Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 97 of 276
Found at i:30664752 original size:43 final size:43
Alignment explanation
Indices: 30664697--30664913 Score: 242
Period size: 43 Copynumber: 5.0 Consensus size: 43
30664687 ATATCGTACA
* * *
30664697 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCTCATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
* *
30664740 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCATAAACACATATAG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-ATAATCACATATCG
* * * * *
30664783 ATGCCTACATCCCAGATGTGGTATTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
*
30664826 ATGCCAACGTCCCAGACGTGGTCATACATATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
* * * **
30664869 ATTCCAAAGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
30664912 AT
1 AT
30664914 ATCACATATA
Statistics
Matches: 146, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
42 4 0.03
43 139 0.95
44 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
Found at i:30670034 original size:15 final size:15
Alignment explanation
Indices: 30670011--30670056 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
30670001 ATTATGATAT
30670011 TGTATCTTGGATTTC
1 TGTATCTTGGATTTC
*
30670026 TGTACCTTGGATTTC
1 TGTATCTTGGATTTC
*
30670041 TATATCTTGGATTTC
1 TGTATCTTGGATTTC
30670056 T
1 T
30670057 TTGTCCTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.52
Consensus pattern (15 bp):
TGTATCTTGGATTTC
Found at i:30670066 original size:15 final size:15
Alignment explanation
Indices: 30670013--30670076 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
30670003 TATGATATTG
* *
30670013 TATCTTGGATTTCTG
1 TATCCTGGATTTCTT
*
30670028 TA-CCTTGGATTTCTA
1 TATCC-TGGATTTCTT
*
30670043 TATCTTGGATTTCTT
1 TATCCTGGATTTCTT
* *
30670058 TGTCCTGGACTTCTT
1 TATCCTGGATTTCTT
30670073 TATC
1 TATC
30670077 TCGATTTTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
14 1 0.03
15 37 0.95
16 1 0.03
ACGTcount: A:0.14, C:0.19, G:0.16, T:0.52
Consensus pattern (15 bp):
TATCCTGGATTTCTT
Found at i:30670077 original size:30 final size:30
Alignment explanation
Indices: 30670013--30670077 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
30670003 TATGATATTG
*
30670013 TATCTTGGATTTCTGTACCTTGGATTTCTA
1 TATCTTGGATTTCTGTACCTTGGACTTCTA
*
30670043 TATCTTGGATTTCTTTGT-CC-TGGACTTCTT
1 TATCTTGGATTTC--TGTACCTTGGACTTCTA
30670073 TATCT
1 TATCT
30670078 CGATTTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 26 0.84
31 2 0.06
32 3 0.10
ACGTcount: A:0.14, C:0.18, G:0.15, T:0.52
Consensus pattern (30 bp):
TATCTTGGATTTCTGTACCTTGGACTTCTA
Found at i:30673568 original size:6 final size:6
Alignment explanation
Indices: 30673557--30673590 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
30673547 ATGAATAAAC
*
30673557 TTATGT TTATGT TTATGT TTATGA TTATGT TTAT
1 TTATGT TTATGT TTATGT TTATGT TTATGT TTAT
30673591 TATGCCATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (6 bp):
TTATGT
Found at i:30683866 original size:27 final size:27
Alignment explanation
Indices: 30683836--30683911 Score: 86
Period size: 26 Copynumber: 2.9 Consensus size: 27
30683826 TAAGAATAGT
* *
30683836 GAAATTACTTGA-ATACCCCTATGTATA
1 GAAATTAC-TGATATACCCCTAGGTACA
30683863 GAAATTACTGATATACCCCTAGGTACA
1 GAAATTACTGATATACCCCTAGGTACA
*
30683890 -AAATTAC-CATTATACCCCTAGG
1 GAAATTACTGA-TATACCCCTAGG
30683912 GTTACTTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
25 1 0.02
26 22 0.50
27 21 0.48
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (27 bp):
GAAATTACTGATATACCCCTAGGTACA
Found at i:30684056 original size:27 final size:26
Alignment explanation
Indices: 30684014--30684107 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
30684004 GAGGAAACGT
30684014 TCTGGTGGCTAC-GCCACAATTATCTGA
1 TCTGGTGGCT-CTGCCAC-ATTATCTGA
*
30684041 TCTGGTGGCTCTGCCACATGTATCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGA
30684068 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTG-A
*
30684096 TCTGGTGACTCT
1 TCTGGTGGCTCT
30684108 ATCACACTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
26 3 0.05
27 44 0.73
28 13 0.22
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGA
Found at i:30684118 original size:27 final size:27
Alignment explanation
Indices: 30684014--30684119 Score: 101
Period size: 27 Copynumber: 3.9 Consensus size: 27
30684004 GAGGAAACGT
*
30684014 TCTGGTGGCTAC-GCCACAATTATCTG-A
1 TCTGGTGGCT-CTGCCAC-ACTATCTGTA
*
30684041 TCTGGTGGCTCTGCCACATGTATCTGT-
1 TCTGGTGGCTCTGCCACA-CTATCTGTA
*
30684068 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ACTATCTGTA
* **
30684096 TCTGGTGACTCTATCACACTATCT
1 TCTGGTGGCTCTGCCACACTATCT
30684120 ATTCTGGCAG
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.03
27 51 0.75
28 15 0.22
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACACTATCTGTA
Found at i:30684119 original size:54 final size:54
Alignment explanation
Indices: 30684012--30684126 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
30684002 TGGAGGAAAC
* * *
30684012 GTTCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATGTATCT
1 GTTCTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTACCACATCTATCT
* *
30684066 GTTCTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTATCACA-CTATCT
1 GTTCTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTACCACATCTATCT
*
30684120 ATTCTGG
1 GTTCTGG
30684127 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 1 0.02
54 36 0.68
55 16 0.30
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (54 bp):
GTTCTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTACCACATCTATCT
Found at i:30686632 original size:28 final size:27
Alignment explanation
Indices: 30686592--30686646 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
30686582 CGCGACGACT
30686592 GCTACTGAGATCTCTTCCGATGTCCTA
1 GCTACTGAGATCTCTTCCGATGTCCTA
*
30686619 NGCTACTGAGATCTCTTCTGATGTCCTA
1 -GCTACTGAGATCTCTTCCGATGTCCTA
30686647 CAATTGATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.35
Consensus pattern (27 bp):
GCTACTGAGATCTCTTCCGATGTCCTA
Found at i:30696372 original size:27 final size:26
Alignment explanation
Indices: 30696342--30696448 Score: 99
Period size: 28 Copynumber: 3.9 Consensus size: 26
30696332 GATTCAAAAG
* *
30696342 TATATATTAAGTCCGCACACTCAGTGC
1 TATATATCAA-TCCGCACACTTAGTGC
30696369 TATATAATCAA-CTCGCACACTTAGTGC
1 TATAT-ATCAATC-CGCACACTTAGTGC
* *
30696396 TATGTACTCAAACTCGCACACTTAGTGC
1 TATATA-TCAATC-CGCACACTTAGTGC
*
30696424 TATATAATCAAACCCGCACACTTAG
1 TATAT-ATC-AATCCGCACACTTAG
30696449 CGCCAATCTC
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
26 2 0.03
27 26 0.38
28 37 0.54
29 4 0.06
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (26 bp):
TATATATCAATCCGCACACTTAGTGC
Found at i:30696417 original size:28 final size:28
Alignment explanation
Indices: 30696355--30696448 Score: 145
Period size: 28 Copynumber: 3.4 Consensus size: 28
30696345 ATATTAAGTC
*
30696355 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
30696382 CGCACACTTAGTGCTATGTACTCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
30696410 CGCACACTTAGTGCTATATAATCAAACC
1 CGCACACTTAGTGCTATATAATCAAACT
30696438 CGCACACTTAG
1 CGCACACTTAG
30696449 CGCCAATCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 20 0.33
28 40 0.67
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30699822 original size:24 final size:25
Alignment explanation
Indices: 30699789--30699841 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 25
30699779 CTATTAGAAT
30699789 AAATCCTATCTCAATTTCATCCATC
1 AAATCCTATCTCAATTTCATCCATC
30699814 AAAT-CTATCTCAATTTCATCCATC
1 AAATCCTATCTCAATTTCATCCATC
30699838 AAAT
1 AAAT
30699842 AAATAGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATCCTATCTCAATTTCATCCATC
Found at i:30700718 original size:23 final size:23
Alignment explanation
Indices: 30700692--30700735 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
30700682 TGGGCATTTG
*
30700692 ATACCTTTAACAATTAGAATTCA
1 ATACATTTAACAATTAGAATTCA
30700715 ATACATTTAACAATTAGAATT
1 ATACATTTAACAATTAGAATT
30700736 TAACTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (23 bp):
ATACATTTAACAATTAGAATTCA
Found at i:30702737 original size:35 final size:35
Alignment explanation
Indices: 30702651--30702738 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 35
30702641 ATAGCTCAAT
* * ** *
30702651 TTCAATAT-AACATCGCATATGGCCAAATATGCACA
1 TTCAATATAAAC-TCACATATGACCAAATACACAAA
* **
30702686 TTCAAAATAATTTCACATATGACCAAATACACAAA
1 TTCAATATAAACTCACATATGACCAAATACACAAA
30702721 TTCAATATAAACTCACAT
1 TTCAATATAAACTCACAT
30702739 GTAATCTAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
35 40 0.98
36 1 0.02
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (35 bp):
TTCAATATAAACTCACATATGACCAAATACACAAA
Found at i:30702936 original size:39 final size:42
Alignment explanation
Indices: 30702893--30702987 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
30702883 CGGTATAAAA
*
30702893 CCTGCTAGGCATAA-GCCTGA-A-TTACTCACCAGCACAAAG
1 CCTGCTAGGCACAAGGCCTGATATTTACTCACCAGCACAAAG
* * * * * *
30702932 CCTGCTAGACCCAAGGTCTGATATTTATTCACCGGCACTAAG
1 CCTGCTAGGCACAAGGCCTGATATTTACTCACCAGCACAAAG
30702974 CCTGCTAGGCACAA
1 CCTGCTAGGCACAA
30702988 AGCCCGATCA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
39 11 0.25
40 5 0.11
41 1 0.02
42 27 0.61
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (42 bp):
CCTGCTAGGCACAAGGCCTGATATTTACTCACCAGCACAAAG
Found at i:30706102 original size:48 final size:48
Alignment explanation
Indices: 30706045--30706269 Score: 192
Period size: 48 Copynumber: 4.8 Consensus size: 48
30706035 ATGGTAAGAC
* * * * *
30706045 GCCAATGCCATATCTCGGATATGGTCTTACATGGGATCACATATCGAT
1 GCCAATGCCATGTCCCAGACATGGTCATACATGGGATCACATATCGAT
* *** **
30706093 GCCAATGCCATGTCCCAGACATGGTCCTACATGGGATTGTAGGTCGAT
1 GCCAATGCCATGTCCCAGACATGGTCATACATGGGATCACATATCGAT
* *
30706141 GCCAACGCCATGTCCCAGACATGGTCATGCATGGGATCACATATCGAT
1 GCCAATGCCATGTCCCAGACATGGTCATACATGGGATCACATATCGAT
* * * ** *
30706189 GCCGAT---A-G-CCCAG-CTATGGTCTTACACGAAATTACATATCGAT
1 GCCAATGCCATGTCCCAGAC-ATGGTCATACATGGGATCACATATCGAT
* * **
30706232 GCCAAAGCCATGTCCCAAACATGGTTTTACATGGGATC
1 GCCAATGCCATGTCCCAGACATGGTCATACATGGGATC
30706270 GTACATAACC
Statistics
Matches: 136, Mismatches: 34, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
42 1 0.01
43 31 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 99 0.73
49 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (48 bp):
GCCAATGCCATGTCCCAGACATGGTCATACATGGGATCACATATCGAT
Found at i:30709831 original size:27 final size:27
Alignment explanation
Indices: 30709783--30709858 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
30709773 TAGTCTGAGC
30709783 CAGTCA-TTTACCC-ACAAGGGTAAAA
1 CAGTCATTTTACCCTACAAGGGTAAAA
**
30709808 CAGTCATTTTACCCTACAAGGGT-ATT
1 CAGTCATTTTACCCTACAAGGGTAAAA
* *
30709834 CTAGTAATTTTACACTACAAGGGTA
1 C-AGTCATTTTACCCTACAAGGGTA
30709859 TTTCGATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
25 6 0.14
26 9 0.21
27 28 0.65
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (27 bp):
CAGTCATTTTACCCTACAAGGGTAAAA
Found at i:30709859 original size:27 final size:27
Alignment explanation
Indices: 30709813--30709874 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
30709803 TAAAACAGTC
*
30709813 ATTTTACCCTACAAGGGTATTCTAG-TA
1 ATTTTACACTACAAGGGTATT-TAGATA
*
30709840 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTAGATA
30709867 ATTTTACA
1 ATTTTACA
30709875 AATTGGGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTAGATA
Found at i:30709884 original size:27 final size:27
Alignment explanation
Indices: 30709854--30710039 Score: 155
Period size: 27 Copynumber: 6.9 Consensus size: 27
30709844 TACACTACAA
30709854 GGGTATTTCGATAATTTTACAAATTGG
1 GGGTATTTCGATAATTTTACAAATTGG
* * * *
30709881 GGGTATTTTGGTAATTTTATAATTTGG
1 GGGTATTTCGATAATTTTACAAATTGG
* * *
30709908 GGGTATTTTGGGA-AATTTTATAAACT-G
1 GGGTA-TTT-CGATAATTTTACAAATTGG
** *
30709935 GGGTATTTC-AGTAATTTTACAAACCGA
1 GGGTATTTCGA-TAATTTTACAAATTGG
**
30709962 GGGTATTTCGATAATTTTAC-AATTCAA
1 GGGTATTTCGATAATTTTACAAATT-GG
* * * *
30709989 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGATAATTTTACAAATTGG
*
30710016 GGGTATTTCGGTAATTTTACAAAT
1 GGGTATTTCGATAATTTTACAAAT
30710040 CAATGTCTTA
Statistics
Matches: 130, Mismatches: 21, Indels: 16
0.78 0.13 0.10
Matches are distributed among these distances:
24 1 0.01
26 16 0.12
27 94 0.72
28 18 0.14
29 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATTGG
Found at i:30709885 original size:54 final size:52
Alignment explanation
Indices: 30709827--30710039 Score: 178
Period size: 54 Copynumber: 4.0 Consensus size: 52
30709817 TACCCTACAA
* *
30709827 GGGTATTCTAGTAATTTTACACTACAAGGGTATTTCGATAATTTTACAAATTGG
1 GGGTATTTTAGTAATTTTACA-AACAAGGGTATTTCGATAATTTTACAAATT-G
* * **** * * *
30709881 GGGTATTTTGGTAATTTTATAATTTGGGGGTATTTTGGGA-AATTTTATAAACTG
1 GGGTATTTTAGTAATTTTACAA-ACAAGGGTA-TTT-CGATAATTTTACAAATTG
* * *
30709935 GGGTATTTCAGTAATTTTACAAACCGAGGGTATTTCGATAATTTTAC-AATTCAA
1 GGGTATTTTAGTAATTTTACAAA-CAAGGGTATTTCGATAATTTTACAAATT--G
* * *
30709989 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAAT
1 GGGTATTTTAGTAATTTTACAAAC-AAGGGTATTTCGATAATTTTACAAAT
30710040 CAATGTCTTA
Statistics
Matches: 124, Mismatches: 26, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
52 5 0.04
53 11 0.09
54 89 0.72
55 17 0.14
56 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (52 bp):
GGGTATTTTAGTAATTTTACAAACAAGGGTATTTCGATAATTTTACAAATTG
Found at i:30709939 original size:81 final size:81
Alignment explanation
Indices: 30709854--30710040 Score: 234
Period size: 81 Copynumber: 2.3 Consensus size: 81
30709844 TACACTACAA
* * * * * ***
30709854 GGGTATTTCGATAATTTTACAAATTGGGGGTATTTTGGTAATTTTATAATTTGGGGGTATTTTGG
1 GGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATTCAAGGGTATTTT-G
*
30709919 GAAATTTTATAAACT-G
65 GAAATTTTACAAACTAG
*
30709935 GGGTATTTC-AGTAATTTTACAAACCGAGGGTATTTCGATAATTTTACAATTCAAGGGTATTTTG
1 GGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATTCAAGGGTATTTTG
*
30709999 GTAATTTTACAAACTAG
65 GAAATTTTACAAACTAG
*
30710016 GGGTATTTCGGTAATTTTACAAATC
1 GGGTATTTCGATAATTTTACAAATC
30710041 AATGTCTTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
80 15 0.17
81 75 0.83
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATTCAAGGGTATTTTGG
AAATTTTACAAACTAG
Found at i:30710019 original size:108 final size:108
Alignment explanation
Indices: 30709827--30710023 Score: 274
Period size: 108 Copynumber: 1.8 Consensus size: 108
30709817 TACCCTACAA
* **
30709827 GGGTATTCTAGTAATTTTACACTACAAGGGTATTTCGATAATTTTACAAATTGGGGGTATTTTGG
1 GGGTATTCTAGTAATTTTACACAACAAGGGTATTTCGATAATTTTACAAATTAAGGGTATTTTGG
* ** *
30709892 TAATTTTATAATTTGGGGGTATTTTGGGAAATTTTATAAACTG
66 TAATTTTACAAACTAGGGGTATTTTGGGAAATTTTATAAACTG
*
30709935 GGGTATT-TCAGTAATTTTACA-AACCGAGGGTATTTCGATAATTTTAC-AATTCAAGGGTATTT
1 GGGTATTCT-AGTAATTTTACACAA-CAAGGGTATTTCGATAATTTTACAAATT-AAGGGTATTT
30709997 TGGTAATTTTACAAACTAGGGGTATTT
63 TGGTAATTTTACAAACTAGGGGTATTT
30710024 CGGTAATTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
107 6 0.08
108 72 0.92
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (108 bp):
GGGTATTCTAGTAATTTTACACAACAAGGGTATTTCGATAATTTTACAAATTAAGGGTATTTTGG
TAATTTTACAAACTAGGGGTATTTTGGGAAATTTTATAAACTG
Found at i:30713824 original size:22 final size:22
Alignment explanation
Indices: 30713796--30713859 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
30713786 TAAATACGTT
* *
30713796 TGGCACAAAGCCATAGTCAGGA
1 TGGCACAGAGCCATAATCAGGA
** * *
30713818 TGGCACAGAGCCATTTTTAGGT
1 TGGCACAGAGCCATAATCAGGA
30713840 TGGCACAGAGCCATAATCAG
1 TGGCACAGAGCCATAATCAG
30713860 ATTACGTGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (22 bp):
TGGCACAGAGCCATAATCAGGA
Found at i:30714246 original size:27 final size:26
Alignment explanation
Indices: 30714213--30714488 Score: 254
Period size: 27 Copynumber: 10.4 Consensus size: 26
30714203 CAAAATAGTC
* *
30714213 ATTTTACCATACAGGGGTATTTCGGTA
1 ATTTTA-CAAACAGGGGTATTTCGATA
*
30714240 ATTTTAC--ACAAGGGTATTTC-AGTA
1 ATTTTACAAACAGGGGTATTTCGA-TA
**
30714264 ATTTTACAAATTGGGGGTATTTCGATA
1 ATTTTACAAA-CAGGGGTATTTCGATA
*** * *
30714291 ATTTTACAATTTGGGGTATTTTGGGTA
1 ATTTTACAAACAGGGGTA-TTTCGATA
* *
30714318 ATTTTACAAACTGGGGTATTTCAATA
1 ATTTTACAAACAGGGGTATTTCGATA
* *
30714344 ATTTTACAAACCGAGGGTATTTTGATA
1 ATTTTACAAACAG-GGGTATTTCGATA
* *
30714371 ATTTTACAACCCGAGGGTATTTCGATA
1 ATTTTACAAACAG-GGGTATTTCGATA
30714398 ATTTTACAAATCAGGGGTATTTCGATA
1 ATTTTACAAA-CAGGGGTATTTCGATA
* * *
30714425 ATTTTACAATTC-GAGGGTATTTTGGTA
1 ATTTTACAA-ACAG-GGGTATTTCGATA
*
30714452 ATTTTACAAACTAGGGGTATTTCGGTA
1 ATTTTACAAAC-AGGGGTATTTCGATA
30714479 ATTTTACAAA
1 ATTTTACAAA
30714489 TTGGAGTCTT
Statistics
Matches: 211, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
24 21 0.10
26 28 0.13
27 158 0.75
28 4 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTTACAAACAGGGGTATTTCGATA
Found at i:30714489 original size:81 final size:78
Alignment explanation
Indices: 30714225--30714488 Score: 318
Period size: 81 Copynumber: 3.3 Consensus size: 78
30714215 TTTACCATAC
* * *
30714225 AGGGGTATTTCGGTAATTTTAC--ACAAGGGTATTTCAGTAATTTTACAAATT-GGGGGTATTTC
1 AGGGGTATTTCGGTAATTTTACAAACAGGGGTATTTCA-TAATTTTAC-AATTCGAGGGTATTTT
*
30714287 GATAATTTTACAATT
64 GATAATTTTACAACT
* * * **
30714302 TGGGGTATTTTGGGTAATTTTACAAACTGGGGTATTTCAATAATTTTACAAACCGAGGGTATTTT
1 AGGGGTA-TTTCGGTAATTTTACAAACAGGGGTATTTC-ATAATTTTACAATTCGAGGGTATTTT
*
30714367 GATAATTTTACAACC
64 GATAATTTTACAACT
* *
30714382 CGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTCGATAATTTTACAATTCGAGGGTATTT
1 AG-GGGTATTTCGGTAATTTTACAAA-CAGGGGTATTTC-ATAATTTTACAATTCGAGGGTATTT
*
30714447 TGGTAATTTTACAAACT
63 TGATAATTTTAC-AACT
30714464 AGGGGTATTTCGGTAATTTTACAAA
1 AGGGGTATTTCGGTAATTTTACAAA
30714489 TTGGAGTCTT
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
77 6 0.04
78 14 0.09
79 2 0.01
80 59 0.37
81 73 0.46
82 4 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (78 bp):
AGGGGTATTTCGGTAATTTTACAAACAGGGGTATTTCATAATTTTACAATTCGAGGGTATTTTGA
TAATTTTACAACT
Found at i:30714870 original size:239 final size:238
Alignment explanation
Indices: 30714452--30714934 Score: 754
Period size: 239 Copynumber: 2.0 Consensus size: 238
30714442 TATTTTGGTA
*** *
30714452 ATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAATTGGAGTCTTAAAGACCTAACAAAAGGT
1 ATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAACAAGAGTCTTAAAGACCCAACAAAAGGT
30714517 CCACCGTCACCTCAACAACTTAAGTAACCTAAACAAACATAACGATGCAAGTGGGCCTAAGGCTT
66 CCACCGTCACCTCAACAACTTAAGTAACCTAAACAAACATAACGATGCAAGTGGGCCTAAGGCTT
*
30714582 ATTACTCAGCCCAAGTGGGCCCAGACGCTCGTGTGGCCCATTTAGCCTAAATTTAGATATGGCTA
131 ATTACTCAGCCCAAGTGGGCCCAGACGCTCGTGTGGCCCATTTAGCCTAAATTTAGATACGGCTA
*
30714647 TGTGTACACCATAG-CCTAGTTAATTAATAGCCACTTATCATAG
196 TGTGGACACCATAGTCC-AGTTAATTAATAGCCACTTATCATAG
*
30714690 ATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAACCAAG-GTCTTAAAGACCCAACAGAAGG
1 ATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAA-CAAGAGTCTTAAAGACCCAACAAAAGG
* * * * *
30714754 TCCACCGTCACCTCGAGCGACTTAAGTGACCTAAACAGACATAACGGTGCAAGTGGGCCTAAGGC
65 TCCACCGTCACCTC-AACAACTTAAGTAACCTAAACAAACATAACGATGCAAGTGGGCCTAAGGC
*
30714819 TTATTACTCGGCCCAAGTGGGCCCAGACGCTCGTGTGGCCCATTTAGCCTAAATTTAGATACGGC
129 TTATTACTCAGCCCAAGTGGGCCCAGACGCTCGTGTGGCCCATTTAGCCTAAATTTAGATACGGC
* * * * * *
30714884 TATGTGGACACTATAGTCCGGTTCATTAATAGTCACTTCTCGTAG
194 TATGTGGACACCATAGTCCAGTTAATTAATAGCCACTTATCATAG
30714929 ATTTTA
1 ATTTTA
30714935 TCTGTGTGGG
Statistics
Matches: 223, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
238 71 0.32
239 150 0.67
240 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (238 bp):
ATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAACAAGAGTCTTAAAGACCCAACAAAAGGT
CCACCGTCACCTCAACAACTTAAGTAACCTAAACAAACATAACGATGCAAGTGGGCCTAAGGCTT
ATTACTCAGCCCAAGTGGGCCCAGACGCTCGTGTGGCCCATTTAGCCTAAATTTAGATACGGCTA
TGTGGACACCATAGTCCAGTTAATTAATAGCCACTTATCATAG
Found at i:30717516 original size:21 final size:22
Alignment explanation
Indices: 30717476--30717516 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
30717466 TTCCAAATAA
* *
30717476 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
30717498 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
30717517 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:30718762 original size:15 final size:16
Alignment explanation
Indices: 30718735--30718764 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30718725 AGATATTCTA
30718735 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
30718751 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
30718765 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:30722149 original size:5 final size:5
Alignment explanation
Indices: 30722139--30722175 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
30722129 TTGTGTGTTC
*
30722139 TTTAT TTTA- TTCAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
30722176 TCACAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:30726607 original size:5 final size:5
Alignment explanation
Indices: 30726597--30726628 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
30726587 TTGTGTGTTC
30726597 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
30726629 TCACATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:30726611 original size:9 final size:9
Alignment explanation
Indices: 30726597--30726627 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
30726587 TTGTGTGTTC
30726597 TTTATTTTA
1 TTTATTTTA
30726606 TTTATTTTA
1 TTTATTTTA
30726615 TTTTATTTTA
1 -TTTATTTTA
30726625 TTT
1 TTT
30726628 TTCACATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:30728013 original size:45 final size:45
Alignment explanation
Indices: 30727920--30728078 Score: 191
Period size: 45 Copynumber: 3.6 Consensus size: 45
30727910 CTGGCGTTTC
* * * *
30727920 ACCTGCTAGGCTCGAA-GCCCG-ATA-TCATTTCACCAACCTTATA
1 ACCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCAGCATTATA
* *
30727963 GCCTGCTAGGCTCGAAA-GCCAGAATAGTATCTCACCAGCATTATA
1 ACCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCAGCATTATA
* *
30728008 ACCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGTATTATA
1 ACCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATTATA
*
30728053 GCCTGCTAGGCTCAAAGGCCCGAATA
1 ACCTGCTAGGCTCAAAGGCCCGAATA
30728079 ATACTGTGCG
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
43 12 0.12
44 9 0.09
45 79 0.78
46 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
ACCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATTATA
Found at i:30728936 original size:47 final size:47
Alignment explanation
Indices: 30728884--30728979 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
30728874 AAAATTTTCT
*
30728884 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
30728931 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
30728978 TT
1 TT
30728980 TAAATTCAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.29
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:30729381 original size:317 final size:314
Alignment explanation
Indices: 30728962--30729592 Score: 1145
Period size: 317 Copynumber: 2.0 Consensus size: 314
30728952 AAATATTAAG
30728962 AGCAAATTTAACAAGCTTTAAATTCAACTTATTTGAGCATAACTCAACAAGGCATCCACACTAAT
1 AGCAAATTTAACAAGCTTTAAATTCAACTTATTTGAGCATAACTCAACAAGGCATCCACACTAAT
* *
30729027 TTATTATCCAAGCAACCATAGCCGAATACATATATTCTTTCATTCATTCTTAACAAAATTCTATC
66 TTATTATCCAAACAACCATAGCCGAATACACATATTCTTTCATTCATTCTTAACAAAATTCTATC
*
30729092 AAGCTTAAATCTCCATTTCATCGTTTTAAAACGCAACATTACTCAATGTTATCTAAATTCACATT
131 AAGCTTAAATCTCCATTTCATCATTTTAAAACGCAACATTACTCAATGTTATCTAAATTCACATT
* * *
30729157 CGGCAACTACACATACGCATAAGCCGATTTCATCTTCTTATCTAATGCACCTATATGAACATTTA
196 CGGCAACTACACATACACACAAGCCGATTTCACCTTCTTATCTAATGCACCTATATGAACATTTA
30729222 GCTAGCTCAAACTTCACTCATCCACAATTACTCATTAAAACATGAAGACAACAT
261 GCTAGCTCAAACTTCACTCATCCACAATTACTCATTAAAACATGAAGACAACAT
30729276 AGCAAATTTAACAAGCTTTAAATTCAACTTATAATTTGAGCATAACTCAACAAGGCATCCACACT
1 AGCAAATTTAACAAGCTTTAAATTCAAC-T-T-ATTTGAGCATAACTCAACAAGGCATCCACACT
*
30729341 AATTTATTATCCAAACTACCATAGCCGAATACACATATTCTTTCATTCATTCTTAACAAAATTCT
63 AATTTATTATCCAAACAACCATAGCCGAATACACATATTCTTTCATTCATTCTTAACAAAATTCT
30729406 ATCAAGCTTAAATCTCCATTTCATCATTTTAAAACGCAACATTACTCAATGTTATCTAAATTCAC
128 ATCAAGCTTAAATCTCCATTTCATCATTTTAAAACGCAACATTACTCAATGTTATCTAAATTCAC
* * *
30729471 TTTCTGCAACTACACATACACACAAGCTGATTTCACCTTCTTATCTAATGCACCTATATGAACAT
193 ATTCGGCAACTACACATACACACAAGCCGATTTCACCTTCTTATCTAATGCACCTATATGAACAT
30729536 TTAGCTAGCTCAAACTTCACTCATCCACAATTACTCATTAAAACATGAAGACAACAT
258 TTAGCTAGCTCAAACTTCACTCATCCACAATTACTCATTAAAACATGAAGACAACAT
30729593 CCATTCCCTT
Statistics
Matches: 304, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
314 28 0.09
315 1 0.00
316 1 0.00
317 274 0.90
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (314 bp):
AGCAAATTTAACAAGCTTTAAATTCAACTTATTTGAGCATAACTCAACAAGGCATCCACACTAAT
TTATTATCCAAACAACCATAGCCGAATACACATATTCTTTCATTCATTCTTAACAAAATTCTATC
AAGCTTAAATCTCCATTTCATCATTTTAAAACGCAACATTACTCAATGTTATCTAAATTCACATT
CGGCAACTACACATACACACAAGCCGATTTCACCTTCTTATCTAATGCACCTATATGAACATTTA
GCTAGCTCAAACTTCACTCATCCACAATTACTCATTAAAACATGAAGACAACAT
Found at i:30729748 original size:91 final size:91
Alignment explanation
Indices: 30729593--30729774 Score: 337
Period size: 91 Copynumber: 2.0 Consensus size: 91
30729583 AAGACAACAT
30729593 CCATTCCCTTCAAATTCTTCCATAGCCGATTACTCATATCACCACACAATTCAAAATTTTGACAT
1 CCATTCCCTTCAAATTCTTCCATAGCCGATTACTCATATCACCACACAATTCAAAATTTTGACAT
30729658 GGGCTAAGTAAGGGACTTAGTAACTA
66 GGGCTAAGTAAGGGACTTAGTAACTA
** *
30729684 CCATTCCCTTCAAATTCTTCGTTAGTCGATTACTCATATCACCACACAATTCAAAATTTTGACAT
1 CCATTCCCTTCAAATTCTTCCATAGCCGATTACTCATATCACCACACAATTCAAAATTTTGACAT
30729749 GGGCTAAGTAAGGGACTTAGTAACTA
66 GGGCTAAGTAAGGGACTTAGTAACTA
30729775 GCTTAAATTA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (91 bp):
CCATTCCCTTCAAATTCTTCCATAGCCGATTACTCATATCACCACACAATTCAAAATTTTGACAT
GGGCTAAGTAAGGGACTTAGTAACTA
Found at i:30730192 original size:133 final size:133
Alignment explanation
Indices: 30729954--30730221 Score: 518
Period size: 133 Copynumber: 2.0 Consensus size: 133
30729944 AATTAATTTT
30729954 TATTTCATAATTTAAGCCATTAACTATTATAATATTAATATAAAATGCATATATTGCTTCTCATC
1 TATTTCATAATTTAAGCCATTAACTATTATAATATTAATATAAAATGCATATATTGCTTCTCATC
*
30730019 ATCATTATGGCCGGCCACTACAAATTAAAGTGGAAAATTTGACATGCAAATCCACCTATTTTACA
66 ATCATTATGGCCGGCCACTAAAAATTAAAGTGGAAAATTTGACATGCAAATCCACCTATTTTACA
30730084 CCA
131 CCA
*
30730087 TATTTCATAATTTAAGCCATTAACTATTATAATATTAATATATAATGCATATATTGCTTCTCATC
1 TATTTCATAATTTAAGCCATTAACTATTATAATATTAATATAAAATGCATATATTGCTTCTCATC
30730152 ATCATTATGGCCGGCCACTAAAAATTAAAGTGGAAAATTTGACATGCAAATCCACCTATTTTACA
66 ATCATTATGGCCGGCCACTAAAAATTAAAGTGGAAAATTTGACATGCAAATCCACCTATTTTACA
30730217 CCA
131 CCA
30730220 TA
1 TA
30730222 AATTATTTGG
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (133 bp):
TATTTCATAATTTAAGCCATTAACTATTATAATATTAATATAAAATGCATATATTGCTTCTCATC
ATCATTATGGCCGGCCACTAAAAATTAAAGTGGAAAATTTGACATGCAAATCCACCTATTTTACA
CCA
Found at i:30736094 original size:45 final size:45
Alignment explanation
Indices: 30736027--30736156 Score: 199
Period size: 45 Copynumber: 2.9 Consensus size: 45
30736017 CACCGGCATT
* *
30736027 TCACCTGCATTATAGCCAGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCAGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
* * *
30736072 TCACCGGTATTATAACCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
30736117 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
30736157 ATACTGTGCG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 3 0.04
45 74 0.96
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:30737017 original size:47 final size:47
Alignment explanation
Indices: 30736965--30737060 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
30736955 AAAATTTTCT
*
30736965 TTAACTAAGTAACTTATCCAGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
*
30737012 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
30737059 TT
1 TT
30737061 TAAATTCAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
Found at i:30740690 original size:43 final size:44
Alignment explanation
Indices: 30740642--30740724 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
30740632 GGAACGTTGA
*
30740642 CTTCGATTTGAAATAT-CATGTAAGACCGTGTCTGGGACACAAG
1 CTTCGATTTGAAATATACATGTAAGACCATGTCTGGGACACAAG
* * *
30740685 CTTCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACA
1 CTTCGATTTGAAATATACATGTAAGACCATGTCTGGGACA
30740725 TCGGCATCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 14 0.40
44 21 0.60
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
CTTCGATTTGAAATATACATGTAAGACCATGTCTGGGACACAAG
Found at i:30740808 original size:43 final size:42
Alignment explanation
Indices: 30740644--30740807 Score: 120
Period size: 43 Copynumber: 3.8 Consensus size: 42
30740634 AACGTTGACT
* ** * *
30740644 TCGATTTGAAATATCATGTAAGACCGTGTCTGGGACACAAGCT
1 TCGATTTGAATTA-CATGTAAGACCACGTCTGGGACACAGGCA
* *
30740687 TCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATC-GGCA
1 TCGATTTGA-A-TTACATGTAAGACCACGTCTGGGACA-CAGGCA
*** * *
30740731 TC-ATATCTG-ATTTTGTGTAAGACC-CTGTCTGGGATAGAGGCA
1 TCGAT-T-TGAATTACATGTAAGACCAC-GTCTGGGACACAGGCA
30740773 TCGATATTGAATTACATGTAAGACCACGTCTGGGA
1 TCGAT-TTGAATTACATGTAAGACCACGTCTGGGA
30740808 TGTTGGCATT
Statistics
Matches: 98, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 29 0.30
43 36 0.37
44 28 0.29
45 5 0.05
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
TCGATTTGAATTACATGTAAGACCACGTCTGGGACACAGGCA
Found at i:30744774 original size:47 final size:47
Alignment explanation
Indices: 30743656--30744743 Score: 1924
Period size: 47 Copynumber: 23.1 Consensus size: 47
30743646 GAAATGATAG
* *
30743656 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
* *
30743705 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30743752 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30743799 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30743846 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30743893 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30743940 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30743987 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30744034 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30744081 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30744128 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30744175 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30744222 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30744269 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30744316 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30744363 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30744410 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
30744457 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
**
30744504 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* * * * * **
30744551 TAGGGCCTAATAGCCGACGTGATGAATGTGAAAGCGTATATGTGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* * * * **
30744598 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* * *
30744645 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* * *
30744692 TAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTATATATGTGA
1 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
30744739 CAAGG
1 TAAGG
30744744 CCGAGTGGCC
Statistics
Matches: 1019, Mismatches: 20, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
47 984 0.97
49 35 0.03
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
Found at i:30744964 original size:37 final size:37
Alignment explanation
Indices: 30744908--30744986 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
30744898 CCGAGCTCTA
* * * *
30744908 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
*
30744945 AAGACCCAATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
30744982 AAGAC
1 AAGAC
30744987 TTTGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30748944 original size:43 final size:42
Alignment explanation
Indices: 30748840--30748959 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
30748830 AGGGTCACTA
* *
30748840 AGATTACGTGTAAGACCATACCTGGGATATGGCATCGAAATG
1 AGATTACGTGTAAGACCATACCTGCGATATGGCATCGAAACG
* *
30748882 AGACTT-CGTGTAA-AGCCATAGCT-CGACTATTGGCATCGATACG
1 AGA-TTACGTGTAAGA-CCATACCTGCGA-TA-TGGCATCGAAACG
* * *
30748925 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACGTGTAAGACCATACCTGCGATATGGCAT
30748960 TGGTATGTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
41 3 0.05
42 27 0.42
43 31 0.48
44 3 0.05
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATACCTGCGATATGGCATCGAAACG
Found at i:30757753 original size:50 final size:50
Alignment explanation
Indices: 30757678--30757777 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
30757668 CAATCGTACT
30757678 TTCAACTTTTCAAAACTCTGCTGACATTTATTAGTCCATTCAAACTTAAC
1 TTCAACTTTTCAAAACTCTGCTGACATTTATTAGTCCATTCAAACTTAAC
30757728 TTCAACTTTTCAAAACTCTGCTGACATTTATTAGTCCATTCAAACTTAAC
1 TTCAACTTTTCAAAACTCTGCTGACATTTATTAGTCCATTCAAACTTAAC
30757778 ATTCTTTTGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (50 bp):
TTCAACTTTTCAAAACTCTGCTGACATTTATTAGTCCATTCAAACTTAAC
Found at i:30757794 original size:50 final size:48
Alignment explanation
Indices: 30757682--30757791 Score: 177
Period size: 50 Copynumber: 2.2 Consensus size: 48
30757672 CGTACTTTCA
30757682 ACTTTTCAAAACTCTGCTGACATTTATTAGTCCATTCAAACTTAACTT
1 ACTTTTCAAAACTCTGCTGACATTTATTAGTCCATTCAAACTTAACTT
30757730 CAACTTTTCAAAACTCTGCTGACATTTATTAGTCCATTCAAACTTAACATT
1 --ACTTTTCAAAACTCTGCTGACATTTATTAGTCCATTCAAACTTAAC-TT
30757781 -CTTTTGCAAAA
1 ACTTTT-CAAAA
30757792 ACTTAGTCAT
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
48 5 0.09
49 5 0.09
50 46 0.79
51 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (48 bp):
ACTTTTCAAAACTCTGCTGACATTTATTAGTCCATTCAAACTTAACTT
Found at i:30765248 original size:39 final size:40
Alignment explanation
Indices: 30765149--30765292 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
30765139 CGAATGATGT
* * *
30765149 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* * *
30765189 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
*
30765229 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
30765268 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30765293 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:30765306 original size:40 final size:39
Alignment explanation
Indices: 30765201--30765299 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
30765191 AGACTAAGAT
** * *
30765201 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGC
1 CCGAAGGCATTTGAACGAGTTACTATA-ACCGGGCTAAGC
** *
30765240 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAG-C
30765280 CCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGAACGAGT
30765300 AGCTATATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGC
Found at i:30765311 original size:79 final size:80
Alignment explanation
Indices: 30765148--30765298 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 80
30765138 TCGAATGATG
*
30765148 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
**
30765213 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * * *
30765228 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCAGACTAAGAT-CCGAAGGCAT
30765290 TTGAACGAG
64 TTGAACGAG
30765299 TAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.68
80 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:30773055 original size:40 final size:40
Alignment explanation
Indices: 30772907--30773118 Score: 214
Period size: 40 Copynumber: 5.3 Consensus size: 40
30772897 CATTTGAATG
* * *
30772907 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * * * * *
30772947 TTATCTGCGCTAAGTCCCGGAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
30772987 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
30773027 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * * ** *
30773067 ATACCCGGGTTATGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
30773107 ATATCC-GGCTAA
1 ATATCCGGGCTAA
30773119 ATTCCGAAGA
Statistics
Matches: 148, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.04
40 139 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:30774226 original size:83 final size:83
Alignment explanation
Indices: 30774082--30774249 Score: 300
Period size: 83 Copynumber: 2.0 Consensus size: 83
30774072 TAAATTATCC
* * *
30774082 AGAGACAATTAGAAGTCATACCTTATATTTATAGATTCCCCTTTGAGTCTAGTTTCATTAGAAAC
1 AGAGACAAGTAGAAGTCATACCTTATATGTATAGATTCCCCATTGAGTCTAGTTTCATTAGAAAC
30774147 AAACGGCATGAGTATTGA
66 AAACGGCATGAGTATTGA
*
30774165 AGAGACAAGTAGAAGTCATACCTTATATGTATAGATTCCCCATTGAGTCTAGTTTCGTTAGAAAC
1 AGAGACAAGTAGAAGTCATACCTTATATGTATAGATTCCCCATTGAGTCTAGTTTCATTAGAAAC
30774230 AAACGGCATGAGTATTGA
66 AAACGGCATGAGTATTGA
30774248 AG
1 AG
30774250 CTCTGTACAG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (83 bp):
AGAGACAAGTAGAAGTCATACCTTATATGTATAGATTCCCCATTGAGTCTAGTTTCATTAGAAAC
AAACGGCATGAGTATTGA
Found at i:30785557 original size:43 final size:43
Alignment explanation
Indices: 30785400--30785556 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
30785390 TGTGTTATCG
* *
30785400 TGTAAGACCACGTATGGGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * * *
30785444 TGTAAGACCATGCCTGGGACATTGGCATCG-TATTTAATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
** * *
30785486 TGTAAGACCTTGTCTGGGATAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATCGATATTTGATTACA
30785529 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
30785557 TATATGAGCT
Statistics
Matches: 90, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
42 29 0.32
43 35 0.39
44 26 0.29
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:30785780 original size:57 final size:57
Alignment explanation
Indices: 30785692--30785808 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
30785682 TTTGATGTTG
30785692 AAAGGTAAGGATATGTATCTTTGTGATCAAGTGATTATATGTGACAAAATTATGAGA
1 AAAGGTAAGGATATGTATCTTTGTGATCAAGTGATTATATGTGACAAAATTATGAGA
*
30785749 AAAGGTAAGTATATGTATCTTTGTGATCAAGTGATTATATGTGACAAAATTATGAGA
1 AAAGGTAAGGATATGTATCTTTGTGATCAAGTGATTATATGTGACAAAATTATGAGA
30785806 AAA
1 AAA
30785809 TATGCTATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (57 bp):
AAAGGTAAGGATATGTATCTTTGTGATCAAGTGATTATATGTGACAAAATTATGAGA
Found at i:30786987 original size:14 final size:14
Alignment explanation
Indices: 30786968--30786995 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30786958 TGTTTAAGGT
30786968 CTCATTGAACTAAG
1 CTCATTGAACTAAG
30786982 CTCATTGAACTAAG
1 CTCATTGAACTAAG
30786996 TAAGGGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
CTCATTGAACTAAG
Found at i:30787407 original size:20 final size:20
Alignment explanation
Indices: 30787375--30787426 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
30787365 CGGCTTATCT
*
30787375 ACACGGGCATGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
*
30787395 ACATGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
30787415 ACACGGGCGTGT
1 ACACGGGCGTGT
30787427 GACCCCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.35, G:0.31, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:30799873 original size:46 final size:46
Alignment explanation
Indices: 30799806--30799977 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
30799796 AACCCGCCCC
*
30799806 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
*
30799852 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTCGCATCCA
* * ***
30799900 TCA-TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
* *
30799945 TAGGTGAACTCGGACTCAACTGAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
30799978 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 1 0.01
46 59 0.56
47 28 0.27
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
Found at i:30799918 original size:93 final size:93
Alignment explanation
Indices: 30799810--30799981 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
30799800 CGCCCCTAAG
* ***
30799810 TGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30799875 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
30799903 TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAGGTGAACTCGGACTCAACTGA
1 TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30799968 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30799982 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30800438 original size:30 final size:30
Alignment explanation
Indices: 30800404--30800463 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
30800394 ATTTAATACG
30800404 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
30800434 AACTTTTGCATAATTACACTTTTGTCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
30800464 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:30805547 original size:31 final size:31
Alignment explanation
Indices: 30805505--30805579 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
30805495 TAACGATTAT
*
30805505 TGGGCCTAAGCCTTTTCATAAATCATATCAC
1 TGGGCCAAAGCCTTTTCATAAATCATATCAC
*
30805536 TGGGCCAAAGCCTTTTCATAAATCATTTCAC
1 TGGGCCAAAGCCTTTTCATAAATCATATCAC
*
30805567 TGGGCCGAAGCCT
1 TGGGCCAAAGCCT
30805580 CTACTGTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
TGGGCCAAAGCCTTTTCATAAATCATATCAC
Found at i:30805652 original size:42 final size:42
Alignment explanation
Indices: 30805605--30805696 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
30805595 TGGCCCATAG
* ** *
30805605 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
30805647 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
30805689 GCCCATTT
1 GCCCATTT
30805697 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:30805881 original size:26 final size:26
Alignment explanation
Indices: 30805841--30805990 Score: 223
Period size: 26 Copynumber: 5.8 Consensus size: 26
30805831 CCTCTTTAAT
*
30805841 AACTGGGTCA-AAGCCCTTTTCGGT-
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
30805865 AACTTGGGGCATAAGCCCTTTTCTGTA
1 AAC-TGGGGCATAAGCCCTTTTCGGTA
*
30805892 ACCTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
30805918 AACTGGGGCATAAGCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30805944 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30805970 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
30805991 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
24 3 0.03
25 6 0.05
26 101 0.90
27 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:30807059 original size:54 final size:54
Alignment explanation
Indices: 30807001--30807140 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
30806991 TGTAAATCAG
30807001 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
* * * *
30807055 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGATAATTTCACAAACCAA
* ** *
30807109 GGGTATTTTAGTAATTTTTTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
30807141 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
Found at i:30807112 original size:81 final size:83
Alignment explanation
Indices: 30806928--30807116 Score: 217
Period size: 81 Copynumber: 2.3 Consensus size: 83
30806918 GCATATTTCA
** * * * * *
30806928 GTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTG
1 GTAATTTTACAAACCAAGGGTATTTCGATAATTTTCACAAAGCCAAGGGTATTTCTGTAACTTTG
*
30806993 TAAATCAGGGGTATTTTG
66 TAAAACAGGGGTATTTTG
***
30807011 GTAATTTTACAAATTGAGGGTATTTCGATAA-TTTCACAAA-CCAAGGGTATTT-TGGTAA-TTT
1 GTAATTTTACAAACCAAGGGTATTTCGATAATTTTCACAAAGCCAAGGGTATTTCT-GTAACTTT
30807072 -TACAAACTAGGGGTATTTTG
65 GTA-AAAC-AGGGGTATTTTG
30807092 GTAATTTTACAAACCAAGGGTATTT
1 GTAATTTTACAAACCAAGGGTATTT
30807117 TAGTAATTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
79 2 0.02
80 7 0.08
81 49 0.55
82 7 0.08
83 24 0.27
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (83 bp):
GTAATTTTACAAACCAAGGGTATTTCGATAATTTTCACAAAGCCAAGGGTATTTCTGTAACTTTG
TAAAACAGGGGTATTTTG
Found at i:30807124 original size:81 final size:79
Alignment explanation
Indices: 30806864--30807125 Score: 199
Period size: 81 Copynumber: 3.2 Consensus size: 79
30806854 TACCTAATAG
* ** * * * * ** **
30806864 GGGTATTTTAGTCATTTCATCCTACAAGGGTGTTTTGGTAAATCTACAAACCAAGCATATTTCAG
1 GGGTATTTTAGTAATTTCA-CAAACAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGG
**
30806929 TAATTTTGTAAACCAA
64 TAATTTTACAAACCAA
* * * *
30806945 TGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTA-AATCAGGGGTAT
1 GGGTATTT-TAGTAA-TTTCACAAA--CAAGGGTATTT-TGGTAA-TTT-TACAAACAGGGGTAT
***
30807007 TTTGGTAATTTTACAAATTGA
59 TTTGGTAATTTTACAAACCAA
*
30807028 GGGTA-TTTCGATAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GGGTATTTTAG-TAATTTCACAAA-CAAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTG
30807092 GTAATTTTACAAACCAA
63 GTAATTTTACAAACCAA
30807109 GGGTATTTTAGTAATTT
1 GGGTATTTTAGTAATTT
30807126 TTTAAATCGA
Statistics
Matches: 138, Mismatches: 30, Indels: 26
0.71 0.15 0.13
Matches are distributed among these distances:
79 2 0.01
80 7 0.05
81 63 0.46
82 19 0.14
83 41 0.30
84 4 0.03
85 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (79 bp):
GGGTATTTTAGTAATTTCACAAACAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTA
ATTTTACAAACCAA
Found at i:30807138 original size:27 final size:27
Alignment explanation
Indices: 30806888--30807167 Score: 154
Period size: 27 Copynumber: 10.3 Consensus size: 27
30806878 TTTCATCCTA
* * * * *
30806888 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
** * ** *
30806915 CAAGCATATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
30806942 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-T
* **
30806971 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAT
* *
30806998 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
** * * *
30807025 TGAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTAG-TAATTTTACAAAT
*
30807052 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * *
30807078 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTAGTAATTTTACAAAT
**
30807106 CAAGGGTATTTTAGTAATTTTTTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *** * **
30807133 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
30807160 CAAGGGTA
1 CAAGGGTA
30807168 AAACAGTAAT
Statistics
Matches: 197, Mismatches: 47, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
26 6 0.03
27 157 0.80
28 19 0.10
29 15 0.08
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAT
Found at i:30807139 original size:81 final size:81
Alignment explanation
Indices: 30806928--30807140 Score: 202
Period size: 81 Copynumber: 2.6 Consensus size: 81
30806918 GCATATTTCA
** * *
30806928 GTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTT
1 GTAATTTTACAAACCAAGGGTATTT-TAGTAATTTTT-CAAA-TCAAGGGTATTTCTGTAACTTT
*
30806992 GTAAATCAGGGGTATTTTG
63 GTAAAACAGGGGTATTTTG
*** * ** *
30807011 GTAATTTTACAAATTGAGGGTA-TTTCGATAATTTCACAAACCAAGGGTATTT-TGGTAA-TTT-
1 GTAATTTTACAAACCAAGGGTATTTTAG-TAATTTTTCAAATCAAGGGTATTTCT-GTAACTTTG
30807072 TACAAACTAGGGGTATTTTG
64 TA-AAAC-AGGGGTATTTTG
* *
30807092 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTTTAAATCGAGGGTA
1 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTTCAAATCAAGGGTA
30807141 AAATAGTAAT
Statistics
Matches: 103, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
79 2 0.02
80 7 0.07
81 63 0.61
82 9 0.09
83 22 0.21
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (81 bp):
GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTTCAAATCAAGGGTATTTCTGTAACTTTGTA
AAACAGGGGTATTTTG
Found at i:30807168 original size:27 final size:27
Alignment explanation
Indices: 30807118--30807329 Score: 214
Period size: 27 Copynumber: 7.9 Consensus size: 27
30807108 AGGGTATTTT
* * *
30807118 AGTAATTTTTTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
30807145 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
30807172 AGTAATTCTATAAATCGAGGGAAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
30807199 GGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* **
30807226 GGTAATTCTGTATGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
30807253 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
30807280 -GATAATTATGTAAAT-TAGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* *
30807307 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
30807330 CTTTGGTAAT
Statistics
Matches: 156, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 153 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:30807204 original size:81 final size:81
Alignment explanation
Indices: 30807119--30807329 Score: 253
Period size: 81 Copynumber: 2.6 Consensus size: 81
30807109 GGGTATTTTA
* * * * * *
30807119 GTAATTTTTTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC-AGTAATTCTAT
1 GTAATTATGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTATAT
30807183 AAATCGAGGGAAAAACG
65 AAATCGAGGGAAAAACG
* ** *
30807200 GTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTATGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATATA
* *
30807265 AATCGGGGGTAAAACG
66 AATCGAGGGAAAAACG
* * * * *
30807281 ATAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 GTAATTATGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
30807330 CTTTGGTAAT
Statistics
Matches: 110, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
81 109 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
GTAATTATGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATATA
AATCGAGGGAAAAACG
Found at i:30807337 original size:27 final size:27
Alignment explanation
Indices: 30807306--30807424 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 27
30807296 AGGGGTAAAA
* *
30807306 CGGTAATTCTATAAATCGAGGGTACTTT
1 CGGTAATTTTACAAATCGAGGGTA-TTT
* *
30807334 -GGTAATTTTACAAGTCGAAGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
*
30807360 CTGTAATTTTACAAATCGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
** * *
30807387 TAGTATTTTTACAAA-CAAAGGGTATTT
1 CGGTAATTTTACAAATC-GAGGGTATTT
30807414 CGGTAATTTTA
1 CGGTAATTTTA
30807425 GTAAACTAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.05
27 71 0.95
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CGGTAATTTTACAAATCGAGGGTATTT
Found at i:30807411 original size:54 final size:54
Alignment explanation
Indices: 30807306--30807424 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
30807296 AGGGGTAAAA
* * * * *
30807306 CGGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTT
1 CGGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAGACAAAGGTATTT
* * *
30807360 CTGTAATTTTACAAATCGAGGGTATTTTAGTATTTTTACAA-ACAAAGGGTATTT
1 CGGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAGACAAA-GGTATTT
30807414 CGGTAATTTTA
1 CGGTAATTTTA
30807425 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 3 0.05
54 52 0.95
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
CGGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAGACAAAGGTATTT
Found at i:30809392 original size:6 final size:6
Alignment explanation
Indices: 30809374--30809461 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
30809364 AAGAAACATT
*
30809374 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
30809423 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATAAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
30809462 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 4 0.06
6 54 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:30809428 original size:25 final size:25
Alignment explanation
Indices: 30809374--30809461 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
30809364 AAGAAACATT
30809374 ATCAGAA-CTAGAATCA-G-AATCAGA
1 ATCAGAATC-AGAATCAGGTAA-CAGA
*
30809398 ATCAGAATCAGAATCAGGTGACAGA
1 ATCAGAATCAGAATCAGGTAACAGA
*
30809423 ATCAGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGGTAACAGA
* *
30809448 ATCAAAATAAGAAT
1 ATCAGAATCAGAAT
30809462 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
24 14 0.25
25 40 0.73
26 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
ATCAGAATCAGAATCAGGTAACAGA
Found at i:30809640 original size:27 final size:26
Alignment explanation
Indices: 30809580--30809690 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
30809570 AGCATGGCTG
*
30809580 CCAGAACAGATAATGT-GACAGAGTCA
1 CCAGAACAGATAATGTGGA-AGAGCCA
*
30809606 CCAAAACAGATAATCGTGGAAGAGCCA
1 CCAGAACAGATAAT-GTGGAAGAGCCA
*
30809633 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGAAGAGCCA
* * *
30809660 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGAAGAGCCA
30809687 CCAG
1 CCAG
30809691 GACAAATATA
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 14 0.19
27 57 0.76
28 4 0.05
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGAAGAGCCA
Found at i:30809662 original size:54 final size:54
Alignment explanation
Indices: 30809580--30809701 Score: 156
Period size: 54 Copynumber: 2.3 Consensus size: 54
30809570 AGCATGGCTG
*
30809580 CCAGAACAGATA-ATGTGACAGAGTCACCAAAACAGATAATCGTGGAAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAACAGATAATCGTGGAAGAGCCA
* * * * * *
30809633 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAACAGATAATCGTGGAAGAGCCA
* *
30809687 CCAGGACAAATATAT
1 CCAGAACAGATATAT
30809702 ATATGTGGCG
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 12 0.20
54 47 0.80
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAAACAGATAATCGTGGAAGAGCCA
Found at i:30811084 original size:6 final size:6
Alignment explanation
Indices: 30811064--30811110 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
30811054 AAGAAACATT
*
30811064 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
30811111 GTGACAGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 1 0.03
6 35 0.95
7 1 0.03
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:30811126 original size:25 final size:25
Alignment explanation
Indices: 30811073--30811157 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
30811063 TATCAGAACT
*
30811073 AGAATCAAAATCA-G-AATCAGAATC
1 AGAATCAGAATCAGGTAA-CAGAATC
*
30811097 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
* * *
30811122 TGAATCAGTATCAGGTAATAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
* *
30811147 AAAATAAGAAT
1 AGAATCAGAAT
30811158 GTGAATGCAA
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 12 0.24
25 36 0.73
26 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATC
Found at i:30811331 original size:27 final size:26
Alignment explanation
Indices: 30811276--30811394 Score: 148
Period size: 27 Copynumber: 4.5 Consensus size: 26
30811266 AGCATGGCTG
* *
30811276 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
30811302 CCAAAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
30811329 CCAGAACAGGTATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
30811356 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
30811383 CCAGGACAGATA
1 CCAGAACAGATA
30811395 TATATATGTG
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 14 0.17
27 64 0.80
28 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:30811358 original size:54 final size:54
Alignment explanation
Indices: 30811276--30811397 Score: 165
Period size: 54 Copynumber: 2.3 Consensus size: 54
30811266 AGCATGGCTG
*
30811276 CCAGAACAGATA-ATGTGACAGAGTCACCAAAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAACAGATAATCGTGGCAGAGCCA
* * * * * *
30811329 CCAGAACAGGTATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAACAGATAATCGTGGCAGAGCCA
*
30811383 CCAGGACAGATATAT
1 CCAGAACAGATATAT
30811398 ATATGTGGCG
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 11 0.19
54 48 0.81
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAAACAGATAATCGTGGCAGAGCCA
Found at i:30811413 original size:31 final size:30
Alignment explanation
Indices: 30811317--30811417 Score: 92
Period size: 27 Copynumber: 3.5 Consensus size: 30
30811307 ACAGATAATC
* *
30811317 GTGGCAGAGCCACCA-GAACAG--GTATAT
1 GTGGCAGAGCCACCAGGATCAGATATATAT
30811344 GTGGCAGAGCCACCA-GATCAGATA-AT-T
1 GTGGCAGAGCCACCAGGATCAGATATATAT
*
30811371 GTGGCATAGCCACCAGGA-CAGATATATATAT
1 GTGGCAGAGCCACCAGGATCAG--ATATATAT
30811402 GTGGC-GAAGCCACCAG
1 GTGGCAG-AGCCACCAG
30811418 ATTGCAGCGA
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
27 38 0.61
28 4 0.06
29 3 0.05
30 2 0.03
31 15 0.24
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.17
Consensus pattern (30 bp):
GTGGCAGAGCCACCAGGATCAGATATATAT
Found at i:30812962 original size:31 final size:31
Alignment explanation
Indices: 30812915--30812991 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
30812905 TAACGATTAT
*
30812915 TGGGCCGAAGCATTTTCATAAATCATATCAC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
* *
30812946 TGGGCCAAAGCCTTTTCATAAATCATTTCAC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
30812977 TGGGCCGAAGCCTTT
1 TGGGCCGAAGCCTTT
30812992 CCTGTAAACG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTTCATAAATCATATCAC
Found at i:30813062 original size:42 final size:42
Alignment explanation
Indices: 30813015--30813106 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
30813005 TGGCCCATAG
* * ** *
30813015 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
30813057 GCCCATTTCAATAACACATGAAATACCAATGAATGTTTGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
30813099 GCCCATTT
1 GCCCATTT
30813107 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:30813291 original size:26 final size:26
Alignment explanation
Indices: 30813251--30813426 Score: 291
Period size: 26 Copynumber: 6.8 Consensus size: 26
30813241 CCTCTTTAAT
*
30813251 AACTGGGTCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
30813276 ACCTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
30813302 AACTGGGGCATAAGCCCTCTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
30813328 AACTGGGGCATAAGCCCTTTCCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30813354 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30813380 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30813406 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
30813427 GCACTTCCTC
Statistics
Matches: 139, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 8 0.06
26 131 0.94
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:30814281 original size:27 final size:27
Alignment explanation
Indices: 30814251--30814302 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
30814241 CACAGAGGTA
30814251 TTACGGTCACTTTACCCT-ATAGGGGCT
1 TTACGGTCACTTTA-CCTAATAGGGGCT
**
30814278 TTACGGTCTTTTTACCTAATAGGGG
1 TTACGGTCACTTTACCTAATAGGGG
30814303 TATTTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (27 bp):
TTACGGTCACTTTACCTAATAGGGGCT
Found at i:30814377 original size:27 final size:27
Alignment explanation
Indices: 30814347--30814398 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
30814337 GTAAATCTAC
30814347 AAACCAA-GCGTATTTC-AGTAATTTTGT
1 AAACCAATG-GTATTTCTA-TAATTTTGT
30814374 AAACCAATGGTATTTCTATAATTTT
1 AAACCAATGGTATTTCTATAATTTT
30814399 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAATGGTATTTCTATAATTTTGT
Found at i:30814470 original size:27 final size:27
Alignment explanation
Indices: 30814409--30814575 Score: 158
Period size: 27 Copynumber: 6.2 Consensus size: 27
30814399 TAGAAAGTCA
* * ** *
30814409 AGGGTATTTTTGTAACTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCG
**
30814436 -GGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTACAAACCG
* * * * *
30814462 AGGGTATTTCGATCATTTCACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCG
*
30814489 AGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAACCG
*
30814515 AGGGGTATTTTGGTAATTTTACAAACCA
1 A-GGGTATTTTGGTAATTTTACAAACCG
* * *
30814543 AGGGTATTTTAGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCG
30814570 AGGGTA
1 AGGGTA
30814576 AAACAGTAAT
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
26 23 0.20
27 90 0.78
28 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCG
Found at i:30814498 original size:54 final size:54
Alignment explanation
Indices: 30814436--30814575 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
30814426 TTGTAAATCG
*
30814436 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATCATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
* * * *
30814490 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGATAATTTCACAAACCAA
* * *
30814544 GGGTATTTTAGTAATTTTATAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
30814576 AAACAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
Found at i:30814574 original size:81 final size:81
Alignment explanation
Indices: 30814324--30814575 Score: 213
Period size: 81 Copynumber: 3.1 Consensus size: 81
30814314 TTTCATCCTA
* * * * * ** ** *
30814324 CAAGGGTGTTTTGGTAAATCTACAAACCAAGCGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
30814389 CTA-TAATTTTTAGAAAGT
66 -TAGTAA-TTTTACAAA-T
* * ** * ***
30814407 CAAGGGTATTTTTGTAACTTTGTAAA-TCGGGGTATTTTGGTAATTTTACAAATTGAGGGTA-TT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* * * *
30814470 TCGATCATTTCACAAAC
66 TAG-TAATTTTACAAAT
*
30814487 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
30814552 TAGTAATTTTATAAAT
66 TAGTAATTTTACAAAT
*
30814568 CGAGGGTA
1 CAAGGGTA
30814576 AAACAGTAAT
Statistics
Matches: 128, Mismatches: 37, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
80 23 0.18
81 56 0.44
82 29 0.23
83 20 0.16
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
TAGTAATTTTACAAAT
Found at i:30814583 original size:27 final size:27
Alignment explanation
Indices: 30814553--30814764 Score: 216
Period size: 27 Copynumber: 7.9 Consensus size: 27
30814543 AGGGTATTTT
*
30814553 AGTAATTTTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
30814580 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
30814607 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
30814634 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
30814661 TA-TAATTCTGTAAGTTGAGGGTAAAA-
1 -AGTAATTCTATAAATCGAGGGTAAAAC
* * * *
30814687 TGATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTATAAATCGAGGGTAAAAC
* *
30814715 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTATAAATCGA-GGGTAAAAC
* *
30814742 AGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTATAAATCGAGGGTA
30814765 CTTTGGTAAT
Statistics
Matches: 158, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
27 157 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:30814585 original size:54 final size:53
Alignment explanation
Indices: 30814436--30814632 Score: 135
Period size: 54 Copynumber: 3.7 Consensus size: 53
30814426 TTGTAAATCG
* * *** * *
30814436 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATCATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACG-TAATTTTACAAACCAA
* * ****
30814490 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGA-GGGTA-AAACGTAATTTTACAAACCAA
* * ** *
30814544 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAAC-GTAATTTTACAAACCAA
**** * *
30814598 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAA
30814633 TGGTAATTCT
Statistics
Matches: 118, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 111 0.94
55 6 0.05
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.35
Consensus pattern (53 bp):
GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGTAATTTTACAAACCAA
Found at i:30814602 original size:81 final size:81
Alignment explanation
Indices: 30814525--30814818 Score: 213
Period size: 81 Copynumber: 3.6 Consensus size: 81
30814515 AGGGGTATTT
*
30814525 TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTG
1 TGGTAATTTTACAAACCAAGGGTATTATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTG
*
30814590 TAAATCAAGGGTAAAA
66 TAAATCGAGGGTAAAA
** * * * * ** * *
30814606 CAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACTA-TAATTCT
1 TGGTAATTTTACAAACCAAGGGTATTATAGTAATTTTATAAATCGAGGGTAAAAC-AGTAATTCT
* *
30814670 GTAAGTTGAGGGTAAAA
65 GTAAATCGAGGGTAAAA
* * ** * ** * * *
30814687 TGATAATTATGTAAATCGGGGGTA--AAACGATAATTATGTAAATC-AGGGGTAAAACAGTAATT
1 TGGTAATTTTACAAACCAAGGGTATTATA-G-TAATTTTATAAATCGA-GGGTAAAACAGTAATT
* ***
30814749 CTGTAAATCGGGGGTACTT
63 CTGTAAATCGAGGGTAAAA
* * *
30814768 TGGTAATTTTACAAGTCGAA-GGTATT-TCAGTAATTTTACAAATCGAGGGTA
1 TGGTAATTTTACAA-ACCAAGGGTATTAT-AGTAATTTTATAAATCGAGGGTA
30814819 TTTCAGTATT
Statistics
Matches: 160, Mismatches: 43, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
79 1 0.01
80 3 0.02
81 152 0.95
82 3 0.02
83 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.31
Consensus pattern (81 bp):
TGGTAATTTTACAAACCAAGGGTATTATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:30814791 original size:27 final size:27
Alignment explanation
Indices: 30814770--30814859 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
30814760 GGGTACTTTG
*
30814770 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
30814797 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * * *
30814824 GTATTTTTACAAA-CTAAGGGTTTTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
30814851 GTAATTTTA
1 GTAATTTTA
30814860 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.04
27 52 0.96
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:30816747 original size:45 final size:45
Alignment explanation
Indices: 30816696--30816784 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
30816686 AAAAAAAAAA
30816696 GGCAATTTCACATGCACATCCTTATGATTTTTAAACCATATAGTT
1 GGCAATTTCACATGCACATCCTTATGATTTTTAAACCATATAGTT
*
30816741 GGCAATTTGACATGCACATCCTTATGATTTTTAAACCATATAGT
1 GGCAATTTCACATGCACATCCTTATGATTTTTAAACCATATAGT
30816785 AATAAGCCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (45 bp):
GGCAATTTCACATGCACATCCTTATGATTTTTAAACCATATAGTT
Found at i:30820262 original size:28 final size:27
Alignment explanation
Indices: 30820203--30820271 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
30820193 GTCAAGAAAG
* *
30820203 GAAAA-CCTTTATGGAAAAACATGAAA
1 GAAAAGCCTTTGTGGAAAAACATAAAA
* *
30820229 GAAAAGCCTTTGTGGCAAAATATAAAA
1 GAAAAGCCTTTGTGGAAAAACATAAAA
30820256 GAAAAAGCCTTTGTGG
1 G-AAAAGCCTTTGTGG
30820272 TGAATTATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.14
27 18 0.49
28 14 0.38
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (27 bp):
GAAAAGCCTTTGTGGAAAAACATAAAA
Found at i:30821648 original size:23 final size:21
Alignment explanation
Indices: 30821621--30821664 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
30821611 ATATTTAAGG
30821621 CTCACCTCCTTATTTCTCCTTCA
1 CTCACCTCCTT-TTTCT-CTTCA
*
30821644 CTCACCTTCTTTTTCTCTTCA
1 CTCACCTCCTTTTTCTCTTCA
30821665 TATATTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 5 0.25
23 10 0.50
ACGTcount: A:0.11, C:0.41, G:0.00, T:0.48
Consensus pattern (21 bp):
CTCACCTCCTTTTTCTCTTCA
Found at i:30828633 original size:25 final size:25
Alignment explanation
Indices: 30828605--30828665 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
30828595 TCCACATCTT
*
30828605 GTGTAAGGACACTTATTCACAGCTC
1 GTGTAAGCACACTTATTCACAGCTC
* * *
30828630 GTGTGAGCACACTTATTCATAGCTT
1 GTGTAAGCACACTTATTCACAGCTC
*
30828655 GTGTGAGCACA
1 GTGTAAGCACA
30828666 TATGTACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (25 bp):
GTGTAAGCACACTTATTCACAGCTC
Found at i:30832361 original size:26 final size:26
Alignment explanation
Indices: 30832303--30832353 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
30832293 TAAACATCAA
*
30832303 AATAATTATAAAATAATTATTTCTAT
1 AATAATTATAAAATAAATATTTCTAT
30832329 AATAATTATAAAA-AAATATTTCTAT
1 AATAATTATAAAATAAATATTTCTAT
30832354 CTCGAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
AATAATTATAAAATAAATATTTCTAT
Found at i:30841502 original size:66 final size:69
Alignment explanation
Indices: 30841372--30841502 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 69
30841362 GGGATGTATC
* * *
30841372 CCATGTAGACAAGAGAGCTACGAGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTAC---AGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
30841437 AAGGACA
63 AAGGACA
* * * *
30841444 CCATGTAGATAAGAGAGCTAC-GA-GATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACAGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
30841503 TTCACCATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
66 23 0.44
67 7 0.13
68 2 0.04
72 20 0.38
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.21
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACAGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTGAAG
GACA
Found at i:30843469 original size:46 final size:47
Alignment explanation
Indices: 30843323--30843577 Score: 172
Period size: 46 Copynumber: 5.4 Consensus size: 47
30843313 GTGCCAATGC
* ** * *
30843323 CATGTCCCAAACATGGTCTTACACAAGCTCTAGCATATCTG-TGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-TA-CATCTC-GAAGTCGATG
* * * * * *
30843372 CCATGTCCTAGACATGGTCTTACACTGAC--ACCTCTCGTAGCCGATT
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGTCGATG
*
30843418 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAAGTCGAAG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGTCGATG
* *
30843464 CATGTCCCAGACAT-GTCTTACACTAGCACT-CATCTC-AA-TGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGC-TTACATCTCGAAGT-C-GATG
* * ** *
30843510 CCATATCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAAGTCGATG
30843558 CATGTCCCAGACAT-GTCTTA
1 CATGTCCCAGACATGGTCTTA
30843578 GACTAGCCCA
Statistics
Matches: 165, Mismatches: 28, Indels: 28
0.75 0.13 0.13
Matches are distributed among these distances:
44 13 0.08
45 17 0.10
46 62 0.38
47 28 0.17
48 20 0.12
49 2 0.01
50 23 0.14
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGTCGATG
Found at i:30845305 original size:7 final size:7
Alignment explanation
Indices: 30845293--30845425 Score: 108
Period size: 7 Copynumber: 18.4 Consensus size: 7
30845283 TACATAGGTT
30845293 TTTAGGG
1 TTTAGGG
30845300 TTTAGGG
1 TTTAGGG
*
30845307 TTTAGGAT
1 TTTAGG-G
30845315 TTTAGGG
1 TTTAGGG
*
30845322 TTTTAGGT
1 -TTTAGGG
30845330 TTTA-GG
1 TTTAGGG
*
30845336 TTTAAGG
1 TTTAGGG
*
30845343 TTTAAGGT
1 TTT-AGGG
*
30845351 TTTAAGG
1 TTTAGGG
*
30845358 TTTATGG
1 TTTAGGG
**
30845365 TTTATAG
1 TTTAGGG
30845372 TTTAGGG
1 TTTAGGG
30845379 TTTAGGG
1 TTTAGGG
*
30845386 TGTTAAGG
1 T-TTAGGG
*
30845394 TTTAGGT
1 TTTAGGG
30845401 TTTAGGG
1 TTTAGGG
30845408 TTTTA-GG
1 -TTTAGGG
30845415 TTTAAGGG
1 TTT-AGGG
30845423 TTT
1 TTT
30845426 TTCAGATTAT
Statistics
Matches: 102, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
6 8 0.08
7 62 0.61
8 32 0.31
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:30845317 original size:22 final size:21
Alignment explanation
Indices: 30845287--30845418 Score: 108
Period size: 22 Copynumber: 6.1 Consensus size: 21
30845277 ATGGCTTACA
30845287 TAGGTTTTTAGGGTTTAGGGTT
1 TAGG-TTTTAGGGTTTAGGGTT
*
30845309 TAGGATTTTAGGGTTTTAGGTTT
1 TAGG-TTTTAGGG-TTTAGGGTT
* *
30845332 TAGG-TTTAAGGTTTAAGGTTT
1 TAGGTTTTAGGGTTT-AGGGTT
* **
30845353 TAAGG-TTTATGGTTTATAGTT
1 T-AGGTTTTAGGGTTTAGGGTT
* *
30845374 TAGGGTTTAGGGTGTTAAGGTT
1 TAGGTTTTAGGGT-TTAGGGTT
30845396 TAGGTTTTAGGGTTTTA-GGTT
1 TAGGTTTTAGGG-TTTAGGGTT
30845417 TA
1 TA
30845419 AGGGTTTTTC
Statistics
Matches: 93, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
20 6 0.06
21 30 0.32
22 44 0.47
23 13 0.14
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (21 bp):
TAGGTTTTAGGGTTTAGGGTT
Found at i:30845345 original size:36 final size:35
Alignment explanation
Indices: 30845287--30845418 Score: 135
Period size: 36 Copynumber: 3.7 Consensus size: 35
30845277 ATGGCTTACA
* *
30845287 TAGGTTTTTAGGGTTTAGGGTTTAGGATTTTAGGGTTT
1 TAGG-TTTTAGGGTTTAAGGTTTAGG-TTTTAAGG-TT
30845325 TAGGTTTTA-GGTTTAAGGTTTAAGGTTTTAAGGTT
1 TAGGTTTTAGGGTTTAAGGTTT-AGGTTTTAAGGTT
* *
30845360 TATGGTTTATA--GTTTAGGGTTTAGGGTGTTAAGGTT
1 TA-GGTTT-TAGGGTTTAAGGTTTA-GGTTTTAAGGTT
*
30845396 TAGGTTTTAGGGTTTTAGGTTTA
1 TAGGTTTTAGGGTTTAAGGTTTA
30845419 AGGGTTTTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
34 2 0.02
35 10 0.12
36 56 0.68
37 10 0.12
38 4 0.05
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (35 bp):
TAGGTTTTAGGGTTTAAGGTTTAGGTTTTAAGGTT
Found at i:30845426 original size:15 final size:14
Alignment explanation
Indices: 30845287--30845426 Score: 110
Period size: 15 Copynumber: 9.6 Consensus size: 14
30845277 ATGGCTTACA
*
30845287 TAGGTTTTTAGGGTT
1 TAGGGTTTTA-GGTT
30845302 TAGGG-TTTAGGATTT
1 TAGGGTTTTAGG--TT
30845317 TAGGGTTTTAGGTTT
1 TAGGGTTTTAGG-TT
*
30845332 TA-GGTTTAAGGTT
1 TAGGGTTTTAGGTT
*
30845345 TAAGGTTTTAAGGTT
1 TAGGGTTTT-AGGTT
*
30845360 TATGGTTTATA-GTT
1 TAGGGTTT-TAGGTT
30845374 TAGGG-TTTAGGGTGT
1 TAGGGTTTTA-GGT-T
*
30845389 TAAGG-TTTAGGTTT
1 TAGGGTTTTAGG-TT
30845403 TAGGGTTTTAGGTT
1 TAGGGTTTTAGGTT
30845417 TAAGGGTTTT
1 T-AGGGTTTT
30845427 TCAGATTATC
Statistics
Matches: 106, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
12 2 0.02
13 8 0.08
14 36 0.34
15 53 0.50
16 7 0.07
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (14 bp):
TAGGGTTTTAGGTT
Found at i:30848865 original size:22 final size:22
Alignment explanation
Indices: 30848831--30848879 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
30848821 AACCTGTAGT
*
30848831 ACGGGCATGTCCCTTAGACCAC
1 ACGGGCATATCCCTTAGACCAC
* * *
30848853 ACGGGCGTATCCCTTGGACCTC
1 ACGGGCATATCCCTTAGACCAC
30848875 ACGGG
1 ACGGG
30848880 TGTGTGAGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (22 bp):
ACGGGCATATCCCTTAGACCAC
Found at i:30863336 original size:11 final size:11
Alignment explanation
Indices: 30863320--30863345 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30863310 GCATAGGCAT
30863320 TTATGTATTGA
1 TTATGTATTGA
30863331 TTATGTATTGA
1 TTATGTATTGA
30863342 TTAT
1 TTAT
30863346 TTAAACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (11 bp):
TTATGTATTGA
Found at i:30865093 original size:93 final size:93
Alignment explanation
Indices: 30864934--30865103 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
30864924 CGCCCATAAG
* *
30864934 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
30864999 ACGAGTTCGGATTCCTAGTTACATCTCA
66 ACGAGTTCGGATTCCTAGTTACATCTCA
* * * *
30865027 CGAACTCGGACTCCACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
30865092 ACGAGTTCGGAT
66 ACGAGTTCGGAT
30865104 GCTCAACCAT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATTCCTAGTTACATCTCA
Found at i:30865102 original size:46 final size:46
Alignment explanation
Indices: 30864927--30865102 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
30864917 TGTAACCCGC
* * *
30864927 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30864973 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG--ATTC-CTAGTT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* * * *
30865019 ACATCTCA-CGAACTCGGACTCCACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30865066 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
30865103 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 65 0.60
47 29 0.27
48 2 0.02
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30872623 original size:93 final size:93
Alignment explanation
Indices: 30872509--30872680 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30872499 CGCCCATAAG
* *
30872509 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30872574 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
30872602 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30872667 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30872681 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30872677 original size:46 final size:46
Alignment explanation
Indices: 30872502--30872677 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
30872492 TGTAACCCGC
* * * *
30872502 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30872548 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
30872598 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30872641 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30872678 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30872696 original size:46 final size:46
Alignment explanation
Indices: 30872551--30872689 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
30872541 TTCGCATCCA
30872551 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * * *
30872599 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
30872644 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
30872690 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 27 0.37
47 29 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:30876322 original size:13 final size:13
Alignment explanation
Indices: 30876304--30876329 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30876294 GCTCGATAGG
30876304 GACATGCCTGTGT
1 GACATGCCTGTGT
30876317 GACATGCCTGTGT
1 GACATGCCTGTGT
30876330 TCGATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
GACATGCCTGTGT
Found at i:30876554 original size:16 final size:16
Alignment explanation
Indices: 30876533--30876564 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30876523 TTTGTAACGC
30876533 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
*
30876549 CCCAAAAATCCTAAAA
1 CCCAAAAATCCCAAAA
30876565 TCCTGAACTT
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:0.56, C:0.34, G:0.00, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:30878012 original size:29 final size:30
Alignment explanation
Indices: 30877969--30878084 Score: 91
Period size: 29 Copynumber: 4.0 Consensus size: 30
30877959 CATGAATATG
* * *
30877969 AATGTGA-CTGGGCCTAACGGGCCGTATA-
1 AATGTGATTTGGGCCTAAAGGGCCATATAC
*
30877997 AATGTGATTTGGGCCTAATGGGCCATATAC
1 AATGTGATTTGGGCCTAAAGGGCCATATAC
* *
30878027 AGATG-G-TTTGGGCCTAAAGGGCTATAT-G
1 A-ATGTGATTTGGGCCTAAAGGGCCATATAC
* * * *
30878055 AATATGA-TTGGGCTTAATGGGCCAAATAC
1 AATGTGATTTGGGCCTAAAGGGCCATATAC
30878084 A
1 A
30878085 GGTATGTGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
27 2 0.03
28 25 0.36
29 38 0.54
30 2 0.03
31 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (30 bp):
AATGTGATTTGGGCCTAAAGGGCCATATAC
Found at i:30878076 original size:57 final size:58
Alignment explanation
Indices: 30877977--30878085 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 58
30877967 TGAATGTGAC
* * * *
30877977 TGGGCCTAACGGGCCGTATAAATGTGATTTGGGCCTAATGGGCCATATACAGATGGTT
1 TGGGCCTAAAGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGATGGTT
* * *
30878035 TGGGCCTAAAGGGCTATATGAATATGA-TTGGGCTTAATGGGCCAAATACAG
1 TGGGCCTAAAGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAG
30878086 GTATGTGAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 22 0.50
58 22 0.50
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (58 bp):
TGGGCCTAAAGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGATGGTT
Found at i:30881086 original size:16 final size:16
Alignment explanation
Indices: 30881062--30881092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30881052 AGGATGAAAT
*
30881062 AAAATTAAAATAAAAG
1 AAAAATAAAATAAAAG
30881078 AAAAATAAAATAAAA
1 AAAAATAAAATAAAA
30881093 AGTAGTTTAA
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:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAATAAAATAAAAG
Found at i:30881093 original size:11 final size:11
Alignment explanation
Indices: 30881058--30881093 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
30881048 ACTAAGGATG
*
30881058 AAATAAAATTA
1 AAATAAAATAA
*
30881069 AAATAAAAGAA
1 AAATAAAATAA
30881080 AAATAAAATAA
1 AAATAAAATAA
30881091 AAA
1 AAA
30881094 GTAGTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:30886696 original size:27 final size:27
Alignment explanation
Indices: 30886666--30886843 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
30886656 ATATTGAGTC
* *
30886666 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30886693 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30886720 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
30886748 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
30886775 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
30886802 CGCACACTTAGTG-TAACATAGTCAAAT
1 CGCACACTTAGTGCT-ACATAATCAACT
30886829 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30886844 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30886805 original size:82 final size:81
Alignment explanation
Indices: 30886687--30886842 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
30886677 TGCTATATAA
*
30886687 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCT-ACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTG-TAACATAGTCAAA-TCGC
30886751 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
30886769 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGTAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCA
30886833 CACTTAGTGC
65 CACTTAGTGC
30886843 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30889582 original size:28 final size:28
Alignment explanation
Indices: 30889538--30889596 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
30889528 CCATCGTCGA
30889538 GTAAGTACTATACATTTAAAATGTTCAG
1 GTAAGTACTATACATTTAAAATGTTCAG
*
30889566 GTAAGTACTATATATTTAAAATGTTCAG
1 GTAAGTACTATACATTTAAAATGTTCAG
30889594 GTA
1 GTA
30889597 CGTATTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (28 bp):
GTAAGTACTATACATTTAAAATGTTCAG
Found at i:30895406 original size:40 final size:40
Alignment explanation
Indices: 30895362--30895545 Score: 305
Period size: 40 Copynumber: 4.6 Consensus size: 40
30895352 CTACTCGCTT
* *** *
30895362 AAATGCCTTCGGGACTTAGCCCAGTTTTAGTAGCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
30895402 AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
*
30895442 AAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
*
30895482 AAATACCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
30895522 AAATGCCTTCGGGACTTAGCCCGG
1 AAATGCCTTCGGGACTTAGCCCGG
30895546 TTATCATCCG
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCAC
Found at i:30903966 original size:28 final size:28
Alignment explanation
Indices: 30903920--30903996 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 28
30903910 TTAGAATATG
* *
30903920 CCACAAAGGCCTTCC-TTTCTATAGGTCA
1 CCACAAA-GACTTCCATTTCTATAGATCA
**
30903948 CCACAAAGACTTCCATTTC-ATAGATTG
1 CCACAAAGACTTCCATTTCTATAGATCA
* *
30903975 CTACAAAGGCTTCCATTT-TATA
1 CCACAAAGACTTCCATTTCTATA
30903997 ACGTGTTCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
27 30 0.73
28 11 0.27
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
CCACAAAGACTTCCATTTCTATAGATCA
Done.