Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 65 of 322
Found at i:20737516 original size:24 final size:24
Alignment explanation
Indices: 20737489--20737680 Score: 291
Period size: 24 Copynumber: 8.0 Consensus size: 24
20737479 GAGGAAGTGC
20737489 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
20737513 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
20737537 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
20737561 AAAATGGCTTATGCCTCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
20737585 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
20737608 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
20737632 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
20737657 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
20737681 ATGATAAAGC
Statistics
Matches: 155, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
23 29 0.19
24 95 0.61
25 21 0.14
26 10 0.06
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:20737908 original size:31 final size:31
Alignment explanation
Indices: 20737873--20737936 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
20737863 CGTTTACAGT
20737873 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
20737904 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
20737935 AA
1 AA
20737937 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:20744994 original size:49 final size:49
Alignment explanation
Indices: 20744935--20745109 Score: 158
Period size: 49 Copynumber: 3.6 Consensus size: 49
20744925 TGTTGTGTGT
* *
20744935 CAGTGTAAGACCTGTCTGGGACATGGCATTGACATCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATTGACATCGATAGATGAAAGC
* * * * * **
20744984 CAGTGTAAGACCTGTTTGGGACATGGC-TTGGGCCTCGATATATGAAATT
1 CAGTGTAAGACCTGTCTAGGACATGGCATT-GACATCGATAGATGAAAGC
* * * * * **
20745033 TAGTGTAAGACCTGTCTAGGAAATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATTGACATCGATAGATGAAAGC
*
20745080 CAGTGTAAGACCATTTCTAGGACATGGCAT
1 CAGTGTAAGACC-TGTCTAGGACATGGCAT
20745110 CGACGTCTTA
Statistics
Matches: 100, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
47 14 0.14
48 17 0.17
49 68 0.68
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATTGACATCGATAGATGAAAGC
Found at i:20759566 original size:21 final size:21
Alignment explanation
Indices: 20759540--20759588 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
20759530 ACGGAGTTAA
20759540 AAGAGTTGAAACTCCAGCTAC
1 AAGAGTTGAAACTCCAGCTAC
20759561 AAGAGTTGAAACTCCAGCTAC
1 AAGAGTTGAAACTCCAGCTAC
20759582 AAGAGTT
1 AAGAGTT
20759589 AACAGATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
AAGAGTTGAAACTCCAGCTAC
Found at i:20763555 original size:48 final size:48
Alignment explanation
Indices: 20763483--20763792 Score: 194
Period size: 48 Copynumber: 6.5 Consensus size: 48
20763473 CGTGTGCCAA
* * *
20763483 TGTAAGACATGTCAGGGACATGCATCGACCTCAAGATATACCAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAAGCTAG
* * * * * * *
20763531 CGTAAGACATGTCTGGGACATGCATTGGCTTTGAGAT-GA-GAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAAGCTAG
*
20763577 TGTAAGACATGTCTGGGACATACATC-AGCCTCGAGATATACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGA-CCTCGAGATATACAAGCTAG
* * *
20763625 TGTAAGACCA-GTCTGGGACATGGCATCGACAC-C-A-ATAGATGAGAGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGAC-CTCGAGATATA-CA-AGCTAG
* * * * * *
20763674 TGTAAGACCTATCTGGGACACGACATCAACCTCGATATATGA-AAG-TCAA
1 TGTAAGACATGTCTGGGACATG-CATCGACCTCGAGATAT-ACAAGCT-AG
** * * * *
20763723 TGTAAGATC-TGTCTGGGACATGGCATCGA-CT-TTGATGTGCTAGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATATACAAGCTAG
20763770 TGTAAGACCATGTCTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
20763793 GCGTTGGCAT
Statistics
Matches: 201, Mismatches: 40, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
46 36 0.18
47 21 0.10
48 73 0.36
49 61 0.30
50 6 0.03
51 3 0.01
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAAGCTAG
Found at i:20763644 original size:94 final size:94
Alignment explanation
Indices: 20763478--20763791 Score: 298
Period size: 94 Copynumber: 3.3 Consensus size: 94
20763468 TGATACGTGT
* * * * * *
20763478 GCCAATGTAAGACATGTCAGGGACATGCATC-GACCTCAAGATATACCAGCTAGCGTAAGACATG
1 GCCAGTGTAAGACATGTCTGGGACATACATCAG-CCTCGAGATATACAAGCTAGTGTAAGACA-G
* *
20763542 TCTGGGACAT-GCATTGGCTTTGAGATGAGA
64 TCTGGGACATGGCATCGACTTTGAGATGAGA
*
20763572 GCTAGTGTAAGACATGTCTGGGACATACATCAGCCTCGAGATATACAAGCTAGTGTAAGACCAGT
1 GCCAGTGTAAGACATGTCTGGGACATACATCAGCCTCGAGATATACAAGCTAGTGTAAGA-CAGT
**
20763637 CTGGGACATGGCATCGACACCAAT-AGATGAGA
65 CTGGGACATGGCATCG--A-CTTTGAGATGAGA
* * * * * *
20763669 GCCAGTGTAAGACCTATCTGGGACACGACATCAACCTCGATATATGA-AAG-TCAATGTAAGATC
1 GCCAGTGTAAGACATGTCTGGGACA-TACATCAGCCTCGAGATAT-ACAAGCT-AGTGTAAGA-C
* **
20763732 TGTCTGGGACATGGCATCGACTTTGATG-TGCTA
62 AGTCTGGGACATGGCATCGACTTTGA-GATGAGA
20763765 GCCAGTGTAAGACCATGTCTGGGACAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT
20763792 GGCGTTGGCA
Statistics
Matches: 181, Mismatches: 27, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
94 62 0.34
95 10 0.06
96 17 0.09
97 43 0.24
98 48 0.27
99 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATACATCAGCCTCGAGATATACAAGCTAGTGTAAGACAGTC
TGGGACATGGCATCGACTTTGAGATGAGA
Found at i:20763682 original size:49 final size:48
Alignment explanation
Indices: 20763618--20763794 Score: 153
Period size: 49 Copynumber: 3.6 Consensus size: 48
20763608 CGAGATATAC
* *
20763618 AAGCTAGTGTAAGACCAGTCTGGGACATGGCATCGACACCAATAGATGA
1 AAGCCAGTGTAAGACCAGTCTGGGACATGGCATCGAC-CCGATAGATGA
* * * * *
20763667 GAGCCAGTGTAAGACCTA-TCTGGGACACGACATCAACCTCGATATATGA
1 AAGCCAGTGTAAGACC-AGTCTGGGACATGGCATCGACC-CGATAGATGA
* * * * ** *
20763716 AAGTCAATGTAAGATCTGTCTGGGACATGGCATCGACTTTGAT-G-TGC
1 AAGCCAGTGTAAGACCAGTCTGGGACATGGCATCGAC-CCGATAGATGA
*
20763763 TAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 AAGCCAGTGTAAGACCA-GTCTGGGACATGGC
20763795 GTTGGCATCT
Statistics
Matches: 99, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
47 14 0.14
48 15 0.15
49 69 0.70
50 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
AAGCCAGTGTAAGACCAGTCTGGGACATGGCATCGACCCGATAGATGA
Found at i:20763742 original size:98 final size:97
Alignment explanation
Indices: 20763564--20763752 Score: 256
Period size: 98 Copynumber: 1.9 Consensus size: 97
20763554 ATTGGCTTTG
* * * * *
20763564 AGATGAGAGCTAGTGTAAGACATGTCTGGGACATACATCAGCCTCGAGATATACAAGCTAGTGTA
1 AGATGAGAGCCAGTGTAAGACATATCTGGGACAGACATCAACCTCGAGATATACAAGCTAATGTA
20763629 AGACCAGTCTGGGACATGGCATCGACACCAAT
66 AGACCAGTCTGGGACATGGCATCGACACCAAT
* *
20763661 AGATGAGAGCCAGTGTAAGACCTATCTGGGACACGACATCAACCTCGATATATGA-AAG-TCAAT
1 AGATGAGAGCCAGTGTAAGACATATCTGGGACA-GACATCAACCTCGAGATAT-ACAAGCT-AAT
* *
20763724 GTAAGATCTGTCTGGGACATGGCATCGAC
63 GTAAGACCAGTCTGGGACATGGCATCGAC
20763753 TTTGATGTGC
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
97 31 0.39
98 48 0.60
99 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (97 bp):
AGATGAGAGCCAGTGTAAGACATATCTGGGACAGACATCAACCTCGAGATATACAAGCTAATGTA
AGACCAGTCTGGGACATGGCATCGACACCAAT
Found at i:20763793 original size:48 final size:48
Alignment explanation
Indices: 20763532--20763794 Score: 150
Period size: 49 Copynumber: 5.5 Consensus size: 48
20763522 ACCAGCTAGC
* * * * *
20763532 GTAAGA-CATGTCTGGGACAT-GCATTGGCTTTGA-GATGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACTTCGATG-TGAAAGCCAGT
* * * *
20763578 GTAAGA-CATGTCTGGGACAT-ACATC-AGCCTCGA-GATATACAAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGA-CTTCGATG-T-GA-AAGCCAGT
** * *
20763626 GTAAGACCA-GTCTGGGACATGGCATCGACACCAATAGATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACTTCGAT-G-TGAAAGCCAGT
* * * * * * * *
20763675 GTAAGACC-TATCTGGGACACGACATCAACCTCGATATATGAAAGTCAAT
1 GTAAGACCATGTCTGGGACATGGCATCGACTTCG--ATGTGAAAGCCAGT
* * **
20763724 GTAAGATC-TGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACTTCGATGTGAAAGCCAGT
20763771 GTAAGACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
20763795 GTTGGCATCT
Statistics
Matches: 167, Mismatches: 38, Indels: 22
0.74 0.17 0.10
Matches are distributed among these distances:
46 30 0.18
47 17 0.10
48 39 0.23
49 74 0.44
50 2 0.01
51 5 0.03
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGACTTCGATGTGAAAGCCAGT
Found at i:20764763 original size:18 final size:18
Alignment explanation
Indices: 20764683--20764764 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
20764673 CAAGGTCACG
* * *
20764683 ATCAATAGCGTCACCATC
1 ATCAATATCGTCACTAGC
*
20764701 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTAGC
20764719 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTAGC
* *
20764737 ATTAATATCGTCACTATC
1 ATCAATATCGTCACTAGC
*
20764755 ATCATTATCG
1 ATCAATATCG
20764765 ATATCATCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:20766035 original size:27 final size:27
Alignment explanation
Indices: 20766007--20766095 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
20765997 CAAAACAGTC
* *
20766007 ATTTTACCCTACAAGGGTATGTCGATC
1 ATTTTACACTACAAGGGTATGTCGATA
20766034 ATTTTACACTACAAGGGTA-GTTCGATA
1 ATTTTACACTACAAGGGTATG-TCGATA
*
20766061 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATGTCGATA
20766088 ATTTTACA
1 ATTTTACA
20766096 AATTGAAGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTCGATA
Found at i:20766117 original size:54 final size:54
Alignment explanation
Indices: 20766059--20766339 Score: 327
Period size: 54 Copynumber: 5.2 Consensus size: 54
20766049 GGTAGTTCGA
* * *
20766059 TAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATTGAAGGTGTTTCAG
1 TAATTTTACAAAT-CAAGGGTATTTCGATAATTTTACAAATTGAGGGTATTTCAG
* * *
20766113 TAATTTTACAAATCGAGGGTATTTCGATAATTGTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTGAGGGTATTTCAG
* * * * * *
20766167 TAAGTTTACAAATCGAGGGTGTTTCGGTAATTTCACAAATTGAGGGTATTTCGG
1 TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTGAGGGTATTTCAG
* * * *
20766221 TAATTTTACAAATTAAGGGTATTTC-AGTAATTTCAC-AATCGAGGGTATTTCAA
1 TAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAAATTGAGGGTATTTCAG
* * * *
20766274 TAATTTTACAAATCAAGGGCATTT-TAGTAATTTTGCAAATTGAGGGTATTTCGG
1 TAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAAATTGAGGGTATTTCAG
20766328 TAATTTTACAAA
1 TAATTTTACAAA
20766340 CTAGGGGTAC
Statistics
Matches: 195, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
53 45 0.23
54 148 0.76
55 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (54 bp):
TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTGAGGGTATTTCAG
Found at i:20766132 original size:81 final size:81
Alignment explanation
Indices: 20766047--20766339 Score: 333
Period size: 81 Copynumber: 3.6 Consensus size: 81
20766037 TTACACTACA
* * * *
20766047 AGGGTAGTTCGATAATTTTAC-ACTACAAGGGTATTTC-GATAATTTTACAAATTGAAGGTGTTT
1 AGGGTATTTCGATAATTTTACAAAT-CAAGGGTATTTCAG-TAATTTTACAAATCGAGGGTGTTT
20766110 CAGTAATTTTACAAATCG
64 CAGTAATTTTACAAATCG
* * * *
20766128 AGGGTATTTCGATAATTGTACAAATCGAGGGTATTTCAGTAAGTTTACAAATCGAGGGTGTTTCG
1 AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCA
* *
20766193 GTAATTTCACAAATTG
66 GTAATTTTACAAATCG
* * * *
20766209 AGGGTATTTCGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTCA
1 AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCA
* *
20766273 ATAATTTTACAAATCA
66 GTAATTTTACAAATCG
* * * ** *
20766289 AGGGCATTT-TAGTAATTTTGCAAATTGAGGGTATTTCGGTAATTTTACAAA
1 AGGGTATTTCGA-TAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAA
20766340 CTAGGGGTAC
Statistics
Matches: 179, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
80 66 0.37
81 110 0.61
82 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.37
Consensus pattern (81 bp):
AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCA
GTAATTTTACAAATCG
Found at i:20766347 original size:27 final size:27
Alignment explanation
Indices: 20766047--20766358 Score: 283
Period size: 27 Copynumber: 11.6 Consensus size: 27
20766037 TTACACTACA
* * * *
20766047 AGGGTAGTTCGATAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAATA-G
* *
20766074 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATAG
* * * *
20766101 AAGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATAG
* * *
20766128 AGGGTATTTCGATAATTGTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATAG
* * *
20766155 AGGGTATTTCAGTAAGTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATAG
* * *
20766182 AGGGTGTTTCGGTAATTTCACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATAG
20766209 AGGGTATTTCGGTAATTTTACAAATTA-
1 AGGGTATTTCGGTAATTTTACAAA-TAG
* * *
20766236 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATAG
**
20766262 AGGGTATTTCAATAATTTTACAAATCA-
1 AGGGTATTTCGGTAATTTTACAAAT-AG
* ** * *
20766289 AGGGCATTTTAGTAATTTTGCAAATTG
1 AGGGTATTTCGGTAATTTTACAAATAG
20766316 AGGGTATTTCGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTTACAAA-TAG
*
20766344 -GGGTACTTCGGTAAT
1 AGGGTATTTCGGTAAT
20766359 GTCTCTTTAT
Statistics
Matches: 235, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
25 1 0.00
26 21 0.09
27 208 0.89
28 5 0.02
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATAG
Found at i:20766710 original size:28 final size:28
Alignment explanation
Indices: 20766678--20766741 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
20766668 TGGCCCCTTT
* *
20766678 AGGCCCAATCTCGTTCACATGACCCATC
1 AGGCCCAATCACATTCACATGACCCATC
* * *
20766706 AGGCCTAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGACCCATC
20766734 AGGCCCAA
1 AGGCCCAA
20766742 CTACTTCCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.36, G:0.16, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGACCCATC
Found at i:20769335 original size:40 final size:40
Alignment explanation
Indices: 20769280--20769503 Score: 335
Period size: 40 Copynumber: 5.6 Consensus size: 40
20769270 TATTCGAATG
* * *
20769280 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
20769320 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
20769360 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
20769400 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
20769440 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
20769480 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
20769504 CTTGAGTTTG
Statistics
Matches: 170, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 16 0.09
40 152 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:20774782 original size:27 final size:27
Alignment explanation
Indices: 20774742--20774832 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
20774732 GGCAAAATAG
* *
20774742 TCATTTTACCCTACAGGGGTA-TGTCGA
1 TCATTTTACACTACAAGGGTAGT-TCGA
*
20774769 TCATTTTACACTACAAGGGTAGTTCGG
1 TCATTTTACACTACAAGGGTAGTTCGA
* ** * *
20774796 TAATTTTACACTGTAAGGGTATTTTGA
1 TCATTTTACACTACAAGGGTAGTTCGA
*
20774823 TAATTTTACA
1 TCATTTTACA
20774833 AATTGGGGGT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTAGTTCGA
Found at i:20774842 original size:27 final size:27
Alignment explanation
Indices: 20774811--20775132 Score: 260
Period size: 27 Copynumber: 12.0 Consensus size: 27
20774801 TTACACTGTA
* *
20774811 AGGGTATTTTGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * * *
20774838 GGGGTGTTT-TAGTAATTTTAAAAAGCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
20774865 AGGCTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
20774892 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
20774919 AAGGTGTTTCGATAAGTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
20774946 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
20774973 AGGGTGTTTC-AGTAATTTCACAAATCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
20775000 ATGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * *
20775027 ACGGTATTTCAATAAATTAAC-AATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
20775053 AGGGTATTTTGGTAATTTTACAAATCC
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
20775080 AAGGCATTTC-AGTAATTTTGCAAA-CTG
1 AGGGTATTTCGA-TAATTTTACAAATC-G
20775107 AGGGTATTTC-AGTAATTTTACAAATC
1 AGGGTATTTCGA-TAATTTTACAAATC
20775133 ATGGGTACTT
Statistics
Matches: 232, Mismatches: 55, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
26 21 0.09
27 210 0.91
28 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:20775130 original size:54 final size:53
Alignment explanation
Indices: 20774784--20775132 Score: 287
Period size: 54 Copynumber: 6.5 Consensus size: 53
20774774 TTACACTACA
* * *
20774784 AGGGTAGTTCGGTAATTTTAC-ACT-GTAAGGGTATTT-TGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG-AA-GGTATTTCAG-TAATTTTACAAA-TG
* * ** * * *
20774838 GGGGTGTTTTAGTAATTTTAAAAAGC-AAGGCTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAAGG-TATTTCAGTAATTTTACAAAT-G
* * *
20774892 AGGGTATTTCGATAATTTTACAAATCGAAGGTGTTTC-GATAAGTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAAGGTATTTCAG-TAATTTTACAAA-TG
* * * * * *
20774946 AGGGTGTTTCGGTAATTTTACAAATTGAGGGTGTTTCAGTAATTTCACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAAAT-G
* * * * * *
20775000 ATGGTATTTCGGTAATTTTACAAATCGACGGTATTTCAATAAATTAAC-AATCA
1 AGGGTATTTCGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAAAT-G
* * * *
20775053 AGGGTATTTTGGTAATTTTACAAATCCAAGGCATTTCAGTAATTTTGCAAACTG
1 AGGGTATTTCGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAAA-TG
*
20775107 AGGGTATTTCAGTAATTTTACAAATC
1 AGGGTATTTCGGTAATTTTACAAATC
20775133 ATGGGTACTT
Statistics
Matches: 238, Mismatches: 45, Indels: 24
0.78 0.15 0.08
Matches are distributed among these distances:
53 49 0.21
54 180 0.76
55 9 0.04
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAAATG
Found at i:20775148 original size:27 final size:26
Alignment explanation
Indices: 20774784--20775151 Score: 254
Period size: 27 Copynumber: 13.7 Consensus size: 26
20774774 TTACACTACA
* ** *
20774784 AGGGTAGTTCGGTAATTTTACACTGTA
1 AGGGTATTTCGGTAATTTTACA-AATC
* * *
20774811 AGGGTATTTTGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAA-TC
* * ** * *
20774838 GGGGTGTTTTAGTAATTTTAAAAAGC
1 AGGGTATTTCGGTAATTTTACAAATC
*
20774864 AAGGCTATTTCGGTAATTTTACAAATC
1 -AGGGTATTTCGGTAATTTTACAAATC
*
20774891 GAGGGTATTTCGATAATTTTACAAATC
1 -AGGGTATTTCGGTAATTTTACAAATC
* * * * *
20774918 GAAGGTGTTTCGATAAGTTTACAAATTG
1 -AGGGTATTTCGGTAATTTTACAAA-TC
* *
20774946 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAA-TC
* * *
20774973 AGGGTGTTTCAGTAATTTCACAAATC
1 AGGGTATTTCGGTAATTTTACAAATC
*
20774999 AATGGTATTTCGGTAATTTTACAAATC
1 -AGGGTATTTCGGTAATTTTACAAATC
* ** * *
20775026 GACGGTATTTCAATAAATTAAC-AATC
1 -AGGGTATTTCGGTAATTTTACAAATC
*
20775052 AAGGGTATTTTGGTAATTTTACAAATCC
1 -AGGGTATTTCGGTAATTTTACAAAT-C
* * * * *
20775080 AAGGCATTTCAGTAATTTTGCAAACTG
1 AGGGTATTTCGGTAATTTTACAAA-TC
*
20775107 AGGGTATTTCAGTAATTTTACAAATC
1 AGGGTATTTCGGTAATTTTACAAATC
20775133 ATGGGTACTTT-GGTAATTT
1 A-GGGTA-TTTCGGTAATTT
20775152 CTCTTTATTA
Statistics
Matches: 271, Mismatches: 61, Indels: 18
0.77 0.17 0.05
Matches are distributed among these distances:
26 22 0.08
27 243 0.90
28 6 0.02
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTTTACAAATC
Found at i:20775510 original size:28 final size:28
Alignment explanation
Indices: 20775468--20775559 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
20775458 TGGCCCCTTT
*
20775468 AGGCCCAAT-ATCATTCACATGGCCCATC
1 AGGCCCAATCA-CATTCATATGGCCCATC
*
20775496 AGGCCTAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
20775524 AAGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
20775552 AGGCCCAA
1 AGGCCCAA
20775560 CTGCTTCCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 57 0.98
29 1 0.02
ACGTcount: A:0.30, C:0.35, G:0.14, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:20780219 original size:30 final size:30
Alignment explanation
Indices: 20780183--20780251 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
20780173 CCATGTGCCA
20780183 GCCCGTGTGCCTCAAAAGGCCAATAGACAC
1 GCCCGTGTGCCTCAAAAGGCCAATAGACAC
* * * * *
20780213 GCCCGTGTGCCTTACACGGCTAGTAGACAC
1 GCCCGTGTGCCTCAAAAGGCCAATAGACAC
20780243 GCCCGTGTG
1 GCCCGTGTG
20780252 TCTAGGCCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (30 bp):
GCCCGTGTGCCTCAAAAGGCCAATAGACAC
Found at i:20781443 original size:43 final size:42
Alignment explanation
Indices: 20781396--20781574 Score: 153
Period size: 43 Copynumber: 4.2 Consensus size: 42
20781386 CCAGATAAGT
* * *
20781396 TCTTAGACGAAATCGATTAACGATGCCATTGTCTCAGACATGG
1 TCTTACACGAAATC-ATTAACGATGCCAATGTCCCAGACATGG
* ** * * * * **
20781439 TCTTACACGTAATCACAATACAATACCAATGCCCCAAACAAAG
1 TCTTACACGAAATCATTA-ACGATGCCAATGTCCCAGACATGG
*
20781482 TCTTACATGAAATCAATTAACGATGCCAATGTCCCAGACATGG
1 TCTTACACGAAATC-ATTAACGATGCCAATGTCCCAGACATGG
* ** *
20781525 TCTTACACGTAATCACAATACAATGCCAATG-CCCTAGACATGG
1 TCTTACACGAAATCATTA-ACGATGCCAATGTCCC-AGACATGG
20781568 TCTTACA
1 TCTTACA
20781575 TGTAATCACA
Statistics
Matches: 105, Mismatches: 27, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 7 0.07
43 96 0.91
44 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.25
Consensus pattern (42 bp):
TCTTACACGAAATCATTAACGATGCCAATGTCCCAGACATGG
Found at i:20781571 original size:86 final size:86
Alignment explanation
Indices: 20781334--20781582 Score: 297
Period size: 86 Copynumber: 2.9 Consensus size: 86
20781324 AGCTTGCACA
* * * * * * * *
20781334 ATGCC-ATATCCCAGATATGGTC-TACATGTTATCTC-ATATCAATGCCACTGCCCCAGATAAGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATA-CAATGCCAATGCCCCAGACAAGG
* * *
20781396 TCTTAGACGAAATCGATTAACG
65 TCTTACATGAAATCAATTAACG
* * * * *
20781418 ATGCCATTGTCTCAGACATGGTCTTACACGTAATCACAATACAATACCAATGCCCCAAACAAAGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCCCCAGACAAGGT
20781483 CTTACATGAAATCAATTAACG
66 CTTACATGAAATCAATTAACG
* *
20781504 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCCCTAGACATGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCCCCAGACAAGGT
*
20781569 CTTACATGTAATCA
66 CTTACATGAAATCA
20781583 CATCTCGGTA
Statistics
Matches: 138, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
84 5 0.04
85 13 0.09
86 117 0.85
87 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (86 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCCCCAGACAAGGT
CTTACATGAAATCAATTAACG
Found at i:20781580 original size:43 final size:42
Alignment explanation
Indices: 20781430--20781584 Score: 186
Period size: 43 Copynumber: 3.6 Consensus size: 42
20781420 GCCATTGTCT
*
20781430 CAGACATGGTCTTACACGTAATCACAATACAATACCAATGCCC
1 CAGACATGGTCTTACACGTAATCACAATACAATGCCAATG-CC
* ** * * * *
20781473 CAAACAAAGTCTTACATGAAATCA-ATTAACGATGCCAATGTCC
1 CAGACATGGTCTTACACGTAATCACAAT-ACAATGCCAATG-CC
20781516 CAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCC
1 CAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCC
*
20781558 CTAGACATGGTCTTACATGTAATCACA
1 C-AGACATGGTCTTACACGTAATCACA
20781585 TCTCGGTAAC
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 5 0.05
43 85 0.92
44 2 0.02
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.23
Consensus pattern (42 bp):
CAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCC
Found at i:20782710 original size:27 final size:27
Alignment explanation
Indices: 20782680--20782735 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
20782670 GTACCCGTGA
* *
20782680 CAGAGTCACCAG-ATACAGATATTGTGG
1 CAGAGCCACCAGAAT-CAGATAATGTGG
20782707 CAGAGCCACCAGAATCAGATAATGTGG
1 CAGAGCCACCAGAATCAGATAATGTGG
20782734 CA
1 CA
20782736 AACCCCCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGAGCCACCAGAATCAGATAATGTGG
Found at i:20782933 original size:22 final size:22
Alignment explanation
Indices: 20782901--20782958 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
20782891 TAAATACGTT
*
20782901 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * * *
20782923 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
20782945 TGGCACAAAGCCAT
1 TGGCACAAAGCCAT
20782959 TAATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:20783125 original size:27 final size:26
Alignment explanation
Indices: 20783046--20783128 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
20783036 TCGATCGGTC
* * * *
20783046 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAAAGCCACCAG
20783072 ATACAGATATTGTGGCAAAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
20783099 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
20783126 AAC
1 AAC
20783129 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:20783357 original size:27 final size:27
Alignment explanation
Indices: 20783327--20783488 Score: 207
Period size: 27 Copynumber: 6.0 Consensus size: 27
20783317 GGGGCAAAAT
* * *
20783327 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20783354 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20783381 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20783408 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20783435 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20783462 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
20783489 NNNNNNNNNN
Statistics
Matches: 117, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:20787231 original size:272 final size:272
Alignment explanation
Indices: 20786745--20787288 Score: 1088
Period size: 272 Copynumber: 2.0 Consensus size: 272
20786735 TTATGATAGG
20786745 AATGTTATATGAAAATTTCGATAATAAAATTTTACTGATTATGTGTTTAATTATGGAAATGACCA
1 AATGTTATATGAAAATTTCGATAATAAAATTTTACTGATTATGTGTTTAATTATGGAAATGACCA
20786810 AATTGCATAAAATGCAAAAGTTGAATTCTAGTAGCTAGAAGGATCAAATGGCAATTGAATTCAAA
66 AATTGCATAAAATGCAAAAGTTGAATTCTAGTAGCTAGAAGGATCAAATGGCAATTGAATTCAAA
20786875 ATAAGAGGTCCTTATATGGTAATTAGACCATTAAAGAAAAGTTAGTAGATATTTTTGATGAATTA
131 ATAAGAGGTCCTTATATGGTAATTAGACCATTAAAGAAAAGTTAGTAGATATTTTTGATGAATTA
20786940 TCCATGGAAAAATTAGAAAAGGACAAGGACTAAATTGGAAATTGAAACAAATAAAATATGATGTA
196 TCCATGGAAAAATTAGAAAAGGACAAGGACTAAATTGGAAATTGAAACAAATAAAATATGATGTA
20787005 ACACCCCGTACT
261 ACACCCCGTACT
20787017 AATGTTATATGAAAATTTCGATAATAAAATTTTACTGATTATGTGTTTAATTATGGAAATGACCA
1 AATGTTATATGAAAATTTCGATAATAAAATTTTACTGATTATGTGTTTAATTATGGAAATGACCA
20787082 AATTGCATAAAATGCAAAAGTTGAATTCTAGTAGCTAGAAGGATCAAATGGCAATTGAATTCAAA
66 AATTGCATAAAATGCAAAAGTTGAATTCTAGTAGCTAGAAGGATCAAATGGCAATTGAATTCAAA
20787147 ATAAGAGGTCCTTATATGGTAATTAGACCATTAAAGAAAAGTTAGTAGATATTTTTGATGAATTA
131 ATAAGAGGTCCTTATATGGTAATTAGACCATTAAAGAAAAGTTAGTAGATATTTTTGATGAATTA
20787212 TCCATGGAAAAATTAGAAAAGGACAAGGACTAAATTGGAAATTGAAACAAATAAAATATGATGTA
196 TCCATGGAAAAATTAGAAAAGGACAAGGACTAAATTGGAAATTGAAACAAATAAAATATGATGTA
20787277 ACACCCCGTACT
261 ACACCCCGTACT
20787289 CGAGACCATT
Statistics
Matches: 272, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
272 272 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (272 bp):
AATGTTATATGAAAATTTCGATAATAAAATTTTACTGATTATGTGTTTAATTATGGAAATGACCA
AATTGCATAAAATGCAAAAGTTGAATTCTAGTAGCTAGAAGGATCAAATGGCAATTGAATTCAAA
ATAAGAGGTCCTTATATGGTAATTAGACCATTAAAGAAAAGTTAGTAGATATTTTTGATGAATTA
TCCATGGAAAAATTAGAAAAGGACAAGGACTAAATTGGAAATTGAAACAAATAAAATATGATGTA
ACACCCCGTACT
Found at i:20788720 original size:40 final size:40
Alignment explanation
Indices: 20788675--20788866 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
20788665 ATAACCACAA
* * *
20788675 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
20788715 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
20788755 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
20788795 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
20788835 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
20788867 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:20788759 original size:80 final size:80
Alignment explanation
Indices: 20788646--20788865 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
20788636 ACCCAAGTTT
* * * * * * * * *
20788646 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
20788709 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
20788725 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
20788789 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
20788805 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
20788866 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:20791581 original size:24 final size:24
Alignment explanation
Indices: 20791540--20791596 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
20791530 TCAAATAAGT
*
20791540 ATCCTATTAAAAGACTTCTCAAGC
1 ATCCTGTTAAAAGACTTCTCAAGC
* * *
20791564 ATCTTGTTAAAAGCCTTCTCGAGC
1 ATCCTGTTAAAAGACTTCTCAAGC
20791588 ATCCTGTTA
1 ATCCTGTTA
20791597 TATAGTTCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (24 bp):
ATCCTGTTAAAAGACTTCTCAAGC
Found at i:20791845 original size:24 final size:24
Alignment explanation
Indices: 20791813--20791887 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
20791803 TCTGGTGCTC
20791813 CCTGATAATAACTCTTATGAGTTT
1 CCTGATAATAACTCTTATGAGTTT
* * *
20791837 CCTGATAATAACTC-AATGAGCTC
1 CCTGATAATAACTCTTATGAGTTT
* *
20791860 CCCGATTAA-AACTCTTATGAGTAT
1 CCTGA-TAATAACTCTTATGAGTTT
20791884 CCTG
1 CCTG
20791888 TTTAGTCCGG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 15 0.38
24 25 0.62
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (24 bp):
CCTGATAATAACTCTTATGAGTTT
Found at i:20795832 original size:28 final size:27
Alignment explanation
Indices: 20795775--20795926 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
20795765 TAAATTGTGC
*
20795775 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
20795802 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
20795830 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
20795857 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
20795885 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
20795912 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20795927 GACTTAATAT
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:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:20795840 original size:55 final size:55
Alignment explanation
Indices: 20795775--20795926 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
20795765 TAAATTGTGC
*
20795775 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
20795830 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
20795885 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
20795927 GACTTAATAT
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:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:20797554 original size:49 final size:48
Alignment explanation
Indices: 20797482--20797658 Score: 189
Period size: 49 Copynumber: 3.6 Consensus size: 48
20797472 TGACATGTGT
* *
20797482 CAGTGTAAGACCTTTCTGGGACATGGCATCGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CAGATAGATGAGAGC
* * * * *
20797531 CAGTGTAAGACCTGTCTGGGACATGGAATCGGCCTTA-ATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACC--AGATAGATGAGAGC
* *
20797580 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGAT-G-TGTGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CAGATAGATGAGAGC
* *
20797627 CAGTGTAAGACCATGTTTGGAACATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCG
20797659 GCATTGTACC
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
47 16 0.15
48 19 0.18
49 72 0.67
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCAGATAGATGAGAGC
Found at i:20810143 original size:33 final size:33
Alignment explanation
Indices: 20810087--20810150 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
20810077 GGTACATGCA
* *
20810087 GAATAGTCTAGGCCGTAGGCCTATTTAGTAACT
1 GAATAGTCTAGGCCGTAGCCCTATATAGTAACT
* **
20810120 GAATAGTCTGGGCTTTAGCCCTATATAGTAA
1 GAATAGTCTAGGCCGTAGCCCTATATAGTAA
20810151 TGGTGTGGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (33 bp):
GAATAGTCTAGGCCGTAGCCCTATATAGTAACT
Found at i:20812443 original size:33 final size:34
Alignment explanation
Indices: 20812402--20812472 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
20812392 ATTTCAGTAG
* *
20812402 CAGT-TCAGTCTCAG-CTAGGCCTTAGTCCATTA
1 CAGTATCAGTATCAGTCTAGGCCTTAGCCCATTA
* * *
20812434 CAGTATCAGTATCAGTGTGGGCCTTAGCCCATTT
1 CAGTATCAGTATCAGTCTAGGCCTTAGCCCATTA
20812468 CAGTA
1 CAGTA
20812473 ACAATAACAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 4 0.12
33 9 0.28
34 19 0.59
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (34 bp):
CAGTATCAGTATCAGTCTAGGCCTTAGCCCATTA
Found at i:20816655 original size:46 final size:45
Alignment explanation
Indices: 20816501--20816668 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 45
20816491 ATTGTAGGCT
* * * **
20816501 AGTGTAAGACATGTCTGGGACATGTATCGGACAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAACAT-A-AGCC
* * * * *
20816547 AGTATAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGT--GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-AC-A-TAAGCC
20816595 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGAACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-GAACATAAGCC
*
20816641 AGTGTAAGACATGTCTAGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
20816669 AGCTACAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 47 0.48
47 30 0.31
48 15 0.15
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAACATAAGCC
Found at i:20827110 original size:30 final size:30
Alignment explanation
Indices: 20827076--20827136 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
20827066 TCCTTAACTC
20827076 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
20827106 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
20827136 A
1 A
20827137 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:20829711 original size:16 final size:16
Alignment explanation
Indices: 20829690--20829730 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
20829680 ATCACACCAA
20829690 ATACACATACACTTAT
1 ATACACATACACTTAT
20829706 ATACACATACACTTAT
1 ATACACATACACTTAT
*
20829722 ATATACATA
1 ATACACATA
20829731 AATTCATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (16 bp):
ATACACATACACTTAT
Found at i:20830357 original size:43 final size:43
Alignment explanation
Indices: 20830276--20830361 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
20830266 AAATTGTACA
* **
20830276 ATGCCAATGTCCCAGACGTGGTCTTACATGTAGTCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAACACATATCG
* *
20830319 ATGCCACTGTCCCAGGCATGGTCTTAC-TCGTAAACACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAT-GTAAACACATATCG
20830362 GAAGCACAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAAACACATATCG
Found at i:20836620 original size:171 final size:171
Alignment explanation
Indices: 20836335--20836677 Score: 686
Period size: 171 Copynumber: 2.0 Consensus size: 171
20836325 GCTACAGCTA
20836335 AATAACAAAAATCCTAGCTCAAATAAGTTCATTAAATGTTTTCATTTAGTTTGAGCTAACTGAAT
1 AATAACAAAAATCCTAGCTCAAATAAGTTCATTAAATGTTTTCATTTAGTTTGAGCTAACTGAAT
20836400 TAATAAGCTAGTTAATTTTAATTTAATTTGTCCTAATTAGTTAAGTTGTTATTTAAGTTGTTAGT
66 TAATAAGCTAGTTAATTTTAATTTAATTTGTCCTAATTAGTTAAGTTGTTATTTAAGTTGTTAGT
20836465 TGCTATTTAATTATGATCAAATGATATAATTAAATGTGTTT
131 TGCTATTTAATTATGATCAAATGATATAATTAAATGTGTTT
20836506 AATAACAAAAATCCTAGCTCAAATAAGTTCATTAAATGTTTTCATTTAGTTTGAGCTAACTGAAT
1 AATAACAAAAATCCTAGCTCAAATAAGTTCATTAAATGTTTTCATTTAGTTTGAGCTAACTGAAT
20836571 TAATAAGCTAGTTAATTTTAATTTAATTTGTCCTAATTAGTTAAGTTGTTATTTAAGTTGTTAGT
66 TAATAAGCTAGTTAATTTTAATTTAATTTGTCCTAATTAGTTAAGTTGTTATTTAAGTTGTTAGT
20836636 TGCTATTTAATTATGATCAAATGATATAATTAAATGTGTTT
131 TGCTATTTAATTATGATCAAATGATATAATTAAATGTGTTT
20836677 A
1 A
20836678 TGTCTTTGTA
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 172 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (171 bp):
AATAACAAAAATCCTAGCTCAAATAAGTTCATTAAATGTTTTCATTTAGTTTGAGCTAACTGAAT
TAATAAGCTAGTTAATTTTAATTTAATTTGTCCTAATTAGTTAAGTTGTTATTTAAGTTGTTAGT
TGCTATTTAATTATGATCAAATGATATAATTAAATGTGTTT
Found at i:20837634 original size:24 final size:25
Alignment explanation
Indices: 20837607--20837659 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 25
20837597 CGTGGTGTTC
20837607 ACCTATCCATCTATTCATCC-TTTT
1 ACCTATCCATCTATTCATCCTTTTT
20837631 ACCTATCCATCTATTCATCCTTTTT
1 ACCTATCCATCTATTCATCCTTTTT
20837656 ACCT
1 ACCT
20837660 TAACAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (25 bp):
ACCTATCCATCTATTCATCCTTTTT
Found at i:20844660 original size:41 final size:43
Alignment explanation
Indices: 20844571--20844695 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 43
20844561 GTTCTAGACG
* * *
20844571 TGGTCTTACATGTAATCACATATCCATGCCACTGTCCTAGACA
1 TGGTCTTACATGTAATCAAATATCCATGCCACTGTCCCAGAAA
* * *
20844614 GGGTCTTACATG-AATCAAATA-CGATGTCGA-TGTCCCAGAAA
1 TGGTCTTACATGTAATCAAATATCCATG-CCACTGTCCCAGAAA
* * *
20844655 TGGTCTTACACGTAATCACATATATCGATGCCAATGTCCCA
1 TGGTCTTACATGTAATCA-A-ATATCCATGCCACTGTCCCA
20844696 AACGTGCCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
41 23 0.34
42 15 0.22
43 12 0.18
44 5 0.07
45 12 0.18
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TGGTCTTACATGTAATCAAATATCCATGCCACTGTCCCAGAAA
Found at i:20846210 original size:18 final size:20
Alignment explanation
Indices: 20846183--20846223 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
20846173 AATCTCAATC
20846183 TCTGACGGATTA-ATC-ATA
1 TCTGACGGATTAGATCGATA
*
20846201 TCTGAGGGATTAGATCGATA
1 TCTGACGGATTAGATCGATA
20846221 TCT
1 TCT
20846224 ACAAAGCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 3 0.15
20 6 0.30
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (20 bp):
TCTGACGGATTAGATCGATA
Found at i:20847067 original size:5 final size:5
Alignment explanation
Indices: 20847057--20847082 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20847047 TTAGCCATAC
20847057 CTCTT CTCTT CTCTT CTCTT CTCTT C
1 CTCTT CTCTT CTCTT CTCTT CTCTT C
20847083 CCCTCCTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (5 bp):
CTCTT
Found at i:20850022 original size:47 final size:47
Alignment explanation
Indices: 20849969--20850221 Score: 362
Period size: 47 Copynumber: 5.4 Consensus size: 47
20849959 GTGTATATAT
* *
20849969 GTGTATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
20850016 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
** *
20850063 GTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
** *
20850110 GTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * * * * *
20850157 GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
20850204 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
20850222 TCCCGAAGGG
Statistics
Matches: 188, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 188 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
Found at i:20850409 original size:37 final size:37
Alignment explanation
Indices: 20850340--20850419 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
20850330 CCGGGCTCTA
* * * *
20850340 AAGACCCGATGACTGCGTGTGGGAATTTTGTCCAGGT
1 AAGACTCGATAACTACGTGTGGGAATTATGTCCAGGT
*
20850377 AAGACTCGATAACTACGTGT-GGAGATTATGTCCGGGT
1 AAGACTCGATAACTACGTGTGGGA-ATTATGTCCAGGT
*
20850414 GAGACT
1 AAGACT
20850420 TCGTAATAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
36 3 0.08
37 33 0.92
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGGAATTATGTCCAGGT
Found at i:20852772 original size:19 final size:19
Alignment explanation
Indices: 20852731--20852772 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
20852721 CAGCTCTACT
* *
20852731 GCAAATACTATTTAGTGCT
1 GCAAATACTATTTAGCGCC
20852750 GCAAATACTATTTAGCGCC
1 GCAAATACTATTTAGCGCC
20852769 GCAA
1 GCAA
20852773 CCAGTGCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (19 bp):
GCAAATACTATTTAGCGCC
Found at i:20852956 original size:34 final size:33
Alignment explanation
Indices: 20852904--20852975 Score: 81
Period size: 34 Copynumber: 2.2 Consensus size: 33
20852894 TGCTACTGTC
* * * *
20852904 ACTGAAATGGGCTCAGGCCCGCACTGATATTGG
1 ACTGTAATGGGCTAAGGCCCGAACTGAAATTGG
* *
20852937 TACTGTAATGGGTTAAGGCCCTAACTGAAATTGG
1 -ACTGTAATGGGCTAAGGCCCGAACTGAAATTGG
20852971 ACTGT
1 ACTGT
20852976 TACTGATTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 5 0.16
34 27 0.84
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (33 bp):
ACTGTAATGGGCTAAGGCCCGAACTGAAATTGG
Found at i:20869063 original size:86 final size:86
Alignment explanation
Indices: 20868857--20869122 Score: 507
Period size: 86 Copynumber: 3.1 Consensus size: 86
20868847 TATTTTATTG
20868857 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATG-TTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
20868921 TTAGCCATAACATCTTGTCCA
66 TTAGCCATAACATCTTGTCCA
*
20868942 CCCATGGTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
20869007 TTAGCCATAACATCTTGTCCA
66 TTAGCCATAACATCTTGTCCA
*
20869028 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
20869093 TTAGCCATAACATCTTGTCCA
66 TTAGCCATAACATCTTGTCCA
20869114 CCCATGCTC
1 CCCATGCTC
20869123 ATGGCCGGCC
Statistics
Matches: 177, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
85 60 0.34
86 117 0.66
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.39
Consensus pattern (86 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TTAGCCATAACATCTTGTCCA
Found at i:20872566 original size:40 final size:43
Alignment explanation
Indices: 20872460--20872613 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 43
20872450 ATATCAAACA
* * * * *
20872460 ATGCCAACGTCCCAGACAAGATCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATAG
* *
20872503 ATGCCATTGTCCCAGACAGGGTCTTACACG-AATCA-A-ATAG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATAG
* *
20872543 ATGTCAATGTCCCAGACATGGTCTTACAGGTAATCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATA--G
**
20872588 ATGCCAACATCCCAGACATGGTCTTA
1 ATGCCAATGTCCCAGACATGGTCTTA
20872614 TGCGAGAACA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
40 29 0.31
41 6 0.06
42 6 0.06
43 28 0.30
45 24 0.26
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATAG
Found at i:20874631 original size:20 final size:18
Alignment explanation
Indices: 20874604--20874653 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
20874594 CAAAGACGCA
20874604 TAATAGAGGCACAGAGGTG
1 TAATAGAGGCACA-AGGTG
* *
20874623 TAGATAGAGACACAATGTG
1 TA-ATAGAGGCACAAGGTG
20874642 TAATCAGAGGCA
1 TAAT-AGAGGCA
20874654 TCGAAGTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 14 0.54
20 10 0.38
ACGTcount: A:0.40, C:0.12, G:0.30, T:0.18
Consensus pattern (18 bp):
TAATAGAGGCACAAGGTG
Found at i:20886787 original size:16 final size:16
Alignment explanation
Indices: 20886766--20886797 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
20886756 GGAAGAATGG
20886766 AAATAAGTAATAGTGA
1 AAATAAGTAATAGTGA
20886782 AAATAAGTAATAGTGA
1 AAATAAGTAATAGTGA
20886798 GAGAAATCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (16 bp):
AAATAAGTAATAGTGA
Found at i:20896548 original size:25 final size:25
Alignment explanation
Indices: 20896520--20896573 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
20896510 TTGTACATGT
*
20896520 ATGCTCACATGACCTGTAAATCGGC
1 ATGCTCACACGACCTGTAAATCGGC
* * *
20896545 ATGCTCCCACGAGCTGTAAATCGGT
1 ATGCTCACACGACCTGTAAATCGGC
20896570 ATGC
1 ATGC
20896574 ACTAACGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (25 bp):
ATGCTCACACGACCTGTAAATCGGC
Found at i:20896581 original size:25 final size:25
Alignment explanation
Indices: 20896533--20896587 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
20896523 CTCACATGAC
* *
20896533 CTGTAAATCGGCATGCTCCCACGAG
1 CTGTAAATCGGCATGCACCAACGAG
* *
20896558 CTGTAAATCGGTATGCACTAACGAG
1 CTGTAAATCGGCATGCACCAACGAG
*
20896583 TTGTA
1 CTGTA
20896588 GGTCGGAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (25 bp):
CTGTAAATCGGCATGCACCAACGAG
Found at i:20906425 original size:11 final size:11
Alignment explanation
Indices: 20906409--20906434 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20906399 ACCATGATAA
20906409 ATATCATTGGC
1 ATATCATTGGC
20906420 ATATCATTGGC
1 ATATCATTGGC
20906431 ATAT
1 ATAT
20906435 ATATATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (11 bp):
ATATCATTGGC
Found at i:20906862 original size:24 final size:24
Alignment explanation
Indices: 20906779--20906862 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
20906769 TCTTACTCAT
* *
20906779 TCGCACACATAGTGCCGCATTTCC
1 TCGCACACATAGTGCCACATATCC
* ** **
20906803 TCCCACACATAGTGCCATGTAGTTT
1 TCGCACACATAGTGCCACATA-TCC
* *
20906828 TTGCACACATAGTGCCACATAACC
1 TCGCACACATAGTGCCACATATCC
20906852 TCGCACACATA
1 TCGCACACATA
20906863 ATGCTGAAAT
Statistics
Matches: 44, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
24 26 0.59
25 18 0.41
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.25
Consensus pattern (24 bp):
TCGCACACATAGTGCCACATATCC
Found at i:20911008 original size:183 final size:183
Alignment explanation
Indices: 20910700--20911065 Score: 732
Period size: 183 Copynumber: 2.0 Consensus size: 183
20910690 CCTCCAATCT
20910700 GAGTTTTGCTTACGTCTCGAATGAATTCAAGAACATATTCGAAGAAATTTTGACCAGCGGTTGGA
1 GAGTTTTGCTTACGTCTCGAATGAATTCAAGAACATATTCGAAGAAATTTTGACCAGCGGTTGGA
20910765 ATGGTTTGTGGATTCCGATAAAAAGTGGAATTTGCGCTTGTGGAAATTATCGAGTAATTGGAAAT
66 ATGGTTTGTGGATTCCGATAAAAAGTGGAATTTGCGCTTGTGGAAATTATCGAGTAATTGGAAAT
20910830 CAAAAGGAGGGCCCTAAATTTTGTGAACAAAGCGGAGTTGAATTTGTTGATTC
131 CAAAAGGAGGGCCCTAAATTTTGTGAACAAAGCGGAGTTGAATTTGTTGATTC
20910883 GAGTTTTGCTTACGTCTCGAATGAATTCAAGAACATATTCGAAGAAATTTTGACCAGCGGTTGGA
1 GAGTTTTGCTTACGTCTCGAATGAATTCAAGAACATATTCGAAGAAATTTTGACCAGCGGTTGGA
20910948 ATGGTTTGTGGATTCCGATAAAAAGTGGAATTTGCGCTTGTGGAAATTATCGAGTAATTGGAAAT
66 ATGGTTTGTGGATTCCGATAAAAAGTGGAATTTGCGCTTGTGGAAATTATCGAGTAATTGGAAAT
20911013 CAAAAGGAGGGCCCTAAATTTTGTGAACAAAGCGGAGTTGAATTTGTTGATTC
131 CAAAAGGAGGGCCCTAAATTTTGTGAACAAAGCGGAGTTGAATTTGTTGATTC
20911066 TGAATCGATA
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (183 bp):
GAGTTTTGCTTACGTCTCGAATGAATTCAAGAACATATTCGAAGAAATTTTGACCAGCGGTTGGA
ATGGTTTGTGGATTCCGATAAAAAGTGGAATTTGCGCTTGTGGAAATTATCGAGTAATTGGAAAT
CAAAAGGAGGGCCCTAAATTTTGTGAACAAAGCGGAGTTGAATTTGTTGATTC
Found at i:20912642 original size:24 final size:24
Alignment explanation
Indices: 20912589--20912671 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
20912579 CAATAGTTCG
* *
20912589 TATGAGCTTACCGATATATCAGC-CC
1 TATGAGCTTACTG-T-TCTCAGCTCC
*
20912614 GTATGAGCTTACTGTTCTCAGGTCC
1 -TATGAGCTTACTGTTCTCAGCTCC
20912639 TATGAGCTTACTGTTCTCAGCTCC
1 TATGAGCTTACTGTTCTCAGCTCC
20912663 TATGAGCTT
1 TATGAGCTT
20912672 TCAAAATTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
24 37 0.71
25 3 0.06
26 12 0.23
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
TATGAGCTTACTGTTCTCAGCTCC
Found at i:20913201 original size:120 final size:121
Alignment explanation
Indices: 20912983--20913224 Score: 423
Period size: 120 Copynumber: 2.0 Consensus size: 121
20912973 GGATTAACCA
** ** *
20912983 AGGGTGGAGGTTGTTGTACAGCTGGATTGGTTCTAATATATTGGGTGAACAAATCATTCATCATC
1 AGGGTGGAGGTTGTTGTACAGCAAGATTGGTTCTAATATATACGGCGAACAAATCATTCATCATC
*
20913048 TGATAGAAGGCTTGCTTAGCCTCGCTATCACGGCTACTCATAGCCGGTCGTGAATC
66 TGATAGAAGGCTTGCTTAGCCTCGCTATCACGGCTACTCATAGCCGGTCGAGAATC
20913104 AGGG-GGAGGTTGTTGTACAGCAAGATTGGTTCTAATATATACGGCGAACAAATCATTCATCATC
1 AGGGTGGAGGTTGTTGTACAGCAAGATTGGTTCTAATATATACGGCGAACAAATCATTCATCATC
20913168 TGATAGAAGGCTTGCTTAGCCTCGCTATCACGGCTACTCATAGCCGGTCGAGAATC
66 TGATAGAAGGCTTGCTTAGCCTCGCTATCACGGCTACTCATAGCCGGTCGAGAATC
20913224 A
1 A
20913225 TCTTGCACCA
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 111 0.97
121 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (121 bp):
AGGGTGGAGGTTGTTGTACAGCAAGATTGGTTCTAATATATACGGCGAACAAATCATTCATCATC
TGATAGAAGGCTTGCTTAGCCTCGCTATCACGGCTACTCATAGCCGGTCGAGAATC
Found at i:20914484 original size:24 final size:24
Alignment explanation
Indices: 20914452--20914500 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
20914442 TCACACAGAG
20914452 TAAGCTTTCAAAAGCTTAGTAAGC
1 TAAGCTTTCAAAAGCTTAGTAAGC
20914476 TAAGCTTTCAAAAGCTTAGTAAGC
1 TAAGCTTTCAAAAGCTTAGTAAGC
20914500 T
1 T
20914501 CGTACTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (24 bp):
TAAGCTTTCAAAAGCTTAGTAAGC
Found at i:20914889 original size:30 final size:28
Alignment explanation
Indices: 20914841--20914897 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
20914831 GTAGCCGAAG
*
20914841 CTAGTTAAATCTACACTTAGTGCCAAAA
1 CTAGTTAAATCCACACTTAGTGCCAAAA
20914869 CTAGTTTAAATCGCACACTTAGTGCCAAA
1 CTAG-TTAAATC-CACACTTAGTGCCAAA
20914898 GCTTCCGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 4 0.15
29 7 0.27
30 15 0.58
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (28 bp):
CTAGTTAAATCCACACTTAGTGCCAAAA
Found at i:20919604 original size:98 final size:98
Alignment explanation
Indices: 20919477--20920346 Score: 1674
Period size: 98 Copynumber: 8.9 Consensus size: 98
20919467 GCACATCGCC
*
20919477 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
20919542 GACCATTCTGCTTTAACACATATGCATATCTCA
66 GACCATTCTGCTTTAACACATATGCATATCTCA
20919575 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
20919640 GACCATTCTGCTTTAACACATATGCATATCTCA
66 GACCATTCTGCTTTAACACATATGCATATCTCA
20919673 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
20919738 GACCATTCTGCTTTAACACATATGCATATCTCA
66 GACCATTCTGCTTTAACACATATGCATATCTCA
20919771 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
20919836 GACCATTCTGCTTTAACACATATGCATATCTCA
66 GACCATTCTGCTTTAACACATATGCATATCTCA
20919869 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
20919934 GACCATTCTGCTTTAACACATATGCATATCTCA
66 GACCATTCTGCTTTAACACATATGCATATCTCA
20919967 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
20920032 GACCATTCTGCTTTAACACATATGCATATCTCA
66 GACCATTCTGCTTTAACACATATGCATATCTCA
20920065 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
20920130 GACCATTCTGCTTTAACACATATGCATATCTCA
66 GACCATTCTGCTTTAACACATATGCATATCTCA
20920163 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
20920228 GACCATTCTGCTTTAACACATATGCATATCTCA
66 GACCATTCTGCTTTAACACATATGCATATCTCA
*
20920261 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
* *
20920324 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCTGCTTTAACACATAT
20920347 ATGCATGTTC
Statistics
Matches: 767, Mismatches: 4, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
95 1 0.00
96 34 0.04
98 732 0.95
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (98 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTCTGCTTTAACACATATGCATATCTCA
Found at i:20920396 original size:47 final size:47
Alignment explanation
Indices: 20920317--20920510 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
20920307 CATACATATT
* * * *
20920317 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
20920364 CCACATTGGCCATTCGGCCTAATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
20920411 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
** * **
20920458 TCACATTGGCCATTCGGCCTTATCTTATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
20920505 TCACAT
1 TCACAT
20920511 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:20920437 original size:22 final size:22
Alignment explanation
Indices: 20920410--20920481 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
20920400 GCTCACATTC
20920410 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
20920432 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
20920456 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
20920479 ATC
1 ATC
20920482 TTATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:20927618 original size:50 final size:50
Alignment explanation
Indices: 20927500--20928332 Score: 1598
Period size: 50 Copynumber: 16.7 Consensus size: 50
20927490 CTGGTACGCA
* * ** *
20927500 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCC-GGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-CCTGATACACG
20927549 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20927599 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20927649 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20927699 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20927749 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20927799 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20927849 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20927899 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20927949 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20927999 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20928049 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20928099 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20928149 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20928199 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20928249 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
20928299 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
20928333 CACAATAGCT
Statistics
Matches: 777, Mismatches: 5, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
49 33 0.04
50 744 0.96
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCACCTGATACACG
Found at i:20933444 original size:13 final size:12
Alignment explanation
Indices: 20933413--20933445 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
20933403 ACCTATCTCA
20933413 TTATATATTTGT
1 TTATATATTTGT
20933425 TT-TATATTTGT
1 TTATATATTTGT
20933436 TTATAATATT
1 TTAT-ATATT
20933446 ATGTAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 3 0.16
13 5 0.26
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (12 bp):
TTATATATTTGT
Found at i:20939761 original size:35 final size:42
Alignment explanation
Indices: 20939680--20939754 Score: 106
Period size: 38 Copynumber: 1.9 Consensus size: 42
20939670 TTATTTATTA
*
20939680 TTTTTATTTTCACTTTTATCTTTATTTATCTTATTTAAGTAC
1 TTTTTATTTTCACTTTTATCTTTATTTATCATATTTAAGTAC
20939722 TTTTTA-TTTCA-TTTT-TCTTTA-TTATCAT-TTTAA
1 TTTTTATTTTCACTTTTATCTTTATTTATCATATTTAA
20939755 TTTTTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
37 5 0.16
38 6 0.19
39 6 0.19
40 4 0.12
41 5 0.16
42 6 0.19
ACGTcount: A:0.21, C:0.11, G:0.01, T:0.67
Consensus pattern (42 bp):
TTTTTATTTTCACTTTTATCTTTATTTATCATATTTAAGTAC
Found at i:20952358 original size:14 final size:15
Alignment explanation
Indices: 20952339--20952379 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
20952329 TCTGGTATAT
20952339 TTTATTATGATTTA-
1 TTTATTATGATTTAG
**
20952353 TTTATTAT-ATCAAG
1 TTTATTATGATTTAG
20952367 TTTATTATGATTT
1 TTTATTATGATTT
20952380 GGGACTAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 3 0.14
14 16 0.76
15 2 0.10
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (15 bp):
TTTATTATGATTTAG
Found at i:20953823 original size:40 final size:40
Alignment explanation
Indices: 20953786--20953969 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
20953776 GCTACTCGTT
*
20953786 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
20953826 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
20953866 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* ** * * *
20953905 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
20953946 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
20953970 ACATCATTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 73 0.61
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:20953897 original size:79 final size:82
Alignment explanation
Indices: 20953786--20953970 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
20953776 GCTACTCGTT
* * *
20953786 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
20953849 GGATTTAGTAAC-TCGCA
65 GAATATAGTAACTTAGCA
* **
20953866 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20953929 AATATGGTCACTTAGCA
66 AATATAGTAACTTAGCA
20953946 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20953971 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
AATATAGTAACTTAGCA
Found at i:20962622 original size:19 final size:19
Alignment explanation
Indices: 20962595--20962634 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
20962585 CCAATGAATA
20962595 AAAT-AAAAATAAAATACCC
1 AAATAAAAAAT-AAATACCC
*
20962614 AAATTAAAAATAAATACCC
1 AAATAAAAAATAAATACCC
20962633 AA
1 AA
20962635 GAGGCCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATAAAAAATAAATACCC
Found at i:20962912 original size:34 final size:34
Alignment explanation
Indices: 20962868--20962950 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
20962858 TCTCAATTAG
* * *
20962868 GGCCTTAGCCCATTTCATTAACAGTTGCAGTCTA
1 GGCCTGAGCCCATTTCAGTAACAGTAGCAGTCTA
*
20962902 GGCCTGAGCCCATTTCAGTAACAGTAGCAGTCTG
1 GGCCTGAGCCCATTTCAGTAACAGTAGCAGTCTA
* *
20962936 GGCCCGAGCCTATTT
1 GGCCTGAGCCCATTT
20962951 TAATAATAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (34 bp):
GGCCTGAGCCCATTTCAGTAACAGTAGCAGTCTA
Found at i:20967736 original size:28 final size:28
Alignment explanation
Indices: 20967696--20967752 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
20967686 TACTCAACGG
20967696 TGGCTACACATACTTTAAATTGTTTTAC
1 TGGCTACACATACTTTAAATTGTTTTAC
20967724 TGGCTACACATACTTTAAATTGTTTTAC
1 TGGCTACACATACTTTAAATTGTTTTAC
20967752 T
1 T
20967753 TTCGTTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.44
Consensus pattern (28 bp):
TGGCTACACATACTTTAAATTGTTTTAC
Found at i:20976499 original size:13 final size:13
Alignment explanation
Indices: 20976477--20976515 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
20976467 AAGAGTTTGT
20976477 TTAT-TAAACTAA
1 TTATCTAAACTAA
20976489 TTATCTAAACTAA
1 TTATCTAAACTAA
* *
20976502 TTAACTAAATTAA
1 TTATCTAAACTAA
20976515 T
1 T
20976516 AAAAGCAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:20979507 original size:14 final size:15
Alignment explanation
Indices: 20979481--20979510 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
20979471 ATCAAAAGAA
20979481 AAATAAGAATAAAAT
1 AAATAAGAATAAAAT
20979496 AAATAA-AATAAAAT
1 AAATAAGAATAAAAT
20979510 A
1 A
20979511 GGAGGATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AAATAAGAATAAAAT
Found at i:20985237 original size:47 final size:47
Alignment explanation
Indices: 20985121--20985323 Score: 316
Period size: 47 Copynumber: 4.3 Consensus size: 47
20985111 TACATGATAG
20985121 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
20985170 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
20985217 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * *
20985264 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
20985311 TAAATGTGATAAG
1 TATATGTGATAAG
20985324 TCCCGAAGGG
Statistics
Matches: 144, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
47 99 0.69
49 45 0.31
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:20987913 original size:10 final size:10
Alignment explanation
Indices: 20987900--20987960 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
20987890 AGCTCACTTG
20987900 AGCTCGTTTC
1 AGCTCGTTTC
*
20987910 AGCTCGTTTG
1 AGCTCGTTTC
* *
20987920 AGCTTGATTTT
1 AGCTCG-TTTC
*
20987931 GGCTCGTTTC
1 AGCTCGTTTC
20987941 AGCTCGTTTC
1 AGCTCGTTTC
*
20987951 AGCTCATTTC
1 AGCTCGTTTC
20987961 TTTCCCTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 35 0.83
11 7 0.17
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (10 bp):
AGCTCGTTTC
Found at i:20987960 original size:20 final size:20
Alignment explanation
Indices: 20987888--20987960 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
20987878 TTAGCTCAAA
* *
20987888 TCAGCTCACTTGAGCTCGTT
1 TCAGCTCATTTCAGCTCGTT
* * *
20987908 TCAGCTCGTTTGAGCTTGATT
1 TCAGCTCATTTCAGCTCG-TT
** *
20987929 TTGGCTCGTTTCAGCTCGTT
1 TCAGCTCATTTCAGCTCGTT
20987949 TCAGCTCATTTC
1 TCAGCTCATTTC
20987961 TTTCCCTTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.12, C:0.26, G:0.21, T:0.41
Consensus pattern (20 bp):
TCAGCTCATTTCAGCTCGTT
Found at i:20990091 original size:20 final size:20
Alignment explanation
Indices: 20990045--20990091 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
20990035 AGCTCGTTTC
*
20990045 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
20990065 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
20990085 CAGCTCA
1 CAGCTCA
20990092 ATCTTAACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:20991583 original size:13 final size:13
Alignment explanation
Indices: 20991565--20991641 Score: 64
Period size: 13 Copynumber: 5.5 Consensus size: 13
20991555 TTGGAGTAAC
20991565 AAAAAAAAATCAA
1 AAAAAAAAATCAA
*
20991578 AAAAAAAATTCGAA
1 AAAAAAAAATC-AA
*
20991592 AAAAAAAATTGATTGAA
1 AAAAAAAA---A-TCAA
*
20991609 AAAAAAAATTCAA
1 AAAAAAAAATCAA
* *
20991622 AAAAAAAAGTGAA
1 AAAAAAAAATCAA
20991635 AAAAAAA
1 AAAAAAA
20991642 TCGAGCAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
13 31 0.60
14 10 0.19
17 10 0.19
18 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (13 bp):
AAAAAAAAATCAA
Found at i:20991684 original size:31 final size:29
Alignment explanation
Indices: 20991620--20991694 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
20991610 AAAAAAATTC
*
20991620 AAAAAAAAAAGTGAAAAAAAAATCGAGCA
1 AAAAAAAAAAGTGAAAAAAAAATCAAGCA
*
20991649 AAAAAAAAAGGTGACCAAAAAAAATCAAG--
1 AAAAAAAAAAGTGA--AAAAAAAATCAAGCA
**
20991678 TTAAAAAAAAGTGAAAA
1 AAAAAAAAAAGTGAAAA
20991695 GTCTTGCGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 3 0.08
29 24 0.62
31 12 0.31
ACGTcount: A:0.71, C:0.07, G:0.13, T:0.09
Consensus pattern (29 bp):
AAAAAAAAAAGTGAAAAAAAAATCAAGCA
Found at i:20992621 original size:15 final size:16
Alignment explanation
Indices: 20992601--20992632 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
20992591 AGAAAATGAA
20992601 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
20992616 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
20992632 A
1 A
20992633 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:20992747 original size:17 final size:18
Alignment explanation
Indices: 20992715--20992748 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20992705 AAAAGAGAGT
*
20992715 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
20992733 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
20992749 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:20994037 original size:20 final size:20
Alignment explanation
Indices: 20994014--20994067 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
20994004 AGTTTTTCCC
*
20994014 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
20994034 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
20994054 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
20994068 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:20994049 original size:30 final size:30
Alignment explanation
Indices: 20994014--20994087 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
20994004 AGTTTTTCCC
20994014 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
20994044 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
20994074 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
20994088 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:20994077 original size:20 final size:20
Alignment explanation
Indices: 20994014--20994078 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
20994004 AGTTTTTCCC
* * * *
20994014 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
20994034 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
20994053 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
20994074 AGCTC
1 AGCTC
20994079 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:21007224 original size:40 final size:39
Alignment explanation
Indices: 21007180--21007404 Score: 281
Period size: 40 Copynumber: 5.7 Consensus size: 39
21007170 GCCACTAACT
*
21007180 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
21007220 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
21007259 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * *
21007299 CAAACGCCTTCGGGACCTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
21007339 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
21007379 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
21007405 TATCATCCGA
Statistics
Matches: 165, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 40 0.24
40 125 0.76
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:21007280 original size:79 final size:78
Alignment explanation
Indices: 21007180--21007404 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 78
21007170 GCCACTAACT
*
21007180 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
21007245 TATAATAACTCGCA
65 TATAATAACTCGCA
* * * * *
21007259 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACCTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
* *
21007324 ATATAGTAGCTCGCA
65 -TATAATAACTCGCA
* * ** *
21007339 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTAGCACAAATGCCT-TCGGGACTTAGCCCG
21007403 GT
64 GT
21007405 TATCATCCGA
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 63 0.50
80 62 0.50
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Found at i:21010154 original size:40 final size:41
Alignment explanation
Indices: 21010090--21010185 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
21010080 GACAATGTTT
* *
21010090 GGCACTAAGTGTGCG-TTTCAAAATAGCTTCGGCTATAAAT-A
1 GGCACTAAGTGTGCGAATTCAAAATAGCTTAGGCTAT--ATGA
*
21010131 -GCACTAAGTGTGCGAATT-GAAATAGCTTAGGCTATATGA
1 GGCACTAAGTGTGCGAATTCAAAATAGCTTAGGCTATATGA
21010170 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
21010186 TACCAATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 44 0.90
41 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAATTCAAAATAGCTTAGGCTATATGA
Found at i:21011473 original size:27 final size:26
Alignment explanation
Indices: 21011415--21011477 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
21011405 ACAGTTGAAT
*
21011415 TTTAATATGTCTTAGTTCATACATGT
1 TTTAATATGTCTTAGTTCATACATGA
* * *
21011441 TGTTAATTTGTCTTAGTTTATTGCATGA
1 T-TTAATATGTCTTAGTTCA-TACATGA
21011469 TTTAA-ATGT
1 TTTAATATGT
21011478 GTCTTTGAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 4 0.13
27 20 0.67
28 6 0.20
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.52
Consensus pattern (26 bp):
TTTAATATGTCTTAGTTCATACATGA
Found at i:21018962 original size:80 final size:80
Alignment explanation
Indices: 21018745--21019009 Score: 358
Period size: 80 Copynumber: 3.3 Consensus size: 80
21018735 TTGAATGATG
* * * *
21018745 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
* * *
21018809 TGTGCTAGATACTAAT
65 TGTGCGAGTTACTAAA
* *
21018825 TCTGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
21018889 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* **
21018904 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATC-CGAAGGCATT
21018968 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
*
21018985 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21019010 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
79 64 0.39
80 99 0.60
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:21019016 original size:80 final size:79
Alignment explanation
Indices: 21018746--21019042 Score: 327
Period size: 80 Copynumber: 3.7 Consensus size: 79
21018736 TGAATGATGT
* * * * * **
21018746 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTT
* * *
21018810 GTGCTAGATACTAATT
65 GTGCGAGTTACTAA-A
* **
21018826 CTGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTG
21018890 TGCGAGTTACTAAA
66 TGCGAGTTACTAAA
* *
21018904 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCATT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATC-CGAAGGCATT
21018968 TGTGCGAGTTACTATAA
64 TGTGCGAGTTACTA-AA
* * *
21018985 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTTAAGA-TCCGAAGG
21019043 TACGTGATTT
Statistics
Matches: 190, Mismatches: 19, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
79 77 0.41
80 111 0.58
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:21019016 original size:120 final size:118
Alignment explanation
Indices: 21018798--21019042 Score: 298
Period size: 120 Copynumber: 2.1 Consensus size: 118
21018788 GGACTAAGAT
* * *
21018798 CCGAAGGCATTTGTGCTAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
** *
21018863 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * * *
21018917 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA
* * * *
21018982 TAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
21019036 CCGAAGG
1 CCGAAGG
21019043 TACGTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
119 50 0.46
120 56 0.52
121 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:21019023 original size:40 final size:40
Alignment explanation
Indices: 21018745--21019009 Score: 324
Period size: 40 Copynumber: 6.7 Consensus size: 40
21018735 TTGAATGATG
* * * *
21018745 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
21018785 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21018825 TCTGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21018864 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21018904 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21018944 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21018985 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21019010 AACGAGTAGC
Statistics
Matches: 196, Mismatches: 22, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
39 33 0.17
40 153 0.78
41 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21026890 original size:39 final size:40
Alignment explanation
Indices: 21026789--21027051 Score: 335
Period size: 39 Copynumber: 6.7 Consensus size: 40
21026779 TTGAATGATG
* *
21026789 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
21026828 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
21026869 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
21026908 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21026947 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
21026986 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21027025 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21027052 AACGAGTAGC
Statistics
Matches: 203, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
39 114 0.56
40 76 0.37
41 12 0.06
42 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21033902 original size:39 final size:39
Alignment explanation
Indices: 21033841--21033954 Score: 149
Period size: 39 Copynumber: 2.9 Consensus size: 39
21033831 CAGTGATGTT
* * *
21033841 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCTGGACTTAAGGTCTGCAGGCTATGTGCTAGAATTA
*
21033880 TATCTAGACTTAAGGTCTGCAGGCTATGTGCTAGAATTA
1 TATCTGGACTTAAGGTCTGCAGGCTATGTGCTAGAATTA
* * *
21033919 TAACCGGACTTAAGGT-TCGCAGGCTACGTGCTAGAA
1 TATCTGGACTTAAGGTCT-GCAGGCTATGTGCTAGAA
21033955 ATATGTCCGG
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 1 0.02
39 65 0.98
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (39 bp):
TATCTGGACTTAAGGTCTGCAGGCTATGTGCTAGAATTA
Found at i:21036032 original size:44 final size:42
Alignment explanation
Indices: 21035936--21036043 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 42
21035926 TTGATGTCTC
* *
21035936 TGTCCCAGACAGGGTCTTACACAAAACCAGATACGATGCCGA
1 TGTCCCAGACACGGTCTTACACAAAACCAGATACGAGGCCGA
*
21035978 TGTCCCAGACATGGTCTTACACATAAATCTCA-AGT-CGAGGCCTG-
1 TGTCCCAGACACGGTCTTACACA-AAA-C-CAGA-TACGAGGCC-GA
*
21036022 TGTCCCAGACACGGTCCTACAC
1 TGTCCCAGACACGGTCTTACAC
21036044 GATATCTCAG
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
42 22 0.39
43 3 0.05
44 28 0.49
45 4 0.07
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACAAAACCAGATACGAGGCCGA
Found at i:21041831 original size:40 final size:40
Alignment explanation
Indices: 21041776--21041953 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
21041766 TGGATGATAA
* * *
21041776 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
21041816 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21041856 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
21041896 CCGGGCTATGTCCCGAAGGTATTCT-AGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATT-TGTGCGAGTTA-CTATAT
* *
21041936 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21041954 TACTTGGCTT
Statistics
Matches: 126, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 16 0.13
40 109 0.87
41 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21046128 original size:42 final size:42
Alignment explanation
Indices: 21046094--21046236 Score: 205
Period size: 42 Copynumber: 3.4 Consensus size: 42
21046084 TCCCAAACGG
* *
21046094 GGTCTTCCACGAAATAAGATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACAT
* * *
21046136 GGTCTTACACGACATCGGATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACAT
* * *
21046178 GGTCTTACATGAAATCAGATATGATGCTGATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACAT
21046220 GGTCTTACACGTAAATC
1 GGTCTTACACG-AAATC
21046237 TCAAATTGAG
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 83 0.94
43 5 0.06
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACAT
Found at i:21053222 original size:29 final size:29
Alignment explanation
Indices: 21053189--21053262 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
21053179 GTTGTGAGAT
* *
21053189 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
21053218 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
21053247 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21053263 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:21055577 original size:14 final size:14
Alignment explanation
Indices: 21055560--21055587 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21055550 CGTTTACATA
21055560 GTTTATTCATTATT
1 GTTTATTCATTATT
21055574 GTTTATTCATTATT
1 GTTTATTCATTATT
21055588 TAATTCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (14 bp):
GTTTATTCATTATT
Found at i:21056414 original size:37 final size:37
Alignment explanation
Indices: 21056364--21056442 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
21056354 TTATTACGAA
* *
21056364 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
21056401 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
21056438 GTCTT
1 GTCTT
21056443 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:21056639 original size:47 final size:47
Alignment explanation
Indices: 21056561--21057067 Score: 906
Period size: 47 Copynumber: 10.7 Consensus size: 47
21056551 CCCTTCGGGA
* * * * * * *
21056561 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
21056608 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21056655 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21056702 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21056749 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21056796 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21056843 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21056890 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21056937 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21056984 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21057031 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACAT
21057068 AGAATCCGCT
Statistics
Matches: 445, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
47 418 0.94
49 27 0.06
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21062678 original size:47 final size:47
Alignment explanation
Indices: 21062479--21062708 Score: 147
Period size: 47 Copynumber: 4.9 Consensus size: 47
21062469 TATGGGTTAT
* * *
21062479 TATGGGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCACAT--TA
1 TATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATGAAA
* * *
21062525 TGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGAAA
1 T-ATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-GAAA
* * * * * * * * *
21062573 CGA-GTGTTAGTATAAGA-CATGCCTGGGACAT-GCATAGGCTACGAGA
1 -TATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ATGAAA
21062619 TGAT-AG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAAA
1 T-ATGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACATGAAA
* * *
21062666 TATGAGCTAGTGTGAGACCGTGTCTGGGACATGGCATCAACAT
1 TATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
21062709 CTTACCCATG
Statistics
Matches: 143, Mismatches: 26, Indels: 29
0.72 0.13 0.15
Matches are distributed among these distances:
45 4 0.03
46 35 0.24
47 81 0.57
48 23 0.16
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
TATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAAA
Found at i:21070331 original size:47 final size:46
Alignment explanation
Indices: 21070141--21070340 Score: 162
Period size: 46 Copynumber: 4.3 Consensus size: 46
21070131 TGAGAACCAA
* *
21070141 TGTATGACCATGTTTGGGA-ATGGCATCGACATCGAG--ATGAGTTCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGACAT-GAGATATGAG--CTAG
* * ** * *
21070188 TGTAAGA-CATGTCTGGGACATGCATCGGCCTTGAGACGTAAGCCAG
1 TGTAAGACCATGTCTGGGACATGCATC-GACATGAGATATGAGCTAG
*
21070234 TGTAAGA-CATGTCTGGGACATGCATCGACTATGAGATGAT-AG-TCAC
1 TGTAAGACCATGTCTGGGACATGCATCGAC-ATGAGAT-ATGAGCT-AG
* *
21070280 TGTAAGACCATGTCTGGGACATGGCATCAACATGAAATATGAGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGACATGAGATATGAGCTAG
*
21070327 TGTAAGACCGTGTC
1 TGTAAGACCATGTC
21070341 CTTACCTACG
Statistics
Matches: 125, Mismatches: 17, Indels: 22
0.76 0.10 0.13
Matches are distributed among these distances:
45 2 0.02
46 64 0.51
47 48 0.38
48 11 0.09
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGCATCGACATGAGATATGAGCTAG
Found at i:21077345 original size:18 final size:17
Alignment explanation
Indices: 21077319--21077352 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21077309 CCATAATACG
21077319 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
21077337 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
21077353 AAGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:21081794 original size:40 final size:40
Alignment explanation
Indices: 21081742--21081942 Score: 230
Period size: 40 Copynumber: 5.0 Consensus size: 40
21081732 AATTTAACCA
* ** *
21081742 GATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
21081782 GTTATAGTAACTCTCACAAATGCCTTCGGGACTTAACCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
21081822 GATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCC-
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
21081860 GAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 GATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
* *
21081901 GATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 GATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
21081941 GA
1 GA
21081943 CATCATTCGA
Statistics
Matches: 135, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
38 4 0.03
39 29 0.21
40 88 0.65
41 14 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:21081858 original size:79 final size:81
Alignment explanation
Indices: 21081760--21081942 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
21081750 AACTCGTTCA
* ** *
21081760 AATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCTCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
21081823 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
21081840 AATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
21081903 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
21081919 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21081943 CATCATTCGA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 5 0.06
79 57 0.65
80 24 0.27
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:21089892 original size:40 final size:40
Alignment explanation
Indices: 21089837--21090038 Score: 259
Period size: 40 Copynumber: 5.1 Consensus size: 40
21089827 CGAAATTTAA
* * *
21089837 CCGGATATAGCAACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21089877 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21089917 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21089956 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
21089996 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21090036 CCG
1 CCG
21090039 AACATCATTC
Statistics
Matches: 141, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 95 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21089967 original size:79 final size:79
Alignment explanation
Indices: 21089833--21090038 Score: 249
Period size: 79 Copynumber: 2.6 Consensus size: 79
21089823 CCTTCGAAAT
* * * * *
21089833 TTAACCGGATATAGCAACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 TTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
21089898 AATGCCTTCGGGA-C
66 AATGCCTTC-GGATC
*
21089912 TTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 TTAA-CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
21089975 CAAATGCCTTCGGATC
64 CAAATGCCTTCGGATC
* * * *
21089991 TTAGTCCGGATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCG
1 TTA-ACCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCG
21090039 AACATCATTC
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
78 4 0.04
79 64 0.58
80 42 0.38
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
AATGCCTTCGGATC
Found at i:21097157 original size:79 final size:81
Alignment explanation
Indices: 21097021--21097205 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
21097011 TTGAATGATG
*
21097021 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
21097085 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
21097100 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
21097162 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
21097180 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21097206 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:21097219 original size:40 final size:39
Alignment explanation
Indices: 21097022--21097205 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
21097012 TGAATGATGT
* * *
21097022 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
21097062 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
21097102 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
21097140 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
21097181 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
21097206 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:21097227 original size:79 final size:79
Alignment explanation
Indices: 21097022--21097238 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
21097012 TGAATGATGT
** * * * **
21097022 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
21097085 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
21097102 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
21097167 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
21097181 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
21097239 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:21110671 original size:26 final size:27
Alignment explanation
Indices: 21110628--21110678 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
21110618 TAACGCCCCA
**
21110628 ATTTTTAAGTTTTCTGTGT-TTCTGTG
1 ATTTTTAAAATTTCTGTGTGTTCTGTG
*
21110654 ATTTTTAAAATTTGTGTGTGTTCTG
1 ATTTTTAAAATTTCTGTGTGTTCTG
21110679 GTTGGTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.16, C:0.06, G:0.20, T:0.59
Consensus pattern (27 bp):
ATTTTTAAAATTTCTGTGTGTTCTGTG
Found at i:21120368 original size:43 final size:43
Alignment explanation
Indices: 21120290--21120373 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
21120280 AGCTCATACA
* ***
21120290 ATGCCAACGTCCTAGACGTGGTCTTACATGTAAACAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAAACAAATATCG
*
21120333 ATGCCAACGTCCCAGACGTGGTCTTACACAAAAACACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAAACAAATAT
21120374 AGGATCCTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAAACAAATATCG
Found at i:21121588 original size:23 final size:22
Alignment explanation
Indices: 21121545--21121589 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
21121535 TTGTCGCCGA
*
21121545 TTTCAAATTTAATATCTTTTCT
1 TTTCAAATTTAATATCATTTCT
* *
21121567 TTTCAAATCTTCATATGATTTCT
1 TTTCAAAT-TTAATATCATTTCT
21121590 GACGATCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.27, C:0.16, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTCAAATTTAATATCATTTCT
Done.