Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 108 of 171
Found at i:34638174 original size:41 final size:41
Alignment explanation
Indices: 34638108--34638186 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
34638098 TATTTGTAAT
* * * *
34638108 TGTATCTGTGGCATGATTGTATTTGTAACTGTATCTGTGAC
1 TGTATCTGTGCCATGACTATATTTGTAACTGTAACTGTGAC
* *
34638149 TGTATCTGTGCCATGACTATTTTTGTAATTGTAACTGT
1 TGTATCTGTGCCATGACTATATTTGTAACTGTAACTGT
34638187 ATTATTTCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.20, C:0.13, G:0.22, T:0.46
Consensus pattern (41 bp):
TGTATCTGTGCCATGACTATATTTGTAACTGTAACTGTGAC
Found at i:34640816 original size:19 final size:19
Alignment explanation
Indices: 34640746--34640817 Score: 53
Period size: 19 Copynumber: 3.8 Consensus size: 19
34640736 CATGTACTTT
*
34640746 ATTTTT-AATTTTTTTATGA
1 ATTTTTAAATTATTTTAT-A
34640765 ATTGTTTATATATT-TTTTA-A
1 ATT-TTTA-A-ATTATTTTATA
* *
34640785 AATTTTGAA-TATTTTATA
1 ATTTTTAAATTATTTTATA
34640803 ATTTTTAAATTATTT
1 ATTTTTAAATTATTT
34640818 ATTGACATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
16 1 0.02
17 6 0.14
18 9 0.21
19 11 0.26
20 6 0.14
22 6 0.14
23 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTTAAATTATTTTATA
Found at i:34640817 original size:28 final size:30
Alignment explanation
Indices: 34640745--34640819 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 30
34640735 ACATGTACTT
* *
34640745 TATTTTTAATTTTTTTATGAATTGTTTATA
1 TATTTTTAAATTATTTATGAATTGTTTATA
34640775 TATTTTTTAAA--ATTT-TGAATAT-TTTATA
1 TA-TTTTTAAATTATTTATGAAT-TGTTTATA
34640803 -ATTTTTAAATTATTTAT
1 TATTTTTAAATTATTTAT
34640820 TGACATAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
26 8 0.21
27 1 0.03
28 15 0.39
29 5 0.13
30 2 0.05
31 7 0.18
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (30 bp):
TATTTTTAAATTATTTATGAATTGTTTATA
Found at i:34646284 original size:42 final size:42
Alignment explanation
Indices: 34646225--34646310 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
34646215 GAATTAGAGT
* * *
34646225 AGTTAGATGTGAAGACTATTTTCCTTCACAGAGACCTTGAGG
1 AGTTAGACGTGAAGACTATTTTCCTTAACAGAGACCTCGAGG
*
34646267 AGTTAGACGTGAAGACTATTTTCCTTAACGGAGACCTCGAGG
1 AGTTAGACGTGAAGACTATTTTCCTTAACAGAGACCTCGAGG
34646309 AG
1 AG
34646311 GATATCTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
AGTTAGACGTGAAGACTATTTTCCTTAACAGAGACCTCGAGG
Found at i:34646861 original size:61 final size:61
Alignment explanation
Indices: 34646766--34646892 Score: 218
Period size: 61 Copynumber: 2.1 Consensus size: 61
34646756 ACTCTCAATG
* *
34646766 GAACACCCATATCTCGTTTCTATTACCGGAGTAGGGATACGGAGAGTTACTGTACATGTAA
1 GAACACCCATATCTCGTTTCTATTACCAGAGTAGGGATACAGAGAGTTACTGTACATGTAA
* *
34646827 GAACACCCATATCTCGTTTTTATTACCAGAGTAGGGATACAGAGAGTTACTGTACATGTAG
1 GAACACCCATATCTCGTTTCTATTACCAGAGTAGGGATACAGAGAGTTACTGTACATGTAA
34646888 GAACA
1 GAACA
34646893 TTCTCATAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (61 bp):
GAACACCCATATCTCGTTTCTATTACCAGAGTAGGGATACAGAGAGTTACTGTACATGTAA
Found at i:34647973 original size:26 final size:26
Alignment explanation
Indices: 34647932--34648114 Score: 108
Period size: 26 Copynumber: 7.3 Consensus size: 26
34647922 TATTCATTAC
*
34647932 GTTTACGCTCGTCAGCTTATATATGT
1 GTTTACGCTCGCCAGCTTATATATGT
* ** * *
34647958 GTTTACGCTCACCAGCTTGCACA--C
1 GTTTACGCTCGCCAGCTTATATATGT
* *
34647982 GTTTATGCTCGTCAGCTTATATATGT
1 GTTTACGCTCGCCAGCTTATATATGT
* ** * *
34648008 GTTTATGCTCGCCAGCTTGCACA--C
1 GTTTACGCTCGCCAGCTTATATATGT
* * * *
34648032 ATTTATGCTCGTCAGCTTATATATGC
1 GTTTACGCTCGCCAGCTTATATATGT
* ** * *
34648058 GTTTATGCTCGCCAGCTTGCACA--C
1 GTTTACGCTCGCCAGCTTATATATGT
* *
34648082 GTTTACGCTTGTCAGCTTATATATGT
1 GTTTACGCTCGCCAGCTTATATATGT
34648108 GTTTACG
1 GTTTACG
34648115 TAATTCGACA
Statistics
Matches: 116, Mismatches: 35, Indels: 12
0.71 0.21 0.07
Matches are distributed among these distances:
24 53 0.46
26 63 0.54
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (26 bp):
GTTTACGCTCGCCAGCTTATATATGT
Found at i:34648005 original size:50 final size:50
Alignment explanation
Indices: 34647930--34648114 Score: 298
Period size: 50 Copynumber: 3.7 Consensus size: 50
34647920 CGTATTCATT
*
34647930 ACGTTTACGCTCGTCAGCTTATATATGTGTTTACGCTCACCAGCTTGCAC
1 ACGTTTACGCTCGTCAGCTTATATATGTGTTTACGCTCGCCAGCTTGCAC
* *
34647980 ACGTTTATGCTCGTCAGCTTATATATGTGTTTATGCTCGCCAGCTTGCAC
1 ACGTTTACGCTCGTCAGCTTATATATGTGTTTACGCTCGCCAGCTTGCAC
* * * *
34648030 ACATTTATGCTCGTCAGCTTATATATGCGTTTATGCTCGCCAGCTTGCAC
1 ACGTTTACGCTCGTCAGCTTATATATGTGTTTACGCTCGCCAGCTTGCAC
*
34648080 ACGTTTACGCTTGTCAGCTTATATATGTGTTTACG
1 ACGTTTACGCTCGTCAGCTTATATATGTGTTTACG
34648115 TAATTCGACA
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 125 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (50 bp):
ACGTTTACGCTCGTCAGCTTATATATGTGTTTACGCTCGCCAGCTTGCAC
Found at i:34648097 original size:24 final size:24
Alignment explanation
Indices: 34647970--34648099 Score: 116
Period size: 24 Copynumber: 5.2 Consensus size: 24
34647960 TTACGCTCAC
34647970 CAGCTTGCACACGTTTATGCTCGT
1 CAGCTTGCACACGTTTATGCTCGT
** * * *
34647994 CAGCTTATATATGTGTTTATGCTCGC
1 CAGCTTGCACA--CGTTTATGCTCGT
*
34648020 CAGCTTGCACACATTTATGCTCGT
1 CAGCTTGCACACGTTTATGCTCGT
** * *
34648044 CAGCTTATATATGCGTTTATGCTCGC
1 CAGCTTGCACA--CGTTTATGCTCGT
* *
34648070 CAGCTTGCACACGTTTACGCTTGT
1 CAGCTTGCACACGTTTATGCTCGT
34648094 CAGCTT
1 CAGCTT
34648100 ATATATGTGT
Statistics
Matches: 80, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
24 42 0.52
26 38 0.47
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.36
Consensus pattern (24 bp):
CAGCTTGCACACGTTTATGCTCGT
Found at i:34656720 original size:51 final size:51
Alignment explanation
Indices: 34656636--34656872 Score: 314
Period size: 51 Copynumber: 4.6 Consensus size: 51
34656626 GCTATAAACG
*
34656636 AAAGAGTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
1 AAAG-GTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * *
34656688 AAAGGTCCGGTAACTAAGTGTCATCATTAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * *
34656739 AAAGGTTCGGTGACTAAATGTTATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * * * *
34656790 AAAGGTCCGATGGCTAAGTGTCATCGTGAGTAAATGAATCCATGATGAATT
1 AAAGGTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
34656841 AAAGGTCCGATGA-TAATATGTCATCGTGAGTA
1 AAAGGTCCGGTGACTAA-GTGTCATCGTGAGTA
34656873 TTAAATGAAA
Statistics
Matches: 163, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 3 0.02
51 156 0.96
52 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:34664131 original size:102 final size:101
Alignment explanation
Indices: 34663945--34664195 Score: 324
Period size: 102 Copynumber: 2.5 Consensus size: 101
34663935 CTAAGTGTCA
* * * *
34663945 AATCCTTTACAGATTATAGGTCTGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAAAT
1 AATCCTTTACGGATTAAAGGTCCGATGACTAA-TGTCATCGTGAGTAAATGAATCCTTTACAAAT
* * *
34664010 TAAAAGTTCAGTGACTAAGTGTCATTGTGAGTAAATG
65 TAAAAGTCCAATGACTAAGTGTCATCGTGAGTAAATG
* **
34664047 AATCCTTTACGGATTAAAGGTCCGATGACTAGATGTCATTGTGAGTAAATGAATCCTTTACGGAT
1 AATCCTTTACGGATTAAAGGTCCGATGACTA-ATGTCATCGTGAGTAAATGAATCCTTTACAAAT
* *
34664112 TAAAGGTCCAATGAGTAAGTGTCATCGTGAGTAAATG
65 TAAAAGTCCAATGACTAAGTGTCATCGTGAGTAAATG
* * *
34664149 AATCCATGACGAATTAAAGGTCCGATGA-TAATATGTCATCGTGAGTA
1 AATCCTTTACGGATTAAAGGTCCGATGACT-A-ATGTCATCGTGAGTA
34664196 TTAAATGAAA
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
101 1 0.01
102 128 0.98
103 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (101 bp):
AATCCTTTACGGATTAAAGGTCCGATGACTAATGTCATCGTGAGTAAATGAATCCTTTACAAATT
AAAAGTCCAATGACTAAGTGTCATCGTGAGTAAATG
Found at i:34664165 original size:51 final size:51
Alignment explanation
Indices: 34663970--34664195 Score: 294
Period size: 51 Copynumber: 4.4 Consensus size: 51
34663960 ATAGGTCTGG
* * * *
34663970 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAAATTAAAAGTTCAG
1 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATTAAAGGTCCAA
* * *
34664021 TGACTAAGTGTCATTGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
1 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATTAAAGGTCCAA
* *
34664072 TGACT-AGATGTCATTGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCAA
1 TGACTAAG-TGTCATCGTGAGTAAATGAATCCTTTACGAATTAAAGGTCCAA
* * * *
34664123 TGAGTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAAGGTCCGA
1 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATTAAAGGTCCAA
*
34664174 TGA-TAATATGTCATCGTGAGTA
1 TGACTAA-GTGTCATCGTGAGTA
34664196 TTAAATGAAA
Statistics
Matches: 157, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
50 5 0.03
51 150 0.96
52 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (51 bp):
TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATTAAAGGTCCAA
Found at i:34666912 original size:250 final size:250
Alignment explanation
Indices: 34666466--34666965 Score: 955
Period size: 250 Copynumber: 2.0 Consensus size: 250
34666456 CTGATTTCCT
*
34666466 TCTAAAATATCTCTAGCCAATCTTTTCCAAATGAGCTTCTTGATTTTTTGGGTATTATCCCCCAT
1 TCTAAAATATCTCTAACCAATCTTTTCCAAATGAGCTTCTTGATTTTTTGGGTATTATCCCCCAT
*
34666531 CAACCCATCCATCTGTCGTTCTCCCTTTTCTTTTAATTCGGCCACCTCATCCAAATCAAGAAGAT
66 CAACCCATCCATCTGTCGTTCTCCCTTTTCTTTTAATTCAGCCACCTCATCCAAATCAAGAAGAT
34666596 TCCCTGATTCTTATTTATTTACTTAAAAGGTGACGGAAAAAAGTTCCCTTTTCGCGGTAAATTCT
131 TCCCTGATTCTTATTTATTTACTTAAAAGGTGACGGAAAAAAGTTCCCTTTTCGCGGTAAATTCT
*
34666661 ACCCCAATTTTGGAGATTCCACCACTACACCTTCGAAAAATAGTGAACATCCATC
196 ACCCCAATTTTGGAAATTCCACCACTACACCTTCGAAAAATAGTGAACATCCATC
*
34666716 TCTACAATATCTCTAACCAATCTTTTCCAAATGAGCTTCTTGATTTTTTGGGTATTATCCCCCAT
1 TCTAAAATATCTCTAACCAATCTTTTCCAAATGAGCTTCTTGATTTTTTGGGTATTATCCCCCAT
34666781 CAACCCATCCATCTGTCGTTCTCCCTTTTCTTTTAATTCAGCCACCTCATCCAAATCAAGAAGAT
66 CAACCCATCCATCTGTCGTTCTCCCTTTTCTTTTAATTCAGCCACCTCATCCAAATCAAGAAGAT
34666846 TCCCTGATTCTTATTTATTTACTTAAAAGGTGACGGAAAAAAGTTCCCTTTTCGCGGTAAATTCT
131 TCCCTGATTCTTATTTATTTACTTAAAAGGTGACGGAAAAAAGTTCCCTTTTCGCGGTAAATTCT
*
34666911 ACCCCAATTTTGGAAATTCCACCACTACCCCTTCGAAAAATAGTGAACATCCATC
196 ACCCCAATTTTGGAAATTCCACCACTACACCTTCGAAAAATAGTGAACATCCATC
34666966 CCTTTGGTCA
Statistics
Matches: 245, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
250 245 1.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (250 bp):
TCTAAAATATCTCTAACCAATCTTTTCCAAATGAGCTTCTTGATTTTTTGGGTATTATCCCCCAT
CAACCCATCCATCTGTCGTTCTCCCTTTTCTTTTAATTCAGCCACCTCATCCAAATCAAGAAGAT
TCCCTGATTCTTATTTATTTACTTAAAAGGTGACGGAAAAAAGTTCCCTTTTCGCGGTAAATTCT
ACCCCAATTTTGGAAATTCCACCACTACACCTTCGAAAAATAGTGAACATCCATC
Found at i:34668171 original size:20 final size:20
Alignment explanation
Indices: 34668126--34668185 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
34668116 GCAATCCATA
*
34668126 ATAATTTTTGGTACTCT-TAC
1 ATAATTTTTGGTAATCTCT-C
34668146 AT--TTTTTGGTAATCTCTC
1 ATAATTTTTGGTAATCTCTC
* *
34668164 ATAATTTTTTGTATTCTCTC
1 ATAATTTTTGGTAATCTCTC
34668184 AT
1 AT
34668186 TTTTTTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 15 0.44
19 1 0.03
20 18 0.53
ACGTcount: A:0.22, C:0.15, G:0.08, T:0.55
Consensus pattern (20 bp):
ATAATTTTTGGTAATCTCTC
Found at i:34668190 original size:19 final size:20
Alignment explanation
Indices: 34668146--34668195 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
34668136 GTACTCTTAC
*
34668146 ATTTTTTGGTAATCTCTCAT
1 ATTTTTTTGTAATCTCTCAT
* *
34668166 AATTTTTTGTATTCTCTCAT
1 ATTTTTTTGTAATCTCTCAT
34668186 -TTTTTTTGTA
1 ATTTTTTTGTA
34668196 CTCCATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.18, C:0.12, G:0.08, T:0.62
Consensus pattern (20 bp):
ATTTTTTTGTAATCTCTCAT
Found at i:34668190 original size:39 final size:39
Alignment explanation
Indices: 34668112--34668222 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 39
34668102 CAAAACAATA
* * *
34668112 TTTGGCAATCCATAATAATTTTTGGTACTCT-TACATTT
1 TTTGGTAATCCATAATAATTTTTTGTATTCTCTACATTT
*
34668150 TTTGGTAATCTC-TCATAATTTTTTGTATTCTCT-CATTTT
1 TTTGGTAATC-CATAATAATTTTTTGTATTCTCTACA-TTT
* *
34668189 TTTTGTACTCCATAATAAATTTTTTTGTATTCTC
1 TTTGGTAATCCATAAT-AA-TTTTTTGTATTCTC
34668223 AAGTTTTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
38 28 0.47
39 16 0.27
40 2 0.03
41 14 0.23
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (39 bp):
TTTGGTAATCCATAATAATTTTTTGTATTCTCTACATTT
Found at i:34668245 original size:21 final size:19
Alignment explanation
Indices: 34668168--34668252 Score: 64
Period size: 19 Copynumber: 4.2 Consensus size: 19
34668158 TCTCTCATAA
**
34668168 TTTTTTGTATTCTCTCATT
1 TTTTTTGTATTCTCAAATT
*
34668187 TTTTTTGTACTC-CATAATAAAT
1 TTTTTTGTATTCTCA-AAT---T
*
34668209 TTTTTTGTATTCTCAAGTT
1 TTTTTTGTATTCTCAAATT
*
34668228 TTTTTTGTACTTTTTCAAATT
1 TTTTTTGTA--TTCTCAAATT
34668249 TTTT
1 TTTT
34668253 ATGCTTTCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
18 1 0.02
19 23 0.44
21 12 0.23
22 14 0.27
23 2 0.04
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.64
Consensus pattern (19 bp):
TTTTTTGTATTCTCAAATT
Found at i:34670100 original size:18 final size:18
Alignment explanation
Indices: 34669979--34670101 Score: 56
Period size: 18 Copynumber: 6.7 Consensus size: 18
34669969 TTGATAGTCC
34669979 CTCATAATTTTTGGTACT
1 CTCATAATTTTTGGTACT
* *
34669997 CTCA-AATTTTTAATGT-CC
1 CTCATAATTTTT--GGTACT
* **
34670015 CTCATATTTTTTTATACT
1 CTCATAATTTTTGGTACT
34670033 -T-ATAATTTTTGGTACTT
1 CTCATAATTTTTGGTAC-T
* * *
34670050 GCTTCATACTTTTTTGTATTCC
1 -C-TCATAATTTTTGGTA--CT
* **
34670072 CTCGTGTTTTTTGGTACT
1 CTCATAATTTTTGGTACT
34670090 CTCATAATTTTT
1 CTCATAATTTTT
34670102 TATATCATTA
Statistics
Matches: 75, Mismatches: 19, Indels: 22
0.65 0.16 0.19
Matches are distributed among these distances:
16 11 0.15
17 11 0.15
18 20 0.27
19 8 0.11
20 12 0.16
21 12 0.16
23 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (18 bp):
CTCATAATTTTTGGTACT
Found at i:34676424 original size:20 final size:23
Alignment explanation
Indices: 34676378--34676429 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 23
34676368 TCGTAACAAA
*
34676378 ATTTCTTAGTATGCAAAAATAAT
1 ATTTCTTAGTATGCAAAAATAAG
*
34676401 ATTTCTTA-TAT-CAAAAAT-CG
1 ATTTCTTAGTATGCAAAAATAAG
34676421 ATTTCTTAG
1 ATTTCTTAG
34676430 ACCAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
21 7 0.27
22 3 0.12
23 8 0.31
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (23 bp):
ATTTCTTAGTATGCAAAAATAAG
Found at i:34676898 original size:57 final size:60
Alignment explanation
Indices: 34676766--34676938 Score: 201
Period size: 57 Copynumber: 2.9 Consensus size: 60
34676756 TTAATATAAC
* *
34676766 ATTTGATACCTGAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTTGACCAG
1 ATTTGATACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGACCAG
* *
34676826 ATTTGGTACCTAAACTTGACACTTTTTC-TAATTTGGTA-CTTAA-TTTTTTTGGACCCA-
1 ATTTGATACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGA-CCAG
* * * * *
34676883 ATTTGATACCAAAACTTGGCATTTTTTTCCCCTAATTTGGTACCTAAGCTTTTTTT
1 ATTTGATACCTAAACTTGACA-CTTTTT--CTTAATTTGGTACCTAAACTTTTTTT
34676939 AGATTTAATT
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
57 27 0.28
58 12 0.12
59 10 0.10
60 27 0.28
61 10 0.10
62 3 0.03
63 7 0.07
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (60 bp):
ATTTGATACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGACCAG
Found at i:34677190 original size:59 final size:58
Alignment explanation
Indices: 34677096--34677248 Score: 182
Period size: 59 Copynumber: 2.6 Consensus size: 58
34677086 AATTAATATT
* * * * * * *
34677096 AAAAAAGATTAGGTATCAAATTAAGAAAAGAGTCAAGTTT-AGGTACTAAATTGGACCC
1 AAAAAAGTTTAAGTACCAAATTAAAAAAAGTGTCAAGTTTGA-GTACCAAATTGGACCA
*
34677154 AAAAAAGTTTTAAGTACCAACTTAAAAAAAGTGTCAAGTTTGAGTACCAAATTGGACCA
1 AAAAAAG-TTTAAGTACCAAATTAAAAAAAGTGTCAAGTTTGAGTACCAAATTGGACCA
* *
34677213 AAAAAAGTTTAGGTACCAAATTAAGAAAAAATGTCA
1 AAAAAAGTTTAAGTACCAAATTAA-AAAAAGTGTCA
34677249 TGTATCAAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
58 22 0.27
59 58 0.72
60 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.24
Consensus pattern (58 bp):
AAAAAAGTTTAAGTACCAAATTAAAAAAAGTGTCAAGTTTGAGTACCAAATTGGACCA
Found at i:34677624 original size:18 final size:21
Alignment explanation
Indices: 34677579--34677625 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
34677569 AATGAGAAAA
*
34677579 TACCAAAAATTTATGTGAGAG
1 TACCAAAAATTGATGTGAGAG
*
34677600 TAGCAAAAATTGA-G-GA-AG
1 TACCAAAAATTGATGTGAGAG
34677618 TACCAAAA
1 TACCAAAA
34677626 CTTTGGAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.39
19 2 0.09
20 1 0.04
21 11 0.48
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (21 bp):
TACCAAAAATTGATGTGAGAG
Found at i:34678142 original size:18 final size:17
Alignment explanation
Indices: 34678107--34678168 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
34678097 TTCATTTTGG
34678107 GTTTAAATTTAGTTTAA
1 GTTTAAATTTAGTTTAA
34678124 GTTTAAACTTT-GTTTTAA
1 GTTTAAA-TTTAG-TTTAA
*
34678142 GTTTAAATTTAATTTGAA
1 GTTTAAATTTAGTTT-AA
34678160 -TTTAAATTT
1 GTTTAAATTT
34678169 GAATTAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
17 23 0.57
18 17 0.43
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.55
Consensus pattern (17 bp):
GTTTAAATTTAGTTTAA
Found at i:34678867 original size:6 final size:6
Alignment explanation
Indices: 34678833--34678918 Score: 84
Period size: 6 Copynumber: 14.3 Consensus size: 6
34678823 CTTTAGTCAC
* * * * *
34678833 AATAAT GATAAT AATATT AATTAT AATAAT AATAAT AACAAT AGTAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
** *
34678881 AA-ATAT AATAAT AATAAT AATAAT TTTAAT AGTAAT AA
1 AATA-AT AATAAT AATAAT AATAAT AATAAT AATAAT AA
34678919 CAAAGAAAGT
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
5 1 0.02
6 61 0.97
7 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (6 bp):
AATAAT
Found at i:34678903 original size:9 final size:9
Alignment explanation
Indices: 34678833--34678918 Score: 84
Period size: 9 Copynumber: 9.6 Consensus size: 9
34678823 CTTTAGTCAC
*
34678833 AATAATGAT
1 AATAATAAT
*
34678842 AATAATATT
1 AATAATAAT
*
34678851 AATTATAAT
1 AATAATAAT
34678860 AATAATAAT
1 AATAATAAT
* *
34678869 AACAATAGT
1 AATAATAAT
34678878 AATAA-ATAT
1 AATAATA-AT
34678887 AATAATAAT
1 AATAATAAT
34678896 AATAATAAT
1 AATAATAAT
** *
34678905 TTTAATAGT
1 AATAATAAT
34678914 AATAA
1 AATAA
34678919 CAAAGAAAGT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
8 1 0.02
9 59 0.97
10 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (9 bp):
AATAATAAT
Found at i:34678910 original size:15 final size:15
Alignment explanation
Indices: 34678835--34678918 Score: 68
Period size: 15 Copynumber: 5.8 Consensus size: 15
34678825 TTAGTCACAA
*
34678835 TAATGATAATAATAT
1 TAATAATAATAATAT
*
34678850 TAAT--T-ATAATAA
1 TAATAATAATAATAT
* *
34678862 TAATAATAACAATAG
1 TAATAATAATAATAT
*
34678877 TAATAA-ATATAATAA
1 TAATAATA-ATAATAT
*
34678892 TAATAATAATAATTT
1 TAATAATAATAATAT
*
34678907 TAATAGTAATAA
1 TAATAATAATAA
34678919 CAAAGAAAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
12 10 0.18
13 1 0.02
14 2 0.04
15 42 0.75
16 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (15 bp):
TAATAATAATAATAT
Found at i:34679633 original size:29 final size:30
Alignment explanation
Indices: 34679595--34679690 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 30
34679585 CCAAAATTTT
34679595 ATTTTAACCCCAATTTTTCCAAAAATTACC
1 ATTTTAACCCCAATTTTTCCAAAAATTACC
* **
34679625 ATTTTACCCCCAA-ACTTCCAAAAATT-CC
1 ATTTTAACCCCAATTTTTCCAAAAATTACC
* **
34679653 ATTTTTGA-CCC-ATTTTT-TTAAAATTACC
1 A-TTTTAACCCCAATTTTTCCAAAAATTACC
34679681 ATTTT-ACCCC
1 ATTTTAACCCC
34679691 TTGATATCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
26 1 0.02
27 14 0.26
28 11 0.21
29 15 0.28
30 12 0.23
ACGTcount: A:0.32, C:0.28, G:0.01, T:0.39
Consensus pattern (30 bp):
ATTTTAACCCCAATTTTTCCAAAAATTACC
Found at i:34686643 original size:18 final size:19
Alignment explanation
Indices: 34686617--34686659 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
34686607 AGATGTGAAG
34686617 GAAAAGAAGAAAGAGAT-A
1 GAAAAGAAGAAAGAGATGA
* **
34686635 GAAAGGAAGCGAGAGATGA
1 GAAAAGAAGAAAGAGATGA
34686654 GAAAAG
1 GAAAAG
34686660 CACAACTGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.58, C:0.02, G:0.35, T:0.05
Consensus pattern (19 bp):
GAAAAGAAGAAAGAGATGA
Found at i:34691548 original size:49 final size:47
Alignment explanation
Indices: 34691494--34692151 Score: 288
Period size: 49 Copynumber: 13.4 Consensus size: 47
34691484 GAAGGAAAGA
* *
34691494 TTTAAGACGTAACGGCGAATCCAGTATCTCAAAGATGCAAAGGGAAGGG
1 TTTAAGACGCAACGGCGAATCCAGTACCTCAAAGA--CAAAGGGAAGGG
* * * * * *
34691543 TTTAAGTCGCAACGACGAA-CCTTGTACCTCAGAGACATGAAGGGAAAAGA
1 TTTAAGACGCAACGGCGAATCC-AGTACCTCAAAGACA--AAGGG-AAGGG
* *
34691593 TTTAAGCCGCAACGGCGAATCCAGTACCGCAAAGGCACAAAGGGAAGGG
1 TTTAAGACGCAACGGCGAATCCAGTACCTCAAA-G-ACAAAGGGAAGGG
* * * * ** * * *
34691642 TTTAAGTCACAATGGTGAA-CTTTGTACCTCAGAGACATGAAGGGAAAGA
1 TTTAAGACGCAACGGCGAATC-CAGTACCTCAAAGACA--AAGGGAAGGG
* * ** * *
34691691 TTTAAGCCGTAACAACGAATCTAGTACCGCAAAGACACAAAGGGAAGGGG
1 TTTAAGACGCAACGGCGAATCCAGTACCTCAAAG--ACAAAGGGAA-GGG
* ** * * * * * *
34691741 TTTAAGTCATAATGGCGAA-CCTTGTACCTTAGAGACATGAAGGGAAAGA
1 TTTAAGACGCAACGGCGAATCC-AGTACCTCAAAGACA--AAGGGAAGGG
* * * * *
34691790 TCTAAGCCGCAACGGTGGATCCAGTACCTCAAAGACACAAAGGGAAAGG
1 TTTAAGACGCAACGGCGAATCCAGTACCTCAAAG--ACAAAGGGAAGGG
* * * * * * *
34691839 TTTAGGTCACAATGGCGAA-CCTAGTGCCTCAAAGACATGAAGGGAAAGA
1 TTTAAGACGCAACGGCGAATCC-AGTACCTCAAAGACA--AAGGGAAGGG
* * * * * *
34691888 TTTAAGCCACAACGACGAATCCAGTACCACGAAGACACAAAGGGAAAGG
1 TTTAAGACGCAACGGCGAATCCAGTACCTC-AA-AGACAAAGGGAAGGG
* ***
34691937 TTTAAGTCGCAACGGCGAA-CCTAGTACCTCAAAGACATGAAGGGAAATA
1 TTTAAGACGCAACGGCGAATCC-AGTACCTCAAAGACA--AAGGGAAGGG
* * * * * *
34691986 TTTAAGTCGTAACGGCAAATCCAGTACCACGAAGACACAAAGGGAAAGG
1 TTTAAGACGCAACGGCGAATCCAGTACCTC-AA-AGACAAAGGGAAGGG
* * * *
34692035 TTTAAGTCACAACGGCGAA-CCTAGTACCTCAGAAG-CATGAAGGGAAAGA
1 TTTAAGACGCAACGGCGAATCC-AGTACCTCA-AAGACA--AAGGGAAGGG
* * * *
34692084 TTTAAG-CTGCAACGGCGAATCCAGAACCACGAAGGCACAAAGGGAAAGG
1 TTTAAGAC-GCAACGGCGAATCCAGTACCTC-AAAG-ACAAAGGGAAGGG
* *
34692133 TTTAAGTCGCAATGGCGAA
1 TTTAAGACGCAACGGCGAA
34692152 CCTTGTACCT
Statistics
Matches: 465, Mismatches: 102, Indels: 84
0.71 0.16 0.13
Matches are distributed among these distances:
47 14 0.03
48 18 0.04
49 333 0.72
50 78 0.17
51 19 0.04
52 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (47 bp):
TTTAAGACGCAACGGCGAATCCAGTACCTCAAAGACAAAGGGAAGGG
Found at i:34691589 original size:98 final size:98
Alignment explanation
Indices: 34691381--34692170 Score: 933
Period size: 98 Copynumber: 8.0 Consensus size: 98
34691371 GTACCACGAA
* * * * ***
34691381 ACATGAAGGGAATGATTTAAGCCGTAACGGCGAATCCAATA-CA-AGAAGATATGGAGGGAAAGG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACA-AAGACACAAAGGGAAAGG
* *
34691444 TTTAAGTCATAATGACGAACCGTTGTTACCTCAGA-
65 TTTAAGTCACAATGGCGAACC-TTG-TACCTCAGAG
* * * * ** *
34691479 AGCATGAA-GGAAAGATTTAAGACGTAACGGCGAATCCAGTATCTCAAAGATGCAAAGGGAAGGG
1 A-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACAAAGGGAAAGG
* * *
34691543 TTTAAGTCGCAACGACGAACCTTGTACCTCAGAG
65 TTTAAGTCACAATGGCGAACCTTGTACCTCAGAG
* * *
34691577 ACATGAAGGGAAAAGATTTAAGCCGCAACGGCGAATCCAGTACCGCAAAGGCACAAAGGGAAGGG
1 ACATGAAGGG-AAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACAAAGGGAAAGG
* *
34691642 TTTAAGTCACAATGGTGAACTTTGTACCTCAGAG
65 TTTAAGTCACAATGGCGAACCTTGTACCTCAGAG
* ** * * *
34691676 ACATGAAGGGAAAGATTTAAGCCGTAACAACGAATCTAGTACCGCAAAGACACAAAGGGAAGGGG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACAAAGGGAA-AGG
* *
34691741 TTTAAGTCATAATGGCGAACCTTGTACCTTAGAG
65 TTTAAGTCACAATGGCGAACCTTGTACCTCAGAG
* * * *
34691775 ACATGAAGGGAAAGATCTAAGCCGCAACGGTGGATCCAGTACCTCAAAGACACAAAGGGAAAGGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACAAAGGGAAAGGT
* * * *
34691840 TTAGGTCACAATGGCGAACCTAGTGCCTCAAAG
66 TTAAGTCACAATGGCGAACCTTGTACCTCAGAG
* * *
34691873 ACATGAAGGGAAAGATTTAAGCCACAACGACGAATCCAGTACCACGAAGACACAAAGGGAAAGGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACAAAGGGAAAGGT
* * * *
34691938 TTAAGTCGCAACGGCGAACCTAGTACCTCAAAG
66 TTAAGTCACAATGGCGAACCTTGTACCTCAGAG
* * * * *
34691971 ACATGAAGGGAAATATTTAAGTCGTAACGGCAAATCCAGTACCACGAAGACACAAAGGGAAAGGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACAAAGGGAAAGGT
* *
34692036 TTAAGTCACAACGGCGAACCTAGTACCTCAGA-
66 TTAAGTCACAATGGCGAACCTTGTACCTCAGAG
* * * *
34692068 AGCATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCCAGAACCACGAAGGCACAAAGGGAAAGG
1 A-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACAAAGGGAAAGG
* * *
34692133 TTTAAGTCGCAATGGCGAACCTTGTACCTTAGAA
65 TTTAAGTCACAATGGCGAACCTTGTACCTCAGAG
34692167 ACAT
1 ACAT
34692171 AAAAGATCGA
Statistics
Matches: 605, Mismatches: 78, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
97 16 0.03
98 377 0.62
99 211 0.35
100 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (98 bp):
ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACAAAGGGAAAGGT
TTAAGTCACAATGGCGAACCTTGTACCTCAGAG
Found at i:34692809 original size:17 final size:17
Alignment explanation
Indices: 34692787--34692871 Score: 91
Period size: 17 Copynumber: 4.8 Consensus size: 17
34692777 ATTCATTTGG
*
34692787 GTTTAAATTTAGTTTAA
1 GTTTAAATTTAATTTAA
**
34692804 GTTTAAACTTTTTTTTTAA
1 GTTTAAA--TTTAATTTAA
*
34692823 GTTTAAATTTAAATTAA
1 GTTTAAATTTAATTTAA
34692840 GTTTAAATTTAATTTGAA
1 GTTTAAATTTAATTT-AA
34692858 -TTTAAATTTGAATT
1 GTTTAAATTT-AATT
34692872 AATTAAAAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
17 37 0.64
18 6 0.10
19 15 0.26
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.54
Consensus pattern (17 bp):
GTTTAAATTTAATTTAA
Found at i:34692844 original size:11 final size:11
Alignment explanation
Indices: 34692825--34692873 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
34692815 TTTTTTAAGT
34692825 TTAAATTTAAA
1 TTAAATTTAAA
*
34692836 TTAAGTTTAAA
1 TTAAATTTAAA
* *
34692847 TTTAATTTGAAT
1 TTAAATTT-AAA
*
34692859 TTAAATTTGAA
1 TTAAATTTAAA
34692870 TTAA
1 TTAA
34692874 TTAAAAAGTC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:34693535 original size:3 final size:3
Alignment explanation
Indices: 34693527--34693606 Score: 90
Period size: 3 Copynumber: 26.7 Consensus size: 3
34693517 CTTTAGTCAC
* * *
34693527 AAT AAT AAT AAT AAT ATT AAT TAT AAT AAT AAC AAT AAT AAT AA- ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * *
34693575 AAT AAT AAT AGT AAT AGT AAT AGT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34693607 AGAAAGTTGA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
2 1 0.02
3 61 0.97
4 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:34694712 original size:29 final size:28
Alignment explanation
Indices: 34694680--34694954 Score: 121
Period size: 29 Copynumber: 9.4 Consensus size: 28
34694670 CGAACTTTTC
*
34694680 AAAATTCTATTTTTAACCCCGATTTTCCAA
1 AAAATTCCATTTTT-ACCCCGATTTTCC-A
* * *
34694710 AAAATTACCA-TTTTACCTCGAATTTCTA
1 AAAATT-CCATTTTTACCCCGATTTTCCA
* *
34694738 AAAATTCCATTTTTTACCTCGCTTTTTCCA
1 AAAATTCCA-TTTTTACCCCG-ATTTTCCA
*
34694768 AAAATTACCA-TTTTACCCCGAACTTT-CA
1 AAAATT-CCATTTTTACCCCG-ATTTTCCA
* ** *
34694796 AAAATTTCATTTTTAACCCTAATTTTTCAA
1 AAAATTCCATTTTT-ACCCCGA-TTTTCCA
** *
34694826 AAAATTACCA-TTTTACCCTCGAACTTCCC
1 AAAATT-CCATTTTTACCC-CGATTTTCCA
* ** ***
34694855 AAAATTCTATTTTTGACCCTAATTTTTTT
1 AAAATTCCATTTTT-ACCCCGATTTTCCA
* *
34694884 AAAATTACCA-TTTTACCCTCGGA-TATCTA
1 AAAATT-CCATTTTTACCC-C-GATTTTCCA
* * * *
34694913 AAATTTCCGTTTTTACCCCGAACTTTCCC
1 AAAATTCCATTTTTACCCCG-ATTTTCCA
34694942 AAAATTACCATTT
1 AAAATT-CCATTT
34694955 CTCCCCCCGG
Statistics
Matches: 181, Mismatches: 44, Indels: 40
0.68 0.17 0.15
Matches are distributed among these distances:
27 6 0.03
28 30 0.17
29 93 0.51
30 45 0.25
31 7 0.04
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (28 bp):
AAAATTCCATTTTTACCCCGATTTTCCA
Found at i:34694750 original size:58 final size:58
Alignment explanation
Indices: 34694661--34694954 Score: 265
Period size: 58 Copynumber: 5.1 Consensus size: 58
34694651 TAGAAATCCT
* * *
34694661 TTTTACCCCCGAACTTT-TCAAAATTCTATTTTTAACCCCGATTTTCCAAAAAATTACCA
1 TTTTACCCTCGAA-TTTCTAAAAATTCCATTTTTAACCCCGATTTTCC-AAAAATTACCA
* * *
34694720 TTTTA-CCTCGAATTTCTAAAAATTCCATTTTTTACCTCGCTTTTTCCAAAAATTACCA
1 TTTTACCCTCGAATTTCTAAAAATTCCATTTTTAACCCCG-ATTTTCCAAAAATTACCA
* ** *
34694778 TTTTACCC-CGAACTTTC-AAAAATTTCATTTTTAACCCTAATTTTTCAAAAAATTACCA
1 TTTTACCCTCGAA-TTTCTAAAAATTCCATTTTTAACCCCGA-TTTTCCAAAAATTACCA
* ** * * ** ***
34694836 TTTTACCCTCGAACTTCCCAAAATTCTATTTTTGACCCTAATTTTTTTAAAATTACCA
1 TTTTACCCTCGAATTTCTAAAAATTCCATTTTTAACCCCGATTTTCCAAAAATTACCA
* * * * * *
34694894 TTTTACCCTCGGATATCTAAAATTTCCGTTTTT-ACCCCGAACTTTCCCAAAATTACCA
1 TTTTACCCTCGAATTTCTAAAAATTCCATTTTTAACCCCG-ATTTTCCAAAAATTACCA
34694952 TTT
1 TTT
34694955 CTCCCCCCGG
Statistics
Matches: 192, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
57 7 0.04
58 145 0.76
59 40 0.21
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (58 bp):
TTTTACCCTCGAATTTCTAAAAATTCCATTTTTAACCCCGATTTTCCAAAAATTACCA
Found at i:34694888 original size:116 final size:116
Alignment explanation
Indices: 34694661--34694901 Score: 301
Period size: 116 Copynumber: 2.1 Consensus size: 116
34694651 TAGAAATCCT
*
34694661 TTTTACCCCCGAACTTTTCAAAATTCTATTTTTAACCCCGATTTTCCAAAAAATTACCATTTTAC
1 TTTTA-CCCCGAACTTTTCAAAATTCTATTTTTAACCCCAATTTTCCAAAAAATTACCATTTTAC
* * * **
34694726 CTCGAATTTCTAAAAATTCCATTTTTTACCTCGCTTTTTCCAAAAATTACCA
65 CTCGAACTTCCAAAAATTCCATTTTTGACCTCAATTTTTCCAAAAATTACCA
* *
34694778 TTTTACCCCGAAC-TTTCAAAAATT-TCATTTTTAACCCTAATTTTTCAAAAAATTACCATTTTA
1 TTTTACCCCGAACTTTTC-AAAATTCT-ATTTTTAACCCCAATTTTCCAAAAAATTACCATTTTA
* * **
34694841 CCCTCGAACTTCCCAAAATTCTATTTTTGACC-CTAATTTTT-TTAAAATTACCA
64 -CCTCGAACTTCCAAAAATTCCATTTTTGACCTC-AATTTTTCCAAAAATTACCA
34694894 TTTTACCC
1 TTTTACCC
34694902 TCGGATATCT
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
115 5 0.05
116 67 0.62
117 36 0.33
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (116 bp):
TTTTACCCCGAACTTTTCAAAATTCTATTTTTAACCCCAATTTTCCAAAAAATTACCATTTTACC
TCGAACTTCCAAAAATTCCATTTTTGACCTCAATTTTTCCAAAAATTACCA
Found at i:34699240 original size:27 final size:27
Alignment explanation
Indices: 34699202--34699256 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
34699192 TTGGGTGTGG
*
34699202 GTGTGTTTGGTTAAGTAGAAAAGCAGA
1 GTGTGTTTGGTTAAGTAGAAAAACAGA
*
34699229 GTGTGTTTGGTTAGGTAGAAAAACAGA
1 GTGTGTTTGGTTAAGTAGAAAAACAGA
34699256 G
1 G
34699257 GGAGTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.35, T:0.29
Consensus pattern (27 bp):
GTGTGTTTGGTTAAGTAGAAAAACAGA
Found at i:34706005 original size:108 final size:108
Alignment explanation
Indices: 34705813--34706028 Score: 396
Period size: 108 Copynumber: 2.0 Consensus size: 108
34705803 ATCACACATG
34705813 GTCAAAAGCTCATCGATAGACCACTTATACTTATGTGTGTTATAAGAGATCTTAAATGACTCATA
1 GTCAAAAGCTCATCGATAGACCACTTATACTTATGTGTGTTATAAGAGATCTTAAATGACTCATA
*
34705878 CTGAGGTGGAAGAGTGTTCAAAATAAAGTGAACCAAGAATGAC
66 CTGAGGTGGAAGAGAGTTCAAAATAAAGTGAACCAAGAATGAC
* *
34705921 GTCAAAAGCTCATCGATAGACCACTTATCCTTATGTGTGTTATAAGAGATCTTAAATTACTCATA
1 GTCAAAAGCTCATCGATAGACCACTTATACTTATGTGTGTTATAAGAGATCTTAAATGACTCATA
*
34705986 CTGAGGTGGAAGAGAGTTCAAAATAAAGTGCACCAAGAATGAC
66 CTGAGGTGGAAGAGAGTTCAAAATAAAGTGAACCAAGAATGAC
34706029 TTTCAACCTC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 104 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (108 bp):
GTCAAAAGCTCATCGATAGACCACTTATACTTATGTGTGTTATAAGAGATCTTAAATGACTCATA
CTGAGGTGGAAGAGAGTTCAAAATAAAGTGAACCAAGAATGAC
Found at i:34707023 original size:330 final size:329
Alignment explanation
Indices: 34706423--34707073 Score: 993
Period size: 330 Copynumber: 2.0 Consensus size: 329
34706413 AAAGTTCTCA
* ** *
34706423 CTAGTTAATTTAGGGATATATACTCTATTATCAAACATATTCACTGGTTGTAAAGCTACAAAATA
1 CTAGTTAATTCAGGGATATATACTCTATTATCAAACATATTCACAAGTTGTAAAACTACAAAATA
** * *
34706488 AATGAACATACATGCTTAACAAAAAATTGAGGCAAACATCATAATTCACTAATGAAAATTATGTA
66 AATGAACATACATGCTTAACAAAAAATTGAAACAAACATCATAATTCACCAATGAAAATTATATA
*
34706553 AATAATGAATCTAGTGACATAAAAATTGTCTGTGGACTAAATTTGTAATTCAATTAGATCCATTT
131 AATAATAAATCTAGTGACATAAAAATTGTCTGTGGACTAAATTTGTAATTCAATTAGATCCATTT
*
34706618 TATGATAGAATTATTTACTATCATTTTAATAAAAATTATTAAATTCATCTTCAAAATTCTTGTGG
196 TATGATAGAATTATTTACTATCATTTTAATAAAAATTATTAAATTCATCTTCAAAATTCCTGTGG
* *
34706683 GTAACTATGAAAAGTCATTTAATAATTTTATCTTATTAAATTATGCAATGAGATTTAATACATAG
261 GTAACTATGAAAAGTCATTTAATAATTTTACCTTAATAAATTATGCAATGAGATTTAATACATAG
34706748 ATAT
326 ATAT
* * *
34706752 CTAGTTAATTCAGGGATATATATTCTATTA-CAAGATATATTCACAAGTTGTAAAACTGCAAAAT
1 CTAGTTAATTCAGGGATATATACTCTATTATCAA-ACATATTCACAAGTTGTAAAACTACAAAAT
* * * *
34706816 AAATGAACATACATGCTTAACAAAAATTTGAAAACATAA-ATCATACTTTACCAATGCAAATTAT
65 AAATGAACATACATGCTTAACAAAAAATTG-AAACA-AACATCATAATTCACCAATGAAAATTAT
* * *
34706880 ATAAATAATAAATCTATTGACATAAAAATTG-CATGTGGGCTAAATTTTTAATTCAATTAGATCC
128 ATAAATAATAAATCTAGTGACATAAAAATTGTC-TGTGGACTAAATTTGTAATTCAATTAGATCC
* * * * *
34706944 ATTTTATGATAGAATTATTTACTATCCTTTTGATAAAAATTATTAAATTTATTTTCATAATTCCT
192 ATTTTATGATAGAATTATTTACTATCATTTTAATAAAAATTATTAAATTCATCTTCAAAATTCCT
*
34707009 GTTGGTAACTATGAAAAGTCATTTAATAATTTTACCTTAATAAATTATGCAATGAGATTTAATAC
257 GTGGGTAACTATGAAAAGTCATTTAATAATTTTACCTTAATAAATTATGCAATGAGATTTAATAC
34707074 TTATGCTTTC
Statistics
Matches: 290, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
328 3 0.01
329 83 0.29
330 202 0.70
331 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.37
Consensus pattern (329 bp):
CTAGTTAATTCAGGGATATATACTCTATTATCAAACATATTCACAAGTTGTAAAACTACAAAATA
AATGAACATACATGCTTAACAAAAAATTGAAACAAACATCATAATTCACCAATGAAAATTATATA
AATAATAAATCTAGTGACATAAAAATTGTCTGTGGACTAAATTTGTAATTCAATTAGATCCATTT
TATGATAGAATTATTTACTATCATTTTAATAAAAATTATTAAATTCATCTTCAAAATTCCTGTGG
GTAACTATGAAAAGTCATTTAATAATTTTACCTTAATAAATTATGCAATGAGATTTAATACATAG
ATAT
Found at i:34713699 original size:17 final size:17
Alignment explanation
Indices: 34713677--34713718 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
34713667 CTCCCTTGAC
*
34713677 CTTTAACCTTCCATCTT
1 CTTTAACCTTCCATATT
*
34713694 CTTTAACCTTTCATATT
1 CTTTAACCTTCCATATT
34713711 CTTATAAC
1 CTT-TAAC
34713719 TACTTTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.48
Consensus pattern (17 bp):
CTTTAACCTTCCATATT
Found at i:34713965 original size:24 final size:23
Alignment explanation
Indices: 34713937--34713982 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
34713927 ACTAATTAAT
34713937 AATATTATAAATATAAAAAATAAA
1 AATATTATAAAT-TAAAAAATAAA
* *
34713961 AATATTTTAAATTAAAATATAA
1 AATATTATAAATTAAAAAATAA
34713983 TGATTAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AATATTATAAATTAAAAAATAAA
Found at i:34714953 original size:28 final size:28
Alignment explanation
Indices: 34714893--34715194 Score: 236
Period size: 28 Copynumber: 10.6 Consensus size: 28
34714883 AACTGCCACT
* * *
34714893 ATTTTATAGTTTTGTCACTAGTTTTCCAA
1 ATTTTACAGTTTTGCCACT-GTTTTCCAG
* *
34714922 ATTTTATAGTTTTGCCACTGTTTTCCAA
1 ATTTTACAGTTTTGCCACTGTTTTCCAG
* * * *
34714950 ATTTTATAGTTTTGCCACTATTTTTTTTCTAA
1 ATTTTACAGTTTTGCCAC----TGTTTTCCAG
** * *
34714982 ATTTTACAGTTTTGAAATTGTTTTCTAG
1 ATTTTACAGTTTTGCCACTGTTTTCCAG
* * * *
34715010 A-TTTATAGTTTTGCCATCGGATTTCCAT
1 ATTTTACAGTTTTGCCA-CTGTTTTCCAG
*
34715038 ATTTTACAGTTTT-CCACTGTTTTTCAG
1 ATTTTACAGTTTTGCCACTGTTTTCCAG
* * * *
34715065 ATTTTACAGTTTTACTACTATTTTTCAG
1 ATTTTACAGTTTTGCCACTGTTTTCCAG
* * * *
34715093 GTTTTACAGTTTTGTCATTGGTTTTTCAG
1 ATTTTACAGTTTTGCCACT-GTTTTCCAG
34715122 ATTTTACAGTTTTGCCACTGATTTTCCAG
1 ATTTTACAGTTTTGCCACTG-TTTTCCAG
*
34715151 ATTTTACAGTTGTT---ACTGATTTTTCAG
1 ATTTTACAGTT-TTGCCACTG-TTTTCCAG
34715178 ATTTTACAGTTTTGCCA
1 ATTTTACAGTTTTGCCA
34715195 TTATATTTAA
Statistics
Matches: 225, Mismatches: 35, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
26 2 0.01
27 55 0.24
28 73 0.32
29 71 0.32
30 2 0.01
32 22 0.10
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.52
Consensus pattern (28 bp):
ATTTTACAGTTTTGCCACTGTTTTCCAG
Found at i:34715155 original size:9 final size:9
Alignment explanation
Indices: 34715141--34715190 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
34715131 TTTTGCCACT
*
34715141 GATTTTCCA
1 GATTTTACA
34715150 GATTTTACA
1 GATTTTACA
*
34715159 G-TTGTTACT
1 GATT-TTACA
*
34715168 GATTTTTCA
1 GATTTTACA
34715177 GATTTTACA
1 GATTTTACA
34715186 G-TTTT
1 GATTTT
34715191 GCCATTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.18
9 26 0.76
10 2 0.06
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (9 bp):
GATTTTACA
Found at i:34715737 original size:36 final size:36
Alignment explanation
Indices: 34715697--34715866 Score: 259
Period size: 36 Copynumber: 4.7 Consensus size: 36
34715687 AGTTAGTTAG
34715697 TATTTGATTAATTATGCTATACGATAAGGTAAATAT
1 TATTTGATTAATTATGCTATACGATAAGGTAAATAT
*
34715733 TATTTGATTAATTATGCTATACGATAACGTAAATAT
1 TATTTGATTAATTATGCTATACGATAAGGTAAATAT
* * *
34715769 TATTTGATTAATTATGCTATATGATACGGTAAATGT
1 TATTTGATTAATTATGCTATACGATAAGGTAAATAT
* * *
34715805 TATTTGATTGATTATGCTATACGGTATGGTAAATAT
1 TATTTGATTAATTATGCTATACGATAAGGTAAATAT
* *
34715841 TATTTGATTGACTATGCTATACGATA
1 TATTTGATTAATTATGCTATACGATA
34715867 TGCATGATAT
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 122 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (36 bp):
TATTTGATTAATTATGCTATACGATAAGGTAAATAT
Found at i:34715800 original size:72 final size:72
Alignment explanation
Indices: 34715697--34715993 Score: 263
Period size: 72 Copynumber: 3.9 Consensus size: 72
34715687 AGTTAGTTAG
* * *
34715697 TATTTGATTAATTATGCTATACGATAAGGTAAATATTATTTGATTAATTATGCTATACGATAACG
1 TATTTGATTAATTATGCTATATGATATGATAAATATTATTTGATTAATTATGCTATACGATAACG
34715762 TAAATAT
66 TAAATAT
* * * * * **
34715769 TATTTGATTAATTATGCTATATGATACGGTAAATGTTATTTGATTGATTATGCTATACGGTATGG
1 TATTTGATTAATTATGCTATATGATATGATAAATATTATTTGATTAATTATGCTATACGATAACG
34715834 TAAATAT
66 TAAATAT
* * *
34715841 TATTTGATTGACTATGCTATACGATATGCATGATATGATAAATATTATTTGATTAAGTATTCTAT
1 TATTTGATT-A--AT--TAT--GCTAT--ATGATATGATAAATATTATTTGATTAATTATGCTAT
34715906 ACGATATGCATGACATTGTAAATAT
57 ACG--AT--A--AC---GTAAATAT
* * *
34715931 TATTTGATTGATTATG-TATGTATGACATGATAAATATTATTTGATTGATTATGCTATACGATA
1 TATTTGATTAATTATGCTA--TATGATATGATAAATATTATTTGATTAATTATGCTATACGATA
34715994 TGTATGATAT
Statistics
Matches: 183, Mismatches: 22, Indels: 34
0.77 0.09 0.14
Matches are distributed among these distances:
72 74 0.40
73 1 0.01
75 2 0.01
77 3 0.02
78 1 0.01
79 4 0.02
80 2 0.01
81 33 0.18
82 37 0.20
83 2 0.01
84 1 0.01
85 4 0.02
87 2 0.01
90 17 0.09
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (72 bp):
TATTTGATTAATTATGCTATATGATATGATAAATATTATTTGATTAATTATGCTATACGATAACG
TAAATAT
Found at i:34715885 original size:45 final size:45
Alignment explanation
Indices: 34715829--34716206 Score: 477
Period size: 45 Copynumber: 8.6 Consensus size: 45
34715819 TGCTATACGG
* *
34715829 TATGGTAAATATTATTTGATTGACTATGCTATACGATATGCATGA
1 TATGATAAATATTATTTGATTGATTATGCTATACGATATGCATGA
* * *
34715874 TATGATAAATATTATTTGATTAAGTATTCTATACGATATGCATGA
1 TATGATAAATATTATTTGATTGATTATGCTATACGATATGCATGA
*
34715919 CATTG-TAAATATTATTTGATTGATTATG-TAT--G---T--ATGA
1 TA-TGATAAATATTATTTGATTGATTATGCTATACGATATGCATGA
* *
34715956 CATGATAAATATTATTTGATTGATTATGCTATACGATATGTATGA
1 TATGATAAATATTATTTGATTGATTATGCTATACGATATGCATGA
* * * *
34716001 TATGGTAAATATTATTTGATTGATTATGTTGTACTATATGCATGA
1 TATGATAAATATTATTTGATTGATTATGCTATACGATATGCATGA
* * *
34716046 CATGATAAATATTATTTGATTGATTATACTATACAATATGCATGA
1 TATGATAAATATTATTTGATTGATTATGCTATACGATATGCATGA
* * * *
34716091 CATGGTAAATATTATTTGATTGATTTTGCTATACGATATGTATGA
1 TATGATAAATATTATTTGATTGATTATGCTATACGATATGCATGA
* *
34716136 TATGATAAATATTATTTGATTGATTATGCTATACAATATGTATGA
1 TATGATAAATATTATTTGATTGATTATGCTATACGATATGCATGA
* *
34716181 TACGATAAATATTACTTGATTGATTA
1 TATGATAAATATTATTTGATTGATTA
34716207 CGATATATGA
Statistics
Matches: 292, Mismatches: 31, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
36 2 0.01
37 29 0.10
38 3 0.01
39 1 0.00
40 1 0.00
42 1 0.00
43 1 0.00
44 3 0.01
45 249 0.85
46 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.43
Consensus pattern (45 bp):
TATGATAAATATTATTTGATTGATTATGCTATACGATATGCATGA
Found at i:34719170 original size:25 final size:25
Alignment explanation
Indices: 34719141--34719191 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
34719131 AAACGAGCTC
*
34719141 TACGTCAAAGAAGAGAAGTGTTCGT
1 TACGTCAAAGAAGAGAAGTGCTCGT
34719166 TACGTCAAAGAAGAGAAGTGCTCGT
1 TACGTCAAAGAAGAGAAGTGCTCGT
34719191 T
1 T
34719192 TGCCCAACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (25 bp):
TACGTCAAAGAAGAGAAGTGCTCGT
Found at i:34721964 original size:45 final size:45
Alignment explanation
Indices: 34721897--34722024 Score: 177
Period size: 45 Copynumber: 2.8 Consensus size: 45
34721887 GGACGTGACA
* *
34721897 ATATGCATGACATGGTAAATATTATCTGATTGATTATGCTATACG
1 ATATGCATGATATGGTAAATATTATTTGATTGATTATGCTATACG
* *
34721942 ATATGTATGATAT-GTGAAATATTATTTGATTGATTATGCTATATG
1 ATATGCATGATATGGT-AAATATTATTTGATTGATTATGCTATACG
* * *
34721987 ATATGCATGATGTGGTAATTATTATTTGATTAATTATG
1 ATATGCATGATATGGTAAATATTATTTGATTGATTATG
34722025 ATATGGCAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.03
45 69 0.95
46 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (45 bp):
ATATGCATGATATGGTAAATATTATTTGATTGATTATGCTATACG
Found at i:34722036 original size:74 final size:74
Alignment explanation
Indices: 34721947--34722098 Score: 216
Period size: 74 Copynumber: 2.1 Consensus size: 74
34721937 ATACGATATG
* * * * *
34721947 TATGATATGTGAAATATTATTTGATTGATTATGCTATATGATATGCATGATGTGGTAATTATTAT
1 TATGATATGTGAAATATTATTTGATTAAGTATGCTATACGATATGCATGATATGGTAAATATTAT
34722012 TTGATTAAT
66 TTGATTAAT
*
34722021 TATGATATG-GCAAATATTATTTGATTAAGTGTGCTATACGATATGCATGATATGGTAAATATTA
1 TATGATATGTG-AAATATTATTTGATTAAGTATGCTATACGATATGCATGATATGGTAAATATTA
* *
34722085 TTTGCTTGAT
65 TTTGATTAAT
34722095 TATG
1 TATG
34722099 TTATACGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
73 1 0.01
74 68 0.99
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (74 bp):
TATGATATGTGAAATATTATTTGATTAAGTATGCTATACGATATGCATGATATGGTAAATATTAT
TTGATTAAT
Found at i:34722129 original size:119 final size:119
Alignment explanation
Indices: 34721903--34722143 Score: 340
Period size: 119 Copynumber: 2.0 Consensus size: 119
34721893 GACAATATGC
* * * *
34721903 ATGACATGGTAAATATTATCTGATTGATTATGCTATACGATATGTATGATATGTGAAATATTATT
1 ATGACATGGCAAATATTATCTGATTAAGTATGCTATACGATATGCATGATATGTGAAATATTATT
* * *
34721968 TGATTGATTATGCTATATGATATGCATGATGTGGTAATTATTATTTGATTAATT
66 TGATTGATTATGCTATACGATATGCATGATATGGTAAATATTATTTGATTAATT
* * *
34722022 ATGATATGGCAAATATTATTTGATTAAGTGTGCTATACGATATGCATGATATG-GTAAATATTAT
1 ATGACATGGCAAATATTATCTGATTAAGTATGCTATACGATATGCATGATATGTG-AAATATTAT
* * * *
34722086 TTGCTTGATTATGTTATACGATATGCATGATATGGTAAATATTATTTTATTGATT
65 TTGATTGATTATGCTATACGATATGCATGATATGGTAAATATTATTTGATTAATT
34722141 ATG
1 ATG
34722144 TTATACGATA
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
118 1 0.01
119 106 0.99
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (119 bp):
ATGACATGGCAAATATTATCTGATTAAGTATGCTATACGATATGCATGATATGTGAAATATTATT
TGATTGATTATGCTATACGATATGCATGATATGGTAAATATTATTTGATTAATT
Found at i:34722208 original size:45 final size:45
Alignment explanation
Indices: 34722022--34722196 Score: 251
Period size: 45 Copynumber: 3.9 Consensus size: 45
34722012 TTGATTAATT
* * *
34722022 ATGATATGGCAAATATTATTTGATTAAGTGTGCTATACGATATGC
1 ATGATATGGTAAATATTATTTGATTAATTATGCTATACGATATGC
* * *
34722067 ATGATATGGTAAATATTATTTGCTTGATTATGTTATACGATATGC
1 ATGATATGGTAAATATTATTTGATTAATTATGCTATACGATATGC
* * *
34722112 ATGATATGGTAAATATTATTTTATTGATTATGTTATACGATATGC
1 ATGATATGGTAAATATTATTTGATTAATTATGCTATACGATATGC
* *
34722157 GTGATATGGTAAATATTATTTGATTAATTATACTATACGA
1 ATGATATGGTAAATATTATTTGATTAATTATGCTATACGA
34722197 CAGACATGAT
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 117 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (45 bp):
ATGATATGGTAAATATTATTTGATTAATTATGCTATACGATATGC
Found at i:34724221 original size:12 final size:11
Alignment explanation
Indices: 34724193--34724219 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34724183 TTGAATTTTT
34724193 AAAAATTGAAA
1 AAAAATTGAAA
34724204 AAAAATTGAAA
1 AAAAATTGAAA
34724215 AAAAA
1 AAAAA
34724220 ATCATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (11 bp):
AAAAATTGAAA
Found at i:34746696 original size:16 final size:16
Alignment explanation
Indices: 34746675--34746705 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34746665 AGCTACATTC
*
34746675 AAAATACGAAAGACAA
1 AAAATACAAAAGACAA
34746691 AAAATACAAAAGACA
1 AAAATACAAAAGACA
34746706 TAATAATGAA
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:0.71, C:0.13, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:34763140 original size:9 final size:9
Alignment explanation
Indices: 34763118--34763213 Score: 50
Period size: 9 Copynumber: 9.8 Consensus size: 9
34763108 AAAATTATTA
34763118 TTTTAGAAATT
1 TTTTA-AAA-T
34763129 TTTTAAAA-
1 TTTTAAAAT
*
34763137 TTTTAAACT
1 TTTTAAAAT
*
34763146 TTTTATATAT
1 TTTTA-AAAT
*
34763156 TTTCAAAAT
1 TTTTAAAAT
* *
34763165 TTTTATATT
1 TTTTAAAAT
34763174 TTTTAAATAT
1 TTTTAAA-AT
*
34763184 AAATTTTGAAAT
1 ---TTTTAAAAT
34763196 TTTTATAAAT
1 TTTTA-AAAT
34763206 ATTTTAAA
1 -TTTTAAA
34763214 TTTAAAAATT
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
8 7 0.11
9 24 0.37
10 16 0.25
11 10 0.15
12 2 0.03
13 6 0.09
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:34763167 original size:19 final size:18
Alignment explanation
Indices: 34763112--34763180 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
34763102 GGTCTCAAAA
34763112 TTAT-TATTTTAGAAATTT
1 TTATATATTTTA-AAATTT
* *
34763130 TT-TAAAATTTTAAACTTT
1 TTAT-ATATTTTAAAATTT
34763148 TTATATATTTTCAAAATTT
1 TTATATATTTT-AAAATTT
*
34763167 TTATATTTTTTAAA
1 TTATATATTTTAAA
34763181 TATAAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.02
18 18 0.43
19 23 0.55
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (18 bp):
TTATATATTTTAAAATTT
Found at i:34763187 original size:23 final size:24
Alignment explanation
Indices: 34763161--34763207 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
34763151 TATATTTTCA
* *
34763161 AAATTTTTATATTTTT-TAAATAT
1 AAATTTTGAAATTTTTATAAATAT
34763184 AAATTTTGAAATTTTTATAAATAT
1 AAATTTTGAAATTTTTATAAATAT
34763208 TTTAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
AAATTTTGAAATTTTTATAAATAT
Found at i:34763216 original size:19 final size:19
Alignment explanation
Indices: 34763124--34763216 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 19
34763114 ATTATTTTAG
34763124 AAATTTTT-TAAA-ATTTT
1 AAATTTTTATAAATATTTT
34763141 AAACTTTTTAT--ATATTTT
1 AAA-TTTTTATAAATATTTT
*
34763159 CAAAATTTTTAT--ATTTTTT
1 --AAATTTTTATAAATATTTT
*
34763178 AAA----TATAAAT-TTTG
1 AAATTTTTATAAATATTTT
34763192 AAATTTTTATAAATATTTT
1 AAATTTTTATAAATATTTT
34763211 AAATTT
1 AAATTT
34763217 AAAAATTATT
Statistics
Matches: 61, Mismatches: 3, Indels: 22
0.71 0.03 0.26
Matches are distributed among these distances:
13 3 0.05
14 6 0.10
15 2 0.03
17 7 0.11
18 17 0.28
19 23 0.38
20 3 0.05
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (19 bp):
AAATTTTTATAAATATTTT
Found at i:34765084 original size:64 final size:63
Alignment explanation
Indices: 34764984--34765114 Score: 253
Period size: 64 Copynumber: 2.1 Consensus size: 63
34764974 GCTGTATCTA
34764984 CCAAGTGCATATGCTGAACCAGTGGGTCCATATTCTCTTGGCACTCTTCTGATCCTCCAAACT
1 CCAAGTGCATATGCTGAACCAGTGGGTCCATATTCTCTTGGCACTCTTCTGATCCTCCAAACT
34765047 CCAAGTGCATATGCTGTAACCAGTGGGTCCATATTCTCTTGGCACTCTTCTGATCCTCCAAACT
1 CCAAGTGCATATGCTG-AACCAGTGGGTCCATATTCTCTTGGCACTCTTCTGATCCTCCAAACT
34765111 CCAA
1 CCAA
34765115 ATGCCAGCTT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 16 0.24
64 51 0.76
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (63 bp):
CCAAGTGCATATGCTGAACCAGTGGGTCCATATTCTCTTGGCACTCTTCTGATCCTCCAAACT
Found at i:34765440 original size:25 final size:24
Alignment explanation
Indices: 34765408--34765454 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
34765398 AAATAGAGTA
*
34765408 TTTTATTTTGATCACTCTAATTTT
1 TTTTATTTTAATCACTCTAATTTT
*
34765432 TTTTCATTTTAATCACTTTAATT
1 TTTT-ATTTTAATCACTCTAATT
34765455 AAGATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.23, C:0.13, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTTATTTTAATCACTCTAATTTT
Found at i:34768496 original size:36 final size:37
Alignment explanation
Indices: 34768418--34768496 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 37
34768408 AATATAATCA
**
34768418 GTCACATGACATGAAAGAACATACACACATATTTTCT
1 GTCACATGACATGAAAGAACATACACACATATTCACT
* * *
34768455 GTCACATGGCATG-AAGAACATGCCCACATATTCACT
1 GTCACATGACATGAAAGAACATACACACATATTCACT
*
34768491 TTCACA
1 GTCACA
34768497 ACAATCATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 24 0.67
37 12 0.33
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (37 bp):
GTCACATGACATGAAAGAACATACACACATATTCACT
Found at i:34768932 original size:16 final size:17
Alignment explanation
Indices: 34768908--34768941 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
34768898 TCTTAAATCG
34768908 AAACCTTAAAC-CTAAT
1 AAACCTTAAACTCTAAT
*
34768924 AAACTTTAAACTCTAAT
1 AAACCTTAAACTCTAAT
34768941 A
1 A
34768942 TCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (17 bp):
AAACCTTAAACTCTAAT
Found at i:34777814 original size:14 final size:14
Alignment explanation
Indices: 34777797--34777826 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34777787 TTTAAACTCT
*
34777797 AAAAGATAAATCTA
1 AAAAGATAAATATA
34777811 AAAAGATAAATATA
1 AAAAGATAAATATA
34777825 AA
1 AA
34777827 TTAAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:34779361 original size:6 final size:6
Alignment explanation
Indices: 34779350--34779402 Score: 61
Period size: 6 Copynumber: 8.2 Consensus size: 6
34779340 TTTCCTGGAC
*
34779350 AAATAA AAATAA AAATAAA TAAATAA ATAAAAA ATAATAA AAATAA AAATAA
1 AAATAA AAATAA AAAT-AA -AAATAA A-AATAA A-AATAA AAATAA AAATAA
34779402 A
1 A
34779403 TAAAATAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 23 0.55
7 15 0.36
8 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:34779371 original size:4 final size:4
Alignment explanation
Indices: 34779362--34779406 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
34779352 ATAAAAATAA
*
34779362 AAAT AAAT AAAT AAAT AAA- AAAT -AAT AAA- AATAA AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAA
34779407 ATAATTGGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
3 8 0.22
4 26 0.72
5 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:34779407 original size:15 final size:15
Alignment explanation
Indices: 34779356--34779410 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
34779346 GGACAAATAA
*
34779356 AAATAAAA-ATAAAT
1 AAATAAAATAAAAAT
34779370 AAAT-AAATAAAAA-
1 AAATAAAATAAAAAT
34779383 ATAATAAAAATAAAAAT
1 A-AAT-AAAATAAAAAT
34779400 AAATAAAATAA
1 AAATAAAATAA
34779411 TTGGGTTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 4 0.11
14 11 0.31
15 7 0.20
16 12 0.34
17 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:34780934 original size:367 final size:367
Alignment explanation
Indices: 34780261--34780995 Score: 1454
Period size: 367 Copynumber: 2.0 Consensus size: 367
34780251 TCTGTTTGAT
34780261 AGCATCTAATAACGGTATATTTACCTCGACTTTTTTGAATGTTTCGAGGATCTCTTTTTCCTCTT
1 AGCATCTAATAACGGTATATTTACCTCGACTTTTTTGAATGTTTCGAGGATCTCTTTTTCCTCTT
34780326 TACCTTTCTGGTCTTATCTCAACCGTCCTGGAAACGGAGGTTGAATTCTGGGTAATAGAGGTTTC
66 TACCTTTCTGGTCTTATCTCAACCGTCCTGGAAACGGAGGTTGAATTCTGGGTAATAGAGGTTTC
34780391 GATCGGACCTGTTCATTGTTCTTCTATTTTTCCCGGGCATGATTTGTGCCAGGATTTGGTTTCAG
131 GATCGGACCTGTTCATTGTTCTTCTATTTTTCCCGGGCATGATTTGTGCCAGGATTTGGTTTCAG
34780456 TACTTTCTCACTTTGTAGCGTCACTGCATTCACATTTTATCTTGGGTTAGGTTTTGTTTGTGATG
196 TACTTTCTCACTTTGTAGCGTCACTGCATTCACATTTTATCTTGGGTTAGGTTTTGTTTGTGATG
34780521 ACAGTTTACCCTATGCGCTTAATTTCTCAATTAACGTGGTCAACTCTTTTATAGATGCCTCAGTT
261 ACAGTTTACCCTATGCGCTTAATTTCTCAATTAACGTGGTCAACTCTTTTATAGATGCCTCAGTT
34780586 CTCTTTTGAAAATCAATAGTTTGCTTAGCTTCTAATTTATTC
326 CTCTTTTGAAAATCAATAGTTTGCTTAGCTTCTAATTTATTC
34780628 AGCATCTAATAACGGTATATTTACCTCGACTTTTTTGAATGTTTCGAGGATCTCTTTTTCCAT-T
1 AGCATCTAATAACGGTATATTTACCTCGACTTTTTTGAATGTTTCGAGGATCTCTTTTTCC-TCT
34780692 TTACCTTTCTGGTCTTATCTCAACCGTCCTGGAAACGGAGGTTGAATTCTGGGTAATAGAGGTTT
65 TTACCTTTCTGGTCTTATCTCAACCGTCCTGGAAACGGAGGTTGAATTCTGGGTAATAGAGGTTT
34780757 CGATCGGACCTGTTCATTGTTCTTCTATTTTTCCCGGGCATGATTTGTGCCAGGATTTGGTTTCA
130 CGATCGGACCTGTTCATTGTTCTTCTATTTTTCCCGGGCATGATTTGTGCCAGGATTTGGTTTCA
34780822 GTACTTTCTCACTTTGTAGCGTCACTGCATTCACATTTTATCTTGGGTTAGGTTTTGTTTGTGAT
195 GTACTTTCTCACTTTGTAGCGTCACTGCATTCACATTTTATCTTGGGTTAGGTTTTGTTTGTGAT
34780887 GACAGTTTACCCTATGCGCTTAATTTCTCAATTAACGTGGTCAACTCTTTTATAGATGCCTCAGT
260 GACAGTTTACCCTATGCGCTTAATTTCTCAATTAACGTGGTCAACTCTTTTATAGATGCCTCAGT
34780952 TCTCTTTTGAAAATCAATAGTTTGCTTAGCTTCTAATTTATTC
325 TCTCTTTTGAAAATCAATAGTTTGCTTAGCTTCTAATTTATTC
34780995 A
1 A
34780996 CTATGGCTTC
Statistics
Matches: 367, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
367 366 1.00
368 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.42
Consensus pattern (367 bp):
AGCATCTAATAACGGTATATTTACCTCGACTTTTTTGAATGTTTCGAGGATCTCTTTTTCCTCTT
TACCTTTCTGGTCTTATCTCAACCGTCCTGGAAACGGAGGTTGAATTCTGGGTAATAGAGGTTTC
GATCGGACCTGTTCATTGTTCTTCTATTTTTCCCGGGCATGATTTGTGCCAGGATTTGGTTTCAG
TACTTTCTCACTTTGTAGCGTCACTGCATTCACATTTTATCTTGGGTTAGGTTTTGTTTGTGATG
ACAGTTTACCCTATGCGCTTAATTTCTCAATTAACGTGGTCAACTCTTTTATAGATGCCTCAGTT
CTCTTTTGAAAATCAATAGTTTGCTTAGCTTCTAATTTATTC
Found at i:34792149 original size:17 final size:17
Alignment explanation
Indices: 34792123--34792162 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34792113 GCATGCATTT
34792123 ATTTTAATTGTCATT-GC
1 ATTTTAATTGTC-TTCGC
*
34792140 ATTTTTATTGTCTTCGC
1 ATTTTAATTGTCTTCGC
34792157 ATTTTA
1 ATTTTA
34792163 TTTTTTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (17 bp):
ATTTTAATTGTCTTCGC
Found at i:34795115 original size:14 final size:14
Alignment explanation
Indices: 34795096--34795125 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34795086 TTAAAACTCT
*
34795096 AAAAGATAAATTTA
1 AAAAGATAAATATA
34795110 AAAAGATAAATATA
1 AAAAGATAAATATA
34795124 AA
1 AA
34795126 TTAAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:34796266 original size:5 final size:5
Alignment explanation
Indices: 34796256--34796301 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
34796246 TCCCTATAAT
*
34796256 TTTTA TTTTA TTTTA GTTTA GTTTTA TTTTA TTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA -TTTTA TTTT
34796302 TTAATTCGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 28 0.76
6 9 0.24
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:34796282 original size:16 final size:15
Alignment explanation
Indices: 34796257--34796301 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
34796247 CCCTATAATT
34796257 TTTATTTTATTTTAG
1 TTTATTTTATTTTAG
*
34796272 TTTAGTTTTATTTTAT
1 TTTA-TTTTATTTTAG
34796288 TTTATTTTTATTTT
1 TTTA-TTTTATTTT
34796302 TTAATTCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTATTTTATTTTAG
Found at i:34796296 original size:11 final size:10
Alignment explanation
Indices: 34796256--34796301 Score: 65
Period size: 11 Copynumber: 4.4 Consensus size: 10
34796246 TCCCTATAAT
34796256 TTTTATTTTA
1 TTTTATTTTA
*
34796266 TTTTAGTTTA
1 TTTTATTTTA
34796276 GTTTTATTTTA
1 -TTTTATTTTA
34796287 TTTTATTTTTA
1 TTTTA-TTTTA
34796298 TTTT
1 TTTT
34796302 TTAATTCGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 14 0.44
11 18 0.56
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:34796584 original size:13 final size:14
Alignment explanation
Indices: 34796561--34796596 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
34796551 TTAATTTGCA
34796561 TTATTTA-TTGTTT
1 TTATTTATTTGTTT
34796574 TTA-TTATTTGTTT
1 TTATTTATTTGTTT
34796587 TTATTTATTT
1 TTATTTATTT
34796597 ATTTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 12 0.57
14 6 0.29
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (14 bp):
TTATTTATTTGTTT
Found at i:34796600 original size:18 final size:17
Alignment explanation
Indices: 34796560--34796607 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
34796550 TTTAATTTGC
*
34796560 ATTATTTATTGTT-TTT
1 ATTATTTATTTTTATTT
*
34796576 ATTATTTGTTTTTATTT
1 ATTATTTATTTTTATTT
34796593 ATTTATTTATTTTTA
1 A-TTATTTATTTTTA
34796608 CTTAATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 11 0.41
17 4 0.15
18 12 0.44
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (17 bp):
ATTATTTATTTTTATTT
Found at i:34800702 original size:98 final size:98
Alignment explanation
Indices: 34800557--34801295 Score: 794
Period size: 97 Copynumber: 7.5 Consensus size: 98
34800547 AGGGGCAGAG
* * * * *
34800557 TAAAACAAGTAGCAAATCTCAATCTCCACTGAAGTTGCAGTGAAATGGAGTGAAGTCACATCCAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACACCCAA
** *
34800622 ATTTTATATCCCTAAAGATGCAGTGGATCGGAT
66 ATCCTATATCCCTGAAGATGCAGTGGATCGGAT
* * * * *
34800655 TAAAACAAGTAACAGATCTCAATTTCCACTAAAGTTGCAATGGAATGGAGTGAAGCTACATCCAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACACCCAA
* * * *
34800720 ATCTTATATCACTGAAGATGCAATGGATCGAAT
66 ATCCTATATCCCTGAAGATGCAGTGGATCGGAT
*
34800753 TAAAACAAGTAGCAGATCTCAATCTCCACTAAAGTTGCGGTGGAATGGAGTGAAGCCAC-CCCAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACACCCAA
* *
34800817 ATTCTATATCCCTGAAGATGCAGTGGATCGAAT
66 ATCCTATATCCCTGAAGATGCAGTGGATCGGAT
** * * * * **
34800850 TAAATTAAGTAGTAGATCTCAATCTCCACCAAAGTTACAATGGAATGGAGTGAAGTAAC-CCCAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACACCCAA
* * * *
34800914 ATCCTATATCCTTAAAGATGCAATGGCTCGGAT
66 ATCCTATATCCCTGAAGATGCAGTGGATCGGAT
* * * * *
34800947 TAAAACAAGTAGCAAATCACAATCTCCATTGAAGTTGTAGTGGAATGGAGTGAAGCCAC-CCCAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACACCCAA
* * * * *
34801011 ATCCTATATCCTTGAAGTTGTA-AGGATCGAAT
66 ATCCTATATCCCTGAAGATGCAGTGGATCGGAT
* * *
34801043 TAAAACTAACAGTAGCAGATCTCAATCTCCACTGAAA-TTGCATTGTAATGGAGTGAGGCCACA-
1 TAAAAC--A-AGTAGCAGATCTCAATCTCCACT-AAAGTTGCAGTGGAATGGAGTGAAGCCACAC
* * * *
34801106 CTAAATCCTATATCCTTGAAGTTGCA-AGGATCGGAT
62 CCAAATCCTATATCCCTGAAGATGCAGTGGATCGGAT
* * * * * * *
34801142 TAAAACTAACAGTAGCGGATCTTAATCTCCACTGAAGTTGTAGTGGAATAGAGTAAAGCCATACC
1 TAAAAC--A-AGTAGCAGATCTCAATCTCCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACACC
34801207 CAAATCCTATATCCCTGAAGATGCAGTGGATCGGAT
63 CAAATCCTATATCCCTGAAGATGCAGTGGATCGGAT
* *
34801243 T-AAACTAGCAGTAAG-AGATCTCAATCTCCACTGAAGTTGCAGTGAAATGGAGT
1 TAAAAC-A--AGT-AGCAGATCTCAATCTCCACTAAAGTTGCAGTGGAATGGAGT
34801296 AAAGTTACAA
Statistics
Matches: 543, Mismatches: 88, Indels: 18
0.84 0.14 0.03
Matches are distributed among these distances:
96 13 0.02
97 185 0.34
98 142 0.26
99 125 0.23
100 66 0.12
101 12 0.02
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (98 bp):
TAAAACAAGTAGCAGATCTCAATCTCCACTAAAGTTGCAGTGGAATGGAGTGAAGCCACACCCAA
ATCCTATATCCCTGAAGATGCAGTGGATCGGAT
Found at i:34803434 original size:21 final size:21
Alignment explanation
Indices: 34803390--34803434 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34803380 TTATCATTAC
* * *
34803390 TATTTTTTATTTTGTTTGTGT
1 TATTTTTTATTGTATTTATGT
*
34803411 TATTTTTTATTGTATTTATTT
1 TATTTTTTATTGTATTTATGT
34803432 TAT
1 TAT
34803435 CTTATTCATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.76
Consensus pattern (21 bp):
TATTTTTTATTGTATTTATGT
Found at i:34805349 original size:23 final size:24
Alignment explanation
Indices: 34805318--34805364 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
34805308 TTCCTATTTT
*
34805318 CGTTCTAACTATTGTT-AAATGAA
1 CGTTCTAACTATCGTTAAAATGAA
*
34805341 CGTTTTAACTATCGTTAAAATGAA
1 CGTTCTAACTATCGTTAAAATGAA
34805365 TTTTTAGCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (24 bp):
CGTTCTAACTATCGTTAAAATGAA
Found at i:34806572 original size:27 final size:28
Alignment explanation
Indices: 34806548--34806603 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
34806538 GGCACCTTTA
*
34806548 TGGATGG-TTGGGCCTCTTCCTCCTTAG
1 TGGATGGTTTGGGACTCTTCCTCCTTAG
* *
34806575 TGGATGGTTTGGGATTCTTCCTCATTAG
1 TGGATGGTTTGGGACTCTTCCTCCTTAG
34806603 T
1 T
34806604 AGGTTGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.11, C:0.20, G:0.29, T:0.41
Consensus pattern (28 bp):
TGGATGGTTTGGGACTCTTCCTCCTTAG
Found at i:34812898 original size:17 final size:17
Alignment explanation
Indices: 34812876--34812909 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34812866 TGTTATTAAG
*
34812876 CATTGTTGTTGCATTTT
1 CATTGTCGTTGCATTTT
34812893 CATTGTCGTTGCATTTT
1 CATTGTCGTTGCATTTT
34812910 AGTGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.18, T:0.56
Consensus pattern (17 bp):
CATTGTCGTTGCATTTT
Found at i:34819440 original size:13 final size:13
Alignment explanation
Indices: 34819422--34819446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34819412 TTGATAAAAA
34819422 TTATTTTTTCTTT
1 TTATTTTTTCTTT
34819435 TTATTTTTTCTT
1 TTATTTTTTCTT
34819447 GCAATTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (13 bp):
TTATTTTTTCTTT
Found at i:34820372 original size:22 final size:22
Alignment explanation
Indices: 34820347--34820389 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
34820337 CTTGACTCCA
*
34820347 CTGTTTCTAATACTGACATTTT
1 CTGTCTCTAATACTGACATTTT
* *
34820369 CTGTCTCTAGTACTGATATTT
1 CTGTCTCTAATACTGACATTT
34820390 CCCGCTAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.49
Consensus pattern (22 bp):
CTGTCTCTAATACTGACATTTT
Found at i:34822057 original size:9 final size:9
Alignment explanation
Indices: 34822043--34822084 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
34822033 GATCTCCTTT
34822043 AAAATTATA
1 AAAATTATA
34822052 AAAATTATA
1 AAAATTATA
34822061 AAAA-TATA
1 AAAATTATA
*
34822069 AATTATTA-A
1 AA-AATTATA
34822078 AAAATTA
1 AAAATTA
34822085 ATTTAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 10 0.34
9 17 0.59
10 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:34828550 original size:3 final size:3
Alignment explanation
Indices: 34828542--34828579 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
34828532 TGGGCCTAGC
*
34828542 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34828580 TTAAGGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:34829114 original size:153 final size:152
Alignment explanation
Indices: 34828854--34829364 Score: 719
Period size: 153 Copynumber: 3.4 Consensus size: 152
34828844 TTTGGTTTTT
* * * * *
34828854 TTTTTTCAAACAATTTCAAAATAAAAGTTTTGATTTTTTTAAGCAAAATAGTGATTTTCTTTTTA
1 TTTTTTCTAACTATTTCGAAATAAAAGTTTGGA--TTTTTAAGCAAAATAATGATTTTC-TTTTA
* *
34828919 AAAAG--G-GAAAGTTTAGATTTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAA
63 AAAAGAAGAGAAAGTTTAGATTTTTAAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAA
34828981 GTTTAAATTTTTAACAAAGTTTTGA
128 GTTTAAATTTTTAACAAAGTTTTGA
*
34829006 TTTTTTCTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAATGATTTTCTTTAAAAA
1 TTTTTTCTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAATGATTTTCTTT-TAAA
* * *
34829071 AAGAAGAGAAAGTTTAGATTTTTAAAAAATAAAAATCTCTTTTTTAGTTATTTTAAAAAAAAAAT
65 AAGAAGAGAAAGTTTAGATTTTTAAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAAGT
34829136 TTAAATTTTTAACAAAGTTTTGA
130 TTAAATTTTTAACAAAGTTTTGA
* *
34829159 TTTTTTTCTAACTATTTCGGAATAAAAGTTTGGATTTTTAAGCAAAATAATAATTTT-TTTTAAA
1 -TTTTTTCTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAATGATTTTCTTTTAAA
* ** *
34829223 AA-AATAGAAAGTTTAGATTTAAAAAAAATAAAAATCTATTTTTTATTTATTTTAAAGAAAAAGT
65 AAGAAGAGAAAGTTTAGATTTTTAAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAAGT
**
34829287 TTAAATTTTTAACAAAGTTTAAA
130 TTAAATTTTTAACAAAGTTTTGA
* * * * *
34829310 TTTTTT-TAACTATTTTGAAATAAAAATTTAGATTTTTAAGTAAAGTAATGATTTT
1 TTTTTTCTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAATGATTTT
34829365 TGTTTAATCA
Statistics
Matches: 325, Mismatches: 29, Indels: 13
0.89 0.08 0.04
Matches are distributed among these distances:
149 45 0.14
150 35 0.11
151 76 0.23
152 35 0.11
153 80 0.25
154 54 0.17
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (152 bp):
TTTTTTCTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAATGATTTTCTTTTAAAA
AGAAGAGAAAGTTTAGATTTTTAAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAAGTT
TAAATTTTTAACAAAGTTTTGA
Found at i:34829216 original size:52 final size:51
Alignment explanation
Indices: 34828926--34829348 Score: 162
Period size: 52 Copynumber: 8.3 Consensus size: 51
34828916 TTAAAAAGGG
* * * ** *
34828926 AAAGTTTAGATTTTTTA-AAAATAAAAATCTGTTTTTTAGTTATTTTAAAGA-A
1 AAAGTTTAGATTTTTAACAAAATAATAAT-T-TTTTCTAACTATTTCAAA-ATA
* * ** * *
34828978 AAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTCTAACTATTTCGAAATA
1 AAAGTTTAGATTTTTAACAAAATAATAATTTTTTCTAACTATTTCAAAATA
* * ** *
34829029 AAAGTTTGGATTTTTAAGCAAAATAATGATTTTCTT-TAA--A--AAAAGAAGA
1 AAAGTTTAGATTTTTAA-CAAAATAATAATTTT-TTCTAACTATTTCAA-AATA
* * ** * *
34829078 GAAAGTTTAGATTTTTAA-AAAATAAAAATCTCTTTTTTAGTTATTTTAAAAAA
1 -AAAGTTTAGATTTTTAACAAAATAATAAT-T-TTTTCTAACTATTTCAAAATA
* * * ** * **
34829131 AAAATTTAAATTTTTAACAAAGTTTTGATTTTTTTCTAACTATTTCGGAATA
1 AAAGTTTAGATTTTTAACAAAATAAT-AATTTTTTCTAACTATTTCAAAATA
* *
34829183 AAAGTTTGGATTTTTAAGCAAAATAATAATTTTTTTTAA--A----AAAATA
1 AAAGTTTAGATTTTTAA-CAAAATAATAATTTTTTCTAACTATTTCAAAATA
* * * * ** *
34829229 GAAAGTTTAGA-TTTAAAAAAAATAAAAATCTATTTTTTATTTATTTTAAAGA-A
1 -AAAGTTTAGATTTTTAACAAAATAATAAT-T-TTTTCTAACTATTTCAAA-ATA
* * * **
34829282 AAAGTTTAAATTTTTAACAAAGT-TTAAATTTTTT-TAACTATTTTGAAATA
1 AAAGTTTAGATTTTTAACAAAATAAT-AATTTTTTCTAACTATTTCAAAATA
*
34829332 AAAATTTAGATTTTTAA
1 AAAGTTTAGATTTTTAA
34829349 GTAAAGTAAT
Statistics
Matches: 274, Mismatches: 68, Indels: 60
0.68 0.17 0.15
Matches are distributed among these distances:
45 10 0.04
46 10 0.04
47 16 0.06
48 10 0.04
49 8 0.03
50 49 0.18
51 33 0.12
52 95 0.35
53 38 0.14
54 5 0.02
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (51 bp):
AAAGTTTAGATTTTTAACAAAATAATAATTTTTTCTAACTATTTCAAAATA
Found at i:34831833 original size:155 final size:155
Alignment explanation
Indices: 34831551--34831866 Score: 587
Period size: 155 Copynumber: 2.0 Consensus size: 155
34831541 TGAGAATTTG
*
34831551 TTTAGTAAGAAAATCAAAGTGCTTCGTAGTGATAGAGGTGGTGAATATTTTTCAAATGAATTTAA
1 TTTAGTAAGAAAAACAAAGTGCTTCGTAGTGATAGAGGTGGTGAATATTTTTCAAATGAATTTAA
* *
34831616 TGTATTTTGTGAGGAACAATGTGTGGTAAACGAGTGTTACGCGCCGTATACTCCGCAACAAAATG
66 TGTATTTTGTGAGGAACAATGTGTAGTAAACGAGTGTTACGCACCGTATACTCCGCAACAAAATG
34831681 GTTTGGCAGAAAGAAAGAACTGTAC
131 GTTTGGCAGAAAGAAAGAACTGTAC
34831706 TTTAGTAAGAAAAACAAAGTGCTTCGTAGTGATAGAGGTGGTGAATATTTTTCAAATGAATTTAA
1 TTTAGTAAGAAAAACAAAGTGCTTCGTAGTGATAGAGGTGGTGAATATTTTTCAAATGAATTTAA
* *
34831771 TGTATTTTGTGAGGAACAATGTGTAGTACACGAGTGTTACGCACCTTATACTCCGCAACAAAATG
66 TGTATTTTGTGAGGAACAATGTGTAGTAAACGAGTGTTACGCACCGTATACTCCGCAACAAAATG
34831836 GTTTGGCAGAAAGAAAGAACTGTAC
131 GTTTGGCAGAAAGAAAGAACTGTAC
34831861 TTTAGT
1 TTTAGT
34831867 TGATATGGTT
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
155 156 1.00
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.30
Consensus pattern (155 bp):
TTTAGTAAGAAAAACAAAGTGCTTCGTAGTGATAGAGGTGGTGAATATTTTTCAAATGAATTTAA
TGTATTTTGTGAGGAACAATGTGTAGTAAACGAGTGTTACGCACCGTATACTCCGCAACAAAATG
GTTTGGCAGAAAGAAAGAACTGTAC
Found at i:34833396 original size:51 final size:51
Alignment explanation
Indices: 34833323--34833558 Score: 339
Period size: 51 Copynumber: 4.6 Consensus size: 51
34833313 TTTCATTTAA
* * * * *
34833323 TACTCACGATGACA-TATTGTCATCGGACCTTTAATTCATCATGGATTCATT
1 TACTCACGATGACACT-TAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * * * *
34833374 TACTCATGATGACATTTAGTCATCGAACTTTTAATCCGGAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
34833425 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * *
34833476 TACTCATGATGACACTTAGCCATTGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
34833527 TACTCACGATGACACTTAGTCATCGGACCTTT
1 TACTCACGATGACACTTAGTCATCGGACCTTT
34833559 TCGTTTATAG
Statistics
Matches: 164, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
51 163 0.99
52 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:34840555 original size:17 final size:19
Alignment explanation
Indices: 34840533--34840580 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
34840523 ATTTCACTGA
*
34840533 CTTTGCTTTTAT-CTGT-T
1 CTTTGCTTTTATACTCTCT
34840550 CTTTGCTTTTATAACTCTCT
1 CTTTGCTTTTAT-ACTCTCT
34840570 CTTTGCTTTTA
1 CTTTGCTTTTA
34840581 ACCCTCACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 12 0.44
19 3 0.11
20 12 0.44
ACGTcount: A:0.10, C:0.21, G:0.08, T:0.60
Consensus pattern (19 bp):
CTTTGCTTTTATACTCTCT
Found at i:34853813 original size:17 final size:18
Alignment explanation
Indices: 34853791--34853829 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
34853781 TCAGTCACAT
*
34853791 AAAAAAGAGAAAAAGAA-
1 AAAAAAGAAAAAAAGAAG
34853808 AAAAAAGAAAAAAAGAAG
1 AAAAAAGAAAAAAAGAAG
34853826 AAAA
1 AAAA
34853830 TATATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAAGAAG
Found at i:34853829 original size:9 final size:9
Alignment explanation
Indices: 34853792--34853829 Score: 53
Period size: 8 Copynumber: 4.4 Consensus size: 9
34853782 CAGTCACATA
34853792 AAAAAG-AG
1 AAAAAGAAG
*
34853800 AAAAAGAAA
1 AAAAAGAAG
34853809 AAAAAGAA-
1 AAAAAGAAG
34853817 AAAAAGAAG
1 AAAAAGAAG
34853826 AAAA
1 AAAA
34853830 TATATATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:34860741 original size:23 final size:23
Alignment explanation
Indices: 34860711--34860754 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
34860701 CATTTGAGGG
34860711 ATTGTGATTATTCTATTATATGA
1 ATTGTGATTATTCTATTATATGA
34860734 ATTGTGATTATTCTATTATAT
1 ATTGTGATTATTCTATTATAT
34860755 AATAATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (23 bp):
ATTGTGATTATTCTATTATATGA
Found at i:34861356 original size:3 final size:3
Alignment explanation
Indices: 34861350--34861394 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
34861340 GATGCTGTTT
34861350 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
34861395 TTGCATATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:34875978 original size:23 final size:23
Alignment explanation
Indices: 34875946--34875989 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
34875936 TATGTTTATT
34875946 GAATGATTT-ATATGAATTTGAGA
1 GAATGATTTAAT-TGAATTTGAGA
*
34875969 GAATGTTTTAATTGAATTTGA
1 GAATGATTTAATTGAATTTGA
34875990 ATGTTTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.43
Consensus pattern (23 bp):
GAATGATTTAATTGAATTTGAGA
Found at i:34876615 original size:55 final size:55
Alignment explanation
Indices: 34876530--34876633 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
34876520 ATATCGCGGT
* * *
34876530 ATGAGCATATCTAGAATTGCGCCCAAAATTATCGCCGCATCTGACAGCTCGTTAC
1 ATGAGCATATCTAGAATTACGCCCAAAATTATCGCCACATCTAACAGCTCGTTAC
* *
34876585 ATGAGCATAT-TAAGAATTACGCCCAGAATTATCGTCACATCTAACAGCT
1 ATGAGCATATCT-AGAATTACGCCCAAAATTATCGCCACATCTAACAGCT
34876634 GTTCGGATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 1 0.02
55 42 0.98
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (55 bp):
ATGAGCATATCTAGAATTACGCCCAAAATTATCGCCACATCTAACAGCTCGTTAC
Found at i:34877720 original size:62 final size:63
Alignment explanation
Indices: 34877623--34877767 Score: 172
Period size: 62 Copynumber: 2.3 Consensus size: 63
34877613 AGCGCGATTA
* * * *
34877623 GTGTGTCCAAGCCGTGCT-AGAGAATGATTTGAATTA-AGGTCACATGGGCCAGGGCCATGGG-T
1 GTGTGTCCAGGCCGTG-TGAGAGAATGATTTGAATTAGA-GTCACACGGGCCAAGGACATGGGCT
* * *
34877685 GTGTGTCCAGGCCGTGTGCGAGACTGTTTTGAATTAGAGTCACACGGGCCAAGGACATGGGCT
1 GTGTGTCCAGGCCGTGTGAGAGAATGATTTGAATTAGAGTCACACGGGCCAAGGACATGGGCT
*
34877748 -TGTGTCCAGGCTGTGTGAGA
1 GTGTGTCCAGGCCGTGTGAGA
34877768 CATTGACTTG
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
61 1 0.01
62 68 0.96
63 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.25
Consensus pattern (63 bp):
GTGTGTCCAGGCCGTGTGAGAGAATGATTTGAATTAGAGTCACACGGGCCAAGGACATGGGCT
Found at i:34885310 original size:31 final size:31
Alignment explanation
Indices: 34885275--34885337 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
34885265 ATATAAGTCA
34885275 TCTAAATGCACCATGTATATATTTTCTATCC
1 TCTAAATGCACCATGTATATATTTTCTATCC
*
34885306 TCTAAATGCGCCATGTATATATTTTCTATCC
1 TCTAAATGCACCATGTATATATTTTCTATCC
34885337 T
1 T
34885338 ATGTCCTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (31 bp):
TCTAAATGCACCATGTATATATTTTCTATCC
Found at i:34888335 original size:19 final size:21
Alignment explanation
Indices: 34888292--34888338 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
34888282 GCCTGGAGCT
*
34888292 ATTTTGACCTGTTTGAAAAAC
1 ATTTTGAACTGTTTGAAAAAC
*
34888313 ATTTTGAACTG-TT-AAAAAG
1 ATTTTGAACTGTTTGAAAAAC
34888332 ATTTTGA
1 ATTTTGA
34888339 CTTGGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 12 0.50
20 2 0.08
21 10 0.42
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (21 bp):
ATTTTGAACTGTTTGAAAAAC
Found at i:34888367 original size:19 final size:20
Alignment explanation
Indices: 34888292--34888382 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
34888282 GCCTGGAGCT
* *
34888292 ATTTTGACCTGTTTGAAAAAC
1 ATTTTGACTTGTTT-AAAATC
**
34888313 ATTTTGAAC-TG-TTAAAAAG
1 ATTTTG-ACTTGTTTAAAATC
*
34888332 ATTTTGACTTGGTTT-AAATT
1 ATTTTGACTT-GTTTAAAATC
34888352 ATTTTGACTTGTTTAAAATC
1 ATTTTGACTTGTTTAAAATC
*
34888372 ATTTTAACTTG
1 ATTTTGACTTG
34888383 ATTTTGAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.03
19 16 0.27
20 30 0.50
21 10 0.17
22 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (20 bp):
ATTTTGACTTGTTTAAAATC
Found at i:34891803 original size:242 final size:242
Alignment explanation
Indices: 34891384--34891855 Score: 702
Period size: 242 Copynumber: 2.0 Consensus size: 242
34891374 ATTACTTTGT
* *
34891384 TGTTGTTGTGGATAGCTTGTTGACTCTTAGATTTTTTTCTCTTTGAAAAAACAAAAGGTGAGCTT
1 TGTTGTTGTGGAGAGCTTGTTGACTCTTAGATTTTTTTCTCTTTGAAAAAACAAAAGCTGAGCTT
*** *
34891449 TTTTTTACTGTATAAAATTGAGATGGACTTTATTATACTGTCATTTTTAGTTTTTATTTTTATTT
66 TTTTTTACTGTATAAAATTGAGATGGACTTTATTATACTGTCATTTTTAGAAGTTATTTTTATTG
* *
34891514 TTTATTGCTTGAATTTCTACATTTTTTTCTAGGTAATTTTGTTGTCTTATTATCTCTTTTGATTT
131 TTCATTGCTTGAATTTCTACATTTTTTTCTAGGTAATTTTATTGTCTTATTATCTCTTTTGATTT
*
34891579 TAAATCTATAATTGAGGAATTTGATTGGCTTTTTTTGGGAATTACTC
196 TAAATCTATAATTGAGGAATTTGATTGACTTTTTTTGGGAATTACTC
* * * * *
34891626 TGTTGTTGTGGAGAGCTTGTTGTCTTTTTGTTTTTTTTTCTCTTTGGAAAAACAAAAGCTGAGCT
1 TGTTGTTGTGGAGAGCTTGTTGACTCTTAG-ATTTTTTTCTCTTTGAAAAAACAAAAGCTGAGC-
* *
34891691 TTTCTTTTTACTGTATAAACA-TGAGATGGGCTTTA-TATACTGTCTTTGTTTAGAAGTT-TTTT
64 TTT-TTTTTACTGTATAAA-ATTGAGATGGACTTTATTATACTGTCATT-TTTAGAAGTTATTTT
* *
34891753 TATTGTTCATTGCTTGAATTTCTACA-TTTTTT-TGGGTAATTTTATTGTCTTATTGTCTCTTTT
126 TATTGTTCATTGCTTGAATTTCTACATTTTTTTCTAGGTAATTTTATTGTCTTATTATCTCTTTT
34891816 GATTTTAAATCTATAATTGAGGAATTTGATTGACTTTTTT
191 GATTTTAAATCTATAATTGAGGAATTTGATTGACTTTTTT
34891856 GGTAAGAATT
Statistics
Matches: 207, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
242 93 0.45
243 36 0.17
244 42 0.20
245 35 0.17
246 1 0.00
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (242 bp):
TGTTGTTGTGGAGAGCTTGTTGACTCTTAGATTTTTTTCTCTTTGAAAAAACAAAAGCTGAGCTT
TTTTTTACTGTATAAAATTGAGATGGACTTTATTATACTGTCATTTTTAGAAGTTATTTTTATTG
TTCATTGCTTGAATTTCTACATTTTTTTCTAGGTAATTTTATTGTCTTATTATCTCTTTTGATTT
TAAATCTATAATTGAGGAATTTGATTGACTTTTTTTGGGAATTACTC
Found at i:34916651 original size:27 final size:27
Alignment explanation
Indices: 34916544--34916669 Score: 139
Period size: 27 Copynumber: 4.7 Consensus size: 27
34916534 TACACCAAAA
*
34916544 AAATGGAAGCCTTTGTGGCAATTTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* **
34916571 AAATGGAAGCATCAGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * * *
34916598 AAATGGAAACCTTTATAGCAGTCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
34916625 AAATGGAAGCCTTTGTGGCAAAT-TATG
1 AAATGGAAGCCTTTGTGGC-AATCTATG
*
34916652 AAA-GGAATGCCTTCGTGG
1 AAATGGAA-GCCTTTGTGG
34916670 TGCACTCTAA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 4 0.05
27 75 0.93
28 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:34916729 original size:27 final size:27
Alignment explanation
Indices: 34916698--34916775 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
34916688 ATTTCCAACG
* *
34916698 AATTCTGAAAGAATAGTAAGTATGGCA
1 AATTCTGAAGGAATAGTAAGTATGGAA
*
34916725 AATTCTGAAGGAATAGTATGTATGGAA
1 AATTCTGAAGGAATAGTAAGTATGGAA
34916752 AACTT-TGAAGGAATAGTAAGTATG
1 AA-TTCTGAAGGAATAGTAAGTATG
34916776 ACAATTTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 44 0.96
28 2 0.04
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.28
Consensus pattern (27 bp):
AATTCTGAAGGAATAGTAAGTATGGAA
Found at i:34916785 original size:27 final size:27
Alignment explanation
Indices: 34916698--34916791 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 27
34916688 ATTTCCAACG
* * *
34916698 AATTCTGAAAGAATAGTAAGTATGGCA
1 AATTTTGAAGGAATAGTAAGTATGACA
* *
34916725 AATTCTGAAGGAATAGTATGTATGGA-A
1 AATTTTGAAGGAATAGTAAGTAT-GACA
*
34916752 AACTTTGAAGGAATAGTAAGTATGACA
1 AATTTTGAAGGAATAGTAAGTATGACA
* *
34916779 ATTTTTGGAGGAA
1 AATTTTGAAGGAA
34916792 CAATAAATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.04
27 53 0.95
28 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (27 bp):
AATTTTGAAGGAATAGTAAGTATGACA
Found at i:34918875 original size:36 final size:36
Alignment explanation
Indices: 34918823--34918959 Score: 229
Period size: 36 Copynumber: 3.8 Consensus size: 36
34918813 TGGTAATAGG
* *
34918823 CATGACCTTTGGGTCAACAGGGACTAAAATGAGCAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
*
34918859 CATGACCTTTGAGTCAATAGGGAGTAAAATGAGCAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
*
34918895 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGTAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
*
34918931 CATAACCTTTGGGTCAATAGGGAGTAAAA
1 CATGACCTTTGGGTCAATAGGGAGTAAAA
34918960 CGAATAATGA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 95 1.00
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.25
Consensus pattern (36 bp):
CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
Found at i:34920478 original size:23 final size:23
Alignment explanation
Indices: 34920448--34920493 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
34920438 ATGAAATTAG
34920448 GGTTAAAGGATAAAAACGTAAAA
1 GGTTAAAGGATAAAAACGTAAAA
*
34920471 GGTTAAAGGATAAAAATGTAAAA
1 GGTTAAAGGATAAAAACGTAAAA
34920494 TTGGTGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.22, T:0.20
Consensus pattern (23 bp):
GGTTAAAGGATAAAAACGTAAAA
Found at i:34921052 original size:51 final size:51
Alignment explanation
Indices: 34920969--34921148 Score: 261
Period size: 51 Copynumber: 3.5 Consensus size: 51
34920959 AAACGAAAGC
* * *
34920969 GTCCGATGACTAAGTGTCATCATAAGCAAATGAATCCTTTATGGATTAATG
1 GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAATG
* **
34921020 GTCCGATGACTAAGTGTCATCGTGAGTGAATGAGCCCTTTATGGATTAATG
1 GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAATG
* * * *
34921071 GTCCGATGACTAAGTTTCATTGTGAGTAAATAAATCCTTTATGGATTAAAG
1 GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAATG
*
34921122 ATCCGATGACTAAGTGTCATCGTGAGT
1 GTCCGATGACTAAGTGTCATCGTGAGT
34921149 TTATGGATTC
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 113 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (51 bp):
GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAATG
Found at i:34928273 original size:51 final size:50
Alignment explanation
Indices: 34928097--34928292 Score: 248
Period size: 51 Copynumber: 3.8 Consensus size: 50
34928087 CGAAAGGGTT
*
34928097 CGATGACTAAGTGTCATCGTGAGCAAATGAATCCTTTATGGATTAATGGTC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAT-GTC
* * * * *
34928148 CAATGACTAAGTGTCATCATGACTGAATGAATCCTTTATGGATTAATTGTT
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAA-TGTC
* *
34928199 CGATGACTAAGTGTCATCGTGAGTAAATAAATCCTTTATGGATTAAAGATC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAATG-TC
* ** *
34928250 CGATGACTAAGTGTTATCGTGAGTTTATGAATTCCTATATGGA
1 CGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTATGGA
34928293 ACAAGAGGTC
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
50 1 0.01
51 112 0.90
52 11 0.09
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (50 bp):
CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAATGTC
Found at i:34928280 original size:102 final size:103
Alignment explanation
Indices: 34928094--34928292 Score: 292
Period size: 102 Copynumber: 1.9 Consensus size: 103
34928084 AAACGAAAGG
* * *
34928094 GTTCGATGACTAAGTGTCATCGTGAGCAAATGAATCCTTTATGGATTAATGGTCCAATGACTAAG
1 GTTCGATGACTAAGTGTCATCGTGAGCAAATAAATCCTTTATGGATTAAAGATCCAATGACTAAG
*
34928159 TGTCATCATGACTGAATGAA-TCCTTTATGGATTAATT
66 TGTCATCATGACTGAATGAATTCCTATATGGATTAATT
* *
34928196 GTTCGATGACTAAGTGTCATCGTGAGTAAATAAATCCTTTATGGATTAAAGATCCGATGACTAAG
1 GTTCGATGACTAAGTGTCATCGTGAGCAAATAAATCCTTTATGGATTAAAGATCCAATGACTAAG
* * * **
34928261 TGTTATCGTGAGTTTATGAATTCCTATATGGA
66 TGTCATCATGACTGAATGAATTCCTATATGGA
34928293 ACAAGAGGTC
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
102 75 0.88
103 10 0.12
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (103 bp):
GTTCGATGACTAAGTGTCATCGTGAGCAAATAAATCCTTTATGGATTAAAGATCCAATGACTAAG
TGTCATCATGACTGAATGAATTCCTATATGGATTAATT
Found at i:34930778 original size:26 final size:26
Alignment explanation
Indices: 34930721--34930778 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
34930711 ACTCCAGGAG
* *
34930721 CATGTCCAGAATTGTCACTGTAGAAA
1 CATGTCCAGAATTATCACTGCAGAAA
* *
34930747 CTTGTCCAGAATTATCGCTGCATG-AA
1 CATGTCCAGAATTATCACTGCA-GAAA
34930773 CATGTC
1 CATGTC
34930779 GGAGTTGTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (26 bp):
CATGTCCAGAATTATCACTGCAGAAA
Found at i:34933254 original size:21 final size:21
Alignment explanation
Indices: 34933228--34933287 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
34933218 TCAGCAGATT
* *
34933228 CAGATGCATCCACAACAAAAC
1 CAGATGCAGCCATAACAAAAC
* *
34933249 CAGATGCAGCCATATCAAAAT
1 CAGATGCAGCCATAACAAAAC
34933270 CAGATGCAGCCATAACAA
1 CAGATGCAGCCATAACAA
34933288 TTTTCAATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.45, C:0.28, G:0.13, T:0.13
Consensus pattern (21 bp):
CAGATGCAGCCATAACAAAAC
Found at i:34939979 original size:36 final size:36
Alignment explanation
Indices: 34939932--34940068 Score: 188
Period size: 36 Copynumber: 3.8 Consensus size: 36
34939922 TAGTAACATG
* * *
34939932 CATGACCTTTGGGTCAAGAGGAAGTAAAATGAGCAT
1 CATGACCTTTGGCTCAAAAGGGAGTAAAATGAGCAT
34939968 CATGACCTTTGGGC-CAACAA-GGAGTAAAATGAGCAT
1 CATGACCTTT-GGCTCAA-AAGGGAGTAAAATGAGCAT
* *
34940004 CATGACGTTTGGCTCAACAGGGAGTAAAATGAGCAT
1 CATGACCTTTGGCTCAAAAGGGAGTAAAATGAGCAT
*
34940040 CATGACCTTTGGCTCAATAGGGAGTAAAA
1 CATGACCTTTGGCTCAAAAGGGAGTAAAA
34940069 CGAATAACGA
Statistics
Matches: 90, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
35 4 0.04
36 83 0.92
37 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (36 bp):
CATGACCTTTGGCTCAAAAGGGAGTAAAATGAGCAT
Found at i:34945219 original size:16 final size:16
Alignment explanation
Indices: 34945198--34945228 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34945188 TTGTGGATCC
34945198 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
34945214 CATTTTATCTTTATT
1 CATTTTACCTTTATT
34945229 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:34956198 original size:17 final size:18
Alignment explanation
Indices: 34956176--34956216 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
34956166 TTAGTTTTCA
34956176 TGCATTCTT-ATTG-TGCT
1 TGCATTCTTAATTGTTG-T
34956193 TGCATT-TTAATTGTTGT
1 TGCATTCTTAATTGTTGT
34956210 TGCATTC
1 TGCATTC
34956217 ATTTTAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.10
17 17 0.81
18 2 0.10
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.54
Consensus pattern (18 bp):
TGCATTCTTAATTGTTGT
Found at i:34959148 original size:7 final size:7
Alignment explanation
Indices: 34959115--34959203 Score: 71
Period size: 7 Copynumber: 13.0 Consensus size: 7
34959105 TCTTGAAAAA
34959115 AGTCAAC
1 AGTCAAC
34959122 AAGTCAA-
1 -AGTCAAC
34959129 AGTCAAC
1 AGTCAAC
34959136 -GATCAAC
1 AG-TCAAC
34959143 AGTCAA-
1 AGTCAAC
34959149 AGTCAAC
1 AGTCAAC
* *
34959156 TGTCAAT
1 AGTCAAC
*
34959163 GGTCAAC
1 AGTCAAC
*
34959170 AATCAA-
1 AGTCAAC
34959176 AGTCAAC
1 AGTCAAC
34959183 TA-TCAAC
1 -AGTCAAC
*
34959190 TGTCAAC
1 AGTCAAC
34959197 AGTCAAC
1 AGTCAAC
34959204 GGATTGGGTT
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
6 18 0.28
7 39 0.60
8 8 0.12
ACGTcount: A:0.43, C:0.25, G:0.13, T:0.19
Consensus pattern (7 bp):
AGTCAAC
Found at i:34959148 original size:20 final size:21
Alignment explanation
Indices: 34959117--34959155 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
34959107 TTGAAAAAAG
34959117 TCAACAAGTCAAAGTCAACGA
1 TCAACAAGTCAAAGTCAACGA
34959138 TCAAC-AGTCAAAGTCAAC
1 TCAACAAGTCAAAGTCAAC
34959156 TGTCAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (21 bp):
TCAACAAGTCAAAGTCAACGA
Found at i:34959161 original size:20 final size:20
Alignment explanation
Indices: 34959116--34959161 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 20
34959106 CTTGAAAAAA
34959116 GTCAACAAGTCAAAGTCAAC
1 GTCAACAAGTCAAAGTCAAC
34959136 GATCAAC-AGTCAAAGTCAAC
1 G-TCAACAAGTCAAAGTCAAC
34959156 TGTCAA
1 -GTCAA
34959162 TGGTCAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.17
Consensus pattern (20 bp):
GTCAACAAGTCAAAGTCAAC
Found at i:34959168 original size:27 final size:27
Alignment explanation
Indices: 34959138--34959202 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
34959128 AAGTCAACGA
*
34959138 TCAACAGTCAAAGTCAACTGTCAA-TGG
1 TCAACAGTCAAAGTCAACTATCAACT-G
*
34959165 TCAACAATCAAAGTCAACTATCAACTG
1 TCAACAGTCAAAGTCAACTATCAACTG
34959192 TCAACAGTCAA
1 TCAACAGTCAA
34959203 CGGATTGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.22
Consensus pattern (27 bp):
TCAACAGTCAAAGTCAACTATCAACTG
Found at i:34959188 original size:20 final size:20
Alignment explanation
Indices: 34959117--34959203 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 20
34959107 TTGAAAAAAG
*
34959117 TCAACAAGTCAAAGTCAACGA
1 TCAACAA-TCAAAGTCAACTA
*
34959138 TCAACAGTCAAAGTCAACTGTCAA
1 TCAACAATCAAAGTCAAC--T--A
34959162 TGGTCAACAATCAAAGTCAACTA
1 ---TCAACAATCAAAGTCAACTA
**
34959185 TCAACTGTCAACAGTCAAC
1 TCAACAATCAA-AGTCAAC
34959204 GGATTGGGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
20 20 0.38
21 13 0.25
23 1 0.02
24 1 0.02
25 1 0.02
27 17 0.32
ACGTcount: A:0.43, C:0.25, G:0.13, T:0.20
Consensus pattern (20 bp):
TCAACAATCAAAGTCAACTA
Found at i:34985163 original size:20 final size:21
Alignment explanation
Indices: 34985128--34985170 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
34985118 TTTCTCAAAA
34985128 AAAGTCAACGGGTCAACAATC
1 AAAGTCAACGGGTCAACAATC
* *
34985149 AAAGTCAA-TGGTCAACGATC
1 AAAGTCAACGGGTCAACAATC
34985169 AA
1 AA
34985171 CGATTAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (21 bp):
AAAGTCAACGGGTCAACAATC
Found at i:34985208 original size:20 final size:20
Alignment explanation
Indices: 34985180--34985237 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
34985170 ACGATTAATG
*
34985180 GATCAAGTTCGGGTTGGGCC
1 GATCGAGTTCGGGTTGGGCC
**
34985200 GATCGAGTTCGGGTCAGGCC
1 GATCGAGTTCGGGTTGGGCC
* *
34985220 AATCGGGTTCGGGTTGGG
1 GATCGAGTTCGGGTTGGG
34985238 TCGGTCCACT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.14, C:0.19, G:0.43, T:0.24
Consensus pattern (20 bp):
GATCGAGTTCGGGTTGGGCC
Found at i:35009729 original size:17 final size:18
Alignment explanation
Indices: 35009693--35009731 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
35009683 CTTTTATTTC
35009693 TTTTTCTTAGTATTTATAT
1 TTTTTCTTAG-ATTTATAT
*
35009712 TTTTTCTTAG-TTTGTAT
1 TTTTTCTTAGATTTATAT
35009729 TTT
1 TTT
35009732 GCTTTCGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTTCTTAGATTTATAT
Found at i:35012363 original size:15 final size:15
Alignment explanation
Indices: 35012339--35012372 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35012329 GACATTTTCA
* *
35012339 GTTTTTCTTTTATTT
1 GTTTTACTTTTACTT
35012354 GTTTTACTTTTACTT
1 GTTTTACTTTTACTT
35012369 GTTT
1 GTTT
35012373 CATTTTAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (15 bp):
GTTTTACTTTTACTT
Found at i:35014714 original size:17 final size:17
Alignment explanation
Indices: 35014688--35014739 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
35014678 ATAGTTTGCA
*
35014688 TGCATCTTTATTGTCAT
1 TGCATTTTTATTGTCAT
*
35014705 TGCATTTTTATTTTGGCAT
1 TGCATTTTTA--TTGTCAT
*
35014724 TGCATTTTTCTTGTCA
1 TGCATTTTTATTGTCA
35014740 ATTTAGTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 14 0.48
19 15 0.52
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.56
Consensus pattern (17 bp):
TGCATTTTTATTGTCAT
Done.