
6150082 ACAT-GCCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
*
6150110 ATATGGCCCGTTAGGCCCAAATCACC-TT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
6150138 ATAT
1 ATAT
6150142 TCATGCTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 29 0.56
29 23 0.44
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTTT
Found at i:6150380 original size:16 final size:16
Alignment explanation
Indices: 6150359--6150395 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6150349 AAACTTTCGG
6150359 CTTTTCGACATTTTGA
1 CTTTTCGACATTTTGA
* *
6150375 CTTTTCGGCATTTTGG
1 CTTTTCGACATTTTGA
6150391 CTTTT
1 CTTTT
6150396 TGGCTTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.19, G:0.16, T:0.54
Consensus pattern (16 bp):
CTTTTCGACATTTTGA
Found at i:6158541 original size:20 final size:20
Alignment explanation
Indices: 6158513--6158551 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6158503 AATGAGTTGA
6158513 AAATAAGCTCG-GTTGAGCTC
1 AAATAAGCT-GAGTTGAGCTC
*
6158533 AAATGAGCTGAGTTGAGCT
1 AAATAAGCTGAGTTGAGCT
6158552 GGACGGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (20 bp):
AAATAAGCTGAGTTGAGCTC
Found at i:6161091 original size:104 final size:104
Alignment explanation
Indices: 6160958--6161176 Score: 429
Period size: 104 Copynumber: 2.1 Consensus size: 104
6160948 TTTGTATAAT
*
6160958 ATTTCATTTAAATGTTCTTATATATTATTATACATATATAGTTCATGATAAAGTTAGTTTTATTC
1 ATTTCTTTTAAATGTTCTTATATATTATTATACATATATAGTTCATGATAAAGTTAGTTTTATTC
6161023 TATATACATTATTAATTCTATGTTATTTTTATCTATATG
66 TATATACATTATTAATTCTATGTTATTTTTATCTATATG
6161062 ATTTCTTTTAAATGTTCTTATATATTATTATACATATATAGTTCATGATAAAGTTAGTTTTATTC
1 ATTTCTTTTAAATGTTCTTATATATTATTATACATATATAGTTCATGATAAAGTTAGTTTTATTC
6161127 TATATACATTATTAATTCTATGTTATTTTTATCTATATG
66 TATATACATTATTAATTCTATGTTATTTTTATCTATATG
6161166 ATTTCTTTTAA
1 ATTTCTTTTAA
6161177 TTCTATATAT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 114 1.00
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (104 bp):
ATTTCTTTTAAATGTTCTTATATATTATTATACATATATAGTTCATGATAAAGTTAGTTTTATTC
TATATACATTATTAATTCTATGTTATTTTTATCTATATG
Found at i:6165989 original size:12 final size:12
Alignment explanation
Indices: 6165972--6165996 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6165962 TATGTCCGTA
6165972 TGCTAGGCCATG
1 TGCTAGGCCATG
6165984 TGCTAGGCCATG
1 TGCTAGGCCATG
6165996 T
1 T
6165997 AATTGCTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (12 bp):
TGCTAGGCCATG
Found at i:6168408 original size:29 final size:28
Alignment explanation
Indices: 6168375--6168566 Score: 95
Period size: 29 Copynumber: 6.5 Consensus size: 28
6168365 AAATGAATCT
6168375 TTTTAATAGAGATAGCCACAAAGGCATTCC
1 TTTTAATAGAGATA-CCACAAAGGC-TTCC
* *
6168405 TTTAACATTA-AGTACTTACCACAAAGGCTTTC
1 TTTTA-A-TAGAG-A--TACCACAAAGGCTTCC
* *
6168437 TCTT--TAGAGTATTGCCACAAAGGCATTCC
1 TTTTAATAGAG-A-TACCACAAAGGC-TTCC
* *
6168466 TTTTAAAAGAGATTACTACAAAGGCTT-C
1 TTTTAATAGAGA-TACCACAAAGGCTTCC
* * * *
6168494 TATTTAGTAGAGATTACAATAAAGTCTTCC
1 T-TTTAATAGAGA-TACCACAAAGGCTTCC
* * * *
6168524 ATTTAATAGATATAGCCAGAAATGCTTCC
1 TTTTAATAGAGATA-CCACAAAGGCTTCC
*
6168553 TTTTAACAGAGATA
1 TTTTAATAGAGATA
6168567 AATCTATATG
Statistics
Matches: 125, Mismatches: 25, Indels: 25
0.71 0.14 0.14
Matches are distributed among these distances:
28 18 0.14
29 63 0.50
30 17 0.14
31 7 0.06
32 8 0.06
33 10 0.08
34 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (28 bp):
TTTTAATAGAGATACCACAAAGGCTTCC
Found at i:6173691 original size:16 final size:16
Alignment explanation
Indices: 6173670--6173701 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6173660 TTAGTTCTCT
*
6173670 CTTTAATCGATAACTA
1 CTTTAACCGATAACTA
6173686 CTTTAACCGATAACTA
1 CTTTAACCGATAACTA
6173702 TGTGTTTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (16 bp):
CTTTAACCGATAACTA
Found at i:6175551 original size:28 final size:28
Alignment explanation
Indices: 6175498--6175551 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
6175488 CGATTAGTTC
* *
6175498 TTGCAGACTCTTGCTTGAAGAGTAGTCA
1 TTGCAGACTCTTGCTTGAAAAATAGTCA
*
6175526 TTGCAGACTCTTTCTTGAAAAATAGT
1 TTGCAGACTCTTGCTTGAAAAATAGT
6175552 GTAATAACCC
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:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (28 bp):
TTGCAGACTCTTGCTTGAAAAATAGTCA
Found at i:6180048 original size:56 final size:49
Alignment explanation
Indices: 6179838--6180023 Score: 188
Period size: 46 Copynumber: 3.9 Consensus size: 49
6179828 GACCACATTT
**
6179838 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-ATA--
1 TGAGAGCTAGTGTAAGA-CATGTCTAAGACATGGCATCGGCA-TGAATATG
* ** * * *
6179886 TGAGAGCTAGTGTTAGACATGTCTGGGACAT-GCATCAGCCTCG-AGATG
1 TGAGAGCTAGTGTAAGACATGTCTAAGACATGGCATCGGCAT-GAATATG
* *
6179934 T-A-AGCCAATGTAAGACATGTCTAAGACATGGCATCGGCATGAATATG
1 TGAGAGCTAGTGTAAGACATGTCTAAGACATGGCATCGGCATGAATATG
*
6179981 TGAGAGCTAGTGTAAGATCATGTCTGAGACATGGCATCGGCAT
1 TGAGAGCTAGTGTAAGA-CATGTCTAAGACATGGCATCGGCAT
6180024 TATATCCTAT
Statistics
Matches: 115, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 33 0.29
47 28 0.24
48 18 0.16
49 11 0.10
50 24 0.21
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (49 bp):
TGAGAGCTAGTGTAAGACATGTCTAAGACATGGCATCGGCATGAATATG
Found at i:6181871 original size:45 final size:45
Alignment explanation
Indices: 6181793--6181878 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
6181783 CCGATATCAG
* ** *
6181793 TTCACCGGCATTATAGCCTACTAGGCTTGAAGGCCTGAATAGTAT
1 TTCACCGGCATTATAGCCTACTAAGCTCAAAGGCCCGAATAGTAT
** *
6181838 TTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TTCACCGGCATTATAGCCTACTAAGCTCAAAGGCCCGAATA
6181879 ATCAAGTCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (45 bp):
TTCACCGGCATTATAGCCTACTAAGCTCAAAGGCCCGAATAGTAT
Found at i:6182258 original size:43 final size:43
Alignment explanation
Indices: 6182208--6182362 Score: 238
Period size: 43 Copynumber: 3.6 Consensus size: 43
6182198 CCGGCATTAC
*
6182208 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
* * *
6182251 GCTTGCTAGGCACGAAGGCCCGAATACACATAACCAACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
* * * *
6182294 GCCTACTAGGCACGAAGGCCCGAATACACATCACTGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
6182337 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
6182363 TAATACCAGC
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.34, C:0.32, G:0.23, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
Found at i:6182409 original size:38 final size:38
Alignment explanation
Indices: 6182355--6182438 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
6182345 GGCACGAAGG
* * *
6182355 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
6182393 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
6182431 CCCGAATA
1 CCCGAATA
6182439 CACCTCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:6185167 original size:20 final size:20
Alignment explanation
Indices: 6185129--6185167 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6185119 TTTGTTCTTC
*
6185129 TTTTCTTATTTCAATTAATA
1 TTTTCTTATTTCAAATAATA
6185149 TTTT-TTATTTCAAAATAAT
1 TTTTCTTATTTC-AAATAAT
6185168 GCAAATTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTCTTATTTCAAATAATA
Found at i:6188355 original size:35 final size:35
Alignment explanation
Indices: 6188316--6188382 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
6188306 ATCTCATATG
*
6188316 GCCGAATATACAAATTCAATATAACCTCACATGTA
1 GCCGAATATACAAATTCAATAGAACCTCACATGTA
*
6188351 GCCGAATATACAAGTTCAATAGAACCTCACAT
1 GCCGAATATACAAATTCAATAGAACCTCACAT
6188383 ATACTTACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.24
Consensus pattern (35 bp):
GCCGAATATACAAATTCAATAGAACCTCACATGTA
Found at i:6188365 original size:70 final size:70
Alignment explanation
Indices: 6188239--6188369 Score: 163
Period size: 70 Copynumber: 1.9 Consensus size: 70
6188229 TTATATTATT
* * * * * * *
6188239 TCATATGGCCGAATATATAAGTCCAATATATCATCAAATGTAATCTAATGTTCAAGTTCAAATAA
1 TCATATGGCCGAATATACAAATCCAATATAACATCAAATGTAACCGAATATACAAGTTCAAATAA
6188304 ACATC
66 ACATC
* * * *
6188309 TCATATGGCCGAATATACAAATTCAATATAACCTCACATGTAGCCGAATATACAAGTTCAA
1 TCATATGGCCGAATATACAAATCCAATATAACATCAAATGTAACCGAATATACAAGTTCAA
6188370 TAGAACCTCA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
70 50 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (70 bp):
TCATATGGCCGAATATACAAATCCAATATAACATCAAATGTAACCGAATATACAAGTTCAAATAA
ACATC
Found at i:6188384 original size:70 final size:70
Alignment explanation
Indices: 6188240--6188384 Score: 157
Period size: 70 Copynumber: 2.1 Consensus size: 70
6188230 TATATTATTT
* * * * * * *
6188240 CATATGGCCGAATATATAAGTCCAATATATCATCAAATGTAATCTAATGTTCAAGTTCAAATAAA
1 CATATGGCCGAATATACAAATCCAATATAACATCAAATGTAACCGAATATACAAGTTCAAATAAA
*
6188305 CATCT
66 CATCA
* * * *
6188310 CATATGGCCGAATATACAAATTCAATATAACCTCACATGTAGCCGAATATACAAGTTC-AATAGA
1 CATATGGCCGAATATACAAATCCAATATAACATCAAATGTAACCGAATATACAAGTTCAAATA-A
*
6188374 ACCTCA
65 ACATCA
6188380 CATAT
1 CATAT
6188385 ACTTACCTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
69 4 0.07
70 57 0.93
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (70 bp):
CATATGGCCGAATATACAAATCCAATATAACATCAAATGTAACCGAATATACAAGTTCAAATAAA
CATCA
Found at i:6193881 original size:23 final size:23
Alignment explanation
Indices: 6193834--6193881 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
6193824 CTTCCTTTGC
* **
6193834 TTGCTCTTCTTCTTTCCTATGAA
1 TTGCTCTTCTTCTTTCATACCAA
*
6193857 TTGCTCTTCTTCTTTGATACCAA
1 TTGCTCTTCTTCTTTCATACCAA
6193880 TT
1 TT
6193882 CAATACCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.15, C:0.25, G:0.08, T:0.52
Consensus pattern (23 bp):
TTGCTCTTCTTCTTTCATACCAA
Found at i:6197275 original size:53 final size:53
Alignment explanation
Indices: 6197175--6197276 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 53
6197165 TTCCTTTTTA
* * * * *
6197175 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTTCCATGCCTTGACATGGTCTTACATGGGATACTTGCCTTATG
* *
6197228 AACTCACCATTTCCATGCCTTGGCATGGTCTTACATGGGATATTTGCCT
1 AACTCACCATTTCCATGCCTTGACATGGTCTTACATGGGATACTTGCCT
6197277 AATAGTAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTCACCATTTCCATGCCTTGACATGGTCTTACATGGGATACTTGCCTTATG
Found at i:6198175 original size:31 final size:31
Alignment explanation
Indices: 6198132--6198215 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
6198122 TTAGTCTTGA
6198132 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
6198162 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
6198193 CATATCACTGGGCCAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
6198216 ACTGTAAACG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:6198286 original size:42 final size:42
Alignment explanation
Indices: 6198239--6198372 Score: 243
Period size: 42 Copynumber: 3.2 Consensus size: 42
6198229 TGGCCCTTAG
6198239 GCCCATTTCAATATCACATGTAATGTCAA-GAGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGA-ATGTATGCAA
*
6198281 GCCCATTTCAAAATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
6198323 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
6198365 GCCCATTT
1 GCCCATTT
6198373 GGGGAGACTA
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
42 87 0.98
43 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:6198548 original size:25 final size:25
Alignment explanation
Indices: 6198520--6198585 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
6198510 CTCTTTTAAT
6198520 AACTGGGGCAAAGCCCTTTCCGATA
1 AACTGGGGCAAAGCCCTTTCCGATA
* * *
6198545 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTCCGATA
*
6198570 AACTGGGGCAGAGCCC
1 AACTGGGGCAAAGCCC
6198586 CTTTAGCACT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTCCGATA
Found at i:6199544 original size:27 final size:27
Alignment explanation
Indices: 6199514--6199565 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
6199504 GTAAATCTAC
6199514 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCAATAATTTTGT
* *
6199541 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCAATAATTTT
6199566 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAATAATTTTGT
Found at i:6199617 original size:27 final size:27
Alignment explanation
Indices: 6199575--6199699 Score: 92
Period size: 27 Copynumber: 4.6 Consensus size: 27
6199565 TTAGAAAGTC
* **
6199575 AAGGGTATTTTTGTAATGTTGTAAATT
1 AAGGGTATTTTGGTAATGTTACAAATT
* *
6199602 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATGTTACAAATT
* * *
6199629 AAGGGTATTTCGGT-ATTTTCACAAA-C
1 AAGGGTATTTTGGTAATGTT-ACAAATT
* ** * *
6199655 CAGTGGTATTTCAGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATGTTACAAATT
*
6199683 AGGGGTATTTTGGTAAT
1 AAGGGTATTTTGGTAAT
6199700 TTTATCCTAC
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
26 7 0.09
27 66 0.84
28 6 0.08
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATGTTACAAATT
Found at i:6199700 original size:27 final size:27
Alignment explanation
Indices: 6199601--6199729 Score: 136
Period size: 27 Copynumber: 4.8 Consensus size: 27
6199591 TGTTGTAAAT
* *
6199601 TAGGGGTATTTTGGTAATTTTACAAAT
1 TAGGGGTATTTCGGTAATTTTACAAAC
*
6199628 TAAGGGTATTTCGGT-ATTTTCACAAAC
1 TAGGGGTATTTCGGTAATTTT-ACAAAC
* * *
6199655 CAGTGGTATTTCAGTAATTTTACAAAC
1 TAGGGGTATTTCGGTAATTTTACAAAC
* **
6199682 TAGGGGTATTTTGGTAATTTTATCCTAC
1 TAGGGGTATTTCGGTAATTTTA-CAAAC
*
6199710 -AGGGGTATTTCAGTAATTTT
1 TAGGGGTATTTCGGTAATTTT
6199730 GTAATCGAGG
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.06
27 71 0.85
28 8 0.10
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (27 bp):
TAGGGGTATTTCGGTAATTTTACAAAC
Found at i:6199717 original size:54 final size:54
Alignment explanation
Indices: 6199602--6199729 Score: 152
Period size: 54 Copynumber: 2.4 Consensus size: 54
6199592 GTTGTAAATT
** *
6199602 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTATTTTCACAAACC
1 AGGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTATTTTCACAAACC
* * * **
6199656 AGTGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTT-ATCCTA-C
1 AGGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGT-ATTTTCA-CAAACC
6199710 AGGGGTATTTCAGTAATTTT
1 AGGGGTATTTCAGTAATTTT
6199730 GTAATCGAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
54 56 0.89
55 7 0.11
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.41
Consensus pattern (54 bp):
AGGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTATTTTCACAAACC
Found at i:6199740 original size:27 final size:26
Alignment explanation
Indices: 6199659--6199740 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
6199649 ACAAACCAGT
* *
6199659 GGTATTTCAGTAATTTTACAAACTAGG
1 GGTATTTCAGTAATTTTATAATC-AGG
** **
6199686 GGTATTTTGGTAATTTTATCCTACAGG
1 GGTATTTCAGTAATTTTATAAT-CAGG
*
6199713 GGTATTTCAGTAATTTTGTAATCGAGG
1 GGTATTTCAGTAATTTTATAATC-AGG
6199740 G
1 G
6199741 TAAAACGGTA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (26 bp):
GGTATTTCAGTAATTTTATAATCAGG
Found at i:6199751 original size:26 final size:26
Alignment explanation
Indices: 6199722--6199801 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 26
6199712 GGGTATTTCA
6199722 GTAATTTTGTAATCGAGGGTAAAACG
1 GTAATTTTGTAATCGAGGGTAAAACG
* *
6199748 GTAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTGTAATC-GAGGGTAAAACG
*
6199775 GTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTTTGT-AATCGAGGGTAAAACG
6199802 ATTATTCTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
26 13 0.28
27 31 0.66
28 3 0.06
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (26 bp):
GTAATTTTGTAATCGAGGGTAAAACG
Found at i:6199836 original size:54 final size:53
Alignment explanation
Indices: 6199722--6199823 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 53
6199712 GGGTATTTCA
* * * *
6199722 GTAATTTTGTAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTGTAATCAAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
*
6199775 GTAATTTTGTAAATCAAGGGTAAAACGATTATTCTATAAA-TCGAGGGTA
1 GTAATTTTGT-AATCAAGGGTAAAACGATAATTCTATAAACT-GAGGGTA
6199824 CTTTGGTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 11 0.26
54 31 0.74
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (53 bp):
GTAATTTTGTAATCAAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
Found at i:6203480 original size:46 final size:47
Alignment explanation
Indices: 6203335--6203592 Score: 194
Period size: 46 Copynumber: 5.5 Consensus size: 47
6203325 TTGTGCGCTT
** *
6203335 GTGTAAGACATGTCTGGGACATGCATCGGCC-ACATTATG-AGAGTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-TATGTAGAGCCA
* * * * * *
6203381 GTGTAAGACCATGTCTAGAACATGACATCGTCATTGATACG-AGAGCAA
1 GTGTAAGA-CATGTCTGGGACATG-CATCGGCCTTGATATGTAGAGCCA
*
6203429 GTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTA-AGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCTTGATATGTAGAGCCA
* * * *
6203475 GTGTAAGACATGTCTGGGACATGCTTTGG-CTACGAGATGT----CTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCT-TGATATGTAGAGC-CA
* * *
6203519 GTGTAAGACTATGTATGGGACATTGCATCGG-CATGAATATGTGAGAGCTA
1 GTGTAAGAC-ATGTCTGGGACA-TGCATCGGCCTTG-ATATGT-AGAGCCA
*
6203569 GTGTAATACCATGTCTGGGACATG
1 GTGTAAGA-CATGTCTGGGACATG
6203593 GGATCGGCAT
Statistics
Matches: 169, Mismatches: 28, Indels: 27
0.75 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 11 0.07
45 14 0.08
46 70 0.41
47 27 0.16
48 22 0.13
49 3 0.02
50 19 0.11
51 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (47 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCTTGATATGTAGAGCCA
Found at i:6210152 original size:43 final size:43
Alignment explanation
Indices: 6210067--6210193 Score: 109
Period size: 43 Copynumber: 3.0 Consensus size: 43
6210057 CATACCAATG
* * * **
6210067 CAATATCCCAAATATGATCTTACATGTAATCTTGTATCGATGC
1 CAATAGCCCAAATATGATCTTACAAGAAATCTCATATCGATGC
* * *
6210110 CAATAGCCCAACTATGGTCTTACAAGAAATCTCATATTGATGC
1 CAATAGCCCAAATATGATCTTACAAGAAATCTCATATCGATGC
* *
6210153 CACATA--CCAGATGA-GGTCTTACACA-AAATCTCATATCGATG
1 CA-ATAGCCCAAAT-ATGATCTTACA-AGAAATCTCATATCGATG
6210194 TCATATCCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 28 0.40
43 39 0.56
44 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (43 bp):
CAATAGCCCAAATATGATCTTACAAGAAATCTCATATCGATGC
Found at i:6210182 original size:42 final size:43
Alignment explanation
Indices: 6210122--6210219 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
6210112 ATAGCCCAAC
*
6210122 TATGGTCTTACA-AGAAATCTCATATTGATGCCACATACC-AGA
1 TATGGTCTTACACAGAAATCTCATATCGATGCCACAT-CCTAGA
* *
6210164 TGA-GGTCTTACACA-AAATCTCATATCGATGTCATATCCTAGA
1 T-ATGGTCTTACACAGAAATCTCATATCGATGCCACATCCTAGA
6210206 TATGGTCTTACACA
1 TATGGTCTTACACA
6210220 TAAACTTAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
41 3 0.06
42 44 0.90
43 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (43 bp):
TATGGTCTTACACAGAAATCTCATATCGATGCCACATCCTAGA
Found at i:6219143 original size:32 final size:32
Alignment explanation
Indices: 6219102--6219171 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
6219092 TTTGGTTCAA
* **
6219102 TGTAATGGAATAGGGTTGTAATGGAATAGAAC
1 TGTAATGGAATAGAGTTGTAATAAAATAGAAC
6219134 TGTAATGGAATAGAGTTGTAATAAAATAGAAC
1 TGTAATGGAATAGAGTTGTAATAAAATAGAAC
6219166 TGTAAT
1 TGTAAT
6219172 AGCAATTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.30
Consensus pattern (32 bp):
TGTAATGGAATAGAGTTGTAATAAAATAGAAC
Found at i:6219163 original size:16 final size:16
Alignment explanation
Indices: 6219102--6219155 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
6219092 TTTGGTTCAA
*
6219102 TGTAATGGAATAGGGT
1 TGTAATGGAATAGAGT
**
6219118 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAGT
6219134 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
6219150 TGTAAT
1 TGTAAT
6219156 AAAATAGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.02, G:0.30, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:6219169 original size:16 final size:16
Alignment explanation
Indices: 6219126--6219172 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
6219116 GTTGTAATGG
**
6219126 AATAGAACTGTAATGG
1 AATAGAACTGTAATAA
**
6219142 AATAGAGTTGTAATAA
1 AATAGAACTGTAATAA
6219158 AATAGAACTGTAATA
1 AATAGAACTGTAATA
6219173 GCAATTCAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (16 bp):
AATAGAACTGTAATAA
Found at i:6219409 original size:61 final size:61
Alignment explanation
Indices: 6219344--6219496 Score: 168
Period size: 58 Copynumber: 2.5 Consensus size: 61
6219334 TTTAATAGGA
* ** *
6219344 TTATTATTAAATATAATTTAATAAAAACAATAATACATAATTTAATCCTATT-TTAATAAAT
1 TTATTATTAAATATAA-TTAATAAAAATAATAATACATAATTTAATAATATTCTTAATAAAG
* * * *
6219405 TTATTATTAATTATAATT--TAACAATAATAATATATAATTTAATAATATTCTTAATATAG
1 TTATTATTAAATATAATTAATAAAAATAATAATACATAATTTAATAATATTCTTAATAAAG
**
6219464 CAATTATTAAAATATAAATTAATAAAAATAATA
1 TTATTATT-AAATAT-AATTAATAAAAATAATA
6219497 TATAATATTA
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
58 26 0.35
59 13 0.17
60 7 0.09
61 19 0.25
63 10 0.13
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (61 bp):
TTATTATTAAATATAATTAATAAAAATAATAATACATAATTTAATAATATTCTTAATAAAG
Found at i:6219440 original size:21 final size:20
Alignment explanation
Indices: 6219412--6219451 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6219402 AATTTATTAT
6219412 TAATTATAATTTAACAATAA
1 TAATTATAATTTAACAATAA
*
6219432 TAATATATAATTTAATAATA
1 TAAT-TATAATTTAACAATA
6219452 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTATAATTTAACAATAA
Found at i:6219512 original size:22 final size:21
Alignment explanation
Indices: 6219475--6219520 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
6219465 AATTATTAAA
6219475 ATATAAATTAATAAAAATAAT
1 ATATAAATTAATAAAAATAAT
6219496 ATATAATATTACA-AAAAATAAT
1 ATATAA-ATTA-ATAAAAATAAT
6219518 ATA
1 ATA
6219521 CAACCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAAATTAATAAAAATAAT
Found at i:6219653 original size:12 final size:12
Alignment explanation
Indices: 6219623--6219657 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
6219613 TCTATGTTAC
6219623 TTAAAGAATAAT
1 TTAAAGAATAAT
*
6219635 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
6219648 TTAAAGAATA
1 TTAAAGAATA
6219658 TCTAGTCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:6225526 original size:43 final size:43
Alignment explanation
Indices: 6225443--6225556 Score: 108
Period size: 43 Copynumber: 2.7 Consensus size: 43
6225433 AAGCTCGTAC
***
6225443 AATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATT
1 AATGCCAACATCCCAGACGTGGTCTTACACAAAATCAAATATT
* **
6225486 AATGCC-ACTATCCCAGACAG-GGTCTTACACAAAATTAAATACG
1 AATGCCAAC-ATCCCAGAC-GTGGTCTTACACAAAATCAAATATT
* * *
6225529 AA-CCCAACGTCCTAGACGTGGTCTTACA
1 AATGCCAACATCCCAGACGTGGTCTTACA
6225557 TGTAAATCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.02
42 20 0.34
43 36 0.62
44 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
AATGCCAACATCCCAGACGTGGTCTTACACAAAATCAAATATT
Found at i:6227578 original size:42 final size:42
Alignment explanation
Indices: 6227432--6227585 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
6227422 TACCATACCA
* *
6227432 ATGCCATATCCCAGATATGGTCTT--ACATAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* * *
6227472 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* * * * *
6227515 ATGCCACATACTAGATGTGGTCTTACACAAAATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* *
6227557 ATGACATATCCCAAATATGGTCTTACACA
1 ATGCCATATCCCAGATATGGTCTTACACA
6227586 TAAACTTAGT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
40 5 0.05
41 17 0.18
42 52 0.57
43 18 0.20
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
Found at i:6232140 original size:48 final size:48
Alignment explanation
Indices: 6232064--6232244 Score: 184
Period size: 48 Copynumber: 3.8 Consensus size: 48
6232054 CACCACGATT
* **
6232064 TATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGTGTTGA
1 TATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATTGA
* * *
6232112 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATCGCATCAGCATTGA
1 TATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATTGA
* * ** * * * * *
6232160 TACGTGTGCTTGTGTAAGACCATATCTAGGATATGGCATCGGCCTCGG
1 TATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATTGA
** *
6232208 TATGTGATTTCA-TGTAAGACCATATCTGGGATATGGC
1 TATGTGA-GCCAGTGTAAGACCATATCTGGGACATGGC
6232245 GTTGATATGA
Statistics
Matches: 107, Mismatches: 25, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
48 107 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
TATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATTGA
Found at i:6233262 original size:32 final size:32
Alignment explanation
Indices: 6233221--6233284 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
6233211 ACATATATTT
6233221 ATCATGCATGAGTTAAAGTTATAGGTGTCTAA
1 ATCATGCATGAGTTAAAGTTATAGGTGTCTAA
6233253 ATCATGCATGAGTTAAAGTTATAGGTGTCTAA
1 ATCATGCATGAGTTAAAGTTATAGGTGTCTAA
6233285 GTAGTCCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (32 bp):
ATCATGCATGAGTTAAAGTTATAGGTGTCTAA
Found at i:6242947 original size:27 final size:27
Alignment explanation
Indices: 6242905--6243217 Score: 321
Period size: 27 Copynumber: 11.7 Consensus size: 27
6242895 GTTGTGCAAG
* *
6242905 AAAATGATC-AAATACCCCCATAGGCT
1 AAAATGACCGAAATACCCCCATAGGGT
*
6242931 AAAATGACCGAAATACCCCCATTGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* *
6242958 -AAATGACTGAAATACCCCCTGTAGGGT
1 AAAATGACCGAAATACCCCC-ATAGGGT
*
6242985 AAAATGACCGAAATACCCTCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* ** *
6243012 AAAATGATCGAAATACCTTCATAAGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* * *
6243039 AAAATGAGCAAAATACCCCTATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* * *
6243066 -AAATGACCAAAACAACCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* *
6243092 AAAATGACCAAAATACCCCAATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
6243119 AAAATGACCGAAATACCCCTC-TAGGGT
1 AAAATGACCGAAATACCCC-CATAGGGT
* **
6243146 AAAATGACCAAAATACCCCTGTAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* * * *
6243173 ATAATGACTGTAATACCCCTC-TAAGGT
1 AAAATGACCGAAATACCCC-CATAGGGT
* *
6243200 AAAATGACTGTAATACCC
1 AAAATGACCGAAATACCC
6243218 TTGTAAGGTA
Statistics
Matches: 244, Mismatches: 36, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
26 48 0.20
27 179 0.73
28 17 0.07
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.20
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCATAGGGT
Found at i:6243058 original size:81 final size:80
Alignment explanation
Indices: 6242905--6243234 Score: 355
Period size: 81 Copynumber: 4.1 Consensus size: 80
6242895 GTTGTGCAAG
* * **
6242905 AAAATGATC-AAATACCCCCATAGGCTAAAATGACCGAAATACCCCCATTGGGT-AAATGACTGA
1 AAAATGACCAAAATA-CCCCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAAAATGACTGA
6242968 AATACCCCCTGTAGGGT
65 AATA-CCCCTGTAGGGT
* * ** *
6242985 AAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCTTCATAAGGTAAAATGAGC-A
1 AAAATGACCAAAATACCC-CATAGGGTAAAATGACCGAAATACCCCCATAAGGTAAAATGA-CTG
*
6243049 AAATACCCCTATAGGGT
64 AAATACCCCTGTAGGGT
* * * * *
6243066 -AAATGACCAAAACAACCCCATAGGGTAAAATGACCAAAATACCCCAATAGGGTAAAATGACCGA
1 AAAATGACCAAAA-TACCCCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAAAATGACTGA
*
6243130 AATACCCCTCTAGGGT
65 AATACCCCTGTAGGGT
* * * *
6243146 AAAATGACCAAAATACCCCTGTAGGGTATAATGACTGTAATACCCCTC-TAAGGTAAAATGACTG
1 AAAATGACCAAAATACCCC-ATAGGGTAAAATGACCGAAATACCCC-CATAAGGTAAAATGACTG
* * *
6243210 TAATACCCTTGTAAGGT
64 AAATACCCCTGTAGGGT
6243227 AAAATGAC
1 AAAATGAC
6243235 TGATTTGCCC
Statistics
Matches: 209, Mismatches: 32, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
79 1 0.00
80 79 0.38
81 117 0.56
82 11 0.05
83 1 0.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (80 bp):
AAAATGACCAAAATACCCCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAAAATGACTGAA
ATACCCCTGTAGGGT
Found at i:6243116 original size:107 final size:108
Alignment explanation
Indices: 6242905--6243180 Score: 346
Period size: 107 Copynumber: 2.6 Consensus size: 108
6242895 GTTGTGCAAG
* * * * **
6242905 AAAATGATC-AAATACCCCCAT-AGGCTAAAATGACCGAAATACCCCCATTGGGTAAATGACTGA
1 AAAATGATCGAAATACCCTCATAAGG-TAAAATGACCAAAATACCCCTATAGGGTAAATGACCAA
* * * *
6242968 AATACCCCCTGTAGGGTAAAATGACCGAAATACCCTCATAGGGT
65 AACAACCCCTATAGGGTAAAATGACCAAAATACCCTCATAGGGT
* *
6243012 AAAATGATCGAAATACCTTCATAAGGTAAAATGAGCAAAATACCCCTATAGGGTAAATGACCAAA
1 AAAATGATCGAAATACCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTAAATGACCAAA
6243077 ACAACCCC-ATAGGGTAAAATGACCAAAATACCC-CAATAGGGT
66 ACAACCCCTATAGGGTAAAATGACCAAAATACCCTC-ATAGGGT
* * *
6243119 AAAATGACCGAAATACCCCTC-TAGGGTAAAATGACCAAAATACCCCTGTAGGGTATAATGAC
1 AAAATGATCGAAATA-CCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTA-AATGAC
6243181 TGTAATACCC
Statistics
Matches: 147, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
106 1 0.01
107 84 0.57
108 59 0.40
109 3 0.02
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (108 bp):
AAAATGATCGAAATACCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTAAATGACCAAA
ACAACCCCTATAGGGTAAAATGACCAAAATACCCTCATAGGGT
Found at i:6243245 original size:27 final size:27
Alignment explanation
Indices: 6243116--6243236 Score: 125
Period size: 27 Copynumber: 4.5 Consensus size: 27
6243106 ACCCCAATAG
* * * * *
6243116 GGTAAAATGACCGAAATACCCCTCTAG
1 GGTAAAATGACTGTAATACCCTTGTAA
*** * *
6243143 GGTAAAATGACCAAAATACCCCTGTAG
1 GGTAAAATGACTGTAATACCCTTGTAA
* * *
6243170 GGTATAATGACTGTAATACCCCTCTAA
1 GGTAAAATGACTGTAATACCCTTGTAA
6243197 GGTAAAATGACTGTAATACCCTTGTAA
1 GGTAAAATGACTGTAATACCCTTGTAA
6243224 GGTAAAATGACTG
1 GGTAAAATGACTG
6243237 ATTTGCCCTA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACTGTAATACCCTTGTAA
Found at i:6246300 original size:100 final size:100
Alignment explanation
Indices: 6246127--6246526 Score: 791
Period size: 100 Copynumber: 4.0 Consensus size: 100
6246117 GCCGGATTCA
6246127 TCATCAAGACTGAAGACCTCTCCTCAATTTCCCTTCAGAAGTTTTGGGTTTTCTTTATGTTTTGT
1 TCATCAAGACTGAAGACCTCTCCTCAATTTCCCTTCAGAAGTTTTGGGTTTTCTTTATGTTTTGT
6246192 ATTCTATATTCTTCTGAGATGTTTTCTTATTTAGT
66 ATTCTATATTCTTCTGAGATGTTTTCTTATTTAGT
6246227 TCATCAAGACTGAAGACCTCTCCTCAATTTCCCTTCAGAAGTTTTGGGTTTTCTTTATGTTTTGT
1 TCATCAAGACTGAAGACCTCTCCTCAATTTCCCTTCAGAAGTTTTGGGTTTTCTTTATGTTTTGT
6246292 ATTCTATATTCTTCTGAGATGTTTTCTTATTTAGT
66 ATTCTATATTCTTCTGAGATGTTTTCTTATTTAGT
6246327 TCATCAAGACTGAAGACCTCTCCTCAATTTCCCTTCAGAAGTTTTGGGTTTTCTTTATGTTTTGT
1 TCATCAAGACTGAAGACCTCTCCTCAATTTCCCTTCAGAAGTTTTGGGTTTTCTTTATGTTTTGT
6246392 ATTCTATATTCTTCTGAGATGTTTTCTTATTTAGT
66 ATTCTATATTCTTCTGAGATGTTTTCTTATTTAGT
6246427 TCATCAAGACTGAAGACCTCTCCTCAATTTCCCTTCAGAAGTTTTGGGTTTTCTTTATGTTTTGT
1 TCATCAAGACTGAAGACCTCTCCTCAATTTCCCTTCAGAAGTTTTGGGTTTTCTTTATGTTTTGT
*
6246492 ATTCTATATTCTCCTGAGATGTTTTCTTATTTAGT
66 ATTCTATATTCTTCTGAGATGTTTTCTTATTTAGT
6246527 CATGAACTAA
Statistics
Matches: 299, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 299 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (100 bp):
TCATCAAGACTGAAGACCTCTCCTCAATTTCCCTTCAGAAGTTTTGGGTTTTCTTTATGTTTTGT
ATTCTATATTCTTCTGAGATGTTTTCTTATTTAGT
Found at i:6250073 original size:47 final size:47
Alignment explanation
Indices: 6250004--6250097 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
6249994 TTTAAGGTAA
6250004 ACAACACCCGATTAAAACCTTATTTTGATGAGATTGATAGCAGGAAT
1 ACAACACCCGATTAAAACCTTATTTTGATGAGATTGATAGCAGGAAT
*
6250051 ACAACACCCGATTAAAACCTTATTTTGATGAGATTGATAGTAGGAAT
1 ACAACACCCGATTAAAACCTTATTTTGATGAGATTGATAGCAGGAAT
6250098 GAGGATTATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (47 bp):
ACAACACCCGATTAAAACCTTATTTTGATGAGATTGATAGCAGGAAT
Found at i:6254556 original size:13 final size:13
Alignment explanation
Indices: 6254538--6254564 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6254528 GAAGTAATCG
6254538 CACACGGGCGTGT
1 CACACGGGCGTGT
6254551 CACACGGGCGTGT
1 CACACGGGCGTGT
6254564 C
1 C
6254565 CTTGCTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:6260225 original size:20 final size:21
Alignment explanation
Indices: 6260191--6260231 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6260181 CTTCAGTGCC
6260191 TTTGCATTTCAATGC-CTCTA
1 TTTGCATTTCAATGCTCTCTA
**
6260211 TTTGCATTTTGATGCTCTCTA
1 TTTGCATTTCAATGCTCTCTA
6260232 GTGTGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.22, G:0.12, T:0.49
Consensus pattern (21 bp):
TTTGCATTTCAATGCTCTCTA
Found at i:6261899 original size:28 final size:28
Alignment explanation
Indices: 6261876--6261956 Score: 101
Period size: 27 Copynumber: 2.9 Consensus size: 28
6261866 GAATAGTCTT
* *
6261876 TGCAGACTCTTTCTTGAAAGATAGCCCA
1 TGCAGACTCTTGCTTGAAAGATAGTCCA
* *
6261904 TGCAGACTATTGCTTCAAA-ATAGTCCA
1 TGCAGACTCTTGCTTGAAAGATAGTCCA
* *
6261931 TACAGACACTTGCTTGAAAGATAGTC
1 TGCAGACTCTTGCTTGAAAGATAGTC
6261957 GGTAAGGACT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 22 0.50
28 22 0.50
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (28 bp):
TGCAGACTCTTGCTTGAAAGATAGTCCA
Found at i:6266427 original size:22 final size:22
Alignment explanation
Indices: 6266377--6266419 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6266367 CCATAGACAG
*
6266377 GACAACACATAGCCGTAAACAA
1 GACAGCACATAGCCGTAAACAA
*
6266399 GACAGCACATAGCTGTAAACA
1 GACAGCACATAGCCGTAAACA
6266420 TCGCAGCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.12
Consensus pattern (22 bp):
GACAGCACATAGCCGTAAACAA
Found at i:6266636 original size:19 final size:20
Alignment explanation
Indices: 6266612--6266655 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
6266602 CCTTAGGCAA
6266612 ATATGT-TTGGCACAAAGCC
1 ATATGTGTTGGCACAAAGCC
*
6266631 ATATGTAGGTTGGCGCAAAGCC
1 ATATGT--GTTGGCACAAAGCC
6266653 ATA
1 ATA
6266656 ATCAGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
22 15 0.71
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (20 bp):
ATATGTGTTGGCACAAAGCC
Found at i:6266864 original size:41 final size:41
Alignment explanation
Indices: 6266819--6266924 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
6266809 TCCATGGTCG
* * *
6266819 TCAAGCAACCATGTGATCCTTAATCAGTGGATCCGCAATCA
1 TCAAGCAACCATGCGATCCTCAATCAGTGGATCCACAATCA
* ** *
6266860 TCAAGCAACCATGCGATCCTCAATCGGTGGATCCACGGTCG
1 TCAAGCAACCATGCGATCCTCAATCAGTGGATCCACAATCA
6266901 TCAAGCAACCATGCGATCCTCAAT
1 TCAAGCAACCATGCGATCCTCAAT
6266925 TTCTTCCTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (41 bp):
TCAAGCAACCATGCGATCCTCAATCAGTGGATCCACAATCA
Found at i:6267233 original size:27 final size:27
Alignment explanation
Indices: 6267162--6267468 Score: 208
Period size: 27 Copynumber: 11.4 Consensus size: 27
6267152 TTTCACCATA
* * * **
6267162 CAAGGGTGTTTTGGTAAATCTATGAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
6267189 CAAGGGCATTTCGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** *
6267216 CAAGGGTATTTAT-GTAATTTTTGAAAGT
1 CAAGGGTATTT-TGGTAATTTTACAAA-C
* *
6267244 CAAAGGTATTTTGGTAATTTTCCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
6267271 CAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * **
6267298 TGAGGGTATTTAGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * **
6267325 CGAGAGTATTTTAGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
6267352 TAAAGGTATTTTGGTAA-TTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
6267377 TTAGGGTATTTTAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
6267404 C-AGGGATATTTTGATAATTTTGCTAAT
1 CAAGGG-TATTTTGGTAATTTTACAAAC
* **
6267431 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
6267458 CAAGGGTATTT
1 CAAGGGTATTT
6267469 CAATAATTCT
Statistics
Matches: 218, Mismatches: 55, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
25 14 0.06
26 18 0.08
27 161 0.74
28 25 0.11
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:6267527 original size:28 final size:27
Alignment explanation
Indices: 6267461--6267530 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
6267451 TGTAAACCAA
* * *
6267461 GGGTATTTCAATAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCAACCCTACAG
*
6267488 GGGCATTTCAGTAATTCAACCCTACAGG
1 GGGTATTTCAGTAATTCAACCCTACA-G
6267516 GGGTATTTCAGTAAT
1 GGGTATTTCAGTAAT
6267531 ACTAGCCTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCAACCCTACAG
Found at i:6267539 original size:28 final size:28
Alignment explanation
Indices: 6267461--6267542 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 28
6267451 TGTAAACCAA
* *
6267461 GGGTATTTCAATAATTCTACCCTATA-G
1 GGGTATTTCAGTAATTCTACCCTACAGG
* *
6267488 GGGCATTTCAGTAATTCAACCCTACAGG
1 GGGTATTTCAGTAATTCTACCCTACAGG
* *
6267516 GGGTATTTCAGTAATACTAGCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
6267543 ATATGAGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
27 22 0.48
28 24 0.52
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (28 bp):
GGGTATTTCAGTAATTCTACCCTACAGG
Found at i:6270872 original size:24 final size:24
Alignment explanation
Indices: 6270829--6270874 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6270819 TAAAGAAATG
*
6270829 GAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAGAGAAAAAAAATGAT
6270853 GAAAACAAAAGA-AAAAAAAATG
1 GAAAA-AAAAGAGAAAAAAAATG
6270875 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAGAGAAAAAAAATGAT
Found at i:6279756 original size:79 final size:81
Alignment explanation
Indices: 6279620--6279802 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
6279610 TCGAATGATG
* *
6279620 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
6279684 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
6279699 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
6279761 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
6279779 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
6279803 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:6279818 original size:40 final size:40
Alignment explanation
Indices: 6279621--6279804 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
6279611 CGAATGATGT
* * * *
6279621 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
6279661 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
6279701 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
6279739 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
6279780 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
6279805 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:6279826 original size:79 final size:79
Alignment explanation
Indices: 6279673--6279837 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
6279663 GGACTAAGAT
* **
6279673 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
6279738 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
6279752 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
6279815 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
6279831 CCGAAGG
1 CCGAAGG
6279838 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:6282922 original size:29 final size:29
Alignment explanation
Indices: 6282883--6282961 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
6282873 CTTAATAATC
*
6282883 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
6282913 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
6282942 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
6282962 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:6291040 original size:29 final size:29
Alignment explanation
Indices: 6291001--6291079 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
6290991 CTTAATAATC
*
6291001 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
6291031 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
6291060 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
6291080 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:6291546 original size:63 final size:63
Alignment explanation
Indices: 6291447--6291567 Score: 242
Period size: 63 Copynumber: 1.9 Consensus size: 63
6291437 CATACAGAAC
6291447 GGCATGGTAAAATTTTTATCTTGCTACCTTATGTTCTTAGCTATTCGGCTAATAACCTGGAAT
1 GGCATGGTAAAATTTTTATCTTGCTACCTTATGTTCTTAGCTATTCGGCTAATAACCTGGAAT
6291510 GGCATGGTAAAATTTTTATCTTGCTACCTTATGTTCTTAGCTATTCGGCTAATAACCT
1 GGCATGGTAAAATTTTTATCTTGCTACCTTATGTTCTTAGCTATTCGGCTAATAACCT
6291568 TATGCAATTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (63 bp):
GGCATGGTAAAATTTTTATCTTGCTACCTTATGTTCTTAGCTATTCGGCTAATAACCTGGAAT
Found at i:6297900 original size:28 final size:27
Alignment explanation
Indices: 6297837--6297988 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
6297827 ATATTAAGTC
* * *
6297837 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
6297864 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
6297892 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
6297919 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
6297947 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
6297974 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
6297989 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:6297921 original size:55 final size:55
Alignment explanation
Indices: 6297837--6297988 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
6297827 ATATTAAGTC
* * *
6297837 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
6297892 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
6297947 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
6297989 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:6304588 original size:42 final size:42
Alignment explanation
Indices: 6304529--6304620 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
6304519 TGGCCCTTAG
** *
6304529 GCCCATTTCAATATCACATGAAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
6304571 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
6304613 GCCCATTT
1 GCCCATTT
6304621 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:6304793 original size:25 final size:26
Alignment explanation
Indices: 6304765--6304861 Score: 162
Period size: 25 Copynumber: 3.8 Consensus size: 26
6304755 CCTCTTTAAT
6304765 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
6304790 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
6304815 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
6304841 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
6304862 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 35 0.51
26 34 0.49
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:6304843 original size:51 final size:51
Alignment explanation
Indices: 6304765--6304861 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
6304755 CCTCTTTAAT
**
6304765 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
6304815 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
6304862 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 10 0.23
51 23 0.53
52 10 0.23
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:6304950 original size:27 final size:27
Alignment explanation
Indices: 6304920--6304984 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
6304910 GGGCATATTC
*
6304920 GTCATTTTACTATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
6304947 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
6304974 GTCTTTTTACC
1 GTCATTTTACC
6304985 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:6305068 original size:27 final size:27
Alignment explanation
Indices: 6305038--6305123 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
6305028 GTAAATCTAC
6305038 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
6305065 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
6305091 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
6305121 AAA
1 AAA
6305124 TCTGGGGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 7 0.14
29 18 0.37
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:6305141 original size:27 final size:27
Alignment explanation
Indices: 6305101--6305224 Score: 137
Period size: 27 Copynumber: 4.6 Consensus size: 27
6305091 AGAAAGTCAA
**
6305101 GGGTATTTCT-GTAATTTTGTAAATCT-G
1 GGGTATTT-TGGTAATTTTACAAA-CTAG
*
6305128 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
6305154 AGGGTATTTCGATAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
6305182 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
6305209 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
6305225 CTATCCTACA
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.01
26 2 0.02
27 77 0.94
28 2 0.02
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:6305296 original size:27 final size:27
Alignment explanation
Indices: 6305256--6305506 Score: 283
Period size: 27 Copynumber: 9.3 Consensus size: 27
6305246 GTAATTTCAC
* *
6305256 AATCGAGGGTAAAATGGTAATTTTTTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
6305283 AA-CTGATGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
*
6305310 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
6305337 AATCGAGGGTAAAACT-GTAATTTTGTA
1 AATCGAGGGTAAAA-TGGTAATTCTATA
* ***
6305364 AATCGAGGGTGAAACAATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
6305391 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
6305418 AATCGAGGGTAAACT-GTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
6305444 AATTGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
6305471 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
6305498 AATCGAGGG
1 AATCGAGGG
6305507 CATTTCAGTA
Statistics
Matches: 186, Mismatches: 33, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
26 21 0.11
27 163 0.88
28 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:6305482 original size:80 final size:80
Alignment explanation
Indices: 6305256--6305506 Score: 385
Period size: 81 Copynumber: 3.1 Consensus size: 80
6305246 GTAATTTCAC
* * * * * *
6305256 AATCGAGGGTAAAATGGTAATTTTTTAAACTGATGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAACT-GTAATTTTGTAAATTGAGGGTGAAACGATAATTCTATAAATCGAGGGTA
*
6305321 AAATGATAATTCTATA
65 AAATGGTAATTCTATA
* *
6305337 AATCGAGGGTAAAACTGTAATTTTGTAAATCGAGGGTGAAACAATAATTCTATAAATCGAGGGTA
1 AATCGAGGGT-AAACTGTAATTTTGTAAATTGAGGGTGAAACGATAATTCTATAAATCGAGGGTA
6305402 AAATGGTAATTCTATA
65 AAATGGTAATTCTATA
*
6305418 AATCGAGGGTAAACTGTAATTTTGTAAATTGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAA
1 AATCGAGGGTAAACTGTAATTTTGTAAATTGAGGGTGAAACGATAATTCTATAAATCGAGGGTAA
*
6305483 AATGGTAATTCTACA
66 AATGGTAATTCTATA
6305498 AATCGAGGG
1 AATCGAGGG
6305507 CATTTCAGTA
Statistics
Matches: 156, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
80 75 0.48
81 77 0.49
82 4 0.03
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (80 bp):
AATCGAGGGTAAACTGTAATTTTGTAAATTGAGGGTGAAACGATAATTCTATAAATCGAGGGTAA
AATGGTAATTCTATA
Found at i:6307013 original size:11 final size:11
Alignment explanation
Indices: 6306997--6307051 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
6306987 CATGATTGAT
6306997 ATGATATGCAC
1 ATGATATGCAC
*
6307008 ATGATATG--T
1 ATGATATGCAC
6307017 ATGATATGCAC
1 ATGATATGCAC
*
6307028 AT-ATATG--T
1 ATGATATGCAC
6307036 ATGATATGCAC
1 ATGATATGCAC
6307047 ATGAT
1 ATGAT
6307052 GTATTCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
8 2 0.06
9 13 0.37
10 5 0.14
11 15 0.43
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:6307035 original size:19 final size:20
Alignment explanation
Indices: 6306986--6307051 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
6306976 GTTTTGATAT
6306986 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
6307006 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
6307026 ACAT-ATATGTATGATATGC
1 ACATGATATGTATGATATGC
6307045 ACATGAT
1 ACATGAT
6307052 GTATTCATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.43
20 23 0.52
21 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:6307206 original size:24 final size:25
Alignment explanation
Indices: 6307109--6307206 Score: 128
Period size: 25 Copynumber: 3.9 Consensus size: 25
6307099 AAAAGAGCTA
** *
6307109 TGCCCCAGTTTACCGAAACGGGCTTT
1 TGCCCCAGTTTA-TTAAAAGGGCTTT
6307135 TGCCCCAGTTTATTAAAAGGGCTTT
1 TGCCCCAGTTTATTAAAAGGGCTTT
*
6307160 TGCCCCAGTTTATCAAAAGGGCTTT
1 TGCCCCAGTTTATTAAAAGGGCTTT
6307185 T-CCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATTAAAAG-GGCT
6307207 AGGCCTCCAG
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
23 9 0.14
24 10 0.15
25 35 0.53
26 12 0.18
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (25 bp):
TGCCCCAGTTTATTAAAAGGGCTTT
Found at i:6314617 original size:29 final size:29
Alignment explanation
Indices: 6314483--6314618 Score: 143
Period size: 29 Copynumber: 4.8 Consensus size: 29
6314473 AATAATAATT
* * * *
6314483 TCTATAAAAGTGA-GCCTTTGGGGTTATC
1 TCTATTAAAGGGACGCCTTTGTGGCTATC
*
6314511 TCTATTAAATGGA-GACCTTTGTGGCTATC
1 TCTATTAAAGGGACG-CCTTTGTGGCTATC
* * * *
6314540 TCTGTTAAAGGAATGCCTTTGTGGCTATT
1 TCTATTAAAGGGACGCCTTTGTGGCTATC
*
6314569 TGTATT-AAGGGACGCCTTTGTGGCTATC
1 TCTATTAAAGGGACGCCTTTGTGGCTATC
*
6314597 TCTATTAAAGGGACGTCTTTGT
1 TCTATTAAAGGGACGCCTTTGT
6314619 AACATCCCAA
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
28 35 0.39
29 53 0.60
30 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.38
Consensus pattern (29 bp):
TCTATTAAAGGGACGCCTTTGTGGCTATC
Found at i:6323530 original size:30 final size:30
Alignment explanation
Indices: 6323494--6323557 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
6323484 TTTGTGAAAG
*
6323494 GATTCTCCGTGATTGCTACTCTGATGACGA
1 GATTCTCCATGATTGCTACTCTGATGACGA
*
6323524 GATTCTCCATGATTGCTACTCTGATGGCGA
1 GATTCTCCATGATTGCTACTCTGATGACGA
6323554 GATT
1 GATT
6323558 ATTACAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (30 bp):
GATTCTCCATGATTGCTACTCTGATGACGA
Found at i:6329403 original size:48 final size:48
Alignment explanation
Indices: 6329330--6329509 Score: 225
Period size: 48 Copynumber: 3.8 Consensus size: 48
6329320 ACCATGCTAA
*
6329330 ATGTGTCTATGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * ** *
6329378 ATGTGCCTGTGTAAGACCATATCTGGGACATGGCATCGGTGATGATAA
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * * * * *
6329426 ATGTGTCTATGCAATACCATGTTTGGGACATGGCATCAACAATGATAT
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * *
6329474 ATGTGCCTGTGTAATACCATGTCTGGGACGTGGCAT
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCAT
6329510 GTAACACCCC
Statistics
Matches: 110, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (48 bp):
ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
Found at i:6329493 original size:96 final size:96
Alignment explanation
Indices: 6329327--6329509 Score: 294
Period size: 96 Copynumber: 1.9 Consensus size: 96
6329317 GACACCATGC
* * *
6329327 TAAATGTGTCTATGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAA
1 TAAATGTGTCTATGCAAGACCATGTCTGGGACATGGCATCAACAATGATATATGTGCCTGTGTAA
6329392 GACCATATCTGGGACATGGCATCGGTGATGA
66 GACCATATCTGGGACATGGCATCGGTGATGA
* *
6329423 TAAATGTGTCTATGCAATACCATGTTTGGGACATGGCATCAACAATGATATATGTGCCTGTGTAA
1 TAAATGTGTCTATGCAAGACCATGTCTGGGACATGGCATCAACAATGATATATGTGCCTGTGTAA
* * *
6329488 TACCATGTCTGGGACGTGGCAT
66 GACCATATCTGGGACATGGCAT
6329510 GTAACACCCC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (96 bp):
TAAATGTGTCTATGCAAGACCATGTCTGGGACATGGCATCAACAATGATATATGTGCCTGTGTAA
GACCATATCTGGGACATGGCATCGGTGATGA
Found at i:6329732 original size:20 final size:19
Alignment explanation
Indices: 6329699--6329737 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
6329689 GGACTAAACC
6329699 GAAAACTTTAAAAACTTTCA
1 GAAAACTTTAAAAA-TTTCA
6329719 GAAAAC-TTAGAAAATTTCA
1 GAAAACTTTA-AAAATTTCA
6329738 TCATGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (19 bp):
GAAAACTTTAAAAATTTCA
Found at i:6330127 original size:40 final size:40
Alignment explanation
Indices: 6330083--6330202 Score: 96
Period size: 40 Copynumber: 3.1 Consensus size: 40
6330073 CATTTGCATG
6330083 CACATGACATTTCTCTTATTCAAGTCCAAACTTACCAAAA
1 CACATGACATTTCTCTTATTCAAGTCCAAACTTACCAAAA
* * * **
6330123 CACATG-CATGGTATC-CTCA--CAA---CAACACAT-GC-ATG
1 CACATGACAT--T-TCTCTTATTCAAGTCCAA-ACTTACCAAAA
6330158 CACATGACATTTCTCTTATTCAAGTCCAAACTTACCAAAA
1 CACATGACATTTCTCTTATTCAAGTCCAAACTTACCAAAA
6330198 CACAT
1 CACAT
6330203 ATAATATATA
Statistics
Matches: 57, Mismatches: 10, Indels: 26
0.61 0.11 0.28
Matches are distributed among these distances:
33 2 0.04
34 4 0.07
35 7 0.12
36 10 0.18
37 3 0.05
38 3 0.05
39 10 0.18
40 12 0.21
41 4 0.07
42 2 0.04
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (40 bp):
CACATGACATTTCTCTTATTCAAGTCCAAACTTACCAAAA
Found at i:6331644 original size:42 final size:43
Alignment explanation
Indices: 6331579--6331680 Score: 102
Period size: 42 Copynumber: 2.4 Consensus size: 43
6331569 AATCCCAGAT
* * * *
6331579 ATGGTCTTACATGAAAT-ATCATACTGACGCCATGTCCC-TGAC
1 ATGGTCTTATACGAAATCATCATACCGACGCCATATCCCGT-AC
* * *
6331621 ATGGTCTTATACGAAATCA-CATACCGAGGTCATATCCCGTAT
1 ATGGTCTTATACGAAATCATCATACCGACGCCATATCCCGTAC
*
6331663 ATGGTCTTATACGGAATC
1 ATGGTCTTATACGAAATC
6331681 TTAATAACCT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
ATGGTCTTATACGAAATCATCATACCGACGCCATATCCCGTAC
Found at i:6332967 original size:48 final size:49
Alignment explanation
Indices: 6332874--6332994 Score: 174
Period size: 48 Copynumber: 2.5 Consensus size: 49
6332864 ATCAGGATGT
* **
6332874 TACATGGCATCGGTGATGAATATATGTGCCTGTGTAAGACCATGTCT-AG
1 TACATGGCATCGGTGATG-ATATGTGTGCCACTGTAAGACCATGTCTAAG
* *
6332923 TACATGGCATCGGCGATGATATGTGTGCCACTGTAAGACTATGTCTAAG
1 TACATGGCATCGGTGATGATATGTGTGCCACTGTAAGACCATGTCTAAG
6332972 -ACATGGCATCGGTGATGATATGT
1 TACATGGCATCGGTGATGATATGT
6332995 AGATTTATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 46 0.71
49 19 0.29
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TACATGGCATCGGTGATGATATGTGTGCCACTGTAAGACCATGTCTAAG
Found at i:6337052 original size:29 final size:29
Alignment explanation
Indices: 6337010--6337116 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
6337000 GGTTGTTATA
*
6337010 GCCTTTGAGGCTATCTCTGTTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
*
6337039 GCCTTTGTGGCTATCTCTGCTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
* * * * **
6337068 GCCTTTATGTCTACCTATGTTAATTGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
* *
6337097 GCTTTTGTGGCAATACTCTG
1 GCCTTTGTGGCTAT-CTCTG
6337117 AAGTGAAAGC
Statistics
Matches: 62, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
29 58 0.94
30 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (29 bp):
GCCTTTGTGGCTATCTCTGTTAAAGGAAT
Found at i:6339191 original size:30 final size:30
Alignment explanation
Indices: 6339152--6339208 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
6339142 ATCGATTTTC
*
6339152 AAGTATAGGGGTAAAATAGTCATTTTGTGA
1 AAGTATAGGGGCAAAATAGTCATTTTGTGA
*
6339182 AAGTCTAGGGGCAAAATAGTCATTTTG
1 AAGTATAGGGGCAAAATAGTCATTTTG
6339209 CCCAATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (30 bp):
AAGTATAGGGGCAAAATAGTCATTTTGTGA
Found at i:6349045 original size:17 final size:17
Alignment explanation
Indices: 6349023--6349057 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6349013 TGTTTAGCAA
*
6349023 TGTTTTTATCTCAAAAG
1 TGTTTTTACCTCAAAAG
6349040 TGTTTTTACCTCAAAAG
1 TGTTTTTACCTCAAAAG
6349057 T
1 T
6349058 ACTTCTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (17 bp):
TGTTTTTACCTCAAAAG
Found at i:6351449 original size:12 final size:13
Alignment explanation
Indices: 6351434--6351462 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6351424 TAAAAACTTG
6351434 AAAAAA-AAAAGA
1 AAAAAATAAAAGA
6351446 AAAAAATAAAAGA
1 AAAAAATAAAAGA
6351459 AAAA
1 AAAA
6351463 GAGCAAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (13 bp):
AAAAAATAAAAGA
Found at i:6369967 original size:40 final size:39
Alignment explanation
Indices: 6369776--6369959 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
6369766 CGAATGATGT
* * * *
6369776 CCGGACTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
6369816 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
6369856 CCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
6369894 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
6369935 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
6369960 AACGAGTTGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 33 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:6369981 original size:79 final size:77
Alignment explanation
Indices: 6369809--6369992 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 77
6369799 GTGCTAAGTG
* *
6369809 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGG
**
6369874 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* * * *
6369888 ACTAAATTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATA-TCCGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGAGCTAAG-CCCGAA
*
6369952 GGCATTTGAACGAGTT
62 GGCATTGGAACGAGTT
* *
6369968 GCTATATCCGGTTAAATTCCGAAGG
1 ACTATATCCGGTT-AAGTCCGAAGG
6369993 TACGTGATTC
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
78 3 0.03
79 54 0.62
80 30 0.34
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:6378604 original size:47 final size:46
Alignment explanation
Indices: 6378521--6378613 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 46
6378511 GCCGAACCTC
*
6378521 TTTCCCTTTTGCTTTAAAAGGCCGAAAACTTCATACCTGTGGTATA
1 TTTCCCTTTTGCTTTAAAAAGCCGAAAACTTCATACCTGTGGTATA
* * * *
6378567 NTTTCCCTTTTGCTTTAAAAAGTCGGAACCTTTATACCTGTGGTATA
1 -TTTCCCTTTTGCTTTAAAAAGCCGAAAACTTCATACCTGTGGTATA
6378614 GGATGCCGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.39
Consensus pattern (46 bp):
TTTCCCTTTTGCTTTAAAAAGCCGAAAACTTCATACCTGTGGTATA
Found at i:6379590 original size:28 final size:28
Alignment explanation
Indices: 6379547--6379629 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 28
6379537 TGAAGGAAGC
* *
6379547 GTTT-TGGTGGCCATGCCTCAAATATCT
1 GTTTCTGGTGGCTATGCCACAAATATCT
6379574 GTTTCTGGTGGCTATGCCACAAATATCT
1 GTTTCTGGTGGCTATGCCACAAATATCT
* *
6379602 -ATTCTGGTGGCTTTGCCAC-AATATCT
1 GTTTCTGGTGGCTATGCCACAAATATCT
6379628 GT
1 GT
6379630 ATCTAGTGAC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 7 0.14
27 21 0.43
28 21 0.43
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (28 bp):
GTTTCTGGTGGCTATGCCACAAATATCT
Found at i:6379618 original size:27 final size:28
Alignment explanation
Indices: 6379551--6379628 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 28
6379541 GGAAGCGTTT
* * *
6379551 TGGTGGCCATGCCTCAAATATCTGTTTC
1 TGGTGGCTATGCCACAAATATCTGATTC
6379579 TGGTGGCTATGCCACAAATATCT-ATTC
1 TGGTGGCTATGCCACAAATATCTGATTC
*
6379606 TGGTGGCTTTGCCAC-AATATCTG
1 TGGTGGCTATGCCACAAATATCTG
6379629 TATCTAGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 7 0.16
27 17 0.38
28 21 0.47
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (28 bp):
TGGTGGCTATGCCACAAATATCTGATTC
Found at i:6386383 original size:49 final size:49
Alignment explanation
Indices: 6386324--6386419 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
6386314 TAGCTGAACC
* * *
6386324 TCTTTTCCTTTTTCTATAAACAGCCGAAACATTCATACCTGTGGTATCG
1 TCTTTCCCTTTTGCTATAAAAAGCCGAAACATTCATACCTGTGGTATCG
* * *
6386373 TCTTTCCCTTTTGCTTTAAAAAGTCGAAACCTTCATACCTGTGGTAT
1 TCTTTCCCTTTTGCTATAAAAAGCCGAAACATTCATACCTGTGGTAT
6386420 AGGAAGCCGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (49 bp):
TCTTTCCCTTTTGCTATAAAAAGCCGAAACATTCATACCTGTGGTATCG
Found at i:6386931 original size:8 final size:8
Alignment explanation
Indices: 6386915--6386972 Score: 55
Period size: 8 Copynumber: 7.4 Consensus size: 8
6386905 TAGATCGGCT
6386915 AAAGCCGA
1 AAAGCCGA
*
6386923 AAAGTCGA
1 AAAGCCGA
*
6386931 AATGCCGA
1 AAAGCCGA
*
6386939 AATGCCGA
1 AAAGCCGA
*
6386947 AATGCCGA
1 AAAGCCGA
*
6386955 AATGCCGA
1 AAAGCCGA
*
6386963 AGAGCC-A
1 AAAGCCGA
6386970 AAA
1 AAA
6386973 TTTTATGAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
7 3 0.07
8 41 0.93
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (8 bp):
AAAGCCGA
Found at i:6386939 original size:16 final size:16
Alignment explanation
Indices: 6386918--6386963 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
6386908 ATCGGCTAAA
*
6386918 GCCGAAAAGTCGAAAT
1 GCCGAAAAGCCGAAAT
*
6386934 GCCGAAATGCCGAAAT
1 GCCGAAAAGCCGAAAT
*
6386950 GCCGAAATGCCGAA
1 GCCGAAAAGCCGAA
6386964 GAGCCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.39, C:0.24, G:0.26, T:0.11
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:6386945 original size:24 final size:24
Alignment explanation
Indices: 6386918--6386963 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6386908 ATCGGCTAAA
*
6386918 GCCGAAAAGTCGAAATGCCGAAAT
1 GCCGAAAAGCCGAAATGCCGAAAT
*
6386942 GCCGAAATGCCGAAATGCCGAA
1 GCCGAAAAGCCGAAATGCCGAA
6386964 GAGCCAAAAT
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:0.39, C:0.24, G:0.26, T:0.11
Consensus pattern (24 bp):
GCCGAAAAGCCGAAATGCCGAAAT
Found at i:6386973 original size:24 final size:24
Alignment explanation
Indices: 6386928--6386973 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6386918 GCCGAAAAGT
*
6386928 CGAAATGCCGAAATGCCGAAATGC
1 CGAAATGCCGAAATGCCAAAATGC
6386952 CGAAATGCCGAAGA-GCCAAAAT
1 CGAAATGCCGAA-ATGCCAAAAT
6386974 TTTATGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (24 bp):
CGAAATGCCGAAATGCCAAAATGC
Done.