Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 132 of 352
Found at i:42657869 original size:48 final size:48
Alignment explanation
Indices: 42657812--42658074 Score: 302
Period size: 48 Copynumber: 5.6 Consensus size: 48
42657802 AAGCTGACGC
* *
42657812 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* * ** * *
42657860 CATGTCCCAGACATGTCATACACTAGCT-CT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* *
42657906 CATGTCCCAAACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* * * *
42657954 CATGTCCTAGACATATCTTACACTGGCTGGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* * *
42658002 CATGTCCCAGACATGTCTTACACTAGCT-CTCA-ATAT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGT-ATATCTCGAGGCCGATG
** *
42658048 CATGTCATAGACATGTTTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
42658075 ACACATATCA
Statistics
Matches: 183, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
46 69 0.38
47 6 0.03
48 108 0.59
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
Found at i:42657928 original size:94 final size:96
Alignment explanation
Indices: 42657812--42658029 Score: 296
Period size: 94 Copynumber: 2.3 Consensus size: 96
42657802 AAGCTGACGC
* * *
42657812 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATATC
* *
42657877 ATACACTAGCT-CT-CGTCTCAATGCCGATG
66 ATACACTAGCTGCTACATCTCAAGGCCGATG
* * *
42657906 CATGTCCCAAACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCTAGACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATATC
* * * * * *
42657971 TTACACTGGCTGGTATATCTCGAGGCTGATG
66 ATACACTAGCTGCTACATCTCAAGGCCGATG
42658002 CATGTCCCAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
42658030 CTCAATATGT
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 68 0.64
95 1 0.01
96 37 0.35
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (96 bp):
CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATATC
ATACACTAGCTGCTACATCTCAAGGCCGATG
Found at i:42658044 original size:94 final size:92
Alignment explanation
Indices: 42657812--42658074 Score: 287
Period size: 94 Copynumber: 2.8 Consensus size: 92
42657802 AAGCTGACGC
* *
42657812 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGC-T-TATATCTCGAGGCCGATGCATGTCCTAGACATGTC
* * *
42657877 ATACACTAGCTCTCGTCTCAATGCCGATG
64 TTACACTAGCTCTCATCTCAAGGCCGATG
* * *
42657906 CATGTCCCAAACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCTAGACATATC
1 CATGTCCCAGACATGTCTTACACTAGCT--TATATCTCGAGGCCGATGCATGTCCTAGACATGTC
* * * * *
42657971 TTACACTGGCTGGTATATCTCGAGGCTGATG
64 TTACACTAGCT-CT-CATCTCAAGGCCGATG
* * * *
42658002 CATGTCCCAGACATGTCTTACACTAGCTCTCA-ATAT-GTGGCCGATGCATGTCATAGACATGTT
1 CATGTCCCAGACATGTCTTACACTAGCT-T-ATATCTCGAGGCCGATGCATGTCCTAGACATGTC
42658065 TTACACTAGC
64 TTACACTAGC
42658075 ACACATATCA
Statistics
Matches: 143, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 99 0.69
95 5 0.03
96 38 0.27
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATCTCGAGGCCGATGCATGTCCTAGACATGTCTT
ACACTAGCTCTCATCTCAAGGCCGATG
Found at i:42658069 original size:142 final size:141
Alignment explanation
Indices: 42657812--42658071 Score: 362
Period size: 142 Copynumber: 1.8 Consensus size: 141
42657802 AAGCTGACGC
*
42657812 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAAGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * *
42657877 ATACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAAACATGTCTTACACTGGCTGGTATATC
66 ATACACTAGCTCTCATAT-AATGCCGATGCATGTCACAAACATGTCTTACACTGGCTGGTATATC
42657942 TCGAGGCCGATG
130 TCGAGGCCGATG
* * *
42657954 CATGTCCTAGACATA-TCTTACACTGGCTGGTATATCTCGAGGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACA-AGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGT
* * * * *
42658018 CTTACACTAGCTCTCA-ATATGTGGCCGATGCATGTCATAGACATGTTTTACACT
65 CATACACTAGCTCTCATATA-AT-GCCGATGCATGTCACAAACATGTCTTACACT
42658072 AGCACACATA
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
140 1 0.01
141 2 0.02
142 99 0.96
143 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (141 bp):
CATGTCCCAGACAAGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
ATACACTAGCTCTCATATAATGCCGATGCATGTCACAAACATGTCTTACACTGGCTGGTATATCT
CGAGGCCGATG
Found at i:42667282 original size:29 final size:30
Alignment explanation
Indices: 42667241--42667302 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
42667231 CTGTGAATTT
*
42667241 ATTCGTAACAGTGTACACATGAATTTAATA
1 ATTCGTAACAGTGTAAACATGAATTTAATA
*
42667271 ATTC-TAACAGTGTAAACATGAGTTTAATA
1 ATTCGTAACAGTGTAAACATGAATTTAATA
42667300 ATT
1 ATT
42667303 TTGAGTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (30 bp):
ATTCGTAACAGTGTAAACATGAATTTAATA
Found at i:42669814 original size:48 final size:48
Alignment explanation
Indices: 42669691--42670011 Score: 403
Period size: 48 Copynumber: 6.6 Consensus size: 48
42669681 AGGATAAGAT
* **
42669691 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAG
* * *
42669739 GTACCGATGCCATGTTCCAAACTTGGTCTTACACTAGCTCACATATTAAG
1 G--CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAG
* * **
42669789 GCCAATACCATG-TCCAAGACATGGTCTTACACTAGCTCTCATATCGAG
1 GCCGATGCCATGTTCCAA-ACATGGTCTTACACTAGCTCTCATATAAAG
* * * *
42669837 GCGGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTTATAAAAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAG
* * * * * *
42669885 ACCGATGCCATGTTCCAGACATGATCTTACACTGGCTCACATA-ACGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATA-AAG
*
42669933 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAG
42669981 GCCGATGCCATGTTCCAAACATGGTCTTACA
1 GCCGATGCCATGTTCCAAACATGGTCTTACA
42670012 TTGGCTTACA
Statistics
Matches: 231, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
47 6 0.03
48 177 0.77
49 6 0.03
50 42 0.18
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAG
Found at i:42669956 original size:144 final size:145
Alignment explanation
Indices: 42669691--42670011 Score: 448
Period size: 144 Copynumber: 2.2 Consensus size: 145
42669681 AGGATAAGAT
* ****
42669691 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATTGGTACCGATGCCATGTTC
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCT-ATATAAAAATACCGATGCCATGTTC
* * **
42669756 CAAACTTGGTCTTACACTAGCTCACATATTAAGGCCAATACCATGTCCAAGACATGGTCTTACAC
65 CAAACATGATCTTACACTAGCTCACATAACAAGGCCAATACCATGTCCAAGACATGGTCTTACAC
** *
42669821 TAGCTCTCATATCGAG
130 TAGCTCTCATATAAAA
*
42669837 GCGGATGCCATGTTCCAAACATGGTCTTACACTAGCTCT-TATAAAAATACCGATGCCATGTTCC
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTATATAAAAATACCGATGCCATGTTCC
* * * * *
42669901 AGACATGATCTTACACTGGCTCACATAACGAGGCCGATGCCATGTTCCAA-ACATGGTCTTACAC
66 AAACATGATCTTACACTAGCTCACATAACAAGGCCAATACCATG-TCCAAGACATGGTCTTACAC
42669965 TAGCTCTCATATAAAA
130 TAGCTCTCATATAAAA
42669981 GCCGATGCCATGTTCCAAACATGGTCTTACA
1 GCCGATGCCATGTTCCAAACATGGTCTTACA
42670012 TTGGCTTACA
Statistics
Matches: 155, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
144 113 0.73
145 5 0.03
146 37 0.24
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (145 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTATATAAAAATACCGATGCCATGTTCC
AAACATGATCTTACACTAGCTCACATAACAAGGCCAATACCATGTCCAAGACATGGTCTTACACT
AGCTCTCATATAAAA
Found at i:42673505 original size:11 final size:11
Alignment explanation
Indices: 42673489--42673513 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42673479 TGAATGCTTT
42673489 ATGTATGTTAA
1 ATGTATGTTAA
42673500 ATGTATGTTAA
1 ATGTATGTTAA
42673511 ATG
1 ATG
42673514 GAGTGTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (11 bp):
ATGTATGTTAA
Found at i:42677454 original size:49 final size:49
Alignment explanation
Indices: 42677400--42677631 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
42677390 CTGGTACGCA
* * *
42677400 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* *
42677449 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
** * *
42677498 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * * * *
42677548 TAGTAGCTTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTATCCGGTACACG
*
42677599 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
42677632 TCACAATAGA
Statistics
Matches: 158, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 79 0.50
50 41 0.26
51 37 0.23
52 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:42677624 original size:101 final size:99
Alignment explanation
Indices: 42677387--42677632 Score: 332
Period size: 101 Copynumber: 2.5 Consensus size: 99
42677377 TAGCCAAAGC
* * ** * *
42677387 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACATGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
42677451 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
66 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
*** * *
42677485 TATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
* *
42677550 GTAGCTTGCACTTAGTACTACACACGTGATCACAGT
66 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* *
42677586 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
42677633 CACAATAGAT
Statistics
Matches: 126, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 40 0.32
99 41 0.33
100 1 0.01
101 44 0.35
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:42677954 original size:16 final size:16
Alignment explanation
Indices: 42677933--42677974 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
42677923 ATTTACATAA
42677933 CATATATCACATATTT
1 CATATATCACATATTT
42677949 CATATATCACATATTT
1 CATATATCACATATTT
42677965 CATATATCAC
1 CATATATCAC
42677975 TTGTCATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (16 bp):
CATATATCACATATTT
Found at i:42680044 original size:48 final size:47
Alignment explanation
Indices: 42679974--42680104 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 47
42679964 GTGTGAATGA
* * *
42679974 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-TTTCAGGGAGGAGT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCT-A-GGAGAAGT
* * *
42680022 TACCTTGATTTGGCGACAGGCCATGGTATAGGTACTCTAGGATAATT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCTAGGAGAAGT
*
42680069 TACCTTGATTTGGCTA-TGAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACAG-GCCATGGTATAGGTACT
42680105 TATCAATTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.01
47 37 0.51
48 33 0.45
49 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCTAGGAGAAGT
Found at i:42680820 original size:13 final size:13
Alignment explanation
Indices: 42680798--42680830 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
42680788 AAGGGTTTGT
42680798 TTAT-TAAACTAA
1 TTATCTAAACTAA
42680810 TTATCTAAACTAA
1 TTATCTAAACTAA
*
42680823 TTAACTAA
1 TTATCTAA
42680831 TTTAACTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:42689171 original size:47 final size:48
Alignment explanation
Indices: 42689047--42689175 Score: 179
Period size: 48 Copynumber: 2.7 Consensus size: 48
42689037 ATGTGAATGA
* *
42689047 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTCAGGGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGGAGAAGT
* *
42689095 TACCTTGATTTGGCTATGGGCCATGGTATAGGTATTCCA-GGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGGAGAAGT
* * * *
42689142 TGCCTTGATTTTGCTACGGGTCATAGTATAGGTA
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
42689176 CTTACCGATT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 35 0.49
48 37 0.51
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGGAGAAGT
Found at i:42693762 original size:46 final size:46
Alignment explanation
Indices: 42693642--42693798 Score: 137
Period size: 46 Copynumber: 3.4 Consensus size: 46
42693632 ACCATGTCCC
* * *
42693642 AGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCGATGCCATGTCCT
1 AGACATAGTCTTACACTGGCT-T-ACATCT-CGTAGCCGATG-CATGT-CT
*
42693692 AGACATAGTCTTACACTGAC--ACATCTCGTAGCCGATGCATGTCT
1 AGACATAGTCTTACACTGGCTTACATCTCGTAGCCGATGCATGTCT
* *
42693736 AAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCAATGCATGTCCC
1 -AGACATAGTCTTACACTGGCTTACATCTCGTA-GCCGATGCATGT-CT
*
42693783 AGACAT-GACTTACACT
1 AGACATAGTCTTACACT
42693799 AGCTCTCGTC
Statistics
Matches: 93, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
44 14 0.15
45 15 0.16
46 46 0.49
47 1 0.01
50 17 0.18
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
AGACATAGTCTTACACTGGCTTACATCTCGTAGCCGATGCATGTCT
Found at i:42698249 original size:15 final size:15
Alignment explanation
Indices: 42698229--42698265 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
42698219 TCCAAACTCG
42698229 AAATTCGCATAAACC
1 AAATTCGCATAAACC
*
42698244 AAATTCACATAAACC
1 AAATTCGCATAAACC
42698259 AAATTCG
1 AAATTCG
42698266 TATACTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (15 bp):
AAATTCGCATAAACC
Found at i:42700472 original size:40 final size:40
Alignment explanation
Indices: 42700382--42700601 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
42700372 ACCCAAGTAT
* ** * *
42700382 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
42700420 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* ** * *
42700460 CTTTGGGACTTAGCCCTTATATAGTCGCTAGCACAAATGA
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
42700500 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
42700540 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
42700580 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
42700602 CATTCGAATA
Statistics
Matches: 147, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 114 0.78
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:42703991 original size:47 final size:47
Alignment explanation
Indices: 42703933--42704656 Score: 1270
Period size: 47 Copynumber: 15.4 Consensus size: 47
42703923 CAGCCAAGAC
*
42703933 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
42703980 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
42704027 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
42704074 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
42704121 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
42704168 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
42704215 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
42704262 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
42704309 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
42704356 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
42704403 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
42704450 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
42704497 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
42704544 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
42704591 AGTGTATATATGTGA-CAGGGCTGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAA
* *
42704638 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
42704657 TCCCGAAGGG
Statistics
Matches: 651, Mismatches: 24, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
46 5 0.01
47 644 0.99
48 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:42704831 original size:37 final size:37
Alignment explanation
Indices: 42704775--42704853 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42704765 CCGAGCTCTA
* *
42704775 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
* *
42704812 AAGACCCGATAACTTCGTGTGGGGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
42704849 AAGAC
1 AAGAC
42704854 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
Found at i:42708525 original size:14 final size:12
Alignment explanation
Indices: 42708494--42708536 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 12
42708484 TTTCTCTTTC
42708494 TTTTTCTTCTTAT
1 TTTTTCTT-TTAT
42708507 TTTTTCTTTTAGT
1 TTTTTCTTTTA-T
42708520 TGTTTTCTTTTTAT
1 T-TTTTC-TTTTAT
42708534 TTT
1 TTT
42708537 CTTAGCCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.11
13 12 0.44
14 7 0.26
15 5 0.19
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTTAT
Found at i:42710304 original size:20 final size:20
Alignment explanation
Indices: 42710273--42710322 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
42710263 TTAGATAAAA
**
42710273 ATATATA-T-AATAAATTTT
1 ATATATAGTAAATAAATAAT
42710291 ATATATAGTAAATAAATAAT
1 ATATATAGTAAATAAATAAT
*
42710311 ATATAAAGTAAA
1 ATATATAGTAAA
42710323 ATGTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 7 0.26
19 1 0.04
20 19 0.70
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
ATATATAGTAAATAAATAAT
Found at i:42711674 original size:10 final size:10
Alignment explanation
Indices: 42711659--42711694 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
42711649 ATAAAAACTA
*
42711659 TTATTTTTTT
1 TTATTTTTAT
42711669 TTATTTTTAT
1 TTATTTTTAT
*
42711679 TTGTTTTTAT
1 TTATTTTTAT
42711689 TTATTT
1 TTATTT
42711695 ATTTACGGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:42711680 original size:16 final size:16
Alignment explanation
Indices: 42711659--42711690 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42711649 ATAAAAACTA
*
42711659 TTATTTTTTTTTATTT
1 TTATTTGTTTTTATTT
42711675 TTATTTGTTTTTATTT
1 TTATTTGTTTTTATTT
42711691 ATTTATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.84
Consensus pattern (16 bp):
TTATTTGTTTTTATTT
Found at i:42711952 original size:44 final size:43
Alignment explanation
Indices: 42711904--42712152 Score: 336
Period size: 44 Copynumber: 5.7 Consensus size: 43
42711894 AAACTCAGGA
* *
42711904 ACGCCAGATCTGTTATCTTCGATCTACTCTCTGACAATACAGAG
1 ACGCCA-ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
42711948 ACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATATAGAG
1 ACGCC-AATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
42711992 ACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAAAG
1 ACGCC-AATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
42712036 ATGCCTAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCC-AATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
** * * *
42712080 ATTCCTAATCTGTTTTCTCCGATCTGCTCTCTGACAATACAGAG
1 ACGCC-AATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
42712124 ACGCCAAGTCTGCTATCTTCGATCTGCTC
1 ACGCCAA-TCTGCTATCTTCGATCTGCTC
42712153 CTTGTAAACG
Statistics
Matches: 184, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
43 2 0.01
44 181 0.98
45 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (43 bp):
ACGCCAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
Found at i:42712105 original size:132 final size:132
Alignment explanation
Indices: 42711911--42712152 Score: 376
Period size: 132 Copynumber: 1.8 Consensus size: 132
42711901 GGAACGCCAG
* *
42711911 ATCTGTTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCT
1 ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCT
*
42711976 CTCTGACAATATAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAAAGATGCC
66 CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAAAGATGCC
42712041 TA
131 TA
* ** * * * *
42712043 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATTCCTAATCTGTTTTCTCCGATCTGCT
1 ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCT
* *
42712108 CTCTGACAATACAGAGACGCCAAGTCTGCTATCTTCGATCTGCTC
66 CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCTC
42712153 CTTGTAAACG
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 98 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (132 bp):
ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCT
CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAAAGATGCC
TA
Found at i:42712396 original size:87 final size:88
Alignment explanation
Indices: 42712301--42712551 Score: 290
Period size: 89 Copynumber: 2.8 Consensus size: 88
42712291 ACAATACAGA
* * *
42712301 GATGCCAAATCATCTTAGATCTACTTCAACGT-AAACA-CGTGAAAGCCAAATCTGCTATGTCTT
1 GATGCCAAATCATCTTGGATCTACTTCAACGTAAAACATC-CGAAAGCCAAACCTGCTATGTCTT
42712364 CGATCTGCTCCTTGTAAACGCAAG
65 CGATCTGCTCCTTGTAAACGCAAG
** * * ** *
42712388 GATGCCAAATCATCTTGGATCTACTTTGATGTGAAAACATCCGAAGGTTAGACCTGCTATGTCTT
1 GATGCCAAATCATCTTGGATCTACTTCAACGT-AAAACATCCGAAAGCCAAACCTGCTATGTCTT
42712453 CGATCTGCTCCTTGTAAACGCAAG
65 CGATCTGCTCCTTGTAAACGCAAG
* * * * ** * * *
42712477 GATGCCGAATCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATATCTT
1 GATGCCAAATCATCTTGGATCTACTTCAACGT-AAAACATCCGAAAGCCAAACCTGCTATGTCTT
42712542 CGATCTGCTC
65 CGATCTGCTC
42712552 TCCGTCAAAT
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
87 28 0.19
89 118 0.80
90 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (88 bp):
GATGCCAAATCATCTTGGATCTACTTCAACGTAAAACATCCGAAAGCCAAACCTGCTATGTCTTC
GATCTGCTCCTTGTAAACGCAAG
Found at i:42712460 original size:89 final size:89
Alignment explanation
Indices: 42712352--42712551 Score: 364
Period size: 89 Copynumber: 2.2 Consensus size: 89
42712342 AAAGCCAAAT
*
42712352 CTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTTGA
1 CTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGA
42712417 TGTGAAAACATCCGAAGGTTAGAC
66 TGTGAAAACATCCGAAGGTTAGAC
*
42712441 CTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCGAATCATCTTGGATCTACTTCGA
1 CTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGA
*
42712506 TGTGAAAACATCCGAAGGTTAGAT
66 TGTGAAAACATCCGAAGGTTAGAC
*
42712530 CTGCTATATCTTCGATCTGCTC
1 CTGCTATGTCTTCGATCTGCTC
42712552 TCCGTCAAAT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 107 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (89 bp):
CTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGA
TGTGAAAACATCCGAAGGTTAGAC
Found at i:42720969 original size:16 final size:16
Alignment explanation
Indices: 42720948--42720978 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42720938 TTCACTATAA
*
42720948 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
42720964 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
42720979 TCACGCATAA
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:42723181 original size:39 final size:39
Alignment explanation
Indices: 42723127--42723206 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
42723117 TGTGAATATA
42723127 TATATGCGAGAATTATATCCAGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCAGACTTCAGGTCCGCAGGC
* *
42723166 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCAGACTTCAGGTCCGCAGGC
42723205 TA
1 TA
42723207 CGTGCTGGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCAGACTTCAGGTCCGCAGGC
Found at i:42731222 original size:39 final size:39
Alignment explanation
Indices: 42731166--42731284 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 39
42731156 TGTGAATATA
42731166 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
42731205 TCTATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
42731244 TATATGTGAGAATTATATTCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
42731283 TA
1 TA
42731285 CGTGCTGGAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:42735515 original size:79 final size:81
Alignment explanation
Indices: 42735406--42735588 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
42735396 TACTCGTTCA
* *
42735406 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* * *
42735469 ATTTAGTGAC-TCGCACC
65 ATATAGTCACTTAGCA-C
**
42735486 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
42735549 TATAGTCACTTAGCAC
66 TATAGTCACTTAGCAC
*
42735565 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42735589 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTCACTTAGCAC
Found at i:42735588 original size:40 final size:40
Alignment explanation
Indices: 42735385--42735588 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
42735375 CGGAATTTAA
** *
42735385 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42735425 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
42735465 CCGGATTTAGTGACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
42735504 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
42735544 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42735584 CCGGA
1 CCGGA
42735589 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42743678 original size:79 final size:81
Alignment explanation
Indices: 42743569--42743751 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
42743559 TACTCGTTCA
* *
42743569 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* * *
42743632 ATTTAGTGAC-TCGCACC
65 ATATAGTCACTTAGCA-C
**
42743649 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
42743712 TATAGTCACTTAGCAC
66 TATAGTCACTTAGCAC
*
42743728 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42743752 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTCACTTAGCAC
Found at i:42743751 original size:40 final size:40
Alignment explanation
Indices: 42743548--42743751 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
42743538 CGGAATTTAA
** *
42743548 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42743588 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
42743628 CCGGATTTAGTGACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
42743667 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
42743707 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42743747 CCGGA
1 CCGGA
42743752 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42747486 original size:43 final size:42
Alignment explanation
Indices: 42747401--42747514 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 42
42747391 AGTACCACAC
* * **** *
42747401 CAATGCCATATCCCAGATATGGTCTTACATGGGATCTTGTAT
1 CAATGCCACATCCCAAATATGGTCTTACACAAAATCTCGTAT
* *
42747443 CGATGCCA-ATAGCCCAACTATGGTCTTACACAAAATCTCGTAT
1 CAATGCCACAT--CCCAAATATGGTCTTACACAAAATCTCGTAT
*
42747486 CAATGTCACATCCCAAATATGGTCTTACA
1 CAATGCCACATCCCAAATATGGTCTTACA
42747515 TGTAAACTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.03
42 24 0.41
43 30 0.52
44 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
CAATGCCACATCCCAAATATGGTCTTACACAAAATCTCGTAT
Found at i:42749740 original size:13 final size:13
Alignment explanation
Indices: 42749718--42749747 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
42749708 ACATCTCTTC
*
42749718 TTTCTTCTCTCAT
1 TTTCTCCTCTCAT
42749731 TTTCTCCTCTCAT
1 TTTCTCCTCTCAT
42749744 TTTC
1 TTTC
42749748 CTATTCGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTCTCCTCTCAT
Found at i:42758741 original size:26 final size:26
Alignment explanation
Indices: 42758682--42758733 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
42758672 CCAAATTGAT
*
42758682 AAATGACTATTATACCCTATGAGGTA
1 AAATGACTATTATACCCTATGAGATA
*
42758708 AAATGACTATTATGCCCTTATGAGAT
1 AAATGACTATTATACCC-TATGAGAT
42758734 GTATGACTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (26 bp):
AAATGACTATTATACCCTATGAGATA
Found at i:42762727 original size:29 final size:26
Alignment explanation
Indices: 42762695--42762752 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 26
42762685 TAATTTTGAG
* *
42762695 AAAGATGTTGTTCTGAAGGAATTTTTTTC
1 AAAGATG-T-TTCT-AAGAAATTCTTTTC
*
42762724 AAAGGTGTTTCTAAGAAATTCTTTTC
1 AAAGATGTTTCTAAGAAATTCTTTTC
42762750 AAA
1 AAA
42762753 ATTTGTGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 15 0.58
27 4 0.15
28 1 0.04
29 6 0.23
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (26 bp):
AAAGATGTTTCTAAGAAATTCTTTTC
Found at i:42764558 original size:26 final size:26
Alignment explanation
Indices: 42764519--42764587 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
42764509 TTTACATTGT
* *
42764519 TGCTCACACAAGCTGTGAAATGGGTC
1 TGCTCACACGAGCTGTGAAATGGGCC
* * *
42764545 TGCTCATACGAGCTGAGGAATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
* *
42764571 TACTCACACGAGTTGTG
1 TGCTCACACGAGCTGTG
42764588 GGTCGGAATG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCC
Found at i:42765407 original size:30 final size:30
Alignment explanation
Indices: 42765367--42765437 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
42765357 CGACCGTGTA
* *
42765367 ACATGACCGTGTGTCGTACATGGCTGAGAC
1 ACATGCCCGTGTGTCGTACACGGCTGAGAC
42765397 ACATGCCCGTGTGTCGTACACGGCTGAGAC
1 ACATGCCCGTGTGTCGTACACGGCTGAGAC
*
42765427 ACACGCCCGTG
1 ACATGCCCGTG
42765438 CCTCTACCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.21, C:0.30, G:0.30, T:0.20
Consensus pattern (30 bp):
ACATGCCCGTGTGTCGTACACGGCTGAGAC
Found at i:42769569 original size:37 final size:36
Alignment explanation
Indices: 42769517--42769608 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 36
42769507 ATTCCAAAAA
*
42769517 TAATATTATTTTAATAGT-TTAATACTTAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATAC-TAATTTAATAT
*
42769553 TAATACTTATCTTAATAGTATTTTACTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATACTAATTTAATAT
42769590 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
42769609 TTAAATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
36 14 0.29
37 17 0.35
38 4 0.08
39 12 0.25
40 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.51
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATACTAATTTAATAT
Found at i:42770702 original size:25 final size:25
Alignment explanation
Indices: 42770668--42770718 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
42770658 GTTTGGAATC
42770668 TGTTTATGGTTTATTGTGGAATTTT
1 TGTTTATGGTTTATTGTGGAATTTT
*
42770693 TGTTTCTGGTTTATTGTGGAATTTT
1 TGTTTATGGTTTATTGTGGAATTTT
42770718 T
1 T
42770719 CTTAATTCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.14, C:0.02, G:0.24, T:0.61
Consensus pattern (25 bp):
TGTTTATGGTTTATTGTGGAATTTT
Found at i:42774481 original size:56 final size:56
Alignment explanation
Indices: 42774401--42774512 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
42774391 GCCTTATTTC
42774401 ATTCATAATCATGTATACATACAACCCAACCACATATCAAAGTAACCAAACATTCA
1 ATTCATAATCATGTATACATACAACCCAACCACATATCAAAGTAACCAAACATTCA
42774457 ATTCATAATCATGTATACATACAACCCAACCACATATCAAAGTAACCAAACATTCA
1 ATTCATAATCATGTATACATACAACCCAACCACATATCAAAGTAACCAAACATTCA
42774513 TGAAAATGTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.46, C:0.27, G:0.04, T:0.23
Consensus pattern (56 bp):
ATTCATAATCATGTATACATACAACCCAACCACATATCAAAGTAACCAAACATTCA
Found at i:42776185 original size:4 final size:4
Alignment explanation
Indices: 42776176--42776268 Score: 177
Period size: 4 Copynumber: 23.2 Consensus size: 4
42776166 ACTAGTGAAT
42776176 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
42776224 TATG TATG TATG TATG TATG TATG TATG TGTG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
42776269 GTGTTGAACA
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 87 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:42778292 original size:18 final size:18
Alignment explanation
Indices: 42778269--42778306 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
42778259 TTTGATTTAT
42778269 TTAAATAATAAAT-TTGAA
1 TTAAATAA-AAATCTTGAA
*
42778287 TTAAATCAAAATCTTGAA
1 TTAAATAAAAATCTTGAA
42778305 TT
1 TT
42778307 TTAAATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (18 bp):
TTAAATAAAAATCTTGAA
Found at i:42779284 original size:23 final size:24
Alignment explanation
Indices: 42779244--42779313 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 24
42779234 CTGAAAGTTG
*
42779244 ATAACAATTTTAAGTTAAT-AAATA
1 ATAA-AATTTTAATTTAATAAAATA
*
42779268 ATAAAATTATAATTTAATTTTAAAAATA
1 ATAAAATTTTAATTTAA---T-AAAATA
42779296 ATAAAATTTTAATTTAAT
1 ATAAAATTTTAATTTAAT
42779314 TCTTCTAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 11 0.29
24 4 0.11
25 1 0.03
26 1 0.03
28 21 0.55
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (24 bp):
ATAAAATTTTAATTTAATAAAATA
Found at i:42779314 original size:28 final size:29
Alignment explanation
Indices: 42779258--42779314 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
42779248 CAATTTTAAG
42779258 TTAATAAATAATAAAATTATAATTTAATT
1 TTAATAAATAATAAAATTATAATTTAATT
*
42779287 TTAA-AAATAATAAAATTTTAATTTAATT
1 TTAATAAATAATAAAATTATAATTTAATT
42779315 CTTCTAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAATAAATAATAAAATTATAATTTAATT
Found at i:42785417 original size:123 final size:126
Alignment explanation
Indices: 42785207--42786111 Score: 553
Period size: 140 Copynumber: 6.9 Consensus size: 126
42785197 ATAAGACAAT
* * * *
42785207 ACTTTTGGGGCAACACTTTCTTAAGTGTTGGGATAAACTTACTAACATACGCTTTGGCCAACTTT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
*
42785272 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAATAAGCC-TAAG-ATG-AC
66 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAATAAGCCTTAAGCAAGAAC
* *
42785330 ACTTTTGGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTTT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
* *
42785395 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACACTTAAATAAGAGTTGCCTTTGTTTAGTC
66 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAAT-A-A---GCC----TTAAG--
42785460 CTAAGAAGAC
120 C-AAG-A-AC
* *
42785470 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCTAACTCT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
* * * * * * *
42785535 TTGTATAAGGGTTGTGATATGAATGCCTAAGACAATGCTTAAATAAGAATTGGCTTTGTCTAGTC
66 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAAT---AA---GC-CT-T-AAG--
42785600 CTAAGACAAC
120 C-AAG--AAC
* * ** * * *
42785610 ACTTCTAGGGCGACACTTTCCTAAGTGTTTAGATAGACTTGCCAACATACGTTTTGGCCAACTCT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
* * * * ** * ** **
42785675 TTGTATAAAGGTTGAGG-TATGCATGCCTACGGCAATGCTTAAATAAGAGTT-GGCTTTGTCC
66 TTGTATAAGGGTTG-GGATATGCATGTCTAAGGCAACGCTTAAATAAGCCTTAAGC-AAGAAC
* ** ***** * * * * *
42785736 AGTCCTAAAATGACACTTTCATAAGTGTTGGGATAGACTTGCCGACGTACGCTTTGGCCAACTCT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
* * * *
42785801 TTGTATAATGGTTAGGATATGCTTG-CTTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCGAC
66 TTGTATAAGGGTTGGGATATGCATGTC-TAAGGCAACGCTTAAAT-A-AG-C--C-TTA--AG-C
*
42785865 ACTATGCCGAC
121 A--A-G--AAC
* * * * * * * *
42785876 ACTTTTGGGTCGACACTTTCCTAATTATTGGGACAGACTTGTCGACATACCCTTTTGGCCAAC--
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGC-TTTGGCCAACTT
* * * *
42785939 TTTGTATAAGGGTTGGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTT-TGTC--C
65 TTTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAAT-A-AG-C--CTTAAG-CAAG
42786001 AAC
124 AAC
* * * * * *
42786004 AC-TAT--GCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
* * * *
42786066 ATGTATAAGGGTT-GGATATGCATGCCTAAGACAACACTTAAATAAG
66 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAATAAG
42786112 AGTTGGTTTT
Statistics
Matches: 633, Mismatches: 104, Indels: 90
0.77 0.13 0.11
Matches are distributed among these distances:
123 104 0.16
124 12 0.02
125 66 0.10
126 101 0.16
127 3 0.00
128 12 0.02
130 1 0.00
132 3 0.00
133 4 0.01
134 1 0.00
135 3 0.00
136 1 0.00
137 4 0.01
138 4 0.01
139 50 0.08
140 247 0.39
141 16 0.03
142 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (126 bp):
ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAATAAGCCTTAAGCAAGAAC
Found at i:42785576 original size:140 final size:140
Alignment explanation
Indices: 42785319--42786124 Score: 816
Period size: 140 Copynumber: 6.0 Consensus size: 140
42785309 CTTAAATAAG
* *
42785319 CCTAAGATGACACTTTTGGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTT
1 CCTAAGAAGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTT
* * * ** *
42785384 TGGCCAACTTTTTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACACTTAAATAAGAGTTGCC
66 TGGCCAACTCTTTGTATAAGGGTTGAGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTTGGC
*
42785449 TTTGTTTAGT
131 TTTGTCTAGT
*
42785459 CCTAAGAAGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTT
1 CCTAAGAAGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTT
* * * * *
42785524 TGGCTAACTCTTTGTATAAGGGTTGTGATATGAATGCCTAAGACAATGCTTAAATAAGAATTGGC
66 TGGCCAACTCTTTGTATAAGGGTTGAGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTTGGC
42785589 TTTGTCTAGT
131 TTTGTCTAGT
* * ** *
42785599 CCTAAGACA-ACACTTCTAGGGCGACACTTTCCTAAGTGTTTAGATAGACTTGCCAACATACGTT
1 CCTAAGA-AGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCT
* * *
42785663 TTGGCCAACTCTTTGTATAAAGGTTGAGGTATGCATGCCTACGGCAATGCTTAAATAAGAGTTGG
65 TTGGCCAACTCTTTGTATAAGGGTTGAGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTTGG
*
42785728 CTTTGTCCAGT
130 CTTTGTCTAGT
* * *
42785739 CCT---AA-A-A----T-----GACACTTTCATAAGTGTTGGGATAGACTTGCCGACGTACGCTT
1 CCTAAGAAGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTT
* * * * *
42785790 TGGCCAACTCTTTGTATAATGGTT-AGGATATGCTTGCTTAAGGCAACGCTTAAATAAGAGTCGG
66 TGGCCAACTCTTTGTATAAGGGTTGA-GATATGCATGCCTAAGGCAATGCTTAAATAAGAGTTGG
* * *
42785854 CTTTATC-CGA
130 CTTTGTCTAGT
* ** * * * * * * *
42785864 CACTATGCCGACACTTTTGGGTCGACACTTTCCTAATTATTGGGACAGACTTGTCGACATACCCT
1 C-CTAAGAAGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGC-
* * * *
42785929 TTTGGCCAA--CTTTGTATAAGGGTTGGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCG
64 TTTGGCCAACTCTTTGTATAAGGGTTGAGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTTG
42785992 GC--T-T-T-GT
129 GCTTTGTCTAGT
* * * *
42785999 CC-----A-ACAC-TAT--GCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTT
1 CCTAAGAAGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTT
* * ** *
42786055 TGGCCAACTCTATGTATAAGGGTTG-GATATGCATGCCTAAGACAACACTTAAATAAGAGTTGGT
66 TGGCCAACTCTTTGTATAAGGGTTGAGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTTGGC
42786119 TTTGTC
131 TTTGTC
42786125 CAATAGTATG
Statistics
Matches: 563, Mismatches: 77, Indels: 63
0.80 0.11 0.09
Matches are distributed among these distances:
124 9 0.02
125 72 0.13
126 115 0.20
127 3 0.01
128 5 0.01
130 1 0.00
131 2 0.00
134 1 0.00
135 4 0.01
136 3 0.01
137 2 0.00
139 50 0.09
140 286 0.51
141 10 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (140 bp):
CCTAAGAAGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTT
TGGCCAACTCTTTGTATAAGGGTTGAGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTTGGC
TTTGTCTAGT
Found at i:42785846 original size:126 final size:127
Alignment explanation
Indices: 42785621--42786126 Score: 504
Period size: 126 Copynumber: 3.9 Consensus size: 127
42785611 CTTCTAGGGC
** * *
42785621 GACACTTTCCTAAGTGTTTAGATAGACTTGCCAACATACGTTTTGGCCAACTCTTTGTATAAAGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * * *
42785686 TTGAGG-TATGCATGCCTACGGCAATGCTTAAATAAGAGTTGGCTTTGTCCAGTC-CTAAAAT
66 TT-AGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAGACACTAAAAT
* * * *
42785747 GACACTTTCATAAGTGTTGGGATAGACTTGCCGACGTACGCTTTGGCCAACTCTTTGTATAATGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * *
42785812 TTAGGATATGCTTGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCC-GACACTATGCCGAC
66 TTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAGACACTA-----A-
*
42785876 ACTTTTGGGT
125 A-------AT
* * * * * *
42785886 CGACACTTTCCTAATTATTGGGACAGACTTGTCGACATACCCTTTTGGCCAA--CTTTGTATAAG
1 -GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGC-TTTGGCCAACTCTTTGTATAAG
* * ****
42785949 GGTTGGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCA-ACACTATGCC
64 GGTTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAGACACTAAAAT
* * *
42786012 AACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTATGTATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * * *
42786077 TT-GGATATGCATGCCTAAGACAACACTTAAATAAGAGTTGGTTTTGTCCA
66 TTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCA
42786127 ATAGTATGCC
Statistics
Matches: 314, Mismatches: 46, Indels: 41
0.78 0.11 0.10
Matches are distributed among these distances:
124 9 0.03
125 81 0.26
126 115 0.37
131 1 0.00
132 1 0.00
139 64 0.20
140 34 0.11
141 9 0.03
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (127 bp):
GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
TTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAGACACTAAAAT
Found at i:42786006 original size:139 final size:139
Alignment explanation
Indices: 42785747--42786019 Score: 386
Period size: 139 Copynumber: 2.0 Consensus size: 139
42785737 GTCCTAAAAT
* * * * *
42785747 GACACTTTCATAAGTGTTGGGATAGACTTGCCGACGTACGCTTTGGCCAACTCTTTGTATAATGG
1 GACACTTTCATAAGTATTGGGACAGACTTGCCGACATACCCTTTGGCCAAC-CTTTGTATAAGGG
* * * * *
42785812 TTAGGATATGCTTGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCGACACTATGCCGACA
65 TTAGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAACACTATGCCAACA
42785877 CTTTTGGGTC
130 CTTTTGGGTC
* * *
42785887 GACACTTTCCTAATTATTGGGACAGACTTGTCGACATACCCTTTTGGCCAA-CTTTGTATAAGGG
1 GACACTTTCATAAGTATTGGGACAGACTTGCCGACATACCC-TTTGGCCAACCTTTGTATAAGGG
* *
42785951 TTGGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACA
65 TTAGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAACACTATGCCAACA
42786016 CTTT
130 CTTT
42786020 CCTAAGTGTT
Statistics
Matches: 117, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
139 74 0.63
140 34 0.29
141 9 0.08
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (139 bp):
GACACTTTCATAAGTATTGGGACAGACTTGCCGACATACCCTTTGGCCAACCTTTGTATAAGGGT
TAGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAACACTATGCCAACAC
TTTTGGGTC
Found at i:42786110 original size:125 final size:125
Alignment explanation
Indices: 42785888--42786136 Score: 340
Period size: 125 Copynumber: 2.0 Consensus size: 125
42785878 TTTTGGGTCG
* * *
42785888 ACACTTTCCTAATTATTGGGACAGACTTGTCGACATACCCTTTTGGCCAACTTTGTATAAGGGTT
1 ACACTTTCCTAAGTATTGGGACAGACTTGCCAACATACCCTTTTGGCCAACTTTGTATAAGGGTT
* *
42785953 GGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCA
66 GGGATATACATGCCTAAGACAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCA
* * **
42786013 ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGC-TTTGGCCAACTCTATGTATAAGGG
1 ACACTTTCCTAAGTATTGGGACAGACTTGCCAACATACCCTTTTGGCCAACT-T-TGTATAAGGG
* * * * *
42786077 TT-GGATATGCATGCCTAAGACAACACTTAAATAAGAGTTGGTTTTGTCCAATAGTATGCC
64 TTGGGATATACATGCCTAAGACAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCC
42786137 TAAGGAAACA
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
124 11 0.10
125 85 0.79
126 12 0.11
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (125 bp):
ACACTTTCCTAAGTATTGGGACAGACTTGCCAACATACCCTTTTGGCCAACTTTGTATAAGGGTT
GGGATATACATGCCTAAGACAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCA
Found at i:42787318 original size:127 final size:129
Alignment explanation
Indices: 42786987--42787589 Score: 948
Period size: 127 Copynumber: 4.7 Consensus size: 129
42786977 TTAAATTTTT
* * *
42786987 ATTTTAAAATTTTTTTAATCATTTTGAATTTTAAGTT-TCTTTTGATCGAGTCATTTTGGGTTTA
1 ATTTT-AAACTTTTTTAATCATTTTGAATTTTAAGTTAT-TTTTGGTCGAGTCAATTTGGGTTTA
*
42787051 GCTCATTCAAGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTATTTAGGGTAAATTCG
64 GCTCATTCAAGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCG
42787116 A
129 A
42787117 ATTTTAAACTTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAG
1 ATTTTAAAC-TTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAG
* * * * *
42787182 CTCAGTCAAGTTTGTTAATCGAGTTATGAAGTTATGGTATAATGAATTGTATAAGGTAAATTCGG
65 CTCATTCAAGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGA
* *
42787247 ATTTT-AA-TTTTTTAATCATTTTGAATTTTAAGTTATTTTTGATCGAGCCAATTTGGGTTTAGC
1 ATTTTAAACTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGC
*
42787310 TCATTCAAGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGG
66 TCATTCAAGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGA
* *
42787374 ATTTTAAACTTTTTTAATCATTTTGAATTTTAAGTTTTTTTTGGTCAAG-CAAATTTGGGTTTAG
1 ATTTTAAACTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCGAGTC-AATTTGGGTTTAG
* *
42787438 CTCATTCAAGTTTGTTAATCGAATTATGAAGTTATGGTATTATGAATTGTTTAGGGTATATTCGA
65 CTCATTCAAGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGA
* * *
42787503 ATTTT--ATTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCGAGTTAATTTGGGTTTAAC
1 ATTTTAAACTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGC
*
42787566 TCATTCAAGTTTGTTAATCTAGTT
66 TCATTCAAGTTTGTTAATCGAGTT
42787590 TTTCAAGTCA
Statistics
Matches: 439, Mismatches: 28, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
127 193 0.44
128 3 0.01
129 122 0.28
130 120 0.27
131 1 0.00
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.48
Consensus pattern (129 bp):
ATTTTAAACTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGC
TCATTCAAGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGA
Found at i:42787537 original size:256 final size:257
Alignment explanation
Indices: 42786995--42787589 Score: 989
Period size: 256 Copynumber: 2.3 Consensus size: 257
42786985 TTATTTTAAA
*
42786995 ATTTTTTTAATCATTTTGAATTTTAAGTT-TCTTTTGATCGAGTCATTTTGGGTTTAGCTCATTC
1 ATTTTTTTAATCATTTTGAATTTTAAGTTAT-TTTTGATCGAGTCAATTTGGGTTTAGCTCATTC
42787059 AAGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTATTTAGGGTAAATTCGAATTTTAA
65 AAGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTATTTAGGGTAAATTCGAATTTTAA
*
42787124 ACTTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCAGTC
130 ACTTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCAAGTCAATTTGGGTTTAGCTCAGTC
* *
42787189 AAGTTTGTTAATCGAGTTATGAAGTTATGGTATAATGAATTGTATAAGGTAAATTCGGATTTT
195 AAGTTTGTTAATCGAATTATGAAGTTATGGTATAATGAATTGTATAAGGTAAATTCGAATTTT
* *
42787252 AATTTTTTAATCATTTTGAATTTTAAGTTATTTTTGATCGAGCCAATTTGGGTTTAGCTCATTCA
1 ATTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGATCGAGTCAATTTGGGTTTAGCTCATTCA
* *
42787317 AGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGGATTTTAAA
66 AGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTATTTAGGGTAAATTCGAATTTTAAA
* *
42787382 C-TTTTTTAATCATTTTGAATTTTAAGTTTTTTTTGGTCAAG-CAAATTTGGGTTTAGCTCATTC
131 CTTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCAAGTC-AATTTGGGTTTAGCTCAGTC
* * * *
42787445 AAGTTTGTTAATCGAATTATGAAGTTATGGTATTATGAATTGTTTAGGGTATATTCGAATTTT
195 AAGTTTGTTAATCGAATTATGAAGTTATGGTATAATGAATTGTATAAGGTAAATTCGAATTTT
* * *
42787508 ATTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCGAGTTAATTTGGGTTTAACTCATTCA
1 ATTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGATCGAGTCAATTTGGGTTTAGCTCATTCA
*
42787573 AGTTTGTTAATCTAGTT
66 AGTTTGTTAATCGAGTT
42787590 TTTCAAGTCA
Statistics
Matches: 316, Mismatches: 20, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
255 1 0.00
256 190 0.60
257 124 0.39
258 1 0.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (257 bp):
ATTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGATCGAGTCAATTTGGGTTTAGCTCATTCA
AGTTTGTTAATCGAGTTATGAAGTTATGGTATTATGAATTATTTAGGGTAAATTCGAATTTTAAA
CTTTTTTTAATCATTTTGAATTTTAAGTTATTTTTGGTCAAGTCAATTTGGGTTTAGCTCAGTCA
AGTTTGTTAATCGAATTATGAAGTTATGGTATAATGAATTGTATAAGGTAAATTCGAATTTT
Found at i:42792045 original size:40 final size:41
Alignment explanation
Indices: 42791944--42792048 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
42791934 TACTCGAATG
* * * *
42791944 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAAGCGACC
* * * *
42791985 ACATCCGGACTAAGATCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAAGCGACC
*
42792025 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
42792049 CTTGTGCGAG
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
40 25 0.48
41 27 0.52
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAAGCGACC
Found at i:42799589 original size:39 final size:38
Alignment explanation
Indices: 42799503--42799596 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 38
42799493 ACCATCTCCG
* * *
42799503 TCCACCCCTACACACCACGTGGGGATAAAATCAACCCA
1 TCCAACCCTACACACCAAGTGGGGATAAAATAAACCCA
* *
42799541 CCCAGCCCTACACACCAAGTATGGGGAT-AAATAAACCCA
1 TCCAACCCTACACACCAAG--TGGGGATAAAATAAACCCA
42799580 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
42799597 TAAGGTACCG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 16 0.33
39 25 0.52
40 7 0.15
ACGTcount: A:0.36, C:0.39, G:0.12, T:0.13
Consensus pattern (38 bp):
TCCAACCCTACACACCAAGTGGGGATAAAATAAACCCA
Found at i:42800024 original size:17 final size:18
Alignment explanation
Indices: 42799952--42800026 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 18
42799942 CATGTGGCTT
*
42799952 GCCCGTGTGAGCCCACAA
1 GCCCGTGTGAGCCCACAC
*
42799970 GCCCGTGTG-GCACACAC
1 GCCCGTGTGAGCCCACAC
* * *
42799987 GGCCTGGTCTAGATTCCCACAC
1 -GCC-CGTGT-GA-GCCCACAC
42800009 GCCCGTGTG-GCCCACAC
1 GCCCGTGTGAGCCCACAC
42800026 G
1 G
42800027 TCCCAATTGG
Statistics
Matches: 43, Mismatches: 9, Indels: 11
0.68 0.14 0.17
Matches are distributed among these distances:
17 14 0.33
18 12 0.28
19 4 0.09
20 4 0.09
21 3 0.07
22 6 0.14
ACGTcount: A:0.17, C:0.40, G:0.28, T:0.15
Consensus pattern (18 bp):
GCCCGTGTGAGCCCACAC
Found at i:42803750 original size:40 final size:40
Alignment explanation
Indices: 42803665--42803760 Score: 133
Period size: 40 Copynumber: 2.4 Consensus size: 40
42803655 TACTATGTTT
42803665 GGCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATAAATA
1 GGCACTTAGTGTGCGAATTGGAATAGCTTCAGCTAT-AATA
* *
42803706 -GCACTTAGTGTGCGAATTGGAATAGCTTCGGCTCT-ATGA
1 GGCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATAAT-A
*
42803745 GGCACTAAGTGTGCGA
1 GGCACTTAGTGTGCGA
42803761 TACAAAGATA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 47 0.94
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATAATA
Found at i:42806662 original size:27 final size:23
Alignment explanation
Indices: 42806609--42806655 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
42806599 ATCTATATGA
42806609 ATTCAAAATTAACTTATTTAATC
1 ATTCAAAATTAACTTATTTAATC
*
42806632 ATTCAGAATTAACTTATTTAATC
1 ATTCAAAATTAACTTATTTAATC
42806655 A
1 A
42806656 ACCATTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTCAAAATTAACTTATTTAATC
Found at i:42809707 original size:41 final size:41
Alignment explanation
Indices: 42809662--42809744 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
42809652 CGAATTCTTT
*
42809662 ACCTGATTCAGGCTGAACTAACACTGGTGCCTCTATCAGTA
1 ACCTGATTCAGGCTAAACTAACACTGGTGCCTCTATCAGTA
*
42809703 ACCTGATTCAGGCTAAACTAACACTGGTGCCTCTGTCAGTA
1 ACCTGATTCAGGCTAAACTAACACTGGTGCCTCTATCAGTA
42809744 A
1 A
42809745 TGCTTTCAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (41 bp):
ACCTGATTCAGGCTAAACTAACACTGGTGCCTCTATCAGTA
Found at i:42814565 original size:13 final size:13
Alignment explanation
Indices: 42814543--42814579 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
42814533 ATTTTAATTC
42814543 ACACGGGCATGGG
1 ACACGGGCATGGG
*
42814556 ACACGAGCATGGG
1 ACACGGGCATGGG
42814569 ACACGGGCATG
1 ACACGGGCATG
42814580 TCCCTAGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.27, C:0.24, G:0.41, T:0.08
Consensus pattern (13 bp):
ACACGGGCATGGG
Found at i:42822057 original size:13 final size:13
Alignment explanation
Indices: 42822001--42822059 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
42821991 AATTTAATTC
42822001 ACACGGGCATGGG
1 ACACGGGCATGGG
*
42822014 ACACAGG-AGTGGG
1 ACACGGGCA-TGGG
* *
42822027 ATACAGGCATGGG
1 ACACGGGCATGGG
*
42822040 ACACGGGCATAGG
1 ACACGGGCATGGG
42822053 ACACGGG
1 ACACGGG
42822060 TGTGTCCCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
12 1 0.03
13 37 0.95
14 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.42, T:0.08
Consensus pattern (13 bp):
ACACGGGCATGGG
Found at i:42825289 original size:20 final size:18
Alignment explanation
Indices: 42825256--42825297 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
42825246 CAGTTTTATA
42825256 ATTTTAAAATTTTTAATG
1 ATTTTAAAATTTTTAATG
*
42825274 ATTTTAATATATTTTTAATT
1 ATTTTAA-A-ATTTTTAATG
42825294 ATTT
1 ATTT
42825298 AATTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
20 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTAAAATTTTTAATG
Found at i:42825482 original size:30 final size:30
Alignment explanation
Indices: 42825446--42825505 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
42825436 AGATACATGG
42825446 CATTGCATACATATCGTGAAGTTTTACTCT
1 CATTGCATACATATCGTGAAGTTTTACTCT
* *
42825476 CATTGCATACTTATTGTGAAGTTTTACTCT
1 CATTGCATACATATCGTGAAGTTTTACTCT
42825506 TTGTGCGCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.43
Consensus pattern (30 bp):
CATTGCATACATATCGTGAAGTTTTACTCT
Found at i:42827403 original size:25 final size:25
Alignment explanation
Indices: 42827375--42827449 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
42827365 CTCACTTGAA
*
42827375 CTATAGATTAGTATGCTCTCACGAG
1 CTATAAATTAGTATGCTCTCACGAG
**
42827400 CTATAAATCGGTATGCTCTCACGAG
1 CTATAAATTAGTATGCTCTCACGAG
*
42827425 CTCTAAATTAGTATGCTCTCACGAG
1 CTATAAATTAGTATGCTCTCACGAG
42827450 TTGTGGAGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (25 bp):
CTATAAATTAGTATGCTCTCACGAG
Found at i:42827410 original size:50 final size:50
Alignment explanation
Indices: 42827355--42827449 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
42827345 ACGAGTTGTG
** *
42827355 AATCGGTATGCTCACTTGAACTATAGATTAGTATGCTCTCACGAGCTATA
1 AATCGGTATGCTCACACGAACTATAAATTAGTATGCTCTCACGAGCTATA
* * *
42827405 AATCGGTATGCTCTCACGAGCTCTAAATTAGTATGCTCTCACGAG
1 AATCGGTATGCTCACACGAACTATAAATTAGTATGCTCTCACGAG
42827450 TTGTGGAGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (50 bp):
AATCGGTATGCTCACACGAACTATAAATTAGTATGCTCTCACGAGCTATA
Found at i:42827981 original size:23 final size:23
Alignment explanation
Indices: 42827945--42828016 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
42827935 GTTTGGGATC
* *
42827945 TGTGGCGTAATCTGCTAAGCTTA
1 TGTGGCATATTCTGCTAAGCTTA
* *** *
42827968 TGTGGCATATTCTGTTTTCCTTT
1 TGTGGCATATTCTGCTAAGCTTA
*
42827991 TGTGGCATAATT-TGCTAAGCCTA
1 TGTGGCAT-ATTCTGCTAAGCTTA
42828014 TGT
1 TGT
42828017 ATCATAGTCT
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
23 32 0.91
24 3 0.09
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (23 bp):
TGTGGCATATTCTGCTAAGCTTA
Found at i:42828039 original size:46 final size:46
Alignment explanation
Indices: 42827945--42828041 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 46
42827935 GTTTGGGATC
* * * * *
42827945 TGTGGCGTAATCTGCTAAGCTTATGTGGCATATTCTGTTTTCCTTT
1 TGTGGCATAATCTGCTAAGCCTATGTAGCATAGTCTGTTTGCCTTT
* *
42827991 TGTGGCATAATTTGCTAAGCCTATGTATCATAGTCTGTTTGGCC-TT
1 TGTGGCATAATCTGCTAAGCCTATGTAGCATAGTCTGTTT-GCCTTT
42828037 TGTGG
1 TGTGG
42828042 TGCATTCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 41 0.95
47 2 0.05
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (46 bp):
TGTGGCATAATCTGCTAAGCCTATGTAGCATAGTCTGTTTGCCTTT
Found at i:42832501 original size:44 final size:45
Alignment explanation
Indices: 42832405--42832519 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 45
42832395 CCTCAATCTG
* * * *
42832405 TTCCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTCAGTCTA
1 TTCCACTGCAACTTCAGGGAAATAAGACTTGCTATCTACAGACTA
*
42832450 TTCCACTGCAACTTCAGGGAGATAAGACTTG-TATCTACA-ACT-
1 TTCCACTGCAACTTCAGGGAAATAAGACTTGCTATCTACAGACTA
* *
42832492 TGCTCCACTGCAACTTTAGGGATATAAG
1 T--TCCACTGCAACTTCAGGGAAATAAG
42832520 GTTAATGACT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
42 1 0.02
43 2 0.03
44 30 0.49
45 28 0.46
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
TTCCACTGCAACTTCAGGGAAATAAGACTTGCTATCTACAGACTA
Found at i:42844877 original size:20 final size:21
Alignment explanation
Indices: 42844827--42844878 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
42844817 ATTTTAAAAT
*
42844827 AAATAATATATAAGTCAATTTA
1 AAATGATATATAAG-CAATTTA
42844849 AAATGATATATAA-CAAGTTTA
1 AAATGATATATAAGCAA-TTTA
*
42844870 AGAT-ATATA
1 AAATGATATA
42844879 ATATGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 7 0.26
22 12 0.44
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (21 bp):
AAATGATATATAAGCAATTTA
Found at i:42855456 original size:46 final size:46
Alignment explanation
Indices: 42855200--42855559 Score: 191
Period size: 46 Copynumber: 7.6 Consensus size: 46
42855190 GTATAATGCT
* * *
42855200 GATGCCATGTCCCAGACATGGTCTTACACGGGC-T-CATCTATC-AAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC--TCGAGGCC
* **
42855247 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCGAAATCGAGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-C-ATCTCGAGGCC
* * * * * *
42855296 GACGCCATGTCCCAAACATGATCTTATACTAGCTCTCACATATCCG-TGCC
1 GATG-CATGTCCCAGACATG-TCTTACACTGGCT-T-ACATCT-CGAGGCC
* * *
42855346 GATGTCATGTCTCAGACATGGTGTTACACTGAC--ACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCC
* *** **
42855392 GATGGATGTCTTGGACATGTCTTACACTGGCTTACATCTCGAGGTT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCC
* * * * * *
42855438 GATGCATGTCCCAAACATGTTTTACACTAGCTTTCGA-CTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTAC-ATCTCGAGGCC
* * *
42855484 GATGCCATGTCCCAGACACGATCTTACACTGGCTTACATAAT-GTGGCC
1 GATG-CATGTCCCAGACATG-TCTTACACTGGCTTACAT-CTCGAGGCC
*
42855532 GATGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
42855560 ATCACACAAA
Statistics
Matches: 241, Mismatches: 52, Indels: 41
0.72 0.16 0.12
Matches are distributed among these distances:
44 11 0.05
45 14 0.06
46 66 0.27
47 60 0.25
48 23 0.10
49 31 0.13
50 30 0.12
51 5 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCC
Found at i:42869163 original size:20 final size:20
Alignment explanation
Indices: 42869140--42869183 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
42869130 GGACACGGGT
42869140 GTGTCCCAATGCACACGAGC
1 GTGTCCCAATGCACACGAGC
*
42869160 GTGTCCCAATGCACACGGGC
1 GTGTCCCAATGCACACGAGC
42869180 GTGT
1 GTGT
42869184 GCATGATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (20 bp):
GTGTCCCAATGCACACGAGC
Found at i:42873470 original size:49 final size:46
Alignment explanation
Indices: 42873351--42873567 Score: 120
Period size: 50 Copynumber: 4.6 Consensus size: 46
42873341 TAATGCCGAT
* * * * *
42873351 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAGACAT-GTCTTACACTGACTCATCAATCAAGCCAAC
* * *
42873398 GCCATGTCCCAAATATGTCCTTACACTGACT-ATCGAAATCGAGGCCAAC
1 GCCATGTCCCAGACATGT-CTTACACTGACTCATC--AATC-AAGCCAAC
* ** * *
42873447 GCCATGTCCCAGACATGATCTTACACTAGCTCTCA-CATATCCGTGCCGAT
1 GCCATGTCCCAGACATG-TCTTACACT-G-ACTCATCA-AT-CAAGCCAAC
* * * * * *
42873497 GCGATGTCCCAGACATGGTCTTACACTGACACATC--TCGTAGTCGAT
1 GCCATGTCCCAGACAT-GTCTTACACTGACTCATCAATC-AAGCCAAC
42873543 G-CATGTCCCAGACATGTCTTACACT
1 GCCATGTCCCAGACATGTCTTACACT
42873568 AGCTCTCGTC
Statistics
Matches: 135, Mismatches: 22, Indels: 29
0.73 0.12 0.16
Matches are distributed among these distances:
44 10 0.07
45 14 0.10
46 12 0.09
47 25 0.19
48 6 0.04
49 30 0.22
50 32 0.24
51 5 0.04
52 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (46 bp):
GCCATGTCCCAGACATGTCTTACACTGACTCATCAATCAAGCCAAC
Found at i:42873646 original size:94 final size:93
Alignment explanation
Indices: 42873347--42873664 Score: 319
Period size: 94 Copynumber: 3.4 Consensus size: 93
42873337 CGTATAATGC
* * *
42873347 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GTCGATGCCATGTCCCAAA
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTC-TCCATTAATGCCGATGCCATGTCCCAAA
* * *
42873411 TATGTCCTTACACTGACTATCGA-AATCGAGGC
64 CATGT-CTTACACTGACTA-C-ATAATCGTGGT
* * ** *
42873443 CAACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCCGTGCCGATGCGATGTCCCA
1 CGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTC-CAT-T-AATGCCGATGCCATGTCCCA
* * *
42873508 GACATGGTCTTACACTGAC-ACAT-CTCGTAGT
62 AACAT-GTCTTACACTGACTACATAATCGTGGT
42873539 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTC-TTAATGCCGATGCCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC--CATTAATGCCGATGCCATGTCCCAAA
*
42873602 CATGATCTTACACTGGCTTACATAAT-GTGGT
64 CATG-TCTTACACTGAC-TACATAATCGTGGT
42873633 CGATG-CATGTCCCAGACATGTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGC
42873665 ACACAAATAA
Statistics
Matches: 186, Mismatches: 24, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
91 1 0.01
92 32 0.17
93 1 0.01
94 57 0.31
95 20 0.11
96 42 0.23
97 1 0.01
98 1 0.01
99 29 0.16
100 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCCATTAATGCCGATGCCATGTCCCAAACA
TGTCTTACACTGACTACATAATCGTGGT
Found at i:42876849 original size:25 final size:25
Alignment explanation
Indices: 42876815--42876888 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 25
42876805 TCTTATACAT
42876815 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
* * * * *
42876840 GTATGATCACATGACCTATGAAAATGG
1 GTATGCTCACACGAGCTGTG--AATCG
*
42876867 GTTTGCTCACACGAGCTGTGAA
1 GTATGCTCACACGAGCTGTGAA
42876889 AATGAGCCTA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
25 18 0.49
27 19 0.51
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATCG
Found at i:42880535 original size:19 final size:19
Alignment explanation
Indices: 42880511--42880561 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
42880501 GACAAATCCC
42880511 AATAAATGATAAT-GCTTGA
1 AATAAATGATAATGGC-TGA
42880530 AATAAATGATAATGGCTGA
1 AATAAATGATAATGGCTGA
* *
42880549 AACAAAGGATAAT
1 AATAAATGATAAT
42880562 ACCCGATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.93
20 2 0.07
ACGTcount: A:0.51, C:0.06, G:0.18, T:0.25
Consensus pattern (19 bp):
AATAAATGATAATGGCTGA
Found at i:42893966 original size:29 final size:29
Alignment explanation
Indices: 42893824--42893963 Score: 142
Period size: 29 Copynumber: 4.9 Consensus size: 29
42893814 TACACACACA
*
42893824 CATATGGCCCACTT-GGCCC--ATCTCATT
1 CATATGGCCCA-TTAGGCCCAAATCACATT
*
42893851 CATATGGCCCATTAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* * * * *
42893880 CATATGGCCCATCATGCCCAATTCATATC
1 CATATGGCCCATTAGGCCCAAATCACATT
* * *
42893909 CATATGGCCTATTTGGCCCAAATCACCTT
1 CATATGGCCCATTAGGCCCAAATCACATT
* *
42893938 TATATGGCCCGTTAGGCCCAAATCAC
1 CATATGGCCCATTAGGCCCAAATCAC
42893964 CTTATATTCA
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
26 2 0.02
27 16 0.17
29 74 0.80
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:42894208 original size:16 final size:16
Alignment explanation
Indices: 42894197--42894240 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
42894187 ATTTTTTGGT
*
42894197 ATTTCGGCTTTTCGGC
1 ATTTCGGCTTTTAGGC
*
42894213 ATTTCGGCTTTTAAGC
1 ATTTCGGCTTTTAGGC
42894229 ATTTCGGCTTTT
1 ATTTCGGCTTTT
42894241 CAAATTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (16 bp):
ATTTCGGCTTTTAGGC
Found at i:42894211 original size:8 final size:8
Alignment explanation
Indices: 42894198--42894241 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
42894188 TTTTTTGGTA
42894198 TTTCGGCT
1 TTTCGGCT
*
42894206 TTTCGGCA
1 TTTCGGCT
42894214 TTTCGGCT
1 TTTCGGCT
** *
42894222 TTTAAGCA
1 TTTCGGCT
42894230 TTTCGGCT
1 TTTCGGCT
42894238 TTTC
1 TTTC
42894242 AAATTTTGTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.48
Consensus pattern (8 bp):
TTTCGGCT
Found at i:42898456 original size:29 final size:29
Alignment explanation
Indices: 42898417--42898533 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
42898407 TGGCACATCT
*
42898417 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
* * *
42898446 CATTCATATGGCTCATCATGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
* * *
42898475 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
* * * *
42898504 CCTTTATATGGCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
42898533 C
1 C
42898534 CTTATATTCA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAAATCA
Found at i:42900070 original size:16 final size:16
Alignment explanation
Indices: 42900046--42900077 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42900036 AAGTTCTGGA
42900046 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
42900062 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
42900078 GCGTTACAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:42900750 original size:20 final size:19
Alignment explanation
Indices: 42900724--42900775 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 19
42900714 AGCAATGAAT
42900724 CTGTTCACCAAGAGATACAA
1 CTGTTCA-CAAGAGATACAA
*
42900744 TTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
42900761 CTGTTCATCAAGAGA
1 CTGTTCA-CAAGAGA
42900776 CAGAACTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:42909893 original size:7 final size:7
Alignment explanation
Indices: 42909881--42909916 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
42909871 ATATATATGC
42909881 TAATAAA
1 TAATAAA
42909888 TAATAAA
1 TAATAAA
42909895 TAATAAAA
1 TAAT-AAA
*
42909903 TAATATA
1 TAATAAA
42909910 TAATAAA
1 TAATAAA
42909917 ATGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:42909959 original size:17 final size:15
Alignment explanation
Indices: 42909881--42909978 Score: 94
Period size: 17 Copynumber: 6.3 Consensus size: 15
42909871 ATATATATGC
*
42909881 TAAT-AAATAATAAA
1 TAATAAAATAATATA
42909895 TAATAAAATAATATA
1 TAATAAAATAATATA
*
42909910 TAATAAAATGAAGATA
1 TAATAAAAT-AATATA
*
42909926 -ATATAGAGAACAATATA
1 TA-ATA-A-AATAATATA
42909943 TAATAATATATAATATA
1 TAATAA-A-ATAATATA
42909960 TAATAAAAT-ATATA
1 TAATAAAATAATATA
42909974 TAATA
1 TAATA
42909979 TACAATGAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
14 14 0.20
15 21 0.30
16 11 0.15
17 22 0.31
18 3 0.04
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (15 bp):
TAATAAAATAATATA
Found at i:42909999 original size:21 final size:21
Alignment explanation
Indices: 42909953--42909992 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
42909943 TAATAATATA
*
42909953 TAATATATAATAAAATATATA
1 TAATATACAATAAAATATATA
*
42909974 TAATATACAATGAAATATA
1 TAATATACAATAAAATATA
42909993 AGTAATACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
TAATATACAATAAAATATATA
Found at i:42914674 original size:21 final size:21
Alignment explanation
Indices: 42914618--42914668 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
42914608 GTCATCTAAA
* *
42914618 AAAATTTA-AAATTAAAATATT
1 AAAATTTATAAA-AAAAATACT
42914639 AAAATTTATAAAAAAAATACT
1 AAAATTTATAAAAAAAATACT
42914660 AAAATTTAT
1 AAAATTTAT
42914669 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATTTATAAAAAAAATACT
Found at i:42916074 original size:24 final size:25
Alignment explanation
Indices: 42916042--42916088 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
42916032 CTAATTAAAT
*
42916042 TTTATAAATAATTAATATTTATAGC
1 TTTATAAATAATTAAAATTTATAGC
*
42916067 TTTA-AAATATTTAAAATTTATA
1 TTTATAAATAATTAAAATTTATA
42916089 TTTCATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTATAAATAATTAAAATTTATAGC
Found at i:42916090 original size:30 final size:30
Alignment explanation
Indices: 42916046--42916112 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
42916036 TTAAATTTTA
42916046 TAAATAATTAATATTT-ATAGCT-TTAAAATAT
1 TAAA-AATTAATATTTCATA--TATTAAAATAT
* *
42916077 TTAAAATTTATATTTCATATATTAAAATAT
1 TAAAAATTAATATTTCATATATTAAAATAT
42916107 TAAAAA
1 TAAAAA
42916113 CAAGTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 1 0.03
30 24 0.77
31 6 0.19
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (30 bp):
TAAAAATTAATATTTCATATATTAAAATAT
Found at i:42916181 original size:20 final size:21
Alignment explanation
Indices: 42916133--42916181 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 21
42916123 TAAATTTTTT
42916133 ATATT-CTT-ACTAAATTATA
1 ATATTACTTAACTAAATTATA
* *
42916152 ATAATA-TTAACTAATTTA-A
1 ATATTACTTAACTAAATTATA
42916171 ATATTACTTAA
1 ATATTACTTAA
42916182 ATACATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTACTTAACTAAATTATA
Found at i:42916321 original size:26 final size:27
Alignment explanation
Indices: 42916284--42916334 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
42916274 TAAACCAAAC
42916284 TTTTCAATAGCACTTCTCAAAAGTACT
1 TTTTCAATAGCACTTCTCAAAAGTACT
* *
42916311 TTTTCAA-AGCACTTTTCCAAAGTA
1 TTTTCAATAGCACTTCTCAAAAGTA
42916335 TTTCTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (27 bp):
TTTTCAATAGCACTTCTCAAAAGTACT
Found at i:42929481 original size:6 final size:6
Alignment explanation
Indices: 42929470--42929499 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
42929460 TACAACGGTC
*
42929470 ATGCAA ATGCAA ATACAA ATGCAA ATGCAA
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA
42929500 TGTATTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (6 bp):
ATGCAA
Found at i:42929889 original size:22 final size:21
Alignment explanation
Indices: 42929854--42929967 Score: 80
Period size: 19 Copynumber: 5.7 Consensus size: 21
42929844 AAAAGGTATC
* *
42929854 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
42929875 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
42929898 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
42929917 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
42929935 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
42929954 TGCATATCATATCT
1 TACAAATCATATCT
42929968 AAGATTGCAT
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
18 17 0.21
19 36 0.44
21 4 0.05
22 15 0.18
23 10 0.12
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:42929897 original size:23 final size:22
Alignment explanation
Indices: 42929854--42929911 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
42929844 AAAAGGTATC
* *
42929854 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
42929875 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
42929898 TGCATATCATATCT
1 TACAAATCATATCT
42929912 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:42929914 original size:19 final size:19
Alignment explanation
Indices: 42929890--42929982 Score: 179
Period size: 19 Copynumber: 4.9 Consensus size: 19
42929880 AATCATATCT
42929890 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
42929909 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
42929927 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
42929946 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
42929965 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
42929983 TGAAGATTAT
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
18 18 0.25
19 55 0.75
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:42929936 original size:37 final size:38
Alignment explanation
Indices: 42929883--42929982 Score: 179
Period size: 37 Copynumber: 2.7 Consensus size: 38
42929873 ATTACAAAAT
42929883 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
42929919 CA-ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
42929956 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTGCATATCAT
42929983 TGAAGATTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
35 3 0.05
36 3 0.05
37 31 0.51
38 24 0.39
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:42930002 original size:56 final size:56
Alignment explanation
Indices: 42929883--42929991 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 56
42929873 ATTACAAAAT
* *
42929883 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTGCAATCATATCGAAGATTA
42929937 CATATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCAT-T-GAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTGCA-ATCATATCGAAGATTA
42929992 TATTTCCATA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
54 6 0.12
55 7 0.14
56 32 0.64
57 5 0.10
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (56 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTGCAATCATATCGAAGATTA
Found at i:42930135 original size:19 final size:19
Alignment explanation
Indices: 42930100--42930136 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42930090 CTTGGACTTC
**
42930100 TTTTTTTTTGGGTTTATTA
1 TTTTTTTTTGGACTTATTA
42930119 TTTTTTTTTGGACTTATT
1 TTTTTTTTTGGACTTATT
42930137 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.14, T:0.73
Consensus pattern (19 bp):
TTTTTTTTTGGACTTATTA
Found at i:42931478 original size:16 final size:16
Alignment explanation
Indices: 42931457--42931488 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42931447 ACATATGACA
42931457 AAAAATGATAAAAAAT
1 AAAAATGATAAAAAAT
*
42931473 AAAAATTATAAAAAAT
1 AAAAATGATAAAAAAT
42931489 TATTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAAATGATAAAAAAT
Found at i:42931486 original size:10 final size:10
Alignment explanation
Indices: 42931473--42931583 Score: 77
Period size: 10 Copynumber: 11.4 Consensus size: 10
42931463 GATAAAAAAT
42931473 AAAAATTATA
1 AAAAATTATA
*
42931483 AAAAATTATT
1 AAAAATTATA
**
42931493 AAATTTTAATA
1 AAAAATT-ATA
42931504 AAAAA-T-T-
1 AAAAATTATA
* *
42931511 AAAATTTATT
1 AAAAATTATA
*
42931521 AAAAATTTTA
1 AAAAATTATA
*
42931531 AAAAATTTTA
1 AAAAATTATA
*
42931541 AAAAATTTTA
1 AAAAATTATA
**
42931551 AAATTTTAT-
1 AAAAATTATA
*
42931560 AAAAATAATA
1 AAAAATTATA
*
42931570 ATAAATTATA
1 AAAAATTATA
42931580 AAAA
1 AAAA
42931584 TATATAGAAC
Statistics
Matches: 77, Mismatches: 19, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
7 4 0.05
8 2 0.03
9 7 0.09
10 59 0.77
11 5 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAAATTATA
Found at i:42931522 original size:21 final size:20
Alignment explanation
Indices: 42931480--42931564 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 20
42931470 AATAAAAATT
42931480 ATAAAAAATTATTAAATTTTA
1 ATAAAAAATTA-TAAATTTTA
42931501 ATAAAAAATTA-AAA-TTTA
1 ATAAAAAATTATAAATTTTA
* * * *
42931519 TTAAAAATTTTAAAAAATTT-
1 ATAAAAA-ATTATAAATTTTA
*
42931539 -TAAAAAATTTTAAAATTTT-
1 ATAAAAAATTAT-AAATTTTA
42931558 ATAAAAA
1 ATAAAAA
42931565 TAATAATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
18 12 0.23
19 18 0.34
20 9 0.17
21 14 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAAAATTATAAATTTTA
Found at i:42931552 original size:39 final size:39
Alignment explanation
Indices: 42931493--42931583 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 39
42931483 AAAAATTATT
**
42931493 AAATTTTAATAAAAAATTAAAA-TTTATTAAAAATTTTAAA
1 AAATTTTAA-AAAAAATTAAAATTTTA-TAAAAATAATAAA
** *
42931533 AAATTTTAAAAAATTTTAAAATTTTATAAAAATAATAAT
1 AAATTTTAAAAAAAATTAAAATTTTATAAAAATAATAAA
*
42931572 AAATTATAAAAA
1 AAATTTTAAAAA
42931584 TATATAGAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 31 0.70
40 13 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (39 bp):
AAATTTTAAAAAAAATTAAAATTTTATAAAAATAATAAA
Found at i:42931565 original size:19 final size:19
Alignment explanation
Indices: 42931474--42931565 Score: 86
Period size: 18 Copynumber: 4.8 Consensus size: 19
42931464 ATAAAAAATA
*
42931474 AAAATTATA-AAAAATTATT
1 AAAATTTTATAAAAATT-TT
*
42931493 -AAATTTTAATAAAAA-ATT
1 AAAATTTT-ATAAAAATTTT
42931511 AAAA-TTTATTAAAAATTTT
1 AAAATTTTA-TAAAAATTTT
42931530 AAAAAATTTTA-AAAAATTTT
1 --AAAATTTTATAAAAATTTT
42931550 AAAATTTTATAAAAAT
1 AAAATTTTATAAAAAT
42931566 AATAATAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
17 1 0.02
18 26 0.43
19 12 0.20
20 14 0.23
21 4 0.07
22 4 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTTTATAAAAATTTT
Found at i:42931646 original size:19 final size:18
Alignment explanation
Indices: 42931624--42931681 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
42931614 TTTATTAAGT
42931624 TGTAAGAAAATTATAAAAA
1 TGTAA-AAAATTATAAAAA
*
42931643 TGTAAAGAAA-TATAAAAT
1 TGTAAA-AAATTATAAAAA
42931661 TCGTACAAAAATTATAAAAA
1 T-GTA-AAAAATTATAAAAA
42931681 T
1 T
42931682 TATCGTACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 9 0.27
19 14 0.42
20 10 0.30
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (18 bp):
TGTAAAAAATTATAAAAA
Found at i:42931652 original size:20 final size:21
Alignment explanation
Indices: 42931627--42931681 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
42931617 ATTAAGTTGT
42931627 AAGAAAATTATAAAAAT-GTA
1 AAGAAAATTATAAAAATCGTA
*
42931647 AAG-AAA-TATAAAATTCGTA
1 AAGAAAATTATAAAAATCGTA
*
42931666 CA-AAAATTATAAAAAT
1 AAGAAAATTATAAAAAT
42931682 TATCGTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 8 0.28
19 10 0.34
20 11 0.38
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (21 bp):
AAGAAAATTATAAAAATCGTA
Found at i:42931730 original size:21 final size:21
Alignment explanation
Indices: 42931701--42931745 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
42931691 AAAAGAATAA
*
42931701 TTTTATAATTTTTTTCTAATT
1 TTTTATAATTTTTTTATAATT
* *
42931722 TTTTTTAATTTTTTTATCATT
1 TTTTATAATTTTTTTATAATT
42931743 TTT
1 TTT
42931746 CATCACATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTATAATTTTTTTATAATT
Found at i:42931737 original size:9 final size:10
Alignment explanation
Indices: 42931701--42931736 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
42931691 AAAAGAATAA
*
42931701 TTTTATAATT
1 TTTTTTAATT
42931711 TTTTTCTAATT
1 TTTTT-TAATT
42931722 TTTTTTAATT
1 TTTTTTAATT
42931732 TTTTT
1 TTTTT
42931737 ATCATTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:42931743 original size:11 final size:11
Alignment explanation
Indices: 42931701--42931745 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
42931691 AAAAGAATAA
42931701 TTTTATAATTT
1 TTTTATAATTT
*
42931712 TTTTCTAATTT
1 TTTTATAATTT
42931723 TTTT-TAATTT
1 TTTTATAATTT
*
42931733 TTTTATCATTT
1 TTTTATAATTT
42931744 TT
1 TT
42931746 CATCACATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 10 0.32
11 21 0.68
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:42931924 original size:30 final size:29
Alignment explanation
Indices: 42931849--42931926 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
42931839 TTAAAGGACC
*
42931849 TTTTTTATGTTTTTTTTATGATTATTATAA
1 TTTTTTAT-ATTTTTTTATGATTATTATAA
** * *
42931879 AATTTTACAGTTTTTTTATGATTTTTATAA
1 TTTTTTATA-TTTTTTTATGATTATTATAA
42931909 TTTTTTATATATTTTTTA
1 TTTTTTATAT-TTTTTTA
42931927 CCATATGTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 1 0.03
30 37 0.97
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.68
Consensus pattern (29 bp):
TTTTTTATATTTTTTTATGATTATTATAA
Found at i:42938572 original size:46 final size:46
Alignment explanation
Indices: 42938512--42938627 Score: 196
Period size: 46 Copynumber: 2.5 Consensus size: 46
42938502 ATGGGGGTGT
* *
42938512 TAGGATATTATTATTAGATATTATTTTTTAGTAATTTGATTTCTAA
1 TAGGATATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
*
42938558 TAGGATATTTTTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
1 TAGGATATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
*
42938604 TAGGATAGTATTATTAGATATTAT
1 TAGGATATTATTATTAGATATTAT
42938628 AAATTCAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.52
Consensus pattern (46 bp):
TAGGATATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
Found at i:42942004 original size:13 final size:13
Alignment explanation
Indices: 42941986--42942012 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42941976 GGAAGATTTT
42941986 GGGATATTTTAGA
1 GGGATATTTTAGA
42941999 GGGATATTTTAGA
1 GGGATATTTTAGA
42942012 G
1 G
42942013 AATTGATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (13 bp):
GGGATATTTTAGA
Found at i:42942969 original size:133 final size:134
Alignment explanation
Indices: 42942701--42942970 Score: 282
Period size: 133 Copynumber: 2.0 Consensus size: 134
42942691 ACGACATGAT
* * * * *
42942701 AATTTTGTGGGGATTTTCTTGCATTGTAGGTTTAGTTCTTGAAGACCCTTGTATGTTTTTGACTC
1 AATTTTCTGGGGATTTTCTTGCATTGTAGGTTTAATTCATGAAGAACCTTGTATGTTTTCGACTC
** * * * * *
42942766 TCTGTTTGCATGTATATGGTGCATCTTGGGAACAATTTGTATCAAGACATGCCTTTGATTATTTA
66 TCTGAATGCATGCATATGGTGCATCTTGGAAACAATTTGTATCAAGACATGCATTTGATCAATTA
42942831 TTAA
131 TTAA
42942835 AATTTTCTAGGGG-TTTTCTTGCATTGTAGGTTTAATTCATGAA-AACCTTGCT-TGTTTTCGAC
1 AATTTTCT-GGGGATTTTCTTGCATTGTAGGTTTAATTCATGAAGAACCTTG-TATGTTTTCGAC
* * * * * * *
42942897 -CGTCTGAATGCATGCGTCTGGTGCATTTTGGAAACAATTATTGTGTCCAGACGT-CATTTTATC
64 TC-TCTGAATGCATGCATATGGTGCATCTTGGAAACAA-T-TTGTATCAAGACATGCATTTGATC
42942960 AATTA-TAA
126 AATTATTAA
42942968 AAT
1 AAT
42942971 CCTTGAAAGT
Statistics
Matches: 112, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
132 1 0.01
133 49 0.44
134 47 0.42
135 15 0.13
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (134 bp):
AATTTTCTGGGGATTTTCTTGCATTGTAGGTTTAATTCATGAAGAACCTTGTATGTTTTCGACTC
TCTGAATGCATGCATATGGTGCATCTTGGAAACAATTTGTATCAAGACATGCATTTGATCAATTA
TTAA
Found at i:42950169 original size:18 final size:18
Alignment explanation
Indices: 42950143--42950178 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
42950133 CAAGTTGGTT
*
42950143 CTCTCCATCTATTGCCAA
1 CTCTCCATCTACTGCCAA
*
42950161 CTCTGCATCTACTGCCAA
1 CTCTCCATCTACTGCCAA
42950179 TTAGTTTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.39, G:0.08, T:0.31
Consensus pattern (18 bp):
CTCTCCATCTACTGCCAA
Found at i:42950492 original size:3 final size:3
Alignment explanation
Indices: 42950484--42950508 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
42950474 GTGTGCATCT
42950484 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
42950509 GATCATCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:42961515 original size:13 final size:13
Alignment explanation
Indices: 42961497--42961523 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42961487 TAAGAAGCAC
42961497 GGTATCCTTTCTT
1 GGTATCCTTTCTT
42961510 GGTATCCTTTCTT
1 GGTATCCTTTCTT
42961523 G
1 G
42961524 TCTCTATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.22, G:0.19, T:0.52
Consensus pattern (13 bp):
GGTATCCTTTCTT
Found at i:42969157 original size:46 final size:46
Alignment explanation
Indices: 42969088--42969253 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
42969078 AACCCACCCC
*
42969088 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TCGGGACGTTCGCATCCA
* * *
42969134 TGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAG-TCGG--GAC--GTTCGCATCCA
* * * *
42969182 TCA-CGAACTCGGACTCAACTCAACGAGTTGGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTCGGGACGTTCGCATCCA
42969227 TAAGTGAACTCGGACTCAACTCAACGA
1 TAAGTGAACTCGGACTCAACTCAACGA
42969254 CTTCGGATGC
Statistics
Matches: 99, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 55 0.56
47 23 0.23
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTCGGGACGTTCGCATCCA
Found at i:42969252 original size:93 final size:93
Alignment explanation
Indices: 42969093--42969263 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
42969083 ACCCCTAAGT
* *
42969093 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
42969158 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGACTTCGGATGCCTAGTTACATCTCAC
* *
42969186 GAACTCGGACTCAACTCAACGAG-TTGGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCGGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42969250 ACGACTTCGGATGC
65 ACGACTTCGGATGC
42969264 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGACTTCGGATGCCTAGTTACATCTCAC
Found at i:42969279 original size:46 final size:44
Alignment explanation
Indices: 42969090--42969279 Score: 127
Period size: 46 Copynumber: 4.1 Consensus size: 44
42969080 CCCACCCCTA
* * * * * *
42969090 AGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-G
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CAACCATCT
42969136 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
42969183 CA-CGAACTCGGACTCAACTCAACGAGTTGGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
42969229 AGTGAACTCGGACTCAACTCAACGACTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
42969275 AGTGA
1 AGTGA
42969280 CATGTCACTT
Statistics
Matches: 113, Mismatches: 18, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 3 0.03
46 61 0.54
47 30 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:42973077 original size:48 final size:48
Alignment explanation
Indices: 42973006--42973285 Score: 425
Period size: 48 Copynumber: 5.8 Consensus size: 48
42972996 CATTAGGGTT
* *
42973006 ATATGAGATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATTG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
42973054 ATATGAGATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
42973102 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * *
42973150 ATATGAGATCCCATGTAAGACCATGTCTGAGACTTGACATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * *
42973198 ATAGGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGACATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* ** *
42973246 ATATGTGATTTCGTGTAAGACCATGTCTGGGACATGGCAT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
42973286 CGATATGAGA
Statistics
Matches: 209, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 209 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:42973153 original size:96 final size:96
Alignment explanation
Indices: 42973006--42973379 Score: 409
Period size: 96 Copynumber: 4.0 Consensus size: 96
42972996 CATTAGGGTT
* *
42973006 ATATGAGATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATTGATATGAGATCCTATGTA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCTATGTA
42973071 AGACCATATCTGGGACATGGCATTGGCATCG
66 AGACCATATCTGGGACATGGCATTGGCATCG
*
42973102 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCCATGTA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCTATGTA
* * * *
42973167 AGACCATGTCTGAGACTTGACATTGGCATCG
66 AGACCATATCTGGGACATGGCATTGGCATCG
* * * * * * *
42973198 ATAGGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGACATCGATATGTGAT-TTCGTGT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCT-ATGT
*
42973262 AAGACCATGTCTGGG--A---CA-TGGCATCG
65 AAGACCATATCTGGGACATGGCATTGGCATCG
* * *
42973288 ATATGAGA-CATCATGTAAGACCATAG-CTGGG-C-T---ATCGGAATCGATATGTGAGATACC-
1 ATATGAGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATA--TGAGAT-CCT
* *
42973345 ATGTAAGACCATATATGGGATATGGCATTGGCATC
61 ATGTAAGACCATATCTGGGACATGGCATTGGCATC
42973380 TTACTATGTG
Statistics
Matches: 236, Mismatches: 29, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
85 10 0.04
87 21 0.09
88 1 0.00
89 2 0.01
90 33 0.14
91 2 0.01
92 2 0.01
93 7 0.03
96 158 0.67
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (96 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCTATGTA
AGACCATATCTGGGACATGGCATTGGCATCG
Found at i:42973353 original size:45 final size:43
Alignment explanation
Indices: 42973053--42973357 Score: 137
Period size: 48 Copynumber: 6.6 Consensus size: 43
42973043 CATTGGCATT
*
42973053 GATATGAGATC-CTATGTAAGACCATA-TCTGGGACATGGCATTGGCATC
1 GATATGAGA-CACCATGTAAGACCATAGTCTGGGACATGG-A-----ATC
42973101 GATATGAGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATC
1 GATATGAGA-CACCATGTAAGACCATAGTCTGGGACATGG-A-----ATC
*
42973149 GATATGAGATC-CCATGTAAGACCAT-GTCTGAGACTTGACATTGGCATC
1 GATATGAGA-CACCATGTAAGACCATAGTCTG-G----GACA-TGGAATC
* *
42973197 GATAGGAGATC-CCATGTAAGACCATA-TCTGGGATATGGCATTGACATC
1 GATATGAGA-CACCATGTAAGACCATAGTCTGGG--A---CATGGA-ATC
* *** * *
42973245 GATATGTGATTTCGTGTAAGACCAT-GTCTGGGACATGGCATC
1 GATATGAGACACCATGTAAGACCATAGTCTGGGACATGGAATC
*
42973287 GATATGAGACATCATGTAAGACCATAG-CTGGG-CTATCGGAATC
1 GATATGAGACACCATGTAAGACCATAGTCTGGGAC-AT-GGAATC
*
42973330 GATATGTGAGATACCATGTAAGACCATA
1 GATA--TGAGACACCATGTAAGACCATA
42973358 TATGGGATAT
Statistics
Matches: 217, Mismatches: 19, Indels: 45
0.77 0.07 0.16
Matches are distributed among these distances:
41 1 0.00
42 31 0.14
43 15 0.07
45 21 0.10
46 1 0.00
47 3 0.01
48 137 0.63
49 1 0.00
53 4 0.02
54 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (43 bp):
GATATGAGACACCATGTAAGACCATAGTCTGGGACATGGAATC
Done.