Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 149 of 211
Found at i:46925497 original size:5 final size:5
Alignment explanation
Indices: 46925487--46925530 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
46925477 CTATTAAGGA
46925487 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAA
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAA
46925531 GTTTTTTAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (5 bp):
TGAAT
Found at i:46927823 original size:69 final size:69
Alignment explanation
Indices: 46927713--46927911 Score: 296
Period size: 69 Copynumber: 2.9 Consensus size: 69
46927703 ATCGAGAGTC
* * * *
46927713 CGCCAAGACAATAAACATAGAG-TTACATTGTGTAAGACCATAGCTTGGCTATGACAACATATAA
1 CGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGACAACATATAA
46927777 AGTT
66 AGTT
*
46927781 CGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGA-AACATATG
1 CGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTAT-GACAACATATA
*
46927845 GAGTT
65 AAGTT
*
46927850 CGCCAGGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATTG-CAACATA
1 CGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTA-TGACAACATA
46927912 AGGAGTCTGC
Statistics
Matches: 120, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
68 19 0.16
69 98 0.82
70 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (69 bp):
CGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGACAACATATAA
AGTT
Found at i:46927917 original size:69 final size:68
Alignment explanation
Indices: 46927708--46927962 Score: 291
Period size: 69 Copynumber: 3.7 Consensus size: 68
46927698 TCGGAATCGA
* * * *
46927708 GAGTCCGCCAAGACAATAAACATAGAGTTACATTGTGTAAGACCATAGCTTGGCTA-TGACAACA
1 GAGTTCGCCAAGACAATAAACATGGGGTTACATTGTGTAAGACCATAGCTCGGCTATTG-CAACA
46927772 TATA-
65 TA-AG
* * * *
46927776 AAGTTCGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGAAACA
1 GAGTTCGCCAAGACAATAAACATGGGG-TTACATTGTGTAAGACCATAGCTCGGCTATTGCAACA
*
46927841 TATG
65 TAAG
* *
46927845 GAGTTCGCCAGGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATTGCAACA
1 GAGTTCGCCAAGACAATAAACATGGGG-TTACATTGTGTAAGACCATAGCTCGGCTATTGCAACA
46927910 TAAG
65 TAAG
* * * * * *
46927914 GAG-TCTGCCAGGACAACAAACATGAGGCTACATTGCGTAAGGCCATAGC
1 GAGTTC-GCCAAGACAATAAACATGGGGTTACATTGTGTAAGACCATAGC
46927963 CCAACTATGG
Statistics
Matches: 163, Mismatches: 20, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
68 43 0.26
69 119 0.73
70 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (68 bp):
GAGTTCGCCAAGACAATAAACATGGGGTTACATTGTGTAAGACCATAGCTCGGCTATTGCAACAT
AAG
Found at i:46936505 original size:49 final size:49
Alignment explanation
Indices: 46936424--46936517 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
46936414 TCAAGAAGAG
* * *
46936424 ATAAATAGTGATAAAAGTGTAGGCAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAAAGTGTAGACAGTAGAAGACCAAGTTTAGCAATGT
46936473 ATAAATAGTGA-AAAGAGTGTAGACAGTAGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAA-AGTGTAGACAGTAGAAGACCAAGTTTAGCA
46936518 TTGAATAGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 3 0.07
49 38 0.93
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAAAGTGTAGACAGTAGAAGACCAAGTTTAGCAATGT
Found at i:46937873 original size:25 final size:25
Alignment explanation
Indices: 46937845--46937988 Score: 118
Period size: 25 Copynumber: 5.8 Consensus size: 25
46937835 TTGTATGAGT
46937845 TTACCGATTTATAGCTCGTGAGAGC
1 TTACCGATTTATAGCTCGTGAGAGC
*
46937870 TTACCGATTCT-CAGCTCGT-ATGAGC
1 TTACCGATT-TATAGCTCGTGA-GAGC
*
46937895 TTACCGATTTATAGCTCATGAGAGC
1 TTACCGATTTATAGCTCGTGAGAGC
*
46937920 TTACCAATTCTCA-A-CTCGT-ATGAGC
1 TTACCGATT-T-ATAGCTCGTGA-GAGC
* ** *
46937945 TTACTGATTTGCAGCTCGTGAGGGC
1 TTACCGATTTATAGCTCGTGAGAGC
* * *
46937970 ATACGGATTCATAGCTCGT
1 TTACCGATTTATAGCTCGT
46937989 ATGAACATAC
Statistics
Matches: 95, Mismatches: 14, Indels: 20
0.74 0.11 0.16
Matches are distributed among these distances:
24 5 0.05
25 84 0.88
26 5 0.05
27 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (25 bp):
TTACCGATTTATAGCTCGTGAGAGC
Found at i:46937906 original size:50 final size:50
Alignment explanation
Indices: 46937831--46937992 Score: 209
Period size: 50 Copynumber: 3.2 Consensus size: 50
46937821 AAACACACCA
* *
46937831 CAGCTTGTATGAGTTTACCGATTTATAGCTCGTGAGAGCTTACCGATTCT
1 CAGCTCGTATGAGCTTACCGATTTATAGCTCGTGAGAGCTTACCGATTCT
* *
46937881 CAGCTCGTATGAGCTTACCGATTTATAGCTCATGAGAGCTTACCAATTCT
1 CAGCTCGTATGAGCTTACCGATTTATAGCTCGTGAGAGCTTACCGATTCT
* * ** * * *
46937931 CAACTCGTATGAGCTTACTGATTTGCAGCTCGTGAGGGCATACGGATTCAT
1 CAGCTCGTATGAGCTTACCGATTTATAGCTCGTGAGAGCTTACCGATTC-T
46937982 -AGCTCGTATGA
1 CAGCTCGTATGA
46937993 ACATACATGT
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
50 96 0.99
51 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATTTATAGCTCGTGAGAGCTTACCGATTCT
Found at i:46946454 original size:17 final size:17
Alignment explanation
Indices: 46946432--46946464 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46946422 TTAGTTGTTT
46946432 TATTTTCTTATTTTGTG
1 TATTTTCTTATTTTGTG
*
46946449 TATTTTTTTATTTTGT
1 TATTTTCTTATTTTGT
46946465 TGCTTGAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.03, G:0.09, T:0.76
Consensus pattern (17 bp):
TATTTTCTTATTTTGTG
Found at i:46947855 original size:12 final size:13
Alignment explanation
Indices: 46947815--46947855 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
46947805 ATTTGTAACT
46947815 TAATTATATTTAA
1 TAATTATATTTAA
* *
46947828 -AATTATTTTTAG
1 TAATTATATTTAA
46947840 TAATT-TATTTAA
1 TAATTATATTTAA
46947852 TAAT
1 TAAT
46947856 AAATTTTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
TAATTATATTTAA
Found at i:46947861 original size:26 final size:25
Alignment explanation
Indices: 46947815--46947863 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
46947805 ATTTGTAACT
*
46947815 TAATTATATTTAAAATTATTTTTAG
1 TAATTATATTTAAAATAATTTTTAG
46947840 TAATT-TATTTAATAATAAATTTTT
1 TAATTATATTTAA-AAT-AATTTTT
46947864 CCAATCCGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 8 0.38
26 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TAATTATATTTAAAATAATTTTTAG
Found at i:46949665 original size:29 final size:30
Alignment explanation
Indices: 46949608--46949665 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
46949598 GAGGTTAGGA
* *
46949608 TGAGAAGGGAGTAAAAGTTTTAGGTGAAAT
1 TGAGAAGGGAGTAAAAATTTTAGGAGAAAT
46949638 TGAGAA-GGAGTAAAAATTTT-GAGAGAAA
1 TGAGAAGGGAGTAAAAATTTTAG-GAGAAA
46949666 AGTAAAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 18 0.72
30 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (30 bp):
TGAGAAGGGAGTAAAAATTTTAGGAGAAAT
Found at i:46951392 original size:90 final size:90
Alignment explanation
Indices: 46951239--46951421 Score: 330
Period size: 90 Copynumber: 2.0 Consensus size: 90
46951229 GATCTCTACT
* *
46951239 TCTTTCTCATCCTGTACACCGTTGTTTGATTTTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
1 TCTTTCTCATCCTCTACACCGTTGTTTGATTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
*
46951304 TGGCAACTCTTTGAACGAGTCGATC
66 TGGCAACTCTTTGAACAAGTCGATC
*
46951329 TCTTTCTCATCCTCTACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
1 TCTTTCTCATCCTCTACACCGTTGTTTGATTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
46951394 TGGCAACTCTTTGAACAAGTCGATC
66 TGGCAACTCTTTGAACAAGTCGATC
46951419 TCT
1 TCT
46951422 GGTTCTGCTT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.37
Consensus pattern (90 bp):
TCTTTCTCATCCTCTACACCGTTGTTTGATTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
TGGCAACTCTTTGAACAAGTCGATC
Found at i:46951461 original size:66 final size:66
Alignment explanation
Indices: 46951355--46951487 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
46951345 CACCGTTGTT
46951355 TGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGCTGGCAACTCTTTGAACAAGTCGATCT
1 TGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGCTGGCAACTCTTTGAACAAGTCGATCT
46951420 C
66 C
46951421 TGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGCTGGCAACTCTTTGAACAAGTCGATCT
1 TGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGCTGGCAACTCTTTGAACAAGTCGATCT
46951486 C
66 C
46951487 T
1 T
46951488 TTCTCATCCT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (66 bp):
TGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGCTGGCAACTCTTTGAACAAGTCGATCT
C
Found at i:46957305 original size:51 final size:51
Alignment explanation
Indices: 46957224--46957337 Score: 219
Period size: 51 Copynumber: 2.2 Consensus size: 51
46957214 AAGGGACCAA
46957224 GTTGCACATTTTCAAAACTGTCAAGTACCCTATGAGTATTTACATTAATCT
1 GTTGCACATTTTCAAAACTGTCAAGTACCCTATGAGTATTTACATTAATCT
*
46957275 GTTGTACATTTTCAAAACTGTCAAGTACCCTATGAGTATTTACATTAATCT
1 GTTGCACATTTTCAAAACTGTCAAGTACCCTATGAGTATTTACATTAATCT
46957326 GTTGCACATTTT
1 GTTGCACATTTT
46957338 TTTAAAGGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (51 bp):
GTTGCACATTTTCAAAACTGTCAAGTACCCTATGAGTATTTACATTAATCT
Found at i:46957401 original size:32 final size:33
Alignment explanation
Indices: 46957365--46957445 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 33
46957355 GTAAAATTCA
*
46957365 ATTCAACTTAAACTCAAAAAATCAAATTACTT-
1 ATTCAACTTAAACTCAAAAAATCAAATAACTTG
* *
46957397 ATTCAAGC-TAAA-TAAAAAAATCGAATAACTTG
1 ATTCAA-CTTAAACTCAAAAAATCAAATAACTTG
*
46957429 ATTC-GCTT-AACTCAAAA
1 ATTCAACTTAAACTCAAAA
46957446 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
30 3 0.08
31 22 0.55
32 14 0.35
33 1 0.03
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.28
Consensus pattern (33 bp):
ATTCAACTTAAACTCAAAAAATCAAATAACTTG
Found at i:46960069 original size:108 final size:107
Alignment explanation
Indices: 46959875--46960089 Score: 367
Period size: 108 Copynumber: 2.0 Consensus size: 107
46959865 TTAAGCTCCG
* * *
46959875 ACCTTCCTAATAGCGGTCCTACATGGCAGTCCAGATGAGTTTTAAATGCCAACTTAGATGTCCTA
1 ACCTCCCTAATAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTTAGATATCCTA
* *
46959940 CGTGGTAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTT
66 CATGGCAGTCCAAATTAAATTTATTTAATT-AAAACCTATTTT
*
46959983 ACCTCCCTAATAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTTGGATATCCTA
1 ACCTCCCTAATAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTTAGATATCCTA
46960048 CATGGCAGTCCAAATTAAATTTATTTAATTAAAACCTATTTT
66 CATGGCAGTCCAAATTAAATTTATTTAATTAAAACCTATTTT
46960090 CATCCCAACA
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
107 12 0.12
108 89 0.88
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (107 bp):
ACCTCCCTAATAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTTAGATATCCTA
CATGGCAGTCCAAATTAAATTTATTTAATTAAAACCTATTTT
Found at i:46960931 original size:12 final size:11
Alignment explanation
Indices: 46960914--46960948 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
46960904 AACAAATCCT
46960914 CTCTCATATTTC
1 CTCTCA-ATTTC
46960926 CTCTCAA-TTC
1 CTCTCAATTTC
46960936 CTCTCAATTTC
1 CTCTCAATTTC
46960947 CT
1 CT
46960949 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:46960969 original size:20 final size:20
Alignment explanation
Indices: 46960946--46960985 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
46960936 CTCTCAATTT
46960946 CCTTCCAAAATTCTCTCAAA
1 CCTTCCAAAATTCTCTCAAA
46960966 CCTTCCAAAATTCTCTCAAA
1 CCTTCCAAAATTCTCTCAAA
46960986 TCTATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (20 bp):
CCTTCCAAAATTCTCTCAAA
Found at i:46961027 original size:51 final size:51
Alignment explanation
Indices: 46960966--46961071 Score: 169
Period size: 51 Copynumber: 2.1 Consensus size: 51
46960956 TTCTCTCAAA
* *
46960966 CCTTCCAAAATTCTCTCAAATCTATATTTAATTTCAATTT-TCTCTCAATTT
1 CCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCT-TCTCAATTT
*
46961017 CCTTCAAAAATTCTCTCAAATCCGTATTTAATTTCAATTTCTTCTCAATTT
1 CCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCTTCTCAATTT
46961068 CCTT
1 CCTT
46961072 TTTTAAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.01, T:0.46
Consensus pattern (51 bp):
CCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTCTTCTCAATTT
Found at i:46963395 original size:43 final size:45
Alignment explanation
Indices: 46963348--46963433 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 45
46963338 ATATTTTGAA
*
46963348 TATTTTGATATTATTTTATGTAA-AAAATAGAA-ATTATTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGATTATTTGAGT
*
46963391 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGATTATTTGA
46963434 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 22 0.56
44 9 0.23
45 8 0.21
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAGATTATTTGAGT
Found at i:46963475 original size:28 final size:27
Alignment explanation
Indices: 46963439--46963996 Score: 122
Period size: 23 Copynumber: 23.2 Consensus size: 27
46963429 TTTGATGTAA
46963439 TAAAAACCCTAACCTAACCTAATTTAAT
1 TAAAAACCCT-ACCTAACCTAATTTAAT
46963467 TAAAAA--C--CCTAACCTAATTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
46963490 TAAAAACCCTA---AA-CTAATTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
46963513 TAAAAACCCTA---AACCCTTAA-TTAA-
1 TAAAAACCCTACCTAA-CC-TAATTTAAT
* *
46963537 AAACCCTAAACCCTAACCCTAACCTAATTCAAT
1 TAA----AAACCCT-A-CCTAACCTAATTTAAT
* *
46963570 TAAAAACCATA---AACC---CTTAACT
1 TAAAAACCCTACCTAACCTAATTTAA-T
46963592 TAAAAACCC----TAACCTAATTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
46963615 TAAAAA--CT--CTAACCTAATTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
* *
46963638 TAAAAACTCTA---AACC---CTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
* *
46963659 TAAAAACCCTAACCCTAACATAATTCAAT
1 TAAAAACCCT-A-CCTAACCTAATTTAAT
* *
46963688 TAAAAACCATA---AACC---CTTAACT
1 TAAAAACCCTACCTAACCTAATTTAA-T
*
46963710 TAAAAATCCTAACCT-A----ATTTAAT
1 TAAAAACCCT-ACCTAACCTAATTTAAT
46963733 TAAAAA--C--CCTAACCTAATTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
* *
46963756 TAAAAACCTTA---AACC---CTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
46963777 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCT-A-CCTAACCTAATTTAAT
* * *
46963806 TAAAAGCCATA---AACC---CTTAACT
1 TAAAAACCCTACCTAACCTAATTTAA-T
46963828 TAAAAACCC----TAACCTAATTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
46963851 TAAAAA--C--CCTAACCTAATTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
* * *
46963874 TAAAAGCCATA---AACC---CTTAACT
1 TAAAAACCCTACCTAACCTAATTTAA-T
46963896 TAAAAACCC----TAACCTAATTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
*
46963919 TAAAAA--C--CCTAGCCTAATTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
*
46963942 TAAAAACCCTA---AACC---CTTAAT
1 TAAAAACCCTACCTAACCTAATTTAAT
*
46963963 TAAAAACCTTAACCCTAACCTAATTTAAT
1 TAAAAACCCT-A-CCTAACCTAATTTAAT
46963992 TAAAA
1 TAAAA
46963997 GCCATAAACC
Statistics
Matches: 400, Mismatches: 41, Indels: 177
0.65 0.07 0.29
Matches are distributed among these distances:
18 3 0.01
19 1 0.00
21 72 0.18
22 37 0.09
23 145 0.36
24 46 0.12
25 10 0.03
26 15 0.04
28 16 0.04
29 43 0.11
31 3 0.01
32 5 0.01
33 4 0.01
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (27 bp):
TAAAAACCCTACCTAACCTAATTTAAT
Found at i:46963481 original size:23 final size:23
Alignment explanation
Indices: 46963451--46963545 Score: 142
Period size: 23 Copynumber: 4.2 Consensus size: 23
46963441 AAAACCCTAA
46963451 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
46963474 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
*
46963497 CCTAAACTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
*
46963520 CCTAAACC---CTTAATTAAAAAC
1 CCT-AACCTAATTTAATTAAAAAC
46963541 CCTAA
1 CCTAA
46963546 ACCCTAACCC
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.03
21 15 0.22
23 48 0.71
24 3 0.04
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (23 bp):
CCTAACCTAATTTAATTAAAAAC
Found at i:46963633 original size:68 final size:66
Alignment explanation
Indices: 46963451--46964077 Score: 381
Period size: 68 Copynumber: 8.9 Consensus size: 66
46963441 AAAACCCTAA
**
46963451 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACTAATTTAATTAA
1 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AAC--CCTTAATTAA
46963516 AAAC
63 AAAC
* *
46963520 CCTAAACCCTTAA-TTAA-AAACCCTAAACCCTAACCCTAACCTAATTCAATTAAAAACCATAAA
1 CCT-AA-CC-TAATTTAATTAA----AAACCCTAA-CCTAA--T--TT-AATTAAAAACCCT-AA
46963583 CCCTTAACTTAAAAAC
52 CCCTTAA-TTAAAAAC
* *
46963599 CCTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACTCTAAACCCTTAATTAAAA
1 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTTAATTAAAA
46963664 AC
65 AC
* * * *
46963666 CCTAACCCTAACATAATTCAATTAAAAACCATAAACC---CTTAACTTAAAAATCCTAACCTAAT
1 CCTAA-CCT-A-AT--TT-AATTAAAAACCCT-AACCTAATTTAA-TTAAAAACCCTAACC---C
46963728 TTAATTAAAAAC
55 TTAATTAAAAAC
* *
46963740 CCTAACCTAATTTAATTAAAAACCTTAAACC---CTTAATTAAAAACCCTAACCCTAACCTAATT
1 CCTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAATTAAAAACCCTAACCCT----TAA-T
46963802 TAATTAAAAGC
60 T-A--AAAA-C
* * *
46963813 CATAAACC---CTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATT
1 CCT-AACCTAATTTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACC---CTTAATT
*
46963875 AAAAGC
61 AAAAAC
* * * *
46963881 CATAAACC---CTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATT
1 CCT-AACCTAATTTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACC---CTTAATT
46963943 AAAAAC
61 AAAAAC
* *
46963949 CCTAAACCCTTAA-TTAA--AAACCTTAACCCTAACCTAATTTAATTAAAAGCCATAAACCCTTA
1 CCT-AA-CC-TAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAACCCT-AACCCTTA
*
46964011 ACTTAAAAAT
58 A-TTAAAAAC
*
46964021 CCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAA-CCTTAA
1 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTTAA
46964078 CGTAATGTTA
Statistics
Matches: 466, Mismatches: 34, Indels: 119
0.75 0.05 0.19
Matches are distributed among these distances:
64 1 0.00
66 6 0.01
67 29 0.06
68 147 0.32
69 21 0.05
70 13 0.03
71 32 0.07
72 48 0.10
73 52 0.11
74 64 0.14
75 5 0.01
76 3 0.01
77 8 0.02
78 8 0.02
79 13 0.03
80 16 0.03
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (66 bp):
CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTTAATTAAAAA
C
Found at i:46963683 original size:50 final size:51
Alignment explanation
Indices: 46963623--46963723 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 51
46963613 ATTAAAAACT
* *
46963623 CTAACCTAATTTAATTAAAAACTC-TAAACCCTTAA-TTAAAAACCCTAACC
1 CTAACATAATTCAATTAAAAAC-CATAAACCCTTAACTTAAAAACCCTAACC
*
46963673 CTAACATAATTCAATTAAAAACCATAAACCCTTAACTTAAAAATCCTAACC
1 CTAACATAATTCAATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACC
46963724 TAATTTAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 1 0.02
50 31 0.67
51 14 0.30
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.27
Consensus pattern (51 bp):
CTAACATAATTCAATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACC
Found at i:46963708 original size:118 final size:118
Alignment explanation
Indices: 46963462--46964027 Score: 735
Period size: 118 Copynumber: 4.7 Consensus size: 118
46963452 CTAACCTAAT
* *
46963462 TTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAA
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAA
46963526 CCCTTAATTAAAAACCCTAAACCCTAACCCTAACCTAATTCAATTAAAAACCATAAACCC
66 CCCTTAATTAAAAACCCT-AACCCTAA--C--A--TAATTCAATTAAAAACCATAAACCC
*
46963586 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACTC-TAA
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAAC-CATAA
46963650 ACCCTTAATTAAAAACCCTAACCCTAACATAATTCAATTAAAAACCATAAACCC
65 ACCCTTAATTAAAAACCCTAACCCTAACATAATTCAATTAAAAACCATAAACCC
* *
46963704 TTAACTTAAAAATCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAA
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAA
* * *
46963769 CCCTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAGCCATAAACCC
66 CCCTTAATTAAAAACCCTAACCCTAACATAATTCAATTAAAAACCATAAACCC
*
46963822 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAGCCATAAA
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAA
* * *
46963887 CCCTTAACTTAAAAACCCTAA-CCT-A-AT--TT-AATTAAAAACCCT-AGCCTAAT
66 CCCTTAA-TTAAAAACCCTAACCCTAACATAATTCAATTAAAAACCATAAACC---C
*
46963937 TTAA-TTAAAAACCCTAAACCCTTAA-TTAA--AAACCTTAACCCTAACCTAATTTAATTAAAAG
1 TTAACTTAAAAACCCT-AA-CC-TAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAA
*
46963998 CCATAAACCCTTAACTTAAAAATCCTAACC
59 CCATAAACCCTTAA-TTAAAAACCCTAACC
46964028 TAATTTAATT
Statistics
Matches: 411, Mismatches: 16, Indels: 35
0.89 0.03 0.08
Matches are distributed among these distances:
112 3 0.01
113 11 0.03
114 16 0.04
115 6 0.01
116 7 0.02
117 5 0.01
118 260 0.63
119 14 0.03
120 1 0.00
122 1 0.00
124 12 0.03
125 74 0.18
126 1 0.00
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (118 bp):
TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAA
CCCTTAATTAAAAACCCTAACCCTAACATAATTCAATTAAAAACCATAAACCC
Found at i:46963723 original size:21 final size:20
Alignment explanation
Indices: 46963685--46963978 Score: 147
Period size: 23 Copynumber: 12.9 Consensus size: 20
46963675 AACATAATTC
*
46963685 AATTAAAAACCATAAACCCTT
1 AATTAAAAACCCT-AACCCTT
* *
46963706 AACTTAAAAATCCTAACCTAATTT
1 AA-TTAAAAACCCTAACC---CTT
*
46963730 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACC---CTT
*
46963753 AATTAAAAACCTTAAACCCTT
1 AATTAAAAACCCT-AACCCTT
46963774 AATTAAAAACCCTAACCCTAACCT
1 AATTAAAAACCCTAACCCT----T
*
46963798 AATTTAATTAAAAGCCATAAACCCTT
1 AA-TT-A--AAAA-CCCT-AACCCTT
*
46963824 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACC---CTT
*
46963848 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACC---CTT
* *
46963871 AATTAAAAGCCATAAACCCTT
1 AATTAAAAACCCT-AACCCTT
*
46963892 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACC---CTT
* *
46963916 AATTAAAAACCCTAGCCTAATTT
1 AATTAAAAACCCTAACC---CTT
46963939 AATTAAAAACCCTAAACCCTT
1 AATTAAAAACCCT-AACCCTT
*
46963960 AATTAAAAACCTTAACCCT
1 AATTAAAAACCCTAACCCT
46963979 AACCTAATTT
Statistics
Matches: 228, Mismatches: 21, Indels: 49
0.77 0.07 0.16
Matches are distributed among these distances:
20 12 0.05
21 46 0.20
22 21 0.09
23 101 0.44
24 26 0.11
25 3 0.01
26 6 0.03
28 4 0.02
29 3 0.01
30 6 0.03
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (20 bp):
AATTAAAAACCCTAACCCTT
Found at i:46963770 original size:30 final size:30
Alignment explanation
Indices: 46963736--46963822 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 30
46963726 ATTTAATTAA
*
46963736 AAACCCTAACCTAATTTAATTAAAAACCTT
1 AAACCCTAACCTAATTTAATTAAAAACCAT
*
46963766 AAA--C---CC---T-TAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCAT
*
46963787 -AACCCTAACCTAATTTAATTAAAAGCCAT
1 AAACCCTAACCTAATTTAATTAAAAACCAT
46963816 AAACCCT
1 AAACCCT
46963823 TAACTTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 20
0.66 0.04 0.30
Matches are distributed among these distances:
20 2 0.05
21 13 0.30
22 2 0.05
25 4 0.09
28 2 0.05
29 12 0.27
30 9 0.20
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (30 bp):
AAACCCTAACCTAATTTAATTAAAAACCAT
Found at i:46963877 original size:186 final size:185
Alignment explanation
Indices: 46963451--46964067 Score: 754
Period size: 186 Copynumber: 3.3 Consensus size: 185
46963441 AAAACCCTAA
* **
46963451 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACTAATTTAA-TTA
1 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAAC--CCTTAACTTA
* * *
46963515 AAAACCCTAAACCCTTAATTAAAAACCCTAAACCCTAACCCTAACCTAATTCAATTAAAAACCAT
64 AAAACCCT-AA-CC-TAATT--TAA--TTAAA----AACCCTAACCTAATTTAATTAAAAACCAT
* *
46963580 AAACCCTTAACTT--AAA---AACCCTAACCTAATTTAATTAAAAACTC-T-AACCTAATTTAA-
118 AAACCCTTAA-TTAAAAACCTAACCCTAACCTAATTTAATTAAAAGC-CATAAACC---CTTAAC
46963637 TTAAAAAC
178 TTAAAAAC
* *
46963645 TCTAAACC---CTTAATTAAAAACCCTAACCCTAACATAATTCAATTAAAAACCATAAACCCTTA
1 CCT-AACCTAATTTAATTAAAAACCCTAA-CCT-A-AT--TT-AATTAAAAACCATAAACCCTTA
* *
46963707 ACTTAAAAATCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCC
59 ACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAACCC
46963772 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAAC
124 TTAATTAAAAA-CCTAACCCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAAC
*
46963835 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAA
1 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAACCCTTAACTTAAA
* *
46963900 AACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTAATTA
66 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAACCCTTAATTA
*
46963965 AAAACCTTAACCCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAAT
131 AAAACC-TAACCCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAAC
*
46964021 CCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAACC
1 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACC
46964068 CTAACCTTAA
Statistics
Matches: 381, Mismatches: 21, Indels: 50
0.84 0.05 0.11
Matches are distributed among these distances:
185 4 0.01
186 224 0.59
187 5 0.01
189 10 0.03
190 16 0.04
191 29 0.08
192 40 0.10
193 3 0.01
194 8 0.02
195 8 0.02
196 6 0.02
197 12 0.03
198 16 0.04
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (185 bp):
CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAACCCTTAACTTAAA
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAACCCTTAATTA
AAAACCTAACCCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAAC
Found at i:46964071 original size:18 final size:20
Alignment explanation
Indices: 46964025--46964067 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
46964015 AAAAATCCTA
46964025 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
46964046 TAGCCTAATTTAATTAAAAACC
1 -A-CCTAATTTAATTAAAAACC
46964068 CTAACCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:46964305 original size:118 final size:118
Alignment explanation
Indices: 46964080--46964299 Score: 372
Period size: 118 Copynumber: 1.9 Consensus size: 118
46964070 AACCTTAACG
* *
46964080 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
*
46964145 ATATTGCCATAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATATTGACATAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* *
46964198 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
*
46964263 AT-TTTAC-TAACCATTAATACAATTTTTTGACTTAATA
66 ATATTGACATAACCATTAATACAATTTTTTGACTTAATA
46964300 CAATTTATCA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
116 30 0.31
117 3 0.03
118 63 0.66
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (118 bp):
TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
ATATTGACATAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:46964316 original size:17 final size:18
Alignment explanation
Indices: 46964275--46964316 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
46964265 TTTACTAACC
* *
46964275 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
46964293 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
46964310 ATTAATA
1 ATTAATA
46964317 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:46967521 original size:126 final size:126
Alignment explanation
Indices: 46967294--46967521 Score: 339
Period size: 126 Copynumber: 1.8 Consensus size: 126
46967284 CCTAAACATG
* * * * *
46967294 CTACTGTAGCAAAAGCGCGTCCACGAGGGCCCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACAAAGGCCCGATTTCACAAATTCTTCTCAAATACCATCCTAC
* * *
46967359 TAGAAGCGATTTTATACTATTTGCTCAAAAATGTCAAAAAAATAATTATTTCTTCCGTGAC
66 TAGAAGCAATTTTATACTATTTGATCAAAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
*
46967420 CTACTGTAGCAAAAGCACGTCCACAAAGGCGCGATTTCACAAATTCTTCTCAAATACCATCCTAC
1 CTACTGTAGCAAAAGCACGTCCACAAAGGCCCGATTTCACAAATTCTTCTCAAATACCATCCTAC
* * * *
46967485 TAGAAGTAATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCAATTTTATACTATTTGATCAAAAACGTCAA
46967522 CTCGAAATTA
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
126 89 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCACGTCCACAAAGGCCCGATTTCACAAATTCTTCTCAAATACCATCCTAC
TAGAAGCAATTTTATACTATTTGATCAAAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
Found at i:46970655 original size:81 final size:80
Alignment explanation
Indices: 46970512--46970682 Score: 261
Period size: 81 Copynumber: 2.1 Consensus size: 80
46970502 TGTTTCGCTT
* *
46970512 ACACAAGCTTTTGTTTATGAATGACTCACACAAGCCTTCGTATTTGGGTTGCTTACACAAGCTTC
1 ACACAAGCTTTTGTTTATGAATGACTCACACAAGCCTTCGTATTTAGGTTGCTCACACAAGCTTC
*
46970577 ATATCAAGGTTGCTC
66 AAATCAAGGTTGCTC
* **
46970592 ACACAAGCTTTTGTTTATGAAATGGCTCACACAAGCCTTCGTATTTAGGTTGCTCACTTAAGCTT
1 ACACAAGCTTTTGTTTATG-AATGACTCACACAAGCCTTCGTATTTAGGTTGCTCACACAAGCTT
46970657 CAAATCAAGGTTGCTC
65 CAAATCAAGGTTGCTC
* *
46970673 AAAGAAGCTT
1 ACACAAGCTT
46970683 AGTTCGATTT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 19 0.23
81 63 0.77
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (80 bp):
ACACAAGCTTTTGTTTATGAATGACTCACACAAGCCTTCGTATTTAGGTTGCTCACACAAGCTTC
AAATCAAGGTTGCTC
Found at i:46972081 original size:5 final size:5
Alignment explanation
Indices: 46972073--46972099 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46972063 TATATAAAAG
46972073 TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TA
46972100 TAAACATAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:46972472 original size:16 final size:17
Alignment explanation
Indices: 46972451--46972485 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
46972441 CCCACCGGTA
*
46972451 TTAATTTTTTA-AATTT
1 TTAATTTTATATAATTT
46972467 TTAATTTTATATAATTT
1 TTAATTTTATATAATTT
46972484 TT
1 TT
46972486 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTAATTTTATATAATTT
Found at i:46974227 original size:27 final size:25
Alignment explanation
Indices: 46974164--46974227 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 25
46974154 GAGGTAAATA
* *
46974164 AAAAT-AAGTCAACTTAAACTCGAG
1 AAAATCAAGTCACCTTAAACTCAAG
*
46974188 -AAACCAAGTCACCTTATAGACTCAAG
1 AAAATCAAGTCACCTTA-A-ACTCAAG
46974214 AAAATCAAGTCACC
1 AAAATCAAGTCACC
46974228 AATGACTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 3 0.09
24 10 0.31
25 1 0.03
26 6 0.19
27 12 0.38
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (25 bp):
AAAATCAAGTCACCTTAAACTCAAG
Found at i:46978303 original size:40 final size:40
Alignment explanation
Indices: 46978243--46978380 Score: 165
Period size: 40 Copynumber: 3.5 Consensus size: 40
46978233 AACACACCAG
* * *
46978243 TTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * *
46978283 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* *
46978321 -TTGGCACCCAGTGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCCGAAGTAATAA
*
46978361 TTTGACACCCAGTGTCTCAT
1 TTTGACACCCAGTGCCTCAT
46978381 AGACTCGAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
37 21 0.26
38 10 0.12
39 2 0.02
40 31 0.38
41 17 0.21
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
Found at i:46979272 original size:4 final size:4
Alignment explanation
Indices: 46979263--46979350 Score: 83
Period size: 4 Copynumber: 21.5 Consensus size: 4
46979253 GTCTTTCTCC
* * *
46979263 TTCT TTCT TTCC TTCT TTCT TT-T TCCCT TCTAT TTCGTT TTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT T-TCT T-TCT TTC--T TTCT TTCT
46979310 TTCT TTCT TTCT TTCT TTCT TTC- TT-T TTCTT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TTCT TTCT TT
46979351 GTTTTATATG
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
3 6 0.08
4 52 0.73
5 9 0.13
6 4 0.06
ACGTcount: A:0.01, C:0.25, G:0.01, T:0.73
Consensus pattern (4 bp):
TTCT
Found at i:46979314 original size:35 final size:33
Alignment explanation
Indices: 46979266--46979355 Score: 99
Period size: 35 Copynumber: 2.6 Consensus size: 33
46979256 TTTCTCCTTC
*
46979266 TTTCTTTCCTTCTTTCTTTTTCCCTTCTATTTCGT
1 TTTCTTTCTTTCTTTCTTTTT-CCTT-TATTTCGT
* * *
46979301 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTT
1 TTTCTTTCTTTCTTTCTTT-TTCCTTTATTTCGT
*
46979335 TTTCTTTTCTTTCTTTGTTTT
1 TTTC-TTTCTTTCTTTCTTTT
46979356 ATATGATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
34 11 0.23
35 35 0.73
36 2 0.04
ACGTcount: A:0.01, C:0.23, G:0.02, T:0.73
Consensus pattern (33 bp):
TTTCTTTCTTTCTTTCTTTTTCCTTTATTTCGT
Found at i:46979318 original size:39 final size:39
Alignment explanation
Indices: 46979263--46979350 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
46979253 GTCTTTCTCC
46979263 TTCTTTCTTTCCTTCTTTCTTT-TTCCCTTCTATTTCGTT
1 TTCTTTCTTTCCTTCTTTCTTTCTTCCCTTCTATTTC-TT
* * * *
46979302 TTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTTCTT
1 TTCTTTCTTTCCTTCTTTCTTTCTTCCCTTCTATTTCTT
46979341 TTCTTTCTTT
1 TTCTTTCTTT
46979351 GTTTTATATG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 33 0.75
40 11 0.25
ACGTcount: A:0.01, C:0.25, G:0.01, T:0.73
Consensus pattern (39 bp):
TTCTTTCTTTCCTTCTTTCTTTCTTCCCTTCTATTTCTT
Found at i:46985695 original size:42 final size:42
Alignment explanation
Indices: 46985540--46985693 Score: 254
Period size: 42 Copynumber: 3.7 Consensus size: 42
46985530 TGAATTTAAT
*
46985540 ATTAAATTAAATTTAATATTTATCTAGCCATTAAAATGAGAC
1 ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
46985582 ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
1 ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
* * * *
46985624 ATTAAATTAAATTAAATATTTATCTAGATATTAATATGAGAT
1 ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
*
46985666 ATTAAATTTAATTTAATATTTATCTAGA
1 ATTAAATTAAATTTAATATTTATCTAGA
46985694 TAATATTTTA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 105 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (42 bp):
ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
Found at i:46985706 original size:37 final size:40
Alignment explanation
Indices: 46985538--46985721 Score: 178
Period size: 42 Copynumber: 4.5 Consensus size: 40
46985528 AATGAATTTA
* * *
46985538 ATATTAAATTAAATTTAATATTTATCTAGCCATTAAAATGAG
1 ATATTAAATTTAATTTAATATTTATCTAG-AATTAATAT-AG
* * *
46985580 ACATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAG
1 ATATTAAATTTAATTTAATATTTATCTAGA-ATTAATAT-AG
* * *
46985622 ACATTAAATTAAATTAAATATTTATCTAGATATTAATATGAG
1 ATATTAAATTTAATTTAATATTTATCTAGA-ATTAATAT-AG
*
46985664 ATATTAAATTTAATTTAATATTTATCTAG-A-TAATAT-T
1 ATATTAAATTTAATTTAATATTTATCTAGAATTAATATAG
*
46985701 TTATT-AATTTAATATTAATAT
1 ATATTAAATTTAAT-TTAATAT
46985722 GATTAATTTT
Statistics
Matches: 130, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
36 8 0.06
37 11 0.08
39 6 0.05
40 1 0.01
42 104 0.80
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (40 bp):
ATATTAAATTTAATTTAATATTTATCTAGAATTAATATAG
Found at i:46992594 original size:44 final size:44
Alignment explanation
Indices: 46992531--46992680 Score: 264
Period size: 44 Copynumber: 3.4 Consensus size: 44
46992521 ATCAGTAACA
*
46992531 AGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATT
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATT
* *
46992575 AGTGAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATT
46992619 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATT
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATT
*
46992663 AGTGACAAGTGACAAGTG
1 AGTGACAAGTGATAAGTG
46992681 ATAAATGTAA
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 100 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (44 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATT
Found at i:47002376 original size:245 final size:245
Alignment explanation
Indices: 47001940--47002430 Score: 892
Period size: 245 Copynumber: 2.0 Consensus size: 245
47001930 TTCTTATCAT
* *
47001940 TTCCGTTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTGTATTCTTCTTTGTTAAGTTGA
1 TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTCTATTCTTCTTTGTTAAGTTGA
47002005 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
66 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
* *
47002070 ACAATATCCCGTGCATGTTCTACATGCCATAATTTTAAAAAACTTTGCTAATACGTGTACATCCT
131 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
47002135 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
196 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
* *
47002185 TTCCATTTTAGGTTGTAGCATATACCCCTAATATTTCTCATTTCTTTTCTTCTTTGTTAAGTTGA
1 TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTCTATTCTTCTTTGTTAAGTTGA
* *
47002250 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGTTAGCTCCTCAAGGTTCGGAGTTTCAG
66 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
* *
47002315 ACAATATCCTGTGCTTGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
131 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
47002380 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
196 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
47002430 T
1 T
47002431 GTGTAATTGC
Statistics
Matches: 236, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
245 236 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (245 bp):
TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTCTATTCTTCTTTGTTAAGTTGA
AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
Found at i:47003658 original size:7 final size:7
Alignment explanation
Indices: 47003646--47003689 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
47003636 ATAAACAAGA
47003646 ATCTATC
1 ATCTATC
47003653 ATCTATC
1 ATCTATC
47003660 ATCTATC
1 ATCTATC
*
47003667 ATCTGTC
1 ATCTATC
*
47003674 ATCTGTC
1 ATCTATC
*
47003681 ATCTCTC
1 ATCTATC
47003688 AT
1 AT
47003690 ACTGATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.43
Consensus pattern (7 bp):
ATCTATC
Found at i:47015135 original size:24 final size:24
Alignment explanation
Indices: 47015087--47015135 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
47015077 TGTGACCATG
* * *
47015087 GCATGAGTATTGGGTTGAGTAATA
1 GCATGAGTATTAGATTGAGGAATA
*
47015111 GCATGAGTATTAGATTGAGGGATA
1 GCATGAGTATTAGATTGAGGAATA
47015135 G
1 G
47015136 GTTGGGCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.35, T:0.31
Consensus pattern (24 bp):
GCATGAGTATTAGATTGAGGAATA
Found at i:47020851 original size:18 final size:18
Alignment explanation
Indices: 47020828--47020863 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47020818 AGTTGTCAAT
*
47020828 TTAATTTTTATACTTTAA
1 TTAATTTCTATACTTTAA
47020846 TTAATTTCTATACTTTAA
1 TTAATTTCTATACTTTAA
47020864 CGTGCAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAATTTCTATACTTTAA
Found at i:47039819 original size:22 final size:24
Alignment explanation
Indices: 47039767--47039820 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
47039757 TTTTTTATGA
47039767 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
47039792 TGAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
47039814 TTAAATT
1 TTAAATT
47039821 GAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:47055232 original size:28 final size:27
Alignment explanation
Indices: 47055192--47055263 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
47055182 CACGACAATT
* **
47055192 AAGAATAACCTTTGTGGTGAACTCTGAA
1 AAGAATAGCCTTTGTGGAAAACTCT-AA
*
47055220 AAGAATAGCCTTTATGGAAAACTCTAA
1 AAGAATAGCCTTTGTGGAAAACTCTAA
*
47055247 AATGGAT-GCCTTTGTGG
1 AA-GAATAGCCTTTGTGG
47055264 CGTGTTCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 13 0.35
28 24 0.65
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (27 bp):
AAGAATAGCCTTTGTGGAAAACTCTAA
Found at i:47058073 original size:20 final size:20
Alignment explanation
Indices: 47057913--47058079 Score: 95
Period size: 20 Copynumber: 8.4 Consensus size: 20
47057903 ACATGCAGTT
* *
47057913 AGGGGCACCGAAGTACAAAT
1 AGGGGCACCGAAGTGCAAAC
** *
47057933 AGGGGCACATATGTGCAAAC
1 AGGGGCACCGAAGTGCAAAC
* * *
47057953 AGGGACACCGAAGTGTATAC
1 AGGGGCACCGAAGTGCAAAC
* * *
47057973 AGGGGAACCAAAGTGCGAAC
1 AGGGGCACCGAAGTGCAAAC
* *
47057993 AGGGGCACC-AGAGTTCGAAC
1 AGGGGCACCGA-AGTGCAAAC
* ** ** *
47058013 AAGGGCATAGTCGTGCAAAT
1 AGGGGCACCGAAGTGCAAAC
* * * *
47058033 AGGGACA-CTAAGTGTATAC
1 AGGGGCACCGAAGTGCAAAC
*
47058052 AGGGGCACCGAAGTGCGAAC
1 AGGGGCACCGAAGTGCAAAC
47058072 AGGGGCAC
1 AGGGGCAC
47058080 AATCGTGCAA
Statistics
Matches: 103, Mismatches: 41, Indels: 6
0.69 0.27 0.04
Matches are distributed among these distances:
19 12 0.12
20 91 0.88
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.12
Consensus pattern (20 bp):
AGGGGCACCGAAGTGCAAAC
Found at i:47058098 original size:79 final size:80
Alignment explanation
Indices: 47057945--47058098 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 80
47057935 GGGCACATAT
* * *
47057945 GTGCAAACAGGGACACCGAAGTGTATACAGGGGAACCAAAGTGCGAACAGGGGCACCAGAGTTCG
1 GTGCAAACAGGGACACCGAAGTGTATACAGGGGAACCAAAGTGCGAACAGGGGCACAAGAGTGCA
47058010 AACAAGGGCATAGTC
66 AACAAGGGCATAGTC
* * * * **
47058025 GTGCAAATAGGGACA-CTAAGTGTATACAGGGGCACCGAAGTGCGAACAGGGGCACAATCGTGCA
1 GTGCAAACAGGGACACCGAAGTGTATACAGGGGAACCAAAGTGCGAACAGGGGCACAAGAGTGCA
*
47058089 AACATGGGCA
66 AACAAGGGCA
47058099 CTTCTTCATT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
79 50 0.78
80 14 0.22
ACGTcount: A:0.34, C:0.21, G:0.32, T:0.12
Consensus pattern (80 bp):
GTGCAAACAGGGACACCGAAGTGTATACAGGGGAACCAAAGTGCGAACAGGGGCACAAGAGTGCA
AACAAGGGCATAGTC
Found at i:47062176 original size:41 final size:41
Alignment explanation
Indices: 47062131--47062345 Score: 349
Period size: 41 Copynumber: 5.2 Consensus size: 41
47062121 ACTGGCACTT
*
47062131 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
47062172 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCATCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
47062213 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
47062254 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGACA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
** * * *
47062295 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
47062336 AGCCTGCTAG
1 AGCCTGCTAG
47062346 GCACTGAGCC
Statistics
Matches: 162, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 162 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:47064001 original size:28 final size:26
Alignment explanation
Indices: 47063970--47064021 Score: 86
Period size: 28 Copynumber: 1.9 Consensus size: 26
47063960 TTTTTAATGT
47063970 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT-AT-ATATATTATACC
47063998 TTATTATAACATATATATATTATA
1 TTATTATAACATATATATATTATA
47064022 TTAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 12 0.50
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATTATAACATATATATATTATACC
Found at i:47067071 original size:22 final size:23
Alignment explanation
Indices: 47067043--47067086 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
47067033 TGCAATCTTG
47067043 GATATGACT-TGTAATATTAGAA
1 GATATGACTATGTAATATTAGAA
* *
47067065 GATATGATTATGTAATCTTAGA
1 GATATGACTATGTAATATTAGA
47067087 GATTTGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.39
Consensus pattern (23 bp):
GATATGACTATGTAATATTAGAA
Found at i:47067089 original size:22 final size:22
Alignment explanation
Indices: 47067031--47067100 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
47067021 TCTTCAAGGA
* *
47067031 TATGCAATCTT-G-GATATGAC
1 TATGTAATCTTAGAGATATGAT
*
47067051 T-TGTAATATTAGAAGATATGAT
1 TATGTAATCTTAG-AGATATGAT
*
47067073 TATGTAATCTTAGAGATTTGAT
1 TATGTAATCTTAGAGATATGAT
*
47067095 TTTGTA
1 TATGTA
47067101 GATAGCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 7 0.17
20 2 0.05
22 21 0.52
23 10 0.25
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.43
Consensus pattern (22 bp):
TATGTAATCTTAGAGATATGAT
Found at i:47067497 original size:20 final size:21
Alignment explanation
Indices: 47067461--47067500 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
47067451 GACACTTAAC
*
47067461 ACAAAGTAAAAATGAAGATAA
1 ACAAAGTAAAAAAGAAGATAA
47067482 ACAAAG-AAAAAAGAAGATA
1 ACAAAGTAAAAAAGAAGATA
47067501 GAAATGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.70, C:0.05, G:0.15, T:0.10
Consensus pattern (21 bp):
ACAAAGTAAAAAAGAAGATAA
Found at i:47073477 original size:43 final size:42
Alignment explanation
Indices: 47073373--47073495 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
47073363 TGGTTGTGTG
* * *
47073373 GCCAAACCGTGTACAATTCAAAATAGGGTCACACAGTCGTGTT
1 GCCAGACCGTGTACAATTCAAAATA-GGTCACACAGTCATGTC
** * *
47073416 GCCAGGTCGTCTATAATTCAAAATAGAGTCACAC-GATCATGTC
1 GCCAGACCGTGTACAATTCAAAATAG-GTCACACAG-TCATGTC
* * *
47073459 GCTAGACCGTGTACAATTCGAAATAGGTCACATAGTC
1 GCCAGACCGTGTACAATTCAAAATAGGTCACACAGTC
47073496 GTGTGGAGTG
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
42 10 0.16
43 53 0.84
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (42 bp):
GCCAGACCGTGTACAATTCAAAATAGGTCACACAGTCATGTC
Found at i:47076207 original size:14 final size:14
Alignment explanation
Indices: 47076188--47076217 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47076178 TTTTCAAATT
47076188 TTGAGTTAATCGAA
1 TTGAGTTAATCGAA
*
47076202 TTGAGTTATTCGAA
1 TTGAGTTAATCGAA
47076216 TT
1 TT
47076218 ATTCGTGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGAGTTAATCGAA
Found at i:47076451 original size:28 final size:24
Alignment explanation
Indices: 47076412--47076480 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 24
47076402 TTTTCAAAAA
*
47076412 TTAAAAATAATTTTAAATTTAGAATATT
1 TTAAAAA-AATTATAAATTT---ATATT
47076440 TATAAAAAAATTGA-AAATTTATATT
1 T-TAAAAAAATT-ATAAATTTATATT
47076465 TTAAAAAAATTATAAA
1 TTAAAAAAATTATAAA
47076481 AATATAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
23 1 0.03
24 13 0.35
25 6 0.16
28 11 0.30
29 6 0.16
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (24 bp):
TTAAAAAAATTATAAATTTATATT
Found at i:47076486 original size:24 final size:25
Alignment explanation
Indices: 47076435--47076486 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
47076425 TAAATTTAGA
**
47076435 ATATTTATAAAAAAATTGAAAATTT
1 ATATTTATAAAAAAATTGAAAAAAT
47076460 ATATTT-TAAAAAAATT-ATAAAAAT
1 ATATTTATAAAAAAATTGA-AAAAAT
47076484 ATA
1 ATA
47076487 AAAAATTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 17 0.71
25 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATTTATAAAAAAATTGAAAAAAT
Found at i:47082290 original size:23 final size:23
Alignment explanation
Indices: 47082255--47082299 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
47082245 TGGAGTATAA
* *
47082255 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
47082278 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
47082300 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:47082567 original size:74 final size:75
Alignment explanation
Indices: 47082416--47082617 Score: 194
Period size: 74 Copynumber: 2.7 Consensus size: 75
47082406 GGATCTATAA
* * ** * *
47082416 TATGCAAATATACATGTATATGTTCTTGTATTGAATTTAGGTATGCCATTTATACAAGTTTATAT
1 TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAG
47082481 GAGGTTCGAT
66 GAGGTTCGAT
* * * *
47082491 TATGCAAATATGCATGTATATGTTC-TGTAATGAGTTTAAGTATGAAATTTATATATGTATA-AG
1 TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATA-
47082554 GGAGGTTCGAT
65 GGAGGTTCGAT
* * * * * *
47082565 TATGTATGTATATTCATGTAAAAGTTCTTG-AATGGAATTGAAGATATGAAATT
1 TATGCA--AATATACATGTATATGTTCTTGTAAT-GAATTTAAG-TATGAAATT
47082618 ATTAGCTTGG
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
73 1 0.01
74 43 0.41
75 24 0.23
76 18 0.17
77 9 0.09
78 9 0.09
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (75 bp):
TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAG
GAGGTTCGAT
Found at i:47082917 original size:41 final size:41
Alignment explanation
Indices: 47082872--47082950 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
47082862 TTAGGTTTAT
47082872 TGCCGGTGAAACATTTCAGACTTTAAGTCTAGAAGGCTTGA
1 TGCCGGTGAAACATTTCAGACTTTAAGTCTAGAAGGCTTGA
* *
47082913 TGCCGGTGAAACATTTCAGACTTTATGTCTAGCAGGCT
1 TGCCGGTGAAACATTTCAGACTTTAAGTCTAGAAGGCT
47082951 AAGTGCCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (41 bp):
TGCCGGTGAAACATTTCAGACTTTAAGTCTAGAAGGCTTGA
Found at i:47086890 original size:19 final size:19
Alignment explanation
Indices: 47086834--47086890 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
47086824 GCTAGTAAGA
* *
47086834 ACTTAGTGTGCCAGTATGC
1 ACTTCGTGTGCCAATATGC
* * *
47086853 GCTTCGTGCT-TCAAGATGC
1 ACTTCGTG-TGCCAATATGC
47086872 ACTTCGTGTGCCAATATGC
1 ACTTCGTGTGCCAATATGC
47086891 GTTTTGTGCA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
18 1 0.04
19 26 0.93
20 1 0.04
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.32
Consensus pattern (19 bp):
ACTTCGTGTGCCAATATGC
Found at i:47094961 original size:17 final size:17
Alignment explanation
Indices: 47094939--47094972 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47094929 TTTTAATAGG
*
47094939 TTAATATTTAATTTAAT
1 TTAATACTTAATTTAAT
*
47094956 TTAATACTTATTTTAAT
1 TTAATACTTAATTTAAT
47094973 AGTATTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAATACTTAATTTAAT
Found at i:47094983 original size:37 final size:35
Alignment explanation
Indices: 47094921--47094989 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 35
47094911 ATTCCAAAAA
47094921 TAATATTATTTTAATAGGTTAATATTTAATTTAATT
1 TAATATTATTTTAATAGGTTAATA-TTAATTTAATT
*
47094957 TAATACTTATTTTAATA-GTATTATATTAATTTA
1 TAATA-TTATTTTAATAGGT-TAATATTAATTTA
47094990 CTATTAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 15 0.50
37 15 0.50
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (35 bp):
TAATATTATTTTAATAGGTTAATATTAATTTAATT
Found at i:47096492 original size:12 final size:13
Alignment explanation
Indices: 47096476--47096524 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
47096466 CGAAACATGG
47096476 GAGAAAGAAAGAAA
1 GAGAAAGAAAG-AA
*
47096490 GAAAAAGAAA-AA
1 GAGAAAGAAAGAA
*
47096502 GAAAAAGAAA-AA
1 GAGAAAGAAAGAA
47096514 GAGAAAGAAAG
1 GAGAAAGAAAG
47096525 GAAAAACTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
12 23 0.72
14 9 0.28
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAGAAAGAAAGAA
Found at i:47096498 original size:6 final size:6
Alignment explanation
Indices: 47096487--47096523 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
47096477 AGAAAGAAAG
*
47096487 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAG AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A
47096524 GGAAAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:47096530 original size:18 final size:17
Alignment explanation
Indices: 47096481--47096530 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
47096471 CATGGGAGAA
47096481 AGAAAGAAAG-AAAAAG
1 AGAAAGAAAGAAAAAAG
* *
47096497 AAAAAGAAAAAGAAAAAG
1 AGAAAGAAAGA-AAAAAG
*
47096515 AGAAAGAAAGGAAAAA
1 AGAAAGAAAGAAAAAA
47096531 CTAGGGTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 8 0.30
17 5 0.19
18 14 0.52
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGAAAAAAG
Found at i:47096831 original size:18 final size:18
Alignment explanation
Indices: 47096808--47096848 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
47096798 AATAAAATTG
*
47096808 GAATTGAATTATGATA-AT
1 GAATTGAATT-TGAAATAT
47096826 GAATTGAATTTGAAATAT
1 GAATTGAATTTGAAATAT
47096844 GAATT
1 GAATT
47096849 TGAAAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (18 bp):
GAATTGAATTTGAAATAT
Found at i:47101972 original size:20 final size:23
Alignment explanation
Indices: 47101947--47101987 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
47101937 CGTTTGAGCT
47101947 TTCTTTT-CT-ACAAT-CTTTCA
1 TTCTTTTACTCACAATGCTTTCA
47101967 TTCTTTTACTCACAATGCTTT
1 TTCTTTTACTCACAATGCTTT
47101988 TAACACTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 5 0.28
23 4 0.22
ACGTcount: A:0.20, C:0.24, G:0.02, T:0.54
Consensus pattern (23 bp):
TTCTTTTACTCACAATGCTTTCA
Found at i:47101997 original size:18 final size:18
Alignment explanation
Indices: 47101974--47102009 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47101964 TCATTCTTTT
47101974 ACTCACAATGCTTTTAAC
1 ACTCACAATGCTTTTAAC
*
47101992 ACTCACCATGCTTTTAAC
1 ACTCACAATGCTTTTAAC
47102010 TCACAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.33
Consensus pattern (18 bp):
ACTCACAATGCTTTTAAC
Found at i:47102013 original size:16 final size:16
Alignment explanation
Indices: 47101969--47102015 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 16
47101959 ATCTTTCATT
47101969 CTTTT-ACTCACAATG
1 CTTTTAACTCACAATG
*
47101984 CTTTTAACACTCACCATG
1 CTTTT-A-ACTCACAATG
47102002 CTTTTAACTCACAA
1 CTTTTAACTCACAA
47102016 AATTTTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.19
16 7 0.26
17 1 0.04
18 14 0.52
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.36
Consensus pattern (16 bp):
CTTTTAACTCACAATG
Found at i:47105481 original size:30 final size:30
Alignment explanation
Indices: 47105445--47105520 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
47105435 TTTCCCAACA
* * *
47105445 AGCTTGTGTGAGGAACCTTGATATAATGTC
1 AGCTTGTGTGAGCAACCCTAATATAATGTC
47105475 AGCTTGTGTGAGCAACCCTAATATAATGTC
1 AGCTTGTGTGAGCAACCCTAATATAATGTC
* *
47105505 AGCTTATTTGAGCAAC
1 AGCTTGTGTGAGCAAC
47105521 TTAATCATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (30 bp):
AGCTTGTGTGAGCAACCCTAATATAATGTC
Found at i:47107837 original size:91 final size:91
Alignment explanation
Indices: 47107677--47108001 Score: 418
Period size: 91 Copynumber: 3.6 Consensus size: 91
47107667 GGGTAACCAT
* * * * * * * *
47107677 CCGATAACACGCCAGATTGCTCATAAGGGCTTACCAATCAATAACACGCCAAATGCACATGGTGC
1 CCGATAACACGCTAGTTTACTCATAAGAGCTTTCCAACCAATAACACACCAGATGCACATGGTGC
* *
47107742 AAAGCTCGTAGGCCAAGTATTCTCCC
66 AAAGCTCGTAGGCTAAGTATTCTTCC
* * *
47107768 CCGATAACACGCTAG-TTATCTCATAAGAGCTTTCCAATCGATAACACACCAGATGCACATAGTG
1 CCGATAACACGCTAGTTTA-CTCATAAGAGCTTTCCAACCAATAACACACCAGATGCACATGGTG
* *
47107832 AAAAGCTCGTAGGCTAAGTATTCTTCT
65 CAAAGCTCGTAGGCTAAGTATTCTTCC
* * * * * *
47107859 TCGATAACATGTTAGTTTACTTATAACAGCTTTCCAACCGATAACACACCAGATGCACATGGTGC
1 CCGATAACACGCTAGTTTACTCATAAGAGCTTTCCAACCAATAACACACCAGATGCACATGGTGC
47107924 AAAGCTCGTAGGCTAAGTATTCTTCC
66 AAAGCTCGTAGGCTAAGTATTCTTCC
* * *
47107950 CTGATAACACGCTAATTTGCTCATAAGAGCTTTCCAACCAATAACACACCAG
1 CCGATAACACGCTAGTTTACTCATAAGAGCTTTCCAACCAATAACACACCAG
47108002 TTTGAAGAGA
Statistics
Matches: 202, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
90 2 0.01
91 197 0.98
92 3 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (91 bp):
CCGATAACACGCTAGTTTACTCATAAGAGCTTTCCAACCAATAACACACCAGATGCACATGGTGC
AAAGCTCGTAGGCTAAGTATTCTTCC
Found at i:47108290 original size:13 final size:13
Alignment explanation
Indices: 47108252--47108297 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
47108242 TATGGTCTAC
47108252 AATTTCGTTTGAA
1 AATTTCGTTTGAA
47108265 AATATT--TTGTGAA
1 AAT-TTCGTT-TGAA
47108278 AATTTCGTTTGAA
1 AATTTCGTTTGAA
47108291 AATTTCG
1 AATTTCG
47108298 ACGTTTGGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.14
13 21 0.72
14 4 0.14
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.46
Consensus pattern (13 bp):
AATTTCGTTTGAA
Found at i:47108779 original size:21 final size:21
Alignment explanation
Indices: 47108755--47108798 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
47108745 AAATATGTTT
47108755 ATTTTGATGTTTTATGGTAGA
1 ATTTTGATGTTTTATGGTAGA
47108776 ATTTTGATGTTTTATGGTAGA
1 ATTTTGATGTTTTATGGTAGA
47108797 AT
1 AT
47108799 ATGAAGCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (21 bp):
ATTTTGATGTTTTATGGTAGA
Found at i:47109557 original size:50 final size:50
Alignment explanation
Indices: 47109391--47109582 Score: 222
Period size: 50 Copynumber: 3.8 Consensus size: 50
47109381 ATTTGGGTAA
* *
47109391 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * **
47109441 AGAGGTCCTATGGAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*** * * *
47109491 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
47109541 AGAACTCCCGTGTAAGACCATATTTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
47109583 GTACAAGAAA
Statistics
Matches: 119, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 119 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:47116534 original size:61 final size:61
Alignment explanation
Indices: 47116435--47116560 Score: 184
Period size: 61 Copynumber: 2.1 Consensus size: 61
47116425 ATAAATAACT
* * * *
47116435 TTTA-GTTTTCAGTATGAAAGGTATATTGAAGTTGAGATCAAGATCATTTTCTTGTTAGTG
1 TTTATGTTTTCAGTATGAAAGATATATTGAAGTTAAGATCAAGACCATTTTCTTATTAGTG
*
47116495 TTTATGTTTTGAGTATGAAAGATATATT-AGAGTTAAGATCAAGACCATTTTCTTATTAGTG
1 TTTATGTTTTCAGTATGAAAGATATATTGA-AGTTAAGATCAAGACCATTTTCTTATTAGTG
47116556 TTTAT
1 TTTAT
47116561 TGTGTTCTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
60 5 0.08
61 54 0.92
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.44
Consensus pattern (61 bp):
TTTATGTTTTCAGTATGAAAGATATATTGAAGTTAAGATCAAGACCATTTTCTTATTAGTG
Found at i:47126217 original size:29 final size:30
Alignment explanation
Indices: 47126177--47126243 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
47126167 CTACACTTCG
* *
47126177 TACATTT-GGAATTTAGTCT-TCCAACTTT-
1 TACATTTAAGAATTTAATCTCT-CAACTTTA
47126205 TACATTTAAGAATTTAATCTCTCAACTTTA
1 TACATTTAAGAATTTAATCTCTCAACTTTA
*
47126235 TAGATTTAA
1 TACATTTAA
47126244 AAATATACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 7 0.21
29 17 0.52
30 9 0.27
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (30 bp):
TACATTTAAGAATTTAATCTCTCAACTTTA
Found at i:47126854 original size:30 final size:30
Alignment explanation
Indices: 47126792--47126854 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
47126782 ACTTATTTTA
* **
47126792 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
47126822 TTGTTAATTTTATTGTTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
47126852 TTG
1 TTG
47126855 CTCGTTAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:47126990 original size:11 final size:11
Alignment explanation
Indices: 47126976--47127006 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
47126966 TATATATATT
47126976 TAAAAATTATA
1 TAAAAATTATA
*
47126987 TAAAAATAATA
1 TAAAAATTATA
47126998 TAAAAATTA
1 TAAAAATTA
47127007 ATACGGGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:47128925 original size:31 final size:30
Alignment explanation
Indices: 47128860--47128929 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 30
47128850 ACAAATAATT
* *
47128860 ATTAATAATTTTATTTAAACATAAATTTAAAA
1 ATTAA-AATTTAATGTAAACATAAATTT-AAA
47128892 ATTAAAATTTAATGTAAACATTAAATCTTAAA
1 ATTAAAATTTAATGTAAACA-TAAAT-TTAAA
*
47128924 TTTAAA
1 ATTAAA
47128930 TCACGAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 13 0.39
32 18 0.55
33 2 0.06
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (30 bp):
ATTAAAATTTAATGTAAACATAAATTTAAA
Found at i:47130284 original size:29 final size:29
Alignment explanation
Indices: 47130217--47130287 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
47130207 TGCTAAGTAT
*
47130217 TGTTCTGGAAGAAATAAATTTGACAATATG
1 TGTTCT-GAAAAAATAAATTTGACAATATG
* * * *
47130247 GGATATGAAAAAATAAATTTGAC-GTGATG
1 TGTTCTGAAAAAATAAATTTGACAAT-ATG
47130276 TGTTCTGAAAAA
1 TGTTCTGAAAAA
47130288 TTTATTTTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
28 1 0.03
29 28 0.88
30 3 0.09
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (29 bp):
TGTTCTGAAAAAATAAATTTGACAATATG
Found at i:47131309 original size:12 final size:12
Alignment explanation
Indices: 47131292--47131319 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47131282 TCTAGCTAAT
47131292 TAAGCATTTAAA
1 TAAGCATTTAAA
47131304 TAAGCATTTAAA
1 TAAGCATTTAAA
47131316 TAAG
1 TAAG
47131320 TTTCATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (12 bp):
TAAGCATTTAAA
Found at i:47132595 original size:10 final size:10
Alignment explanation
Indices: 47132580--47132610 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
47132570 AATTGTAGAT
47132580 TCAAAAAAAA
1 TCAAAAAAAA
47132590 TCAAAAAAAAA
1 TC-AAAAAAAA
47132601 TCAAAAAAAA
1 TCAAAAAAAA
47132611 AATTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (10 bp):
TCAAAAAAAA
Found at i:47132598 original size:11 final size:11
Alignment explanation
Indices: 47132582--47132628 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
47132572 TTGTAGATTC
47132582 AAAAAAAATCA
1 AAAAAAAATCA
47132593 AAAAAAAATCAA
1 AAAAAAAATC-A
*
47132605 AAAAAAAATTA
1 AAAAAAAATCA
*
47132616 AAAAAAAAACA
1 AAAAAAAATCA
47132627 AA
1 AA
47132629 TTTTTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
11 22 0.69
12 10 0.31
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAAAAAATCA
Found at i:47132599 original size:12 final size:12
Alignment explanation
Indices: 47132582--47132628 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
47132572 TTGTAGATTC
47132582 AAAAAAAATC-A
1 AAAAAAAATCAA
47132593 AAAAAAAATCAA
1 AAAAAAAATCAA
*
47132605 AAAAAAAATTAA
1 AAAAAAAATCAA
47132617 AAAAAAAA-CAA
1 AAAAAAAATCAA
47132628 A
1 A
47132629 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
11 13 0.39
12 20 0.61
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAAAAAATCAA
Found at i:47132612 original size:23 final size:23
Alignment explanation
Indices: 47132582--47132628 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
47132572 TTGTAGATTC
*
47132582 AAAAAAAATCAAAAAAAAATCAA
1 AAAAAAAATCAAAAAAAAAACAA
*
47132605 AAAAAAAATTAAAAAAAAAACAA
1 AAAAAAAATCAAAAAAAAAACAA
47132628 A
1 A
47132629 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (23 bp):
AAAAAAAATCAAAAAAAAAACAA
Found at i:47134919 original size:17 final size:18
Alignment explanation
Indices: 47134880--47134921 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
47134870 AAGAAGAAAA
47134880 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
47134897 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
47134914 TCAAAAGA
1 ACAAAAGA
47134922 AAAAGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:47137924 original size:12 final size:12
Alignment explanation
Indices: 47137907--47137934 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47137897 TCTAGCTAAT
47137907 TAAGCATTTAAA
1 TAAGCATTTAAA
47137919 TAAGCATTTAAA
1 TAAGCATTTAAA
47137931 TAAG
1 TAAG
47137935 TTTCATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (12 bp):
TAAGCATTTAAA
Found at i:47141530 original size:59 final size:59
Alignment explanation
Indices: 47141438--47141554 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 59
47141428 ACATAGAAAT
47141438 AACTTCTAATTTATTAAATGAAACAATATAAAAATAAATT-GTACAAAAATATTCAAAAG
1 AACTTCTAATTTATTAAATGAAACAATATAAAAAT-AATTGGTACAAAAATATTCAAAAG
* *
47141497 AACTTCTATTTTATTAATTGAAACAATATAAAAATAATTGGTACAAAAATATTCAAAA
1 AACTTCTAATTTATTAAATGAAACAATATAAAAATAATTGGTACAAAAATATTCAAAA
47141555 ATAAATCAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
58 4 0.07
59 51 0.93
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (59 bp):
AACTTCTAATTTATTAAATGAAACAATATAAAAATAATTGGTACAAAAATATTCAAAAG
Found at i:47144209 original size:5 final size:5
Alignment explanation
Indices: 47144199--47144235 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
47144189 AACTTCAAAT
47144199 TTTAA TTTAA TTTAA TTTAAA TTTAA TTTAA TTTAA T
1 TTTAA TTTAA TTTAA TTT-AA TTTAA TTTAA TTTAA T
47144236 CATAAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTTAA
Found at i:47144221 original size:16 final size:16
Alignment explanation
Indices: 47144196--47144234 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
47144186 CATAACTTCA
*
47144196 AATTTTAATTTAATTT
1 AATTTAAATTTAATTT
47144212 AATTTAAATTTAATTT
1 AATTTAAATTTAATTT
47144228 AATTTAA
1 AATTTAA
47144235 TCATAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTAAATTTAATTT
Found at i:47148641 original size:33 final size:33
Alignment explanation
Indices: 47148604--47148674 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
47148594 ATTTAATTAC
47148604 AACATTATTTTTTTGCATAATGTTTTTGTTTCG
1 AACATTATTTTTTTGCATAATGTTTTTGTTTCG
47148637 AACATTATTTTTTTGCATAATGTTTTTGTTTCG
1 AACATTATTTTTTTGCATAATGTTTTTGTTTCG
47148670 AACAT
1 AACAT
47148675 GTGGAATAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.24, C:0.10, G:0.11, T:0.55
Consensus pattern (33 bp):
AACATTATTTTTTTGCATAATGTTTTTGTTTCG
Found at i:47150448 original size:24 final size:22
Alignment explanation
Indices: 47150395--47150456 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
47150385 ATGTTGATTT
*
47150395 TTTATAAAA-TTAAATCAAATA
1 TTTATAAAATTTAAATAAAATA
47150416 TATTATAAAATGTTATAATAAAATA
1 T-TTATAAAAT-TTA-AATAAAATA
47150441 TTTATAAAA-TTAAATA
1 TTTATAAAATTTAAATA
47150457 TGTTATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 5 0.14
22 11 0.31
24 11 0.31
25 9 0.25
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTATAAAATTTAAATAAAATA
Found at i:47150457 original size:16 final size:17
Alignment explanation
Indices: 47150436--47150467 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47150426 TGTTATAATA
47150436 AAATAT-TTATAAAATT
1 AAATATGTTATAAAATT
47150452 AAATATGTTATAAAAT
1 AAATATGTTATAAAAT
47150468 CTTATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATATGTTATAAAATT
Found at i:47174994 original size:16 final size:16
Alignment explanation
Indices: 47174973--47175004 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47174963 CAGATTTACT
47174973 TCGCAGCATGATAGTA
1 TCGCAGCATGATAGTA
*
47174989 TCGCAGCATTATAGTA
1 TCGCAGCATGATAGTA
47175005 GACAGTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (16 bp):
TCGCAGCATGATAGTA
Found at i:47179854 original size:10 final size:9
Alignment explanation
Indices: 47179829--47179899 Score: 67
Period size: 8 Copynumber: 8.0 Consensus size: 9
47179819 TTAATTTTTA
47179829 ATAAAAAAT
1 ATAAAAAAT
*
47179838 -TAAAATAT
1 ATAAAAAAT
47179846 -TAAAAAAT
1 ATAAAAAAT
*
47179854 ATTAAAAATT
1 A-TAAAAAAT
*
47179864 AGAAAAAAT
1 ATAAAAAAT
47179873 AT-AAAAAT
1 ATAAAAAAT
*
47179881 CGTAAAAAAT
1 -ATAAAAAAT
47179891 ATAAAAAAT
1 ATAAAAAAT
47179900 TGTAAAATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
8 20 0.40
9 16 0.32
10 14 0.28
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.25
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:47179879 original size:18 final size:17
Alignment explanation
Indices: 47179831--47179897 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 17
47179821 AATTTTTAAT
47179831 AAAAAAT-TAAAATATT-
1 AAAAAATATAAAA-ATTG
47179847 AAAAAATATTAAAAATTAG
1 AAAAAATA-TAAAAATT-G
*
47179866 AAAAAATATAAAAATCG
1 AAAAAATATAAAAATTG
47179883 TAAAAAATATAAAAA
1 -AAAAAATATAAAAA
47179898 ATTGTAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
16 7 0.16
17 4 0.09
18 26 0.58
19 8 0.18
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAAAATATAAAAATTG
Found at i:47179905 original size:10 final size:10
Alignment explanation
Indices: 47179846--47179936 Score: 64
Period size: 10 Copynumber: 9.5 Consensus size: 10
47179836 ATTAAAATAT
47179846 TAAAAAA-TA
1 TAAAAAATTA
*
47179855 TTAAAAATTA
1 TAAAAAATTA
*
47179865 GAAAAAA-TA
1 TAAAAAATTA
**
47179874 T-AAAAATCG
1 TAAAAAATTA
47179883 TAAAAAA-TA
1 TAAAAAATTA
*
47179892 TAAAAAATTG
1 TAAAAAATTA
**
47179902 TAAAATTTTA
1 TAAAAAATTA
***
47179912 TAAAAAAACG
1 TAAAAAATTA
47179922 TAAAAAATTA
1 TAAAAAATTA
47179932 TAAAA
1 TAAAA
47179937 TTTTATAAAG
Statistics
Matches: 58, Mismatches: 20, Indels: 7
0.68 0.24 0.08
Matches are distributed among these distances:
8 5 0.09
9 16 0.28
10 37 0.64
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:47179906 original size:18 final size:17
Alignment explanation
Indices: 47179848--47179906 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
47179838 TAAAATATTA
*
47179848 AAAAATATTAAAAATTAGA
1 AAAAATA-TAAAAATT-GT
*
47179867 AAAAATATAAAAATCGT
1 AAAAATATAAAAATTGT
47179884 AAAAAATATAAAAAATTGT
1 -AAAAATAT-AAAAATTGT
47179903 AAAA
1 AAAA
47179907 TTTTATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 1 0.03
18 19 0.54
19 15 0.43
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAAATATAAAAATTGT
Found at i:47179924 original size:20 final size:20
Alignment explanation
Indices: 47179866--47179936 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
47179856 TAAAAATTAG
*
47179866 AAAAAA-TAT-AAAAATCGT
1 AAAAAATTATAAAAAAACGT
**
47179884 AAAAAA-TATAAAAAATTGT
1 AAAAAATTATAAAAAAACGT
**
47179903 AAAATTTTATAAAAAAACGT
1 AAAAAATTATAAAAAAACGT
47179923 AAAAAATTATAAAA
1 AAAAAATTATAAAA
47179937 TTTTATAAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 9 0.20
19 12 0.27
20 23 0.52
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (20 bp):
AAAAAATTATAAAAAAACGT
Found at i:47180171 original size:18 final size:18
Alignment explanation
Indices: 47180150--47180270 Score: 66
Period size: 19 Copynumber: 6.4 Consensus size: 18
47180140 TTTTTTTATG
47180150 ATTTTTATAAAATTTAAT
1 ATTTTTATAAAATTTAAT
* *** **
47180168 ATTTTTTTTATTTTTTTACG
1 A-TTTTTATA-AAATTTAAT
*
47180188 ATTTTTATAAAAAATCTAAT
1 ATTTTTAT--AAAATTTAAT
*
47180208 -TTTTAATAAAATTTAA-
1 ATTTTTATAAAATTTAAT
*
47180224 ATTTTCATTAAAATTTAAT
1 ATTTTTA-TAAAATTTAAT
* *
47180243 AATTTTTCTAAAATTTATT
1 -ATTTTTATAAAATTTAAT
47180262 ATTTATTAT
1 ATTT-TTAT
47180271 TTTTTCTATT
Statistics
Matches: 74, Mismatches: 20, Indels: 17
0.67 0.18 0.15
Matches are distributed among these distances:
17 13 0.18
18 15 0.20
19 32 0.43
20 13 0.18
21 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (18 bp):
ATTTTTATAAAATTTAAT
Found at i:47180228 original size:17 final size:18
Alignment explanation
Indices: 47180205--47180241 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47180195 TAAAAAATCT
*
47180205 AATTTTTAATAAAATTTA
1 AATTTTCAATAAAATTTA
*
47180223 AATTTTCATTAAAATTTA
1 AATTTTCAATAAAATTTA
47180241 A
1 A
47180242 TAATTTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTTCAATAAAATTTA
Found at i:47181198 original size:53 final size:53
Alignment explanation
Indices: 47181094--47181200 Score: 121
Period size: 52 Copynumber: 2.0 Consensus size: 53
47181084 TTTCTATATA
* * **
47181094 TTTTATAATTTTTTATGATTTTTATAAAATTTTAAAGTTATTTATTTTTTTAT
1 TTTTATAATTTTTTATAATTTTTATAAAATTTTAAAATTATTTATACTTTTAT
*
47181147 TTTTAT-ATTTTTTTTAATTTTTA-ATAAA-TTTAAATATTATTTATAACTTTTAT
1 TTTTATAATTTTTTATAATTTTTATA-AAATTTTAAA-ATTATTTAT-ACTTTTAT
47181200 T
1 T
47181201 GATTTTTATC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
51 7 0.15
52 26 0.57
53 13 0.28
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (53 bp):
TTTTATAATTTTTTATAATTTTTATAAAATTTTAAAATTATTTATACTTTTAT
Found at i:47181669 original size:12 final size:13
Alignment explanation
Indices: 47181652--47181680 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47181642 ATATTCTTGA
47181652 AAATAAAT-AAAT
1 AAATAAATAAAAT
47181664 AAATAAATAAAAT
1 AAATAAATAAAAT
47181677 AAAT
1 AAAT
47181681 CAACTTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:47183443 original size:41 final size:41
Alignment explanation
Indices: 47183397--47183479 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
47183387 ATTCAATAGG
47183397 TAAGTTATGTTAAAGGTTAAGTAGGTTAAATCCTAAGTGCC
1 TAAGTTATGTTAAAGGTTAAGTAGGTTAAATCCTAAGTGCC
*
47183438 TAAGTTGTGTTAAAGGTTAAGTAGGTTAAATCCTAAGTGCC
1 TAAGTTATGTTAAAGGTTAAGTAGGTTAAATCCTAAGTGCC
47183479 T
1 T
47183480 CTATCATCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (41 bp):
TAAGTTATGTTAAAGGTTAAGTAGGTTAAATCCTAAGTGCC
Found at i:47184494 original size:33 final size:33
Alignment explanation
Indices: 47184457--47184522 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
47184447 TGAGCCGATC
* *
47184457 TAACTACCGCTGCTCAAGGCGGTCGATCTGCTT
1 TAACTACCGCTGCTCAAGGAGGTCAATCTGCTT
*
47184490 TAACTGCCGCTGCTCAAGGAGGTCAATCTGCTT
1 TAACTACCGCTGCTCAAGGAGGTCAATCTGCTT
47184523 GGACTGCTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (33 bp):
TAACTACCGCTGCTCAAGGAGGTCAATCTGCTT
Found at i:47188826 original size:42 final size:42
Alignment explanation
Indices: 47188779--47188881 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 42
47188769 GTGCTAAACT
*
47188779 GAAACCTATAAGGGTTGAACGGAAGCTC-ATAAGAGCTGAACG
1 GAAACCTATAAGGGTTAAACGGAAGCTCGA-AAGAGCTGAACG
* * * * * *
47188821 GAAACCCAGAAGTGTTAAACTGAAGCTCGAAAGAGTTGAACT
1 GAAACCTATAAGGGTTAAACGGAAGCTCGAAAGAGCTGAACG
*
47188863 GAAACTTATTAA-GGTTAAA
1 GAAACCTA-TAAGGGTTAAA
47188882 TTGAAACTCA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
42 45 0.94
43 3 0.06
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (42 bp):
GAAACCTATAAGGGTTAAACGGAAGCTCGAAAGAGCTGAACG
Found at i:47197129 original size:26 final size:26
Alignment explanation
Indices: 47196987--47197172 Score: 167
Period size: 26 Copynumber: 7.2 Consensus size: 26
47196977 GTACATAATA
* *
47196987 CCTGTTAAATATTCACCGGCTCAAAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* * *
47197013 CCTGCTACATAAACACCGGTTCAAAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* * *
47197039 CCTGCTAAATAAACACCGACTCATAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* * * *
47197065 CCTTCTAAGTAATCACCGGCGCAAGG
1 CCTGCTAAATAATCACCGGCTCAAAG
*
47197091 CCTGCTAAATAATCACCGGCTCATAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* * * *
47197117 ACTGCTAAGTAATCATCGTCTC-AAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* * * *
47197142 GCTAGCTAAATACTCATCGGCTTAAAG
1 CCT-GCTAAATAATCACCGGCTCAAAG
47197169 CCTG
1 CCTG
47197173 TTATTCAGGT
Statistics
Matches: 126, Mismatches: 32, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
25 4 0.03
26 117 0.93
27 5 0.04
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (26 bp):
CCTGCTAAATAATCACCGGCTCAAAG
Found at i:47197129 original size:52 final size:52
Alignment explanation
Indices: 47196987--47197172 Score: 187
Period size: 52 Copynumber: 3.6 Consensus size: 52
47196977 GTACATAATA
* * * * * *
47196987 CCTGTTAAATATTCACCGGCTCAAAGCCTGCTACA-TAAACACCGGTTCAAAG
1 CCTGCTAAATAATCACCGGCTCATAGCCTGCTA-AGTAATCACCGGCTCAAGG
* * * *
47197039 CCTGCTAAATAAACACCGACTCATAGCCTTCTAAGTAATCACCGGCGCAAGG
1 CCTGCTAAATAATCACCGGCTCATAGCCTGCTAAGTAATCACCGGCTCAAGG
* * *
47197091 CCTGCTAAATAATCACCGGCTCATAGACTGCTAAGTAATCATCGTCTCAAGG
1 CCTGCTAAATAATCACCGGCTCATAGCCTGCTAAGTAATCACCGGCTCAAGG
* * * *
47197143 -CTAGCTAAATACTCATCGGCTTAAAGCCTG
1 CCT-GCTAAATAATCACCGGCTCATAGCCTG
47197173 TTATTCAGGT
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
51 3 0.03
52 107 0.97
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (52 bp):
CCTGCTAAATAATCACCGGCTCATAGCCTGCTAAGTAATCACCGGCTCAAGG
Found at i:47198041 original size:23 final size:22
Alignment explanation
Indices: 47198016--47198059 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
47198006 TAATTTAATT
47198016 TTTTTAAC-TAATAAAAC-ATA
1 TTTTTAACATAATAAAACAATA
47198036 TATTTTAACATAATAAAACAATA
1 T-TTTTAACATAATAAAACAATA
47198059 T
1 T
47198060 CAACCGTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.05
21 7 0.33
22 9 0.43
23 4 0.19
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTTAACATAATAAAACAATA
Found at i:47198043 original size:21 final size:21
Alignment explanation
Indices: 47198017--47198059 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
47198007 AATTTAATTT
47198017 TTTTAAC-TAATAAAACATATA
1 TTTTAACATAATAAAACA-ATA
47198038 TTTTAACATAATAAAACAATA
1 TTTTAACATAATAAAACAATA
47198059 T
1 T
47198060 CAACCGTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (21 bp):
TTTTAACATAATAAAACAATA
Found at i:47207691 original size:17 final size:17
Alignment explanation
Indices: 47207669--47207729 Score: 95
Period size: 17 Copynumber: 3.6 Consensus size: 17
47207659 TATTTTGAGC
47207669 CGTGTGGGCCACACGAG
1 CGTGTGGGCCACACGAG
47207686 CGTGTGGGCCACACGAG
1 CGTGTGGGCCACACGAG
* * *
47207703 CATGTGAGCCACACAAG
1 CGTGTGGGCCACACGAG
47207720 CGTGTGGGCC
1 CGTGTGGGCC
47207730 TACATGGGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.13
Consensus pattern (17 bp):
CGTGTGGGCCACACGAG
Found at i:47222043 original size:27 final size:27
Alignment explanation
Indices: 47221717--47222043 Score: 324
Period size: 27 Copynumber: 12.1 Consensus size: 27
47221707 TATAACGATC
* *
47221717 ATTTTTCCCTTC-AGGGATATTTCAGTA
1 ATTTTACCCTTCGAGGG-TATTTCGGTA
* * *
47221744 ATTTTACCCTTTGGGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
47221771 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
47221798 ATTTTATCCTTC-AGATGCATTTCGGTA
1 ATTTTACCCTTCGAG-GGTATTTCGGTA
** ** **
47221825 ATTTTACTATTTAAGGGTATTTTTGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
47221852 ATTTTACCCCTT-GAGGTTATTTCAGTA
1 ATTTTA-CCCTTCGAGGGTATTTCGGTA
* **
47221879 ATTTTACCCTTCG-GGTATATTTTAGTA
1 ATTTTACCCTTCGAGG-GTATTTCGGTA
*
47221906 ATTTTACCCTTTGAGGGTATTTTC-GTA
1 ATTTTACCCTTCGAGGGTA-TTTCGGTA
47221933 ATTTTACCCTTC-AGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
47221959 ATTTTACCTTTCGGGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
47221986 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
47222013 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTA
47222040 ATTT
1 ATTT
47222044 AACAACCTTT
Statistics
Matches: 250, Mismatches: 40, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.02
26 29 0.12
27 204 0.82
28 13 0.05
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.46
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:47225343 original size:41 final size:41
Alignment explanation
Indices: 47225298--47225442 Score: 200
Period size: 41 Copynumber: 3.5 Consensus size: 41
47225288 GCATGTAAAC
* *
47225298 AGGGGCACGTAGGTGCAATTCAGGGGTATCGAAGTACAAAT
1 AGGGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAAT
* *
47225339 AGGGGCACATATGTGCAATTCCGGGGTGTCGAAGTACAAAT
1 AGGGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAAT
* * * *
47225380 AGGGGCATATATGTGCAATTAAGGGGTACCGAAGTACAAAC
1 AGGGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAAT
* *
47225421 AGAGGCACGTATGTGCAATTCA
1 AGGGGCACATATGTGCAATTCA
47225443 AGGAATAATA
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (41 bp):
AGGGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAAT
Found at i:47233580 original size:40 final size:40
Alignment explanation
Indices: 47233536--47233645 Score: 107
Period size: 40 Copynumber: 2.8 Consensus size: 40
47233526 TTGCACCTCA
* * **
47233536 GTGCCCCTGTAA-ACACTTTGGTGTCCCTGATTGCACATTC
1 GTGCCCCTG-AATACACTTCGGTGCCCCTGACAGCACATTC
* *
47233576 GTGCCCCTGAATGCACTTCGGTGCCCCTGACAGTACATTC
1 GTGCCCCTGAATACACTTCGGTGCCCCTGACAGCACATTC
* * *
47233616 GTGCCCTTGAATGCAC-TCTAGTGCCCCTGA
1 GTGCCCCTGAATACACTTC-GGTGCCCCTGA
47233646 TTGCTCACTC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 4 0.07
40 56 0.93
ACGTcount: A:0.17, C:0.33, G:0.22, T:0.28
Consensus pattern (40 bp):
GTGCCCCTGAATACACTTCGGTGCCCCTGACAGCACATTC
Found at i:47233583 original size:20 final size:19
Alignment explanation
Indices: 47233560--47233645 Score: 84
Period size: 20 Copynumber: 4.3 Consensus size: 19
47233550 ACTTTGGTGT
*
47233560 CCCTGATTGCACATTCGTGC
1 CCCTGAATGCAC-TTCGTGC
47233580 CCCTGAATGCACTTCGGTGC
1 CCCTGAATGCACTTC-GTGC
*
47233600 CCCTGACA-GTACATTCGTGC
1 CCCTGA-ATGCAC-TTCGTGC
* *
47233620 CCTTGAATGCACTCTAGTGC
1 CCCTGAATGCACT-TCGTGC
47233640 CCCTGA
1 CCCTGA
47233646 TTGCTCACTC
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
19 5 0.09
20 46 0.84
21 4 0.07
ACGTcount: A:0.17, C:0.35, G:0.21, T:0.27
Consensus pattern (19 bp):
CCCTGAATGCACTTCGTGC
Found at i:47240273 original size:15 final size:16
Alignment explanation
Indices: 47240253--47240282 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47240243 CCACAAAGGA
47240253 GTTCTTT-AGAGGTTC
1 GTTCTTTAAGAGGTTC
47240268 GTTCTTTAAGAGGTT
1 GTTCTTTAAGAGGTT
47240283 TGCCACGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.10, G:0.27, T:0.47
Consensus pattern (16 bp):
GTTCTTTAAGAGGTTC
Found at i:47240322 original size:29 final size:29
Alignment explanation
Indices: 47240285--47240379 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 29
47240275 AAGAGGTTTG
* *
47240285 CCACGAAGGCTTACCTTTCCATAGTTTTT
1 CCACAAAGGCTTACCTTTCAATAGTTTTT
* * **
47240314 CCACAAAGG-TTGTCCTTT-AATAGGTTCA
1 CCACAAAGGCTT-ACCTTTCAATAGTTTTT
* * *
47240342 CCAAAAAGGCTTACCTTTCTAGAGTTTTGT
1 CCACAAAGGCTTACCTTTCAATAGTTTT-T
47240372 CC-CAAAGG
1 CCACAAAGG
47240380 TTGTTCTTCT
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
28 21 0.44
29 25 0.52
30 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (29 bp):
CCACAAAGGCTTACCTTTCAATAGTTTTT
Done.