Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 44 of 103
Found at i:16377771 original size:15 final size:14
Alignment explanation
Indices: 16377746--16377793 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 14
16377736 TCCTTGTCTT
16377746 TTTCTTCTTTCTCC
1 TTTCTTCTTTCTCC
16377760 TTTCTTCTTTTCTCC
1 TTTCTTC-TTTCTCC
16377775 TTTCTTCCTTTCTCTC
1 TTTCTT-CTTTCTC-C
16377791 TTT
1 TTT
16377794 GCTCCTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.23
15 19 0.61
16 5 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTCTTCTTTCTCC
Found at i:16377777 original size:8 final size:7
Alignment explanation
Indices: 16377746--16377799 Score: 54
Period size: 8 Copynumber: 7.1 Consensus size: 7
16377736 TCCTTGTCTT
*
16377746 TTTCTTC
1 TTTCTCC
16377753 TTTCTCC
1 TTTCTCC
*
16377760 TTTCTTCT
1 TTTC-TCC
16377768 TTTCTCC
1 TTTCTCC
16377775 TTTCTTCC
1 TTTC-TCC
16377783 TTTCTCTC
1 TTTCTC-C
16377791 TTTGCTCC
1 TTT-CTCC
16377799 T
1 T
16377800 AAGTTGATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
7 18 0.45
8 19 0.47
9 3 0.08
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (7 bp):
TTTCTCC
Found at i:16401591 original size:104 final size:103
Alignment explanation
Indices: 16401411--16401617 Score: 405
Period size: 104 Copynumber: 2.0 Consensus size: 103
16401401 GGCAAACCAA
16401411 TCATTCACATGTTTATAAGGACGTAATTGGAATTTTAAAAACTTTCCACCACCGTGACACTTGTC
1 TCATTCACATGTTTATAAGGACGTAATTGGAATTTTAAAAACTTTCCACCACCGTGACACTTGTC
16401476 AAGCCCAAGAATTTCACCTATTATCATTTTCATACTTT
66 AAGCCCAAGAATTTCACCTATTATCATTTTCATACTTT
16401514 NTCATTCACATGTTTATAAGGACGTAATTGGAATTTTAAAAACTTTCCACCACCGTGACACTTGT
1 -TCATTCACATGTTTATAAGGACGTAATTGGAATTTTAAAAACTTTCCACCACCGTGACACTTGT
16401579 CAAGCCCAAGAATTTCACCTATTATCATTTTCATACTTT
65 CAAGCCCAAGAATTTCACCTATTATCATTTTCATACTTT
16401618 GGATAATTAA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (103 bp):
TCATTCACATGTTTATAAGGACGTAATTGGAATTTTAAAAACTTTCCACCACCGTGACACTTGTC
AAGCCCAAGAATTTCACCTATTATCATTTTCATACTTT
Found at i:16412227 original size:22 final size:22
Alignment explanation
Indices: 16412202--16412245 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16412192 TTAGATTGGT
* *
16412202 ATCAGAGCATTTGGTTTTAAAG
1 ATCAGAACATTTGGGTTTAAAG
*
16412224 ATCAGAACTTTTGGGTTTAAAG
1 ATCAGAACATTTGGGTTTAAAG
16412246 CTGGTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (22 bp):
ATCAGAACATTTGGGTTTAAAG
Found at i:16412280 original size:15 final size:15
Alignment explanation
Indices: 16412260--16412295 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16412250 TTTAAAATTG
16412260 TTTTAAAGCTTTGGA
1 TTTTAAAGCTTTGGA
* *
16412275 TTTTAAAGTTTTTGA
1 TTTTAAAGCTTTGGA
16412290 TTTTAA
1 TTTTAA
16412296 GGGTGTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.56
Consensus pattern (15 bp):
TTTTAAAGCTTTGGA
Found at i:16412351 original size:5 final size:5
Alignment explanation
Indices: 16412341--16412375 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
16412331 CCCCAAGTCC
*
16412341 AGTTA AGTTA AGATA AGTTA AGTTA AGTTA AGTTA
1 AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA
16412376 GATTGAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (5 bp):
AGTTA
Found at i:16416105 original size:19 final size:20
Alignment explanation
Indices: 16416078--16416123 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
16416068 AGGAGACAAG
*
16416078 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
16416097 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
16416116 ATAATATT
1 ATAATATT
16416124 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:16431175 original size:18 final size:19
Alignment explanation
Indices: 16431152--16431191 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16431142 TGAGTGGAAA
16431152 ATTTTA-GAAAAAAATAAT
1 ATTTTATGAAAAAAATAAT
* *
16431170 ATTTTATTAATAAAATAAT
1 ATTTTATGAAAAAAATAAT
16431189 ATT
1 ATT
16431192 AAAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTTTATGAAAAAAATAAT
Found at i:16432527 original size:36 final size:36
Alignment explanation
Indices: 16432467--16432561 Score: 129
Period size: 36 Copynumber: 2.6 Consensus size: 36
16432457 AACCGTGCAC
* *
16432467 GTGCAGTGTGGGAGTGCA-AGTGACGGTGCCGGTGGT
1 GTGCGGTGTGGGAGTGCACA-TGACGGTGCCGATGGT
* *
16432503 GTGTGGTGTGGGAGTACACATGACGGTGCCGATGGT
1 GTGCGGTGTGGGAGTGCACATGACGGTGCCGATGGT
*
16432539 GTGCGGTGTGGGAATGCACATGA
1 GTGCGGTGTGGGAGTGCACATGA
16432562 TGATATTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 50 0.98
37 1 0.02
ACGTcount: A:0.17, C:0.14, G:0.46, T:0.23
Consensus pattern (36 bp):
GTGCGGTGTGGGAGTGCACATGACGGTGCCGATGGT
Found at i:16432592 original size:35 final size:35
Alignment explanation
Indices: 16432538--16432666 Score: 179
Period size: 35 Copynumber: 3.7 Consensus size: 35
16432528 GTGCCGATGG
*
16432538 TGTGCGGTGT-GGGAATGCACATGATGATATTGAAA
1 TGTGC-GTGTAGGGAGTGCACATGATGATATTGAAA
*
16432573 TGTGCGTGTAGGGAGTGCACCTGATGATATTGAAA
1 TGTGCGTGTAGGGAGTGCACATGATGATATTGAAA
***
16432608 TGTGCGTGTAGGGAGTGCACATGATGATATTGCCT
1 TGTGCGTGTAGGGAGTGCACATGATGATATTGAAA
* *
16432643 TGTGTGTGTAAGGAGTGCACATGA
1 TGTGCGTGTAGGGAGTGCACATGA
16432667 ACTGAGTAAG
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
34 4 0.05
35 81 0.95
ACGTcount: A:0.25, C:0.11, G:0.35, T:0.29
Consensus pattern (35 bp):
TGTGCGTGTAGGGAGTGCACATGATGATATTGAAA
Found at i:16435586 original size:2 final size:2
Alignment explanation
Indices: 16435581--16435607 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16435571 TGTGGTGCTG
16435581 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
16435608 CTTGTGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16440440 original size:35 final size:35
Alignment explanation
Indices: 16440340--16440443 Score: 181
Period size: 35 Copynumber: 3.0 Consensus size: 35
16440330 CTTTAACTGC
* *
16440340 TGATTTTGAAGGCTGAAAGGTGCAATTTTGATTGT
1 TGATTTTGAAGGCTGAAAGGTGCGATTTTGGTTGT
*
16440375 TGATTTTGAAGGTTGAAAGGTGCGATTTTGGTTGT
1 TGATTTTGAAGGCTGAAAGGTGCGATTTTGGTTGT
16440410 TGATTTTGAAGGCTGAAAGGTGCGATTTTGGTTG
1 TGATTTTGAAGGCTGAAAGGTGCGATTTTGGTTG
16440444 CTAGTTTTTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.22, C:0.05, G:0.33, T:0.40
Consensus pattern (35 bp):
TGATTTTGAAGGCTGAAAGGTGCGATTTTGGTTGT
Found at i:16440752 original size:5 final size:5
Alignment explanation
Indices: 16440710--16440750 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
16440700 GAGAAAGGAG
16440710 GAAAA GAAAGA GAGAAA GAAAA GAAAA GAAAA GAAAA -AAAA
1 GAAAA GAAA-A GA-AAA GAAAA GAAAA GAAAA GAAAA GAAAA
16440751 AATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.12
5 22 0.65
6 6 0.18
7 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:16440811 original size:25 final size:25
Alignment explanation
Indices: 16440774--16440830 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
16440764 ATATGCATAT
* *
16440774 AAATGGACCTGGCCCAATAAGAAA-
1 AAATGGGCATGGCCCAATAAGAAAG
*
16440798 AGAATGGGCATGGCCCAATTAGAAAG
1 A-AATGGGCATGGCCCAATAAGAAAG
16440824 AAATGGG
1 AAATGGG
16440831 AAGAGCCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.42, C:0.16, G:0.28, T:0.14
Consensus pattern (25 bp):
AAATGGGCATGGCCCAATAAGAAAG
Found at i:16440838 original size:25 final size:25
Alignment explanation
Indices: 16440784--16440839 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
16440774 AAATGGACCT
*
16440784 GGCCCAATAAGAAAAGAATGGGCAT
1 GGCCCAATAAGAAAAGAATGGGCAA
*
16440809 GGCCCAATTAG-AAAGAAATGGG-AA
1 GGCCCAATAAGAAAAG-AATGGGCAA
16440833 GAGCCCA
1 G-GCCCA
16440840 TGAAAAAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.43, C:0.18, G:0.29, T:0.11
Consensus pattern (25 bp):
GGCCCAATAAGAAAAGAATGGGCAA
Found at i:16442851 original size:22 final size:22
Alignment explanation
Indices: 16442826--16442869 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
16442816 TTCGATTGCT
*
16442826 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAAAGCTTTTGGTTTTAAAG
16442848 ATCAAAGCTTTTGGTTTTAAAG
1 ATCAAAGCTTTTGGTTTTAAAG
16442870 TTGTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
ATCAAAGCTTTTGGTTTTAAAG
Found at i:16448079 original size:22 final size:22
Alignment explanation
Indices: 16448049--16448090 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16448039 AGACTGGTAG
* *
16448049 TAGAGCTTTTGGTTTTAAAGAT
1 TAGAACTTTTGGGTTTAAAGAT
16448071 TAGAACTTTTGGGTTTAAAG
1 TAGAACTTTTGGGTTTAAAG
16448091 TTGTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.43
Consensus pattern (22 bp):
TAGAACTTTTGGGTTTAAAGAT
Found at i:16448143 original size:5 final size:5
Alignment explanation
Indices: 16448133--16448159 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16448123 CAGTGTGGCC
16448133 TAAGT TAAGT TAAGT TAAGT TAAGT TA
1 TAAGT TAAGT TAAGT TAAGT TAAGT TA
16448160 GGTTTGATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (5 bp):
TAAGT
Found at i:16458537 original size:21 final size:21
Alignment explanation
Indices: 16458513--16458571 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
16458503 AGGTTTTAAC
16458513 GAGAAACCCTCGTGCAGTTGA
1 GAGAAACCCTCGTGCAGTTGA
* *
16458534 GAGAAACCCTTGTGCAATTGA
1 GAGAAACCCTCGTGCAGTTGA
*
16458555 GAGGAACCCTCGTGCAG
1 GAGAAACCCTCGTGCAG
16458572 ATGATGATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.19
Consensus pattern (21 bp):
GAGAAACCCTCGTGCAGTTGA
Found at i:16466929 original size:10 final size:11
Alignment explanation
Indices: 16466902--16466936 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
16466892 TATGGCCGGC
*
16466902 CAAAGCAAGAA
1 CAAAGGAAGAA
16466913 CAAAGGAAGAA
1 CAAAGGAAGAA
16466924 -AAAGGAAGAA
1 CAAAGGAAGAA
16466934 CAA
1 CAA
16466937 GAACCCTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.66, C:0.11, G:0.23, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:16471212 original size:26 final size:26
Alignment explanation
Indices: 16471152--16471213 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
16471142 ACCATATACC
*
16471152 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
16471178 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
16471204 CATCATCATC
1 CATCATCATC
16471214 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:16471506 original size:42 final size:42
Alignment explanation
Indices: 16471448--16471528 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
16471438 ATGGGGGCAA
16471448 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
* * *
16471490 CAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGT
1 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGT
16471529 TCAAATCAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
Found at i:16483927 original size:25 final size:25
Alignment explanation
Indices: 16483897--16483946 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
16483887 AGAAAGAAAG
*
16483897 AAAAAAGAGTAGGCATAACCCAATA
1 AAAAAAGAATAGGCATAACCCAATA
**
16483922 AAAAAAGAATAGGCATGGCCCAATA
1 AAAAAAGAATAGGCATAACCCAATA
16483947 GAAAGAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.16, G:0.18, T:0.12
Consensus pattern (25 bp):
AAAAAAGAATAGGCATAACCCAATA
Found at i:16484997 original size:2 final size:2
Alignment explanation
Indices: 16484990--16485027 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
16484980 CAATATGTTG
16484990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16485028 GTTGTGCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16485238 original size:40 final size:40
Alignment explanation
Indices: 16485143--16485245 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
16485133 AGAGTGCCTG
* * * *
16485143 TGTGCACGATATGGGGGGATGCATACAATGGCACTGACTA
1 TGTGCACGATGTGGGGGGATGCACACAATGACACCGACTA
*
16485183 --TGCACGATGTGGGGGGATGCACACAATGACTCCGACTA
1 TGTGCACGATGTGGGGGGATGCACACAATGACACCGACTA
*
16485221 TGTGCACAATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
16485246 TGAGTCGGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 33 0.60
40 22 0.40
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.20
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACACAATGACACCGACTA
Found at i:16485560 original size:14 final size:14
Alignment explanation
Indices: 16485541--16485571 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16485531 TAGGTTATAC
*
16485541 TCATGTTTTCAACT
1 TCATGTTTTCAAAT
16485555 TCATGTTTTCAAAT
1 TCATGTTTTCAAAT
16485569 TCA
1 TCA
16485572 GTGGTGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (14 bp):
TCATGTTTTCAAAT
Found at i:16496888 original size:25 final size:25
Alignment explanation
Indices: 16496860--16496908 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
16496850 GATATATGTG
16496860 TGGCAAGGCCACGAGTTGATATACA
1 TGGCAAGGCCACGAGTTGATATACA
*
16496885 TGGCTAGGCCACGAGTTGATATAC
1 TGGCAAGGCCACGAGTTGATATAC
16496909 GTGGTTGCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (25 bp):
TGGCAAGGCCACGAGTTGATATACA
Found at i:16501578 original size:21 final size:21
Alignment explanation
Indices: 16501552--16501593 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16501542 GGATAGAAAG
*
16501552 TTTCTCACTGCAGCGAGATTC
1 TTTCTCACTGCAGCGAAATTC
*
16501573 TTTCTCGCTGCAGCGAAATTC
1 TTTCTCACTGCAGCGAAATTC
16501594 AAGTGGCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTCTCACTGCAGCGAAATTC
Found at i:16501966 original size:40 final size:41
Alignment explanation
Indices: 16501902--16502007 Score: 130
Period size: 39 Copynumber: 2.7 Consensus size: 41
16501892 ACCCTGCTCA
* * * *
16501902 TGTGCAACCCCCCCACATCATGCACATAG-TCGAAGTCATCG
1 TGTGCATCCCCCCCACATCGTGCACATAGCTCG-AGCCACCG
*
16501943 TGTGCAT-CCCCCCACATCGTGCAC--AGCTCGTGCCACCG
1 TGTGCATCCCCCCCACATCGTGCACATAGCTCGAGCCACCG
16501981 TGTGCATCCCCCCCACATCGTGCACAT
1 TGTGCATCCCCCCCACATCGTGCACAT
16502008 GGGCACCATC
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
38 14 0.25
39 20 0.36
40 16 0.29
41 6 0.11
ACGTcount: A:0.21, C:0.42, G:0.18, T:0.20
Consensus pattern (41 bp):
TGTGCATCCCCCCCACATCGTGCACATAGCTCGAGCCACCG
Found at i:16505515 original size:28 final size:28
Alignment explanation
Indices: 16505461--16505516 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
16505451 TTGCAATTTA
*
16505461 TAAAAGTTTGAAGGACCAAATTATAGAT
1 TAAAAGTTTGAAGGACCAAATGATAGAT
* ** *
16505489 TAAAAGTTTGGAGGGTCAAATGGTAGAT
1 TAAAAGTTTGAAGGACCAAATGATAGAT
16505517 AAGAAAAAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (28 bp):
TAAAAGTTTGAAGGACCAAATGATAGAT
Found at i:16507490 original size:43 final size:43
Alignment explanation
Indices: 16507385--16507491 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
16507375 GTAATTATAT
* * *
16507385 TGACTCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGA
1 TGACCCAGCTATGTGCGAGTAAGGAGTGCGCATAAGCCCAGGA
* * *
16507428 TGACCCGGTTATGTACGAGTAAGGAGTGCGCATAA-CCCAGTGA
1 TGACCCAGCTATGTGCGAGTAAGGAGTGCGCATAAGCCCAG-GA
*
16507471 TGACCCAGCCATGTGCGAGTA
1 TGACCCAGCTATGTGCGAGTA
16507492 GGAAGTGTGC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 4 0.08
43 49 0.92
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.20
Consensus pattern (43 bp):
TGACCCAGCTATGTGCGAGTAAGGAGTGCGCATAAGCCCAGGA
Found at i:16507543 original size:23 final size:23
Alignment explanation
Indices: 16507513--16507572 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
16507503 TGAGCTGGTG
* *
16507513 ATGATGATGATGTGATGGTGTGT
1 ATGATGATGATGGGATGGTGTGC
16507536 ATGATGATGATGGGATGGTGTGC
1 ATGATGATGATGGGATGGTGTGC
*
16507559 AGGATGATGATGGG
1 ATGATGATGATGGG
16507573 TATACGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.23, C:0.02, G:0.43, T:0.32
Consensus pattern (23 bp):
ATGATGATGATGGGATGGTGTGC
Found at i:16508260 original size:77 final size:78
Alignment explanation
Indices: 16508168--16508320 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 78
16508158 GCGAAAAGCA
* * *
16508168 CTGCAGCGAGAATGCCTTTCCACTGCAACGAAGATTCGTTGTCGTATTTGACTTGCTTGCATATC
1 CTGCAGCGAGAATGCCTTTCCACTACAACAAAGATTCATTGTCGTATTTGACTTGCTTGCATATC
16508233 ATTGAA-TTTTCG
66 ATTGAAGTTTTCG
* *
16508245 CTGCAGCGAGAATGCCTTTCCACTACAGCAAAGATTCATTGTCGTATTTGACTTGCTTGCGTATC
1 CTGCAGCGAGAATGCCTTTCCACTACAACAAAGATTCATTGTCGTATTTGACTTGCTTGCATATC
16508310 ATTGAAGTTTT
66 ATTGAAGTTTT
16508321 TATTCTTCAA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
77 66 0.94
78 4 0.06
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (78 bp):
CTGCAGCGAGAATGCCTTTCCACTACAACAAAGATTCATTGTCGTATTTGACTTGCTTGCATATC
ATTGAAGTTTTCG
Found at i:16510435 original size:25 final size:25
Alignment explanation
Indices: 16510402--16510453 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
16510392 AGTCTATGAT
* * *
16510402 ATATGCATGGGAAGGCCACGGGTTG
1 ATATACATGGCAAGGCCACGAGTTG
*
16510427 ATATACATGGCTAGGCCACGAGTTG
1 ATATACATGGCAAGGCCACGAGTTG
16510452 AT
1 AT
16510454 GTATTACCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (25 bp):
ATATACATGGCAAGGCCACGAGTTG
Found at i:16511152 original size:14 final size:13
Alignment explanation
Indices: 16511133--16511200 Score: 67
Period size: 14 Copynumber: 5.5 Consensus size: 13
16511123 CACTTTACAT
16511133 ATATGTATACATAC
1 ATATGT-TACATAC
16511147 ATATG-T--ATAC
1 ATATGTTACATAC
16511157 ATATGTGTACATAC
1 ATATGT-TACATAC
16511171 ATATG-T--ATAC
1 ATATGTTACATAC
16511181 ATATGTGTACATAC
1 ATATGT-TACATAC
16511195 ATATGT
1 ATATGT
16511201 ATATAGTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
10 18 0.39
12 4 0.09
14 24 0.52
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (13 bp):
ATATGTTACATAC
Found at i:16511158 original size:10 final size:10
Alignment explanation
Indices: 16511143--16511193 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
16511133 ATATGTATAC
16511143 ATACATATGT
1 ATACATATGT
16511153 ATACATATGTGT
1 ATACATA--TGT
16511165 ACATACATATGT
1 --ATACATATGT
16511177 ATACATATGT
1 ATACATATGT
*
16511187 GTACATA
1 ATACATA
16511194 CATATGTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 23 0.64
12 6 0.17
14 7 0.19
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (10 bp):
ATACATATGT
Found at i:16511167 original size:24 final size:24
Alignment explanation
Indices: 16511133--16511203 Score: 133
Period size: 24 Copynumber: 3.0 Consensus size: 24
16511123 CACTTTACAT
*
16511133 ATATGTATACATACATATGTATAC
1 ATATGTGTACATACATATGTATAC
16511157 ATATGTGTACATACATATGTATAC
1 ATATGTGTACATACATATGTATAC
16511181 ATATGTGTACATACATATGTATA
1 ATATGTGTACATACATATGTATA
16511204 TAGTTTGCAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (24 bp):
ATATGTGTACATACATATGTATAC
Found at i:16524698 original size:54 final size:54
Alignment explanation
Indices: 16524616--16524727 Score: 206
Period size: 54 Copynumber: 2.1 Consensus size: 54
16524606 TCATTATGTG
*
16524616 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAACTGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAACCGGACATCC
*
16524670 CATCTCACCCAGCTCATGTGTATCCCACCACATCGTGCACATAACCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAACCGGACATCC
16524724 CATC
1 CATC
16524728 CATCTCCCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.26, C:0.41, G:0.12, T:0.21
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAACCGGACATCC
Found at i:16531197 original size:20 final size:21
Alignment explanation
Indices: 16531150--16531197 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
16531140 CAAACTCTAC
16531150 AACA-AAATCTAAACATAATA
1 AACACAAATCTAAACATAATA
*
16531170 CACACAAAT-TAAAGCATAATA
1 AACACAAATCTAAA-CATAATA
16531191 AAC-CAAA
1 AACACAAA
16531198 AGAAATAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.62, C:0.19, G:0.02, T:0.17
Consensus pattern (21 bp):
AACACAAATCTAAACATAATA
Found at i:16535120 original size:127 final size:128
Alignment explanation
Indices: 16534953--16535215 Score: 370
Period size: 127 Copynumber: 2.1 Consensus size: 128
16534943 GGAAACAAAA
* **
16534953 CAAAATAAAAAAAAAAGAACATTGGAAAAAGAGCAAAAGAAGATGAAATCAACAGAAAAAGTAAG
1 CAAAATAAAAAAAAAAGAACACTACAAAAAGAGCAAAAGAAGATGAAATCAACAGAAAAAGTAAG
16535018 AAATGTGAAAGGGCG-AGAGA-TCGAGGGAGGAAAAAATCTAA-AAGCATGGTAATTAAAAAGAC
66 AAATGTGAAAGGGCGAAGAGACT-GAGGGAGGAAAAAATC-AAGAAGCATGGTAATTAAAAAGAC
* * * * * * * *
16535080 CAAAATAAAAAAAAAGGAATACTACAGAAAGAGGAGAAGAAGATGAAATCAATAGAGACAGTAAG
1 CAAAATAAAAAAAAAAGAACACTACAAAAAGAGCAAAAGAAGATGAAATCAACAGAAAAAGTAAG
* *
16535145 AGATGTGAGAGGGCGAAGAGACTGAGGGAGGAAAAAATCAAGAAGCATGGTAATTAAAAAGAC
66 AAATGTGAAAGGGCGAAGAGACTGAGGGAGGAAAAAATCAAGAAGCATGGTAATTAAAAAGAC
16535208 CAAAATAA
1 CAAAATAA
16535216 CATGTAAATA
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
127 69 0.57
128 50 0.42
129 1 0.01
ACGTcount: A:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (128 bp):
CAAAATAAAAAAAAAAGAACACTACAAAAAGAGCAAAAGAAGATGAAATCAACAGAAAAAGTAAG
AAATGTGAAAGGGCGAAGAGACTGAGGGAGGAAAAAATCAAGAAGCATGGTAATTAAAAAGAC
Found at i:16539430 original size:18 final size:18
Alignment explanation
Indices: 16539409--16539447 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16539399 ATGTTAATCA
*
16539409 TGTTATCATATTTAAACG
1 TGTTATCATACTTAAACG
* *
16539427 TGTTATCGTGCTTAAACG
1 TGTTATCATACTTAAACG
16539445 TGT
1 TGT
16539448 ATATGTGACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (18 bp):
TGTTATCATACTTAAACG
Found at i:16539588 original size:13 final size:13
Alignment explanation
Indices: 16539570--16539594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16539560 ATATGTATTT
16539570 AATTATGGATGAA
1 AATTATGGATGAA
16539583 AATTATGGATGA
1 AATTATGGATGA
16539595 TTTTAGATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (13 bp):
AATTATGGATGAA
Found at i:16541011 original size:27 final size:27
Alignment explanation
Indices: 16540799--16541013 Score: 136
Period size: 27 Copynumber: 8.0 Consensus size: 27
16540789 TGGAATGTTC
16540799 TTAGGCACTTCTGA-GCTTGGAACACCT
1 TTAGGCACTTCT-ACGCTTGGAACACCT
* * *
16540826 TT-GGACATTTCTACGCTTGAAATGCTCC-
1 TTAGG-CACTTCTACGCTTGGAA--CACCT
* *
16540854 TT-GGACGCTTCTAC-CTTTGGAACGCCT
1 TTAGG-CACTTCTACGC-TTGGAACACCT
* ** * * *
16540881 TTAAGTGCTTCTATGGTTGGAACGCCT
1 TTAGGCACTTCTACGCTTGGAACACCT
*
16540908 TTAGGCACTTCCACGCTTGGAACACCT
1 TTAGGCACTTCTACGCTTGGAACACCT
* * * * * *
16540935 CTAAGCACTTCCAC-ATTGAAACACTT
1 TTAGGCACTTCTACGCTTGGAACACCT
* * *
16540961 TTAGGCGCTTCCACACTTGGAACACCT
1 TTAGGCACTTCTACGCTTGGAACACCT
*
16540988 TTGGGCACTTCTACGCTTGGAACACC
1 TTAGGCACTTCTACGCTTGGAACACC
16541014 CCTGATGTAA
Statistics
Matches: 146, Mismatches: 33, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
26 26 0.18
27 99 0.68
28 18 0.12
29 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (27 bp):
TTAGGCACTTCTACGCTTGGAACACCT
Found at i:16541293 original size:15 final size:15
Alignment explanation
Indices: 16541273--16541321 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
16541263 CACTTTAGGT
16541273 AATAACACCTTATAC
1 AATAACACCTTATAC
* ** *
16541288 AGTAACGTCTTACAC
1 AATAACACCTTATAC
*
16541303 AATAACACCTTATGC
1 AATAACACCTTATAC
16541318 AATA
1 AATA
16541322 TTTAGAGTAA
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (15 bp):
AATAACACCTTATAC
Found at i:16543699 original size:26 final size:23
Alignment explanation
Indices: 16543637--16543696 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
16543627 TATACGTATA
* *
16543637 CCCATCATCATCCTGCACACCAT
1 CCCATCATCATCATACACACCAT
16543660 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
16543683 CACATCATCATCAT
1 CCCATCATCATCAT
16543697 CATCAGCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:16543753 original size:43 final size:43
Alignment explanation
Indices: 16543706--16543815 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
16543696 TCATCAGCTC
* **
16543706 ATGCGCACTCCTTACTCGCACATGGCTGGGTCATCAC-CGAG-TT
1 ATGCGCACTCCCTACTCGCACATAACTGGGTCATC-CTCG-GCTT
*
16543749 ATGCGCACTCCCTACTCGCACATAATTGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCCTCGGCTT
16543792 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
16543816 GCCGAGTCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 2 0.03
43 59 0.97
ACGTcount: A:0.20, C:0.35, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACTGGGTCATCCTCGGCTT
Found at i:16551273 original size:3 final size:3
Alignment explanation
Indices: 16551265--16551296 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
16551255 ACATGTTACT
16551265 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
16551297 TTTTTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:16572156 original size:29 final size:29
Alignment explanation
Indices: 16572111--16572168 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
16572101 CCTTATATAA
*
16572111 CCATCATCATCTAGTCATCTTTGTGCTAT
1 CCATCATCATCTAGTCATCTTTCTGCTAT
* *
16572140 CCATCATCATTTGGTCATCTTTCTGCTAT
1 CCATCATCATCTAGTCATCTTTCTGCTAT
16572169 GCTGATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.19, C:0.28, G:0.10, T:0.43
Consensus pattern (29 bp):
CCATCATCATCTAGTCATCTTTCTGCTAT
Found at i:16574919 original size:18 final size:19
Alignment explanation
Indices: 16574896--16574943 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
16574886 ATAGTGGGTG
16574896 AAAAAAATATTTTA-GAAT
1 AAAAAAATATTTTATGAAT
*
16574914 AAAAAAATATTTTATTAAT
1 AAAAAAATATTTTATGAAT
*
16574933 AAAATAATATT
1 AAAAAAATATT
16574944 AAAATATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAAAATATTTTATGAAT
Found at i:16580022 original size:16 final size:16
Alignment explanation
Indices: 16580001--16580039 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16579991 TTTTTTGTTT
*
16580001 ATTTCATTTGCATTTC
1 ATTTCATATGCATTTC
*
16580017 ATTTCACATGCATTTC
1 ATTTCATATGCATTTC
*
16580033 CTTTCAT
1 ATTTCAT
16580040 GCACCACTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (16 bp):
ATTTCATATGCATTTC
Found at i:16590224 original size:19 final size:19
Alignment explanation
Indices: 16590196--16590233 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16590186 TTCCTACCAA
16590196 GAATGAATCAATACATTTT
1 GAATGAATCAATACATTTT
* *
16590215 GAATGTATCAATGCATTTT
1 GAATGAATCAATACATTTT
16590234 CCCTTGTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (19 bp):
GAATGAATCAATACATTTT
Found at i:16591485 original size:28 final size:28
Alignment explanation
Indices: 16591431--16591485 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
16591421 TTTTCGAGTG
* *
16591431 TAGGGGTAAAATAGTCATTTTGCCACCC
1 TAGGGGTAAAATAGTAATTTTGACACCC
*
16591459 TAGGGGTAAAAATTGTAATTTT-ACACC
1 TAGGGGT-AAAATAGTAATTTTGACACC
16591486 ACCCAACACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (28 bp):
TAGGGGTAAAATAGTAATTTTGACACCC
Found at i:16591708 original size:11 final size:11
Alignment explanation
Indices: 16591694--16591732 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
16591684 CGGCCAAAAC
16591694 AAGAACAAAGG
1 AAGAACAAAGG
16591705 AAGAACAAAGG
1 AAGAACAAAGG
16591716 AAG-A-AAA-G
1 AAGAACAAAGG
16591724 AAGAACAAA
1 AAGAACAAA
16591733 AACCCTAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 4 0.15
11 14 0.54
ACGTcount: A:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGAACAAAGG
Found at i:16591790 original size:20 final size:21
Alignment explanation
Indices: 16591745--16591790 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
16591735 CCCTAGGTTA
*
16591745 AAAAATTCAAGGGAAAAGTGT
1 AAAAATTCAAGGGAAAAGAGT
*
16591766 GAAAATTCAA-GGAAACA-AGT
1 AAAAATTCAAGGGAAA-AGAGT
16591786 AAAAA
1 AAAAA
16591791 AAGGTAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.59, C:0.07, G:0.20, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAGGGAAAAGAGT
Found at i:16591791 original size:21 final size:20
Alignment explanation
Indices: 16591743--16591791 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
16591733 AACCCTAGGT
*
16591743 TAAAAAATTCAAGGGAAAAG
1 TAAAAAATTCAAGGAAAAAG
**
16591763 TGTGAAAATTCAAGGAAACAAG
1 T-AAAAAATTCAAGGAAA-AAG
16591785 TAAAAAA
1 TAAAAAA
16591792 AGGTAAGATT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.16
Consensus pattern (20 bp):
TAAAAAATTCAAGGAAAAAG
Found at i:16596381 original size:21 final size:20
Alignment explanation
Indices: 16596355--16596422 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 20
16596345 GTTCATATAA
*
16596355 TTCATGATAGAGACTGATGCC
1 TTCATGACA-AGACTGATGCC
*
16596376 TTCATGACAAAGACAGATGCC
1 TTCATGAC-AAGACTGATGCC
16596397 TTCATGACAAGGACTGATGCC
1 TTCATGACAA-GACTGATGCC
*
16596418 ATCAT
1 TTCAT
16596423 TCAAAGTCAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.05
21 38 0.93
22 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (20 bp):
TTCATGACAAGACTGATGCC
Found at i:16605280 original size:2 final size:2
Alignment explanation
Indices: 16605273--16605326 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
16605263 TGTACATATT
*
16605273 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
16605315 CA CA TA CA CA CA
1 CA CA CA CA CA CA
16605327 TCAATTTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.46, G:0.00, T:0.04
Consensus pattern (2 bp):
CA
Found at i:16606003 original size:20 final size:21
Alignment explanation
Indices: 16605978--16606017 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
16605968 TTTCCTCTTT
16605978 AATGTATCGATACAT-TGCCA
1 AATGTATCGATACATCTGCCA
16605998 AATGTATCGATACATCTGCC
1 AATGTATCGATACATCTGCC
16606018 CTAATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATCTGCCA
Found at i:16609684 original size:12 final size:13
Alignment explanation
Indices: 16609633--16609687 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 13
16609623 AACCAAGCTT
16609633 TTTCTTCCTTTCTC
1 TTTCTTCCTTTC-C
* *
16609647 TATTTTTCTTTCTCC
1 T-TTCTTCCTT-TCC
16609662 TTTCTTCCTTTCC
1 TTTCTTCCTTTCC
16609675 TTTC-TCCTTTCC
1 TTTCTTCCTTTCC
16609687 T
1 T
16609688 CCAACTGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 9 0.26
13 7 0.20
14 8 0.23
15 9 0.26
16 2 0.06
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTCTTCCTTTCC
Found at i:16610565 original size:21 final size:20
Alignment explanation
Indices: 16610539--16610578 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16610529 TTTGATGAAC
*
16610539 ATGTATCGATACATGTTCATA
1 ATGTATCAATACAT-TTCATA
*
16610560 ATGTATTAATACATTTCAT
1 ATGTATCAATACATTTCAT
16610579 CGATTTCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (20 bp):
ATGTATCAATACATTTCATA
Found at i:16611592 original size:68 final size:67
Alignment explanation
Indices: 16611518--16611765 Score: 293
Period size: 68 Copynumber: 3.7 Consensus size: 67
16611508 TCTATAAGAT
* ** * *
16611518 TATGTATATGTTGTAAATTCCATATACCATATGAGATGACCAAGTATGCATGATGT-ATACTATA
1 TATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGAT-TAATGCCATA
16611582 GGA
65 GGA
* * *
16611585 TGGTGTATATAATGTAAATTCCATATACCATATGAGGTGATTAAGTATGCATGATTAATGCCATG
1 T-ATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGATTAATGCCAT-
*
16611650 AGAA
64 AGGA
** * * *
16611654 TATGTGCATGATGTATATTCCATATACTACATGAGATGATTAAGTATGCATGATTAATGCCAT-G
1 TATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGATTAATGCCATAG
16611718 AGA
66 -GA
* *
16611721 TTATGTATATGATGTAAATTCCATATACCTTATGAGATGAGTAAG
1 -TATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAG
16611766 CATGTATGTG
Statistics
Matches: 151, Mismatches: 25, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
66 1 0.01
67 3 0.02
68 143 0.95
69 4 0.03
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (67 bp):
TATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGATTAATGCCATAG
GA
Found at i:16611925 original size:30 final size:31
Alignment explanation
Indices: 16611891--16611952 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
16611881 AAAATGCCTA
*
16611891 AGGGTG-AATGGGGATATACGTTGCCAGCCC
1 AGGGTGCAATGGGGATATACATTGCCAGCCC
16611921 AGGGTGCAATGGGGATATACATTGCCAGCCC
1 AGGGTGCAATGGGGATATACATTGCCAGCCC
16611952 A
1 A
16611953 AGGTTGGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.19
Consensus pattern (31 bp):
AGGGTGCAATGGGGATATACATTGCCAGCCC
Found at i:16612400 original size:16 final size:17
Alignment explanation
Indices: 16612379--16612410 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16612369 TGAATTTGAT
16612379 AAGGATTT-TAAAGGTA
1 AAGGATTTCTAAAGGTA
16612395 AAGGATTTCTAAAGGT
1 AAGGATTTCTAAAGGT
16612411 TATATAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (17 bp):
AAGGATTTCTAAAGGTA
Found at i:16619167 original size:30 final size:30
Alignment explanation
Indices: 16619136--16619191 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
16619126 AAAAGTATTA
*
16619136 AAATAAAA-ATAAGAAAA-GAATCCTAATTT
1 AAATAAAATA-AAGAAAATAAATCCTAATTT
16619165 AAATAAAATAAAGAAAATAAATCCTAA
1 AAATAAAATAAAGAAAATAAATCCTAA
16619192 ATCAACTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.21
Consensus pattern (30 bp):
AAATAAAATAAAGAAAATAAATCCTAATTT
Found at i:16628519 original size:76 final size:76
Alignment explanation
Indices: 16628392--16628554 Score: 227
Period size: 76 Copynumber: 2.1 Consensus size: 76
16628382 AATGCCATCT
* * * *
16628392 ATTTTAATTTTTGGTGATTCATAAAGAATAAGAAATTATTTCTTACTTTAAATGTAATTCCTAAA
1 ATTTTAA-TTTTGGTGATTCATAAAGAACAAGAAATTATTTCCTACTTTAAAAGAAATTCCTAAA
*
16628457 ATTAAGGATAGA
65 ATTAAGAATAGA
* * *
16628469 ATTTTAATTTTGGTGATTCGTAAAGAACAAGAAATTGTTTCCTACTTTAAAAGAAATTTCTAAAA
1 ATTTTAATTTTGGTGATTCATAAAGAACAAGAAATTATTTCCTACTTTAAAAGAAATTCCTAAAA
**
16628534 TTAAGAATATC
66 TTAAGAATAGA
16628545 ATTTTAATTT
1 ATTTTAATTT
16628555 GTGAAATTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
76 69 0.91
77 7 0.09
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (76 bp):
ATTTTAATTTTGGTGATTCATAAAGAACAAGAAATTATTTCCTACTTTAAAAGAAATTCCTAAAA
TTAAGAATAGA
Found at i:16638594 original size:42 final size:42
Alignment explanation
Indices: 16638546--16638698 Score: 126
Period size: 42 Copynumber: 3.7 Consensus size: 42
16638536 ACAACTAATG
16638546 TCATCAT-GTGCTCCCCCCACATCTCGCACATGGCATATATCA
1 TCATCATCGTGCTCCCCCCACAT-TCGCACATGGCATATATCA
* * ***
16638588 TCATCATCGTGTGTACCCCCACA-TCGCACACAAC-TA-ATGC-
1 TCATCATCGTG-CTCCCCCCACATTCGCACATGGCATATAT-CA
* *
16638628 -CATCAT-GTGCTCCACCCACATTGTGCACATGGCATATATCA
1 TCATCATCGTGCTCCCCCCACATT-CGCACATGGCATATATCA
16638669 TCATCATCGTG-TGCACCCCCACA-TCGCACA
1 TCATCATCGTGCT-C-CCCCCACATTCGCACA
16638699 CAACTAATGC
Statistics
Matches: 85, Mismatches: 14, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
37 8 0.09
38 4 0.05
39 12 0.14
40 5 0.06
41 5 0.06
42 27 0.32
43 8 0.09
44 16 0.19
ACGTcount: A:0.25, C:0.37, G:0.13, T:0.24
Consensus pattern (42 bp):
TCATCATCGTGCTCCCCCCACATTCGCACATGGCATATATCA
Found at i:16638613 original size:81 final size:81
Alignment explanation
Indices: 16638523--16638730 Score: 330
Period size: 81 Copynumber: 2.6 Consensus size: 81
16638513 ATCATGTGAA
*
16638523 CCCCACATCGCGCACAACTAATGTCATCATGTGCTCCCCCCACATCT-CGCACATGGCATATATC
1 CCCCACATCGCACACAACTAATG-CATCATGTGCTCCCCCCACATCTGCGCACATGGCATATATC
*
16638587 ATCATCATCGTGTGTAC
65 ATCATCATCGTGTGCAC
* *
16638604 CCCCACATCGCACACAACTAATGCCATCATGTGCTCCACCCACAT-TGTGCACATGGCATATATC
1 CCCCACATCGCACACAACTAATG-CATCATGTGCTCCCCCCACATCTGCGCACATGGCATATATC
16638668 ATCATCATCGTGTGCAC
65 ATCATCATCGTGTGCAC
*
16638685 CCCCACATCGCACACAACTAATGCAATCAAGTGCTCCCCCCACATC
1 CCCCACATCGCACACAACTAATGC-ATCATGTGCTCCCCCCACATC
16638731 GCGTTCATCA
Statistics
Matches: 117, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
80 2 0.02
81 115 0.98
ACGTcount: A:0.27, C:0.38, G:0.12, T:0.22
Consensus pattern (81 bp):
CCCCACATCGCACACAACTAATGCATCATGTGCTCCCCCCACATCTGCGCACATGGCATATATCA
TCATCATCGTGTGCAC
Found at i:16642564 original size:38 final size:39
Alignment explanation
Indices: 16642490--16642573 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 39
16642480 CCTCGTGTGT
*** *
16642490 ACGATGTGGGGGGATGCACTTGATGGCATTAACTA-TGC
1 ACGATGTGGGGGGATGCACACAATGACATTAACTAGTGC
*
16642528 ACGATGTGGGGGGATGCACACAATGAC-TCTAGCTATGTGC
1 ACGATGTGGGGGGATGCACACAATGACAT-TAACTA-GTGC
16642568 ACGATG
1 ACGATG
16642574 ATGGAGGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
37 1 0.03
38 28 0.74
40 9 0.24
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (39 bp):
ACGATGTGGGGGGATGCACACAATGACATTAACTAGTGC
Found at i:16642618 original size:54 final size:53
Alignment explanation
Indices: 16642559--16642716 Score: 221
Period size: 54 Copynumber: 2.9 Consensus size: 53
16642549 AATGACTCTA
* *
16642559 GCTATGTGCACGATGAT-GGAGGATGCATATGAGCTAGGGGAGATGGGGTGTCTG
1 GCTATGTGCACGATG-TGGGGGGATGCATATGAGCT-GGGGAGATGGGGTGTCCG
* *
16642613 GCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGTTGAGATGGGGTGTCCG
1 GCTATGTGCACGATGTGGGGGGATGCATATGAGCTGG-GGAGATGGGGTGTCCG
16642667 GCTATGTGCACGATGTGGGGGGATGCACT-TGAGCTGGGTGAGATGGGGTG
1 GCTATGTGCACGATGTGGGGGGATGCA-TATGAGCTGGG-GAGATGGGGTG
16642717 GTATATGCTT
Statistics
Matches: 94, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
53 3 0.03
54 91 0.97
ACGTcount: A:0.18, C:0.13, G:0.45, T:0.24
Consensus pattern (53 bp):
GCTATGTGCACGATGTGGGGGGATGCATATGAGCTGGGGAGATGGGGTGTCCG
Found at i:16646691 original size:2 final size:2
Alignment explanation
Indices: 16646672--16646718 Score: 76
Period size: 2 Copynumber: 23.0 Consensus size: 2
16646662 CATTATAACC
*
16646672 AT AT ACT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16646715 AT AT
1 AT AT
16646719 CAATCATCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16657064 original size:40 final size:38
Alignment explanation
Indices: 16656973--16657075 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
16656963 ATACTGCCCG
* * * *
16656973 TGTGCATGATGTAGGAGGATGCACACGATGGCATTAAC
1 TGTGCATGATGTGGGGGGATGCACACGATGACATCAAC
*
16657011 TGTGCATGATGTGGGGGGATGCACACGATGAC-TCCGAC
1 TGTGCATGATGTGGGGGGATGCACACGATGACAT-CAAC
16657049 TATGTGCATGATGTGGGGGGATGCACA
1 --TGTGCATGATGTGGGGGGATGCACA
16657076 TGAGTTGGGT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.02
38 31 0.54
40 25 0.44
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (38 bp):
TGTGCATGATGTGGGGGGATGCACACGATGACATCAAC
Found at i:16657116 original size:54 final size:54
Alignment explanation
Indices: 16657043--16657204 Score: 252
Period size: 54 Copynumber: 3.0 Consensus size: 54
16657033 ACACGATGAC
* * *
16657043 TCCGACTATGTGCATGATGTGGGGGGATGCACATGAGTTGGGTGAGATAGGGTG
1 TCCGACTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGGTG
* * * *
16657097 TCCGGCTATGTACACGATGTGGGGAGATGCACATGAGCTGGTTGAGATGGGGTG
1 TCCGACTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGGTG
*
16657151 TCCGACTATGTGCACAATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGGTG
1 TCCGACTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGGTG
16657205 GTATACGGAT
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.20, C:0.14, G:0.42, T:0.24
Consensus pattern (54 bp):
TCCGACTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGGTG
Found at i:16660061 original size:145 final size:145
Alignment explanation
Indices: 16659798--16660086 Score: 515
Period size: 145 Copynumber: 2.0 Consensus size: 145
16659788 TAATCACTGA
*
16659798 GAAAAAGAGTTTGATATTGGATATGTTAGCACTTGACTCAAGTGTAATTGGGAGACTGTTGGTAT
1 GAAAAAGAGTTTGATATTGGATATGTTAGCAATTGACTCAAGTGTAATTGGGAGACTGTTGGTAT
* * * *
16659863 ATGCCCTTGAGCCAATTGGATTGGTCAAGTAGTATAGATTGTCATTGAATGCATGCTTAATCGCA
66 ATGCCCGTGAGCCAATTGGATCGGTCAAGAAGTATAGATTGTCATTGAATGCATACTTAATCGCA
16659928 TAACTATATGTGATT
131 TAACTATATGTGATT
* *
16659943 GAAAAAGAGTTTGATATTGGATATGTTAGCAATTGACTCAATTGTAATTGGGAGATTGTTGGTAT
1 GAAAAAGAGTTTGATATTGGATATGTTAGCAATTGACTCAAGTGTAATTGGGAGACTGTTGGTAT
16660008 ATGCCCGTGAGCCAATTGGATCGGTCAAGAAGTATAGATTGTCATTGAATGCATACTTAATCGCA
66 ATGCCCGTGAGCCAATTGGATCGGTCAAGAAGTATAGATTGTCATTGAATGCATACTTAATCGCA
16660073 TAACTATATGTGAT
131 TAACTATATGTGAT
16660087 AGAAGTTTTC
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 137 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (145 bp):
GAAAAAGAGTTTGATATTGGATATGTTAGCAATTGACTCAAGTGTAATTGGGAGACTGTTGGTAT
ATGCCCGTGAGCCAATTGGATCGGTCAAGAAGTATAGATTGTCATTGAATGCATACTTAATCGCA
TAACTATATGTGATT
Found at i:16660281 original size:23 final size:24
Alignment explanation
Indices: 16660250--16660298 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
16660240 TAAGTAGGCC
*
16660250 TAAGAGAT-AAATGAATGATGAAAA
1 TAAGAGATAAAATG-ATGAAGAAAA
16660274 TAAG-GATAAAATGATGAAGAAAA
1 TAAGAGATAAAATGATGAAGAAAA
16660297 TA
1 TA
16660299 GAAATAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.20
Consensus pattern (24 bp):
TAAGAGATAAAATGATGAAGAAAA
Found at i:16660557 original size:19 final size:20
Alignment explanation
Indices: 16660523--16660561 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
16660513 CTATAAATAT
16660523 CTCATTTCTCCAGTAGCTTC
1 CTCATTTCTCCAGTAGCTTC
*
16660543 CTCATTT-TTCAGTAGCTTC
1 CTCATTTCTCCAGTAGCTTC
16660562 TTGTTCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.15, C:0.31, G:0.10, T:0.44
Consensus pattern (20 bp):
CTCATTTCTCCAGTAGCTTC
Found at i:16661086 original size:2 final size:2
Alignment explanation
Indices: 16661079--16661113 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
16661069 ACATTATGTT
*
16661079 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16661114 GTTGTGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:16667980 original size:26 final size:26
Alignment explanation
Indices: 16667920--16667981 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
16667910 ACCATATACC
*
16667920 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
16667946 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
16667972 CATCATCATC
1 CATCATCATC
16667982 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:16668174 original size:83 final size:83
Alignment explanation
Indices: 16668035--16668282 Score: 496
Period size: 83 Copynumber: 3.0 Consensus size: 83
16668025 TCACGAAGCA
16668035 TCCCCCCCTTCACTCGGCAAGAGGTGCACTTCACTCCGGATCACGAAGCAACGGAGCAGTCCCTT
1 TCCCCCCCTTCACTCGGCAAGAGGTGCACTTCACTCCGGATCACGAAGCAACGGAGCAGTCCCTT
16668100 CCCTCCTCTTCCAAGCTT
66 CCCTCCTCTTCCAAGCTT
16668118 TCCCCCCCTTCACTCGGCAAGAGGTGCACTTCACTCCGGATCACGAAGCAACGGAGCAGTCCCTT
1 TCCCCCCCTTCACTCGGCAAGAGGTGCACTTCACTCCGGATCACGAAGCAACGGAGCAGTCCCTT
16668183 CCCTCCTCTTCCAAGCTT
66 CCCTCCTCTTCCAAGCTT
16668201 TCCCCCCCTTCACTCGGCAAGAGGTGCACTTCACTCCGGATCACGAAGCAACGGAGCAGTCCCTT
1 TCCCCCCCTTCACTCGGCAAGAGGTGCACTTCACTCCGGATCACGAAGCAACGGAGCAGTCCCTT
16668266 CCCTCCTCTTCCAAGCT
66 CCCTCCTCTTCCAAGCT
16668283 CTTGGGTGGA
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 165 1.00
ACGTcount: A:0.19, C:0.41, G:0.18, T:0.21
Consensus pattern (83 bp):
TCCCCCCCTTCACTCGGCAAGAGGTGCACTTCACTCCGGATCACGAAGCAACGGAGCAGTCCCTT
CCCTCCTCTTCCAAGCTT
Found at i:16668440 original size:42 final size:42
Alignment explanation
Indices: 16668382--16668504 Score: 210
Period size: 42 Copynumber: 2.9 Consensus size: 42
16668372 ATGGGGGCAA
* *
16668382 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
* *
16668424 CAACGGCTTATATGCACTCCTACTCGCACATAGTCGGGTCAG
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
16668466 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
16668505 TCAAATCAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
Found at i:16676151 original size:2 final size:2
Alignment explanation
Indices: 16676141--16676179 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
16676131 ACATATTTAC
*
16676141 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16676180 CCCATCATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16676241 original size:20 final size:20
Alignment explanation
Indices: 16676184--16676246 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
16676174 TATATACCCA
*
16676184 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
16676203 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
16676223 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
16676243 TCAT
1 TCAT
16676247 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:16676293 original size:43 final size:43
Alignment explanation
Indices: 16676245--16676363 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
16676235 TCACCAGCTC
** * *
16676245 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
16676288 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
16676331 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
16676364 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:16682651 original size:53 final size:53
Alignment explanation
Indices: 16682515--16682665 Score: 178
Period size: 53 Copynumber: 2.8 Consensus size: 53
16682505 TATACCACCA
* * * *
16682515 CATCTCATCTAGCTCATGTGCATCCCCTCACATCGTGCACATAGCTAGATATCC
1 CATCTCAACCAGCTCATGTGCATCCCC-CACATCGTGCACATAGCCAGATACCC
* * * *
16682569 CATCTCACCCAGCTCATGTGCATTCCCCCACATTGTGCACATAGCCGGA-CCCC
1 CATCTCAACCAGCTCATGTGCA-TCCCCCACATCGTGCACATAGCCAGATACCC
* *
16682622 CATCTTAACCAGCTCATGTGCATCGCCCCAGATCGTGCACATAG
1 CATCTCAACCAGCTCATGTGCATC-CCCCACATCGTGCACATAG
16682666 TCGAAATCAT
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 39 0.46
54 38 0.45
55 5 0.06
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.24
Consensus pattern (53 bp):
CATCTCAACCAGCTCATGTGCATCCCCCACATCGTGCACATAGCCAGATACCC
Found at i:16686670 original size:43 final size:43
Alignment explanation
Indices: 16686600--16686718 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
16686590 GTAATTATAT
* * *
16686600 TGACTCGGCTATGTGAGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
16686643 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
*** *
16686686 TGACCTAACCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
16686719 GAGCTGGTGA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:16686757 original size:23 final size:23
Alignment explanation
Indices: 16686723--16686767 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16686713 GCGCATGAGC
16686723 TGGTGATGATGATGATGATGGGG
1 TGGTGATGATGATGATGATGGGG
*
16686746 TGGTG-TGCATGATGGTGATGGG
1 TGGTGATG-ATGATGATGATGGG
16686768 TATATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.18, C:0.02, G:0.49, T:0.31
Consensus pattern (23 bp):
TGGTGATGATGATGATGATGGGG
Found at i:16687169 original size:21 final size:21
Alignment explanation
Indices: 16687140--16687181 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16687130 TTCATCAACT
* *
16687140 GAATTTCGCTGCAGCGAGAAA
1 GAATCTCGCTGCAACGAGAAA
16687161 GAATCTCGCTGCAACGAGAAA
1 GAATCTCGCTGCAACGAGAAA
16687182 CCTTTTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (21 bp):
GAATCTCGCTGCAACGAGAAA
Found at i:16694105 original size:43 final size:43
Alignment explanation
Indices: 16693991--16694108 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
16693981 TCAGCTATGC
**
16693991 GCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCAATTATGT
1 GCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAACCATGT
* * * * * *
16694034 TCGAGTAAGGAGTGCACATAACCCGGTGATGACCTAGCCATGT
1 GCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAACCATGT
* *
16694077 GCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 GCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
16694109 TGATGATGGG
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.26, C:0.19, G:0.36, T:0.19
Consensus pattern (43 bp):
GCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAACCATGT
Found at i:16696314 original size:37 final size:37
Alignment explanation
Indices: 16696273--16696391 Score: 161
Period size: 37 Copynumber: 3.2 Consensus size: 37
16696263 TATTGGGTGG
* *
16696273 TGATGTTGAAGTGTGTGAGTAGGGAGTGCACACATGA
1 TGATGATGAAGTGTGCGAGTAGGGAGTGCACACATGA
*
16696310 TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
1 TGATGATGAAGTGTGCGAGTAGGGAGTGCACACATGA
*
16696347 TGATAAT-AGAGTGTGCGAGTAGGGAGT-CTACACATGA
1 TGATGATGA-AGTGTGCGAGTAGGGAGTGC-ACACATGA
*
16696384 TGACGATG
1 TGATGATG
16696392 TCTGTATATA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.01
37 71 0.99
ACGTcount: A:0.29, C:0.10, G:0.37, T:0.24
Consensus pattern (37 bp):
TGATGATGAAGTGTGCGAGTAGGGAGTGCACACATGA
Found at i:16699810 original size:36 final size:36
Alignment explanation
Indices: 16699763--16699850 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 36
16699753 GTGCGTGTAC
* * ** * *
16699763 GGTGTGGGAGTGCACATAACGGTGTTAGTAGTGTGT
1 GGTGTAGGAGTGCACATAACGATGCCAGCAGAGTGT
16699799 GGTGTAGGAGTGCACATAACGATGCCAGCAGAGTGT
1 GGTGTAGGAGTGCACATAACGATGCCAGCAGAGTGT
*
16699835 AGTGTAGGAGTGCACA
1 GGTGTAGGAGTGCACA
16699851 CGTCGATGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.25, C:0.12, G:0.39, T:0.24
Consensus pattern (36 bp):
GGTGTAGGAGTGCACATAACGATGCCAGCAGAGTGT
Found at i:16702936 original size:20 final size:20
Alignment explanation
Indices: 16702911--16702953 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
16702901 GGAAGAAGAA
* *
16702911 GAAGAAGTTGCTAGAGAAAT
1 GAAGAAGCTGCTAGAAAAAT
16702931 GAAGAAGCTGCTAGAAAAAT
1 GAAGAAGCTGCTAGAAAAAT
16702951 GAA
1 GAA
16702954 ATCTTTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.28, T:0.16
Consensus pattern (20 bp):
GAAGAAGCTGCTAGAAAAAT
Found at i:16708478 original size:63 final size:61
Alignment explanation
Indices: 16708379--16708549 Score: 218
Period size: 63 Copynumber: 2.7 Consensus size: 61
16708369 TAATGGATGT
* *
16708379 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGCTGAATGATGAGGTTTCAATAGTTAC
1 AACCGTGCATGTGC-GAGTGGGCAGTGCACATGCCGG-TGAATGATGAGGTTGCAATAATTAC
* * *
16708442 AACCGTGCATGTGCGTATTGGGCAGTGCACATGCCGGTTGAATGATGATGTTGCGATAATTAC
1 AACCGTGCATGTGCG-AGTGGGCAGTGCACATGCCGG-TGAATGATGAGGTTGCAATAATTAC
* * *
16708505 TACTGTGCATGTGCAGAGTGGGAAGTGCACATGCCGGT-AATGATG
1 AACCGTGCATGTGC-GAGTGGGCAGTGCACATGCCGGTGAATGATG
16708550 CGTATGAGCT
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
61 7 0.07
62 2 0.02
63 86 0.90
64 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.26
Consensus pattern (61 bp):
AACCGTGCATGTGCGAGTGGGCAGTGCACATGCCGGTGAATGATGAGGTTGCAATAATTAC
Found at i:16712473 original size:22 final size:21
Alignment explanation
Indices: 16712448--16712490 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
16712438 GACAGAAAGT
16712448 TTCTCACTGCAGCGAGAATTCA
1 TTCTCACTGCAGCGAG-ATTCA
** *
16712470 TTCTTGCTGCAGTGAGATTCA
1 TTCTCACTGCAGCGAGATTCA
16712491 GGCAGTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (21 bp):
TTCTCACTGCAGCGAGATTCA
Found at i:16712554 original size:61 final size:61
Alignment explanation
Indices: 16712439--16712555 Score: 137
Period size: 61 Copynumber: 1.9 Consensus size: 61
16712429 AGCATGCAGG
* * **
16712439 ACAGAAAGTTTCTCACTGCAGCGAGAATTCATTCTTGCTGCAGTGAGATTCAGGCAGTTAA
1 ACAGAAAGTTTCTCACTGCAGCAAGAATTCATTCTCGCTGCAGCAAGATTCAGGCAGTTAA
* ** * *
16712500 ACAGAATGTTTCTTGCTGCAGCAAGAATTCATTCTCGTTGTAGCAAG-TTGCAGGCA
1 ACAGAAAGTTTCTCACTGCAGCAAGAATTCATTCTCGCTGCAGCAAGATT-CAGGCA
16712556 ACAAAAATAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
60 2 0.04
61 44 0.96
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (61 bp):
ACAGAAAGTTTCTCACTGCAGCAAGAATTCATTCTCGCTGCAGCAAGATTCAGGCAGTTAA
Found at i:16713818 original size:20 final size:20
Alignment explanation
Indices: 16713787--16713834 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
16713777 ATGGAAGGAA
*
16713787 GAAAAA-GAAGAAGTTGCTG
1 GAAAAATGAAGAAGCTGCTG
*
16713806 GAGAAATGAAGAAGCTGCTG
1 GAAAAATGAAGAAGCTGCTG
16713826 GAAAAATGA
1 GAAAAATGA
16713835 GATCTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.48, C:0.06, G:0.31, T:0.15
Consensus pattern (20 bp):
GAAAAATGAAGAAGCTGCTG
Found at i:16717916 original size:58 final size:54
Alignment explanation
Indices: 16717743--16717962 Score: 305
Period size: 54 Copynumber: 4.0 Consensus size: 54
16717733 ATTAGTATAC
* * ** * *
16717743 CACCACATCTCATCCAATTCATGTGTACCCCCCCACATCGTGCACATAGCCGGA
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
*
16717797 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGAA
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
* *
16717851 CACCCCATCTCACCCAGCCTCCATGTGCATTCCCCCNCACATTGTGCACATAGTCGGA
1 CACCCCATCTCACCCAG-CT-CATGTGCA-TCCCCC-CACATCGTGCACATAGCCGGA
* *
16717909 CATCCCATCTCACCCAGCTCATGTGTATCCCCCCACATCGTGCACATAGCCGGA
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
16717963 GTCATCGTGT
Statistics
Matches: 148, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
54 83 0.56
55 8 0.05
56 15 0.10
57 8 0.05
58 34 0.23
ACGTcount: A:0.23, C:0.43, G:0.14, T:0.20
Consensus pattern (54 bp):
CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
Found at i:16723178 original size:25 final size:25
Alignment explanation
Indices: 16723141--16723215 Score: 105
Period size: 25 Copynumber: 2.9 Consensus size: 25
16723131 TTTTCCAATT
* *
16723141 TTTTCCTATTTGGGCTAAGCCCATTTA
1 TTTT-CTA-TTGGGCCATGCCCATTTA
*
16723168 TTTTCTATTGGGCCATGCCCACTTA
1 TTTTCTATTGGGCCATGCCCATTTA
16723193 TTTTCTATTGGGCCATGCCCATT
1 TTTTCTATTGGGCCATGCCCATT
16723216 CTTTTATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 37 0.84
26 3 0.07
27 4 0.09
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (25 bp):
TTTTCTATTGGGCCATGCCCATTTA
Found at i:16723395 original size:36 final size:34
Alignment explanation
Indices: 16723355--16723424 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
16723345 TTTTCTCCCT
*
16723355 CAAATTGGCAGCACAAT-GCTGTCCAATTTTTTTGCA
1 CAAATTGGCAGCA-AATAGC--TCCAATTTTTCTGCA
*
16723391 CAAATTGGTAGCAAATAGCTCCAATTTTTCTGCA
1 CAAATTGGCAGCAAATAGCTCCAATTTTTCTGCA
16723425 TCCAAAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 14 0.45
35 3 0.10
36 14 0.45
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (34 bp):
CAAATTGGCAGCAAATAGCTCCAATTTTTCTGCA
Found at i:16725943 original size:512 final size:511
Alignment explanation
Indices: 16724979--16726003 Score: 1876
Period size: 512 Copynumber: 2.0 Consensus size: 511
16724969 AACCTTCCGG
16724979 CATTCAAACATTTATCCAACCATTGACTACGGGTCTAATTTGTCAACCTATCTTTATTTCGATTT
1 CATTCAAACATTTATCCAACCATTGACTACGGGTCTAATTTGTCAACCTATCTTTATTTCGATTT
16725044 ACACACTTCCATACCATTTCCATGCGAGCATTTCATAATACGTAAAGATCAAGACATGTTTTATT
66 ACACACTTCCATACCATTTCCATGCGAGCATTTCATAATACGTAAAGATCAAGACATGTTTTATT
16725109 TATTTCAAATATATTTAACATCAGAGATGATTCAAATCTAACAACCATTAGTAACTATATTCTCA
131 TATTTCAAATATATTTAACATCAGAGATGATTCAAATCTAACAACCATTAGTAACTATATTCTCA
*
16725174 AAAATAAAACTCCAGTACTTTCATGATCGAGTGCTCGCTAGATAATTTCAACTTACACCATAAGA
196 AAAATAAAACTCCAGTACTTTCATGATCGAGTGCTCGCTAGATAATTTCAACTTACACCACAAGA
16725239 CATTTCGATAATTAACGATATTCTTGTATATATCTTTATAATCTTAATCAATCTCTTTAATCAAT
261 CATTTCGATAATTAACGATATTCTTGTATATATCTTTATAATCTTAATCAATCTCTTTAATCAAT
*
16725304 AGCTAATTTGTTCATCATCAATCACAAATAGCATATCTAACTTGAAATTCTTCAAATTTACTCTA
326 AGCTAATTTGTTCATCATCAATCACAAATAGCATATCTAACTTGAAATTCCTCAAATTTACTCTA
16725369 AATGCCAAATCCCACGGTCTCATTACCAAAGCCTTTGCTAGTATATGAATATTCAAAATCTCAAA
391 AATGCCAAATCCCACGGTCTCATTACCAAAGCCTTTGCTAGTATATGAATATTCAAAATCTCAAA
* * *
16725434 TCATCTTCTCTTCCTAAATGGATCTTTATAATTCCCGTAACGTATTTCTATTCCTT
456 TCATCTTCTCTTCCAAAATGGATCTTTATAATTCACGTAACGTATTTATATTCCTT
16725490 NCATTCAAACATTTATCCAACCATTGACTACGGGTCTAATTTGTCAACCTATCTTTATTTCGATT
1 -CATTCAAACATTTATCCAACCATTGACTACGGGTCTAATTTGTCAACCTATCTTTATTTCGATT
16725555 TACACACTTCCATACCATTTCCATGCGAGCATTTCATAATACGTAAAGATCAAGACATGTTTTAT
65 TACACACTTCCATACCATTTCCATGCGAGCATTTCATAATACGTAAAGATCAAGACATGTTTTAT
* *
16725620 TTATTTCAAATATATTTAACATCAGAGATGATTCAAATCTAATAACCATTAGTAACTGTATTCTC
130 TTATTTCAAATATATTTAACATCAGAGATGATTCAAATCTAACAACCATTAGTAACTATATTCTC
*
16725685 AAAAATAAAACTCCAGTACTTTCATGATCGAGTGCTCGCTAGATAATTTCAACTTATACCACAAG
195 AAAAATAAAACTCCAGTACTTTCATGATCGAGTGCTCGCTAGATAATTTCAACTTACACCACAAG
*
16725750 ACATTTCGATAATTAACGATATTCTTGTATATATCTTTATAATCTTAATCAATCTTTTTAATCAA
260 ACATTTCGATAATTAACGATATTCTTGTATATATCTTTATAATCTTAATCAATCTCTTTAATCAA
* *
16725815 TAGCTAATTTGTTCATCATCAACTGCATACA-A-CATATCTAACTTGAAATTCCTCAAATTTACT
325 TAGCTAATTTGTTCATCATCAA-T-CACAAATAGCATATCTAACTTGAAATTCCTCAAATTTACT
*
16725878 CTAAATGCCAAATCTCACGGTCTCATTACCACAA-CCTTTGCTAGTATATGAATATTCAAAATCT
388 CTAAATGCCAAATCCCACGGTCTCATTACCA-AAGCCTTTGCTAGTATATGAATATTCAAAATCT
*
16725942 CAAATCATCTTCTCTTCCAAAATGGATCTTTATAATTCACGTAATGTATTTATATTCCTT
452 CAAATCATCTTCTCTTCCAAAATGGATCTTTATAATTCACGTAACGTATTTATATTCCTT
16726002 CA
1 CA
16726004 CTAAGGGTAA
Statistics
Matches: 497, Mismatches: 13, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
511 2 0.00
512 487 0.98
513 4 0.01
514 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (511 bp):
CATTCAAACATTTATCCAACCATTGACTACGGGTCTAATTTGTCAACCTATCTTTATTTCGATTT
ACACACTTCCATACCATTTCCATGCGAGCATTTCATAATACGTAAAGATCAAGACATGTTTTATT
TATTTCAAATATATTTAACATCAGAGATGATTCAAATCTAACAACCATTAGTAACTATATTCTCA
AAAATAAAACTCCAGTACTTTCATGATCGAGTGCTCGCTAGATAATTTCAACTTACACCACAAGA
CATTTCGATAATTAACGATATTCTTGTATATATCTTTATAATCTTAATCAATCTCTTTAATCAAT
AGCTAATTTGTTCATCATCAATCACAAATAGCATATCTAACTTGAAATTCCTCAAATTTACTCTA
AATGCCAAATCCCACGGTCTCATTACCAAAGCCTTTGCTAGTATATGAATATTCAAAATCTCAAA
TCATCTTCTCTTCCAAAATGGATCTTTATAATTCACGTAACGTATTTATATTCCTT
Found at i:16729768 original size:25 final size:25
Alignment explanation
Indices: 16729701--16729770 Score: 104
Period size: 25 Copynumber: 2.7 Consensus size: 25
16729691 TTTCCAATTT
* *
16729701 TTTTCCTATTTGGGCTAAGCCCACTTA
1 TTTT-CTA-TTGGGCCATGCCCACTTA
16729728 TTTTCTATTGGGCCATGCCCACTTA
1 TTTTCTATTGGGCCATGCCCACTTA
16729753 TTTTCTATTGGGCCATGC
1 TTTTCTATTGGGCCATGC
16729771 GCATTCTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 34 0.83
26 3 0.07
27 4 0.10
ACGTcount: A:0.16, C:0.26, G:0.17, T:0.41
Consensus pattern (25 bp):
TTTTCTATTGGGCCATGCCCACTTA
Found at i:16730012 original size:25 final size:24
Alignment explanation
Indices: 16729960--16730006 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
16729950 AAATTGGTAG
* * *
16729960 CAAACAGTTCTAATTTTTCTGCAA
1 CAAACAGCTCCAATTTTTCAGCAA
16729984 CAAACAGCTCCAATTTTTCAGCA
1 CAAACAGCTCCAATTTTTCAGCA
16730007 GCCAAAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.32
Consensus pattern (24 bp):
CAAACAGCTCCAATTTTTCAGCAA
Found at i:16736605 original size:20 final size:20
Alignment explanation
Indices: 16736558--16736605 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
16736548 GTTTTGGCCC
* * *
16736558 CATTTGACTTATTGGAGTAT
1 CATTTGAGTAATTGAAGTAT
16736578 CATTTGAGTAATTGAAGTAT
1 CATTTGAGTAATTGAAGTAT
*
16736598 GATTTGAG
1 CATTTGAG
16736606 GTTTAGAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (20 bp):
CATTTGAGTAATTGAAGTAT
Found at i:16764739 original size:25 final size:25
Alignment explanation
Indices: 16764711--16764765 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
16764701 TTTTTGTTTC
16764711 CTATTGGGCCATGCCCACTTATTTT
1 CTATTGGGCCATGCCCACTTATTTT
*
16764736 CTATTGGGCCATGCCCATTTATTTT
1 CTATTGGGCCATGCCCACTTATTTT
16764761 CTATT
1 CTATT
16764766 TCTTTTCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.44
Consensus pattern (25 bp):
CTATTGGGCCATGCCCACTTATTTT
Found at i:16764794 original size:16 final size:16
Alignment explanation
Indices: 16764757--16764791 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16764747 TGCCCATTTA
16764757 TTTTCTATTTCTTTTC
1 TTTTCTATTTCTTTTC
*
16764773 TTTTCTTTTTC-TTTC
1 TTTTCTATTTCTTTTC
16764788 TTTT
1 TTTT
16764792 TCTCTCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTATTTCTTTTC
Found at i:16764866 original size:22 final size:22
Alignment explanation
Indices: 16764838--16764885 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
16764828 CCGTCACTCC
16764838 CTTCACCACCATGGCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
*
16764860 CTTCACCACCATGGCTTCTTCT
1 CTTCACCACCATGGCTTCCTCT
16764882 CTTC
1 CTTC
16764886 CTTTCTTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.44, G:0.08, T:0.35
Consensus pattern (22 bp):
CTTCACCACCATGGCTTCCTCT
Found at i:16765082 original size:34 final size:34
Alignment explanation
Indices: 16765043--16765130 Score: 122
Period size: 34 Copynumber: 2.6 Consensus size: 34
16765033 CACAAACTAT
* *
16765043 CAGCAAACAACTCCAATTTTTCTGCATAAATTGG
1 CAGCAAACAACTCAAATTTTTCTGCACAAATTGG
* *
16765077 TAGCAAACAGCTCAAATTTTTCTGCACAAATTGG
1 CAGCAAACAACTCAAATTTTTCTGCACAAATTGG
* *
16765111 CAGCAAACAGCTTAAATTTT
1 CAGCAAACAACTCAAATTTT
16765131 CAGCAGCCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (34 bp):
CAGCAAACAACTCAAATTTTTCTGCACAAATTGG
Found at i:16765674 original size:20 final size:20
Alignment explanation
Indices: 16765649--16765689 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
16765639 TGACTTTTTT
16765649 TCATTCCCATCCAAACCACA
1 TCATTCCCATCCAAACCACA
16765669 TCATTCCCATCCAAACCACA
1 TCATTCCCATCCAAACCACA
16765689 T
1 T
16765690 TCACCCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (20 bp):
TCATTCCCATCCAAACCACA
Found at i:16765697 original size:20 final size:20
Alignment explanation
Indices: 16765649--16765698 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16765639 TGACTTTTTT
*
16765649 TCATTCCCATCCAAACCACA
1 TCATCCCCATCCAAACCACA
*
16765669 TCATTCCCATCCAAACCACA
1 TCATCCCCATCCAAACCACA
16765689 TTCA-CCCCAT
1 -TCATCCCCAT
16765699 TCTTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.22
Consensus pattern (20 bp):
TCATCCCCATCCAAACCACA
Found at i:16770489 original size:37 final size:37
Alignment explanation
Indices: 16770434--16770533 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
16770424 ATATTGCCTT
*
16770434 TGCGTGATGTGGGGGGTGCAAACAATGGCATTAGCTA
1 TGCGTGATGTGGGGGGTGCACACAATGGCATTAGCTA
* * *
16770471 TGCGCGATGTGGGGGGTGCACACTATGGCATTAGCTG
1 TGCGTGATGTGGGGGGTGCACACAATGGCATTAGCTA
*
16770508 TGCGTGATGT-AGGGGTGCACACAATG
1 TGCGTGATGTGGGGGGTGCACACAATG
16770534 ACTCCAGCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
36 14 0.25
37 42 0.75
ACGTcount: A:0.21, C:0.16, G:0.39, T:0.24
Consensus pattern (37 bp):
TGCGTGATGTGGGGGGTGCACACAATGGCATTAGCTA
Found at i:16770607 original size:2 final size:2
Alignment explanation
Indices: 16770600--16770637 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
16770590 TACATGTTTC
16770600 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
16770638 AAGAGGTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16779609 original size:26 final size:26
Alignment explanation
Indices: 16779553--16779611 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
16779543 GGCCGGCCAT
* *
16779553 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
16779579 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
16779605 AAGGAAA
1 AAGGAAA
16779612 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:16790074 original size:21 final size:21
Alignment explanation
Indices: 16790050--16790089 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16790040 TGAGGCTGAA
*
16790050 ATTGATGATATTTTATGATAT
1 ATTGATGATATTTAATGATAT
* *
16790071 ATTGGTGGTATTTAATGAT
1 ATTGATGATATTTAATGAT
16790090 TGGTGAGGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (21 bp):
ATTGATGATATTTAATGATAT
Found at i:16800008 original size:2 final size:2
Alignment explanation
Indices: 16800001--16800030 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16799991 AATTGTATGA
16800001 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16800031 GCCTAGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16814661 original size:91 final size:89
Alignment explanation
Indices: 16814410--16814674 Score: 309
Period size: 91 Copynumber: 2.9 Consensus size: 89
16814400 TATTTTTCTG
* * * *
16814410 CCATTTTAAGGGTGACATGAGCAGCTTTAGTTACTAATTTTTTAAGGCTGAAAAGAGCAGCTTTG
1 CCATTTTGAGGGTGAAATGAGCAGCTTTAGTTACTGA-TTTTTAAGGCTGAAAAGAGAAG-TTTG
* *
16814475 GCTGTTGATTTTTAAGGTTTTGGCTA
64 GCTGCTGATTTTTGAGGTTTTGGCTA
* * * * *
16814501 CCAGTTTTGAGGGT-AAGAGGAGCAGCTTTAGTTACTGATTTTGAAGACTGAAAGGAGCAACTTT
1 CCA-TTTTGAGGGTGAA-ATGAGCAGCTTTAGTTACTGATTTTTAAGGCTGAAAAGAG-AAGTTT
*
16814565 GGCTGCTGATTTTTGAGGTTTTTGCTA
63 GGCTGCTGATTTTTGAGGTTTTGGCTA
* * * *
16814592 CCGATTTTGAGGGTGAAATGAGCAGCTTTGGTTACTGATTTTTAAGGCTGAAATGAGGAGTTTAA
1 CC-ATTTTGAGGGTGAAATGAGCAGCTTTAGTTACTGATTTTTAAGGCTGAAAAGAGAAGTTT-G
16814657 GCTGCTGATTTTTG-GGTT
64 GCTGCTGATTTTTGAGGTT
16814675 GAAAGAAGTA
Statistics
Matches: 148, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
90 8 0.05
91 108 0.73
92 32 0.22
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (89 bp):
CCATTTTGAGGGTGAAATGAGCAGCTTTAGTTACTGATTTTTAAGGCTGAAAAGAGAAGTTTGGC
TGCTGATTTTTGAGGTTTTGGCTA
Found at i:16814815 original size:19 final size:19
Alignment explanation
Indices: 16814799--16814841 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
16814789 GGGAGAGAGG
16814799 AGAAAGAGAAAGAGAGAAA
1 AGAAAGAGAAAGAGAGAAA
*
16814818 AGAACGAGAAAG-GAAGAAA
1 AGAAAGAGAAAGAG-AGAAA
16814837 AGAAA
1 AGAAA
16814842 AAAAAATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.00
Consensus pattern (19 bp):
AGAAAGAGAAAGAGAGAAA
Found at i:16815518 original size:63 final size:63
Alignment explanation
Indices: 16815357--16815527 Score: 211
Period size: 63 Copynumber: 2.7 Consensus size: 63
16815347 TAATGGATGT
* * * * * * *
16815357 AACCGTGCATGTCCGAAGCGGGCAGTGCACATGCCAGTTGAATGATGAGGTTTTGATAGTTGC
1 AACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTTGAATGATGAGGTTGTGATAATTAC
* ** * *
16815420 AACCGTGCATGTGCGGAGTAAGCAGTACACATGCCGGTTGAATGATGATGTTGTGATAATTAC
1 AACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTTGAATGATGAGGTTGTGATAATTAC
*
16815483 TACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGG-T-AATGATG
1 AACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTTGAATGATG
16815528 CATATGAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
61 7 0.08
62 1 0.01
63 84 0.91
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (63 bp):
AACCGTGCATGTACGGAGTGGGCAGTGCACATGCCGGTTGAATGATGAGGTTGTGATAATTAC
Found at i:16821061 original size:4 final size:4
Alignment explanation
Indices: 16821052--16821136 Score: 70
Period size: 4 Copynumber: 20.5 Consensus size: 4
16821042 CCATGCCCAC
*
16821052 TCTT TCTT TCTT T-TT T-TT CTTTT TCTTT TCTT TCCTT T-TT T-TT TCTTT
1 TCTT TCTT TCTT TCTT TCTT -TCTT TC-TT TCTT T-CTT TCTT TCTT TC-TT
16821100 TCTTT TCCTT TCTTT TCTT TCTT TCTT TCTT TCTT TC
1 TC-TT T-CTT TC-TT TCTT TCTT TCTT TCTT TCTT TC
16821137 ACCGTCCAGC
Statistics
Matches: 72, Mismatches: 1, Indels: 16
0.81 0.01 0.18
Matches are distributed among these distances:
3 11 0.15
4 35 0.49
5 25 0.35
6 1 0.01
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TCTT
Found at i:16821080 original size:5 final size:5
Alignment explanation
Indices: 16821054--16821135 Score: 86
Period size: 5 Copynumber: 17.4 Consensus size: 5
16821044 ATGCCCACTC
* *
16821054 TTTC- TTTCT TTT-T TTTCTT TTTCT TTTCT TTCCT TTTTT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
*
16821103 TTTCC TTTCT TTTC- TTTC- TTTC- TTTC- TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
16821136 CACCGTCCAG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
4 24 0.35
5 39 0.57
6 5 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:16821331 original size:34 final size:34
Alignment explanation
Indices: 16821293--16821370 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
16821283 TATTGACTTC
* *
16821293 AAAATCAGCAGC-TAAGCTGCTCTATT-TCTCCTCA
1 AAAATCAGCAGCTTAA-CTACACTATTCTC-CCTCA
16821327 AAAATCAGCAGCTTAACTACACTATTCTCCCTCA
1 AAAATCAGCAGCTTAACTACACTATTCTCCCTCA
16821361 AAAATCAGCA
1 AAAATCAGCA
16821371 ACCAAAGCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 35 0.88
35 5 0.12
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.26
Consensus pattern (34 bp):
AAAATCAGCAGCTTAACTACACTATTCTCCCTCA
Found at i:16826334 original size:21 final size:21
Alignment explanation
Indices: 16826308--16826359 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
16826298 GTGGGGGAGA
16826308 AGAAGAATGACAAAATTTTGG
1 AGAAGAATGACAAAATTTTGG
*
16826329 AGAAGAACGACAAAATTTTGG
1 AGAAGAATGACAAAATTTTGG
*
16826350 AGAAAAATGA
1 AGAAGAATGA
16826360 TGTTAATGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (21 bp):
AGAAGAATGACAAAATTTTGG
Found at i:16826776 original size:21 final size:22
Alignment explanation
Indices: 16826745--16826789 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
16826735 AGATAAAGAT
* *
16826745 GAAAGATAGAAAAGATAAGAAA
1 GAAAGATAGAAAAAAAAAGAAA
16826767 GAAAGA-AGAAAAAAAAAGAAA
1 GAAAGATAGAAAAAAAAAGAAA
16826788 GA
1 GA
16826790 GAAGTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (22 bp):
GAAAGATAGAAAAAAAAAGAAA
Done.