Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 152 of 259
Found at i:49803369 original size:19 final size:19
Alignment explanation
Indices: 49803332--49803370 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
49803322 ATTTGATCTT
49803332 AATTTAACAAATCTTGAATG
1 AATTTAACAAA-CTTGAATG
49803352 AATTTAAACAAA-TTGAATG
1 AATTT-AACAAACTTGAATG
49803371 TTTTCCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (19 bp):
AATTTAACAAACTTGAATG
Found at i:49803739 original size:82 final size:82
Alignment explanation
Indices: 49803599--49803764 Score: 287
Period size: 82 Copynumber: 2.0 Consensus size: 82
49803589 GATTCAATGG
* *
49803599 TGTTTGTTGGTGTTAGTAATGCCTTAGTAATGTGTTTGATGTGTATGAAAAGTTTCAATTCATTT
1 TGTTTGTTGGTGTTAGTAATGCCTTAGTAATGTGTTTGATGTGTATGAAAAGTGTCAATTAATTT
*
49803664 GGTAGCCTCCACAACCA
66 GGGAGCCTCCACAACCA
*
49803681 TGTTTGTTGGTGTTAGTAATGCCTTTGTAATGTGTTTGATGTGTATGAAAAGTGTCAATTAATTT
1 TGTTTGTTGGTGTTAGTAATGCCTTAGTAATGTGTTTGATGTGTATGAAAAGTGTCAATTAATTT
*
49803746 GGGAGCCTCTACAACCA
66 GGGAGCCTCCACAACCA
49803763 TG
1 TG
49803765 GACAAAGGCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.40
Consensus pattern (82 bp):
TGTTTGTTGGTGTTAGTAATGCCTTAGTAATGTGTTTGATGTGTATGAAAAGTGTCAATTAATTT
GGGAGCCTCCACAACCA
Found at i:49804528 original size:27 final size:29
Alignment explanation
Indices: 49804477--49804540 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
49804467 CAGAATACCT
*
49804477 ATATATGCGTGGTTTTTGTTATATATATA
1 ATATATGCGTGGATTTTGTTATATATATA
49804506 ATATATGCGTGGATTTTGTTATATATATA
1 ATATATGCGTGGATTTTGTTATATATATA
*
49804535 AAATAT
1 ATATAT
49804541 ATGCTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (29 bp):
ATATATGCGTGGATTTTGTTATATATATA
Found at i:49811754 original size:23 final size:22
Alignment explanation
Indices: 49811725--49811767 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
49811715 TATTCAATGT
49811725 GTGGTGATAGAGTCCATTTATAG
1 GTGGTGATAGAGTCC-TTTATAG
49811748 GTGGTGATAGAGTCCTTTAT
1 GTGGTGATAGAGTCCTTTAT
49811768 GTATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (22 bp):
GTGGTGATAGAGTCCTTTATAG
Found at i:49811891 original size:16 final size:16
Alignment explanation
Indices: 49811853--49811929 Score: 75
Period size: 16 Copynumber: 4.7 Consensus size: 16
49811843 TTATATTGAA
* *
49811853 TGAACTGTTATTTCATA
1 TGAATTGTTATTT-ATG
*
49811870 TGAATTGTTATTTAAG
1 TGAATTGTTATTTATG
49811886 TGAATTGTCTATTCTATG
1 TGAATTGT-TATT-TATG
* *
49811904 TGAATCG-TATTCATG
1 TGAATTGTTATTTATG
49811919 TGAATTGTTAT
1 TGAATTGTTAT
49811930 CTTGTGCGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
15 9 0.18
16 16 0.32
17 16 0.32
18 9 0.18
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (16 bp):
TGAATTGTTATTTATG
Found at i:49814998 original size:18 final size:17
Alignment explanation
Indices: 49814960--49814999 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
49814950 ATTTGGGTCA
* *
49814960 TGTGGGCCACACGGGCT
1 TGTGGGCCACACGAGCG
49814977 TGTGGGCCCACACGAGCG
1 TGTGGG-CCACACGAGCG
49814995 TGTGG
1 TGTGG
49815000 TATTTTGGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.12, C:0.28, G:0.42, T:0.17
Consensus pattern (17 bp):
TGTGGGCCACACGAGCG
Found at i:49822960 original size:34 final size:34
Alignment explanation
Indices: 49822896--49822960 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
49822886 GTTTTGTATA
* *
49822896 TTTGAATTGTTATTAAATTGTTATTTTTAATATG
1 TTTGAATTGTTATTAAACTATTATTTTTAATATG
* *
49822930 TTTGGATTGTTATTTAACTATT-TTTGTTAAT
1 TTTGAATTGTTATTAAACTATTATTT-TTAAT
49822961 TTACATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 3 0.12
34 23 0.88
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (34 bp):
TTTGAATTGTTATTAAACTATTATTTTTAATATG
Found at i:49826312 original size:19 final size:19
Alignment explanation
Indices: 49826288--49826325 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
49826278 TATAATGTCC
*
49826288 ACATGCAGGCTTGTATAGA
1 ACATGCAGGCATGTATAGA
49826307 ACATGCAGGCATGTATAGA
1 ACATGCAGGCATGTATAGA
49826326 GCGTTTGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (19 bp):
ACATGCAGGCATGTATAGA
Found at i:49833116 original size:20 final size:20
Alignment explanation
Indices: 49833087--49833147 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
49833077 ATATATAACT
*
49833087 CATATTAAATATTAATATAA
1 CATATAAAATATTAATATAA
*
49833107 CATATAAAATATAAACT-TAA
1 CATATAAAATATTAA-TATAA
*
49833127 CAAATTAAAATATTACATATA
1 CATA-TAAAATATTA-ATATA
49833148 TTTGGATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 19 0.58
21 11 0.33
22 3 0.09
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
CATATAAAATATTAATATAA
Found at i:49845512 original size:11 final size:11
Alignment explanation
Indices: 49845490--49845521 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
49845480 AATTCTAGCT
49845490 TTTATC-TTTA
1 TTTATCTTTTA
49845500 TTTATCTTTTA
1 TTTATCTTTTA
49845511 TTTATCTTTTA
1 TTTATCTTTTA
49845522 AAGTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATCTTTTA
Found at i:49850768 original size:47 final size:47
Alignment explanation
Indices: 49850690--49850999 Score: 467
Period size: 47 Copynumber: 6.6 Consensus size: 47
49850680 CCCTTCGGGA
* * * * * *
49850690 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49850737 CCTGTCACATATATACACGTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49850784 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49850831 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49850878 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49850927 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49850974 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
49851000 CACAATTATC
Statistics
Matches: 239, Mismatches: 22, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 194 0.81
49 45 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49850928 original size:96 final size:96
Alignment explanation
Indices: 49850690--49850999 Score: 488
Period size: 96 Copynumber: 3.3 Consensus size: 96
49850680 CCCTTCGGGA
* * * * *
49850690 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
49850753 ACGTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
49850784 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
49850847 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
49850878 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
49850943 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
49850974 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
49851000 CACAATTATC
Statistics
Matches: 198, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
93 1 0.01
94 95 0.48
96 102 0.52
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49850946 original size:143 final size:141
Alignment explanation
Indices: 49850690--49851000 Score: 469
Period size: 143 Copynumber: 2.2 Consensus size: 141
49850680 CCCTTCGGGA
* * * * *
49850690 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
49850755 GTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 GTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
*
49850820 GGCTATTAGGC
131 GGCCATTAGGC
* * *
49850831 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
* * * *
49850896 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACGTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
49850961 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
49850974 CTTATCACATATATATACATTCACATC
1 CTTATCACATATATACACTTTCACATC
49851001 ACAATTATCC
Statistics
Matches: 152, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
141 47 0.31
143 105 0.69
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
GTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:49853665 original size:40 final size:40
Alignment explanation
Indices: 49853621--49853880 Score: 340
Period size: 40 Copynumber: 6.7 Consensus size: 40
49853611 CTGGCATGAT
* * * * *
49853621 TGCTCTTCTGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
49853661 TGCTCTTCGGGGTTTAGCACGG----AT-A---GCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
49853693 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
49853733 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
49853773 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
49853813 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
49853853 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
49853881 GTCGAGACCT
Statistics
Matches: 193, Mismatches: 19, Indels: 17
0.84 0.08 0.07
Matches are distributed among these distances:
32 23 0.12
35 1 0.01
36 3 0.02
37 1 0.01
39 4 0.02
40 161 0.83
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:49853716 original size:32 final size:32
Alignment explanation
Indices: 49853653--49853717 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
49853643 ATATAACACC
***
49853653 AGCACGAATGCTCTTCGGGGTTTAGCACGGAT
1 AGCACGAATGCTCTTCGGAACTTAGCACGGAT
*
49853685 AGCACGAATGCTCTTTGGAACTTAGTC-CGGAT
1 AGCACGAATGCTCTTCGGAACTTAG-CACGGAT
49853717 A
1 A
49853718 CATCACTAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (32 bp):
AGCACGAATGCTCTTCGGAACTTAGCACGGAT
Found at i:49853976 original size:38 final size:38
Alignment explanation
Indices: 49853934--49854008 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
49853924 GAATTTTAAT
*
49853934 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
49853972 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
49854009 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:49856221 original size:47 final size:47
Alignment explanation
Indices: 49856143--49856452 Score: 458
Period size: 47 Copynumber: 6.6 Consensus size: 47
49856133 CCCTTCGGGA
* * * * * *
49856143 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49856190 CCTGTCACATATATACACGTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49856237 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49856284 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49856331 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49856380 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49856427 CTTATCACGTATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
49856453 CACAATTATC
Statistics
Matches: 238, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
47 193 0.81
49 45 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49856381 original size:96 final size:96
Alignment explanation
Indices: 49856143--49856452 Score: 479
Period size: 96 Copynumber: 3.3 Consensus size: 96
49856133 CCCTTCGGGA
* * * * *
49856143 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
49856206 ACGTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
49856237 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
49856300 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
49856331 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
49856396 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
49856427 CTTATCACGTATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
49856453 CACAATTATC
Statistics
Matches: 197, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
93 1 0.01
94 95 0.48
96 101 0.51
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49856488 original size:143 final size:141
Alignment explanation
Indices: 49856143--49856452 Score: 422
Period size: 143 Copynumber: 2.2 Consensus size: 141
49856133 CCCTTCGGGA
* * * * ** * * * *
49856143 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACATATATACAC
49856208 GTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 GTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
*
49856273 GGCTATTAGGC
131 GGCCATTAGGC
* * *
49856284 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCAC--ATATATAC
* * * *
49856349 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACGTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
49856414 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
49856427 CTTATCACGTATATATACATTCACAT
1 CTTATCACATATATACACATTCACAT
49856453 CACAATTATC
Statistics
Matches: 151, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
141 47 0.31
143 104 0.69
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACATATATACAC
GTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:49858769 original size:7 final size:7
Alignment explanation
Indices: 49858757--49858791 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
49858747 TCTTAAGAAA
49858757 AAAAAAG
1 AAAAAAG
49858764 AAAAAAG
1 AAAAAAG
49858771 AAAAAGAG
1 AAAAA-AG
49858779 AAAAAAG
1 AAAAAAG
49858786 AAAAAA
1 AAAAAA
49858792 AAAGTGATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:49858780 original size:15 final size:15
Alignment explanation
Indices: 49858756--49858792 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
49858746 TTCTTAAGAA
49858756 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
*
49858771 AAAAAGAGAAAAAAG
1 AAAAAAAGAAAAAAG
49858786 AAAAAAA
1 AAAAAAA
49858793 AAGTGATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:49864772 original size:43 final size:43
Alignment explanation
Indices: 49864615--49864773 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 43
49864605 TATGGGTTAT
* * * *
49864615 CATGTAAGACCATGTCTGGGACGTTGGCATCAACATATGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA-TTA
* * * * * * * *
49864659 CGTGTAAGACAATGTCTGGGACATTGACGTTG-TATTTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
** * * *
49864701 GGTGTAAGACC-CTATCTGGGATAG-TGGCATCGATGTTTGATTA
1 CATGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATTTGATTA
49864744 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
49864774 TGTATGTGCT
Statistics
Matches: 85, Mismatches: 25, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
42 24 0.28
43 35 0.41
44 26 0.31
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:49882252 original size:23 final size:23
Alignment explanation
Indices: 49882221--49882286 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
49882211 CCTGATCAGT
49882221 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
49882243 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
49882265 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
49882287 TCGATAAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:49882490 original size:18 final size:20
Alignment explanation
Indices: 49882449--49882490 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
49882439 CCCATTTTCA
*
49882449 CAATTCATACAATTTCATTT
1 CAATTCATACAATATCATTT
49882469 -AATTCA-ACAATAT-ATTT
1 CAATTCATACAATATCATTT
49882486 CAATT
1 CAATT
49882491 ATTCACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (20 bp):
CAATTCATACAATATCATTT
Found at i:49882690 original size:15 final size:15
Alignment explanation
Indices: 49882672--49882718 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
49882662 TATATTATAT
49882672 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
49882687 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
49882702 TTCAATCAATATAAA
1 TTCAATCAATATAAA
49882717 TT
1 TT
49882719 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:49884829 original size:11 final size:11
Alignment explanation
Indices: 49884813--49884842 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
49884803 CCCAGCGACC
49884813 CTCTCTAATAT
1 CTCTCTAATAT
49884824 CTCTCTAATAT
1 CTCTCTAATAT
*
49884835 CTGTCTAA
1 CTCTCTAA
49884843 GGTGATACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (11 bp):
CTCTCTAATAT
Found at i:49886243 original size:17 final size:18
Alignment explanation
Indices: 49886211--49886244 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49886201 TGGGGCCTGC
*
49886211 CTGTGTGGGCCTACACGT
1 CTGTGTGGGCCCACACGT
49886229 CTGTGT-GGCCCACACG
1 CTGTGTGGGCCCACACG
49886245 GCGCAAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (18 bp):
CTGTGTGGGCCCACACGT
Found at i:49888220 original size:47 final size:47
Alignment explanation
Indices: 49888153--49888251 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
49888143 GCAAATTGAT
*
49888153 TTTAAATTAGGTTCGATTGCTTCCAATTAACTGTTTTATTTAATAGA
1 TTTAAATTAGGTTAGATTGCTTCCAATTAACTGTTTTATTTAATAGA
*
49888200 TTTAAATTAGGTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
1 TTTAAATTAGGTTAGATTGCTTCCAATTAACTGTTTTATTTAATAGA
*
49888247 GTTAA
1 TTTAA
49888252 GGTCAGCAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (47 bp):
TTTAAATTAGGTTAGATTGCTTCCAATTAACTGTTTTATTTAATAGA
Found at i:49890064 original size:24 final size:23
Alignment explanation
Indices: 49890012--49890064 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
49890002 AAATTCTAAA
*
49890012 ATAT-ATTTTTTAAAATAATTAT
1 ATATAATTTTTTAAAATAATCAT
*
49890034 ATCATAATTTTTTAAGATAATCAT
1 AT-ATAATTTTTTAAAATAATCAT
49890058 GATATAA
1 -ATATAA
49890065 CTTGTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 2 0.08
23 2 0.08
24 20 0.77
25 2 0.08
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
ATATAATTTTTTAAAATAATCAT
Found at i:49892567 original size:18 final size:19
Alignment explanation
Indices: 49892544--49892579 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49892534 AGTTTCTGGG
49892544 TTTGGGGG-AAGTAAAAGT
1 TTTGGGGGAAAGTAAAAGT
49892562 TTTGGGGGAAAGTAAAAG
1 TTTGGGGGAAAGTAAAAG
49892580 CAAAAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.39, T:0.25
Consensus pattern (19 bp):
TTTGGGGGAAAGTAAAAGT
Found at i:49900567 original size:40 final size:40
Alignment explanation
Indices: 49900501--49900723 Score: 310
Period size: 40 Copynumber: 5.6 Consensus size: 40
49900491 TACTTTCTCG
*
49900501 AATGCCTTC-GGA-TATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACT-TAGCCCGGATATAGTAACTCGCACA
*
49900540 AATGCCTTCGGGACTTAGCCTGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
49900580 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
49900620 AATGCCTTTGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
49900660 AATGCCTTCGGGACTTATCCC-GAAACTAGTCACTAGCGCA-A
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACA
49900701 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
49900724 TTATCATCCA
Statistics
Matches: 165, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 11 0.07
40 127 0.77
41 22 0.13
42 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:49903750 original size:50 final size:48
Alignment explanation
Indices: 49903629--49903799 Score: 190
Period size: 50 Copynumber: 3.6 Consensus size: 48
49903619 AGATGCCAAC
* * * * *
49903629 GCCATGTCCCAGACATGGTCTTACACTGGCTCACA-CATCAAAGTTGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATAATCGAGGTCGAT
*
49903677 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGTCAAT
1 GCCATGTCCCAGACATGGTCTTACACTG-CTCTCATA-ATCGAGGTCGAT
*
49903727 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGG-CTGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATAATCGAGGTC-GAT
*
49903775 G-CATGTCTCAGACAT-GTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
49903800 AGCATACATG
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
46 10 0.09
47 15 0.14
48 38 0.35
49 2 0.02
50 43 0.39
51 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGCTCTCATAATCGAGGTCGAT
Found at i:49909498 original size:24 final size:24
Alignment explanation
Indices: 49909477--49909528 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
49909467 AATCAATGTC
*
49909477 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
49909501 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
49909525 AAAT
1 AAAT
49909529 CTTTTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:49910729 original size:13 final size:13
Alignment explanation
Indices: 49910713--49910751 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
49910703 TTATTCTATT
*
49910713 TTATTTATCTTAG
1 TTATTTATCTTAA
*
49910726 TTATTTATTTTAA
1 TTATTTATCTTAA
49910739 TTATTTTATCTTA
1 TTA-TTTATCTTA
49910752 CTTGGATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (13 bp):
TTATTTATCTTAA
Found at i:49911418 original size:403 final size:405
Alignment explanation
Indices: 49910667--49911472 Score: 1445
Period size: 403 Copynumber: 2.0 Consensus size: 405
49910657 ATTTATCTTC
49910667 TTTATTTTCTTCCTTATTGTTCTAATCTTTGATTTATTATTCTATTTTATTTATCTTAGTTATTT
1 TTTATTTTCTTCCTTATTGTTCTAATCTTTGATTTATTATTCTATTTTATTTATCTTAGTTATTT
49910732 ATTTTAATTATTTTATCTTACTTGGATTAGTTTGCATTTTAGGTTAAGTCAAAATCCAAGTTTCT
66 ATTTTAATTATTTTA--TTACTTGGATTAGTTTGCATTTTAGGTTAAGTCAAAATCCAAGTTTCT
* * *
49910797 TTCCAAACGTCTAGAGCCTTAAGTCAAATCCGGGGCTTGAACAAACTTTACTATCTGATTTCGGA
129 TTCCAAACGTCTAGAGCCTTAAGTCAAATCCGAGACTTGAACAAACTTTACTATCTGATTTCGAA
49910862 TTCATTCGTGCCGTTCCTTATCAAAAGGACTGAAAAGCAATTCAATAAACTATGTGGATGAGATT
194 TTCATTCGTGCCGTTCCTTATCAAAAGGACTGAAAAGCAATTCAATAAACTATGTGGATGAGATT
49910927 GTTATTATAATGTTAGGATGCAAATCGACTATTAAATGTTCAAATTAGGTTTAAATAAAATTCTT
259 GTTATTATAATGTTAGGATGCAAATCGACTATTAAATGTTCAAATTAGGTTTAAATAAAATTCTT
* *
49910992 TCAGGAATTTAAATTTTCTTAGATTACTTATTATTTATTTATATTGATAATATATAATACCATTT
324 TCAGGAATTTAAATTTTCTTAGATTACTTATTATCTATTTATACTGATAATATATAATACCATTT
*
49911057 TGTAAAAAAAAAATAAT
389 TCTAAAAAAAAAATAAT
49911074 TTTATTTTCTTCCTTATTGTTCTAATCTTTGATTTATTATTCTATTTTATTTATCTTAGTTATTT
1 TTTATTTTCTTCCTTATTGTTCTAATCTTTGATTTATTATTCTATTTTATTTATCTTAGTTATTT
* * *
49911139 ATTTTAATTGTTTTA-T-CTTGGATTAGTTTGCATTTTAGGTTGAGTCAAAATCTAAGTTTCTTT
66 ATTTTAATTATTTTATTACTTGGATTAGTTTGCATTTTAGGTTAAGTCAAAATCCAAGTTTCTTT
** * *
49911202 CTGAATGTCTAGAGCCTTAAGTCAAATCTGAGACTTGAACAAACTTTACTATCTGATTTCGAATT
131 CCAAACGTCTAGAGCCTTAAGTCAAATCCGAGACTTGAACAAACTTTACTATCTGATTTCGAATT
49911267 CATTCGTGCCGTTCCTTATCAAAAGGACTGAAAAGCAATTCAATAAACTATGTGGATGAGATTGT
196 CATTCGTGCCGTTCCTTATCAAAAGGACTGAAAAGCAATTCAATAAACTATGTGGATGAGATTGT
*
49911332 TATTATAATGTTAGGATGCAAATCGACTATTAAATGTTCAAATTAGGTTTGAATAAAATTCTTTC
261 TATTATAATGTTAGGATGCAAATCGACTATTAAATGTTCAAATTAGGTTTAAATAAAATTCTTTC
*
49911397 AGGAATTTAAATTTTCTTAGATTACTTATTATCTATTTATACTGATAATATATAATACTATTTTC
326 AGGAATTTAAATTTTCTTAGATTACTTATTATCTATTTATACTGATAATATATAATACCATTTTC
49911462 TAAAAAAAAAA
391 TAAAAAAAAAA
49911473 ATTTTCACAA
Statistics
Matches: 384, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
403 304 0.79
404 1 0.00
407 79 0.21
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (405 bp):
TTTATTTTCTTCCTTATTGTTCTAATCTTTGATTTATTATTCTATTTTATTTATCTTAGTTATTT
ATTTTAATTATTTTATTACTTGGATTAGTTTGCATTTTAGGTTAAGTCAAAATCCAAGTTTCTTT
CCAAACGTCTAGAGCCTTAAGTCAAATCCGAGACTTGAACAAACTTTACTATCTGATTTCGAATT
CATTCGTGCCGTTCCTTATCAAAAGGACTGAAAAGCAATTCAATAAACTATGTGGATGAGATTGT
TATTATAATGTTAGGATGCAAATCGACTATTAAATGTTCAAATTAGGTTTAAATAAAATTCTTTC
AGGAATTTAAATTTTCTTAGATTACTTATTATCTATTTATACTGATAATATATAATACCATTTTC
TAAAAAAAAAATAAT
Found at i:49911744 original size:77 final size:77
Alignment explanation
Indices: 49911617--49911769 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 77
49911607 TAACTTTTAA
* * *
49911617 TGGTAGAAAAGTTGTATGGTTAGTGGATAAATTATTGAGAAAAAATATGGTCATGTATATAATAG
1 TGGTAGAAAAGTTGTATAGTTAGTGGATAAATTATTCACAAAAAATATGGTCATGTATATAATAG
49911682 CTAAATGAAACT
66 CTAAATGAAACT
*
49911694 TGGTAGAAAAGTTGTATAGTTAGTGGATAAATTATTCACAAATAATATGGTCATGTATATAATAG
1 TGGTAGAAAAGTTGTATAGTTAGTGGATAAATTATTCACAAAAAATATGGTCATGTATATAATAG
49911759 CTAAATGAAAC
66 CTAAATGAAAC
49911770 GATAATTGCC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (77 bp):
TGGTAGAAAAGTTGTATAGTTAGTGGATAAATTATTCACAAAAAATATGGTCATGTATATAATAG
CTAAATGAAACT
Found at i:49920481 original size:34 final size:34
Alignment explanation
Indices: 49920418--49920529 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
49920408 AGTGCTATAT
* *
49920418 GACATGCTTAT-ACAAATCAATACGGTAGCAAGG
1 GACATGCTTATAACAAATCAATACGATAGCAAGA
* * * *
49920451 GGCATGCTTATAACATATCAATACTATAGCAATA
1 GACATGCTTATAACAAATCAATACGATAGCAAGA
* * * *
49920485 GACATGCTTATATCAAATCAATATGGTAGCAAAA
1 GACATGCTTATAACAAATCAATACGATAGCAAGA
49920519 GACATGCTTAT
1 GACATGCTTAT
49920530 CATGTATTTG
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
33 10 0.15
34 55 0.85
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (34 bp):
GACATGCTTATAACAAATCAATACGATAGCAAGA
Found at i:49927334 original size:14 final size:14
Alignment explanation
Indices: 49927298--49927334 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
49927288 ATCTATTTTT
49927298 TTCCTTTTTTTCTC
1 TTCCTTTTTTTCTC
49927312 TTCAACTTTTTTTCTC
1 TTC--CTTTTTTTCTC
49927328 TTCCTTT
1 TTCCTTT
49927335 CTACTACCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
16 14 0.67
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (14 bp):
TTCCTTTTTTTCTC
Found at i:49930135 original size:47 final size:46
Alignment explanation
Indices: 49930067--49930384 Score: 169
Period size: 47 Copynumber: 6.7 Consensus size: 46
49930057 TGTGTGATCT
*
49930067 AGTGTAAGA-CATGTTTGGGACATGCATCGGCCACATTATGGGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CACATTATGGGAGCC
* *
49930113 AGTGTAAGACCATGTCTGGGACATTGCATCGG--CATTGA-GACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACA-TGCATCGGCACATT-ATG--G-GAGCC
* * *
49930161 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGA-GAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-AC-ATTATGGGAGCC
* * *
49930205 AGTGTAAGACCATGTCTGGGACATGGCATTAGCATGG-ACA-TGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCA-T--C--GGCACATTATGGGAGCC
* * * ** *
49930255 AGTGTAAGACCATGTCTGGGACATGTCGTTGGCCTCAATT-TCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGG-CAC-ATTAT-GGGAGCC
* *
49930304 AGTGTAAAACCATGTCTGGGACATGGCATC-G-AC-TTGATGGATGAACC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACATT-ATGG--GAGCC
*
49930351 AGTGTAAAACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
49930385 TTATACCCTA
Statistics
Matches: 214, Mismatches: 25, Indels: 63
0.71 0.08 0.21
Matches are distributed among these distances:
44 14 0.07
45 22 0.10
46 23 0.11
47 60 0.28
48 27 0.13
49 37 0.17
50 29 0.14
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCACATTATGGGAGCC
Found at i:49930256 original size:94 final size:92
Alignment explanation
Indices: 49930065--49930333 Score: 272
Period size: 94 Copynumber: 2.8 Consensus size: 92
49930055 CTTGTGTGAT
* * * *
49930065 CTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACA-TAT-GGTGTCAGTGTAAGACCATGTCT
* * * * *
49930130 GGGACATTGCATCGGCATTGAGACGAGTG
64 GGGACATGGCATCAGCATGGACACGAGAG
*
49930159 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAT-GTGTCAGTGTAAGACCATGTCTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTAC-ATATGGTGTCAGTGTAAGACCATGTCTG
* *
49930223 GGACATGGCATTAGCATGGACATGTGAGAG
65 GGACATGGCATCAGCATGGACA--CGAGAG
* * * * *
49930253 CTAGTGTAAGACCATGTCTGGGACATGTCGTTGGCCT-CAATTTCGATAGTCAGTGTAAAACCAT
1 CTAGTGTAAGA-CATGTCTGGGACATG-CATCGG-CTAC-ATAT-GGT-GTCAGTGTAAGACCAT
49930317 GTCTGGGACATGGCATC
60 GTCTGGGACATGGCATC
49930334 GACTTGATGG
Statistics
Matches: 146, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
92 38 0.26
94 51 0.35
95 16 0.11
96 7 0.05
97 2 0.01
98 1 0.01
99 31 0.21
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (92 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACATATGGTGTCAGTGTAAGACCATGTCTGG
GACATGGCATCAGCATGGACACGAGAG
Found at i:49932591 original size:23 final size:23
Alignment explanation
Indices: 49932540--49932591 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
49932530 ACTTGCTTGT
* *
49932540 CCACTAAGAGAGTCTATTGTTTC
1 CCACCAAGAGAGTCTATTGTTGC
* *
49932563 CTACCAAGGGAGTCTATTGTTGC
1 CCACCAAGAGAGTCTATTGTTGC
49932586 CCACCA
1 CCACCA
49932592 CTCGCTACCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (23 bp):
CCACCAAGAGAGTCTATTGTTGC
Found at i:49934090 original size:25 final size:25
Alignment explanation
Indices: 49934062--49934124 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
49934052 TAGGATCATC
*
49934062 ATGACATTTCATTATCAAAATCAGA
1 ATGACATTTCATTATCAAAATCAAA
** *
49934087 ATGACATGGCATTTTCAAAATCAAA
1 ATGACATTTCATTATCAAAATCAAA
49934112 ATGAC-TTATCATT
1 ATGACATT-TCATT
49934125 TTTAGGATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (25 bp):
ATGACATTTCATTATCAAAATCAAA
Found at i:49936108 original size:11 final size:11
Alignment explanation
Indices: 49936094--49936138 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
49936084 AGATAAATAT
49936094 TATTTTATTAA
1 TATTTTATTAA
*
49936105 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
49936118 TATTTTATTAT
1 TATTTTATTAA
49936129 TATTTTATTA
1 TATTTTATTA
49936139 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:49938373 original size:38 final size:38
Alignment explanation
Indices: 49938324--49938396 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
49938314 TGATATGAAA
49938324 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
49938362 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
49938397 ATGACAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (38 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:49938419 original size:84 final size:83
Alignment explanation
Indices: 49938279--49938440 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 83
49938269 TGATATGAAA
* * * *
49938279 TGTGTAAGACCATGGTTGAAAGTACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 TGTGTAAGACCATGGTTGAAAGTACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAA
*
49938344 AGATACCATGGCAACCTG
66 AGACACCATGGCAACCTG
49938362 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTG
1 TGTGTAAGACCATGGTTGAAAG-TACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTG
*
49938426 AAAGACACTATGGCA
64 AAAGACACCATGGCA
49938441 TCACGTCAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
83 23 0.32
84 48 0.68
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (83 bp):
TGTGTAAGACCATGGTTGAAAGTACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAA
AGACACCATGGCAACCTG
Found at i:49940289 original size:40 final size:40
Alignment explanation
Indices: 49940234--49940443 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 40
49940224 TATTCGGATG
*
49940234 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
49940274 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
49940317 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
49940357 ATATCCGGGCTAAGTCCCGATGGC-TTTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTT-GTGCAAGTTACT
* * * * * *
49940397 ATATTCGGGCTAAGACCCAAAGGCATTAGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
49940437 ATATCCG
1 ATATCCG
49940444 ACTAAATCCC
Statistics
Matches: 144, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.02
40 102 0.71
41 3 0.02
43 36 0.25
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:49948413 original size:40 final size:40
Alignment explanation
Indices: 49948353--49948576 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
49948343 TATTTAGATG
*
49948353 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
49948393 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
49948436 ATACCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
49948476 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** *
49948516 ATATCCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
49948556 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
49948577 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 111 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:49948499 original size:83 final size:80
Alignment explanation
Indices: 49948360--49948576 Score: 278
Period size: 83 Copynumber: 2.7 Consensus size: 80
49948350 ATGATATTCG
* * **
49948360 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
**
49948425 GAGTAGTTCCTATACCCA
66 ---TAGTGACTATACCCA
49948443 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
* *
49948508 TAGTGACTATATCCG
66 TAGTGACTATACCCA
* *
49948523 GGCTAAGACCCGAAGGCATTTGTG-TGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 GGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGACTATATCCGGGCTAAGTCCCGAAG
49948577 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 15 0.12
80 44 0.36
81 2 0.02
83 61 0.50
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
TAGTGACTATACCCA
Found at i:49956246 original size:16 final size:16
Alignment explanation
Indices: 49956225--49956255 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49956215 TATACATATA
*
49956225 TTTTGAATTTTTTATT
1 TTTTGAATATTTTATT
49956241 TTTTGAATATTTTAT
1 TTTTGAATATTTTAT
49956256 AATTTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTGAATATTTTATT
Found at i:49956266 original size:26 final size:25
Alignment explanation
Indices: 49956222--49956271 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
49956212 ATATATACAT
* *
49956222 ATATTTTGAATTTTTTATTTTTTGA
1 ATATTTTGAATTTTATATTATTTGA
*
49956247 ATATTTTATAATTTTATATTATTTG
1 ATATTTT-GAATTTTATATTATTTG
49956272 TTGACATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (25 bp):
ATATTTTGAATTTTATATTATTTGA
Found at i:49957478 original size:18 final size:18
Alignment explanation
Indices: 49957444--49957482 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
49957434 AAAAAATCAT
*
49957444 AATAAATATTATGAAAACA
1 AATAAATATTAT-AAAAAA
49957463 AATAAAT-TTATAAAAAA
1 AATAAATATTATAAAAAA
49957480 AAT
1 AAT
49957483 TGAGCAGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 4 0.21
19 7 0.37
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AATAAATATTATAAAAAA
Found at i:49957608 original size:19 final size:19
Alignment explanation
Indices: 49957596--49957635 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
49957586 TTTTTGGAAT
49957596 TTTATAAGTTTTTATAATA
1 TTTATAAGTTTTTATAATA
*
49957615 TTTATAAGTTTATATAA-A
1 TTTATAAGTTTTTATAATA
49957633 TTT
1 TTT
49957636 TAAATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTATAAGTTTTTATAATA
Found at i:49957610 original size:10 final size:10
Alignment explanation
Indices: 49957595--49957729 Score: 77
Period size: 10 Copynumber: 13.8 Consensus size: 10
49957585 ATTTTTGGAA
49957595 TTTTATAAGT
1 TTTTATAAGT
49957605 TTTTATAA-T
1 TTTTATAAGT
*
49957614 ATTTATAAGT
1 TTTTATAAGT
* *
49957624 TTATATAA-A
1 TTTTATAAGT
*
49957633 TTTTA-AATAT
1 TTTTATAA-GT
*
49957643 ATTTTATATG-
1 -TTTTATAAGT
*
49957653 TTTTATTA-T
1 TTTTATAAGT
49957662 TTTTATAA-T
1 TTTTATAAGT
* *
49957671 TTATTAGAACT
1 TT-TTATAAGT
49957682 TTTTATAAGT
1 TTTTATAAGT
* *
49957692 TTTTATGATT
1 TTTTATAAGT
49957702 TATTTATAAG-
1 T-TTTATAAGT
*
49957712 TTTTAAAAGT
1 TTTTATAAGT
*
49957722 TTATATAA
1 TTTTATAA
49957730 ATTCTATGAA
Statistics
Matches: 94, Mismatches: 21, Indels: 20
0.70 0.16 0.15
Matches are distributed among these distances:
8 2 0.02
9 35 0.37
10 42 0.45
11 14 0.15
12 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.58
Consensus pattern (10 bp):
TTTTATAAGT
Found at i:49957637 original size:19 final size:18
Alignment explanation
Indices: 49957593--49957637 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
49957583 GAATTTTTGG
*
49957593 AATTTTATAAGTTTTTAT
1 AATTTTATAAGTTTATAT
49957611 AATATTTATAAGTTTATAT
1 AAT-TTTATAAGTTTATAT
49957630 AAATTTTA
1 -AATTTTA
49957638 AATATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
AATTTTATAAGTTTATAT
Found at i:49957716 original size:30 final size:30
Alignment explanation
Indices: 49957595--49957729 Score: 111
Period size: 30 Copynumber: 4.6 Consensus size: 30
49957585 ATTTTTGGAA
49957595 TTTTATAAGTTTTTAT-A-ATATTTATAAG
1 TTTTATAAGTTTTTATAATATATTTATAAG
* *
49957623 TTTATATAA-ATTTTA-AATATATTTTATATG
1 TTT-TATAAGTTTTTATAATATA-TTTATAAG
* * * *
49957653 TTTTATTA-TTTTTATAATTTA-TTAGAACT
1 TTTTATAAGTTTTTATAATATATTTATAA-G
* *
49957682 TTTTATAAGTTTTTATGATTTATTTATAAG
1 TTTTATAAGTTTTTATAATATATTTATAAG
* *
49957712 TTTTAAAAGTTTATATAA
1 TTTTATAAGTTTTTATAA
49957730 ATTCTATGAA
Statistics
Matches: 84, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
28 13 0.15
29 24 0.29
30 42 0.50
31 5 0.06
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.58
Consensus pattern (30 bp):
TTTTATAAGTTTTTATAATATATTTATAAG
Found at i:49960147 original size:18 final size:18
Alignment explanation
Indices: 49960126--49960166 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
49960116 AATTAATTAT
49960126 AAATTAT-TAATTTATAAA
1 AAATTATATAA-TTATAAA
49960144 AAA-TATATAATTATAAA
1 AAATTATATAATTATAAA
49960161 ATAATT
1 A-AATT
49960167 TAAACATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 11 0.55
18 8 0.40
19 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTATATAATTATAAA
Found at i:49960598 original size:15 final size:16
Alignment explanation
Indices: 49960580--49960616 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
49960570 AAATAAATAT
49960580 ATATAATCTA-AAAAA
1 ATATAATCTATAAAAA
*
49960595 ATATAATTTATAAAAA
1 ATATAATCTATAAAAA
49960611 AT-TAAT
1 ATATAAT
49960617 AAAAAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAATCTATAAAAA
Found at i:49961906 original size:20 final size:19
Alignment explanation
Indices: 49961868--49961911 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
49961858 TATATTTAAT
*
49961868 AATATTTACTATAAATAAA
1 AATATTTACAATAAATAAA
*
49961887 AATATTCTACAATTAATAAA
1 AATATT-TACAATAAATAAA
*
49961907 TATAT
1 AATAT
49961912 ATTTGCTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AATATTTACAATAAATAAA
Found at i:49962279 original size:26 final size:25
Alignment explanation
Indices: 49962229--49962281 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
49962219 TATACTCTTT
* *
49962229 AAAAACTATATTTTCATAATGTAAA
1 AAAAACTATATTTTCACAATATAAA
49962254 AAAAACTATATATTGT-ACAATATAAA
1 AAAAACTATAT-TT-TCACAATATAAA
49962280 AA
1 AA
49962282 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 12 0.50
27 1 0.04
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (25 bp):
AAAAACTATATTTTCACAATATAAA
Found at i:49975392 original size:15 final size:14
Alignment explanation
Indices: 49975372--49975402 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
49975362 AGGAACTTTG
49975372 TACTTTAGTTACATT
1 TACTTTAGTTAC-TT
49975387 TACTTTAGTTACTT
1 TACTTTAGTTACTT
49975401 TA
1 TA
49975403 GTACTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (14 bp):
TACTTTAGTTACTT
Found at i:49975412 original size:14 final size:15
Alignment explanation
Indices: 49975395--49975424 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
49975385 TTTACTTTAG
49975395 TTACTTTAGT-ACTT
1 TTACTTTAGTCACTT
49975409 TTACTTTAGTCACTT
1 TTACTTTAGTCACTT
49975424 T
1 T
49975425 AGTAAAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (15 bp):
TTACTTTAGTCACTT
Found at i:49975415 original size:23 final size:23
Alignment explanation
Indices: 49975372--49975428 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
49975362 AGGAACTTTG
49975372 TACTTTAGTTACATTTACTTTAGT
1 TACTTTAG-TACATTTACTTTAGT
*
49975396 TACTTTAGTACTTTTACTTTAGT
1 TACTTTAGTACATTTACTTTAGT
*
49975419 CACTTTAGTA
1 TACTTTAGTA
49975429 AAACTGTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 23 0.74
24 8 0.26
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.53
Consensus pattern (23 bp):
TACTTTAGTACATTTACTTTAGT
Found at i:49978248 original size:29 final size:29
Alignment explanation
Indices: 49978183--49978251 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
49978173 TGTATGGCAA
* *
49978183 ACCGTGTAGGTCACACGGCCATGTGGTTG
1 ACCGTGTGGGTCACACGGCCATGTGGTAG
***
49978212 ACCGTGTGGGTCACACGGTTGTGTGGTAG
1 ACCGTGTGGGTCACACGGCCATGTGGTAG
49978241 ACCGTGTGGGT
1 ACCGTGTGGGT
49978252 TACATGACTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.14, C:0.20, G:0.39, T:0.26
Consensus pattern (29 bp):
ACCGTGTGGGTCACACGGCCATGTGGTAG
Found at i:49978263 original size:29 final size:29
Alignment explanation
Indices: 49978183--49978285 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 29
49978173 TGTATGGCAA
* * ** *
49978183 ACCGTGTAGGTCACACGGCCATGTGGTTG
1 ACCGTGTGGGTCACACGACTGTGTGGTAG
**
49978212 ACCGTGTGGGTCACACGGTTGTGTGGTAG
1 ACCGTGTGGGTCACACGACTGTGTGGTAG
* * *
49978241 ACCGTGTGGGTTACATGACTGTGTGGTTG
1 ACCGTGTGGGTCACACGACTGTGTGGTAG
* * *
49978270 GCCATGTGGGCCACAC
1 ACCGTGTGGGTCACAC
49978286 AAGCATGTGG
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.16, C:0.21, G:0.37, T:0.26
Consensus pattern (29 bp):
ACCGTGTGGGTCACACGACTGTGTGGTAG
Found at i:49984072 original size:40 final size:40
Alignment explanation
Indices: 49984028--49984202 Score: 250
Period size: 40 Copynumber: 4.4 Consensus size: 40
49984018 ATGATAACCC
* * * *
49984028 GGCTAAGTCCCGAATGCATTTGTGCTAGTGACTA-ATTCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
49984068 GGCTAAG-CCTCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCC-CGAAGGCATTTGTGCGAGTTACTATATCCG
49984108 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
49984148 GGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
*
49984187 GGCTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
49984203 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 5, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
39 19 0.15
40 104 0.83
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:49985722 original size:34 final size:34
Alignment explanation
Indices: 49985679--49985777 Score: 144
Period size: 34 Copynumber: 2.9 Consensus size: 34
49985669 ACAGTCAAAT
*
49985679 GCAGTTTGGGCCTAAGCCCATTTCAGTTTCAGTA
1 GCAGTTTGGGCCTTAGCCCATTTCAGTTTCAGTA
* * * *
49985713 GCAGTTTGGGTCTTAGCCTATTTTAGTTTTAGTA
1 GCAGTTTGGGCCTTAGCCCATTTCAGTTTCAGTA
*
49985747 GCAGTTTAGGCCTTAGCCCATTTCAGTTTCA
1 GCAGTTTGGGCCTTAGCCCATTTCAGTTTCA
49985778 ATATCAGATA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.38
Consensus pattern (34 bp):
GCAGTTTGGGCCTTAGCCCATTTCAGTTTCAGTA
Found at i:49987000 original size:20 final size:20
Alignment explanation
Indices: 49986958--49986998 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
49986948 ACGTCAACTG
* *
49986958 ATTTTGGAAAAGAGAGGAAA
1 ATTTTGGAAAAGAAAAGAAA
49986978 ATTTTGGGAAAAGAAAAGAAA
1 ATTTT-GGAAAAGAAAAGAAA
49986999 TTAAATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.27, T:0.20
Consensus pattern (20 bp):
ATTTTGGAAAAGAAAAGAAA
Found at i:49987323 original size:50 final size:50
Alignment explanation
Indices: 49987248--49987347 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
49987238 CGCTGAACAA
49987248 GTATAAAGCTTAAGTCAGAAAAATTCCAAAATTTGCCAAAGCTAAGGCTT
1 GTATAAAGCTTAAGTCAGAAAAATTCCAAAATTTGCCAAAGCTAAGGCTT
49987298 GTATAAAGCTTAAGTCAGAAAAATTCCAAAATTTGCCAAAGCTAAGGCTT
1 GTATAAAGCTTAAGTCAGAAAAATTCCAAAATTTGCCAAAGCTAAGGCTT
49987348 AAACTTGGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (50 bp):
GTATAAAGCTTAAGTCAGAAAAATTCCAAAATTTGCCAAAGCTAAGGCTT
Found at i:49997965 original size:37 final size:37
Alignment explanation
Indices: 49997915--49998005 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
49997905 AGATTGCTCT
49997915 CGTAGTCATCGGGTCTTACCCGGACATAATCTCCACA
1 CGTAGTCATCGGGTCTTACCCGGACATAATCTCCACA
49997952 CGTAGTCATCGGGTCTTACCCGGACATAATCTCCACA
1 CGTAGTCATCGGGTCTTACCCGGACATAATCTCCACA
*
49997989 CGTAGTCATCGAGTCTT
1 CGTAGTCATCGGGTCTT
49998006 TAGAGCTCGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (37 bp):
CGTAGTCATCGGGTCTTACCCGGACATAATCTCCACA
Found at i:49998392 original size:49 final size:47
Alignment explanation
Indices: 49998124--49998538 Score: 661
Period size: 47 Copynumber: 8.7 Consensus size: 47
49998114 CCCTTCGGGA
* * * * * *
49998124 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49998171 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49998218 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49998265 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49998312 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49998359 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49998408 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49998457 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49998504 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
49998539 AGAATCCTAA
Statistics
Matches: 350, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 254 0.73
49 95 0.27
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49998578 original size:192 final size:188
Alignment explanation
Indices: 49998179--49998538 Score: 605
Period size: 192 Copynumber: 1.9 Consensus size: 188
49998169 GCCCTGTCAC
49998179 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
*
49998244 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
66 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
* * * *
49998309 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAT
131 GGCCTTATCACATATATACACTTTCACATCCATCACATCAGC-A-TAGGCCTAATCAAAT
49998369 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCAC
49998434 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
64 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
* *
49998499 TAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACAT
129 TAGGCCTTATCACATATATACACT-TTCACATCCATCACAT
49998539 AGAATCCTAA
Statistics
Matches: 163, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
190 47 0.29
191 1 0.01
192 115 0.71
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (188 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
GGCCTTATCACATATATACACTTTCACATCCATCACATCAGCATAGGCCTAATCAAAT
Found at i:50002206 original size:45 final size:45
Alignment explanation
Indices: 50002142--50002232 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
50002132 AATATATGTA
50002142 TAAATTATGATTTATCAAATACCCCCACACTTAAGCGTTTGCTTG
1 TAAATTATGATTTATCAAATACCCCCACACTTAAGCGTTTGCTTG
50002187 TAAATTATGATTTATCAAATACCCCCACACTTAAGCGTTTGCTTG
1 TAAATTATGATTTATCAAATACCCCCACACTTAAGCGTTTGCTTG
50002232 T
1 T
50002233 CCTCAAGCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (45 bp):
TAAATTATGATTTATCAAATACCCCCACACTTAAGCGTTTGCTTG
Found at i:50006333 original size:21 final size:21
Alignment explanation
Indices: 50006309--50006349 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
50006299 TGCATATTCT
*
50006309 AATTTCATTAACTAATTTACG
1 AATTTCATAAACTAATTTACG
50006330 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
50006350 TAAATCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:50006741 original size:50 final size:50
Alignment explanation
Indices: 50006645--50006750 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
50006635 ATTCGAACAC
* * * * *
50006645 CACATAAATACTTACCTATATGACCGGATATACCAAATTCATTATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCAT
* * *
50006695 TACATAAGTACATACCTATAAGACCGAATATA-CAAGGCTCAATATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACCAA-ACTCAATATATCAT
50006745 CACATA
1 CACATA
50006751 TGGCTAGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
49 3 0.07
50 43 0.93
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (50 bp):
CACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCAT
Found at i:50015778 original size:39 final size:39
Alignment explanation
Indices: 50015735--50015813 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
50015725 GATATATTCT
* *
50015735 AGCACGTAGCCTGCGGACCTCAAGTCCGGATATGTTTCC
1 AGCACGTAGCCTACGGACCTCAAGCCCGGATATGTTTCC
50015774 AGCACGTAGCCTACGGACCTCAAGCCCGGATATGTTTCC
1 AGCACGTAGCCTACGGACCTCAAGCCCGGATATGTTTCC
50015813 A
1 A
50015814 AATATCATGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.22
Consensus pattern (39 bp):
AGCACGTAGCCTACGGACCTCAAGCCCGGATATGTTTCC
Found at i:50016483 original size:21 final size:21
Alignment explanation
Indices: 50016459--50016499 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
50016449 TGCATATTCT
*
50016459 AATTTCATTAACTAATTTACG
1 AATTTCATAAACTAATTTACG
50016480 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
50016500 TAAATCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:50018291 original size:29 final size:30
Alignment explanation
Indices: 50018252--50018330 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
50018242 CTTAATAATC
50018252 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATGTA
* *
50018282 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATGTA
50018311 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
50018331 ATCTCATGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATGTA
Found at i:50019963 original size:50 final size:50
Alignment explanation
Indices: 50019867--50019972 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
50019857 ATTGGAACAC
* * * * *
50019867 CACATAAATACTTACCTATATGACCGGATATACCAAATTCATTATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCAT
* * *
50019917 TACATAAGTACATACCTATAAGACCGAATATA-CAAGGCTCAATATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACCAA-ACTCAATATATCAT
50019967 CACATA
1 CACATA
50019973 TGGCTAGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
49 3 0.07
50 43 0.93
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (50 bp):
CACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCAT
Found at i:50026468 original size:15 final size:13
Alignment explanation
Indices: 50026439--50026465 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50026429 GCTCGACAGG
50026439 GACACGCCCGTGT
1 GACACGCCCGTGT
50026452 GACACGCCCGTGT
1 GACACGCCCGTGT
50026465 G
1 G
50026466 TGATTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:50029156 original size:15 final size:15
Alignment explanation
Indices: 50029133--50029167 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50029123 GAATAAATTA
* *
50029133 TATTATATTATTTTT
1 TATTTTATTATATTT
50029148 TATTTTATTATATTT
1 TATTTTATTATATTT
50029163 TATTT
1 TATTT
50029168 AAGATTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTATTATATTT
Found at i:50031933 original size:45 final size:45
Alignment explanation
Indices: 50031869--50031958 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
50031859 AGTAGAATTG
50031869 GTTTGGGAATCAAGAAAGTGTGATTATGCACTAATTTTTGAGATT
1 GTTTGGGAATCAAGAAAGTGTGATTATGCACTAATTTTTGAGATT
50031914 GTTTGGGAATCAAGAAAGTGTGATTATGCACTAATTTTTGAGATT
1 GTTTGGGAATCAAGAAAGTGTGATTATGCACTAATTTTTGAGATT
50031959 ATCTATGCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (45 bp):
GTTTGGGAATCAAGAAAGTGTGATTATGCACTAATTTTTGAGATT
Found at i:50032734 original size:21 final size:20
Alignment explanation
Indices: 50032669--50032737 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
50032659 AAATCTATAA
* * *
50032669 TTTAAGGGAATTTTAAATAT
1 TTTAAAGGATTTTTAAATTT
50032689 TTTAAAGGTATTTTTATAGA-TT
1 TTTAAAGG-ATTTTTA-A-ATTT
*
50032711 TTTAATGGATTTTTAAATCTT
1 TTTAAAGGATTTTTAAAT-TT
50032732 TTTAAA
1 TTTAAA
50032738 ATTAGCCCCG
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
19 1 0.03
20 8 0.21
21 20 0.51
22 9 0.23
23 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (20 bp):
TTTAAAGGATTTTTAAATTT
Found at i:50036862 original size:21 final size:20
Alignment explanation
Indices: 50036838--50036876 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50036828 TGAATTGATT
50036838 AAATGTGTGATTAAATTAGTG
1 AAATGTGT-ATTAAATTAGTG
* *
50036859 AAATTTGTATTAATTTAG
1 AAATGTGTATTAAATTAG
50036877 ATCAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (20 bp):
AAATGTGTATTAAATTAGTG
Found at i:50040347 original size:24 final size:24
Alignment explanation
Indices: 50040297--50040351 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
50040287 TAGGAAGAAA
* **
50040297 ATGGTTGTTTGATATGTTTTTGAT
1 ATGGTTATTTGATATGTTTAAGAT
* *
50040321 ATGGTTATTTGGTATGTTTAAGGT
1 ATGGTTATTTGATATGTTTAAGAT
50040345 AT-GTTAT
1 ATGGTTAT
50040352 ATCAATGAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (24 bp):
ATGGTTATTTGATATGTTTAAGAT
Found at i:50042578 original size:16 final size:16
Alignment explanation
Indices: 50042557--50042589 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50042547 TTAGGGCACA
50042557 CACCCTTGTGGCCACC
1 CACCCTTGTGGCCACC
50042573 CACCCTTGTGGCCACC
1 CACCCTTGTGGCCACC
50042589 C
1 C
50042590 GTGTGGCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.18, T:0.18
Consensus pattern (16 bp):
CACCCTTGTGGCCACC
Found at i:50065695 original size:12 final size:13
Alignment explanation
Indices: 50065680--50065711 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
50065670 ATAACACATT
50065680 TCAAAAC-ATGCA
1 TCAAAACTATGCA
50065692 TCAAAACTATGCA
1 TCAAAACTATGCA
50065705 -CAAAACT
1 TCAAAACT
50065712 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:50066332 original size:42 final size:42
Alignment explanation
Indices: 50066274--50066394 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 42
50066264 TCGCAGCCTC
*
50066274 TGTCCCAGACAGGGTCTTACACGAAA-TCAGATACGATGCC-G
1 TGTCCCAGACACGGTCTTACACGAAATTCAGAT-CGATGCCAG
* * *
50066315 ATGTTCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCAG
1 -TGTCCCAGACACGGTCTTACACG-AAA-TTCAGATCGATGCCAG
50066360 TGTCCCAGACACGGTCTTACACGATAATTCAGATC
1 TGTCCCAGACACGGTCTTACACGA-AATTCAGATC
50066395 AATACCAACG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
42 21 0.31
43 11 0.16
44 30 0.44
45 6 0.09
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATTCAGATCGATGCCAG
Found at i:50066368 original size:44 final size:42
Alignment explanation
Indices: 50066232--50066390 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 42
50066222 CAATGCCGAC
** * *
50066232 GTCCCAGATGTGGTCTTACATGT-AATTCAATATCGCA-GCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCAA-ATCG-ATGCC-GT
* *
50066275 GTCCCAGACAGGGTCTTACACG-AAA-TCAGATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCCG-T
*
50066317 GTTCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCAGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCC-GT
*
50066361 GTCCCAGACACGGTCTTACACG-ATAATTCA
1 GTCCCAGACATGGTCTTACACGTA-AATTCA
50066391 GATCAATACC
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.30
43 28 0.29
44 30 0.31
45 6 0.06
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCGT
Found at i:50068592 original size:13 final size:13
Alignment explanation
Indices: 50068574--50068599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50068564 GCTCGGTAGG
50068574 GACACGCCCGTGT
1 GACACGCCCGTGT
50068587 GACACGCCCGTGT
1 GACACGCCCGTGT
50068600 TCAATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:50070749 original size:42 final size:42
Alignment explanation
Indices: 50070686--50070849 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
50070676 CTTCGTTTTC
** *
50070686 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
50070729 T-GATGCCATAGCCTAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
50070770 TCGATGCCATAGCCCAGCTATGGCCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
50070819 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
50070850 GAATAACATA
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
41 2 0.02
42 60 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:50070829 original size:49 final size:47
Alignment explanation
Indices: 50070772--50070938 Score: 185
Period size: 47 Copynumber: 3.5 Consensus size: 47
50070762 TTCATATATC
* *
50070772 GATGCCATAGCCCAGCTATGGCCTTACACGTAATCACATATCACATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA-AT
* * * *
50070820 CGATGCCATAGCCCAGCTATGGTCTTACACG-AATAACATATCTCACT
1 -GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAAT
* * * * *
50070867 GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCACACT
1 GATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACAAT
*
50070914 GATGCCATATCCCAGATATGGTCTT
1 GATGCCATAGCCCAGATATGGTCTT
50070939 GTACGGAAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
46 26 0.25
47 38 0.36
48 12 0.11
49 29 0.28
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (47 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAAT
Found at i:50070996 original size:31 final size:31
Alignment explanation
Indices: 50070961--50071109 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
50070951 CTTGTCACTT
*
50070961 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
50070992 GTAGCCGGTA-CTACCACTTTTCACTGATCAA
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
50071023 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
50071054 GTAGCCGGAGCTACCACTTTCCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
50071085 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
50071110 TGTCATTTGT
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 103 0.96
32 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:50071191 original size:50 final size:51
Alignment explanation
Indices: 50071085--50071213 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
50071075 CACTGATCAG
* * * *
50071085 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
*
50071136 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAAATAAGT
50071186 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
50071214 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
Found at i:50085545 original size:18 final size:17
Alignment explanation
Indices: 50085519--50085552 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
50085509 TGTGTGGCTT
50085519 ACCTATGTGGGCCCACAC
1 ACCTATGT-GGCCCACAC
*
50085537 ACCTGTGTGGCCCACA
1 ACCTATGTGGCCCACA
50085553 TGACCCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (17 bp):
ACCTATGTGGCCCACAC
Found at i:50088044 original size:18 final size:19
Alignment explanation
Indices: 50088004--50088044 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
50087994 GGCAGCTTAT
*
50088004 AAAATTTTTAACAGATTAT
1 AAAATTTTTAACAGATTAC
*
50088023 AAAATTTTTAATAGATT-C
1 AAAATTTTTAACAGATTAC
50088041 AAAA
1 AAAA
50088045 ACAAACGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (19 bp):
AAAATTTTTAACAGATTAC
Found at i:50088045 original size:19 final size:19
Alignment explanation
Indices: 50088000--50088039 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
50087990 CAATGGCAGC
50088000 TTATAAAATTTTTAACAGA
1 TTATAAAATTTTTAACAGA
*
50088019 TTATAAAATTTTTAATAGA
1 TTATAAAATTTTTAACAGA
50088038 TT
1 TT
50088040 CAAAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (19 bp):
TTATAAAATTTTTAACAGA
Found at i:50094797 original size:48 final size:47
Alignment explanation
Indices: 50094744--50094920 Score: 176
Period size: 48 Copynumber: 3.7 Consensus size: 47
50094734 CTCGCACACT
*
50094744 AAGTGCCAATATCATGGCCCACAGCCAACTCAATATATCTCACACCCG
1 AAGTGCCAATATCATGGCCCA-AGCCAAATCAATATATCTCACACCCG
* * * * *
50094792 AAGTGCTAATATAATGGCCTGAAGCCAAATGAATATATCTCATACCCG
1 AAGTGCCAATATCATGGCC-CAAGCCAAATCAATATATCTCACACCCG
* * * * **
50094840 AAGTGCTAATATCATGGCCCGAAGCCAAGTCAATGA-AGCTCGCACCTT
1 AAGTGCCAATATCATGGCCC-AAGCCAAATCAAT-ATATCTCACACCCG
* *
50094888 AAGTGCCAATATTATGGCCCGAAACCAAATCAA
1 AAGTGCCAATATCATGGCCC-AAGCCAAATCAA
50094921 AGTATCCCCT
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
48 105 0.98
49 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (47 bp):
AAGTGCCAATATCATGGCCCAAGCCAAATCAATATATCTCACACCCG
Found at i:50094916 original size:96 final size:96
Alignment explanation
Indices: 50094744--50094917 Score: 226
Period size: 96 Copynumber: 1.8 Consensus size: 96
50094734 CTCGCACACT
* *
50094744 AAGTGCCAATATCATGGCCCACAGCCAACTCAATATATCTCACACCCGAAGTGCTAATATAATGG
1 AAGTGCCAATATCATGGCCCACAGCCAACTCAATATAGCTCACACCCGAAGTGCCAATATAATGG
* *
50094809 CCTGAAGCCAAATGAATATATCTCATACCCG
66 CCCGAAACCAAATGAATATATCTCATACCCG
* * * ** *
50094840 AAGTGCTAATATCATGGCCCGA-AGCCAAGTCAATGA-AGCTCGCACCTTAAGTGCCAATATTAT
1 AAGTGCCAATATCATGGCCC-ACAGCCAACTCAAT-ATAGCTCACACCCGAAGTGCCAATATAAT
50094903 GGCCCGAAACCAAAT
64 GGCCCGAAACCAAAT
50094918 CAAAGTATCC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
96 64 0.97
97 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (96 bp):
AAGTGCCAATATCATGGCCCACAGCCAACTCAATATAGCTCACACCCGAAGTGCCAATATAATGG
CCCGAAACCAAATGAATATATCTCATACCCG
Found at i:50100896 original size:12 final size:12
Alignment explanation
Indices: 50100879--50100904 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50100869 CCATACACGC
50100879 CCATGTGCTAGG
1 CCATGTGCTAGG
50100891 CCATGTGCTAGG
1 CCATGTGCTAGG
50100903 CC
1 CC
50100905 GTGCCAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (12 bp):
CCATGTGCTAGG
Found at i:50101749 original size:13 final size:13
Alignment explanation
Indices: 50101731--50101758 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50101721 ATAGCTCGGT
50101731 AAGCTCATATGAA
1 AAGCTCATATGAA
50101744 AAGCTCATATGAA
1 AAGCTCATATGAA
50101757 AA
1 AA
50101759 TAAGAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (13 bp):
AAGCTCATATGAA
Found at i:50102067 original size:48 final size:48
Alignment explanation
Indices: 50102014--50102142 Score: 152
Period size: 48 Copynumber: 2.7 Consensus size: 48
50102004 CTCGCACACT
* * * *
50102014 AAGTGCCAATATCATGGCTCAAAGCCAACTCAATCTATCTCA-CACCAA
1 AAGTGCCAATATCATGGCTCGAAGCCAAATCAATCAAGCT-AGCACCAA
* * * * **
50102062 AAGTGCTAATATCTTGGCCCGAAGCCAAATCAATGAAGCTAGCACCCG
1 AAGTGCCAATATCATGGCTCGAAGCCAAATCAATCAAGCTAGCACCAA
50102110 AAGTGCCAATATCATGGCTCGAAGCCAAATCAA
1 AAGTGCCAATATCATGGCTCGAAGCCAAATCAA
50102143 AGTATCCCCT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.01
48 66 0.99
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.19
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCTCGAAGCCAAATCAATCAAGCTAGCACCAA
Found at i:50102669 original size:29 final size:27
Alignment explanation
Indices: 50102621--50102682 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
50102611 TTTTCATTTA
*
50102621 TTTCACATTTTAACCACTAAATTTACACT
1 TTTCACAATTTAACCACT-AATTTACA-T
* * *
50102650 TTTCACAATTTAGCCCCTAATTTGCAT
1 TTTCACAATTTAACCACTAATTTACAT
50102677 TTTCAC
1 TTTCAC
50102683 TAAAAATCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 7 0.24
29 15 0.52
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.42
Consensus pattern (27 bp):
TTTCACAATTTAACCACTAATTTACAT
Found at i:50105885 original size:40 final size:40
Alignment explanation
Indices: 50105828--50106011 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
50105818 TATTCGAATG
* *
50105828 ATATCCGGGTTAAGTCCCGAGGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
* *
50105868 ATATCCGGGCTATGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
* * *
50105908 ATATCCGGGCTAAGTCCCGAAGGCTTTTTTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
* * * *
50105948 ATATCCGGGCTAAGACCCGAAGGCATCTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGATT
*
50105988 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
50106012 CTTGAGTTTG
Statistics
Matches: 127, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 16 0.13
40 108 0.85
41 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
Found at i:50107269 original size:203 final size:202
Alignment explanation
Indices: 50106921--50107325 Score: 801
Period size: 203 Copynumber: 2.0 Consensus size: 202
50106911 TGAAACAGGG
50106921 CCAGAGCATTTTCTGGATCCCCTGTTCTGACTTGAAAATTTTCCATAAATAAACCAGTGATTATT
1 CCAGAGCATTTTCTGGATCCCCTGTTCTGACTTGAAAATTTTCCATAAATAAACCAGTGATTATT
50106986 AGAAGTCATGCTTTATATGTATAGATTCATTTTTTAGTCTACTTTCATTAGAAACAAACAGCATA
66 AGAAGTCATGCTTTATATGTATAGATTCATTTTTTAGTCTACTTTCATTAGAAACAAACAGCATA
50107051 AGTATTGAAGCTCTTTACAGGGAGATATCTAAGTCGTAATGCATGAAGGTCAGAGTAGTCGAACC
131 AGTATTGAAGCTCTTTACAGGGAGATATCTAAGTCGTAATGCATGAAGGTCAGAGTAGTCGAACC
50107116 CTGAAAC
196 CTGAAAC
50107123 CCAGAGCATTTTCTGGATCCCCTGTTCTGACTTTGAAAATTTTCCATAAATAAACCAGTGATTAT
1 CCAGAGCATTTTCTGGATCCCCTGTTCTGAC-TTGAAAATTTTCCATAAATAAACCAGTGATTAT
50107188 TAGAAGTCATGCTTTATATGTATAGATTCATTTTTTAGTCTACTTTCATTAGAAACAAACAGCAT
65 TAGAAGTCATGCTTTATATGTATAGATTCATTTTTTAGTCTACTTTCATTAGAAACAAACAGCAT
50107253 AAGTATTGAAGCTCTTTACAGGGAGATATCTAAGTCGTAATGCATGAAGGTCAGAGTAGTCGAAC
130 AAGTATTGAAGCTCTTTACAGGGAGATATCTAAGTCGTAATGCATGAAGGTCAGAGTAGTCGAAC
50107318 CCTGAAAC
195 CCTGAAAC
50107326 AGGGGAGATT
Statistics
Matches: 202, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
202 31 0.15
203 171 0.85
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (202 bp):
CCAGAGCATTTTCTGGATCCCCTGTTCTGACTTGAAAATTTTCCATAAATAAACCAGTGATTATT
AGAAGTCATGCTTTATATGTATAGATTCATTTTTTAGTCTACTTTCATTAGAAACAAACAGCATA
AGTATTGAAGCTCTTTACAGGGAGATATCTAAGTCGTAATGCATGAAGGTCAGAGTAGTCGAACC
CTGAAAC
Found at i:50115946 original size:40 final size:40
Alignment explanation
Indices: 50115884--50116141 Score: 328
Period size: 40 Copynumber: 6.5 Consensus size: 40
50115874 AAGCCAAGTA
* * * * *
50115884 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
50115923 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
50115963 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50116003 CCTTCGGGACTTAGCCC-GATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
50116042 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50116082 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
**
50116123 CCTTCAAGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
50116142 TTATCATCCA
Statistics
Matches: 196, Mismatches: 17, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 50 0.26
40 120 0.61
41 22 0.11
42 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:50116043 original size:79 final size:79
Alignment explanation
Indices: 50115884--50116099 Score: 310
Period size: 79 Copynumber: 2.7 Consensus size: 79
50115874 AAGCCAAGTA
* * * * * *
50115884 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC-GATATA
* *
50115947 GTAACTCGCACCAATG
64 GTAACTCACACAAATG
50115963 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATATAGT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATATAGT
50116028 AACTCACACAAATG
66 AACTCACACAAATG
* *
50116042 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
50116100 GAACTAGTCA
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 89 0.71
80 36 0.29
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATATAGT
AACTCACACAAATG
Found at i:50116095 original size:119 final size:119
Alignment explanation
Indices: 50115919--50116140 Score: 340
Period size: 119 Copynumber: 1.9 Consensus size: 119
50115909 TACTTGCTCG
* *
50115919 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-
**
50115984 A-TAGTAACT-CGCACAAATGCCTTCGGGACTTAGCCCGATATAGTAACTCACACA
65 ACTAGTAACTACGCA-AAATGCCTTCAAGACTTAGCCCGATATAGTAACTCACACA
* *
50116038 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
1 AATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
*
50116103 CTAGTCACTAGCGCAAAATGCCTTCAAGACTTAGCCCG
66 CTAGTAACTA-CGCAAAATGCCTTCAAGACTTAGCCCG
50116141 GTTATCATCC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
118 1 0.01
119 67 0.72
120 21 0.23
121 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
CTAGTAACTACGCAAAATGCCTTCAAGACTTAGCCCGATATAGTAACTCACACA
Found at i:50116728 original size:40 final size:40
Alignment explanation
Indices: 50116677--50116821 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
50116667 AACTATTGAT
* *
50116677 TATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
* *
50116717 TATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
* * * *
50116757 TATATCCAGGCTAAGACCCGAAGGCATCTGTGCGAGTTG-C
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGAC
* *
50116797 TATATCC-GGCTAAATCCTGAAGGCA
1 TATATCCGGGCTAAGTCCCGAAGGCA
50116822 CTTGAGTTTG
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 15 0.16
40 74 0.81
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
Found at i:50116802 original size:80 final size:79
Alignment explanation
Indices: 50116669--50116820 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
50116659 GCTGTCACAA
* ** * * * * *
50116669 CTATTGATTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CTATTGACTATATCCAGGCTAAGACCCGAAGGCATCTGTGCGAGTGACTATATCC-GGCTAAATC
50116734 CCGAAGGCTTTTGTG
65 CCGAAGGCTTTTGTG
50116749 CTATTGACTATATCCAGGCTAAGACCCGAAGGCATCTGTGCGAGTTG-CTATATCCGGCTAAATC
1 CTATTGACTATATCCAGGCTAAGACCCGAAGGCATCTGTGCGAG-TGACTATATCCGGCTAAATC
*
50116813 CTGAAGGC
65 CCGAAGGC
50116821 ACTTGAGTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
79 15 0.24
80 45 0.73
81 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (79 bp):
CTATTGACTATATCCAGGCTAAGACCCGAAGGCATCTGTGCGAGTGACTATATCCGGCTAAATCC
CGAAGGCTTTTGTG
Found at i:50121656 original size:46 final size:46
Alignment explanation
Indices: 50121601--50122088 Score: 719
Period size: 46 Copynumber: 10.6 Consensus size: 46
50121591 GCTTTCTGAA
50121601 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
50121647 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
50121693 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
50121739 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGTAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
50121785 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGGT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
50121831 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
50121877 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
50121923 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
50121968 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
50122014 ATGAAATGAAAAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
50122060 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
50122089 CACTATAGCA
Statistics
Matches: 402, Mismatches: 38, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
45 37 0.09
46 365 0.91
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:50122405 original size:16 final size:17
Alignment explanation
Indices: 50122384--50122416 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50122374 ATGATGGAGC
*
50122384 ATGAAAT-ATTGGTATA
1 ATGAAATGATTGATATA
50122400 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
50122417 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:50129397 original size:60 final size:61
Alignment explanation
Indices: 50129279--50129397 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 61
50129269 CTATTCAGAA
* *
50129279 ATCAGAGTTAACTAGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGT
1 ATCAGAGTTAACTAGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT
* * * * * *
50129340 ATCAGAG-TATACTGGGCC-TAGCCCATATCAGTGTCAATTTGGGCCGTAGCCTATTACA
1 ATCAGAGTTA-ACTAGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACA
50129398 AGTCGAGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
60 35 0.71
61 14 0.29
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (61 bp):
ATCAGAGTTAACTAGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT
Found at i:50130113 original size:7 final size:8
Alignment explanation
Indices: 50130081--50130113 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
50130071 CTCGAAAAGC
50130081 CGACTTTT
1 CGACTTTT
*
50130089 CGACATTT
1 CGACTTTT
50130097 CGACTTTT
1 CGACTTTT
50130105 CGA-TTTT
1 CGACTTTT
50130112 CG
1 CG
50130114 CAGATCTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.45
Consensus pattern (8 bp):
CGACTTTT
Found at i:50134491 original size:16 final size:16
Alignment explanation
Indices: 50134470--50134500 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50134460 TTTAAAATGT
*
50134470 TAATTTGGTAATTAGG
1 TAATTTGGAAATTAGG
50134486 TAATTTGGAAATTAG
1 TAATTTGGAAATTAG
50134501 AAATGAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (16 bp):
TAATTTGGAAATTAGG
Found at i:50143495 original size:20 final size:21
Alignment explanation
Indices: 50143472--50143510 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50143462 TCACATGGCT
50143472 GTGTGGC-TCCGCACACGCAC
1 GTGTGGCTTCCGCACACGCAC
* *
50143492 GTGTGTCTTCCTCACACGC
1 GTGTGGCTTCCGCACACGC
50143511 CTATGTGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.38, G:0.26, T:0.23
Consensus pattern (21 bp):
GTGTGGCTTCCGCACACGCAC
Found at i:50156596 original size:15 final size:15
Alignment explanation
Indices: 50156569--50156611 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
50156559 GAAGCCCAGA
50156569 ATAAAGAAATCCATG
1 ATAAAGAAATCCATG
50156584 ATAAAGAAATCCATG
1 ATAAAGAAATCCATG
* *
50156599 ATTAGGAAATCCA
1 ATAAAGAAATCCA
50156612 AATTACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (15 bp):
ATAAAGAAATCCATG
Found at i:50167047 original size:10 final size:10
Alignment explanation
Indices: 50167032--50167061 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
50167022 TTGGTAACCT
50167032 ATTCAAAACA
1 ATTCAAAACA
50167042 ATTCAAAACA
1 ATTCAAAACA
*
50167052 ATCCAAAACA
1 ATTCAAAACA
50167062 TACATATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (10 bp):
ATTCAAAACA
Found at i:50168046 original size:23 final size:23
Alignment explanation
Indices: 50167990--50168047 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
50167980 ACACCACTAA
* *
50167990 GCACTAAAGTACTTTAATAATAG
1 GCACTAAAGTGCTTTAACAATAG
* *
50168013 GCACCAAAGTGCTTTAACAGTAG
1 GCACTAAAGTGCTTTAACAATAG
50168036 GCACTAAAGTGC
1 GCACTAAAGTGC
50168048 AAGATAGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (23 bp):
GCACTAAAGTGCTTTAACAATAG
Found at i:50168093 original size:44 final size:44
Alignment explanation
Indices: 50168013--50168115 Score: 100
Period size: 44 Copynumber: 2.3 Consensus size: 44
50168003 TTAATAATAG
** * *
50168013 GCACCAAAGTGCTTTAACAGTAGGCACTAAAGTGC-AAGATAGTAA
1 GCACCAAAGTGCAATGA-AGTAGGCACTAAACTGCAAAGA-AGTAA
* * * *
50168058 GCACCGAAGTGCAATGAAGTAGTCACTATACTGCAAAGAAGTAG
1 GCACCAAAGTGCAATGAAGTAGGCACTAAACTGCAAAGAAGTAA
*
50168102 GCACTAAAGTGCAA
1 GCACCAAAGTGCAA
50168116 ATCAATAGGG
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
44 30 0.64
45 17 0.36
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (44 bp):
GCACCAAAGTGCAATGAAGTAGGCACTAAACTGCAAAGAAGTAA
Found at i:50168116 original size:22 final size:22
Alignment explanation
Indices: 50168031--50168150 Score: 100
Period size: 22 Copynumber: 5.5 Consensus size: 22
50168021 GTGCTTTAAC
50168031 AGTAGGCACTAAAGTGC-AAGA
1 AGTAGGCACTAAAGTGCAAAGA
* ** *
50168052 TAGTAAGCACCGAAGTGCAATGA
1 -AGTAGGCACTAAAGTGCAAAGA
* * *
50168075 AGTAGTCACTATACTGCAAAGA
1 AGTAGGCACTAAAGTGCAAAGA
*
50168097 AGTAGGCACTAAAGTGCAAATCA
1 AGTAGGCACTAAAGTGCAAA-GA
* * * *
50168120 A-TAGGGACCATAGTGCAAAGT
1 AGTAGGCACTAAAGTGCAAAGA
50168141 AGTAGGCACT
1 AGTAGGCACT
50168151 GTACTGAAGA
Statistics
Matches: 73, Mismatches: 22, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
21 1 0.01
22 67 0.92
23 5 0.07
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (22 bp):
AGTAGGCACTAAAGTGCAAAGA
Done.