Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 146 of 311
Found at i:49569119 original size:27 final size:26
Alignment explanation
Indices: 49569045--49569198 Score: 164
Period size: 27 Copynumber: 5.7 Consensus size: 26
49569035 TACCCTACAA
* * **
49569045 GGGTATTTTGGTAATTTTACACTACAA
1 GGGTATTTCGGTAATTTTACA-AACTG
*
49569072 GGGTATTTCAGTAATTTTACAAACTG
1 GGGTATTTCGGTAATTTTACAAACTG
* *
49569098 GGAGTATTTTGGTAATTTTACAAATTG
1 GG-GTATTTCGGTAATTTTACAAACTG
* * *
49569125 AGGGTATCTCAGTAATTTTACAAATCGG
1 -GGGTATTTCGGTAATTTTACAAA-CTG
49569153 GGGTATTTCGGTAATTTTACAAACTG
1 GGGTATTTCGGTAATTTTACAAACTG
*
49569179 AGAGTATTTCGGTAATTTTA
1 -GGGTATTTCGGTAATTTTA
49569199 TAAATCGAGG
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.06
27 97 0.92
28 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTACAAACTG
Found at i:49569194 original size:54 final size:54
Alignment explanation
Indices: 49569045--49569210 Score: 210
Period size: 54 Copynumber: 3.1 Consensus size: 54
49569035 TACCCTACAA
* *
49569045 GGGTATTTTGGTAATTTTACACTAC-AAGGGTATTTCAGTAATTTTACAAA-CTGG
1 GGGTATTTTGGTAATTTTACA-AACTGAGGGTATTTCAGTAATTTTACAAATC-GG
* * *
49569099 GAGTATTTTGGTAATTTTACAAATTGAGGGTATCTCAGTAATTTTACAAATCGG
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAATCGG
* * * * *
49569153 GGGTATTTCGGTAATTTTACAAACTGAGAGTATTTCGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAATCGG
49569207 GGGT
1 GGGT
49569211 CAAAAATCTA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 95 0.98
55 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAATCGG
Found at i:49570560 original size:24 final size:24
Alignment explanation
Indices: 49570532--49570598 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
49570522 CTCCTTAAAT
* *
49570532 CTCTCCATAAATCACTCCTTGATT
1 CTCTCCATAAATCACTCCATGATA
* *
49570556 TTCTCC-TAATATCTCTCCATGATA
1 CTCTCCATAA-ATCACTCCATGATA
*
49570580 CACTCCATAAATCACTCCA
1 CTCTCCATAAATCACTCCA
49570599 ACCTCCCATT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
23 3 0.09
24 28 0.82
25 3 0.09
ACGTcount: A:0.28, C:0.34, G:0.03, T:0.34
Consensus pattern (24 bp):
CTCTCCATAAATCACTCCATGATA
Found at i:49572406 original size:27 final size:26
Alignment explanation
Indices: 49572370--49572459 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 26
49572360 GCCATCAACG
*
49572370 ACGGT-AATATAATCGGCACATAGCC
1 ACGGTAAATATGATCGGCACATAGCC
* * *
49572395 ACGGGTAAATATGATCGACACAGAGTC
1 AC-GGTAAATATGATCGGCACATAGCC
* *
49572422 ATCGATAAATATGATAGGCACATAGCC
1 A-CGGTAAATATGATCGGCACATAGCC
49572449 ACTGGTAAATA
1 AC-GGTAAATA
49572460 CAATTTGCAC
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
25 2 0.04
26 4 0.08
27 44 0.86
28 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (26 bp):
ACGGTAAATATGATCGGCACATAGCC
Found at i:49572734 original size:27 final size:27
Alignment explanation
Indices: 49572701--49572788 Score: 103
Period size: 27 Copynumber: 3.3 Consensus size: 27
49572691 CAAAATAGTC
*
49572701 ATTTTACCCTAC-AGAGGTATTTTGGTA
1 ATTTTACACTACAAG-GGTATTTTGGTA
49572728 ATTTTACACTACAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTTGGTA
*
49572755 ATTTTTCA--A-AATGGGGTATTTTGGTA
1 ATTTTACACTACAA--GGGTATTTTGGTA
49572781 ATTTTACA
1 ATTTTACA
49572789 AACTGGGGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
24 2 0.04
25 1 0.02
26 20 0.36
27 30 0.55
28 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.43
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTTGGTA
Found at i:49572799 original size:53 final size:54
Alignment explanation
Indices: 49572716--49572871 Score: 174
Period size: 54 Copynumber: 2.9 Consensus size: 54
49572706 ACCCTACAGA
* * * *
49572716 GGTATTTTGGTAATTTTACACTAC-AAGGGTATTTTGGTAATTTTTCAAAAT-GG
1 GGTATTTTGGTAATTTTACA-AACTGAGGGTATTTCGGTAATTTTACAAAATCGG
* * *
49572769 GGTATTTTGGTAATTTTACAAACTGGGGGTATCTCGATAATTTTAC-AAATCGGG
1 GGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAAATC-GG
* * * *
49572823 GGTATTTCGATAATTTTACAAATTGAGAGTATTTCGGTAATTTTACAAA
1 GGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAA
49572872 CCGAAGGTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
52 6 0.07
53 36 0.42
54 41 0.48
55 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAAATCGG
Found at i:49572809 original size:27 final size:27
Alignment explanation
Indices: 49572742--49572872 Score: 140
Period size: 27 Copynumber: 4.9 Consensus size: 27
49572732 TACACTACAA
* * * *
49572742 GGGTATTTTGGTAATTTTTCAAAAT-G
1 GGGTATTTCGATAATTTTACAAACTGG
* *
49572768 GGGTATTTTGGTAATTTTACAAACTGG
1 GGGTATTTCGATAATTTTACAAACTGG
*
49572795 GGGTATCTCGATAATTTTACAAA-TCGG
1 GGGTATTTCGATAATTTTACAAACT-GG
* *
49572822 GGGTATTTCGATAATTTTACAAATTGA
1 GGGTATTTCGATAATTTTACAAACTGG
* *
49572849 GAGTATTTCGGTAATTTTACAAAC
1 GGGTATTTCGATAATTTTACAAAC
49572873 CGAAGGTATT
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 24 0.26
27 67 0.73
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAACTGG
Found at i:49572881 original size:27 final size:26
Alignment explanation
Indices: 49572714--49572883 Score: 117
Period size: 27 Copynumber: 6.3 Consensus size: 26
49572704 TTACCCTACA
* *
49572714 GAGGTATTTTGGTAATTTTACACTA-C
1 GAGGTATTTCGGTAATTTTACA-AACC
* * * **
49572740 AAGGGTATTTTGGTAATTTTTCAAAAT
1 GA-GGTATTTCGGTAATTTTACAAACC
* * *
49572767 GGGGTATTTTGGTAATTTTACAAACTG
1 GAGGTATTTCGGTAATTTTACAAAC-C
* * * *
49572794 GGGGTATCTCGATAATTTTACAAATCG
1 GAGGTATTTCGGTAATTTTACAAA-CC
* * **
49572821 GGGGTATTTCGATAATTTTACAAATT
1 GAGGTATTTCGGTAATTTTACAAACC
49572847 GAGAGTATTTCGGTAATTTTACAAACC
1 GAG-GTATTTCGGTAATTTTACAAACC
49572874 GAAGGTATTT
1 G-AGGTATTT
49572884 TGGAAATCTA
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
26 25 0.21
27 91 0.76
28 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (26 bp):
GAGGTATTTCGGTAATTTTACAAACC
Found at i:49576094 original size:27 final size:26
Alignment explanation
Indices: 49576057--49576145 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
49576047 TAGCGAAGGT
*
49576057 AATATAATCGACACATAGCCATGGGTA
1 AATATGATCGACACATAGCCAT-GGTA
* * * * *
49576084 AAAATGATCGACATAGAGTCATCGATA
1 AATATGATCGACACATAGCCAT-GGTA
* *
49576111 AATATGATAGGCACATAGCCACTGGTA
1 AATATGATCGACACATAGCCA-TGGTA
49576138 AATATGAT
1 AATATGAT
49576146 TTGCATAGAG
Statistics
Matches: 47, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
27 46 0.98
28 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.24
Consensus pattern (26 bp):
AATATGATCGACACATAGCCATGGTA
Found at i:49576441 original size:27 final size:26
Alignment explanation
Indices: 49576383--49576441 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
49576373 CAAAACAGTC
* * *
49576383 ATTTTACCCTACAAGGTATTTTGGTA
1 ATTTTACACAACAAGGTATTTTAGTA
*
49576409 AGTTTACACAACAAGGGTATTTTAGTA
1 ATTTTACACAACAA-GGTATTTTAGTA
*
49576436 CTTTTA
1 ATTTTA
49576442 GAAACTGGGG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (26 bp):
ATTTTACACAACAAGGTATTTTAGTA
Found at i:49576453 original size:27 final size:27
Alignment explanation
Indices: 49576397--49576555 Score: 99
Period size: 27 Copynumber: 5.9 Consensus size: 27
49576387 TACCCTACAA
* * **
49576397 GGTATTTTGGTAAGTTTACACAAC-AAG
1 GGTATTTTAGTAATTTTACA-AACTGGG
* *
49576424 GGTATTTTAGTACTTTTAGAAACTGGG
1 GGTATTTTAGTAATTTTACAAACTGGG
*
49576451 GGTATTTTGGTAATTTTACAAACTGGG
1 GGTATTTTAGTAATTTTACAAACTGGG
* ** *
49576478 GGTATCTCGGTAATTTTGCAAA-TCGGG
1 GGTATTTTAGTAATTTTACAAACT-GGG
** ** **
49576505 CATATTTCGGTAATTTTACAAACTGAA
1 GGTATTTTAGTAATTTTACAAACTGGG
* *
49576532 AGTA-TTTCGATAATTTTACAAACT
1 GGTATTTTAG-TAATTTTACAAACT
49576556 AAGGGTGTTT
Statistics
Matches: 106, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 7 0.07
27 98 0.92
28 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTACAAACTGGG
Found at i:49580868 original size:14 final size:14
Alignment explanation
Indices: 49580849--49580875 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49580839 TCTACAAAAA
49580849 AAAAGAAGAAGAAG
1 AAAAGAAGAAGAAG
49580863 AAAAGAAGAAGAA
1 AAAAGAAGAAGAA
49580876 AATGGAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAGAAG
Found at i:49583667 original size:5 final size:6
Alignment explanation
Indices: 49583639--49583664 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
49583629 CATCCGTGCC
49583639 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
49583665 ATTACTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:49588252 original size:93 final size:93
Alignment explanation
Indices: 49588143--49588315 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
49588133 CGCCCATAAG
* * * * *
49588143 TGAACTCGGACTCAACTCAATGAGATCGGGCGTTCGCATCCATAAGTGAACTCGGACTAAACTCA
1 TGAACTCAGACTCAACTCAACGAGATCAGACATTCGCATCCATAAGTGAACTCGGACTAAACTCA
*
49588208 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGAATGCCTAGTTACATCTCT
* *
49588236 TGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGATCAGACATTCGCATCCATAAGTGAACTCGGACTAAACTCA
*
49588301 ACGAGTTCGAATGCC
66 ACGAGCTCGAATGCC
49588316 CAAATATCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCAGACTCAACTCAACGAGATCAGACATTCGCATCCATAAGTGAACTCGGACTAAACTCA
ACGAGCTCGAATGCCTAGTTACATCTCT
Found at i:49588294 original size:46 final size:46
Alignment explanation
Indices: 49588136--49588308 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
49588126 TGTAACCCGC
* * * * *
49588136 CCATAAGTGAACTCGGACTCAACTCAATGAGATCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
* * * *
49588182 CCATAAGTGAACTCGGACTAAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCAT
*
49588232 CTC-T---TGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
49588275 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
49588309 GAATGCCCAA
Statistics
Matches: 103, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 2 0.02
45 1 0.01
46 57 0.55
47 24 0.23
49 2 0.02
50 5 0.05
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:49588330 original size:46 final size:44
Alignment explanation
Indices: 49588187--49588330 Score: 98
Period size: 46 Copynumber: 3.1 Consensus size: 44
49588177 CGCATCCATA
* * * *
49588187 AGTGAACTCGGACTAAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCA---A-ATC-CT
* * *
49588236 --TGAACTCAGACTCAACTCAACGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGCCCAAATCC-T
49588279 AAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCC-AA-ATCCT
49588326 AGTGA
1 AGTGA
49588331 CATGTCACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
45 2 0.03
46 31 0.41
47 25 0.33
48 5 0.07
49 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCAAATCCT
Found at i:49590750 original size:15 final size:15
Alignment explanation
Indices: 49590702--49590785 Score: 57
Period size: 15 Copynumber: 5.7 Consensus size: 15
49590692 CAAAGATAAC
*
49590702 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
* *
49590716 AAGAAATCCA-AGATT
1 AAGAAACCCAGA-ATA
* *
49590731 GAGAAGCCCAGAATA
1 AAGAAACCCAGAATA
*
49590746 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
* *
49590761 AAGAGATCCATG-ATA
1 AAGAAACCCA-GAATA
49590776 AAGAAACCCA
1 AAGAAACCCA
49590786 AGATACGATA
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
14 9 0.17
15 43 0.80
16 2 0.04
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.12
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:49590790 original size:15 final size:15
Alignment explanation
Indices: 49590713--49590790 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
49590703 AGAAAACCGA
49590713 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
** * *
49590728 ATTGAG-AAGCCCAG
1 ATAAAGAAATCCAAG
49590742 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
49590757 AATAAAGAGATCCATG
1 -ATAAAGAAATCCAAG
*
49590773 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
49590788 ATA
1 ATA
49590791 CGATACTATG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 6 0.12
15 37 0.77
16 5 0.10
ACGTcount: A:0.54, C:0.15, G:0.17, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:49593844 original size:91 final size:88
Alignment explanation
Indices: 49593732--49593898 Score: 237
Period size: 91 Copynumber: 1.9 Consensus size: 88
49593722 CGCCCATAAG
* * * *
49593732 TGAACTCACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCAAC
1 TGAACTCACTCAACTCAACGAGCTCAGACATACGCATCCATAAGTGAACTCGGACTCAACT--AC
49593796 GAGCTCGGATGCCTAGTTACATCTC
64 GAGCTCGGATGCCTAGTTACATCTC
*
49593821 TGAACTCGGACTCAACTCAACGAGTTCAGACATACGCATCCATAAGTGAACTCGGACTCAACTAC
1 TGAACTC--ACTCAACTCAACGAGCTCAGACATACGCATCCATAAGTGAACTCGGACTCAACTAC
*
49593886 GAGTTCGGATGCC
64 GAGCTCGGATGCC
49593899 AAAATATCCT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 7 0.10
90 14 0.20
91 39 0.57
92 9 0.13
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (88 bp):
TGAACTCACTCAACTCAACGAGCTCAGACATACGCATCCATAAGTGAACTCGGACTCAACTACGA
GCTCGGATGCCTAGTTACATCTC
Found at i:49593871 original size:46 final size:45
Alignment explanation
Indices: 49593725--49593883 Score: 162
Period size: 46 Copynumber: 3.5 Consensus size: 45
49593715 TGTAACCCGC
* * *
49593725 CCATAAGTGAACTC-ACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGACTCAACTCAACGAGCTCGGACATACGCAT
* *
49593769 CCATAAGTGAACTCGACTCAACTCAACGAGCTCGGATGCCTA-G-TT
1 CCATAAGTGAACTCGACTCAACTCAACGAGCTCGGA--CATACGCAT
* *** * *
49593814 ACATCTCTGAACTCGGACTCAACTCAACGAGTTCAGACATACGCAT
1 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGACATACGCAT
49593860 CCATAAGTGAACTCGGACTCAACT
1 CCATAAGTGAACTC-GACTCAACT
49593884 ACGAGTTCGG
Statistics
Matches: 93, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
44 17 0.18
45 32 0.34
46 42 0.45
47 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGACTCAACTCAACGAGCTCGGACATACGCAT
Found at i:49595636 original size:40 final size:40
Alignment explanation
Indices: 49595570--49595666 Score: 171
Period size: 40 Copynumber: 2.5 Consensus size: 40
49595560 TATAGACACT
*
49595570 TGTTAAATG-AAATAT-ATACTTGAAGTAAAGATGTTAAA
1 TGTTAAATGAAAATGTGATACTTGAAGTAAAGATGTTAAA
49595608 TGTTAAATGAAAATGTGATACTTGAAGTAAAGATGTTAAA
1 TGTTAAATGAAAATGTGATACTTGAAGTAAAGATGTTAAA
49595648 TGTTAAATGAAAATGTGAT
1 TGTTAAATGAAAATGTGAT
49595667 GGTTGGGTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
38 9 0.16
39 5 0.09
40 42 0.75
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (40 bp):
TGTTAAATGAAAATGTGATACTTGAAGTAAAGATGTTAAA
Found at i:49608496 original size:40 final size:40
Alignment explanation
Indices: 49608267--49608489 Score: 235
Period size: 39 Copynumber: 5.7 Consensus size: 40
49608257 TTGAATGATG
* * * *
49608267 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
49608306 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-ATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
49608345 TCCGGACTAAGAT-CCGAAGGCATTTATGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
49608385 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
49608424 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49608465 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49608490 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
39 82 0.51
40 71 0.44
41 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49608511 original size:79 final size:77
Alignment explanation
Indices: 49608319--49608522 Score: 216
Period size: 79 Copynumber: 2.6 Consensus size: 77
49608309 GGACTAAGAT
* *
49608319 CCGAAGGCATTTGTGCGAGATAC-ATATCCGGACTAAGATCCGAAGGCATTTATGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACTATATCCGG-TTAAG-TCCGAAGGCAATTATGCGAGATACTA
*
49608383 ATTCCGGGCTAAGC
64 ATACCGGGCTAAGC
* * * *
49608397 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGTGCGAGATACTATATCC-GGTTAAGT-CCGAAGGCAATTATGCGAGATACTA
*
49608461 ATAACCGGGCTATGTC
64 AT-ACCGGGCTAAG-C
** *
49608477 CCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGTGCGAGATA-CTATATCCGGTT-AAGTCCGAAGG
49608523 TACGTGATTT
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
78 25 0.23
79 52 0.49
80 30 0.28
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACTATATCCGGTTAAGTCCGAAGGCAATTATGCGAGATACTAAT
ACCGGGCTAAGC
Found at i:49616363 original size:39 final size:39
Alignment explanation
Indices: 49616297--49616405 Score: 152
Period size: 38 Copynumber: 2.8 Consensus size: 39
49616287 GGCATTACGA
*
49616297 TACTAATTCCGGCTAAG-CCCGAAGGCATTTGTGCGAGT
1 TACTAAATCCGGCTAAGTCCCGAAGGCATTTGTGCGAGT
*
49616335 TACTAAATCCGGTTAAGTCCCGAAGGCA-TTGTGCGAGT
1 TACTAAATCCGGCTAAGTCCCGAAGGCATTTGTGCGAGT
*
49616373 TACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
1 TACTA-AATCC-GGCTAAGTCCCGAAGGCATTTG
49616406 AACGAGTAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
38 32 0.51
39 28 0.44
40 3 0.05
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (39 bp):
TACTAAATCCGGCTAAGTCCCGAAGGCATTTGTGCGAGT
Found at i:49627344 original size:27 final size:26
Alignment explanation
Indices: 49627313--49627517 Score: 196
Period size: 27 Copynumber: 7.6 Consensus size: 26
49627303 ATATTGAGTC
* *
49627313 CGCACACTCAGTGCTATATCATCAACT
1 CGCACACTTAGTGCTACAT-ATCAACT
* *
49627340 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-ATCAACT
49627367 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATA-TC-AACT
** * *
49627395 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACAT-ATCAACT
**
49627422 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATA-TCAACT
* * *
49627449 CGCACACTTAGCGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATA-TCAACT
*
49627476 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATA-TCAACT
49627503 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49627518 GTACAATTTA
Statistics
Matches: 152, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
26 1 0.01
27 128 0.84
28 23 0.15
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (26 bp):
CGCACACTTAGTGCTACATATCAACT
Found at i:49627473 original size:54 final size:54
Alignment explanation
Indices: 49627313--49627516 Score: 241
Period size: 54 Copynumber: 3.8 Consensus size: 54
49627303 ATATTGAGTC
* * * * * *
49627313 CGCACACTCAGTGCTATATCA-TCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-AGTCAAATCGCACACTTAGTGCAACATAGTCAAAT
** * *
49627367 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAA-TCGCACACTTAGTGCAACATAGTCAAAT
* ** *
49627422 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGCGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAATCGCACACTTAGTGCAACATAGTCAAAT
49627476 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGC
49627517 TGTACAATTT
Statistics
Matches: 125, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 80 0.64
55 44 0.35
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCAACATAGTCAAAT
Found at i:49633499 original size:20 final size:20
Alignment explanation
Indices: 49633474--49633512 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49633464 GACTGTTGTG
*
49633474 GATATCATGAAACTAAGTAA
1 GATATCACGAAACTAAGTAA
49633494 GATATCACGAAACTAAGTA
1 GATATCACGAAACTAAGTA
49633513 TTGTTGGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (20 bp):
GATATCACGAAACTAAGTAA
Found at i:49636556 original size:35 final size:35
Alignment explanation
Indices: 49636510--49636649 Score: 190
Period size: 35 Copynumber: 4.0 Consensus size: 35
49636500 ACACACCAAA
* *
49636510 TGCTCACAAGAGCCAATCCAACCGAAACACGCCAG
1 TGCTCATAAGAGCTAATCCAACCGAAACACGCCAG
* * * *
49636545 TGCTCGTAAGAGCTAATCCATCTGAAACATGCCAG
1 TGCTCATAAGAGCTAATCCAACCGAAACACGCCAG
** *
49636580 TGCTCATAAGATATAATCCGACCGAAACACGCCAG
1 TGCTCATAAGAGCTAATCCAACCGAAACACGCCAG
*
49636615 TGCTCATAAGAGCTAATCCAACTGAAACACGCCAG
1 TGCTCATAAGAGCTAATCCAACCGAAACACGCCAG
49636650 ACAGAGAGTA
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 88 1.00
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (35 bp):
TGCTCATAAGAGCTAATCCAACCGAAACACGCCAG
Found at i:49642707 original size:27 final size:27
Alignment explanation
Indices: 49642662--49642730 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
49642652 AACAAATCTG
* *
49642662 TCATTTTACCTTACAGGGGTATTACAA
1 TCATTTTACCCTATAGGGGTATTACAA
* * **
49642689 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTACAA
49642716 TCATTTTACCCTATA
1 TCATTTTACCCTATA
49642731 AGGGAAACAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTACAA
Found at i:49646289 original size:42 final size:44
Alignment explanation
Indices: 49646185--49646320 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 44
49646175 AGATATCGTA
* * * *
49646185 TAAGA-CCATGTCTAGGACACAGGCCTAGAT-TTGAGATTTACGTG
1 TAAGACCCATGTCTAGGACAGAGGCATCGATATTGA-A-TTACATG
* ** *
49646229 TAAGA-CCATGTCTGGGACATTGGCATCG-TATTTG-ATTTCATG
1 TAAGACCCATGTCTAGGACAGAGGCATCGATA-TTGAATTACATG
49646271 TAAGACCCA-GTCTAGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCCATGTCTAGGACAGAGGCATCGATATTGAATTACATG
49646314 TAAGACC
1 TAAGACC
49646321 ACGTCCGGGA
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
42 29 0.38
43 21 0.28
44 23 0.30
45 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TAAGACCCATGTCTAGGACAGAGGCATCGATATTGAATTACATG
Found at i:49661338 original size:39 final size:40
Alignment explanation
Indices: 49661293--49661460 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
49661283 CGGGGTTTAG
* * *
49661293 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
49661332 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
49661372 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
49661412 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
49661453 CCGGATAT
1 CCGGATAT
49661461 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:49661443 original size:41 final size:40
Alignment explanation
Indices: 49661316--49661460 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
49661306 CTCGCACAAG
* * * * *
49661316 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
49661356 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
49661396 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
49661437 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
49661461 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:49666918 original size:17 final size:16
Alignment explanation
Indices: 49666896--49666937 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
49666886 CCTTTTCCTT
49666896 TTTCCTTCCCCTTTCTC
1 TTTCCTTCCCCTTT-TC
*
49666913 TTTCCTT-TCCTTTTC
1 TTTCCTTCCCCTTTTC
49666928 -TTCCTTCCCC
1 TTTCCTTCCCC
49666938 CACCTTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.27
15 4 0.18
16 5 0.23
17 7 0.32
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTCCTTCCCCTTTTC
Found at i:49674495 original size:30 final size:30
Alignment explanation
Indices: 49674459--49674519 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
49674449 TATTTAGTAC
*
49674459 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
49674489 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
49674519 A
1 A
49674520 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:49679779 original size:21 final size:21
Alignment explanation
Indices: 49679755--49679796 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49679745 TCATCAGATC
* *
49679755 TACACCTTGAGGCATCGGGGG
1 TACAACTTGAGGAATCGGGGG
*
49679776 TACAAGTTGAGGAATCGGGGG
1 TACAACTTGAGGAATCGGGGG
49679797 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.17, G:0.40, T:0.19
Consensus pattern (21 bp):
TACAACTTGAGGAATCGGGGG
Found at i:49691320 original size:28 final size:28
Alignment explanation
Indices: 49691280--49691372 Score: 161
Period size: 28 Copynumber: 3.3 Consensus size: 28
49691270 ATGTACTAGA
49691280 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
49691308 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
49691336 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
49691364 ATACCCCTA
1 ATACCCCTA
49691373 GGGTAAATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 62 0.98
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:49696655 original size:42 final size:44
Alignment explanation
Indices: 49696551--49696659 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 44
49696541 AAAGCTCGTA
* * ***
49696551 CAATGCCAACGTCCCATAC-GTGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGACAGTGGTCTTACACAAAATCAAATAT
* *
49696594 CAATGCCACTGTCCTAGACAG-GGTCTTACACAAAATCAAATA-
1 CAATGCCAATGTCCCAGACAGTGGTCTTACACAAAATCAAATAT
*
49696636 CGATGCCAATGTCCCAGACA-TGGT
1 CAATGCCAATGTCCCAGACAGTGGT
49696660 TTGAAACGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
42 20 0.37
43 33 0.61
44 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
CAATGCCAATGTCCCAGACAGTGGTCTTACACAAAATCAAATAT
Found at i:49703842 original size:13 final size:13
Alignment explanation
Indices: 49703824--49703849 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49703814 CGCATTGGTG
49703824 TACACGGCCATGT
1 TACACGGCCATGT
49703837 TACACGGCCATGT
1 TACACGGCCATGT
49703850 CGATCTTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
TACACGGCCATGT
Found at i:49714186 original size:37 final size:37
Alignment explanation
Indices: 49714129--49714231 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
49714119 CTCAGATGAG
* *
49714129 ATCTCCACACGAAGTTATCGGGTCTTATCCGGACAAA
1 ATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAA
* * *
49714166 ATCTCCATACGCAGTCATCGGGTCTTACCCGGACATA
1 ATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAA
*
49714203 ATCTCCACACGTAGTCATCGGGTCTTACC
1 ATCTCCACACGAAGTCATCGGGTCTTACC
49714232 TGGAATATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
ATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAA
Found at i:49714437 original size:48 final size:48
Alignment explanation
Indices: 49714382--49714803 Score: 650
Period size: 48 Copynumber: 8.7 Consensus size: 48
49714372 ACACATCGCC
*
49714382 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
49714430 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
49714480 TATATATTTCACATT-GACCATTCAGCCTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
49714528 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTCAAA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
49714578 TATATATTTCACATTAACCACTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
49714628 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
49714676 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
49714724 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
49714772 TACATA-TTCACATTAGCCATTCGGCTTTACCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCA
49714804 TTCAGCTTTA
Statistics
Matches: 346, Mismatches: 22, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
47 26 0.08
48 189 0.55
49 2 0.01
50 129 0.37
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:49714535 original size:98 final size:97
Alignment explanation
Indices: 49714385--49714881 Score: 638
Period size: 98 Copynumber: 4.9 Consensus size: 97
49714375 CATCGCCTAC
* * *
49714385 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTA-CCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
49714450 TTCGGCTTTACCACATATACATATCTCATATAT
65 TTCGGCTTTACCACATATACATATCTCATATAT
* *
49714483 ATATTTCACATTGACCATTCAGCCTTACCACATATGCATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATT-ACCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
49714548 TTCGGCTTTACCACATATACATACCTCAAATAT
65 TTCGGCTTTACCACATATACATATCTCATATAT
* * *
49714581 ATATTTCACATTAACCACTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGC
1 ATATTTCACATT-ACCATTCAGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGC
*
49714646 CATTCGGCTTTACCACATATACATATCTC--ATAC
63 CATTCGGCTTTACCACATATACATATCTCATATAT
*
49714679 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTA-CCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
49714744 TTCGGCTTTACCACATATACATATCTCATACATATT
65 TTCGGCTTTACCACATATACATATCTCAT--ATA-T
* * * *
49714780 CACATTAGCCATTCGGCTTTACCATTCAGCTTTACCACATATACATATCTCAAAAATATATATTT
1 ---A-TA---TTTC-ACATTACCATTCAGCTTTACCACATATACATATCTC----ATACATATTT
*
49714845 CGCATTAGCCATTCGGCTTTACCACATATACATATCT
54 CACATTAGCCATTCGGCTTTACCACATATACATATCT
49714882 TATACATCAA
Statistics
Matches: 352, Mismatches: 26, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
96 46 0.13
97 1 0.00
98 172 0.49
99 1 0.00
100 48 0.14
104 1 0.00
105 2 0.01
108 32 0.09
109 4 0.01
112 45 0.13
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (97 bp):
ATATTTCACATTACCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
TCGGCTTTACCACATATACATATCTCATATAT
Found at i:49714649 original size:148 final size:146
Alignment explanation
Indices: 49714382--49714888 Score: 694
Period size: 148 Copynumber: 3.4 Consensus size: 146
49714372 ACACATCGCC
* *
49714382 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* *
49714447 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT-GACCATTCAGCCTTAC
66 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCGCATTAG-CCATTCAGCTTTAC
*
49714511 CACATATGCATATCTCA
130 CACATATACATATCTCA
* *
49714528 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTCAAATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
* * * *
49714593 AACCACTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGCCATTCGGCTTTA
64 AGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGCCATTCAGCTTTA
49714658 CCACATATACATATCTCA
129 CCACATATACATATCTCA
49714676 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* *
49714741 CCATTCGGCTTTACCACATATACATATCTCATACATATTCACATTAGCCATTCGGCTTTA-CCAT
66 CCATTCGGCTTTACCACATATACATATCTCAT--ATA-T---A-TA---TTTC-GCATTAGCCAT
49714805 TCAGCTTTACCACATATACATATCTCAAAAA
120 TCAGCTTTACCACATATACATATCTC----A
* * *
49714836 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTTATACAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
49714889 CAATTTCAGC
Statistics
Matches: 321, Mismatches: 22, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
146 91 0.28
148 137 0.43
149 2 0.01
152 1 0.00
153 2 0.01
156 32 0.10
157 5 0.02
160 51 0.16
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (146 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGCCATTCAGCTTTACC
ACATATACATATCTCA
Found at i:49714812 original size:60 final size:62
Alignment explanation
Indices: 49714741--49714868 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 62
49714731 TTCACATTAG
*
49714741 CCATTCGGCTTTACCACATATACATATCTC-ATACATA-TTCACATTAGCCATTCGGCTTTA
1 CCATTCAGCTTTACCACATATACATATCTCAATACATATTTCACATTAGCCATTCGGCTTTA
* *
49714801 CCATTCAGCTTTACCACATATACATATCTCAAAAATATATATTTCGCATTAGCCATTCGGCTTTA
1 CCATTCAGCTTTACCACATATACATATCTC---AATACATATTTCACATTAGCCATTCGGCTTTA
49714866 CCA
1 CCA
49714869 CATATACATA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
60 29 0.48
64 6 0.10
65 25 0.42
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.34
Consensus pattern (62 bp):
CCATTCAGCTTTACCACATATACATATCTCAATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:49719567 original size:40 final size:40
Alignment explanation
Indices: 49718340--49719566 Score: 1612
Period size: 40 Copynumber: 30.7 Consensus size: 40
49718330 CCAGCATGAT
* * *
49718340 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49718380 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * *
49718420 TGCTCTTTGAGACTTAGCCCAGATATAACAC-CGACACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAG-CACAAA
* * *
49718460 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * *
49718500 TGCTCCTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49718540 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* *
49718580 TGCTCTTTC-AGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTC-TTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49718620 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49718660 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * **
49718700 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
*
49718740 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49718780 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
*
49718820 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * * *
49718860 TGCTCTTCGGGACTCAGCCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * *
49718900 TGCTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
*
49718940 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49718980 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49719020 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * *
49719060 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACAGA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
*
49719100 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49719140 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
*
49719180 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* ** *
49719220 TGCTCTTCGGGACTTAACCTTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49719260 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * * **
49719300 TGCTCTTTGGGACTTAGCTCGGATACATCACTAGCACGGA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* *
49719340 TGCTCTTCAGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49719380 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
*
49719420 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * * * *
49719460 TGCTCTTCGGGACTCAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
* * *
49719500 TGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
49719540 TGCTCTTCGGGACTTAGCCCGGATATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
49719567 TATAACTCTC
Statistics
Matches: 1027, Mismatches: 156, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
39 4 0.00
40 1019 0.99
41 4 0.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACAAA
Found at i:49720842 original size:37 final size:37
Alignment explanation
Indices: 49720785--49720891 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
49720775 CTCAGATGAG
* *
49720785 ATCTCCACACGAAGTTATCGGGTCTTATCCGGACAAA
1 ATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAA
* *
49720822 ATCTCCACACGCAGTCATCGGGTCTTACCCGGACATA
1 ATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAA
*
49720859 ATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 ATCTCCACACGAAGTCATCGGGTCTTACCCGGA
49720892 ATATATTTCC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
ATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAA
Found at i:49721307 original size:150 final size:146
Alignment explanation
Indices: 49721038--49721631 Score: 908
Period size: 150 Copynumber: 4.0 Consensus size: 146
49721028 ACACATCGCC
* * *
49721038 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAA
* *
49721103 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT-GACCATTCGGCCTTAC
66 CCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATTAG-CCATTCGGCTTTAC
*
49721167 CACATATGCATATCTCA
130 CACATATACATATCTCA
* *
49721184 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA--TC-T-CATACATATTTCACA
*
49721249 TTAACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGCCATTCGGCTT
62 TTAACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTT
49721314 TACCACATATACATATCTCA
127 TACCACATATACATATCTCA
* *
49721334 TACATATTTCACATTAGCCATTCGGTTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAA
* * *
49721399 CCATTCGGCTGTACCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACC
66 CCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACC
49721462 ACATATACATATCTCA
131 ACATATACATATCTCA
*
49721478 TACATA-TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
* * *
49721542 AACCATTCAGCTTTACCACATATACATATCTCAAAAATATATATTTCGCATTAGTCATTCGGCTT
64 AACCATTCAGCTTTACCACATATACATATCTC--ATATATATATTTCACATTAGCCATTCGGCTT
*
49721607 TACCACATATACATATCTTA
127 TACCACATATACATATCTCA
49721627 TACAT
1 TACAT
49721632 CAATTTCAGC
Statistics
Matches: 411, Mismatches: 26, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
143 39 0.09
144 53 0.13
145 44 0.11
146 86 0.21
147 1 0.00
148 4 0.01
149 51 0.12
150 132 0.32
151 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (146 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAA
CCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACC
ACATATACATATCTCA
Found at i:49721568 original size:50 final size:48
Alignment explanation
Indices: 49721038--49721631 Score: 859
Period size: 48 Copynumber: 12.1 Consensus size: 48
49721028 ACACATCGCC
*
49721038 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
49721086 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
49721136 TATATATTTCACATT-GACCATTCGGCCTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
49721184 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA--TC-T-CA
* * *
49721236 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
49721286 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
49721334 TACATATTTCACATTAGCCATTCGGTTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
49721382 TACATATTTCACATTAGCCATTCGGCTGTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
49721430 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
49721478 TACATA-TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
49721527 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCAAAAA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * * *
49721579 TATATATTTCGCATTAGTCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
49721627 TACAT
1 TACAT
49721632 CAATTTCAGC
Statistics
Matches: 500, Mismatches: 31, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
47 40 0.08
48 236 0.47
49 9 0.02
50 129 0.26
51 1 0.00
52 85 0.17
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:49725724 original size:21 final size:21
Alignment explanation
Indices: 49725689--49725739 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
49725679 AATTGCACAC
* *
49725689 GGCCATATGGTTCAATAGCCA
1 GGCCATGTGGGTCAATAGCCA
* *
49725710 GGCCGTGTGGGTCAATGGCCA
1 GGCCATGTGGGTCAATAGCCA
49725731 GGCCATGTG
1 GGCCATGTG
49725740 AATCGTGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.22
Consensus pattern (21 bp):
GGCCATGTGGGTCAATAGCCA
Found at i:49728397 original size:13 final size:13
Alignment explanation
Indices: 49728357--49728397 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
49728347 GAAGCACGAT
*
49728357 TCACACGGGCGTA
1 TCACACGGGCGTG
* *
49728370 TCACAAGGGCATG
1 TCACACGGGCGTG
49728383 TCACACGGGCGTG
1 TCACACGGGCGTG
49728396 TC
1 TC
49728398 CCTGCCGAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.29, G:0.32, T:0.17
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:49744203 original size:40 final size:40
Alignment explanation
Indices: 49744154--49744328 Score: 242
Period size: 40 Copynumber: 4.4 Consensus size: 40
49744144 CGGATGTAAC
* * * * *
49744154 AACCAGCACGAATGCCTTTGGGACTTAACGCTGTAATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
49744194 AACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
49744234 AACCCGCAAGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
**
49744274 AACCTTCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
49744314 AACCCACACGAATGC
1 AACCCGCACGAATGC
49744329 TGTGCACATA
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:49746762 original size:46 final size:48
Alignment explanation
Indices: 49746701--49746980 Score: 192
Period size: 46 Copynumber: 5.9 Consensus size: 48
49746691 TTTGGCATTA
* *
49746701 AGATG-AGAGCTAGTGTAAGA-CATGTTTGGGACATGCATTGGCCTCG
1 AGATGTAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCG
* * ** * *
49746747 AGATGTA-AGCCAGTGTATGA-TGTGTGTGGGACATGCATCAG-CTACG
1 AGATGTAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CG
* * *
49746793 AGATGT---GTTAGTGAAAGACCATGTCTGGGACATGGCATCGGCAC-AG
1 AGATGTAGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCG
* *
49746839 AGATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTTG
1 AGATGT-AGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCG
* * * *
49746889 A-TTCTGATAG-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACT--
1 AGATGT-AGAGCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCG
* * *
49746935 TGTTGGATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGATGTA-GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC
49746981 ATTACACCCT
Statistics
Matches: 188, Mismatches: 30, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
44 8 0.04
45 13 0.07
46 54 0.29
47 35 0.19
48 7 0.04
49 36 0.19
50 35 0.19
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (48 bp):
AGATGTAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCG
Found at i:49746924 original size:49 final size:48
Alignment explanation
Indices: 49746801--49746980 Score: 222
Period size: 49 Copynumber: 3.7 Consensus size: 48
49746791 CGAGATGTGT
* ** * *
49746801 TAGTGAAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGTGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC-C-TTGATTTGATAGC
*
49746851 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTTGATTCTGATAG-
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATT-TGATAGC
* *
49746899 TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTG-TTGGATGAGC
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATTTGAT-AGC
49746947 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC
49746981 ATTACACCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
46 3 0.03
47 34 0.30
48 11 0.10
49 35 0.30
50 32 0.28
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATTTGATAGC
Found at i:49746968 original size:96 final size:99
Alignment explanation
Indices: 49746802--49746980 Score: 276
Period size: 96 Copynumber: 1.8 Consensus size: 99
49746792 GAGATGTGTT
49746802 AGTGAAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGTGAGAGCTAGTGTAAGACCATGT
1 AGTGAAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGTGAGAGCTAGTGTAAGACCATGT
*
49746867 CTGGGACATGGCGTCGGCCTTGATTCTGATAGTC
66 CTGGGACATGGCATCGGCCTTGATTCTGATAGTC
* ** *
49746901 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TTGTTG-GATGAGCTAGTGTAAGACCATG
1 AGTGAAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGTGA-GAGCTAGTGTAAGACCATG
49746962 TCTGGGACATGGCATCGGC
65 TCTGGGACATGGCATCGGC
49746981 ATTACACCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 2 0.03
96 40 0.54
97 2 0.03
98 1 0.01
99 29 0.39
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (99 bp):
AGTGAAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGTGAGAGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGGCCTTGATTCTGATAGTC
Found at i:49752083 original size:49 final size:49
Alignment explanation
Indices: 49752022--49752160 Score: 215
Period size: 49 Copynumber: 2.8 Consensus size: 49
49752012 AAAGCTATCT
* *
49752022 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCC
* ** *
49752071 GGTACACGTAGTAGCCTGCACTTAGTACTACACATACGACCAATAATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCC
*
49752120 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
49752161 TCACAATAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 80 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCC
Found at i:49762575 original size:48 final size:47
Alignment explanation
Indices: 49762510--49762722 Score: 221
Period size: 48 Copynumber: 4.4 Consensus size: 47
49762500 GGTTATGTGT
* * * *
49762510 GAGCCAATGTAAAACCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTTTGG-ACATGGCATCAGCATCGTTATGA
* * * ** *
49762558 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGT-TTGGACATGGCATCAGCATCGTTATGA
* * *
49762606 GAGCCAGTGTCAGACCATGTTTGGAACATGGCATC-GACATTGTTATGT
1 GAGCCAGTGTAAGACCATGTTTGG-ACATGGCATCAG-CATCGTTATGA
* *
49762654 GAGCCAGTGTAAGACCATGTTTGGGCATGGCATCAGCACCGATGTATGA
1 GAGCCAGTGTAAGACCATGTTTGGACATGGCATCAGCATCG-T-TATGA
*
49762703 GAGCTAGTGTAAGACCATGT
1 GAGCCAGTGTAAGACCATGT
49762723 CTGGCTTATC
Statistics
Matches: 136, Mismatches: 23, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
47 16 0.12
48 94 0.69
49 26 0.19
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTTTGGACATGGCATCAGCATCGTTATGA
Found at i:49762671 original size:96 final size:95
Alignment explanation
Indices: 49762507--49762690 Score: 287
Period size: 96 Copynumber: 1.9 Consensus size: 95
49762497 TAGGGTTATG
* *
49762507 TGTGAGCCAATGTAAAACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGA
1 TGTGAGCCAATGTAAAACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGTGTAAGA
49762572 CCATGTCTAGGACATGGCATCAGCCTCAATA
66 CCATGT-TAGGACATGGCATCAGCCTCAATA
* * * *
49762603 TGTGAGCCAGTGTCAGACCATGTTTGGAACATGGCATCGACATTGTTATGTGAGCCAGTGTAAGA
1 TGTGAGCCAATGTAAAACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGTGTAAGA
* *
49762668 CCATGTTTGGGCATGGCATCAGC
66 CCATGTTAGGACATGGCATCAGC
49762691 ACCGATGTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 15 0.19
96 65 0.81
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (95 bp):
TGTGAGCCAATGTAAAACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGTGTAAGA
CCATGTTAGGACATGGCATCAGCCTCAATA
Found at i:49774313 original size:57 final size:57
Alignment explanation
Indices: 49774175--49774316 Score: 135
Period size: 57 Copynumber: 2.5 Consensus size: 57
49774165 CTCATTACAG
* * * * **
49774175 AAAGGATTTAGCCCGGACGAGTAATCCTGATATAAGTCCTCTCGAGCATATGTTATGG
1 AAAGGATTTAGCCCGGACG-GTAATCCAGATACAAGTCCTCTAGAGCATATGTCATAA
* * * *
49774233 AATGGATTTAGCCTGGAGGGGTAATTCAGAT-CAAGCTCCT-TAGAGCATATGTCATAA
1 AAAGGATTTAGCCCGGA-CGGTAATCCAGATACAAG-TCCTCTAGAGCATATGTCATAA
*
49774290 AAAGGATTTAGCCGGGACTGGTAATCC
1 AAAGGATTTAGCCCGGAC-GGTAATCC
49774317 TATTGTATAT
Statistics
Matches: 67, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
57 38 0.57
58 28 0.42
59 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (57 bp):
AAAGGATTTAGCCCGGACGGTAATCCAGATACAAGTCCTCTAGAGCATATGTCATAA
Found at i:49776764 original size:27 final size:27
Alignment explanation
Indices: 49776714--49776765 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
49776704 TTTTATATTA
*
49776714 ATTAATAAAGGTTATATATGTAAAATG
1 ATTAATAAAGGTTATATATATAAAATG
*
49776741 ATTAAT-AATGTTATATAATATAAAA
1 ATTAATAAAGGTTATAT-ATATAAAA
49776766 CATAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (27 bp):
ATTAATAAAGGTTATATATATAAAATG
Found at i:49784001 original size:46 final size:45
Alignment explanation
Indices: 49783948--49784123 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
49783938 TGGTTGAGCA
*
49783948 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
49783994 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
49784039 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTGGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-TGGAATG
* * *
49784087 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49784124 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 27 0.25
48 3 0.03
50 2 0.02
51 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:49784104 original size:93 final size:93
Alignment explanation
Indices: 49783945--49784116 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
49783935 GGATGGTTGA
* * * * *
49783945 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49784010 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
49784038 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTG-GAACGCCCGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-TGCGAACGCCCGAACTCGTTGAG
49784102 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
49784117 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49795150 original size:6 final size:6
Alignment explanation
Indices: 49795141--49795178 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
49795131 AAAAATAATT
*
49795141 CAAGTC CAAGTC CAAATC CAAGTC CAAGTC CAAGTC CA
1 CAAGTC CAAGTC CAAGTC CAAGTC CAAGTC CAAGTC CA
49795179 TATCTGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.37, C:0.34, G:0.13, T:0.16
Consensus pattern (6 bp):
CAAGTC
Found at i:49798550 original size:27 final size:27
Alignment explanation
Indices: 49798518--49798570 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
49798508 TGACAACTAA
**
49798518 GAATAGCCTTTATGGTGAACTCTAAAT
1 GAATAGCCTTTATGACGAACTCTAAAT
*
49798545 GAATAGCCTTTGTGACGAACTCTAAA
1 GAATAGCCTTTATGACGAACTCTAAA
49798571 AGAGATACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (27 bp):
GAATAGCCTTTATGACGAACTCTAAAT
Found at i:49798584 original size:27 final size:27
Alignment explanation
Indices: 49798516--49798585 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
49798506 CATGACAACT
* * **
49798516 AAGAATAGCCTTTATGGTGAACTCTAA
1 AAGAATAGCCCTTGTGACGAACTCTAA
* *
49798543 ATGAATAGCCTTTGTGACGAACTCTAA
1 AAGAATAGCCCTTGTGACGAACTCTAA
49798570 AAGAGATA-CCCTTGTG
1 AAGA-ATAGCCCTTGTG
49798586 GCAATTTCTG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 33 0.92
28 3 0.08
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (27 bp):
AAGAATAGCCCTTGTGACGAACTCTAA
Found at i:49803284 original size:22 final size:23
Alignment explanation
Indices: 49803225--49803390 Score: 104
Period size: 23 Copynumber: 7.3 Consensus size: 23
49803215 AATACGGCAG
* * *
49803225 AAAGGCATTATAGAATATGCCAA
1 AAAGGCATTACAAAATATGCCAC
* * * *
49803248 AAAGGTAATGCAAAATATGGCAC
1 AAAGGCATTACAAAATATGCCAC
* *
49803271 -AAGGCATTATAAAATACGCCAC
1 AAAGGCATTACAAAATATGCCAC
* * *
49803293 AAAGGCATTACAGAATATGCAAAA
1 AAAGGCATTACAAAATATGC-CAC
** * *
49803317 AAAGGCATTTTAGAATATTCCAC
1 AAAGGCATTACAAAATATGCCAC
* * *
49803340 --AGCGTATTACAGAATACGCCAC
1 AAAG-GCATTACAAAATATGCCAC
* *
49803362 AAAGGCATTGCAAAGTATGCCAC
1 AAAGGCATTACAAAATATGCCAC
49803385 AAAGGC
1 AAAGGC
49803391 TTTTCAAGTA
Statistics
Matches: 105, Mismatches: 33, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
21 2 0.02
22 30 0.29
23 53 0.50
24 20 0.19
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (23 bp):
AAAGGCATTACAAAATATGCCAC
Found at i:49803310 original size:45 final size:45
Alignment explanation
Indices: 49803226--49803311 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
49803216 ATACGGCAGA
* * * *
49803226 AAGGCATTATAGAATATGCCAAAAAGGTAATGCAAAATATGGCAC
1 AAGGCATTATAAAATACGCCAAAAAGGCAATACAAAATATGGCAC
* * *
49803271 AAGGCATTATAAAATACGCCACAAAGGCATTACAGAATATG
1 AAGGCATTATAAAATACGCCAAAAAGGCAATACAAAATATG
49803312 CAAAAAAAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.20
Consensus pattern (45 bp):
AAGGCATTATAAAATACGCCAAAAAGGCAATACAAAATATGGCAC
Found at i:49805267 original size:44 final size:42
Alignment explanation
Indices: 49805204--49805358 Score: 156
Period size: 42 Copynumber: 3.6 Consensus size: 42
49805194 TATGTGTTTT
49805204 CGTGTAAGACCACATCTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGA-TT-TGATTTA
** *
49805248 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT-
1 CGTGTAAGACCACATCTGGGACGTTGGCATCG-ATTTGATTTA
* * * *
49805290 CGTGTAAGACC-CTGTCTGGTAAG-TGGCATCGATATTTG-GTTA
1 CGTGTAAGACCAC-ATCTGGGACGTTGGCATCG--ATTTGATTTA
*
49805332 CATGTAAGACCACATCTGGGACGTTGG
1 CGTGTAAGACCACATCTGGGACGTTGG
49805359 TATTGTATGA
Statistics
Matches: 93, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
41 10 0.11
42 41 0.44
43 10 0.11
44 31 0.33
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACATCTGGGACGTTGGCATCGATTTGATTTA
Found at i:49806118 original size:22 final size:24
Alignment explanation
Indices: 49806093--49806137 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
49806083 GTTTTTGGCT
49806093 TATGGAATG-ACATGA-ATTGGTA
1 TATGGAATGAACATGATATTGGTA
**
49806115 TATGTTATGAACATGATATTGGT
1 TATGGAATGAACATGATATTGGT
49806138 TGATTCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.38
Consensus pattern (24 bp):
TATGGAATGAACATGATATTGGTA
Found at i:49809446 original size:8 final size:8
Alignment explanation
Indices: 49809435--49809459 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
49809425 TTAAAGTGTT
49809435 AAAATGTG
1 AAAATGTG
49809443 AAAATGTG
1 AAAATGTG
49809451 AAAATGTG
1 AAAATGTG
49809459 A
1 A
49809460 GGGCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:49817588 original size:43 final size:43
Alignment explanation
Indices: 49817439--49817592 Score: 129
Period size: 42 Copynumber: 3.6 Consensus size: 43
49817429 CATAGGATTT
* * *
49817439 TCGATATGTGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
1 TCGATATTTGATTACATGTAAGACC-CTGTCTGGGACAGTT-GCA
* * * * * *
49817482 TCAACT-TATTGTTTACATGTAAAACCATGTATGGGACA-TCGGCA
1 TCGA-TAT-TTGATTACATGTAAGACCCTGTCTGGGACAGT-TGCA
* *
49817526 TC-ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTTGCA
1 TCGATATTTGATTACATGTAAGACCCTGTCTGGGACAGTTGCA
49817568 TCGATATTTGATTACATGTAAGACC
1 TCGATATTTGATTACATGTAAGACC
49817593 ACATCTGGGG
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
42 30 0.35
43 27 0.32
44 28 0.33
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCCTGTCTGGGACAGTTGCA
Found at i:49817600 original size:43 final size:43
Alignment explanation
Indices: 49817439--49817601 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 43
49817429 CATAGGATTT
* * *
49817439 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACAGTT-GCA
* * * * * *
49817482 TCAACT-TATTGTTTACATGTAAAACCATGTATGGGACA-TCGGCA
1 TCGA-TAT-TTGATTACATGTAAGACCACGTCTGGGACAGT-TGCA
* *
49817526 TC-ATATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGTTGCA
1 TCGATATTTGATTACATGTAAGACCAC-GTCTGGGACAGTTGCA
*
49817568 TCGATATTTGATTACATGTAAGACCACATCTGGG
1 TCGATATTTGATTACATGTAAGACCACGTCTGGG
49817602 GCGTTGGCAT
Statistics
Matches: 92, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
42 29 0.32
43 33 0.36
44 30 0.33
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCACGTCTGGGACAGTTGCA
Found at i:49819493 original size:43 final size:43
Alignment explanation
Indices: 49819418--49819587 Score: 184
Period size: 43 Copynumber: 4.0 Consensus size: 43
49819408 TAGGATTTCT
* * * * *
49819418 GATATGTGATTTCGTGTAAGACCATGTTTGGGACGTTGGCAAC
1 GATATTTGATTACGTGTAAGACCATGTCTGGGACATTGGCATC
* *
49819461 GAT-TTGAGATTATGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATATT-TGATTACGTGTAAGACCATGTCTGGGACATTGGCATC
* *
49819504 -ATATTTGATCT-CGTGTAAGACCCTGTCTGGGACAATGGCATC
1 GATATTTGAT-TACGTGTAAGACCATGTCTGGGACATTGGCATC
* * * *
49819546 GATATTTGATTACATGTAAGACCACGTATGGGACGTTGGCAT
1 GATATTTGATTACGTGTAAGACCATGTCTGGGACATTGGCAT
49819588 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
42 35 0.33
43 70 0.67
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
GATATTTGATTACGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:49819557 original size:85 final size:85
Alignment explanation
Indices: 49819419--49819587 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
49819409 AGGATTTCTG
* * ** **
49819419 ATATGTGATTTCGTGTAAGACCATGTTTGGGACGTTGGCAACGATTTGAGATTATGTGTAAGACC
1 ATATGTGATCTCGTGTAAGACCATGTCTGGGACAATGGCAACGATTTGAGATTACATGTAAGACC
* *
49819484 ATGTCTGGGACATTGGCATC
66 ACGTATGGGACATTGGCATC
* * * *
49819504 ATATTTGATCTCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATT-TGATTACATGTAAGAC
1 ATATGTGATCTCGTGTAAGACCATGTCTGGGACAATGGCAACGAT-TTGAGATTACATGTAAGAC
*
49819568 CACGTATGGGACGTTGGCAT
65 CACGTATGGGACATTGGCAT
49819588 TGTACGAGCT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
85 68 0.97
86 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (85 bp):
ATATGTGATCTCGTGTAAGACCATGTCTGGGACAATGGCAACGATTTGAGATTACATGTAAGACC
ACGTATGGGACATTGGCATC
Found at i:49820264 original size:18 final size:18
Alignment explanation
Indices: 49820243--49820282 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
49820233 GCTTTGTGCC
49820243 TATTTTGGATTTTGGTAA
1 TATTTTGGATTTTGGTAA
49820261 TATTTTGGATTTTGGTAA
1 TATTTTGGATTTTGGTAA
49820279 TATT
1 TATT
49820283 GAGATTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (18 bp):
TATTTTGGATTTTGGTAA
Found at i:49821642 original size:20 final size:20
Alignment explanation
Indices: 49821609--49821652 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
49821599 CACCAAGAGT
*
49821609 CAAAAAGAGCCAAAAAC-GAC
1 CAAAAAGAGAC-AAAACGGAC
*
49821629 CAAAAAGGGACAAAACGGAC
1 CAAAAAGAGACAAAACGGAC
49821649 CAAA
1 CAAA
49821653 TCTAGAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.59, C:0.23, G:0.18, T:0.00
Consensus pattern (20 bp):
CAAAAAGAGACAAAACGGAC
Found at i:49822685 original size:13 final size:13
Alignment explanation
Indices: 49822667--49822695 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49822657 TTTAGTTTAA
49822667 TTAGTTAATTAGT
1 TTAGTTAATTAGT
49822680 TTAGTTAATTAGT
1 TTAGTTAATTAGT
49822693 TTA
1 TTA
49822696 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:49830863 original size:13 final size:13
Alignment explanation
Indices: 49830845--49830873 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49830835 TTTAGTTTAA
49830845 TTAGTTAATTAGT
1 TTAGTTAATTAGT
49830858 TTAGTTAATTAGT
1 TTAGTTAATTAGT
49830871 TTA
1 TTA
49830874 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:49833642 original size:26 final size:25
Alignment explanation
Indices: 49833586--49833646 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
49833576 ACGTTGGAAC
*
49833586 GATGCTAACACAAGCTATAAATATA
1 GATGCTCACACAAGCTATAAATATA
*
49833611 TATGCTCACACAAGCTATAAA-ATA
1 GATGCTCACACAAGCTATAAATATA
49833635 GACCTGCTCACA
1 GA--TGCTCACA
49833647 TGAGCTGTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.13
25 19 0.61
26 8 0.26
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (25 bp):
GATGCTCACACAAGCTATAAATATA
Found at i:49837091 original size:15 final size:15
Alignment explanation
Indices: 49837071--49837102 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49837061 ATATCTGCAG
49837071 TTAAGAAACTCCAAA
1 TTAAGAAACTCCAAA
49837086 TTAAGAAACTCCAAA
1 TTAAGAAACTCCAAA
49837101 TT
1 TT
49837103 CATAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (15 bp):
TTAAGAAACTCCAAA
Found at i:49837861 original size:49 final size:50
Alignment explanation
Indices: 49837787--49837969 Score: 185
Period size: 49 Copynumber: 3.7 Consensus size: 50
49837777 ATCTAGTACG
* **
49837787 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATT-GATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATTAGATACA
* * * * * * *
49837836 CCTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATTAGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TAATTAGATACA
* * * * *
49837887 CATAGTAGCCTGCACTTAGTGCTACACATGAGACC-AATAATTCGTTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATTAGATACA
*
49837936 CGTAGTAGCCTGCACTTAGTACT--ACACGTGACCT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT
49837970 CACAATAGAT
Statistics
Matches: 108, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
47 8 0.07
49 62 0.57
50 5 0.05
51 33 0.31
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATTAGATACA
Found at i:49837936 original size:100 final size:100
Alignment explanation
Indices: 49837782--49837962 Score: 265
Period size: 100 Copynumber: 1.8 Consensus size: 100
49837772 AAGCTATCTA
* * *
49837782 GTACGCATAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTGATACACCTAGTAGCTT
1 GTACGCATAGTAGCCTACACTTAGTACTACACACGAGACCTAACAATTGATACACCTAGTAGCCT
49837847 GCACTTAGTACTACACACGTGATCGAAGTTATTAG
66 GCACTTAGTACTACACACGTGATCGAAGTTATTAG
* * * * * *
49837882 GTACGCATAGTAGCCTGCACTTAGTGCTACACATGAGACC-AATAATTCGTTACACGTAGTAGCC
1 GTACGCATAGTAGCCTACACTTAGTACTACACACGAGACCTAACAATT-GATACACCTAGTAGCC
49837946 TGCACTTAGTACTACAC
65 TGCACTTAGTACTACAC
49837963 GTGACCTCAC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 5 0.07
100 66 0.93
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
GTACGCATAGTAGCCTACACTTAGTACTACACACGAGACCTAACAATTGATACACCTAGTAGCCT
GCACTTAGTACTACACACGTGATCGAAGTTATTAG
Found at i:49841299 original size:27 final size:26
Alignment explanation
Indices: 49841269--49841320 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
49841259 AGCTTAAATA
*
49841269 TGTCTAGTTTA-GGACATCAATTTAATG
1 TGTCTAGCTTAGGGACA--AATTTAATG
49841296 TGTCTAGCTTAGGGACAAATTTAAT
1 TGTCTAGCTTAGGGACAAATTTAAT
49841321 TGTTGCTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 10 0.43
28 5 0.22
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (26 bp):
TGTCTAGCTTAGGGACAAATTTAATG
Found at i:49844605 original size:49 final size:49
Alignment explanation
Indices: 49844451--49844626 Score: 176
Period size: 49 Copynumber: 3.5 Consensus size: 49
49844441 CTGGTATGCA
* * * ** * *
49844451 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATAATCCGGTACACG
* * * * * *
49844501 TAGTAGCCTGCACTTAATACTACACACATGATCGA--AATTATCGGGTACGCA
1 TAGTAGCCTACACTTAGTACT--ACACATG--CGACCAATAATCCGGTACACG
49844552 TAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACG
49844601 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTACACTTAGTACTACACA
49844627 CGTGACCTCA
Statistics
Matches: 105, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
47 3 0.03
49 45 0.43
50 20 0.19
51 29 0.28
52 6 0.06
54 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACG
Found at i:49848440 original size:46 final size:45
Alignment explanation
Indices: 49848387--49848562 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
49848377 TGGTTGAGCA
49848387 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAGGAA-G
* * * * *
49848433 TCCGAACTCGTTGAGTTGAGTCCGAATTC-GTGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-TAGGAAG
*
49848480 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGAT-GCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAG-GAA-G
* * *
49848526 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49848563 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 64 0.60
47 30 0.28
48 2 0.02
49 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAGGAAG
Found at i:49848543 original size:93 final size:93
Alignment explanation
Indices: 49848384--49848555 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
49848374 GGATGGTTGA
* * *
49848384 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAGGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATAGGAACGCCCGAACTCGTTGAGT
49848449 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
*
49848477 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGAT-GCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATAG-GAACGCCCGAACTCGTTGAG
*
49848541 TTGAGTCCGAGTTCG
65 TTGAGTCCGAATTCG
49848556 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATAGGAACGCCCGAACTCGTTGAGT
TGAGTCCGAATTCGTGAGATGTAACTAG
Found at i:49853465 original size:40 final size:40
Alignment explanation
Indices: 49853419--49853643 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
49853409 CTTGCACAAG
* ** * *
49853419 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
*
49853459 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
* *
49853499 GCCTTCGAGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
* * * *
49853539 GCCTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATC-GCTAGCACAAAT
* * * * * * *
49853579 GCCTTCAGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAATC-GCTAGCACAAAT
* * *
49853620 GCTTTCGGGACTTAGCCCGAATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
49853644 CATTCGAATA
Statistics
Matches: 151, Mismatches: 32, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.01
40 122 0.81
41 27 0.18
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
Found at i:49853518 original size:80 final size:79
Alignment explanation
Indices: 49853383--49853643 Score: 276
Period size: 80 Copynumber: 3.3 Consensus size: 79
49853373 CTCAAGTAAT
* * * * * * *
49853383 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTGGTC
1 CTTCGGGACTTAGCCCGGATATAACAACTAGCACAATGCCTTCGAGTCTTAGCCCGGATATAGTC
*
49853447 ACTAGCATAAATGC
66 ACTAGCACAAATGC
* * *
49853461 CTTCGGGACTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGAGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAA-CAACTAGCAC-AATGCCTTCGAGTCTTAGCCCGGATATAG
*
49853525 TCGCTAGCACAAATGC
64 TCACTAGCACAAATGC
* * * * *
49853541 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTC-AGATCTTAGTCCGGTTATAG
1 CTTCGGGACTTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGAG-TCTTAGCCCGGATATAG
*
49853605 TCACCTAGCACAAAAGC
64 TCA-CTAGCACAAATGC
* *
49853622 TTTCGGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
49853644 CATTCGAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 12 0.08
79 19 0.12
80 90 0.59
81 31 0.20
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACAACTAGCACAATGCCTTCGAGTCTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:49859684 original size:20 final size:20
Alignment explanation
Indices: 49859659--49859700 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
49859649 ATTTAAACAT
*
49859659 AGAAACTTATACATTAATAA
1 AGAAACTCATACATTAATAA
49859679 AGAAACTCATACATTAATAA
1 AGAAACTCATACATTAATAA
49859699 AG
1 AG
49859701 CATTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.26
Consensus pattern (20 bp):
AGAAACTCATACATTAATAA
Found at i:49863551 original size:46 final size:47
Alignment explanation
Indices: 49863480--49864225 Score: 1163
Period size: 46 Copynumber: 16.1 Consensus size: 47
49863470 CTATTCGGGA
** * * * * * *
49863480 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49863527 C-TGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
49863572 CTTAT--CACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49863617 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49863664 CTTATCAC-TATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49863710 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49863757 CTTATCACACATATACACTTTCACATTCATCACATCGG-CATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
49863803 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATT-GGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49863849 CTTATCACACATATACACTTTCACATTCATACACGTCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCAT-CACATCGGCCATTAGGC
* *
49863897 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49863944 CTTATCACATATATACACTTTCAGATTCATCACATCGG-TATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49863990 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49864037 CTTATCACACATATACACTTTCACATTCATCACAT-GACCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
49864083 CTTATCACACATATACACTTTCACATTCATCAC-TCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49864129 CTTATCACACATATACACTTTCACATTCATCAC-TCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49864175 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
49864222 CTTA
1 CTTA
49864226 CTATCATTTC
Statistics
Matches: 658, Mismatches: 30, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
44 21 0.03
45 37 0.06
46 320 0.49
47 247 0.38
48 33 0.05
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49863626 original size:22 final size:22
Alignment explanation
Indices: 49863555--49863626 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
49863545 TTCACATTCA
49863555 CACATCGGCCATTAGGCCTTAT
1 CACATCGGCCATTAGGCCTTAT
*** * *
49863577 CACATATACACTTTCA--CATTCAT
1 CACATCGGC-CATT-AGGCCTT-AT
49863600 CACATCGGCCATTAGGCCTTAT
1 CACATCGGCCATTAGGCCTTAT
49863622 CACAT
1 CACAT
49863627 ATATACACTT
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 19 0.54
23 14 0.40
24 1 0.03
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
CACATCGGCCATTAGGCCTTAT
Found at i:49863692 original size:93 final size:94
Alignment explanation
Indices: 49863480--49864225 Score: 1163
Period size: 93 Copynumber: 8.0 Consensus size: 94
49863470 CTATTCGGGA
** * * * * * * * *
49863480 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC-TGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
49863544 TTTCACATTCA-CACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
49863572 CTTAT--CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
49863635 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
49863664 CTTATCAC-TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
*
49863728 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
49863757 CTTATCACACATATACACTTTCACATTCATCACATCGG-CATTTGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
49863821 TTTCACATTCATCACATCGGCCATT-GGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
49863849 CTTATCACACATATACACTTTCACATTCATACACGTCGGCCATTAGGCCTTATCACACATATACA
1 CTTATCACACATATACACTTTCACATTCAT-CACATCGGCCATTAGGCCTTATCACACATATACA
* *
49863914 CTTTCACATTCATCACGTCGGCTATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
* * *
49863944 CTTATCACATATATACACTTTCAGATTCATCACATCGG-TATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
*
49864008 TTTCACATTCATCACATCGGCCATTTGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
49864037 CTTATCACACATATACACTTTCACATTCATCACAT-GACCATTTGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
49864101 TTTCACATTCATCAC-TCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
49864129 CTTATCACACATATACACTTTCACATTCATCAC-TCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
49864193 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
49864222 CTTA
1 CTTA
49864226 CTATCATTTC
Statistics
Matches: 605, Mismatches: 38, Indels: 21
0.91 0.06 0.03
Matches are distributed among these distances:
90 33 0.05
91 27 0.04
92 146 0.24
93 284 0.47
94 84 0.14
95 31 0.05
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:49863836 original size:23 final size:23
Alignment explanation
Indices: 49863764--49863837 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
49863754 GGCCTTATCA
49863764 CACATATACACTTTCACATTCAT
1 CACATATACACTTTCACATTCAT
*** *
49863787 CACATCGGCA-TTTGGC-CTTATCA-
1 CACATATACACTTT--CACAT-TCAT
49863810 CACATATACACTTTCACATTCAT
1 CACATATACACTTTCACATTCAT
49863833 CACAT
1 CACAT
49863838 CGGCCATTGG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
22 7 0.19
23 23 0.62
24 7 0.19
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.32
Consensus pattern (23 bp):
CACATATACACTTTCACATTCAT
Found at i:49863988 original size:280 final size:278
Alignment explanation
Indices: 49863480--49864225 Score: 1209
Period size: 280 Copynumber: 2.7 Consensus size: 278
49863470 CTATTCGGGA
** * * * * * * *
49863480 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC-TGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCAC-ATGG-CATTTGGCCTTATCACACATATACAC
49863544 TTTCACATTCA-CACATCGGCCATTAGGCCTTAT--CACATATACACTTTCACATTCATCACATC
64 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCAC-TC
49863606 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
128 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
49863671 CTATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACAT
193 CTATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
*
49863736 TCATCACATCGGCTATTAGGC
258 TCATCACATCGGCCATTAGGC
49863757 CTTATCACACATATACACTTTCACATTCATCACATCGGCATTTGGCCTTATCACACATATACACT
1 CTTATCACACATATACACTTTCACATTCATCACAT-GGCATTTGGCCTTATCACACATATACACT
49863822 TTCACATTCATCACATCGGCCATT-GGCCTTATCACACATATACACTTTCACATTCATACACGTC
65 TTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT-CAC-TC
* * *
49863886 GGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCA
128 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
49863951 CATATATACACTTTCAGATTCATCACATCGG-TATTAGGCCTTATCACACATATACACTTTCACA
193 C-TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACA
*
49864015 TTCATCACATCGGCCATTTGGC
257 TTCATCACATCGGCCATTAGGC
*
49864037 CTTATCACACATATACACTTTCACATTCATCACATGACCATTTGGCCTTATCACACATATACACT
1 CTTATCACACATATACACTTTCACATTCATCACATG-GCATTTGGCCTTATCACACATATACACT
49864102 TTCACATTCATCAC-TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACTCGG
65 TTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACTCGG
*
49864166 CTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
130 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
49864226 CTATCATTTC
Statistics
Matches: 438, Mismatches: 22, Indels: 17
0.92 0.05 0.04
Matches are distributed among these distances:
276 8 0.02
277 64 0.15
278 73 0.17
279 36 0.08
280 229 0.52
281 28 0.06
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (278 bp):
CTTATCACACATATACACTTTCACATTCATCACATGGCATTTGGCCTTATCACACATATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACTCGGC
CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTA
TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCA
TCACATCGGCCATTAGGC
Found at i:49868139 original size:29 final size:29
Alignment explanation
Indices: 49868073--49868152 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
49868063 CTTAATAATC
*
49868073 AACCACGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGCACTTTA
*
49868103 AACTCGCACACTTAGTGCCATGCA-TTTCA
1 AACCCGCACACTTAGTGCCATGCACTTT-A
*
49868132 AGCCCGCA-ACTCTAGTGCCAT
1 AACCCGCACACT-TAGTGCCAT
49868153 CTCACAACCG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
28 6 0.14
29 35 0.80
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCACTTTA
Found at i:49879504 original size:68 final size:64
Alignment explanation
Indices: 49879394--49879646 Score: 219
Period size: 68 Copynumber: 3.9 Consensus size: 64
49879384 ATACAGATGG
** * * * *
49879394 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAG
49879457 ATTA
62 A-TA
* *
49879461 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
49879526 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGG-TACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
49879591 TA
63 TA
* * *
49879593 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
49879647 CGAACTATAT
Statistics
Matches: 153, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 21 0.14
65 9 0.06
66 20 0.13
67 33 0.22
68 49 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:49885938 original size:51 final size:49
Alignment explanation
Indices: 49885808--49886002 Score: 291
Period size: 49 Copynumber: 3.9 Consensus size: 49
49885798 TAGCCGAAGC
* *
49885808 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
49885857 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* *
49885908 TTTCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
49885957 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
49886003 TCACAATAGT
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
49 85 0.65
50 2 0.02
51 43 0.33
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:49885947 original size:26 final size:26
Alignment explanation
Indices: 49885915--49885995 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
49885905 AGTTTTCGGG
49885915 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* * * **
49885941 TACACAT-GT-GAC--CAATTATCTGG
1 TACACATAGTAGCCTGCACTTA-GTAC
*
49885964 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
49885990 TACACA
1 TACACA
49885996 CGTGACCTCA
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
22 5 0.13
23 7 0.18
24 4 0.11
25 4 0.11
26 13 0.34
27 5 0.13
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:49885986 original size:100 final size:100
Alignment explanation
Indices: 49885813--49886000 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
49885803 GAAGCTATCT
*
49885813 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
*
49885878 TGCACTTAGTACTACACATGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
49885913 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
49885978 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
49886001 CCTCACAATA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:49890379 original size:6 final size:6
Alignment explanation
Indices: 49890368--49890392 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
49890358 TATTCGAAAT
49890368 TCAGAA TCAGAA TCAGAA TCAGAA T
1 TCAGAA TCAGAA TCAGAA TCAGAA T
49890393 TACACTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
TCAGAA
Found at i:49892801 original size:27 final size:27
Alignment explanation
Indices: 49892768--49892924 Score: 154
Period size: 27 Copynumber: 5.8 Consensus size: 27
49892758 GGATAAGTTA
49892768 TAGAATTACCGAAATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAAGG
* * *
49892795 TAGAATTACTGAAATAACCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAAGG
**
49892822 TAGAATTATTGAAATACCCCTGT-AGG
1 TAGAATTACCGAAATACCCCTGTAAGG
* * * *
49892848 ATAAAATTACCAAAATACCCTTGTAGGG
1 -TAGAATTACCGAAATACCCCTGTAAGG
* * *
49892876 TAGAAATACTGAAATACCCTTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAAGG
* * **
49892903 TAGCACTACCGATTTACCCCTG
1 TAGAATTACCGAAATACCCCTG
49892925 GAGGGTAAAA
Statistics
Matches: 105, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 2 0.02
27 101 0.96
28 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAAGG
Found at i:49892921 original size:81 final size:81
Alignment explanation
Indices: 49892771--49892934 Score: 195
Period size: 81 Copynumber: 2.0 Consensus size: 81
49892761 TAAGTTATAG
* * * * **
49892771 AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATAACCCTGTAGGGTAGAATTATTGAAA
1 AATTACCAAAATACCCCTGTAAGGTAGAAATACTGAAATAACCCTGTAAGGTAGAACTACCGAAA
*
49892836 TACCCCTGTAGGATAA
66 TACCCCTGGAGGATAA
* * * *
49892852 AATTACCAAAATACCCTTGTAGGGTAGAAATACTGAAAT-ACCCTTGTAAGGTAGCACTACCGAT
1 AATTACCAAAATACCCCTGTAAGGTAGAAATACTGAAATAACCC-TGTAAGGTAGAACTACCGAA
* *
49892916 TTACCCCTGGAGGGTAA
65 ATACCCCTGGAGGATAA
49892933 AA
1 AA
49892935 CGACTATTTT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 4 0.06
81 65 0.94
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
AATTACCAAAATACCCCTGTAAGGTAGAAATACTGAAATAACCCTGTAAGGTAGAACTACCGAAA
TACCCCTGGAGGATAA
Found at i:49900456 original size:27 final size:27
Alignment explanation
Indices: 49900338--49900476 Score: 174
Period size: 27 Copynumber: 5.1 Consensus size: 27
49900328 TGGATAAGTT
* *
49900338 GTAGAATTA-TCGAAATACCTCTGTAAG
1 GTAGAATTACT-GAAATACCCCTGTAGG
49900365 GTAGAATTA-TCGAAATACCCCTGTAGG
1 GTAGAATTACT-GAAATACCCCTGTAGG
*
49900392 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
49900419 ATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * *
49900446 GTAGAAATACTAAAATACCCCTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
49900473 GTAG
1 GTAG
49900477 CACTACCGAT
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 100 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:49900492 original size:54 final size:54
Alignment explanation
Indices: 49900366--49900511 Score: 150
Period size: 54 Copynumber: 2.7 Consensus size: 54
49900356 CTCTGTAAGG
* * * * * *
49900366 TAGAATTATCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGA
1 TAGAACTACCGAAATACCCCTGTAGGGTAGAAATACTAAAATACCCCTATAGGA
* * * *
49900420 TAGAATTACTGAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTATAGGG
1 TAGAACTACCGAAATACCCCTGTAGGGTAGAAATACTAAAATACCCCTATAGGA
* ** *
49900474 TAGCACTACCGATTTACCCCTGAAGGGTA-AAATGACTA
1 TAGAACTACCGAAATACCCCTGTAGGGTAGAAAT-ACTA
49900512 TTTTGCCCCT
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 4 0.05
54 72 0.95
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
TAGAACTACCGAAATACCCCTGTAGGGTAGAAATACTAAAATACCCCTATAGGA
Found at i:49905292 original size:20 final size:20
Alignment explanation
Indices: 49905267--49905304 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
49905257 AACCATTCAA
49905267 TCATTCATTTCATTCAATAG
1 TCATTCATTTCATTCAATAG
*
49905287 TCATTCATTTTATTCAAT
1 TCATTCATTTCATTCAAT
49905305 TTAATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.03, T:0.50
Consensus pattern (20 bp):
TCATTCATTTCATTCAATAG
Found at i:49917506 original size:33 final size:33
Alignment explanation
Indices: 49917434--49917506 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
49917424 ACAGTAGCAA
*
49917434 TATCAGTGTAGGCCTTAGCCCATTATGGTAACAG
1 TATCAGTGTAGGCCTTAGCCCATTA-GATAACAG
*
49917468 TATCAGTGTGGGCCTTAGCCCAATTCA-AT-ACAG
1 TATCAGTGTAGGCCTTAGCCC-ATT-AGATAACAG
49917501 TATCAG
1 TATCAG
49917507 AGATACAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 10 0.29
34 21 0.60
35 3 0.09
36 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (33 bp):
TATCAGTGTAGGCCTTAGCCCATTAGATAACAG
Found at i:49920590 original size:47 final size:45
Alignment explanation
Indices: 49920520--49920623 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
49920510 AGCTTAAGAT
* *
49920520 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAA--GTGAAAATGTGATAAGGC
* *
49920567 CGAATGGCCAATGTGAT-ATATGTGTAAGTGAAAATGTGATAAGGT
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGAAAATGTGATAAGGC
*
49920612 CGAATGACCAAT
1 CGAATGGCCAAT
49920624 TATGAAAAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 26 0.51
46 1 0.02
47 24 0.47
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (45 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGAAAATGTGATAAGGC
Found at i:49920623 original size:45 final size:46
Alignment explanation
Indices: 49920514--49920623 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 46
49920504 ATATCTAGCT
* * *
49920514 TAAGATCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGA
1 TAAGGTCGAATGGCCAATGTGATGAATGTGAAAG-GTGAAAATGTGA
* *
49920561 TAAGGCCGAATGGCCAATGTGAT-ATATGTGTAA-GTGAAAATGTGA
1 TAAGGTCGAATGGCCAATGTGATGA-ATGTGAAAGGTGAAAATGTGA
*
49920606 TAAGGTCGAATGACCAAT
1 TAAGGTCGAATGGCCAAT
49920624 TATGAAAAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 26 0.47
46 1 0.02
47 28 0.51
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.27
Consensus pattern (46 bp):
TAAGGTCGAATGGCCAATGTGATGAATGTGAAAGGTGAAAATGTGA
Found at i:49920754 original size:39 final size:40
Alignment explanation
Indices: 49920699--49920783 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
49920689 AAATGAATTG
* * * *
49920699 TGCTGAGATTGCATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
* *
49920738 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
49920778 TGCTGG
1 TGCTGG
49920784 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (40 bp):
TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:49923375 original size:40 final size:40
Alignment explanation
Indices: 49923320--49923673 Score: 584
Period size: 40 Copynumber: 8.8 Consensus size: 40
49923310 CTCGCCGATG
49923320 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
*
49923360 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
*
49923400 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
*
49923440 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
* *
49923480 ATCCGGGCTAATTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
*
49923520 ATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
* *
49923560 ATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
* *
49923600 ATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTA-TTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG-AGTTAT
* *
49923640 ATCCGGGCTAGGTCCCGAAGAGCATTCATGCTGG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
49923674 TGATGTGTAT
Statistics
Matches: 301, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
40 300 1.00
41 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
Found at i:49927593 original size:45 final size:46
Alignment explanation
Indices: 49927496--49927604 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 46
49927486 AGCTTAAGAT
*
49927496 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTGAATATGTGATAAGGC
*
49927543 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGAATATGTGATAAGGC
*
49927588 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
49927605 AAAGTGTGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 27 0.47
46 6 0.11
47 24 0.42
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGAATATGTGATAAGGC
Found at i:49927730 original size:39 final size:40
Alignment explanation
Indices: 49927675--49927752 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 40
49927665 AAATGAATTG
* *
49927675 TGCTGAGATTGCATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGAGATTGCATCCGGGTTTAAAGACCCGCAGGCTTCA
* * *
49927714 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTC
1 TGCTGAGATTGCATCCGGGTTTAAAGACCCGCAGGCTTC
49927753 TGAGATTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 17 0.52
40 16 0.48
ACGTcount: A:0.17, C:0.24, G:0.31, T:0.28
Consensus pattern (40 bp):
TGCTGAGATTGCATCCGGGTTTAAAGACCCGCAGGCTTCA
Found at i:49929860 original size:16 final size:18
Alignment explanation
Indices: 49929834--49929867 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
49929824 AGTTTGCCCG
49929834 TGTGAGGCCCACA-AGCC
1 TGTGAGGCCCACACAGCC
49929851 TGTG-GGCCCACACAGCC
1 TGTGAGGCCCACACAGCC
49929868 CATTCCGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.21, C:0.38, G:0.29, T:0.12
Consensus pattern (18 bp):
TGTGAGGCCCACACAGCC
Found at i:49934883 original size:19 final size:18
Alignment explanation
Indices: 49934850--49934885 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
49934840 AACTTGGCAC
*
49934850 CATAATCATTTAATTCAA
1 CATAATCAATTAATTCAA
49934868 CATAATTCAATTAATTCA
1 CATAA-TCAATTAATTCA
49934886 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (18 bp):
CATAATCAATTAATTCAA
Found at i:49940887 original size:47 final size:48
Alignment explanation
Indices: 49940812--49941038 Score: 174
Period size: 47 Copynumber: 4.8 Consensus size: 48
49940802 ATTTGTTTGT
* * * *
49940812 GAGCTAGTGTAATA-CATGTTTGGAACAT-GCATCGGCCACATTGTG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATTGTGTA
* *
49940858 GAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGG--CATTGTGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTGTG--TA
* * * **
49940906 GAGCTAGTGTAAGA-CATGT-TCGGGACAT-GCATTGGCCTCGAGAG-GTA
1 GAGCCAGTGTAAGACCATGTCT-GGGACATGGCATCGG-CAC-ATTGTGTA
*
49940953 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TTGAGATA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTGTG-TA
*
49940998 TGAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGGCAC
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
49941039 CTCACCCACG
Statistics
Matches: 145, Mismatches: 17, Indels: 35
0.74 0.09 0.18
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 10 0.07
46 30 0.21
47 71 0.49
48 26 0.18
49 4 0.03
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTGTGTA
Found at i:49943414 original size:49 final size:49
Alignment explanation
Indices: 49943241--49943431 Score: 249
Period size: 50 Copynumber: 3.8 Consensus size: 49
49943231 AGCTAGGTGG
* *
49943241 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAA-TTAG-TCA
* * * * *
49943292 CGTGTGTAGTACTAAGTGCAGGCTACAACGTGTATCAGATAGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTA-GTCA
* *
49943342 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGTCA
*
49943391 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
49943432 GTTTGGCTAC
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
49 42 0.34
50 48 0.39
51 34 0.27
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGTCA
Found at i:49943448 original size:101 final size:101
Alignment explanation
Indices: 49943241--49943434 Score: 277
Period size: 99 Copynumber: 1.9 Consensus size: 101
49943231 AGCTAGGTGG
* * *
49943241 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAACTTAGATCACATGTGTAGTACTA
* *
49943306 AGTGCAGGCTACAACGTGTATCAGATAGTTAGGTCA
66 AGTGCAGGCTACAACGCGTACCAGATAGTTAGGTCA
* *
49943342 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TTAG-TCGCATGTGTAGTACT
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCA-ATAACTTAGATCACATGTGTAGTACT
* *
49943404 AAGTGCAGGCTACTATGCGTACCAGATAGTT
65 AAGTGCAGGCTACAACGCGTACCAGATAGTT
49943435 TGGCTACATA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
99 41 0.49
100 6 0.07
101 36 0.43
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (101 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAACTTAGATCACATGTGTAGTACTA
AGTGCAGGCTACAACGCGTACCAGATAGTTAGGTCA
Found at i:49945534 original size:24 final size:24
Alignment explanation
Indices: 49945507--49945556 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
49945497 TGTGTGACGA
*
49945507 TTACTGACGATTATAAATTATGTT
1 TTACTAACGATTATAAATTATGTT
49945531 TTACTAACGATTATAAATTATGTT
1 TTACTAACGATTATAAATTATGTT
49945555 TT
1 TT
49945557 CATATAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (24 bp):
TTACTAACGATTATAAATTATGTT
Found at i:49951489 original size:46 final size:46
Alignment explanation
Indices: 49951434--49951654 Score: 198
Period size: 46 Copynumber: 4.7 Consensus size: 46
49951424 ATTTGTTTGT
**
49951434 GAGCTAGTGTAAGACATGTCCGGGACATGCATCGGC-TATATTATGA
1 GAGCTAGTGTAAGACATGTCCGGGACATGCATCGGCAT-TAAGATGA
* * *
49951480 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGATGA
1 GAGCTAGTGTAAGA-CATGTCCGGGACAT-GCATCGGCATTAAGATGA
* ** *
49951528 GAGCTAGTGTAAGACATGT-CGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCCGGGACATGCATCGGCATTAAGATG-A
* ** **
49951574 -AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAA-ATGA
1 GAGCTAGTGTAAGACATGTCCGGGACATGCATCGGC-ATTAAGATGA
* * *
49951619 TAGTTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGA-CATGTCCGGGACAT-GCATCG
49951655 ACACCTTATC
Statistics
Matches: 144, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
45 30 0.21
46 49 0.34
47 32 0.22
48 32 0.22
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCCGGGACATGCATCGGCATTAAGATGA
Found at i:49959897 original size:12 final size:12
Alignment explanation
Indices: 49959858--49959898 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
49959848 AGATGATAAT
49959858 TATTAATATATA
1 TATTAATATATA
*
49959870 -ATT-ATATCTA
1 TATTAATATATA
*
49959880 TTTTAATATATA
1 TATTAATATATA
49959892 TATTAAT
1 TATTAAT
49959899 TATTATCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
10 6 0.26
11 5 0.22
12 12 0.52
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
TATTAATATATA
Found at i:49966445 original size:28 final size:29
Alignment explanation
Indices: 49966362--49966451 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
49966352 GAAATCATGA
49966362 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
49966391 ATAAGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
49966420 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
49966448 ATAT
1 ATAT
49966452 ACATGTATGT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 19 0.33
29 38 0.67
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:49970230 original size:93 final size:93
Alignment explanation
Indices: 49970115--49970283 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
49970105 GCCCCTAAGT
* *
49970115 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCATAAATGAACTCGGACTCAACTTA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCACATCCATAAATGAACTCGGACTCAACTCA
49970179 ACGAGTTCGGATACCTAGTTACATCTCAC
65 ACGAGTTCGGATACCTAGTTACATCTCAC
* ** *
49970208 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
49970273 CGAGTTCGGAT
66 CGAGTTCGGAT
49970284 GCTCAACCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATACCTAGTTACATCTCAC
Done.