Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 207 of 344
Found at i:68638339 original size:24 final size:24
Alignment explanation
Indices: 68638310--68638360 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
68638300 ATTAGTCTCC
68638310 AATTATAATAAACATGATATAATA
1 AATTATAATAAACATGATATAATA
*
68638334 AATTATAGTAAACATGATATAATA
1 AATTATAATAAACATGATATAATA
68638358 AAT
1 AAT
68638361 AAAACATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (24 bp):
AATTATAATAAACATGATATAATA
Found at i:68640170 original size:46 final size:46
Alignment explanation
Indices: 68640073--68640199 Score: 128
Period size: 46 Copynumber: 2.7 Consensus size: 46
68640063 AATCGGTAAG
* * * * *** *
68640073 TACCTATACCATGGCCCGTAGCCAAATCAAGGTTACTTATCTTGGAG
1 TACCTATACCAT-GACTGTAGCCAAATCAAGGTAACTCATCTCAAAA
*
68640120 TACCTATACCATGACTGTAGCCAAATCAAGGTAACTCCTCTCAAAA
1 TACCTATACCATGACTGTAGCCAAATCAAGGTAACTCATCTCAAAA
* * *
68640166 TACCTATATCATGGCTTGTAGCCAAATTAAGGTA
1 TACCTATACCATGAC-TGTAGCCAAATCAAGGTA
68640200 TTATTCCCAC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 38 0.57
47 29 0.43
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (46 bp):
TACCTATACCATGACTGTAGCCAAATCAAGGTAACTCATCTCAAAA
Found at i:68643731 original size:55 final size:55
Alignment explanation
Indices: 68643647--68643757 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
68643637 TGCCCCAGAA
*
68643647 AACCAACCTCACGCAATGAAAATCCACATTTACTAAACTTTGCACATAACTACTT
1 AACCAACCGCACGCAATGAAAATCCACATTTACTAAACTTTGCACATAACTACTT
*
68643702 AACCAACCGCACGCAATGAAAATCCACATTTACTAAACTTTGCATATAACTACTT
1 AACCAACCGCACGCAATGAAAATCCACATTTACTAAACTTTGCACATAACTACTT
68643757 A
1 A
68643758 TCAGCAGAGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.41, C:0.28, G:0.06, T:0.25
Consensus pattern (55 bp):
AACCAACCGCACGCAATGAAAATCCACATTTACTAAACTTTGCACATAACTACTT
Found at i:68655507 original size:46 final size:46
Alignment explanation
Indices: 68655427--68655515 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
68655417 GCCATGGCCC
* *** *
68655427 GTAGCCAAATCAAGGTTACTTATCTTGGAGTACCTATACCATGACA
1 GTAGCCAAATCAAGGTTACTCATCTCAAAATACCTATACCATGACA
* *
68655473 GTAGCCAAATCAAGGTTACTCCTCTCAAAATACCTATATCATG
1 GTAGCCAAATCAAGGTTACTCATCTCAAAATACCTATACCATG
68655516 GCTTGTAGTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (46 bp):
GTAGCCAAATCAAGGTTACTCATCTCAAAATACCTATACCATGACA
Found at i:68665130 original size:44 final size:44
Alignment explanation
Indices: 68665067--68665182 Score: 173
Period size: 44 Copynumber: 2.6 Consensus size: 44
68665057 ATCTAACATA
* *
68665067 ACAAATCTTAT-CTCCCTGAAGTTGTAGTAGAGTATATTAAAGCT
1 ACAAATCCTATAC-CCCTGAAGTTGTAGTAGAGTAGATTAAAGCT
*
68665111 ACAAATCCTATACCCCTGAAGTTACTA-TAGAGTAGATTAAAGCT
1 ACAAATCCTATACCCCTGAAGTT-GTAGTAGAGTAGATTAAAGCT
68665155 ACAAATCCTATACCCCTGAAGTTGTAGT
1 ACAAATCCTATACCCCTGAAGTTGTAGT
68665183 GGGTCTGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
43 2 0.03
44 60 0.92
45 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (44 bp):
ACAAATCCTATACCCCTGAAGTTGTAGTAGAGTAGATTAAAGCT
Found at i:68665245 original size:50 final size:50
Alignment explanation
Indices: 68665184--68665280 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
68665174 AGTTGTAGTG
*
68665184 GGTCTGATTGAATCTACCATAACGAATCTTATCTCCCTGAAGATGCAGCA
1 GGTCGGATTGAATCTACCATAACGAATCTTATCTCCCTGAAGATGCAGCA
* * *
68665234 GGTCGGATTGAATTTACCATAGCGAATCTTATCTCCCTGAAGTTGCA
1 GGTCGGATTGAATCTACCATAACGAATCTTATCTCCCTGAAGATGCA
68665281 ATGGAGTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (50 bp):
GGTCGGATTGAATCTACCATAACGAATCTTATCTCCCTGAAGATGCAGCA
Found at i:68665294 original size:50 final size:51
Alignment explanation
Indices: 68665168--68665300 Score: 148
Period size: 50 Copynumber: 2.7 Consensus size: 51
68665158 AATCCTATAC
* *
68665168 CCCTGAAGTTGTAGTGG-GTCTGATTGAATCTACCATAACGAATCTTATCT
1 CCCTGAAGTTGCAATGGAGTCTGATTGAATCTACCATAACGAATCTTATCT
* * * * *
68665218 CCCTGAAGATGC-A-GCAGGTCGGATTGAATTTACCATAGCGAATCTTATCT
1 CCCTGAAGTTGCAATGGA-GTCTGATTGAATCTACCATAACGAATCTTATCT
* *
68665268 CCCTGAAGTTGCAATGGAGT-TTATTGAAGCTAC
1 CCCTGAAGTTGCAATGGAGTCTGATTGAATCTAC
68665301 AAATCGTATA
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
48 1 0.02
50 60 0.91
51 3 0.05
52 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (51 bp):
CCCTGAAGTTGCAATGGAGTCTGATTGAATCTACCATAACGAATCTTATCT
Found at i:68665354 original size:94 final size:94
Alignment explanation
Indices: 68665018--68666032 Score: 733
Period size: 94 Copynumber: 10.9 Consensus size: 94
68665008 CAACAAAACA
* * * * *
68665018 ACAAATCCTATACCCCTGAAGTTGCAGT-GGTC-GAAATGAATCTAACATAACAAATCTTATCTC
1 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAG-ATTGAATCTACCATAGCGAATCTTATCTC
* * * *
68665081 CCTGAAGTTGTAGTAGAGTATATTAAAGCT
65 CCTGAAGTTGCAGTGGAGTAAATTGAAGCT
* * * * * *
68665111 ACAAATCCTATACCCCTGAAGTTACTA-TAGAGT-AGATT-AA---AGC-TA-CAAATCCTATAC
1 ACAAATCCTATACCTCTGAAGTTGC-AGT-GGGTCAGATTGAATCTACCATAGCGAATCTTAT-C
* ** *
68665168 -CCCTGAAGTTGTAGTGG-GTCTGATTGAATCT
63 TCCCTGAAGTTGCAGTGGAGT-AAATTGAAGCT
* * * ** * *
68665199 ACCATAACGAATCTTAT-CTCCCTGAAGATGCAGCAGGTCGGATTGAATTTACCATAGCGAATCT
1 A-C---A--AATCCTATAC-CTCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCT
* **
68665263 TATCTCCCTGAAGTTGCAATGGAGTTTATTGAAGCT
59 TATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGCT
* ** * * *
68665299 ACAAATCGTATACCTCAAAAGTTGTAGTGGGTCAGATTGAATCTACCATATCGAATCTTATCTCT
1 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
* * ** ** * *
68665364 TTAAAGTTGTTGTAAAGTAGATTAAAGCT
66 CTGAAGTTGCAGTGGAGTAAATTGAAGCT
* *
68665393 ACAAATCTTATA-CTACTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGTGAATCTTATCTC
1 ACAAATCCTATACCT-CTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTC
** *
68665457 TTTGAAGTTGCAGTGGAGTAGATTGAAGCT
65 CCTGAAGTTGCAGTGGAGTAAATTGAAGCT
* * * * *
68665487 ACAAATCCTATACCTCTAAAGTTACAGTAGAG-CAGATTGAAGCTA-C--A---AATCCTATAC-
1 ACAAATCCTATACCTCTGAAGTTGCAGT-GGGTCAGATTGAATCTACCATAGCGAATCTTAT-CT
* * *
68665544 CTCTGAAGTTGTAGTGGAGCAAATTGAAGCT
64 CCCTGAAGTTGCAGTGGAGTAAATTGAAGCT
* *
68665575 ACAAATTCTATATCCT-TGAAGTTGCAGTGGGTCAAATTGAATCTACCATAGCGAATCTTATCTC
1 ACAAATCCTATA-CCTCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTC
* * ** *
68665639 CCTGAGGATGCAGTGGAGTTGATTAAAGCT
65 CCTGAAGTTGCAGTGGAGTAAATTGAAGCT
* * * **
68665669 ACAAATCCTATACCCCTAAAGTTGCAGTGAGT-AGGATTGAAGT-TACCATAATGAATCTTATCT
1 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCA-GATTGAA-TCTACCATAGCGAATCTTATCT
*
68665732 CCCTGAAGTT-CAAGTGGAGCAAGA-TGAAGCT
64 CCCTGAAGTTGC-AGTGGAGTAA-ATTGAAGCT
* ** * * *
68665763 ACAAATCCTATACCTTTGAAGTTATAGTGGGTCAGTTTGAAGT-TACCATAGCGAATCTTAGCTA
1 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAGATTGAA-TCTACCATAGCGAATCTTATCTC
* * *
68665827 CCTGAAGTTGTAGTAGAGCAAGA-TGAAGCT
65 CCTGAAGTTGCAGTGGAGTAA-ATTGAAGCT
* * *
68665857 ACAAATCATATACCGCTGAAGTTGCAGTGGGTTAGATTGAAGT-TACCATAGCGAATCTTATCTC
1 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAGATTGAA-TCTACCATAGCGAATCTTATCTC
* * *
68665921 TCTGAAGTTGCAGTGGAGCAAGA-TGAAGTT
65 CCTGAAGTTGCAGTGGAGTAA-ATTGAAGCT
* * * * * * * * * *
68665951 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGACTGAAACTACAACAACAAATCTTAACTCC
1 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
* *
68666016 TTGAAGTTGCAATGGAG
66 CTGAAGTTGCAGTGGAG
68666033 CAAGATGAAA
Statistics
Matches: 740, Mismatches: 137, Indels: 89
0.77 0.14 0.09
Matches are distributed among these distances:
87 4 0.01
88 99 0.13
89 9 0.01
90 2 0.00
91 2 0.00
92 1 0.00
93 39 0.05
94 529 0.71
95 13 0.02
96 1 0.00
98 2 0.00
99 4 0.01
100 33 0.04
101 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (94 bp):
ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
CTGAAGTTGCAGTGGAGTAAATTGAAGCT
Found at i:68665430 original size:44 final size:43
Alignment explanation
Indices: 68665382--68665998 Score: 206
Period size: 44 Copynumber: 13.3 Consensus size: 43
68665372 GTTGTAAAGT
*
68665382 AGATTAAAGCTACAAATCTTATACTACTGAAGTTGCAGTGGGTC
1 AGATTGAAGCTACAAATCTTATACT-CTGAAGTTGCAGTGGGTC
*
68665426 AGATTGAATCTACCATAGTGAATCTTAT-CTCTTTGAAGTTGCAGTGGAGT-
1 AGATTGAAGCTA-C--A---AATCTTATACTC--TGAAGTTGCAGTGG-GTC
* * * *
68665476 AGATTGAAGCTACAAATCCTATACCTCTAAAGTTACAGTAGAG-C
1 AGATTGAAGCTACAAATCTTATA-CTCTGAAGTTGCAGT-GGGTC
* *
68665520 AGATTGAAGCTACAAATCCTATACCTCTGAAGTTGTAGTGGAG-C
1 AGATTGAAGCTACAAATCTTATA-CTCTGAAGTTGCAGTGG-GTC
* *
68665564 AAATTGAAGCTACAAATTCTATATCCT-TGAAGTTGCAGTGGGTC
1 AGATTGAAGCTACAAA-TCT-TATACTCTGAAGTTGCAGTGGGTC
* * * *
68665608 AAATTGAATCTACCATAGCGAATCTTAT-CTCCCTGAGGATGCAGTGGAGT-
1 AGATTGAAGCTA-C--A---AATCTTATACT--CTGAAGTTGCAGTGG-GTC
* * * * * *
68665658 TGATTAAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGAGT-
1 AGATTGAAGCTACAAATCTTATA-CTCTGAAGTTGCAGTGGGTC
*
68665701 AGGATTGAAGTTACCATAATGAATCTTAT-CTCCCTGAAGTT-CAAGTGGAG-C
1 A-GATTGAAGCTA-C---A--AATCTTATACT--CTGAAGTTGC-AGTGG-GTC
* * **
68665752 AAGA-TGAAGCTACAAATCCTATACCTTTGAAGTTATAGTGGGTC
1 -AGATTGAAGCTACAAATCTTATA-CTCTGAAGTTGCAGTGGGTC
* * * *
68665796 AGTTTGAAGTTACCATAGCGAATCTTAGCTAC-CTGAAGTTGTAGTAGAG-C
1 AGATTGAAG----C-TA-CAAATCTTA--TACTCTGAAGTTGCAGT-GGGTC
* * *
68665846 AAGA-TGAAGCTACAAATCATATACCGCTGAAGTTGCAGTGGGTT
1 -AGATTGAAGCTACAAATCTTATA-CTCTGAAGTTGCAGTGGGTC
* *
68665890 AGATTGAAGTTACCATAGCGAATCTTATCTCTCTGAAGTTGCAGTGGAG-C
1 AGATTGAAG----C-TA-CAAATCTTAT-ACTCTGAAGTTGCAGTGG-GTC
* * * *
68665940 AAGA-TGAAGTTACAAATCCTATACCCCTGAAGTTGTAGTGGGTC
1 -AGATTGAAGCTACAAATCTTATA-CTCTGAAGTTGCAGTGGGTC
* * *
68665984 GGACTGAAACTACAA
1 AGATTGAAGCTACAA
68665999 CAACAAATCT
Statistics
Matches: 435, Mismatches: 65, Indels: 146
0.67 0.10 0.23
Matches are distributed among these distances:
42 2 0.00
43 16 0.04
44 215 0.49
45 12 0.03
46 11 0.03
47 6 0.01
48 8 0.02
49 13 0.03
50 133 0.31
51 16 0.04
52 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
AGATTGAAGCTACAAATCTTATACTCTGAAGTTGCAGTGGGTC
Found at i:68665471 original size:50 final size:48
Alignment explanation
Indices: 68665170--68665936 Score: 215
Period size: 44 Copynumber: 16.3 Consensus size: 48
68665160 TCCTATACCC
* * *
68665170 CTGAAGTTGTAGTGGGTCTGATTGAATCTACCATAACGAATCTTATCTCC
1 CTGAAGTTGCAGTGGGTCAGATTGAATCTACCAT-A-GAATCTTATCTCT
* ** * * *
68665220 CTGAAGATGCAGCAGGTCGGATTGAATTTACCATAGCGAATCTTATCTCC
1 CTGAAGTTGCAGTGGGTCAGATTGAATCTACCATA--GAATCTTATCTCT
* ** * *
68665270 CTGAAGTTGCAATGGAGT-TTATTGAAGCTA-C--A-AATCGTATAC-CT
1 CTGAAGTTGCAGTGG-GTCAGATTGAATCTACCATAGAATCTTAT-CTCT
** *
68665314 CAAAAGTTGTAGTGGGTCAGATTGAATCTACCATATCGAATCTTATCTCT
1 CTGAAGTTGCAGTGGGTCAGATTGAATCTACCATA--GAATCTTATCTCT
* * ** ** * * *
68665364 TTAAAGTTGTTGTAAAGT-AGATTAAAGCTA-C--A-AATCTTATACT-A
1 CTGAAGTTGCAGT-GGGTCAGATTGAATCTACCATAGAATCTTAT-CTCT
68665408 CTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGTGAATCTTATCTCT
1 CTGAAGTTGCAGTGGGTCAGATTGAATCTACCATA--GAATCTTATCTCT
* * *
68665458 TTGAAGTTGCAGTGGAGT-AGATTGAAGCTA-C--A-AATCCTATAC-CT
1 CTGAAGTTGCAGTGG-GTCAGATTGAATCTACCATAGAATCTTAT-CTCT
* * * * *
68665502 CTAAAGTTACAGTAGAG-CAGATTGAAGCTA-C--A-AATCCTATAC-CT
1 CTGAAGTTGCAGT-GGGTCAGATTGAATCTACCATAGAATCTTAT-CTCT
* * * *
68665546 CTGAAGTTGTAGTGGAG-CAAATTGAAGCTA-CA-A-ATTCTATATC-CT
1 CTGAAGTTGCAGTGG-GTCAGATTGAATCTACCATAGAATCT-TATCTCT
* *
68665591 -TGAAGTTGCAGTGGGTCAAATTGAATCTACCATAGCGAATCTTATCTCC
1 CTGAAGTTGCAGTGGGTCAGATTGAATCTACCATA--GAATCTTATCTCT
* * * * * * *
68665640 CTGAGGATGCAGTGGAGT-TGATTAAAGCTA-C--A-AATCCTATAC-CC
1 CTGAAGTTGCAGTGG-GTCAGATTGAATCTACCATAGAATCTTAT-CTCT
* * *
68665684 CTAAAGTTGCAGTGAGT-AGGATTGAAGT-TACCATAATGAATCTTATCTCC
1 CTGAAGTTGCAGTGGGTCA-GATTGAA-TCTACCAT-A-GAATCTTATCTCT
* *
68665734 CTGAAGTT-CAAGTGGAG-CAAGA-TGAAGCTA-C--A-AATCCTATAC-CT
1 CTGAAGTTGC-AGTGG-GTC-AGATTGAATCTACCATAGAATCTTAT-CTCT
* ** * *
68665778 TTGAAGTTATAGTGGGTCAGTTTGAAGT-TACCATAGCGAATCTTAGCTAC-
1 CTGAAGTTGCAGTGGGTCAGATTGAA-TCTACCATA--GAATCTTATCT-CT
* * * * *
68665828 CTGAAGTTGTAGTAGAG-CAAGA-TGAAGCTA-C--A-AATCATATAC-CG
1 CTGAAGTTGCAGT-GGGTC-AGATTGAATCTACCATAGAATCTTAT-CTCT
*
68665872 CTGAAGTTGCAGTGGGTTAGATTGAAGT-TACCATAGCGAATCTTATCTCT
1 CTGAAGTTGCAGTGGGTCAGATTGAA-TCTACCATA--GAATCTTATCTCT
68665922 CTGAAGTTGCAGTGG
1 CTGAAGTTGCAGTGG
68665937 AGCAAGATGA
Statistics
Matches: 539, Mismatches: 98, Indels: 160
0.68 0.12 0.20
Matches are distributed among these distances:
43 17 0.03
44 229 0.42
45 22 0.04
46 5 0.01
47 9 0.02
48 5 0.01
49 19 0.04
50 216 0.40
51 16 0.03
52 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (48 bp):
CTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGAATCTTATCTCT
Found at i:68665815 original size:188 final size:187
Alignment explanation
Indices: 68665018--68666032 Score: 826
Period size: 188 Copynumber: 5.4 Consensus size: 187
68665008 CAACAAAACA
* * * * *
68665018 ACAAATCCTATACCCCTGAAGTTGCAGT-GGTC-GAAATGAATCTAACATAACAAATCTTATCTC
1 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAG-ATTGAATCTACCATAGCGAATCTTATCTC
* * * * * * *
68665081 CCTGAAGTTGTAGTAGAGTATATTAAAGCTACAAATCCTATACCCCTGAAGTTACTA-TAGAGTA
65 CCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTATACCTCTAAAGTTGC-AGT-GAGTA
* * * * * * *
68665145 GATTAAAGCTA-C--A--AATCCTATAC-CCCTGAAGTTGTAGTGG-GTC-TGATTGAATCT
128 GATTGAAGTTACCATATGAATCTTAT-CTCTCTGAAGTTCTAGTGGAG-CAAGATTGAAGCT
* * * ** * *
68665199 ACCATAACGAATCTTAT-CTCCCTGAAGATGCAGCAGGTCGGATTGAATTTACCATAGCGAATCT
1 A-C---A--AATCCTATAC-CTCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCT
* ** * * *
68665263 TATCTCCCTGAAGTTGCAATGGAGTTTATTGAAGCTACAAATCGTATACCTCAAAAGTTGTAGTG
59 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTATACCTCTAAAGTTGCAGTG
* * * * * ** * *
68665328 GGTCAGATTGAA-TCTACCATATCGAATCTTATCTCTTTAAAGTTGTTGTAAAG-TAGATTAAAG
124 AGT-AGATTGAAGT-TACCATAT-GAATCTTATCTCTCTGAAGTTCTAGTGGAGCAAGATTGAAG
68665391 CT
186 CT
* *
68665393 ACAAATCTTATA-CTACTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGTGAATCTTATCTC
1 ACAAATCCTATACCT-CTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTC
** * *
68665457 TTTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTATACCTCTAAAGTTACAGTAGAGCAG
65 CCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTATACCTCTAAAGTTGCAGT-GAGTAG
* * *
68665522 ATTGAAGCTA-C--A--AATCCTATAC-CTCTGAAGTTGTAGTGGAGCAA-ATTGAAGCT
129 ATTGAAGTTACCATATGAATCTTAT-CTCTCTGAAGTTCTAGTGGAGCAAGATTGAAGCT
* *
68665575 ACAAATTCTATATCCT-TGAAGTTGCAGTGGGTCAAATTGAATCTACCATAGCGAATCTTATCTC
1 ACAAATCCTATA-CCTCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTC
* * * * *
68665639 CCTGAGGATGCAGTGGAGTTGATTAAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGAGTAGG
65 CCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTATACCTCTAAAGTTGCAGTGAGTA-G
* *
68665704 ATTGAAGTTACCATAATGAATCTTATCTCCCTGAAGTTCAAGTGGAGCAAGA-TGAAGCT
129 ATTGAAGTTACCAT-ATGAATCTTATCTCTCTGAAGTTCTAGTGGAGCAAGATTGAAGCT
* ** * * *
68665763 ACAAATCCTATACCTTTGAAGTTATAGTGGGTCAGTTTGAAGT-TACCATAGCGAATCTTAGCTA
1 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAGATTGAA-TCTACCATAGCGAATCTTATCTC
* * * * * * *
68665827 CCTGAAGTTGTAGTAGAGCAAGA-TGAAGCTACAAATCATATACCGCTGAAGTTGCAGTGGGTTA
65 CCTGAAGTTGCAGTGGAG-TAGATTGAAGCTACAAATCCTATACCTCTAAAGTTGCAGTGAG-TA
* *
68665891 GATTGAAGTTACCATAGCGAATCTTATCTCTCTGAAGTTGC-AGTGGAGCAAGA-TGAAGTT
128 GATTGAAGTTACCATA-TGAATCTTATCTCTCTGAAGTT-CTAGTGGAGCAAGATTGAAGCT
* * * * * * * * * *
68665951 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGACTGAAACTACAACAACAAATCTTAACTCC
1 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
* *
68666016 TTGAAGTTGCAATGGAG
66 CTGAAGTTGCAGTGGAG
68666033 CAAGATGAAA
Statistics
Matches: 674, Mismatches: 115, Indels: 83
0.77 0.13 0.10
Matches are distributed among these distances:
181 5 0.01
182 146 0.22
183 3 0.00
184 2 0.00
185 2 0.00
186 2 0.00
187 31 0.05
188 440 0.65
189 11 0.02
190 1 0.00
191 1 0.00
193 2 0.00
194 27 0.04
195 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (187 bp):
ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
CTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTATACCTCTAAAGTTGCAGTGAGTAGAT
TGAAGTTACCATATGAATCTTATCTCTCTGAAGTTCTAGTGGAGCAAGATTGAAGCT
Found at i:68665948 original size:50 final size:49
Alignment explanation
Indices: 68665687--68665952 Score: 145
Period size: 50 Copynumber: 5.6 Consensus size: 49
68665677 TATACCCCTA
* * * *
68665687 AAGTTGCAGT-GAGTAGGATTGAAGTTACCATAATGAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAAGA-TGAAGTTACCAT-ACGAATCTTATCTCTCTG
* * *
68665737 AAGTT-CAAGTGGAGCAAGATGAAG----C-TACAAATCCTATAC-CTTTG
1 AAGTTGC-AGTGGAGCAAGATGAAGTTACCATACGAATCTTAT-CTCTCTG
** * *
68665781 AAGTTATAGTGG-GTC-AGTTTGAAGTTACCATAGCGAATCTTAGCTAC-CTG
1 AAGTTGCAGTGGAG-CAAG-ATGAAGTTACCATA-CGAATCTTATCT-CTCTG
* * * * *
68665831 AAGTTGTAGTAGAGCAAGATGAAG----C-TACAAATCATATAC-CGCTG
1 AAGTTGCAGTGGAGCAAGATGAAGTTACCATACGAATCTTAT-CTCTCTG
**
68665875 AAGTTGCAGTGG-GTTAGATTGAAGTTACCATAGCGAATCTTATCTCTCTG
1 AAGTTGCAGTGGAGCAAGA-TGAAGTTACCATA-CGAATCTTATCTCTCTG
68665925 AAGTTGCAGTGGAGCAAGATGAAGTTAC
1 AAGTTGCAGTGGAGCAAGATGAAGTTAC
68665953 AAATCCTATA
Statistics
Matches: 161, Mismatches: 28, Indels: 54
0.66 0.12 0.22
Matches are distributed among these distances:
43 8 0.05
44 52 0.32
45 5 0.03
46 2 0.01
48 2 0.01
49 7 0.04
50 71 0.44
51 14 0.09
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (49 bp):
AAGTTGCAGTGGAGCAAGATGAAGTTACCATACGAATCTTATCTCTCTG
Found at i:68666299 original size:11 final size:11
Alignment explanation
Indices: 68666273--68666307 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
68666263 CCAGCCCAAT
68666273 AAAAAA-AACA
1 AAAAAATAACA
68666283 ACAAAAATAACA
1 A-AAAAATAACA
68666295 AAAAAATAACA
1 AAAAAATAACA
68666306 AA
1 AA
68666308 GTCCATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (11 bp):
AAAAAATAACA
Found at i:68667165 original size:23 final size:23
Alignment explanation
Indices: 68667110--68667167 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
68667100 AGAAAGTAAG
*
68667110 AAATTTTTTTTGAAACAAGTTTG
1 AAATTTTTTTTGAAACAAGTTTA
* *
68667133 AATTTTTTTTTGAAACAGGTTTA
1 AAATTTTTTTTGAAACAAGTTTA
68667156 AAATTATTTTTT
1 AAATT-TTTTTT
68667168 AAATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (23 bp):
AAATTTTTTTTGAAACAAGTTTA
Found at i:68673167 original size:3 final size:3
Alignment explanation
Indices: 68673159--68673233 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
68673149 TATAAGTAGC
* * *
68673159 AAT AAT AAT AAC AAT AAT AAT GAAT AAT ACA- AA- AATT GAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT A-AT AAT AA-T AAT AAT AAT
*
68673204 AGT AAT AAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
68673234 GGGCAAGAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
2 4 0.07
3 46 0.79
4 8 0.14
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:68675214 original size:49 final size:49
Alignment explanation
Indices: 68675127--68675243 Score: 155
Period size: 49 Copynumber: 2.4 Consensus size: 49
68675117 TTTCACATGA
* * *
68675127 TCGTGTG-CTCCACATGGCCAAGCCATACGGGCTGCAAAAACACACACAG
1 TCGTGTGCCT-CACATGGCCAAGCCACACAGGCTACAAAAACACACACAG
* **
68675176 TTGTGTGCCTCACATGGCCAAGCCACACAGGCTACAAAAACACACATGG
1 TCGTGTGCCTCACATGGCCAAGCCACACAGGCTACAAAAACACACACAG
*
68675225 TCGTGTGCCCCACATGGCC
1 TCGTGTGCCTCACATGGCC
68675244 TGGCACACGG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
49 57 0.97
50 2 0.03
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.16
Consensus pattern (49 bp):
TCGTGTGCCTCACATGGCCAAGCCACACAGGCTACAAAAACACACACAG
Found at i:68676288 original size:93 final size:92
Alignment explanation
Indices: 68676181--68676369 Score: 324
Period size: 93 Copynumber: 2.0 Consensus size: 92
68676171 AGAGAGAGAA
* *
68676181 TCAATTTGCTCATTTTAAAAATTGATAGAGACGAAAAGAGTATTTACACCAATATATTATTTCAA
1 TCAATTAGCTCATTTTAAAAATTGATAGAGACCAAAAGAGTATTTACACCAATATATTATTTCAA
68676246 TTATTCAAGTTATTCAAATTGTAAAAT
66 TTATTCAAGTTATTCAAATTGTAAAAT
* * *
68676273 TCAATTAGACTCATTTTTAGAGTTGATAGAGACCAAAAGAGTATTTACACCAATATATTATTTCA
1 TCAATTAG-CTCATTTTAAAAATTGATAGAGACCAAAAGAGTATTTACACCAATATATTATTTCA
68676338 ATTATTCAAGTTATTCAAATTGTAAAAT
65 ATTATTCAAGTTATTCAAATTGTAAAAT
68676366 TCAA
1 TCAA
68676370 GTTATTTACA
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 7 0.08
93 84 0.92
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.38
Consensus pattern (92 bp):
TCAATTAGCTCATTTTAAAAATTGATAGAGACCAAAAGAGTATTTACACCAATATATTATTTCAA
TTATTCAAGTTATTCAAATTGTAAAAT
Found at i:68678160 original size:27 final size:28
Alignment explanation
Indices: 68678112--68678240 Score: 90
Period size: 27 Copynumber: 4.8 Consensus size: 28
68678102 ACGTCTTATG
* **
68678112 TATTTTAAAT-TATTATAGATTTT-AAA
1 TATTTTACATATATTATTTATTTTGAAA
*
68678138 TATTTTACATATATTATTTATTTT-AAC
1 TATTTTACATATATTATTTATTTTGAAA
* * *
68678165 TACTATAC--ATATTACTTATTTTGAAA
1 TATTTTACATATATTATTTATTTTGAAA
* **
68678191 TATTTT-TATACGTTATTTATTTTGAAA
1 TATTTTACATATATTATTTATTTTGAAA
* * * *
68678218 TATTATATATGTATTATCTATTT
1 TATTTTACATATATTATTTATTT
68678241 AAGTTTCTTT
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
25 13 0.16
26 15 0.19
27 39 0.49
28 12 0.15
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (28 bp):
TATTTTACATATATTATTTATTTTGAAA
Found at i:68678386 original size:24 final size:23
Alignment explanation
Indices: 68678289--68678388 Score: 71
Period size: 24 Copynumber: 4.2 Consensus size: 23
68678279 TAAAAAAAAC
68678289 TATTTTAAAATTCTT-T-TATTATT
1 TATTTTAAAATT-TTATATATTA-T
** *
68678312 TATCGTAAACCTTTTAT-TATTAT
1 TATTTTAAA-ATTTTATATATTAT
* * *
68678335 TAATTTTAAGATTTCATATGTTACT
1 T-ATTTTAAAATTTTATATATTA-T
68678360 TATTTTAAAATTTTATATATGTAT
1 TATTTTAAAATTTTATATAT-TAT
68678384 TATTT
1 TATTT
68678389 ATTTTGGATT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
23 16 0.27
24 39 0.66
25 4 0.07
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (23 bp):
TATTTTAAAATTTTATATATTAT
Found at i:68678444 original size:27 final size:29
Alignment explanation
Indices: 68678410--68678474 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
68678400 TTTATATTTT
**
68678410 TTTA-TTTAAAT-T-ACTTTTGTACATTA
1 TTTATTTTAAATCTCACTTTTACACATTA
*
68678436 TTTATTTTAAATCTCTCTTTTACACATTA
1 TTTATTTTAAATCTCACTTTTACACATTA
68678465 TTTATTTTAA
1 TTTATTTTAA
68678475 GCTCTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 7 0.21
28 1 0.03
29 21 0.64
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTATTTTAAATCTCACTTTTACACATTA
Found at i:68680614 original size:26 final size:26
Alignment explanation
Indices: 68680577--68680660 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
68680567 TGATACAAAT
* *
68680577 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
68680603 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
68680629 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
68680655 TGATAA
1 TGATAA
68680661 GAATTTCATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:68684179 original size:67 final size:67
Alignment explanation
Indices: 68684069--68684202 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
68684059 CAATCCAACG
*
68684069 AGTAATGACATTTATACATACCTCAGTACTGTTGATCAACAATATCATTTGATTATAATAAACTA
1 AGTAATGACATTTATACATACCTCAATACTGTTGATCAACAATATCATTTGATTATAATAAACTA
68684134 CC
66 CC
* *
68684136 AGTAATGACATTTATACATACCTCAATACTGTTGATCACCAATATCATTTGCTTATAATAAACTA
1 AGTAATGACATTTATACATACCTCAATACTGTTGATCAACAATATCATTTGATTATAATAAACTA
68684201 CC
66 CC
68684203 TGTTTAAAGA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.34
Consensus pattern (67 bp):
AGTAATGACATTTATACATACCTCAATACTGTTGATCAACAATATCATTTGATTATAATAAACTA
CC
Found at i:68684372 original size:21 final size:22
Alignment explanation
Indices: 68684326--68684372 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
68684316 TGGGTATAGA
*
68684326 AAATATATTAAATTCTCATTTC
1 AAATATATTAAATACTCATTTC
*
68684348 AAATATA-TAAGTACTCAATTT-
1 AAATATATTAAATACTC-ATTTC
68684369 AAAT
1 AAAT
68684373 CCATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATATTAAATACTCATTTC
Found at i:68696604 original size:20 final size:20
Alignment explanation
Indices: 68696579--68696619 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
68696569 AAGATATGTA
68696579 TATGGAGGATTCTCAGGATT
1 TATGGAGGATTCTCAGGATT
68696599 TATGGAGGATTCTCAGGATT
1 TATGGAGGATTCTCAGGATT
68696619 T
1 T
68696620 TGAAGATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (20 bp):
TATGGAGGATTCTCAGGATT
Found at i:68698289 original size:14 final size:14
Alignment explanation
Indices: 68698270--68698300 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
68698260 CAAATGTTGT
68698270 GGGTAACAAAATTG
1 GGGTAACAAAATTG
68698284 GGGTAACAAAATTG
1 GGGTAACAAAATTG
68698298 GGG
1 GGG
68698301 CAGTCTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.19
Consensus pattern (14 bp):
GGGTAACAAAATTG
Found at i:68700048 original size:56 final size:55
Alignment explanation
Indices: 68699977--68700081 Score: 165
Period size: 56 Copynumber: 1.9 Consensus size: 55
68699967 TATTTTACAT
* *
68699977 AAAAAGGGGAGAGGCCAAGGTAAAAACCTGCAAAGGGCACTTTGAGACCTCAAAA
1 AAAAAGGGGAGAGGCCAAGGTAAAAACCCGCAAAGGGCACCTTGAGACCTCAAAA
* *
68700032 AAAAAGAGGGAGAGGCCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGACC
1 AAAAAG-GGGAGAGGCCAAGGTAAAAACCCGCAAAGGGCACCTTGAGACC
68700082 AAAGAGGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 6 0.13
56 39 0.87
ACGTcount: A:0.41, C:0.20, G:0.30, T:0.09
Consensus pattern (55 bp):
AAAAAGGGGAGAGGCCAAGGTAAAAACCCGCAAAGGGCACCTTGAGACCTCAAAA
Found at i:68701098 original size:42 final size:42
Alignment explanation
Indices: 68701048--68701200 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 42
68701038 CAAATCTCAA
* **
68701048 CTCCCTAAAGTTGTAGTGGAATAGTTTGAAGTTAGATCTTAT
1 CTCCCTAAAGTTGCAGTGGAGCAGTTTGAAGTTAGATCTTAT
* * * * * *
68701090 CTCCCTAAAGTTGCAATGGAGCAGGTCTAAAGTTACAAATCTCAA
1 CTCCCTAAAGTTGCAGTGGAGCA-GTTTGAAGTT--AGATCTTAT
** * **
68701135 CTCCCGGAAGTTACAGTGGAGCAAATTGAAGTTAGATCTTAT
1 CTCCCTAAAGTTGCAGTGGAGCAGTTTGAAGTTAGATCTTAT
* *
68701177 CTCCCTAAAGTTGTAGTGAAGCAG
1 CTCCCTAAAGTTGCAGTGGAGCAG
68701201 ACTGAAGATA
Statistics
Matches: 82, Mismatches: 26, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
42 43 0.52
43 8 0.10
44 6 0.07
45 25 0.30
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (42 bp):
CTCCCTAAAGTTGCAGTGGAGCAGTTTGAAGTTAGATCTTAT
Found at i:68701189 original size:87 final size:87
Alignment explanation
Indices: 68700998--68701200 Score: 262
Period size: 87 Copynumber: 2.3 Consensus size: 87
68700988 CATGGTGAAC
* * * * * **
68700998 CTTATCTCCCTGAAGTTACATTGAAGTAGGTCAAAAGTTACAAATCTCAACTCCCTAAAGTTGTA
1 CTTATCTCCCTAAAGTTGCAATGAAGCAGGTCAAAAGTTACAAATCTCAACTCCCGAAAGTTACA
* **
68701063 GTGGAATAGTTTGAAGTTAGAT
66 GTGGAACAAATTGAAGTTAGAT
* * *
68701085 CTTATCTCCCTAAAGTTGCAATGGAGCAGGTCTAAAGTTACAAATCTCAACTCCCGGAAGTTACA
1 CTTATCTCCCTAAAGTTGCAATGAAGCAGGTCAAAAGTTACAAATCTCAACTCCCGAAAGTTACA
*
68701150 GTGGAGCAAATTGAAGTTAGAT
66 GTGGAACAAATTGAAGTTAGAT
* *
68701172 CTTATCTCCCTAAAGTTGTAGTGAAGCAG
1 CTTATCTCCCTAAAGTTGCAATGAAGCAG
68701201 ACTGAAGATA
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 99 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (87 bp):
CTTATCTCCCTAAAGTTGCAATGAAGCAGGTCAAAAGTTACAAATCTCAACTCCCGAAAGTTACA
GTGGAACAAATTGAAGTTAGAT
Found at i:68702162 original size:17 final size:17
Alignment explanation
Indices: 68702136--68702169 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
68702126 TTTTAAAAAC
*
68702136 TTTTAGAAAAGGTTTTT
1 TTTTAAAAAAGGTTTTT
*
68702153 TTTTAAAAAATGTTTTT
1 TTTTAAAAAAGGTTTTT
68702170 CTATCTTCCG
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:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (17 bp):
TTTTAAAAAAGGTTTTT
Found at i:68706111 original size:26 final size:26
Alignment explanation
Indices: 68706075--68706158 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
68706065 TGATACAAAT
68706075 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
68706101 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
68706127 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
68706153 TGATAA
1 TGATAA
68706159 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:68707810 original size:27 final size:27
Alignment explanation
Indices: 68707769--68707908 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
68707759 GAGGAAGCGT
*
68707769 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
68707796 TTTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
68707823 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
68707850 TCTAGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
68707878 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
68707904 TCTGG
1 TCTGG
68707909 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.05
27 79 0.81
28 14 0.14
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:68707858 original size:54 final size:55
Alignment explanation
Indices: 68707769--68707906 Score: 183
Period size: 54 Copynumber: 2.5 Consensus size: 55
68707759 GAGGAAGCGT
* * *
68707769 TCTGGTGGCTATGCCACAAATATCTGATT-TGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTG-TTCTAGTGGCTCTGCCACAAATATCTGTA
* *
68707823 TCTGGTGGCTCTGCCACATATATCTGTTCTAGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTAGTGGCTCTGCCACAAATATCTGTA
* *
68707878 TCTGGTGACTCTGTCACAT-TATCTGTTCT
1 TCTGGTGGCTCTGCCACATATATCTGTTCT
68707907 GGCAGCCATG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
53 2 0.03
54 55 0.73
55 18 0.24
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTAGTGGCTCTGCCACAAATATCTGTA
Found at i:68711262 original size:3 final size:3
Alignment explanation
Indices: 68711244--68711404 Score: 118
Period size: 3 Copynumber: 53.7 Consensus size: 3
68711234 TTATGATTTA
* * * *
68711244 TAT TAT TGT TAG TAT TAT TAT TAT TAT TCCT TAG T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * * * *
68711289 TAT TAT T-T TAT CAT TAT T-T TCCAT TAT TTT TAT TAT CAA TA- TAC
1 TAT TAT TAT TAT TAT TAT TAT T--AT TAT TAT TAT TAT TAT TAT TAT
*
68711333 TAT TAT TAT TCT TAT TAAT GTAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
68711380 TTT CTAC T-T TAT TAT TA- TAT TAT TA
1 TAT -TAT TAT TAT TAT TAT TAT TAT TA
68711405 CTTTTGCTAT
Statistics
Matches: 124, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
2 10 0.08
3 104 0.84
4 7 0.06
5 3 0.02
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:68711339 original size:23 final size:23
Alignment explanation
Indices: 68711311--68711370 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
68711301 ATTATTTTCC
*
68711311 ATTATTTTTATTATCAATATACT
1 ATTATTATTATTATCAATATACT
* * * *
68711334 ATTATTATTCTTATTAATGTATT
1 ATTATTATTATTATCAATATACT
68711357 ATTATTATTATTAT
1 ATTATTATTATTAT
68711371 TATTATTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTATTATTATTATCAATATACT
Found at i:68711896 original size:12 final size:13
Alignment explanation
Indices: 68711875--68711926 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
68711865 CTTTATTGCA
68711875 ATTTTAAATTATT
1 ATTTTAAATTATT
*
68711888 -TTTTGAATTATT
1 ATTTTAAATTATT
*
68711900 ATTTTAAGTTATT
1 ATTTTAAATTATT
* *
68711913 CTATTTATATTATT
1 AT-TTTAAATTATT
68711927 TTGTTATCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
12 11 0.35
13 11 0.35
14 9 0.29
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (13 bp):
ATTTTAAATTATT
Found at i:68712594 original size:127 final size:127
Alignment explanation
Indices: 68712331--68712694 Score: 532
Period size: 127 Copynumber: 2.9 Consensus size: 127
68712321 GTTGACTTTA
* * * * *
68712331 TAAAACAAATGCGAAGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATATGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTTGAGGGATCATGCCCTAATGTGTTGGGTTTCG
* * *
68712396 ATC-TTCATTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCATCCGCATTTTCTAAACCT
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACAT
68712457 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTTGAGGGATCATGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTTGAGGGATCATGCCCTAATGTGTTGGGTTTCG
**
68712522 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTGTTTTCTAAACAT
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACAT
* * * * * *
68712584 TAAAAGAAAGGTGATGTTTTATGTTTAGAAATTTGAGGAATCATGCCCTAATGTGCTAGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTTGAGGGATCATGCCCTAATGTGTTGGGTTTCG
* ** **
68712649 ATCTTTCGTTTATCCAAATAATCAAACATCCCTTTAAAATTTCGTC
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
68712695 TATATTTTTC
Statistics
Matches: 216, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
126 63 0.29
127 153 0.71
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (127 bp):
TAAAACAAAGGCGATGTTTGATGTTTAGAAATTTGAGGGATCATGCCCTAATGTGTTGGGTTTCG
ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACAT
Found at i:68716096 original size:14 final size:15
Alignment explanation
Indices: 68716077--68716107 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
68716067 AATGCATCTT
68716077 TTTGCATTCA-TTCA
1 TTTGCATTCATTTCA
68716091 TTTGCATTCATTTCA
1 TTTGCATTCATTTCA
68716106 TT
1 TT
68716108 CATTTGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (15 bp):
TTTGCATTCATTTCA
Found at i:68716098 original size:10 final size:10
Alignment explanation
Indices: 68716085--68716136 Score: 65
Period size: 10 Copynumber: 5.4 Consensus size: 10
68716075 TTTTTGCATT
68716085 CATTCATTTG
1 CATTCATTTG
68716095 CATTCATTT-
1 CATTCATTTG
68716104 CATTCATTTG
1 CATTCATTTG
68716114 CATTACATTT-
1 CATT-CATTTG
*
68716124 CA-TCATATG
1 CATTCATTTG
68716133 CATT
1 CATT
68716137 AAATTACATG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
8 4 0.11
9 12 0.32
10 16 0.43
11 5 0.14
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.48
Consensus pattern (10 bp):
CATTCATTTG
Found at i:68716107 original size:19 final size:20
Alignment explanation
Indices: 68716083--68716137 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
68716073 TCTTTTTGCA
68716083 TTCATTCATTTGCATT-CAT
1 TTCATTCATTTGCATTACAT
68716102 TTCATTCATTTGCATTACAT
1 TTCATTCATTTGCATTACAT
*
68716122 TTCA-TCATATGCATTA
1 TTCATTCATTTGCATTA
68716138 AATTACATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 27 0.79
20 7 0.21
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCATTCATTTGCATTACAT
Found at i:68716325 original size:12 final size:12
Alignment explanation
Indices: 68716288--68716335 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
68716278 GCAAAGGGAT
68716288 ATGCAAGAGCA-
1 ATGCAAGAGCAG
* *
68716299 ATTGCGAGTGCAG
1 A-TGCAAGAGCAG
68716312 ATGCAAGAGCAG
1 ATGCAAGAGCAG
68716324 ATGCAAGAGCAG
1 ATGCAAGAGCAG
68716336 TTAGCTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
11 1 0.03
12 29 0.94
13 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.33, T:0.12
Consensus pattern (12 bp):
ATGCAAGAGCAG
Found at i:68718085 original size:39 final size:40
Alignment explanation
Indices: 68718013--68718262 Score: 256
Period size: 40 Copynumber: 6.3 Consensus size: 40
68718003 ACCCAATTAT
* ** *
68718013 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * * *
68718051 CGTCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* *
68718091 CTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * *
68718131 CTTCGGGACTTAGCCCAGA-ATTAGTAACTCGCGCAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * * *
68718171 CTTCGGGACTTAGCCC-GAAATTAATAACTCGCACAAATTC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * * *
68718211 CTTCGGGACTTAGCCCGGAAATAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
68718251 CTTCGGGACTTA
1 CTTCGGGACTTA
68718263 ACCCCGTTAG
Statistics
Matches: 181, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
38 10 0.06
39 19 0.10
40 148 0.82
41 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:68722124 original size:80 final size:80
Alignment explanation
Indices: 68722020--68722244 Score: 287
Period size: 80 Copynumber: 2.8 Consensus size: 80
68722010 GCTACTCGTT
* * *
68722020 CAAATGCCTTCGAGACATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
*
68722085 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * *
68722100 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCG
*
68722163 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * *
68722179 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTT-GCACAAATGCCTTCGGGACTTAGCCC
68722242 GGA
64 GGA
68722245 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 4 0.03
79 56 0.45
80 63 0.50
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:68722204 original size:119 final size:120
Alignment explanation
Indices: 68722022--68722244 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
68722012 TACTCGTTCA
* *
68722022 AATGCCTTCGAGACATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGAGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
68722087 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
68722142 AATGCCTTCG-GGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGAGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
68722204 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
68722245 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 66 0.75
120 18 0.20
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGAGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:68722244 original size:40 final size:41
Alignment explanation
Indices: 68722020--68722244 Score: 259
Period size: 40 Copynumber: 5.6 Consensus size: 41
68722010 GCTACTCGTT
* * *
68722020 CAAATGCCTTCGAGACATAGCCCGGTTATAGTAACTT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
68722060 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
68722100 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
68722140 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * *
68722179 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
68722220 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
68722245 CATCATTCGA
Statistics
Matches: 162, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.72
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:68723440 original size:56 final size:56
Alignment explanation
Indices: 68723373--68723492 Score: 240
Period size: 56 Copynumber: 2.1 Consensus size: 56
68723363 TATTAGTTTA
68723373 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
68723429 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
68723485 TTGCCCAT
1 TTGCCCAT
68723493 CATCCCTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:68728140 original size:39 final size:40
Alignment explanation
Indices: 68728072--68728317 Score: 239
Period size: 40 Copynumber: 6.2 Consensus size: 40
68728062 AATTATCTTT
* ** * *
68728072 GGGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCGTC
1 GGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTC
* * * *
68728110 GGGTCTTAGCCCGGATATGGTCACTAGCACAAATGTCTTC
1 GGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTC
* *
68728150 GGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTC
* *
68728190 GGGACTTAGCCCGGA-ATTAGTAACTCACACAAATGCCTTC
1 GGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGCCTTC
* * * * *
68728230 GGAACGTAGCCCAGA-ATTAATAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGCCTTC
* * * * *
68728270 GGGACTTAGCCCAGAAATAATCACTAGCACAAATGTCTTC
1 GGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTC
68728310 GGGACTTA
1 GGGACTTA
68728318 ACCCCGTTAG
Statistics
Matches: 177, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
38 7 0.04
39 17 0.10
40 152 0.86
41 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTC
Found at i:68728221 original size:80 final size:80
Alignment explanation
Indices: 68728093--68728321 Score: 277
Period size: 80 Copynumber: 2.9 Consensus size: 80
68728083 GGATATAACC
* * * *
68728093 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATATGGTCACTAGCACAAATGTCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCACAAATGTCTTCGGGACT
* *
68728156 TAACCC-GGATATAGTA
65 TAACCCAGAAT-TAATA
* * * *
68728172 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCA-CACAAATGCCTTCGGAACG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACT-AGCACAAATGTCTTCGGGACT
*
68728236 TAGCCCAGAATTAATA
65 TAACCCAGAATTAATA
* * *
68728252 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAAATAATCACTAGCACAAATGTCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGTCTTCGGGACTT
68728317 AACCC
66 AACCC
68728322 CGTTAGCATC
Statistics
Matches: 126, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
79 9 0.07
80 111 0.88
81 6 0.05
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGTCTTCGGGACTT
AACCCAGAATTAATA
Found at i:68732844 original size:17 final size:18
Alignment explanation
Indices: 68732806--68732846 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
68732796 GTTGCAAGGT
68732806 AGAAGAAAAAGGAGATGG
1 AGAAGAAAAAGGAGATGG
68732824 AGAAGAAACAA-GAGA-GG
1 AGAAGAAA-AAGGAGATGG
68732841 AGAAGA
1 AGAAGA
68732847 GCGCGTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 12 0.55
19 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.37, T:0.02
Consensus pattern (18 bp):
AGAAGAAAAAGGAGATGG
Found at i:68737812 original size:44 final size:45
Alignment explanation
Indices: 68737736--68737846 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 45
68737726 AACAAACTTT
* * * * * *
68737736 ATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAG-TTACAAGTCTA
1 ATCTCCCTGAAGTTGCAGTGGAGCAAGCTGAAGATGACAAATCTA
* * *
68737780 ATCTCCTTGAAGTTGCGGTGGAGCAAGCTGAAGATGACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAAGCTGAAGATGACAAATCTA
* *
68737825 ATTTCCCTGAAGTTGCAATGGA
1 ATCTCCCTGAAGTTGCAGTGGA
68737847 ACAGATTGAA
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
44 27 0.51
45 26 0.49
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAAGCTGAAGATGACAAATCTA
Found at i:68737971 original size:179 final size:180
Alignment explanation
Indices: 68737636--68737979 Score: 410
Period size: 179 Copynumber: 1.9 Consensus size: 180
68737626 TGGAGGATAG
* * *
68737636 CAAATCGTATTTCTCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTTT
1 CAAATCGTATTTCCCTGAAGTTGCAATAGAACAGATTGAAGC-ATAAATTACAGATCTTATCTCT
* * * * * ** *
68737701 CTAAAGTTGCAGTAGAGGAGATCAAAACAAACTTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTG
65 CTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCATAAAGTTGCAGTAGAGCAAATTA
* * *
68737766 AAGTTACAAGTCTAATCTCCTTGAAGTTGCGGTGGAGCAAGCTGAAGATGA
130 AAGCTACAAATCTAATCTCCTTGAAGTTGCAGTGGAGCAAGCTGAAGATGA
* * *
68737817 CAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGC-TAAATTATAGATCTTATCTCTC
1 CAAATCGTATTTCCCTGAAGTTGCAATAGAACAGATTGAAGCATAAATTACAGATCTTATCTCTC
* * *
68737881 TGAAGTTGTAGTAGTA-CAGATCAAAACAAGCCTTATCTCCATGAAA-TTGCAGTAGAGCAAATT
66 TAAAGTTGCAGTAG-AGCAGATCAAAACAAACCTTATCTCCAT-AAAGTTGCAGTAGAGCAAATT
* *
68737944 AAAGCTATAAATCCT-ATAC-CTTTGAAGTTGCAGTGG
129 AAAGCTACAAAT-CTAAT-CTCCTTGAAGTTGCAGTGG
68737980 GTCGAATTAA
Statistics
Matches: 137, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
179 92 0.67
180 7 0.05
181 38 0.28
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (180 bp):
CAAATCGTATTTCCCTGAAGTTGCAATAGAACAGATTGAAGCATAAATTACAGATCTTATCTCTC
TAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCATAAAGTTGCAGTAGAGCAAATTAA
AGCTACAAATCTAATCTCCTTGAAGTTGCAGTGGAGCAAGCTGAAGATGA
Found at i:68739626 original size:3 final size:3
Alignment explanation
Indices: 68739620--68739874 Score: 107
Period size: 3 Copynumber: 84.7 Consensus size: 3
68739610 TATTATTTGC
* *
68739620 TAT TAT TAT TAT TAT TAT TAT TAT TAT TACCT TCAT TCT T-T TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T T-AT TAT TAT TAT TAT
* * ** * * * *
68739667 TAT TGT TGT TGC TAT T-T CTCT TGT TGT TTT TAT TAT TAT T-T ATAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * *
68739712 TAT TGT TAG TAT TAT TATT TAT TAG T-T TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
68739756 TGT CAT TAT T-T TCCAT TAT TGT TAT TAT CAA TA- TAC TAT TAT TAT
1 TAT TAT TAT TAT T--AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
68739801 TCT TAT TAAT GTAT TAT TAT TAT TTT CTAC T-T TAT TAT TAT TA- TAT
1 TAT TAT T-AT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* ** *
68739847 TAT TAC TAT TGC TAT TAT CA- TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
68739875 AACTAATTAA
Statistics
Matches: 192, Mismatches: 39, Indels: 42
0.70 0.14 0.15
Matches are distributed among these distances:
2 15 0.08
3 159 0.83
4 12 0.06
5 5 0.03
6 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:68739798 original size:23 final size:23
Alignment explanation
Indices: 68739770--68739824 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
68739760 ATTATTTTCC
*
68739770 ATTATTGTTATTATCAATATACT
1 ATTATTATTATTATCAATATACT
* * * *
68739793 ATTATTATTCTTATTAATGTATT
1 ATTATTATTATTATCAATATACT
68739816 ATTATTATT
1 ATTATTATT
68739825 TTCTACTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTATTATTATTATCAATATACT
Found at i:68740425 original size:24 final size:24
Alignment explanation
Indices: 68740398--68740453 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
68740388 TATTAATGAT
*
68740398 TTTAAATTGACTAATATCATTTAC
1 TTTAAATCGACTAATATCATTTAC
*
68740422 TTTAAATCGATTAATATCATTTAC
1 TTTAAATCGACTAATATCATTTAC
68740446 TTTAAATC
1 TTTAAATC
68740454 ATTTTCCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (24 bp):
TTTAAATCGACTAATATCATTTAC
Found at i:68740964 original size:127 final size:127
Alignment explanation
Indices: 68740775--68741139 Score: 532
Period size: 127 Copynumber: 2.9 Consensus size: 127
68740765 ATCGACTTTA
*
68740775 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTTGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTTGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
*
68740840 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTTCGTATTTTCTAAACCT
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTATTTTCTAAACCT
* * *
68740902 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATATGTTGGGTTTTG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTTGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
* * * *
68740967 ATATTTCGTTTGTTTAAATAATCAAGTTTCCCTTTAAAATTTTGTCCGTGTTTTCTAAACCT
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTATTTTCTAAACCT
* * * * * *
68741029 TAAAACAAAGGTGATGTTTGATGTTTAGAAATTTGAGGAATCGTGCCCAAATGTGCTAGGTTTCA
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTTGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
* ** ** * *
68741094 ATCTTTCGTTTATCCAAATAATCAAACATCTCTTTAAAATTCCGTC
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
68741140 TATATTTTTC
Statistics
Matches: 210, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
127 210 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (127 bp):
TAAAACAAAGGCGATGTTTGATGTTTAGAAATTTGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTATTTTCTAAACCT
Found at i:68741869 original size:12 final size:12
Alignment explanation
Indices: 68741845--68741892 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
68741835 TGTCCTAAAA
*
68741845 TAAAATTATATT
1 TAAATTTATATT
*
68741857 TAAATTTAAATT
1 TAAATTTATATT
68741869 TAAA-TTATATT
1 TAAATTTATATT
*
68741880 TATATTTATATT
1 TAAATTTATATT
68741892 T
1 T
68741893 TATCAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAAATTTATATT
Found at i:68741873 original size:23 final size:23
Alignment explanation
Indices: 68741847--68741892 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
68741837 TCCTAAAATA
68741847 AAATTATATTTAAATTTAAATTT
1 AAATTATATTTAAATTTAAATTT
* *
68741870 AAATTATATTTATATTTATATTT
1 AAATTATATTTAAATTTAAATTT
68741893 TATCAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AAATTATATTTAAATTTAAATTT
Found at i:68766355 original size:41 final size:41
Alignment explanation
Indices: 68766252--68766549 Score: 356
Period size: 41 Copynumber: 7.2 Consensus size: 41
68766242 ACTTAGCGTT
*
68766252 GTTTTTGGTAAAGCGCCA-CTAAAAACAGAGCAATAGCGGC
1 GTTTTTGGCAAAGCGCCAGCTAAAAACAGAGCAATAGCGGC
*
68766292 GTTTTTGGCAAAGCGCCA-CTAAAAACATAGCAATAGCGGC
1 GTTTTTGGCAAAGCGCCAGCTAAAAACAGAGCAATAGCGGC
* * *
68766332 GTTTTTTGGCAAAGCG-TAGCTAAAACCAGAGCAATCGCGGC
1 G-TTTTTGGCAAAGCGCCAGCTAAAAACAGAGCAATAGCGGC
68766373 GTTTTTGGCAAAGCG-CAGCTAAAAAACAGAGCAATAGCGGC
1 GTTTTTGGCAAAGCGCCAGCT-AAAAACAGAGCAATAGCGGC
*
68766414 GTTTTTGGCAAAGCGCC-GCTAAAAATAGAGCAATAGCGGC
1 GTTTTTGGCAAAGCGCCAGCTAAAAACAGAGCAATAGCGGC
* * * *
68766454 TTTTTTGGCGAAGCG-CTGCTAAAAAAAAGAGCAATAGCGGC
1 GTTTTTGGCAAAGCGCCAGCT-AAAAACAGAGCAATAGCGGC
* * *
68766495 GTTTTTGGTAAAGCGCCGAGCGCCGCTAAAAACAGAACAATAACGGC
1 GTTTTTGGCAAAGCGCC-A-----GCTAAAAACAGAGCAATAGCGGC
68766542 GTTTTTGG
1 GTTTTTGG
68766550 TAAAACACCG
Statistics
Matches: 225, Mismatches: 20, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.00
40 93 0.41
41 101 0.45
42 2 0.01
47 25 0.11
48 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (41 bp):
GTTTTTGGCAAAGCGCCAGCTAAAAACAGAGCAATAGCGGC
Found at i:68766511 original size:81 final size:81
Alignment explanation
Indices: 68766252--68766512 Score: 373
Period size: 81 Copynumber: 3.2 Consensus size: 81
68766242 ACTTAGCGTT
* *
68766252 GTTTTTGGTAAAGCGCCACTAAAAACAGAGCAATAGCGGCGTTTTTGGCAAAGCGCCA-CT-AAA
1 GTTTTTGGCAAAGCGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGCAAAGCG-CAGCTAAAA
*
68766315 AACATAGCAATAGCGGC
65 AACAGAGCAATAGCGGC
** * *
68766332 GTTTTTTGGCAAAGCGTAGCTAAAACCAGAGCAATCGCGGCGTTTTTGGCAAAGCGCAGCTAAAA
1 G-TTTTTGGCAAAGCGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGCAAAGCGCAGCTAAAA
68766397 AACAGAGCAATAGCGGC
65 AACAGAGCAATAGCGGC
* * * *
68766414 GTTTTTGGCAAAGCGCCGCTAAAAATAGAGCAATAGCGGCTTTTTTGGCGAAGCGCTGCTAAAAA
1 GTTTTTGGCAAAGCGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGCAAAGCGCAGCTAAAAA
*
68766479 AAAGAGCAATAGCGGC
66 ACAGAGCAATAGCGGC
*
68766495 GTTTTTGGTAAAGCGCCG
1 GTTTTTGGCAAAGCGCCG
68766513 AGCGCCGCTA
Statistics
Matches: 161, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 3 0.02
81 138 0.86
82 20 0.12
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (81 bp):
GTTTTTGGCAAAGCGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGCAAAGCGCAGCTAAAAA
ACAGAGCAATAGCGGC
Found at i:68766650 original size:50 final size:47
Alignment explanation
Indices: 68766565--68766695 Score: 140
Period size: 48 Copynumber: 2.7 Consensus size: 47
68766555 CACCGCTAAA
* * *
68766565 AGTC-ATATAACCCCTAAAACCTTAAACCCCCAAAAAAATCATAGACACT
1 AGTCTATATAA-CCCTAAAACCCTAAA--CCCAAAAAAACCATAAACACT
* *
68766614 AGTCTATATAACTCCTAAAACCCTAAACTCAAAAAAACCTTAAACACT
1 AGTCTATATAAC-CCTAAAACCCTAAACCCAAAAAAACCATAAACACT
* * *
68766662 AATCTATA-ATCCCTAAAACCCTAAACCCCAAAAA
1 AGTCTATATAACCCTAAAACCCTAAACCCAAAAAA
68766696 CATCATATGG
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
46 21 0.30
47 2 0.03
48 24 0.34
49 5 0.07
50 19 0.27
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (47 bp):
AGTCTATATAACCCTAAAACCCTAAACCCAAAAAAACCATAAACACT
Found at i:68767553 original size:6 final size:6
Alignment explanation
Indices: 68767542--68767566 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
68767532 ACCCATACGA
68767542 TCCCTT TCCCTT TCCCTT TCCCTT T
1 TCCCTT TCCCTT TCCCTT TCCCTT T
68767567 GGTTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TCCCTT
Found at i:68771018 original size:19 final size:21
Alignment explanation
Indices: 68770990--68771037 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
68770980 TTATTATTTA
68770990 TTTTAGTTTTGATTATAA-AT
1 TTTTAGTTTTGATTATAATAT
* *
68771010 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTATAATAT
68771030 TTTTAGTT
1 TTTTAGTT
68771038 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTATAATAT
Found at i:68771019 original size:20 final size:20
Alignment explanation
Indices: 68770978--68771037 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
68770968 TTAATCTAAT
*
68770978 TTTTATTAT-TTA-TTTTAG
1 TTTTATTATAATATTTTTAG
*
68770996 TTTTGATTATAA-ATTTTTAT
1 TTTT-ATTATAATATTTTTAG
*
68771016 TTTTATTTTAATATTTTTAG
1 TTTTATTATAATATTTTTAG
68771036 TT
1 TT
68771038 AAAATTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.12
19 12 0.35
20 18 0.53
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTATTATAATATTTTTAG
Found at i:68771192 original size:43 final size:43
Alignment explanation
Indices: 68771143--68771246 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
68771133 AAATTTTAGT
***
68771143 ACCTTTAGCGGCGTTTTTGGGTAAAGCGCCGCTAAAGGCCATG
1 ACCTTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGCCATG
* * ** * *
68771186 CCCTTTAACGGCGTTTGCGAAAAAAGCGTCGCTAAAGGTCATG
1 ACCTTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGCCATG
*
68771229 ACCTTTAGTGGCGTTTTT
1 ACCTTTAGCGGCGTTTTT
68771247 TTAAATAAAT
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (43 bp):
ACCTTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGCCATG
Found at i:68787208 original size:48 final size:48
Alignment explanation
Indices: 68787152--68787268 Score: 189
Period size: 48 Copynumber: 2.4 Consensus size: 48
68787142 CATTAGGGAA
* * *
68787152 TACATTGATTTGGCTTTGGGCCATGATATAGGCATTTTGGGTGTGAGT
1 TACATTGATTTGGCTTTGGGCCATGATATAGACACTTCGGGTGTGAGT
* *
68787200 TACATTGATTTGGCTTCGAGCCATGATATAGACACTTCGGGTGTGAGT
1 TACATTGATTTGGCTTTGGGCCATGATATAGACACTTCGGGTGTGAGT
68787248 TACATTGATTTGGCTTTGGGC
1 TACATTGATTTGGCTTTGGGC
68787269 TCAAAACATA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.38
Consensus pattern (48 bp):
TACATTGATTTGGCTTTGGGCCATGATATAGACACTTCGGGTGTGAGT
Found at i:68799310 original size:48 final size:48
Alignment explanation
Indices: 68799254--68799444 Score: 217
Period size: 48 Copynumber: 4.0 Consensus size: 48
68799244 CACTAGGGAA
68799254 TACATTGATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCGAGT
1 TACATTGATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCGAGT
* **
68799302 TACATTGATTTGGCGTTC-AGCCATGATATAGGCACTTCGGATATGAGT
1 TACATTGATTTGGC-TTCGAGCCATGATATAGGCACTTCGGGTGCGAGT
* * * **
68799350 TACATTAATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGTAAGCT
1 TACATTGATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCGAG-T
** * **
68799399 T-CATTGATTTGG-TTTTAGGCCATGATATTGGCACTTAAGGTGCGAG
1 TACATTGATTTGGCTTCGA-GCCATGATATAGGCACTTCGGGTGCGAG
68799445 ACTCCGGAGT
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
47 5 0.04
48 111 0.92
49 5 0.04
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCGAGT
Found at i:68799421 original size:96 final size:96
Alignment explanation
Indices: 68799254--68799434 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 96
68799244 CACTAGGGAA
* *
68799254 TACATTGATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCGAGTTACATTGATTTGGCGTT
1 TACATTAATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCAAGTTACATTGATTTGGCGTT
68799319 CAGCCATGATATAGGCACTTCGGATATGAGT
66 CAGCCATGATATAGGCACTTCGGATATGAGT
* * * *
68799350 TACATTAATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGTAAGCTT-CATTGATTTGG-TT
1 TACATTAATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCAAG-TTACATTGATTTGGCGT
* *
68799413 TTAGGCCATGATATTGGCACTT
65 TCA-GCCATGATATAGGCACTT
68799435 AAGGTGCGAG
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 3 0.04
96 70 0.93
97 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (96 bp):
TACATTAATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCAAGTTACATTGATTTGGCGTT
CAGCCATGATATAGGCACTTCGGATATGAGT
Found at i:68801350 original size:29 final size:29
Alignment explanation
Indices: 68801286--68801351 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
68801276 AAGCTGTCCA
**
68801286 GTGCCACAAGGTTATGTGGTAGACCGTGT
1 GTGCCACAAGGCCATGTGGTAGACCGTGT
** *
68801315 GCACCACAAGGCCATGTGGTAGACTGTGT
1 GTGCCACAAGGCCATGTGGTAGACCGTGT
68801344 GTGCCACA
1 GTGCCACA
68801352 CAACTGTATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (29 bp):
GTGCCACAAGGCCATGTGGTAGACCGTGT
Found at i:68801380 original size:17 final size:17
Alignment explanation
Indices: 68801337--68801380 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
68801327 CATGTGGTAG
68801337 ACTGTGTGTGCCACACA
1 ACTGTGTGTGCCACACA
*
68801354 ACTGTATGTGCCACACA
1 ACTGTGTGTGCCACACA
*
68801371 ATTGTGTGTG
1 ACTGTGTGTG
68801381 TTTTTGAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (17 bp):
ACTGTGTGTGCCACACA
Found at i:68808380 original size:15 final size:15
Alignment explanation
Indices: 68808345--68808400 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
68808335 ATAGGGGTAG
* *
68808345 GATATGATTTGATAT
1 GATATGATATGATAA
68808360 GATATGATATGATAA
1 GATATGATATGATAA
* * * *
68808375 GCTATGCTATGTTCA
1 GATATGATATGATAA
68808390 -ATATGATATGA
1 GATATGATATGA
68808401 CATGTCGGAA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
14 8 0.25
15 24 0.75
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (15 bp):
GATATGATATGATAA
Found at i:68812916 original size:17 final size:17
Alignment explanation
Indices: 68812886--68812928 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
68812876 ATTTAGCCAC
68812886 TTTT-ATTTTATTTTAA
1 TTTTAATTTTATTTTAA
* *
68812902 TTTTAATTTTGTTTTTA
1 TTTTAATTTTATTTTAA
*
68812919 GTTTAATTTT
1 TTTTAATTTT
68812929 TACATTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTTAATTTTATTTTAA
Found at i:68814349 original size:43 final size:43
Alignment explanation
Indices: 68814288--68814435 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 43
68814278 CAATGTCGAC
* * * *
68814288 GTCCCGGACGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACAAGTAATTCAATATCGATGCCTAT
* * * * *
68814331 GTCCCAAACAGGGTCTTACACG-AAATCAGATA-CGATGCCGAT
1 GTCCCAGACATGGTCTTACAAGTAATTCA-ATATCGATGCCTAT
* * *
68814373 GTCCCAGACATGGTCTTATAAGTAAATCTC-A-ATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACAAGT-AAT-TCAATATCGATGCCTAT
68814416 GTCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
68814436 CGATGTCTCA
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
42 32 0.39
43 47 0.57
44 2 0.02
45 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACAAGTAATTCAATATCGATGCCTAT
Found at i:68821664 original size:17 final size:17
Alignment explanation
Indices: 68821613--68821728 Score: 126
Period size: 17 Copynumber: 6.5 Consensus size: 17
68821603 TCATATCTTT
68821613 TAAGATTGTATATCATATC
1 TAAGATTG--TATCATATC
68821632 TAAGATT-TCAATCATATC
1 TAAGATTGT--ATCATATC
68821650 TAAGATTGTATCATATC
1 TAAGATTGTATCATATC
**
68821667 TAAGATTACAATCATATC
1 TAAGATT-GTATCATATC
68821685 TAAGATTGTATCATATC
1 TAAGATTGTATCATATC
* *
68821702 TAAGATTGCATATAACATC
1 TAAGATTG--TATCATATC
68821721 TAAGATTG
1 TAAGATTG
68821729 CATATCATTG
Statistics
Matches: 85, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
16 1 0.01
17 31 0.36
18 30 0.35
19 23 0.27
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (17 bp):
TAAGATTGTATCATATC
Found at i:68821668 original size:35 final size:35
Alignment explanation
Indices: 68821613--68821728 Score: 169
Period size: 35 Copynumber: 3.2 Consensus size: 35
68821603 TCATATCTTT
*
68821613 TAAGATTGTATATCATATCTAAGATTTCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTACAATCATATC
68821650 TAAGATTGTATCATATCTAAGATTACAATCATATC
1 TAAGATTGTATCATATCTAAGATTACAATCATATC
* * *
68821685 TAAGATTGTATCATATCTAAGATTGCATATAACATC
1 TAAGATTGTATCATATCTAAGATTACA-ATCATATC
68821721 TAAGATTG
1 TAAGATTG
68821729 CATATCATTG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
35 52 0.70
36 14 0.19
37 8 0.11
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTACAATCATATC
Found at i:68822845 original size:206 final size:207
Alignment explanation
Indices: 68822134--68823049 Score: 1399
Period size: 207 Copynumber: 4.4 Consensus size: 207
68822124 AAATCTGCTT
* * * * *
68822134 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAATAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * * *
68822199 GCGAAAGCCAAATCAGCTATGTCTTCAATTT-TCTCCTTATAAGCACAAGGATACCAAACCATCT
66 GTGAAAGCCAAATCAGTTATGTCTTCGATTTGT-TCCTTGTAAGCACAAGGATGCCAAACCATCT
* * * * ** * * * *
68822263 TGGATC-TGCTTCAGTCTAATCATCCGAAGGTTAGATCTGCTATATGTCTGTCCGCCGTCGAATA
130 TGGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATA
68822327 TGGAGACGCCAAA
195 TGGAGACGCCAAA
* * *
68822340 ATTTGATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
68822405 GTGAAAGCCAAATCAGTTATGTCTTCGATTTGTTCCATGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGTTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
68822470 GGATCTTACTTCGGTATAAAAATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCAAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATAT
68822535 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
68822547 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAAACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
68822612 GTGAAAGCGAAATTA-TCTATGTCTTCGATTTGTTCCTCGTAAGCACAAGGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGT-TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * *
68822676 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGGTCTGCTATGTGTCTG-CCTCCATCAAATA
130 TGGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATA
68822740 TGGAGACGCCAAA
195 TGGAGACGCCAAA
*
68822753 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
68822818 GTGAAAGCCAAATCAGTTATTTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGTTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
68822883 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATAT
68822948 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * *
68822960 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
68823025 GTGAAAGCCAAATCAGCTATGTCTT
66 GTGAAAGCCAAATCAGTTATGTCTT
68823050 TGATCTACTC
Statistics
Matches: 647, Mismatches: 58, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
206 314 0.49
207 333 0.51
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGTTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATAT
GGAGACGCCAAA
Found at i:68822910 original size:413 final size:413
Alignment explanation
Indices: 68822134--68823049 Score: 1458
Period size: 413 Copynumber: 2.2 Consensus size: 413
68822124 AAATCTGCTT
* * * *
68822134 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAATAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* *
68822199 GCGAAAGCCAAATCAGCTATGTCTTCAATTTTCTCCTTATAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTTCTCCTCATAAGCACAAGGATACCAAACCATCTT
* * ** * *
68822264 GGATCTGCTTCAGTCTAATCATCCGAAGGTTAGATCTGCTATATGTCTGTCCGCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCCGAAGGCCAGATCTGCTATATGTCTGTCCGCCATCAAATATG
* *
68822329 GAGACGCCAAAATTTGATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
196 GAGACGCCAAAATTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
*
68822394 AACGTAAACACGTGAAAGCCAAATCAGTTATGTCTTCGATTTGTTCCATGTAAGCACAAGGATGC
261 AACATAAACACGTGAAAGCCAAATCAGTTATGTCTTCGATTTGTTCCATGTAAGCACAAGGATGC
*
68822459 CAAACCATCTTGGATCTTACTTCGGTATAAAAATCTGAAGGCCAGATCTACTATGTGTCTGCCCT
326 CAAACCATCTTGGATCTTACTTCAGTATAAAAATCTGAAGGCCAGATCTACTATGTGTCTGCCCT
68822524 CCGTCAAATATGGAGACGCCAAA
391 CCGTCAAATATGGAGACGCCAAA
* * *
68822547 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAAACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * * * * *
68822612 GTGAAAGCGAAATTATCTATGTCTTCGATTTGT-TCCTCGTAAGCACAAGGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTT-TCTCCTCATAAGCACAAGGATACCAAACCATCT
* * * *
68822676 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGGTCTGCTATGTGTCTG-CCTCCATCAAATA
130 TGGATC-TGCTTCAGTATAAACATCCGAAGGCCAGATCTGCTATATGTCTGTCCGCCATCAAATA
*
68822740 TGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCT
194 TGGAGACGCCAAAATTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCT
* *
68822805 TCAACATAAACACGTGAAAGCCAAATCAGTTATTTCTTCGATTTGTTCCTTGTAAGCACAAGGAT
259 TCAACATAAACACGTGAAAGCCAAATCAGTTATGTCTTCGATTTGTTCCATGTAAGCACAAGGAT
* *
68822870 GCCAAACCATCTTGGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCC
324 GCCAAACCATCTTGGATCTTACTTCAGTATAAAAATCTGAAGGCCAGATCTACTATGTGTCTGCC
*
68822935 CTCCGTCGAATATGGAGACGCCAAA
389 CTCCGTCAAATATGGAGACGCCAAA
* * *
68822960 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
68823025 GTGAAAGCCAAATCAGCTATGTCTT
66 GTGAAAGCCAAATCAGCTATGTCTT
68823050 TGATCTACTC
Statistics
Matches: 457, Mismatches: 44, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
413 419 0.92
414 38 0.08
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (413 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCAATTTTCTCCTCATAAGCACAAGGATACCAAACCATCTT
GGATCTGCTTCAGTATAAACATCCGAAGGCCAGATCTGCTATATGTCTGTCCGCCATCAAATATG
GAGACGCCAAAATTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
AACATAAACACGTGAAAGCCAAATCAGTTATGTCTTCGATTTGTTCCATGTAAGCACAAGGATGC
CAAACCATCTTGGATCTTACTTCAGTATAAAAATCTGAAGGCCAGATCTACTATGTGTCTGCCCT
CCGTCAAATATGGAGACGCCAAA
Found at i:68823339 original size:87 final size:86
Alignment explanation
Indices: 68823182--68823551 Score: 422
Period size: 87 Copynumber: 4.4 Consensus size: 86
68823172 CTATACTTTA
* * *
68823182 ACCTGTTACCTTACTACTTAGGGGGTTAAGGC--G-CATCTTCGATCTACTCCACTACTGCTTAG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATC-TCGATCTACTCCACTACTGCTTAG
*
68823244 GGAGATAAGATCCGCAATTTTG
65 GGAGATAAGATCTGCAATTTTG
* * * **
68823266 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGATTCATCGTTGATCTATTCTGCTACTGCTTAG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATC-TCGATCTACTCCACTACTGCTTAG
**
68823331 GGAGATAAGATCTATAATTTT-
65 GGAGATAAGATCTGCAATTTTG
* * * * *
68823352 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCCTCGTCAATCTGCTTCACTACTGCTTA
1 A-CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATC-TCGATCTACTCCACTACTGCTTA
68823417 GGGAGATAAGATCTG------TG
64 GGGAGATAAGATCTGCAATTTTG
* *
68823434 AACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTC-T-TCGATCTGCTCCACTACTGCTTAG
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCTCGATCTACTCCACTACTGCTTAG
* *
68823497 GGAGATAAGATCTGCAAATTTA
65 GGAGATAAGATCTGCAATTTTG
*
68823519 ACCTGTGACCCTACTGCTTAGGGGATTAAGGCG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
68823552 CTGAATTTTG
Statistics
Matches: 244, Mismatches: 30, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
79 36 0.15
81 2 0.01
82 34 0.14
83 1 0.00
84 60 0.25
85 1 0.00
86 1 0.00
87 109 0.45
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (86 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCTCGATCTACTCCACTACTGCTTAGG
GAGATAAGATCTGCAATTTTG
Found at i:68824506 original size:22 final size:21
Alignment explanation
Indices: 68824481--68824548 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
68824471 GACTCTCCAT
68824481 TTTTTCTTTTTTCTCTTTTTTA
1 TTTTT-TTTTTTCTCTTTTTTA
68824503 TTTTTATTTTTT-TCTCTTTTTA
1 TTTTT-TTTTTTCTCT-TTTTTA
*
68824525 TTTTATTTTTTGC-CTTTTTT-
1 TTTT-TTTTTTTCTCTTTTTTA
68824545 TTTT
1 TTTT
68824549 GAAATAGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 4 0.10
21 8 0.20
22 28 0.68
23 1 0.02
ACGTcount: A:0.06, C:0.10, G:0.01, T:0.82
Consensus pattern (21 bp):
TTTTTTTTTTTCTCTTTTTTA
Found at i:68824535 original size:21 final size:21
Alignment explanation
Indices: 68824487--68824548 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
68824477 CCATTTTTTC
68824487 TTTTTTCTCTTTTTTATTTTTAT
1 TTTTTTCTC-TTTTTA-TTTTAT
68824510 TTTTTTCTCTTTTTATTTTAT
1 TTTTTTCTCTTTTTATTTTAT
* *
68824531 TTTTTGC-CTTTTTTTTTT
1 TTTTTTCTCTTTTTATTTT
68824549 GAAATAGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 10 0.27
21 12 0.32
22 6 0.16
23 9 0.24
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (21 bp):
TTTTTTCTCTTTTTATTTTAT
Found at i:68830078 original size:17 final size:18
Alignment explanation
Indices: 68830027--68830150 Score: 162
Period size: 17 Copynumber: 6.8 Consensus size: 18
68830017 TCATATCTTT
*
68830027 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
*
68830046 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
68830064 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
* *
68830081 TAAGACTGCAATCATATC
1 TAAGATTGCTATCATATC
68830099 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
68830116 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
68830135 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
68830151 TGAAGATTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
17 31 0.33
18 31 0.33
19 31 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:68830082 original size:35 final size:35
Alignment explanation
Indices: 68830027--68830142 Score: 187
Period size: 35 Copynumber: 3.2 Consensus size: 35
68830017 TCATATCTTT
68830027 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
*
68830064 TAAGATTGTATCATATCTAAGACTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
68830099 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
68830135 TAAGATTG
1 TAAGATTG
68830143 CATATCATTG
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
35 52 0.69
36 15 0.20
37 8 0.11
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:68839430 original size:16 final size:17
Alignment explanation
Indices: 68839409--68839459 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
68839399 AATTGGATTG
68839409 AGAAAAATATTTATTT-
1 AGAAAAATATTTATTTA
* *
68839425 AGAAAATTAATTAATTTA
1 AGAAAAAT-ATTTATTTA
*
68839443 ATAAATAATATTTATTT
1 AGAAA-AATATTTATTT
68839460 GGGAAATAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 7 0.26
17 7 0.26
18 11 0.41
19 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (17 bp):
AGAAAAATATTTATTTA
Found at i:68845187 original size:28 final size:30
Alignment explanation
Indices: 68845144--68845199 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
68845134 AAACTAAATA
*
68845144 ATTTTATATTGTTA-TTA-TTACATTATTT
1 ATTTTATATTGGTATTTACTTACATTATTT
*
68845172 ATTTTATTTTGGTATTTACTTACATTAT
1 ATTTTATATTGGTATTTACTTACATTAT
68845200 CACTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 3 0.12
30 9 0.38
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (30 bp):
ATTTTATATTGGTATTTACTTACATTATTT
Found at i:68848134 original size:19 final size:19
Alignment explanation
Indices: 68848110--68848155 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
68848100 CTTTCTTTCT
68848110 TTTGCATT-CATT-CTATGCA
1 TTTGCATTGCATTGC-AT-CA
68848129 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTGCATCA
68848148 TTTGCATT
1 TTTGCATT
68848156 AGACTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 18 0.72
20 6 0.24
21 1 0.04
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:68850151 original size:37 final size:37
Alignment explanation
Indices: 68850092--68850219 Score: 211
Period size: 37 Copynumber: 3.5 Consensus size: 37
68850082 AGCTCAGACG
* *
68850092 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
68850129 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
68850166 TAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
68850203 TAATCTCCACACGTAGT
1 AAATCTCCACACGTAGT
68850220 ATATTTCCAA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 86 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:68850432 original size:47 final size:47
Alignment explanation
Indices: 68850380--68850588 Score: 337
Period size: 47 Copynumber: 4.4 Consensus size: 47
68850370 TTTCACACTA
* * * *
68850380 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * *
68850427 GCCATTCAGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
68850474 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
68850521 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
68850568 GCCATTCGGCCTTATCACATA
1 GCCATTCGGCCTTATCACATA
68850589 AAATCCTAAA
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 148 1.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:68850445 original size:22 final size:22
Alignment explanation
Indices: 68850420--68850587 Score: 62
Period size: 22 Copynumber: 7.2 Consensus size: 22
68850410 TCATATTCAC
68850420 CACATTGGCCATTCAGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
*
68850442 CACACATAT-G-CATGCTCA-CGTTCAT
1 --CACAT-TGGCCAT--TCAGCCTT-AT
*
68850467 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
* *
68850489 CACATATATG-CATGTTCA-CATTCAT
1 CACAT-T-GGCCA--TTCAGCCTT-AT
* *
68850514 CACATAGGCCATTCGGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
* *
68850536 CACATATATG-CATGTTCA-CATTCAT
1 CACAT-T-GGCCA--TTCAGCCTT-AT
*
68850561 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
68850583 CACAT
1 CACAT
68850588 AAAATCCTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 44
0.63 0.10 0.26
Matches are distributed among these distances:
22 30 0.28
23 25 0.24
24 25 0.24
25 26 0.25
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
CACATTGGCCATTCAGCCTTAT
Found at i:68854583 original size:6 final size:6
Alignment explanation
Indices: 68854569--68854621 Score: 97
Period size: 6 Copynumber: 8.8 Consensus size: 6
68854559 GCACTATATT
*
68854569 GCAAAG GCAAGG GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG
1 GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG
68854617 GCAAA
1 GCAAA
68854622 AAAAAAGCCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.49, C:0.17, G:0.34, T:0.00
Consensus pattern (6 bp):
GCAAAG
Found at i:68854628 original size:18 final size:18
Alignment explanation
Indices: 68854589--68854628 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
68854579 GGGCAAAGGC
***
68854589 AAAGGCAAAGGCAAAGGC
1 AAAGGCAAAGGCAAAAAA
68854607 AAAGGCAAAGGCAAAAAA
1 AAAGGCAAAGGCAAAAAA
68854625 AAAG
1 AAAG
68854629 CCTAACAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.60, C:0.12, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAGGCAAAGGCAAAAAA
Found at i:68855226 original size:14 final size:13
Alignment explanation
Indices: 68855199--68855223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68855189 AGACCTTCAA
68855199 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
68855212 AAAAAAAAGAAA
1 AAAAAAAAGAAA
68855224 AGACAAAGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:68857182 original size:46 final size:45
Alignment explanation
Indices: 68857115--68857282 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
68857105 AACCCGCCCC
68857115 TAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTGGGCATTCGCATCCA
* * *
68857161 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAATTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTGGGCATTCGC--A-TCCA
* *
68857207 TTTCAA--GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --T-AAGTGAACTCGGACTCAACTCAACGAGTT-GGGCATTCGCATCCA
*
68857254 TAAGT-AACTCAGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
68857283 CGGATGCTCA
Statistics
Matches: 101, Mismatches: 10, Indels: 23
0.75 0.07 0.17
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 28 0.28
46 31 0.31
47 27 0.27
48 3 0.03
49 5 0.05
50 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTGGGCATTCGCATCCA
Found at i:68857232 original size:93 final size:92
Alignment explanation
Indices: 68857120--68857289 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 92
68857110 GCCCCTAAGT
* * *
68857120 GAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGT-AACTCAGACTCAACTCA
68857184 ACGAGTTCGGATGCCTAATTACATTTCAA
64 ACGAGTTCGGATGCCTAATTACATTTCAA
68857213 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTAACTCAGACTCAACTCAAC
1 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTAACTCAGACTCAACTCAAC
68857278 GAGTTCGGATGC
66 GAGTTCGGATGC
68857290 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
92 32 0.44
93 41 0.56
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (92 bp):
GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTAACTCAGACTCAACTCAAC
GAGTTCGGATGCCTAATTACATTTCAA
Found at i:68857350 original size:23 final size:24
Alignment explanation
Indices: 68857320--68857367 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
68857310 TCACTTGTAT
68857320 CCTAATCTATTCCTAA-GTTCAAA
1 CCTAATCTATTCCTAAGGTTCAAA
68857343 CCTAATCTATTCCTAAGGTTCAAA
1 CCTAATCTATTCCTAAGGTTCAAA
68857367 C
1 C
68857368 GGGATTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (24 bp):
CCTAATCTATTCCTAAGGTTCAAA
Found at i:68857763 original size:30 final size:30
Alignment explanation
Indices: 68857729--68857788 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
68857719 ATTTAATACG
68857729 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
68857759 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
68857789 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:68865755 original size:48 final size:48
Alignment explanation
Indices: 68865680--68865822 Score: 214
Period size: 48 Copynumber: 3.0 Consensus size: 48
68865670 ACTTGGGAGT
* *
68865680 CTCGCACCCTAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCTAAAGCCAAATCAATGTAA
* *
68865728 CTTGCACCCGAAGTGCCAATATTATGGCCTAAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCTAAAGCCAAATCAATGTAA
* * * *
68865776 CTCGCACTCGAATTGCCAATATCATAGCCTGAAGCCAAATCAATGTA
1 CTCGCACCCGAAGTGCCAATATCATGGCCTAAAGCCAAATCAATGTA
68865823 TTCCGTAATG
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCCAATATCATGGCCTAAAGCCAAATCAATGTAA
Found at i:68870999 original size:18 final size:18
Alignment explanation
Indices: 68870978--68871016 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
68870968 TAAATAAGAT
*
68870978 AAATAAAGATAA-AAGTAA
1 AAATAAA-ATAATAAATAA
68870996 AAATAAAATAATAAATAA
1 AAATAAAATAATAAATAA
68871014 AAA
1 AAA
68871017 GTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATAAAATAATAAATAA
Found at i:68871001 original size:12 final size:11
Alignment explanation
Indices: 68870920--68871015 Score: 59
Period size: 11 Copynumber: 8.4 Consensus size: 11
68870910 AAAAATTATA
*
68870920 AAAACTAAAATT
1 AAAA-TAAAAAT
*
68870932 AAAAT-AATAT
1 AAAATAAAAAT
* *
68870942 TAAAGAAAAAT
1 AAAATAAAAAT
*
68870953 GAAATAAAAAT
1 AAAATAAAAAT
* * *
68870964 TAATTAAATAAG
1 AAAATAAA-AAT
*
68870976 ATAAATAAAGAT
1 A-AAATAAAAAT
68870988 AAAAGTAAAAAT
1 AAAA-TAAAAAT
68871000 AAAATAATAAAT
1 AAAATAA-AAAT
68871012 AAAA
1 AAAA
68871016 AGTTTTTAAA
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
10 6 0.09
11 26 0.41
12 26 0.41
13 6 0.09
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:68882900 original size:43 final size:43
Alignment explanation
Indices: 68882851--68882968 Score: 160
Period size: 36 Copynumber: 2.9 Consensus size: 43
68882841 TTTTTATAAG
*
68882851 TATATATTTATGTATTACGTAAATTATGTAAGTTATGATATGA
1 TATATATTTATGTATTACGTAAGTTATGTAAGTTATGATATGA
*
68882894 TATATATTTATG---T-C---AGTTATGTAAGTTATAATATGA
1 TATATATTTATGTATTACGTAAGTTATGTAAGTTATGATATGA
*
68882930 TATATATTTATGTATTATGTAAGTTATGTAAGTTATGAT
1 TATATATTTATGTATTACGTAAGTTATGTAAGTTATGAT
68882969 CCAAAGTATT
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
36 32 0.50
39 2 0.03
40 1 0.02
43 29 0.45
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (43 bp):
TATATATTTATGTATTACGTAAGTTATGTAAGTTATGATATGA
Found at i:68883938 original size:2 final size:2
Alignment explanation
Indices: 68883931--68883956 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68883921 AAGAATAAGA
68883931 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
68883957 TACACCGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68885211 original size:18 final size:20
Alignment explanation
Indices: 68885188--68885237 Score: 77
Period size: 18 Copynumber: 2.6 Consensus size: 20
68885178 TTATGATTTT
68885188 GATTTGGGGAAAATTT-AGG
1 GATTTGGGGAAAATTTGAGG
68885207 G-TTTGGGGAAAATTTGAGG
1 GATTTGGGGAAAATTTGAGG
*
68885226 GATTTAGGGAAA
1 GATTTGGGGAAA
68885238 TTTTTTATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 14 0.50
19 5 0.18
20 9 0.32
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.30
Consensus pattern (20 bp):
GATTTGGGGAAAATTTGAGG
Found at i:68886029 original size:7 final size:7
Alignment explanation
Indices: 68886019--68886081 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
68886009 ACCCTAAATA
68886019 ATAAACC
1 ATAAACC
68886026 ATAAACC
1 ATAAACC
*
68886033 CTAAAACC
1 AT-AAACC
68886041 AT-AACC
1 ATAAACC
68886047 ACTAAA-C
1 A-TAAACC
*
68886054 ATGAAGCC
1 AT-AAACC
*
68886062 CTAAACC
1 ATAAACC
68886069 ATAAACC
1 ATAAACC
68886076 ATAAAC
1 ATAAAC
68886082 TCTAAACTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
6 6 0.13
7 29 0.64
8 10 0.22
ACGTcount: A:0.52, C:0.30, G:0.03, T:0.14
Consensus pattern (7 bp):
ATAAACC
Found at i:68886041 original size:15 final size:14
Alignment explanation
Indices: 68886020--68886081 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
68886010 CCCTAAATAA
68886020 TAAACCATAAACCC
1 TAAACCATAAACCC
68886034 TAAAACCAT-AACCAC
1 T-AAACCATAAACC-C
*
68886049 TAAA-CATGAAGCCC
1 TAAACCAT-AAACCC
*
68886063 TAAACCATAAACCA
1 TAAACCATAAACCC
68886077 TAAAC
1 TAAAC
68886082 TCTAAACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.08
14 22 0.55
15 15 0.38
ACGTcount: A:0.52, C:0.31, G:0.03, T:0.15
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:68886046 original size:21 final size:22
Alignment explanation
Indices: 68885999--68886053 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
68885989 ATTTTTATTA
*
68885999 AAACCTCTAAACCCTAAATAAT
1 AAACCACTAAACCCTAAATAAT
68886021 AAACCA-TAAACCCTAAA-ACCAT
1 AAACCACTAAACCCTAAATA--AT
68886043 -AACCACTAAAC
1 AAACCACTAAAC
68886054 ATGAAGCCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 16 0.55
22 12 0.41
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (22 bp):
AAACCACTAAACCCTAAATAAT
Found at i:68886486 original size:84 final size:83
Alignment explanation
Indices: 68886353--68886524 Score: 247
Period size: 84 Copynumber: 2.1 Consensus size: 83
68886343 AGTAAAAACA
*
68886353 CCACTAAAACTTAATTCCCTATAGTGAAACGATGCTGCCCAAGGCAAATTGGTATTGCAATTCTG
1 CCACTAAAACTTAATTCCCTATAGTGAAACGACGCTGCCCAAGGCAAATTGGTATTGCAATTCTG
68886418 CGGCGTTTATGAAAAATG
66 CGGCGTTTATGAAAAATG
* * * * * *
68886436 CCACTAAAAATTTAATTCCCTGTAGTGAAACGACG-TCGTCTAGGGCAAATTGGTATTGCAATTT
1 CCACT-AAAACTTAATTCCCTATAGTGAAACGACGCT-GCCCAAGGCAAATTGGTATTGCAATTC
*
68886500 TGTGGCGTTTATGAAAAATG
64 TGCGGCGTTTATGAAAAATG
68886520 CCACT
1 CCACT
68886525 GATACATAAC
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
83 6 0.08
84 73 0.92
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (83 bp):
CCACTAAAACTTAATTCCCTATAGTGAAACGACGCTGCCCAAGGCAAATTGGTATTGCAATTCTG
CGGCGTTTATGAAAAATG
Found at i:68891023 original size:16 final size:17
Alignment explanation
Indices: 68891002--68891039 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
68890992 TTTAAGTTAA
*
68891002 TATTTTTAA-TTATTTT
1 TATTTTTAATTTAATTT
68891018 TATTTTTAATTTAATTT
1 TATTTTTAATTTAATTT
68891035 TATTT
1 TATTT
68891040 ATTTTTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTAATTTAATTT
Found at i:68891032 original size:21 final size:21
Alignment explanation
Indices: 68891006--68891045 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
68890996 AGTTAATATT
68891006 TTTAATTATT-TTTATTTTTAA
1 TTTAATT-TTATTTATTTTTAA
68891027 TTTAATTTTATTTATTTTT
1 TTTAATTTTATTTATTTTT
68891046 TCTCCATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTAATTTTATTTATTTTTAA
Found at i:68891859 original size:21 final size:21
Alignment explanation
Indices: 68891787--68891880 Score: 66
Period size: 21 Copynumber: 4.4 Consensus size: 21
68891777 TCCATACAGA
68891787 CGTGTGCC-CTAGTCACATGGC
1 CGTGTGCCTCTA-TCACATGGC
* * * **
68891808 CATGTTCCTCTCTTCACACAAG-
1 CGTGTGCCTCT-ATCACA-TGGC
* *
68891830 CGTGAGCCTCTATCACATGGG
1 CGTGTGCCTCTATCACATGGC
* *
68891851 TGTGTGCCTCTGTCACATGGC
1 CGTGTGCCTCTATCACATGGC
68891872 CGTGTGCCT
1 CGTGTGCCT
68891881 TTTTTTACAC
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
20 1 0.02
21 36 0.68
22 15 0.28
23 1 0.02
ACGTcount: A:0.15, C:0.32, G:0.24, T:0.29
Consensus pattern (21 bp):
CGTGTGCCTCTATCACATGGC
Found at i:68898590 original size:28 final size:28
Alignment explanation
Indices: 68898557--68898643 Score: 174
Period size: 28 Copynumber: 3.1 Consensus size: 28
68898547 GAAGTAAGGA
68898557 ATTCTCCTCTTATACCCATTCAGGAAAC
1 ATTCTCCTCTTATACCCATTCAGGAAAC
68898585 ATTCTCCTCTTATACCCATTCAGGAAAC
1 ATTCTCCTCTTATACCCATTCAGGAAAC
68898613 ATTCTCCTCTTATACCCATTCAGGAAAC
1 ATTCTCCTCTTATACCCATTCAGGAAAC
68898641 ATT
1 ATT
68898644 TCTAGATGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (28 bp):
ATTCTCCTCTTATACCCATTCAGGAAAC
Found at i:68906563 original size:47 final size:47
Alignment explanation
Indices: 68906505--68906626 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
68906495 GCATTGGCAT
68906505 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
68906552 TAAGACAAGGATAGCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
68906599 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
68906627 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:68906734 original size:55 final size:54
Alignment explanation
Indices: 68906605--68906856 Score: 305
Period size: 55 Copynumber: 4.6 Consensus size: 54
68906595 TTGGTAAGAT
* * *
68906605 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTGTATAAGGC
1 AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
** * *
68906659 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* *
68906714 AAAGG-TCTCATATAAGACCATGCCAAGGCATGGCATTCATGAGTTACTATAAGGC
1 -AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* *
68906769 AAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGAC
1 -AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * *
68906822 AAGGATAC-CACGTAAGACCATGTCAAGACATGGCA
1 AAGGAT-CTCATGTAAGACCATGCCAAGGCATGGCA
68906857 ATGGTAAGTT
Statistics
Matches: 176, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
52 4 0.02
53 31 0.18
54 43 0.24
55 94 0.53
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:68910196 original size:16 final size:18
Alignment explanation
Indices: 68910160--68910199 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
68910150 CTATTATTCA
68910160 GAACAACCTCTACATTGG
1 GAACAACCTCTACATTGG
*
68910178 GAACAA-CTC-ACATTTG
1 GAACAACCTCTACATTGG
68910194 GAACAA
1 GAACAA
68910200 GTCAAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
17 3 0.14
18 6 0.29
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (18 bp):
GAACAACCTCTACATTGG
Found at i:68910250 original size:17 final size:17
Alignment explanation
Indices: 68910218--68910251 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
68910208 TATCATTATT
**
68910218 CAAGAACAACTCTCATC
1 CAAGAACAACAATCATC
68910235 CAAGAACAACAATCATC
1 CAAGAACAACAATCATC
68910252 TTGTGTTTCA
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:0.47, C:0.32, G:0.06, T:0.15
Consensus pattern (17 bp):
CAAGAACAACAATCATC
Found at i:68912797 original size:45 final size:45
Alignment explanation
Indices: 68912731--68912816 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
68912721 CACCGAACAC
* *
68912731 AACCAATTTACCCTCCAAACACAACCAAGTATAACCTCCAAGCAT
1 AACCAATATACCCTCCAAACACAACCAAATATAACCTCCAAGCAT
*
68912776 AACCAAATATACCCTCC-AACACAACCAAATATACCCTCCAA
1 AACC-AATATACCCTCCAAACACAACCAAATATAACCTCCAA
68912817 ACACATCCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 26 0.70
46 11 0.30
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.16
Consensus pattern (45 bp):
AACCAATATACCCTCCAAACACAACCAAATATAACCTCCAAGCAT
Found at i:68912830 original size:22 final size:23
Alignment explanation
Indices: 68912726--68912821 Score: 133
Period size: 23 Copynumber: 4.3 Consensus size: 23
68912716 TCACCCACCG
*
68912726 AACACAACC-AATTTACCCTCCA
1 AACACAACCAAATATACCCTCCA
* *
68912748 AACACAACCAAGTATAACCTCCA
1 AACACAACCAAATATACCCTCCA
* *
68912771 AGCATAACCAAATATACCCTCC-
1 AACACAACCAAATATACCCTCCA
68912793 AACACAACCAAATATACCCTCCA
1 AACACAACCAAATATACCCTCCA
68912816 AACACA
1 AACACA
68912822 TCCACTATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
22 29 0.46
23 34 0.54
ACGTcount: A:0.46, C:0.38, G:0.02, T:0.15
Consensus pattern (23 bp):
AACACAACCAAATATACCCTCCA
Found at i:68913628 original size:3 final size:3
Alignment explanation
Indices: 68913620--68913659 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
68913610 TGTGTGTTCT
68913620 TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
68913660 TTTTCACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.24
3 25 0.76
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (3 bp):
TTA
Found at i:68913645 original size:5 final size:5
Alignment explanation
Indices: 68913623--68913661 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
68913613 GTGTTCTTTA
68913623 TTATT ATTATT ATTATT TTATT TTATT TTATT TTATT TT
1 TTATT -TTATT -TTATT TTATT TTATT TTATT TTATT TT
68913662 TTCACAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 22 0.67
6 11 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:68918090 original size:3 final size:3
Alignment explanation
Indices: 68918082--68918140 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
68918072 TGTGTGTTCT
68918082 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
68918129 TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TT
68918141 TTTCACACAA
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 6 0.11
3 47 0.89
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:68919453 original size:16 final size:19
Alignment explanation
Indices: 68919432--68919475 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 19
68919422 AGCATCACCA
68919432 AGAACAACTCT-TAC-TT-
1 AGAACAACTCTCTACATTG
68919448 AGAACAACT-TCTACATTG
1 AGAACAACTCTCTACATTG
68919466 AGAACAACTC
1 AGAACAACTC
68919476 ATGTTTCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.50
17 2 0.08
18 9 0.38
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (19 bp):
AGAACAACTCTCTACATTG
Found at i:68919539 original size:17 final size:17
Alignment explanation
Indices: 68919507--68919540 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
68919497 AATCATTTTT
**
68919507 CAAGAACAACTTTCATC
1 CAAGAACAACCATCATC
68919524 CAAGAACAACCATCATC
1 CAAGAACAACCATCATC
68919541 TTGCGTTTCA
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:0.44, C:0.32, G:0.06, T:0.18
Consensus pattern (17 bp):
CAAGAACAACCATCATC
Found at i:68920455 original size:16 final size:16
Alignment explanation
Indices: 68920434--68920464 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68920424 AGATGGGATA
68920434 TATTACATTCAAATTT
1 TATTACATTCAAATTT
*
68920450 TATTACATTTAAATT
1 TATTACATTCAAATT
68920465 ACCTTGAATT
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:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTACATTCAAATTT
Found at i:68921861 original size:16 final size:15
Alignment explanation
Indices: 68921840--68921869 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
68921830 ATTACTCACA
68921840 TATTTAAATTTAATTC
1 TATTTAAA-TTAATTC
68921856 TATTTAAATTAATT
1 TATTTAAATTAATT
68921870 ACATATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTAAATTAATTC
Done.