Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 58 of 143
Found at i:18653713 original size:98 final size:98
Alignment explanation
Indices: 18653369--18653795 Score: 556
Period size: 98 Copynumber: 4.4 Consensus size: 98
18653359 TGAAGACACA
* * ** *
18653369 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAATACCACGAAGATAACGGAGGGAAAGGTTTAA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGAT-ACAAAGGAAAAGGTTTAA
* *
18653434 GTCGCAACGATGAACCTTGTACTTCAGAA-AATG
65 GTCGCAACGGTGAACCTTGTACCTCAGAAGAATG
* * * *
18653467 AAGGGAAAGATTTAAGCCGCAACGACGAATCTAGTACCACGAAGATGCAAATGAAAAGATTTAAG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGAAAAGGTTTAAG
* * *
18653532 CCGCAACGGCGAACCTTGTACCTCA-AAAAATG
66 TCGCAACGGTGAACCTTGTACCTCAGAAGAATG
* * * ** * * *
18653564 AAGGGAAAGATTTAAGCAGCAACGGTGAATCCAAAACCACGAAGATGCAAAGGGAATGGTTTAAG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGAAAAGGTTTAAG
* *
18653629 TCGCAACGGTAAACCTTGTACCTCAGAAGCATG
66 TCGCAACGGTGAACCTTGTACCTCAGAAGAATG
18653662 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGAAAAGGTTTAAG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGAAAAGGTTTAAG
18653727 TCGCAACGGTGAACCTTGTACCTCAG-AGACATG
66 TCGCAACGGTGAACCTTGTACCTCAGAAGA-ATG
* * *
18653760 AAGGGAAAAATTTCAA-CCGCAACGGTGAATTTAGTA
1 AAGGGAAAGATTT-AAGCCGCAACGGCGAATCTAGTA
18653796 TCATGCAGAC
Statistics
Matches: 284, Mismatches: 41, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
96 2 0.01
97 117 0.41
98 163 0.57
99 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (98 bp):
AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGAAAAGGTTTAAG
TCGCAACGGTGAACCTTGTACCTCAGAAGAATG
Found at i:18653748 original size:49 final size:49
Alignment explanation
Indices: 18653354--18653748 Score: 293
Period size: 49 Copynumber: 8.1 Consensus size: 49
18653344 CAAGTTTCAT
* * *
18653354 TACCATGAAGACACAAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AA
1 TACCACGAAGATACAAAGGGAAAGATTTAAGCCGCAACGGCGAA-CCTAG
** * * ** *
18653403 TACCACGAAGATAACGGAGGGAAAGGTTTAAGTCGCAACGATGAACCTTG
1 TACCACGAAGAT-ACAAAGGGAAAGATTTAAGCCGCAACGGCGAACCTAG
** * *
18653453 TACTTCA-GAA-A-ATGAAGGGAAAGATTTAAGCCGCAACGACGAATCTAG
1 TAC--CACGAAGATACAAAGGGAAAGATTTAAGCCGCAACGGCGAACCTAG
* * * *
18653501 TACCACGAAGATGCAAATGAAAAGATTTAAGCCGCAACGGCGAACCTTG
1 TACCACGAAGATACAAAGGGAAAGATTTAAGCCGCAACGGCGAACCTAG
* * * ** * * *
18653550 TACCTC-AAAAAATGAAGGGAAAGATTTAAGCAGCAACGGTGAATCC-AA
1 TACCACGAAGATACAAAGGGAAAGATTTAAGCCGCAACGGCGAA-CCTAG
* * * * * ** *
18653598 AACCACGAAGATGCAAAGGGAATGGTTTAAGTCGCAACGGTAAACCTTG
1 TACCACGAAGATACAAAGGGAAAGATTTAAGCCGCAACGGCGAACCTAG
* * *
18653647 TACCTCAGAAGCAT--GAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
1 TACCAC-GAAG-ATACAAAGGGAAAGATTTAAGCCGCAACGGCGAACCTAG
* * * * *
18653696 TACCACGAAGATACAAAGGAAAAGGTTTAAGTCGCAACGGTGAACCTTG
1 TACCACGAAGATACAAAGGGAAAGATTTAAGCCGCAACGGCGAACCTAG
18653745 TACC
1 TACC
18653749 TCAGAGACAT
Statistics
Matches: 263, Mismatches: 69, Indels: 28
0.73 0.19 0.08
Matches are distributed among these distances:
46 2 0.01
47 5 0.02
48 72 0.27
49 143 0.54
50 34 0.13
51 5 0.02
52 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.17
Consensus pattern (49 bp):
TACCACGAAGATACAAAGGGAAAGATTTAAGCCGCAACGGCGAACCTAG
Found at i:18653781 original size:49 final size:49
Alignment explanation
Indices: 18653420--18653830 Score: 240
Period size: 49 Copynumber: 8.4 Consensus size: 49
18653410 AAGATAACGG
** * * * *
18653420 AGGGAAAGGTTTAAGTCGCAACGATGAACCTTGTACTTCAGA-AAATGA
1 AGGGAAAAATTTAAGCCGCAACGGTGAACCTTGTACCTCAGAGACATGA
* ** * * * *
18653468 AGGGAAAGATTTAAGCCGCAACGACGAATCTAGTACCAC-GA-AGATGCA
1 AGGGAAAAATTTAAGCCGCAACGGTGAACCTTGTACCTCAGAGACATG-A
** * * *
18653516 AATGAAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCA-AAAAATGA
1 AGGGAAAA-ATTTAAGCCGCAACGGTGAACCTTGTACCTCAGAGACATGA
* * *** * *
18653565 AGGGAAAGATTTAAGCAGCAACGGTGAATCC-AAAACCAC-GA-AGATGCAA
1 AGGGAAAAATTTAAGCCGCAACGGTGAA-CCTTGTACCTCAGAGACATG--A
*** * *
18653614 AGGGAATGGTTTAAGTCGCAACGGTAAACCTTGTACCTCAGA-AGCATGA
1 AGGGAAAAATTTAAGCCGCAACGGTGAACCTTGTACCTCAGAGA-CATGA
* * * * * *
18653663 AGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACA--A
1 AGGGAAAAATTTAAGCCGCAACGGTGAACCTTGTACCTC--AGAGACATGA
* *
18653712 A-GGAAAAGGTTTAAGTCGCAACGGTGAACCTTGTACCTCAGAGACATGA
1 AGGGAAAA-ATTTAAGCCGCAACGGTGAACCTTGTACCTCAGAGACATGA
*
18653761 AGGGAAAAATTTCAA-CCGCAACGGTGAA-TTTAGTA--TCATGCAGACATGA
1 AGGGAAAAATTT-AAGCCGCAACGGTGAACCTT-GTACCTCA-G-AGACATGA
*
18653810 AGGGAAAAATTTCAGCCGCAA
1 AGGGAAAAATTTAAGCCGCAA
18653831 TGGCGAATTT
Statistics
Matches: 284, Mismatches: 56, Indels: 45
0.74 0.15 0.12
Matches are distributed among these distances:
47 19 0.07
48 72 0.25
49 169 0.60
50 15 0.05
51 8 0.03
52 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (49 bp):
AGGGAAAAATTTAAGCCGCAACGGTGAACCTTGTACCTCAGAGACATGA
Found at i:18653839 original size:49 final size:49
Alignment explanation
Indices: 18653753--18653862 Score: 166
Period size: 49 Copynumber: 2.2 Consensus size: 49
18653743 TGTACCTCAG
* * *
18653753 AGACATGAAGGGAAAAATTTCAACCGCAACGGTGAATTTAGTATCATGC
1 AGACATGAAGGGAAAAATTTCAACCGCAACGGCGAATTTAGTACCATAC
* *
18653802 AGACATGAAGGGAAAAATTTCAGCCGCAATGGCGAATTTAGTACCATAC
1 AGACATGAAGGGAAAAATTTCAACCGCAACGGCGAATTTAGTACCATAC
*
18653851 AGACACGAAGGG
1 AGACATGAAGGG
18653863 GAAGATTGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (49 bp):
AGACATGAAGGGAAAAATTTCAACCGCAACGGCGAATTTAGTACCATAC
Found at i:18654830 original size:14 final size:14
Alignment explanation
Indices: 18654788--18654830 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
18654778 TTGTAAACAC
*
18654788 ACAAAAAAATCAAC
1 ACAAAAAAATCAAT
* **
18654802 ACACAAAAAGAAAT
1 ACAAAAAAATCAAT
18654816 ACAAAAAAATCAAT
1 ACAAAAAAATCAAT
18654830 A
1 A
18654831 GCAGTCGAAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.72, C:0.16, G:0.02, T:0.09
Consensus pattern (14 bp):
ACAAAAAAATCAAT
Found at i:18655871 original size:22 final size:22
Alignment explanation
Indices: 18655846--18655890 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18655836 AATTTAAACC
* * *
18655846 TTTTTTTTTATTTTCAACTTAA
1 TTTTTATTTAGTTTCAAATTAA
*
18655868 TTTTTATTTGGTTTCAAATTAA
1 TTTTTATTTAGTTTCAAATTAA
18655890 T
1 T
18655891 GTTCAAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTTATTTAGTTTCAAATTAA
Found at i:18659988 original size:110 final size:110
Alignment explanation
Indices: 18659795--18660060 Score: 381
Period size: 110 Copynumber: 2.4 Consensus size: 110
18659785 TGGTTCGGAT
* ** *
18659795 CCTGCATATGTTGCAGTTTCCTTACAGCTAGTGTGAGCAGCATCGTGAGTCGATAGAATTCTAAA
1 CCTGCATATGTTGCAGTTTCCTGACAGCTTTTGTGAGCAGCATCGTGAGTCAATAGAATTCTAAA
* * * *
18659860 TGAATATTGGATACTGACTGTATGAACCCCTACAAT-GATTGGGGC
66 TGAATACTAGATACTGACTGTATGAACCCCTACAATGGA-TAGGAC
* * *
18659905 CCTGCATATGTTGCAGTTTCCTGAGAGCTTTTGTGAGCAGCATCGTGAGTCAATAGAATTTTGAA
1 CCTGCATATGTTGCAGTTTCCTGACAGCTTTTGTGAGCAGCATCGTGAGTCAATAGAATTCTAAA
*
18659970 TGAATACTAGATACTGACTGTATGGACCCCTACAATGGATAGGAC
66 TGAATACTAGATACTGACTGTATGAACCCCTACAATGGATAGGAC
* * *
18660015 CCTGCATATATTGCAGTTTTCTGACAGCTTTTGTGAGAAGCATCGT
1 CCTGCATATGTTGCAGTTTCCTGACAGCTTTTGTGAGCAGCATCGT
18660061 AAGTGGGTAA
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
110 137 0.99
111 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (110 bp):
CCTGCATATGTTGCAGTTTCCTGACAGCTTTTGTGAGCAGCATCGTGAGTCAATAGAATTCTAAA
TGAATACTAGATACTGACTGTATGAACCCCTACAATGGATAGGAC
Found at i:18660248 original size:26 final size:25
Alignment explanation
Indices: 18660159--18660267 Score: 114
Period size: 25 Copynumber: 4.3 Consensus size: 25
18660149 TTAAACTCTA
* *
18660159 TCTGGCTCGTAAGAGCAATTTTTTG
1 TCTGGCTCGTAAGAGCAATATTCTG
*
18660184 TTTGGCTCGTAAGAGCAATAATT-TG
1 TCTGGCTCGTAAGAGCAAT-ATTCTG
* *
18660209 TCTAGCTCGTAAGAGTAATATTCTG
1 TCTGGCTCGTAAGAGCAATATTCTG
*
18660234 TCTGGGCTCGTAAGAGCTAA-ATTCTA
1 TCT-GGCTCGTAAGAGC-AATATTCTG
18660260 TCTAGGCT
1 TCT-GGCT
18660268 TATATGAGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
24 3 0.04
25 41 0.58
26 25 0.35
27 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (25 bp):
TCTGGCTCGTAAGAGCAATATTCTG
Found at i:18660264 original size:51 final size:50
Alignment explanation
Indices: 18660150--18660264 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 50
18660140 GTATACTAGT
* * * * *
18660150 TAAACTCTATCTGGCTCGTAAGAGCAATTTTTTGTTTGGCTCGTAAGAGC
1 TAAATTCTATCTAGCTCGTAAGAGCAATATTCTGTTGGGCTCGTAAGAGC
* * *
18660200 AATAATT-TGTCTAGCTCGTAAGAGTAATATTCTGTCTGGGCTCGTAAGAGC
1 TA-AATTCTATCTAGCTCGTAAGAGCAATATTCTGT-TGGGCTCGTAAGAGC
18660251 TAAATTCTATCTAG
1 TAAATTCTATCTAG
18660265 GCTTATATGA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
50 28 0.54
51 24 0.46
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (50 bp):
TAAATTCTATCTAGCTCGTAAGAGCAATATTCTGTTGGGCTCGTAAGAGC
Found at i:18661363 original size:10 final size:10
Alignment explanation
Indices: 18661348--18661374 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
18661338 CTTGTACAGG
18661348 AAATGATCTA
1 AAATGATCTA
18661358 AAATGATCTA
1 AAATGATCTA
18661368 AAATGAT
1 AAATGAT
18661375 TGTAAAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (10 bp):
AAATGATCTA
Found at i:18663923 original size:25 final size:25
Alignment explanation
Indices: 18663884--18664027 Score: 146
Period size: 25 Copynumber: 5.7 Consensus size: 25
18663874 GGTTAAAATT
*
18663884 TGTCTGGCTCTTAAGAGCGATATTC
1 TGTCTGGCTCGTAAGAGCGATATTC
* * *
18663909 TATCTGGCTCGTAAGAGTGATTTTC
1 TGTCTGGCTCGTAAGAGCGATATTC
* ** * *
18663934 TATCTAACTTGTAAGAGCGATATTT
1 TGTCTGGCTCGTAAGAGCGATATTC
* *
18663959 TGTCTGAC-CTGTAAGAGCGATATTT
1 TGTCTGGCTC-GTAAGAGCGATATTC
*
18663984 TGTCTGGATCGTAAGAGCGATATTC
1 TGTCTGGCTCGTAAGAGCGATATTC
*
18664009 TGTCTAAGCTCGTAAGAGC
1 TGTCT-GGCTCGTAAGAGC
18664028 TAAAATTTGT
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
25 86 0.88
26 12 0.12
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (25 bp):
TGTCTGGCTCGTAAGAGCGATATTC
Found at i:18664015 original size:75 final size:76
Alignment explanation
Indices: 18663882--18664027 Score: 197
Period size: 75 Copynumber: 1.9 Consensus size: 76
18663872 CTGGTTAAAA
* * * * *
18663882 TTTGTCTGGCTCTTAAGAGCGATATTCTATCTGGCTCGTAAGAGTGATTTTCTATCTAA-CTTGT
1 TTTGTCTGACTCTTAAGAGCGATATTCTATCTGGATCGTAAGAGCGATATTCTATCTAAGCTCGT
18663946 AAGAGCGATAT
66 AAGAGCGATAT
* * *
18663957 TTTGTCTGAC-CTGTAAGAGCGATATTTTGTCTGGATCGTAAGAGCGATATTCTGTCTAAGCTCG
1 TTTGTCTGACTCT-TAAGAGCGATATTCTATCTGGATCGTAAGAGCGATATTCTATCTAAGCTCG
18664021 TAAGAGC
65 TAAGAGC
18664028 TAAAATTTGT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
74 2 0.03
75 49 0.80
76 10 0.16
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.36
Consensus pattern (76 bp):
TTTGTCTGACTCTTAAGAGCGATATTCTATCTGGATCGTAAGAGCGATATTCTATCTAAGCTCGT
AAGAGCGATAT
Found at i:18664038 original size:26 final size:27
Alignment explanation
Indices: 18663992--18664057 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
18663982 TTTGTCTGGA
* *
18663992 TCGTAAGAGC-GATATTCTGTCTAAGC
1 TCGTAAGAGCTAAAATTCTGTCTAAGC
*
18664018 TCGTAAGAGCTAAAATT-TGTCTAGGC
1 TCGTAAGAGCTAAAATTCTGTCTAAGC
* *
18664044 TCGTATGAGTTAAA
1 TCGTAAGAGCTAAA
18664058 TTTTTGGAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (27 bp):
TCGTAAGAGCTAAAATTCTGTCTAAGC
Found at i:18676048 original size:6 final size:6
Alignment explanation
Indices: 18676026--18676105 Score: 61
Period size: 6 Copynumber: 12.3 Consensus size: 6
18676016 GTTGGTAAAA
* * * *
18676026 AAAGTC AACAATC AAAGTC AAAGTC AATGGTC AACGATT AAAGTC AAAGTC
1 AAAGTC AA-AGTC AAAGTC AAAGTC AA-AGTC AAAG-TC AAAGTC AAAGTC
*
18676077 AAAGTC AATGGTC AATGAGTC AAAGTC AA
1 AAAGTC AA-AGTC AA--AGTC AAAGTC AA
18676106 CGGGTCAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
6 35 0.59
7 19 0.32
8 5 0.08
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.20
Consensus pattern (6 bp):
AAAGTC
Found at i:18676068 original size:26 final size:26
Alignment explanation
Indices: 18676029--18676078 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
18676019 GGTAAAAAAA
18676029 GTCAACAATCAAAGTCAAAGTCAATG
1 GTCAACAATCAAAGTCAAAGTCAATG
* *
18676055 GTCAACGATTAAAGTCAAAGTCAA
1 GTCAACAATCAAAGTCAAAGTCAA
18676079 AGTCAATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (26 bp):
GTCAACAATCAAAGTCAAAGTCAATG
Found at i:18676078 original size:32 final size:33
Alignment explanation
Indices: 18676028--18676105 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 33
18676018 TGGTAAAAAA
*
18676028 AGTCAACAATCAAAGTCAAAGTCAATGGTCAACG
1 AGTCAA-AGTCAAAGTCAAAGTCAATGGTCAACG
* *
18676062 A-TTAAAGTCAAAGTCAAAGTCAATGGTCAATG
1 AGTCAAAGTCAAAGTCAAAGTCAATGGTCAACG
18676094 AGTCAAAGTCAA
1 AGTCAAAGTCAA
18676106 CGGGTCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
32 26 0.67
33 12 0.31
34 1 0.03
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.21
Consensus pattern (33 bp):
AGTCAAAGTCAAAGTCAAAGTCAATGGTCAACG
Found at i:18676126 original size:20 final size:20
Alignment explanation
Indices: 18676100--18676158 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
18676090 AATGAGTCAA
18676100 AGTCAACGGGTCAAATGGTC
1 AGTCAACGGGTCAAATGGTC
*
18676120 GGTCAACGGGTC-AATGGGTC
1 AGTCAACGGGTCAAAT-GGTC
* *
18676140 AGTCATCGGGTCAATTGGT
1 AGTCAACGGGTCAAATGGT
18676159 TGGATTGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.09
20 28 0.85
21 2 0.06
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.24
Consensus pattern (20 bp):
AGTCAACGGGTCAAATGGTC
Found at i:18688935 original size:6 final size:6
Alignment explanation
Indices: 18688926--18689041 Score: 110
Period size: 6 Copynumber: 19.3 Consensus size: 6
18688916 CTCCTCCTCT
* * * * *
18688926 TTCTTC TTCTCC TTCTCC TTCTTC TTCTTC TTCTTT TTCTTT TTATTC
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
* * *
18688974 -TCATTC TTCTTC TTCTTC TTCTCC TTCTCC TTCTTC -TCATTC TCCTTC
1 TTC-TTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTC-TTC TTCTTC
* *
18689022 TCCTTC TCCTTC TTCTTC TT
1 TTCTTC TTCTTC TTCTTC TT
18689042 ATAAAGACTC
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
5 3 0.03
6 90 0.94
7 3 0.03
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (6 bp):
TTCTTC
Found at i:18688943 original size:21 final size:21
Alignment explanation
Indices: 18688913--18689037 Score: 134
Period size: 21 Copynumber: 6.1 Consensus size: 21
18688903 CCTTAACCTC
*
18688913 CTCCTCCTCC-TCTTTCTTCTT
1 CTCCTTCTCCTTC-TTCTTCTT
18688934 CTCCTTCTCCTTCTTCTTCTT
1 CTCCTTCTCCTTCTTCTTCTT
* * *
18688955 CTTCTT-T--TTCTTTTTATT
1 CTCCTTCTCCTTCTTCTTCTT
* *
18688973 CTCATTCTTCTTCTTCTTCTT
1 CTCCTTCTCCTTCTTCTTCTT
18688994 CTCCTTCTCCTTCTTC-TCATT
1 CTCCTTCTCCTTCTTCTTC-TT
*
18689015 CTCCTTCTCCTTCTCCTTCTT
1 CTCCTTCTCCTTCTTCTTCTT
18689036 CT
1 CT
18689038 TCTTATAAAG
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
18 13 0.15
19 1 0.01
20 3 0.03
21 66 0.76
22 4 0.05
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.58
Consensus pattern (21 bp):
CTCCTTCTCCTTCTTCTTCTT
Found at i:18688946 original size:15 final size:15
Alignment explanation
Indices: 18688928--18689037 Score: 93
Period size: 15 Copynumber: 7.5 Consensus size: 15
18688918 CCTCCTCTTT
18688928 CTTCTTCTCCTTCTC
1 CTTCTTCTCCTTCTC
* *
18688943 CTTCTTCTTCTTCTT
1 CTTCTTCTCCTTCTC
* ** * *
18688958 CTTTTTCTTTTTATT
1 CTTCTTCTCCTTCTC
* *
18688973 C-TCATTCTTCTTCTT
1 CTTC-TTCTCCTTCTC
18688988 CTTCTTCTCCTTCTC
1 CTTCTTCTCCTTCTC
*
18689003 CTTCTTCTCATTCT-
1 CTTCTTCTCCTTCTC
18689017 C--CTTCTCCTTCTC
1 CTTCTTCTCCTTCTC
18689030 CTTCTTCT
1 CTTCTTCT
18689038 TCTTATAAAG
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
12 10 0.13
13 1 0.01
14 2 0.03
15 63 0.81
16 2 0.03
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (15 bp):
CTTCTTCTCCTTCTC
Found at i:18689133 original size:3 final size:3
Alignment explanation
Indices: 18689125--18689151 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18689115 TCGTCTCTTT
18689125 CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC
18689152 TTCTTCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Found at i:18689986 original size:16 final size:17
Alignment explanation
Indices: 18689949--18689988 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
18689939 AATAAATAAA
*
18689949 AAATATATAAAATTATT
1 AAATATATAAAATAATT
18689966 AAATAT-TAAAATAATT
1 AAATATATAAAATAATT
*
18689982 TAATATA
1 AAATATA
18689989 AATATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATATAAAATAATT
Found at i:18691762 original size:5 final size:5
Alignment explanation
Indices: 18691754--18691780 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18691744 TTCCATTTTC
18691754 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
18691781 GATTAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:18695592 original size:22 final size:22
Alignment explanation
Indices: 18695565--18695615 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
18695555 CAAATGAATG
** *
18695565 GAGAGCACCGAGGTGCTAATCA
1 GAGAGCACAAAGGTACTAATCA
*
18695587 GAGAGCACAAATGTACTAATCA
1 GAGAGCACAAAGGTACTAATCA
18695609 GAGAGCA
1 GAGAGCA
18695616 TTACACGTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (22 bp):
GAGAGCACAAAGGTACTAATCA
Found at i:18717814 original size:81 final size:81
Alignment explanation
Indices: 18717677--18717903 Score: 271
Period size: 81 Copynumber: 2.8 Consensus size: 81
18717667 ATTGTATGGA
* * *
18717677 CTGTAGCGATGGCTGAGGTCCTTCATACATTGCGGATTCTCATCAGCTTGTGTGAGCAGCATCGT
1 CTGTAGCGATGGCTGAGGTCCTGCATACGTTACGGATTCTCATCAGCTTGTGTGAGCAGCATCGT
18717742 GAGTGGGTAA-CATAGAG
66 GAGTGGGTAATC-TAG-G
* * * * * *
18717759 C-GTAGCGATAGCTGAAGTCCTGCATACGTTACGAATTCTCTTCAGCTTGTGTGAGCAGTATCAT
1 CTGTAGCGATGGCTGAGGTCCTGCATACGTTACGGATTCTCATCAGCTTGTGTGAGCAGCATCGT
*
18717823 GAGTGGGTAATCTAGT
66 GAGTGGGTAATCTAGG
* * * * *
18717839 CTGTATCAATGGTTGAGGTCC-GACATATGTTACGGATTCTCATCAGCTTGTGTGAGCAACATCG
1 CTGTAGCGATGGCTGAGGTCCTG-CATACGTTACGGATTCTCATCAGCTTGTGTGAGCAGCATCG
18717903 T
65 T
18717904 ATACTGGTTA
Statistics
Matches: 121, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
80 2 0.02
81 117 0.97
82 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (81 bp):
CTGTAGCGATGGCTGAGGTCCTGCATACGTTACGGATTCTCATCAGCTTGTGTGAGCAGCATCGT
GAGTGGGTAATCTAGG
Found at i:18722171 original size:30 final size:30
Alignment explanation
Indices: 18722124--18722270 Score: 168
Period size: 30 Copynumber: 4.9 Consensus size: 30
18722114 AAAATTCCAT
* * * *
18722124 TTTTGACCCTTAAATTTTCTAAAAATTATG
1 TTTTGGCCCCTAAACTTTCCAAAAATTATG
* * * *
18722154 TTTTAGCCCCTGAATTTTCCAAAAATCATG
1 TTTTGGCCCCTAAACTTTCCAAAAATTATG
* * *
18722184 TATTGGCCCCCAAACTTCCCAAAAATTATG
1 TTTTGGCCCCTAAACTTTCCAAAAATTATG
*
18722214 TTTTGGCCCCTGAACTTTCCAAAAATTATG
1 TTTTGGCCCCTAAACTTTCCAAAAATTATG
* *
18722244 TTTTGACCCCTAAACTTTCAAAAAATT
1 TTTTGGCCCCTAAACTTTCCAAAAATT
18722271 CAAATTTGAC
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 97 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (30 bp):
TTTTGGCCCCTAAACTTTCCAAAAATTATG
Found at i:18722279 original size:30 final size:31
Alignment explanation
Indices: 18722245--18722313 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
18722235 AAAATTATGT
18722245 TTTGACCCCT-AAACTTTCAAAAAATTCAAA
1 TTTGACCCCTCAAACTTTCAAAAAATTCAAA
* * * **
18722275 TTTGA-CCCTCGAACTTTCCAAAATTTTTAA
1 TTTGACCCCTCAAACTTTCAAAAAATTCAAA
18722305 TTTGACCCC
1 TTTGACCCC
18722314 GTTTTCCCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 4 0.12
30 25 0.78
31 3 0.09
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (31 bp):
TTTGACCCCTCAAACTTTCAAAAAATTCAAA
Found at i:18728220 original size:20 final size:20
Alignment explanation
Indices: 18728190--18728239 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
18728180 ATTAGCATGA
*
18728190 GTTATATTAAGTA-TAAATAGG
1 GTTA-ATTAAG-ACTAAAAAGG
*
18728211 TTTAATTAAGACTAAAAAGG
1 GTTAATTAAGACTAAAAAGG
18728231 GTTAATTAA
1 GTTAATTAA
18728240 AGCTTAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (20 bp):
GTTAATTAAGACTAAAAAGG
Found at i:18730059 original size:21 final size:21
Alignment explanation
Indices: 18730032--18730090 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
18730022 ATAGTGCAGA
18730032 CTTCTACTAATACAAGTGACT
1 CTTCTACTAATACAAGTGACT
* **
18730053 GTTCTACCGATACAAGTGACT
1 CTTCTACTAATACAAGTGACT
*
18730074 CTCCTACTGAA-ACAAGT
1 CTTCTACT-AATACAAGT
18730091 CTTACTTCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (21 bp):
CTTCTACTAATACAAGTGACT
Found at i:18730708 original size:52 final size:52
Alignment explanation
Indices: 18730648--18731022 Score: 511
Period size: 52 Copynumber: 7.2 Consensus size: 52
18730638 AATGACATAG
* * *
18730648 AGTCATCGGACCTCATAATCCGTAAAGTATTCACATGCTCACGATGACACGT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
* *
18730700 AGTTATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACAT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
* * * * *
18730752 AGTCATTGGACCTCACAATCCGTAAAGGATTCACATGCTCATGATGACACGT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
* * * *
18730804 AGTTATTGGACCTCATAATCTGTAAAGGATTCATATACTCACGATGACACAT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
* * * *
18730856 AGT-ATCGGACCTCATAATCCGTAAAAGATTCGTATACTCATGATGACATGT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
* * * *
18730907 AGTCATCTGACCTCATAATCCATAAAGGATTCATA-AGCTCATGATGATACGT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATA-CTCACGATGACACGT
* *
18730959 AGTCATCAGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACAT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
18731011 AGTCATCGGACC
1 AGTCATCGGACC
18731023 CTTTTACATT
Statistics
Matches: 282, Mismatches: 38, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
51 45 0.16
52 236 0.84
53 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (52 bp):
AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
Found at i:18730927 original size:155 final size:155
Alignment explanation
Indices: 18730648--18731022 Score: 554
Period size: 155 Copynumber: 2.4 Consensus size: 155
18730638 AATGACATAG
* * * *
18730648 AGTCATCGGACCTCATAATCCGTAAAGTATTCACATGCTCACGATGACACGTAGTTATCGGACCT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAG-TATCGGACCT
* *
18730713 CATAATCCGTAAAGGATTCATATACTCACGATGACACATAGTCATTGGACCTCACAATCCGTAAA
65 CATAATCCGTAAAAGATTCATATACTCACGATGACACATAGTCATTGGACCTCACAATCCATAAA
*
18730778 GGATTCACATGCTCATGATGACACGT
130 GGATTCACAAGCTCATGATGACACGT
* * *
18730804 AGTTATTGGACCTCATAATCTGTAAAGGATTCATATACTCACGATGACACATAGTATCGGACCTC
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAGTATCGGACCTC
* * ** *
18730869 ATAATCCGTAAAAGATTCGTATACTCATGATGACATGTAGTCATCT-GACCTCATAATCCATAAA
66 ATAATCCGTAAAAGATTCATATACTCACGATGACACATAGTCAT-TGGACCTCACAATCCATAAA
* *
18730933 GGATTCATAAGCTCATGATGATACGT
130 GGATTCACAAGCTCATGATGACACGT
*
18730959 AGTCATCAGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAGTCATCGGACC
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAGT-ATCGGACC
18731023 CTTTTACATT
Statistics
Matches: 196, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
155 140 0.71
156 56 0.29
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (155 bp):
AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAGTATCGGACCTC
ATAATCCGTAAAAGATTCATATACTCACGATGACACATAGTCATTGGACCTCACAATCCATAAAG
GATTCACAAGCTCATGATGACACGT
Found at i:18745706 original size:109 final size:110
Alignment explanation
Indices: 18745553--18745769 Score: 285
Period size: 111 Copynumber: 2.0 Consensus size: 110
18745543 AAAACCGAGG
* * * * *
18745553 CAATGTTCTTTTATTTTTGGGAATTCGACAAATTGTGCCCTAACGTATTTGGTATG-GTCTTTCT
1 CAATGTTCTTTTATCTTAGGGAACTCGACAAATTATGCCCTAACGTATTAGGTATGAGTCTTTCT
*
18745617 TTGAACCTAAATAATTAAATATCTTATTCAAAATCGATAAATACT
66 TTGAACCTAAATAATTAAATATCCTATTCAAAATCGATAAATACT
* * * * * *
18745662 CAATGTT-TTGTTATCTTAGGGAACTCGAGAAATTATGTCTTAACGTGTTAGGTATGATTTTTTT
1 CAATGTTCTT-TTATCTTAGGGAACTCGACAAATTATGCCCTAACGTATTAGGTATGA-GTCTTT
*
18745726 CTTTGAACCTAAATAATTAAATATCCTATTTAAAATCGATAAAT
64 CTTTGAACCTAAATAATTAAATATCCTATTCAAAATCGATAAAT
18745770 GTTCTTTGTT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
108 2 0.02
109 44 0.48
111 46 0.50
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (110 bp):
CAATGTTCTTTTATCTTAGGGAACTCGACAAATTATGCCCTAACGTATTAGGTATGAGTCTTTCT
TTGAACCTAAATAATTAAATATCCTATTCAAAATCGATAAATACT
Found at i:18750601 original size:6 final size:6
Alignment explanation
Indices: 18750576--18750620 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
18750566 ACAATTCATA
* * *
18750576 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
18750621 ATTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:18754795 original size:20 final size:20
Alignment explanation
Indices: 18754765--18754814 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
18754755 ATTAGCATGA
*
18754765 GTTATATTAAGTA-TAAATAGG
1 GTTA-ATTAAG-ACTAAAAAGG
*
18754786 TTTAATTAAGACTAAAAAGG
1 GTTAATTAAGACTAAAAAGG
18754806 GTTAATTAA
1 GTTAATTAA
18754815 AGCTTAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (20 bp):
GTTAATTAAGACTAAAAAGG
Found at i:18756635 original size:21 final size:21
Alignment explanation
Indices: 18756608--18756666 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
18756598 ATAGTGCAGA
18756608 CTTCTACTAATACAAGTGACT
1 CTTCTACTAATACAAGTGACT
* **
18756629 GTTCTACCGATACAAGTGACT
1 CTTCTACTAATACAAGTGACT
*
18756650 CTCCTACTGAA-ACAAGT
1 CTTCTACT-AATACAAGT
18756667 CTTACTTCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (21 bp):
CTTCTACTAATACAAGTGACT
Found at i:18757284 original size:52 final size:52
Alignment explanation
Indices: 18757224--18757598 Score: 511
Period size: 52 Copynumber: 7.2 Consensus size: 52
18757214 AATGACATAG
* * *
18757224 AGTCATCGGACCTCATAATCCGTAAAGTATTCACATGCTCACGATGACACGT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
* *
18757276 AGTTATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACAT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
* * * * *
18757328 AGTCATTGGACCTCACAATCCGTAAAGGATTCACATGCTCATGATGACACGT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
* * * *
18757380 AGTTATTGGACCTCATAATCTGTAAAGGATTCATATACTCACGATGACACAT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
* * * *
18757432 AGT-ATCGGACCTCATAATCCGTAAAAGATTCGTATACTCATGATGACATGT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
* * * *
18757483 AGTCATCTGACCTCATAATCCATAAAGGATTCATA-AGCTCATGATGATACGT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATA-CTCACGATGACACGT
* *
18757535 AGTCATCAGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACAT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
18757587 AGTCATCGGACC
1 AGTCATCGGACC
18757599 CTTTTACATT
Statistics
Matches: 282, Mismatches: 38, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
51 45 0.16
52 236 0.84
53 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (52 bp):
AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACGT
Found at i:18757503 original size:155 final size:155
Alignment explanation
Indices: 18757224--18757598 Score: 554
Period size: 155 Copynumber: 2.4 Consensus size: 155
18757214 AATGACATAG
* * * *
18757224 AGTCATCGGACCTCATAATCCGTAAAGTATTCACATGCTCACGATGACACGTAGTTATCGGACCT
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAG-TATCGGACCT
* *
18757289 CATAATCCGTAAAGGATTCATATACTCACGATGACACATAGTCATTGGACCTCACAATCCGTAAA
65 CATAATCCGTAAAAGATTCATATACTCACGATGACACATAGTCATTGGACCTCACAATCCATAAA
*
18757354 GGATTCACATGCTCATGATGACACGT
130 GGATTCACAAGCTCATGATGACACGT
* * *
18757380 AGTTATTGGACCTCATAATCTGTAAAGGATTCATATACTCACGATGACACATAGTATCGGACCTC
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAGTATCGGACCTC
* * ** *
18757445 ATAATCCGTAAAAGATTCGTATACTCATGATGACATGTAGTCATCT-GACCTCATAATCCATAAA
66 ATAATCCGTAAAAGATTCATATACTCACGATGACACATAGTCAT-TGGACCTCACAATCCATAAA
* *
18757509 GGATTCATAAGCTCATGATGATACGT
130 GGATTCACAAGCTCATGATGACACGT
*
18757535 AGTCATCAGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAGTCATCGGACC
1 AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAGT-ATCGGACC
18757599 CTTTTACATT
Statistics
Matches: 196, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
155 140 0.71
156 56 0.29
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (155 bp):
AGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAGTATCGGACCTC
ATAATCCGTAAAAGATTCATATACTCACGATGACACATAGTCATTGGACCTCACAATCCATAAAG
GATTCACAAGCTCATGATGACACGT
Found at i:18772280 original size:109 final size:110
Alignment explanation
Indices: 18772127--18772343 Score: 285
Period size: 111 Copynumber: 2.0 Consensus size: 110
18772117 AAAACCGAGG
* * * * *
18772127 CAATGTTCTTTTATTTTTGGGAATTCGACAAATTGTGCCCTAACGTATTTGGTATG-GTCTTTCT
1 CAATGTTCTTTTATCTTAGGGAACTCGACAAATTATGCCCTAACGTATTAGGTATGAGTCTTTCT
*
18772191 TTGAACCTAAATAATTAAATATCTTATTCAAAATCGATAAATACT
66 TTGAACCTAAATAATTAAATATCCTATTCAAAATCGATAAATACT
* * * * * *
18772236 CAATGTT-TTGTTATCTTAGGGAACTCGAGAAATTATGTCTTAACGTGTTAGGTATGATTTTTTT
1 CAATGTTCTT-TTATCTTAGGGAACTCGACAAATTATGCCCTAACGTATTAGGTATGA-GTCTTT
*
18772300 CTTTGAACCTAAATAATTAAATATCCTATTTAAAATCGATAAAT
64 CTTTGAACCTAAATAATTAAATATCCTATTCAAAATCGATAAAT
18772344 GTTCTTTGTT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
108 2 0.02
109 44 0.48
111 46 0.50
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (110 bp):
CAATGTTCTTTTATCTTAGGGAACTCGACAAATTATGCCCTAACGTATTAGGTATGAGTCTTTCT
TTGAACCTAAATAATTAAATATCCTATTCAAAATCGATAAATACT
Found at i:18777175 original size:6 final size:6
Alignment explanation
Indices: 18777150--18777194 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
18777140 ACAATTCATA
* * *
18777150 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
18777195 ATTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:18780012 original size:11 final size:11
Alignment explanation
Indices: 18779998--18780043 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
18779988 AAAAAAAATG
18779998 AGAAA-AAAGAA
1 AGAAAGAAA-AA
18780009 AGAAAGAAAAA
1 AGAAAGAAAAA
*
18780020 AGAAGGAAAAA
1 AGAAAGAAAAA
*
18780031 A-AGAGAAAAA
1 AGAAAGAAAAA
18780041 AGA
1 AGA
18780044 GAGGTTGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 8 0.27
11 19 0.63
12 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:18780018 original size:15 final size:15
Alignment explanation
Indices: 18779998--18780043 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
18779988 AAAAAAAATG
18779998 AGAAAAAAGAAAGAA
1 AGAAAAAAGAAAGAA
*
18780013 AGAAAAAAGAAGGAA
1 AGAAAAAAGAAAGAA
*
18780028 A-AAAAGAGAAA-AA
1 AGAAAAAAGAAAGAA
18780041 AGA
1 AGA
18780044 GAGGTTGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 3 0.11
14 9 0.33
15 15 0.56
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AGAAAAAAGAAAGAA
Found at i:18780039 original size:9 final size:9
Alignment explanation
Indices: 18779990--18780045 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
18779980 ATTTCACCAA
18779990 AAAAAATGAG
1 AAAAAA-GAG
18780000 AAAAAAGA-
1 AAAAAAGAG
* *
18780008 AAGAAAGAA
1 AAAAAAGAG
18780017 AAAAGAAG-G
1 AAAA-AAGAG
18780026 AAAAAAAGAG
1 -AAAAAAGAG
18780036 AAAAAAGAG
1 AAAAAAGAG
18780045 A
1 A
18780046 GGTTGAGGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 7 0.18
9 18 0.46
10 14 0.36
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:18780989 original size:49 final size:49
Alignment explanation
Indices: 18780935--18781745 Score: 683
Period size: 49 Copynumber: 16.9 Consensus size: 49
18780925 TTACAACAAG
* * *
18780935 GAACCTTATACCCTAAAGATGTGAAGGGAAAGGTTGAAGCTGCAATGGC
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
* * * *
18780984 AAACCTTATACCTTAGATATGTGAAGGG--A-----AAGCCGCAACGGT
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
* * * * * *
18781026 GAATCTTGTACCCTAGAGACGTGGAGGGAAAGGTTGAAGCCACAACGGA
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
* * * * * *
18781075 AAACCTTATACCCTAGAGATGTGAAAGGAAAGATTGAAGTCGCAATGAC
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
* * * ** *
18781124 GAATCTCATGCCCTAGAGATGTGAAGGGAAAAATTGAAGCCACAATC-GC
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAA-CGGC
* * * * * * * *
18781173 GAATCTCATGCCCTAAAGATGTGGAGGGAAAGTTTAAAGCTGCAACGGC
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
* * * * *
18781222 AAACCTTATACCCTTA-AGATGTGATA-GGAAA-ATGGAAGTCGTAACGGC
1 GAACCTTATACCC-TAGAGATGTGA-AGGGAAAGGTTGAAGCCGCAACGGC
* * * * * * *
18781270 GAATCTTATACCCAAGAGATGTGGAGGGAAAGGTTAAAGTCGCAATGAC
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
* * * **
18781319 GAACCTTATACCTTAGAGATGTGAAGGGAAAGATTGAAGTCGCAACGAT
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
* * * * ***
18781368 GAATCTTATACCGTAGAGATATGGAGGGAAAGGTTGAAGCCGCAACAAT
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
* * * * *
18781417 GAACTTTATACCTTAGAGATGTGATGGGAAAGATT------G-AACGGT
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
** * * * **
18781459 GAATATTATACCCTAGAGATATGGAGGGAAAGGTTGAAGCCGTAACAAC
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
*
18781508 GAACCTTATACCCTA-AGGATGT-AGAGGGAAAGGTTGAAGCCGCAATGGC
1 GAACCTTATACCCTAGA-GATGTGA-AGGGAAAGGTTGAAGCCGCAACGGC
* * *
18781557 TAACCTTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCGCAACGAC
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
* * * *
18781606 GAATCTTATAACCTAAAGATGT-AGAGGGAAAGGTTGAAGCCGCAACGGT
1 GAACCTTATACCCTAGAGATGTGA-AGGGAAAGGTTGAAGCCGCAACGGC
*
18781655 GAACCTTATACCCTAGAGATGTGGAGGGAAAGGTTGAAGCCGCAACGGC
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
* * **
18781704 GAATCTTATATCCTAGAGATGTGAAGGGAAATATTGAAGCCG
1 GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCG
18781746 TAACAACAAA
Statistics
Matches: 606, Mismatches: 129, Indels: 54
0.77 0.16 0.07
Matches are distributed among these distances:
42 63 0.10
43 1 0.00
44 1 0.00
47 3 0.00
48 38 0.06
49 495 0.82
50 5 0.01
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (49 bp):
GAACCTTATACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGCAACGGC
Found at i:18781952 original size:43 final size:43
Alignment explanation
Indices: 18781885--18782143 Score: 308
Period size: 43 Copynumber: 6.0 Consensus size: 43
18781875 AGTTACATCA
* *
18781885 CCATCCAGTCTTTTACCCCTAATCCAGTAGGGGCAAATTGAAG
1 CCATCCAATCTTTTACCCCTAATCCAGTAGGGGCAGATTGAAG
* * *
18781928 CCA-CCTAGTCTTTTACCCCTAATCCAGTAGGGGCAAATTGAAA
1 CCATCC-AATCTTTTACCCCTAATCCAGTAGGGGCAGATTGAAG
* *
18781971 CCATCCAATCTTTTACCCCTAATCCAATAAGGGCAGATTGAAG
1 CCATCCAATCTTTTACCCCTAATCCAGTAGGGGCAGATTGAAG
* * *
18782014 TCATCCAATCTTTTACCCTTAATCTAGTAGGGGCAGATTGAAG
1 CCATCCAATCTTTTACCCCTAATCCAGTAGGGGCAGATTGAAG
* * *
18782057 CCATCCATTCTTTTACCCCTAATCCAG-AAGGGTAGATTGAAG
1 CCATCCAATCTTTTACCCCTAATCCAGTAGGGGCAGATTGAAG
* ** *
18782099 CCATTATTCAATCTTTTACCTTTAATCTAG-AGGGGCAGATTGAAG
1 CC---ATCCAATCTTTTACCCCTAATCCAGTAGGGGCAGATTGAAG
18782144 TCACATGCAC
Statistics
Matches: 187, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
42 17 0.09
43 135 0.72
44 2 0.01
45 33 0.18
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (43 bp):
CCATCCAATCTTTTACCCCTAATCCAGTAGGGGCAGATTGAAG
Found at i:18782806 original size:17 final size:17
Alignment explanation
Indices: 18782786--18782832 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
18782776 TAAACCCATT
* * *
18782786 TTTTAATTTTTAATTTG
1 TTTTAAGTTTAAATTTA
18782803 TTTTAAGTTTAAATTTA
1 TTTTAAGTTTAAATTTA
*
18782820 TTTTAAATTTAAA
1 TTTTAAGTTTAAA
18782833 ATTTGAAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTAAGTTTAAATTTA
Found at i:18783915 original size:20 final size:20
Alignment explanation
Indices: 18783887--18783924 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18783877 GTTCATTACT
18783887 TTTAAATATATATATAAATA
1 TTTAAATATATATATAAATA
* *
18783907 TTTATATATATATTTAAA
1 TTTAAATATATATATAAA
18783925 AGTAATGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTAAATATATATATAAATA
Found at i:18783920 original size:12 final size:12
Alignment explanation
Indices: 18783889--18783922 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18783879 TCATTACTTT
*
18783889 TAAATATATATA
1 TAAATATTTATA
18783901 TAAATATTTATA
1 TAAATATTTATA
*
18783913 TATATATTTA
1 TAAATATTTA
18783923 AAAGTAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAATATTTATA
Found at i:18784680 original size:30 final size:28
Alignment explanation
Indices: 18784643--18785029 Score: 146
Period size: 29 Copynumber: 13.1 Consensus size: 28
18784633 ATATTTTGAC
* *
18784643 CCCTAAACTTTTTCAAAATTACATTCTTA
1 CCCTAAAC-TTCTCAAAATTACATTTTTA
18784672 CCCATAAACTTCTCAAACATTACATTTTTA
1 CCC-TAAACTTCTCAAA-ATTACATTTTTA
*
18784702 CCCTCGAACTTCTCAAAAATTACATTTTTA
1 CCCT-AAACTTCTC-AAAATTACATTTTTA
**
18784732 CCCTTAAACTTC-CAAAAAAAACACATTTTTA
1 CCC-TAAACTTCTC---AAAATTACATTTTTA
** * **
18784763 CCCCCCGAACATTC-CATAAATTGCATTTCCA
1 --CCCTAAAC-TTCTCA-AAATTACATTTTTA
* * * *
18784794 -CCTCGAACTTTTCCAAAATAACA-TTTCA
1 CCCT-AAACTTCT-CAAAATTACATTTTTA
* * *
18784822 CCCCAAATTTTTCCAAAATCT-CA-TTTTA
1 CCCTAAACTTCT-CAAAAT-TACATTTTTA
* * * *
18784850 ACCTCAAATTTTTCCAAAATTACATTTTCA
1 CCCT-AAACTTCT-CAAAATTACATTTTTA
* * *
18784880 CCCTCAAACTTCTCCAAACTCT-TATTTTAA
1 CCCT-AAACTTCT-CAAAAT-TACATTTTTA
* *
18784910 TCCTAAACTTCTCCAAAATTACATTTTCA
1 CCCTAAACTTCT-CAAAATTACATTTTTA
* * *
18784939 CCCTCAAACTTCTCCAAACTCT-TATTTTAA
1 CCCT-AAACTTCT-CAAAAT-TACATTTTTA
* *
18784969 TCCTAAACTTCTCCAAAATTACATTTTGA
1 CCCTAAACTTCT-CAAAATTACATTTTTA
*
18784998 CCCCAAAC-TCATCCAAAATTACCA-TTTTA
1 CCCTAAACTTC-T-CAAAATTA-CATTTTTA
18785027 CCC
1 CCC
18785030 CCGAACATCC
Statistics
Matches: 285, Mismatches: 47, Indels: 52
0.74 0.12 0.14
Matches are distributed among these distances:
28 34 0.12
29 107 0.38
30 105 0.37
31 29 0.10
32 3 0.01
33 7 0.02
ACGTcount: A:0.34, C:0.29, G:0.01, T:0.35
Consensus pattern (28 bp):
CCCTAAACTTCTCAAAATTACATTTTTA
Found at i:18784699 original size:60 final size:59
Alignment explanation
Indices: 18784635--18784747 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
18784625 CAAAAATCAT
*
18784635 ATTTTGACCC-CTAAACTTTTTC-AAAATTACATTCTTACCCATAAACTTCTCAAACATTAC
1 ATTTTGACCCTC-AAAC-TTCTCAAAAATTACATTCTTACCCATAAACTTC-CAAACATTAC
* * * *
18784695 ATTTTTACCCTCGAACTTCTCAAAAATTACATTTTTACCCTTAAACTTCCAAA
1 ATTTTGACCCTCAAACTTCTCAAAAATTACATTCTTACCCATAAACTTCCAAA
18784748 AAAAACACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 8 0.17
60 37 0.80
61 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.37
Consensus pattern (59 bp):
ATTTTGACCCTCAAACTTCTCAAAAATTACATTCTTACCCATAAACTTCCAAACATTAC
Found at i:18784758 original size:31 final size:30
Alignment explanation
Indices: 18784663--18784765 Score: 93
Period size: 30 Copynumber: 3.4 Consensus size: 30
18784653 TTTCAAAATT
* * **
18784663 ACATTCTTACCCAT-AAACTTCTCAAACATT
1 ACATTTTTACCC-TCAAACTTCTCAAAAAAC
* **
18784693 ACATTTTTACCCTCGAACTTCTCAAAAATT
1 ACATTTTTACCCTCAAACTTCTCAAAAAAC
*
18784723 ACATTTTTACCCTTAAACTTC-CAAAAAAAAC
1 ACATTTTTACCCTCAAACTTCTC--AAAAAAC
18784754 ACATTTTTACCC
1 ACATTTTTACCC
18784766 CCCGAACATT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
29 2 0.03
30 44 0.70
31 17 0.27
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (30 bp):
ACATTTTTACCCTCAAACTTCTCAAAAAAC
Found at i:18784812 original size:29 final size:29
Alignment explanation
Indices: 18784774--18785025 Score: 183
Period size: 29 Copynumber: 8.6 Consensus size: 29
18784764 CCCCCGAACA
* * *
18784774 TTCCATAAATTGCATTTCCACCTCGAACTT
1 TTCCA-AAATTACATTTTCACCTCAAACTT
* * *
18784804 TTCCAAAATAACA-TTTCACCCCAAATTT
1 TTCCAAAATTACATTTTCACCTCAAACTT
* *
18784832 TTCCAAAATCT-CATTTTAACCTCAAATTT
1 TTCCAAAAT-TACATTTTCACCTCAAACTT
18784861 TTCCAAAATTACATTTTCACCCTCAAACTT
1 TTCCAAAATTACATTTTCA-CCTCAAACTT
* * * *
18784891 CTCCAAACTCT-TATTTTAATCCT-AAACTT
1 TTCCAAAAT-TACATTTTCA-CCTCAAACTT
*
18784920 CTCCAAAATTACATTTTCACCCTCAAACTT
1 TTCCAAAATTACATTTTCA-CCTCAAACTT
* * * *
18784950 CTCCAAACTCT-TATTTTAATCCT-AAACTT
1 TTCCAAAAT-TACATTTTCA-CCTCAAACTT
* * * *
18784979 CTCCAAAATTACATTTTGACCCCAAACTC
1 TTCCAAAATTACATTTTCACCTCAAACTT
*
18785008 ATCCAAAATTACCATTTT
1 TTCCAAAATTA-CATTTT
18785026 ACCCCCGAAC
Statistics
Matches: 181, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
28 27 0.15
29 93 0.51
30 59 0.33
31 2 0.01
ACGTcount: A:0.33, C:0.29, G:0.01, T:0.37
Consensus pattern (29 bp):
TTCCAAAATTACATTTTCACCTCAAACTT
Found at i:18784925 original size:59 final size:58
Alignment explanation
Indices: 18784799--18785014 Score: 294
Period size: 59 Copynumber: 3.7 Consensus size: 58
18784789 TTCCACCTCG
* * * * * *
18784799 AACTTTTCCAAAATAACA-TTTCACCCCAAATTTTTCCAAAATCTCATTTTAA-CCTCA
1 AACTTCTCCAAAATTACATTTTCACCCCAAACTTCTCCAAACTCTTATTTTAATCCT-A
* *
18784856 AATTTTTCCAAAATTACATTTTCACCCTCAAACTTCTCCAAACTCTTATTTTAATCCTA
1 AACTTCTCCAAAATTACATTTTCACCC-CAAACTTCTCCAAACTCTTATTTTAATCCTA
18784915 AACTTCTCCAAAATTACATTTTCACCCTCAAACTTCTCCAAACTCTTATTTTAATCCTA
1 AACTTCTCCAAAATTACATTTTCACCC-CAAACTTCTCCAAACTCTTATTTTAATCCTA
*
18784974 AACTTCTCCAAAATTACATTTTGACCCCAAAC-TCATCCAAA
1 AACTTCTCCAAAATTACATTTTCACCCCAAACTTC-TCCAAA
18785015 ATTACCATTT
Statistics
Matches: 146, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
57 18 0.12
58 19 0.13
59 106 0.73
60 3 0.02
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.36
Consensus pattern (58 bp):
AACTTCTCCAAAATTACATTTTCACCCCAAACTTCTCCAAACTCTTATTTTAATCCTA
Found at i:18785047 original size:28 final size:29
Alignment explanation
Indices: 18784980--18785057 Score: 108
Period size: 28 Copynumber: 2.7 Consensus size: 29
18784970 CCTAAACTTC
18784980 TCCAAAATTA-CATTTTGA-CCCCAAACTCA
1 TCCAAAATTACCATTTT-ACCCCCAAAC-CA
*
18785009 TCCAAAATTACCATTTTACCCCCGAA-CA
1 TCCAAAATTACCATTTTACCCCCAAACCA
18785037 TCCAAAATTACCATTTTACCC
1 TCCAAAATTACCATTTTACCC
18785058 TTAGATATCC
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
28 23 0.50
29 11 0.24
30 12 0.26
ACGTcount: A:0.36, C:0.33, G:0.03, T:0.28
Consensus pattern (29 bp):
TCCAAAATTACCATTTTACCCCCAAACCA
Found at i:18785097 original size:29 final size:28
Alignment explanation
Indices: 18784980--18785100 Score: 120
Period size: 29 Copynumber: 4.2 Consensus size: 28
18784970 CCTAAACTTC
18784980 TCCAAAATTA-CATTTTGA-CCCCAAACTCA
1 TCCAAAATTACCATTTT-ACCCCCAAA-T-A
* *
18785009 TCCAAAATTACCATTTTACCCCCGAACA
1 TCCAAAATTACCATTTTACCCCCAAATA
** *
18785037 TCCAAAATTACCATTTTACCCTTAGATA
1 TCCAAAATTACCATTTTACCCCCAAATA
* * *
18785065 TCCAACAGTTACCATTTTGCCCCCAAATT
1 TCCAA-AATTACCATTTTACCCCCAAATA
18785094 TCCAAAA
1 TCCAAAA
18785101 GTCATATTTT
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
28 30 0.40
29 33 0.44
30 12 0.16
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (28 bp):
TCCAAAATTACCATTTTACCCCCAAATA
Found at i:18785140 original size:29 final size:29
Alignment explanation
Indices: 18785078--18785181 Score: 104
Period size: 30 Copynumber: 3.6 Consensus size: 29
18785068 AACAGTTACC
*
18785078 ATTTTGCCCCCAAA-TTTCCAAAAG-TCA
1 ATTTTGACCCCAAATTTTCCAAAAGTTCA
* *
18785105 TATTTTTGACCTCAAATTTTCCAAAAGTTCG
1 -A-TTTTGACCCCAAATTTTCCAAAAGTTCA
* * * *
18785136 ATTTTAATCCCAAAATTTCCCAAAATTTCA
1 ATTTTGA-CCCCAAATTTTCCAAAAGTTCA
18785166 ATTTTGACCCCAAATT
1 ATTTTGACCCCAAATT
18785182 CCTCAAAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
28 1 0.02
29 24 0.39
30 34 0.56
31 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.37
Consensus pattern (29 bp):
ATTTTGACCCCAAATTTTCCAAAAGTTCA
Found at i:18788269 original size:103 final size:103
Alignment explanation
Indices: 18788090--18788402 Score: 353
Period size: 103 Copynumber: 3.0 Consensus size: 103
18788080 TTTTAAATGT
* * * * * *
18788090 CAATATTCTTTTA-TTTTAGGGAATTTGAGAAATTGTGTCCTAACGTATTGGGTACGGTTTCTCT
1 CAATATTATTTTATTTTTAGGGAATTCGAGAAATTGTGCCCTAACGTATTAGGTATGGTTTTTCT
* *
18788154 TTGAACCTAAATAATCGAGTATCCTATTTAAAA-CTGAGG
66 TTGAACCTAAATAATTGAATATCCTATTTAAAATC-GA-G
*
18788193 CAATATTATTTTATTTTTA-GGAATTCGAGAAATTGTGCCCTAATGTATTAGGTATGGTTTTTCT
1 CAATATTATTTTATTTTTAGGGAATTCGAGAAATTGTGCCCTAACGTATTAGGTATGGTTTTTCT
* * * *
18788257 TTGAACCTAAATAGTTGAATATCTTATTCAAAATCGAT
66 TTGAACCTAAATAATTGAATATCCTATTTAAAATCGAG
* * * * * *
18788295 AAATACTCAATGTTCTGTTATCTTAGGGAACTCGAGAAATTGTGCCCTAACGTGTTAGGTATGAT
1 CAATA-T-TAT-TT-TATT-T-TTAGGGAATTCGAGAAATTGTGCCCTAACGTATTAGGTATGGT
*
18788360 TTTTCTTCGAACCTAAATAATTGAATATCCTATTTAAAATCGA
60 TTTTCTTTGAACCTAAATAATTGAATATCCTATTTAAAATCGA
18788403 TAAATGTTCT
Statistics
Matches: 177, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
102 4 0.02
103 82 0.46
104 8 0.05
105 2 0.01
106 3 0.02
107 1 0.01
108 3 0.02
109 74 0.42
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (103 bp):
CAATATTATTTTATTTTTAGGGAATTCGAGAAATTGTGCCCTAACGTATTAGGTATGGTTTTTCT
TTGAACCTAAATAATTGAATATCCTATTTAAAATCGAG
Found at i:18788353 original size:109 final size:106
Alignment explanation
Indices: 18788083--18788407 Score: 363
Period size: 109 Copynumber: 3.0 Consensus size: 106
18788073 TTGTTTTTTT
* * * * * *
18788083 TAAATGTCAATATTCTTTTATTTTAGGGAATTTGAGAAATTGTGTCCTAACGTATTGGGTACGGT
1 TAAATATCAAT-TTCTATTA-TTTAGGGAATTCGAGAAATTGTGCCCTAACGTATTAGGTATGGT
* * *
18788148 TTCTCTTTGAACCTAAATAATCGAGTATCCTATTTAAAA-CTGA
64 TTTTCTTTGAACCTAAATAATTGAATATCCTATTTAAAATC-GA
** * *
18788191 GGCAATAT-TATTT-TATT-TTTA-GGAATTCGAGAAATTGTGCCCTAATGTATTAGGTATGGTT
1 -TAAATATCAATTTCTATTATTTAGGGAATTCGAGAAATTGTGCCCTAACGTATTAGGTATGGTT
* * *
18788252 TTTCTTTGAACCTAAATAGTTGAATATCTTATTCAAAATCGA
65 TTTCTTTGAACCTAAATAATTGAATATCCTATTTAAAATCGA
* * * *
18788294 TAAATACTCAATGTTCTGTTATCTTAGGGAACTCGAGAAATTGTGCCCTAACGTGTTAGGTATGA
1 TAAATA-TCAAT-TTCTATTAT-TTAGGGAATTCGAGAAATTGTGCCCTAACGTATTAGGTATGG
*
18788359 TTTTTCTTCGAACCTAAATAATTGAATATCCTATTTAAAATCGA
63 TTTTTCTTTGAACCTAAATAATTGAATATCCTATTTAAAATCGA
18788403 TAAAT
1 TAAAT
18788408 GTTCTTTATT
Statistics
Matches: 180, Mismatches: 28, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
102 4 0.02
103 70 0.39
104 7 0.04
105 2 0.01
106 6 0.03
107 3 0.02
108 5 0.03
109 83 0.46
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (106 bp):
TAAATATCAATTTCTATTATTTAGGGAATTCGAGAAATTGTGCCCTAACGTATTAGGTATGGTTT
TTCTTTGAACCTAAATAATTGAATATCCTATTTAAAATCGA
Found at i:18789650 original size:20 final size:20
Alignment explanation
Indices: 18789625--18789666 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
18789615 TCGGGTTCGG
*
18789625 GCTTGAACATTCAAGTCCGA
1 GCTTGAACATTCAAGCCCGA
18789645 GCTTGAACATTCAAGCCCGA
1 GCTTGAACATTCAAGCCCGA
18789665 GC
1 GC
18789667 CCGACCCATA
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:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (20 bp):
GCTTGAACATTCAAGCCCGA
Found at i:18790455 original size:15 final size:15
Alignment explanation
Indices: 18790435--18790467 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
18790425 TGACAACGAG
18790435 AATTATATTGTCTTT
1 AATTATATTGTCTTT
18790450 AATTATATTGTCTTT
1 AATTATATTGTCTTT
18790465 AAT
1 AAT
18790468 GTTACTGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (15 bp):
AATTATATTGTCTTT
Found at i:18795490 original size:28 final size:27
Alignment explanation
Indices: 18795442--18795504 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
18795432 AAAAATATTT
*
18795442 ATTTTAT-TTTATTTTAATATTTAATA
1 ATTTTATATTTATTTTAATATTGAATA
* * *
18795468 ATTTTATATTTTTTTTATTTATTGAATT
1 ATTTTATATTTATTTTA-ATATTGAATA
*
18795496 TTTTTATAT
1 ATTTTATAT
18795505 AGTTATCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.23
27 8 0.27
28 15 0.50
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (27 bp):
ATTTTATATTTATTTTAATATTGAATA
Found at i:18795561 original size:14 final size:14
Alignment explanation
Indices: 18795542--18795582 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
18795532 TACATTAGAG
18795542 TAGTATTATAAATT
1 TAGTATTATAAATT
*
18795556 TAGTA-TAT--GTT
1 TAGTATTATAAATT
18795567 TAGTATTATAAATT
1 TAGTATTATAAATT
18795581 TA
1 TA
18795583 AAACGGGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
11 7 0.32
12 3 0.14
13 3 0.14
14 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (14 bp):
TAGTATTATAAATT
Found at i:18797546 original size:28 final size:29
Alignment explanation
Indices: 18797502--18797569 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 29
18797492 TAAAAGTTGG
18797502 TAAAAAAATAAATTTGGGACCC-TTAAAAAT
1 TAAAAAAA-AAATTTGGG-CCCTTTAAAAAT
18797532 TAAAAAAAAAA-TTGGGCCCTTTAAAAAT
1 TAAAAAAAAAATTTGGGCCCTTTAAAAAT
* *
18797560 TTAAAGAAAA
1 TAAAAAAAAA
18797570 CAAAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 3 0.09
28 21 0.60
29 3 0.09
30 8 0.23
ACGTcount: A:0.56, C:0.09, G:0.10, T:0.25
Consensus pattern (29 bp):
TAAAAAAAAAATTTGGGCCCTTTAAAAAT
Found at i:18798362 original size:26 final size:26
Alignment explanation
Indices: 18798326--18798387 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
18798316 CAACCCCAGC
* * *
18798326 TCACTAGGCCTAATGGTGACCTCAGT
1 TCACTAGGCCTAATGGCGACCCCAAT
*
18798352 TCACTATGCCTAATGGCGACCCCAAT
1 TCACTAGGCCTAATGGCGACCCCAAT
18798378 TCACTAGGCC
1 TCACTAGGCC
18798388 AAACTCCTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (26 bp):
TCACTAGGCCTAATGGCGACCCCAAT
Found at i:18802306 original size:7 final size:6
Alignment explanation
Indices: 18802291--18802322 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
18802281 CATTTTCAAA
18802291 TCATTT TCATTTT TCATTT TCATTT TCATTT T
1 TCATTT TCA-TTT TCATTT TCATTT TCATTT T
18802323 GGAGAAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (6 bp):
TCATTT
Found at i:18802342 original size:57 final size:57
Alignment explanation
Indices: 18802278--18802427 Score: 187
Period size: 57 Copynumber: 2.6 Consensus size: 57
18802268 AAAAACATAA
* *
18802278 ATTCATTTTCAAATCATTTTCATTT-TTCATTTTCATTTTCATTTTGGAGAAAACCAC
1 ATTCATTTCCAAAT-ATTTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCAC
* * * *
18802335 ATTCATTTCCAAATGA-TTCCATTTCTCCATTTTCATTTTTATTTTGGAGAAAATCAT
1 ATTCATTTCCAAAT-ATTTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCAC
* *
18802392 AATCATTTCCAAATGTTTCTCATTTCTCCATTTTCA
1 ATTCATTTCCAAATATTT-TCATTTCTCCATTTTCA
18802428 CCATTTCTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
56 7 0.09
57 57 0.71
58 16 0.20
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.48
Consensus pattern (57 bp):
ATTCATTTCCAAATATTTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCAC
Found at i:18808647 original size:19 final size:18
Alignment explanation
Indices: 18808621--18808673 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
18808611 TAAAGTATAC
18808621 TTATTATTTATTTTTAAA
1 TTATTATTTATTTTTAAA
**
18808639 TTAATTA-TTAAATTTAAA
1 TT-ATTATTTATTTTTAAA
18808657 TTATATATTTATATTTT
1 TTAT-TATTTAT-TTTT
18808674 TTATATACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 2 0.07
18 15 0.56
19 7 0.26
20 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATTTATTTTTAAA
Found at i:18816474 original size:25 final size:25
Alignment explanation
Indices: 18816446--18816494 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18816436 TGAATTATAA
18816446 AATAAAATAAATAACACT-AATAAAT
1 AATAAAATAAATAACA-TAAATAAAT
* *
18816471 AATACAATTAATAACATAAATAAA
1 AATAAAATAAATAACATAAATAAA
18816495 GATATAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.24
Consensus pattern (25 bp):
AATAAAATAAATAACATAAATAAAT
Found at i:18816806 original size:98 final size:95
Alignment explanation
Indices: 18816665--18816839 Score: 203
Period size: 97 Copynumber: 1.8 Consensus size: 95
18816655 AAAATAAAAA
* * *
18816665 TGCTGGAAATAATAAAAATAAATAAATAGAAAATGACCTAATTGGAAA-TTGAAA-AGAAATTTA
1 TGCTGGAAATAATAAAAATAAATAAACAGAAAAGGACCAAATT-GAAACTT-AAATA-AAATTT-
*
18816728 AAGGGGAAAAATAAAAGATAAATAAAGTTTAAAG
62 AAGGGAAAAAATAAAAGATAAATAAAGTTTAAAG
* **
18816762 TGCTTGAAATAA-ATAAAATCAAATAAACATTAAAGGACCAAATTGAAACTTAAATAAAATTTAA
1 TGCTGGAAATAATA-AAAAT-AAATAAACAGAAAAGGACCAAATTGAAACTTAAATAAAATTTAA
*
18816826 GGTAAAAAATAAAA
64 GGGAAAAAATAAAA
18816840 AAATGATATA
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
96 15 0.23
97 29 0.44
98 22 0.33
ACGTcount: A:0.58, C:0.05, G:0.13, T:0.23
Consensus pattern (95 bp):
TGCTGGAAATAATAAAAATAAATAAACAGAAAAGGACCAAATTGAAACTTAAATAAAATTTAAGG
GAAAAAATAAAAGATAAATAAAGTTTAAAG
Found at i:18818535 original size:50 final size:50
Alignment explanation
Indices: 18818456--18818827 Score: 236
Period size: 50 Copynumber: 7.5 Consensus size: 50
18818446 ATTTAATTGA
* * * * *
18818456 TCCACTGTAACTTCAGGGATATAGGATTTGATGTCGTAACTTTATCTTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTTGATGTCGTAGCTTCATCTTAC
* ** * * * *
18818506 TCCACTGCATCTTCAGGGAGATAATATTTGCTTTTGTAGCTTCAATCTCAC
1 TCCACTGCAACTTCAGGGAGATAGGATTTGATGTCGTAGCTTC-ATCTTAC
* * *
18818557 T-CACTGCAACTTCAGGGATATAGGATTTGATGTGGTAGCTTCATCTTAA
1 TCCACTGCAACTTCAGGGAGATAGGATTTGATGTCGTAGCTTCATCTTAC
* * * ** * * * * * *
18818606 TCTACTGCAACTTTAGAGAGATAAACATTTGCTATTGTAGTTTTAATCTGA-
1 TCCACTGCAACTTCAGGGAGAT-AGGATTTGATGTCGTAG-CTTCATCTTAC
* * *
18818657 TCC-CTACAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTAC
1 TCCACTGCAACTTCAGGGAGATAGGATTTGATGTCGTAGCTTCATCTTAC
* * * * ** *
18818706 TCCACTGTATCTTCATGGAGATCA-GATTTGCTGTTATAGCTTCAATCTGAC
1 TCCACTGCAACTTCAGGGAGAT-AGGATTTGATGTCGTAGCTTC-ATCTTAC
* * * * * *
18818757 -CCATTGCAA-TTTAGGG-GTATAGAATTTGATGTTGTATCTTCATCTTGC
1 TCCACTGCAACTTCAGGGAG-ATAGGATTTGATGTCGTAGCTTCATCTTAC
** *
18818805 TGTACTGCAACTTCAGAGAGATA
1 TCCACTGCAACTTCAGGGAGATA
18818828 AAGATTTGCT
Statistics
Matches: 236, Mismatches: 73, Indels: 26
0.70 0.22 0.08
Matches are distributed among these distances:
48 14 0.06
49 48 0.20
50 139 0.59
51 28 0.12
52 7 0.03
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (50 bp):
TCCACTGCAACTTCAGGGAGATAGGATTTGATGTCGTAGCTTCATCTTAC
Found at i:18818583 original size:100 final size:100
Alignment explanation
Indices: 18818458--18818898 Score: 435
Period size: 100 Copynumber: 4.4 Consensus size: 100
18818448 TTAATTGATC
* * * * *
18818458 CACTGTAACTTCAGGGATATAGGATTTGATGTCGTAACTTTATCTTGCTCCACTGCATCTTCAGG
1 CACTGCAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTACTCCACTGCAACTTCAGA
* *
18818523 GAGAT-AATATTTGCTTTTGTAGCTTCAATCTCACT
66 GAGATAAAGATTTGCTATTGTAGCTTCAATCTCA-T
* * * * *
18818558 CACTGCAACTTCAGGGATATAGGATTTGATGTGGTAGCTTCATCTTAATCTACTGCAACTTTAGA
1 CACTGCAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTACTCCACTGCAACTTCAGA
* * * *
18818623 GAGATAAACATTTGCTATTGTAGTTTTAATCTGAT
66 GAGATAAAGATTTGCTATTGTAGCTTCAATCTCAT
* * * *
18818658 CCCTACAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTACTCCACTGTATCTTCATG
1 CACTGCAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTACTCCACTGCAACTTCA-G
* * * * *
18818723 -GAGAT-CAGATTTGCTGTTATAGCTTCAATCTGACC
65 AGAGATAAAGATTTGCTATTGTAGCTTCAATCTCA-T
* * * * * * * **
18818758 CATTGCAA-TTTAGGGGTATAGAATTTGATGTTGTATCTTCATCTTGCTGTACTGCAACTTCAGA
1 CACTGCAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTACTCCACTGCAACTTCAGA
* * *
18818822 GAGATAAAGATTTGCTACTGTAGTTTTAATC-CGAT
66 GAGATAAAGATTTGCTATTGTAGCTTCAATCTC-AT
* * *
18818857 C-CTTCAAACTTCAAGGATATAGGATTTGATGTGGTAACTTCA
1 CACTGC-AACTTCAGGGATATAGGATTTGATGTCGTAACTTCA
18818899 CTCCATTCCA
Statistics
Matches: 273, Mismatches: 60, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
98 3 0.01
99 74 0.27
100 172 0.63
101 24 0.09
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (100 bp):
CACTGCAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTACTCCACTGCAACTTCAGA
GAGATAAAGATTTGCTATTGTAGCTTCAATCTCAT
Found at i:18818695 original size:200 final size:199
Alignment explanation
Indices: 18818434--18818898 Score: 619
Period size: 199 Copynumber: 2.3 Consensus size: 199
18818424 GACATAAGGC
* **
18818434 TTGCTAATGTAGATTTAAT-TGATCCACTGTAACTTCAGGGATATAGGATTTGATGTCGTAACTT
1 TTGCTAATGTAGTTTTAATCTGATCC-CTACAACTTCAGGGATATAGGATTTGATGTCGTAACTT
* * * * * *
18818498 TATCTTGCTCCACTGCATCTTCAGGGAGATAATATTTGCTTTTGTAGCTTCAATCTCACTCACTG
65 CATCTTACTCCACTGCATCTTCAGGGAGATAAGATTTGCTGTTATAGCTTCAATCTCACCCACTG
* *
18818563 CAACTTCAGGGATATAGGATTTGATGTGGTAGCTTCATCTTAATCTACTGCAACTTTAGAGAGAT
130 CAA-TTCAGGGATATAGAATTTGATGTGGTAGCTTCATCTTAATCTACTGCAACTTCAGAGAGAT
18818628 AAACAT
194 AAACAT
*
18818634 TTGCTATTGTAGTTTTAATCTGATCCCTACAACTTCAGGGATATAGGATTTGATGTCGTAACTTC
1 TTGCTAATGTAGTTTTAATCTGATCCCTACAACTTCAGGGATATAGGATTTGATGTCGTAACTTC
* * * * *
18818699 ATCTTACTCCACTGTATCTTCATGGAGATCAGATTTGCTGTTATAGCTTCAATCTGACCCATTGC
66 ATCTTACTCCACTGCATCTTCAGGGAGATAAGATTTGCTGTTATAGCTTCAATCTCACCCACTGC
* * * * ** *
18818764 AATTTAGGGGTATAGAATTTGATGTTGTATCTTCATCTTGCTGTACTGCAACTTCAGAGAGATAA
131 AATTCAGGGATATAGAATTTGATGTGGTAGCTTCATCTTAATCTACTGCAACTTCAGAGAGATAA
*
18818829 AGAT
196 ACAT
* * * * *
18818833 TTGCTACTGTAGTTTTAATCCGAT-CCTTCAAACTTCAAGGATATAGGATTTGATGTGGTAACTT
1 TTGCTAATGTAGTTTTAATCTGATCCCTAC-AACTTCAGGGATATAGGATTTGATGTCGTAACTT
18818897 CA
65 CA
18818899 CTCCATTCCA
Statistics
Matches: 233, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
198 4 0.02
199 113 0.48
200 110 0.47
201 6 0.03
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (199 bp):
TTGCTAATGTAGTTTTAATCTGATCCCTACAACTTCAGGGATATAGGATTTGATGTCGTAACTTC
ATCTTACTCCACTGCATCTTCAGGGAGATAAGATTTGCTGTTATAGCTTCAATCTCACCCACTGC
AATTCAGGGATATAGAATTTGATGTGGTAGCTTCATCTTAATCTACTGCAACTTCAGAGAGATAA
ACAT
Found at i:18824291 original size:76 final size:76
Alignment explanation
Indices: 18824196--18824351 Score: 303
Period size: 76 Copynumber: 2.1 Consensus size: 76
18824186 ATAGGCCTGC
*
18824196 ATTGTTCACCTCTTTTTCTTTCTTTATAAAGGTAGATCTCTTAACACTTTCCCCCACATTTATTT
1 ATTGTTCACCTCATTTTCTTTCTTTATAAAGGTAGATCTCTTAACACTTTCCCCCACATTTATTT
18824261 TCCCGCTCCTA
66 TCCCGCTCCTA
18824272 ATTGTTCACCTCATTTTCTTTCTTTATAAAGGTAGATCTCTTAACACTTTCCCCCACATTTATTT
1 ATTGTTCACCTCATTTTCTTTCTTTATAAAGGTAGATCTCTTAACACTTTCCCCCACATTTATTT
18824337 TCCCGCTCCTA
66 TCCCGCTCCTA
18824348 ATTG
1 ATTG
18824352 CATTCTCAAT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 79 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.44
Consensus pattern (76 bp):
ATTGTTCACCTCATTTTCTTTCTTTATAAAGGTAGATCTCTTAACACTTTCCCCCACATTTATTT
TCCCGCTCCTA
Found at i:18826852 original size:24 final size:22
Alignment explanation
Indices: 18826825--18826878 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
18826815 TGTTCTTCAT
18826825 ATCTTG-CTGCACTTTGGCTAATTG
1 ATCTTGACTGCAC-TT-G-TAATTG
18826849 ATCTTGTAACTGCACTTGTAATTG
1 ATCTTG--ACTGCACTTGTAATTG
18826873 ATCTTG
1 ATCTTG
18826879 GATATCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 18 0.67
25 1 0.04
26 2 0.07
27 6 0.22
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.43
Consensus pattern (22 bp):
ATCTTGACTGCACTTGTAATTG
Found at i:18830683 original size:25 final size:25
Alignment explanation
Indices: 18830655--18830703 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18830645 TGAATAACAA
18830655 AATAAAATAAATAACACT-AATAAAT
1 AATAAAATAAATAACA-TAAATAAAT
* *
18830680 AATACAATTAATAACATAAATAAA
1 AATAAAATAAATAACATAAATAAA
18830704 AGATATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.24
Consensus pattern (25 bp):
AATAAAATAAATAACATAAATAAAT
Found at i:18835988 original size:29 final size:30
Alignment explanation
Indices: 18835953--18836025 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
18835943 GTAAGAATTA
*
18835953 ATTTCATTTTT-TAATCTTTATTAAT-TTTT
1 ATTTCATTTTTATAAT-TTAATTAATATTTT
18835982 ATTTCATTTTTATAATTTAATTAATATTTT
1 ATTTCATTTTTATAATTTAATTAATATTTT
* *
18836012 TTTATAATTTTTAT
1 ATT-TCATTTTTAT
18836026 GTGAATAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 19 0.50
30 10 0.26
31 9 0.24
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (30 bp):
ATTTCATTTTTATAATTTAATTAATATTTT
Found at i:18844394 original size:28 final size:28
Alignment explanation
Indices: 18844362--18844442 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
18844352 CTACGTGTAT
* *
18844362 TTAGCACTTTGTGTGGTCTCTATTTTGA
1 TTAGCACTTTGTGTGCTCTCTATTCTGA
*
18844390 TTAGCACTTTGTGTGCTCTCTGTTCTGA
1 TTAGCACTTTGTGTGCTCTCTATTCTGA
*
18844418 TTAGCACTTTTTGTGCTCTCTATTC
1 TTAGCACTTTGTGTGCTCTCTATTC
18844443 CATAATAGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.12, C:0.20, G:0.19, T:0.49
Consensus pattern (28 bp):
TTAGCACTTTGTGTGCTCTCTATTCTGA
Found at i:18854232 original size:13 final size:13
Alignment explanation
Indices: 18854214--18854257 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
18854204 TCCAAACAAC
18854214 AAAACAAAAAATA
1 AAAACAAAAAATA
* *
18854227 AAAACAACACAA-C
1 AAAACAA-AAAATA
18854240 AAAACAAAAAATA
1 AAAACAAAAAATA
18854253 AAAAC
1 AAAAC
18854258 TACACAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 19 0.76
14 3 0.12
ACGTcount: A:0.80, C:0.16, G:0.00, T:0.05
Consensus pattern (13 bp):
AAAACAAAAAATA
Found at i:18854238 original size:18 final size:19
Alignment explanation
Indices: 18854206--18854249 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
18854196 AACACCATTC
18854206 CAAACAACAAAACAA-AAAA
1 CAAA-AACAAAACAACAAAA
* *
18854225 TAAAAACAACACAACAAAA
1 CAAAAACAAAACAACAAAA
18854244 CAAAAA
1 CAAAAA
18854250 ATAAAAACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.77, C:0.20, G:0.00, T:0.02
Consensus pattern (19 bp):
CAAAAACAAAACAACAAAA
Found at i:18854238 original size:26 final size:26
Alignment explanation
Indices: 18854209--18854269 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
18854199 ACCATTCCAA
18854209 ACAACAAAACAAAAAATAAAAACAAC
1 ACAACAAAACAAAAAATAAAAACAAC
*
18854235 ACAACAAAACAAAAAATAAAAACTAC
1 ACAACAAAACAAAAAATAAAAACAAC
*
18854261 ACAATAAAA
1 ACAACAAAA
18854270 GTCAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.75, C:0.18, G:0.00, T:0.07
Consensus pattern (26 bp):
ACAACAAAACAAAAAATAAAAACAAC
Found at i:18854561 original size:58 final size:58
Alignment explanation
Indices: 18854492--18854602 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 58
18854482 AAAAGAGTTG
*
18854492 TTTATGAGTGTTATTTAGGAATAAAATTATATTT-GAGTTTAAAAATATTTGGGTTTAA
1 TTTATGAGTGTTATTTAAGAATAAAATTATATTTGGA-TTTAAAAATATTTGGGTTTAA
* *
18854550 TTTATGAGTGTTTTTTAAGAATGAAATTATATTTGGATTTAAAAATATTTGGG
1 TTTATGAGTGTTATTTAAGAATAAAATTATATTTGGATTTAAAAATATTTGGG
18854603 AATTATATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
58 47 0.96
59 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (58 bp):
TTTATGAGTGTTATTTAAGAATAAAATTATATTTGGATTTAAAAATATTTGGGTTTAA
Found at i:18854619 original size:29 final size:29
Alignment explanation
Indices: 18854574--18854629 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
18854564 TTAAGAATGA
18854574 AATTATATTTGGATTTAAAAATATTTGGG
1 AATTATATTTGGATTTAAAAATATTTGGG
*
18854603 AATTATATTTGGGTTTAAAAATATTTG
1 AATTATATTTGGATTTAAAAATATTTG
18854630 AGAAGAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (29 bp):
AATTATATTTGGATTTAAAAATATTTGGG
Found at i:18855063 original size:18 final size:18
Alignment explanation
Indices: 18855023--18855078 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 18
18855013 TTTTTGATTT
** *
18855023 TTAATATTTTTAATTAAAT
1 TTAA-ATTTTTAAAAAAAA
18855042 TTAAATTTTTAAAAAAAA
1 TTAAATTTTTAAAAAAAA
18855060 TT-AA--TTTAAAAAAAA
1 TTAAATTTTTAAAAAAAA
18855075 TTAA
1 TTAA
18855079 CTTATTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 13 0.39
16 1 0.03
17 2 0.06
18 13 0.39
19 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAATTTTTAAAAAAAA
Found at i:18855069 original size:15 final size:15
Alignment explanation
Indices: 18855049--18855078 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18855039 AATTTAAATT
18855049 TTTAAAAAAAATTAA
1 TTTAAAAAAAATTAA
18855064 TTTAAAAAAAATTAA
1 TTTAAAAAAAATTAA
18855079 CTTATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TTTAAAAAAAATTAA
Found at i:18858606 original size:71 final size:71
Alignment explanation
Indices: 18858490--18858623 Score: 178
Period size: 71 Copynumber: 1.9 Consensus size: 71
18858480 AAGATTTGAA
* * *
18858490 GATATATTGTACGGGCTCGAAAGAGCGATATACTAAACAGGCTCGTAAGAGCGTTATACTGTATT
1 GATATATTGTACGGGCTCGAAAGAGCAATATACTAAACAGGCTCGTAAAAGCATTATACTGTATT
18858555 AGAAGT
66 AGAAGT
* * * * * * *
18858561 GATATATTGTACTGGCTTGAAAGAGTAATTTATTGAACTGGCTCGTAAAAGCATTATACTGTA
1 GATATATTGTACGGGCTCGAAAGAGCAATATACTAAACAGGCTCGTAAAAGCATTATACTGTA
18858624 CTGGCTCGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (71 bp):
GATATATTGTACGGGCTCGAAAGAGCAATATACTAAACAGGCTCGTAAAAGCATTATACTGTATT
AGAAGT
Found at i:18858656 original size:26 final size:24
Alignment explanation
Indices: 18858590--18858652 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 24
18858580 AAAGAGTAAT
18858590 TTATTGAACTGGCTCGTAAAAGCA
1 TTATTGAACTGGCTCGTAAAAGCA
*
18858614 TTATACTGTACTGGCTCGTAAAAGCGAA
1 TTAT--TGAACTGGCTCGTAAAAGC--A
18858642 TTATTG-ACTGG
1 TTATTGAACTGG
18858653 GCTCTTATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 4 0.12
25 5 0.15
26 20 0.59
28 5 0.15
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (24 bp):
TTATTGAACTGGCTCGTAAAAGCA
Found at i:18870762 original size:26 final size:26
Alignment explanation
Indices: 18870722--18870771 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
18870712 AGATTTGAAG
* *
18870722 ATATACTGTATTAGCTCGAAAGAGCA
1 ATATACTGAACTAGCTCGAAAGAGCA
*
18870748 ATATACTGAACTAGCTCGTAAGAG
1 ATATACTGAACTAGCTCGAAAGAG
18870772 TGTTAAACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (26 bp):
ATATACTGAACTAGCTCGAAAGAGCA
Found at i:18870951 original size:35 final size:37
Alignment explanation
Indices: 18870884--18870956 Score: 123
Period size: 35 Copynumber: 2.0 Consensus size: 37
18870874 TACTAACTGG
*
18870884 GCTCGTATGAGCTAAAATTTACTAGGAGACTTGAAGA
1 GCTCGTATGAGCTAAAATTTACTAGGAAACTTGAAGA
18870921 GCTCGTATGAGCT-AAA-TTACTAGGAAACTTGAAGA
1 GCTCGTATGAGCTAAAATTTACTAGGAAACTTGAAGA
18870956 G
1 G
18870957 ATTGTTTGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 19 0.54
36 3 0.09
37 13 0.37
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.26
Consensus pattern (37 bp):
GCTCGTATGAGCTAAAATTTACTAGGAAACTTGAAGA
Found at i:18873089 original size:19 final size:19
Alignment explanation
Indices: 18873065--18873114 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
18873055 GCCTGACCCA
* *
18873065 AACCCGTTGACTCGACTCG
1 AACCCGTTGACCCAACTCG
*
18873084 AACCCGTTAACCCAACTCG
1 AACCCGTTGACCCAACTCG
*
18873103 AACCTGTTGACC
1 AACCCGTTGACC
18873115 TAAATTGAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.26, C:0.38, G:0.16, T:0.20
Consensus pattern (19 bp):
AACCCGTTGACCCAACTCG
Found at i:18877105 original size:13 final size:14
Alignment explanation
Indices: 18877076--18877105 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18877066 TTCAGTACAT
18877076 TGACATTTAACCTC
1 TGACATTTAACCTC
18877090 TGACATTTAA-CTC
1 TGACATTTAACCTC
18877103 TGA
1 TGA
18877106 TTACATTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:18884919 original size:21 final size:21
Alignment explanation
Indices: 18884895--18884942 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
18884885 ATGATCAGCT
18884895 GAAGGAACATGAAGAA-AAAGA
1 GAAGGAACATG-AGAATAAAGA
* * *
18884916 GAAGAAAGATGAGAATGAAGA
1 GAAGGAACATGAGAATAAAGA
18884937 GAAGGA
1 GAAGGA
18884943 CCCTGCCAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.58, C:0.02, G:0.33, T:0.06
Consensus pattern (21 bp):
GAAGGAACATGAGAATAAAGA
Found at i:18886020 original size:17 final size:18
Alignment explanation
Indices: 18886000--18886035 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
18885990 AACAAAAATG
*
18886000 AGAAAAAGAGGAA-AAAA
1 AGAAAAAAAGGAAGAAAA
18886017 AGAAAAAAAGGAAGAAAA
1 AGAAAAAAAGGAAGAAAA
18886035 A
1 A
18886036 AATATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAGGAAGAAAA
Found at i:18897456 original size:16 final size:16
Alignment explanation
Indices: 18897437--18897470 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18897427 TTTTTATTTT
18897437 ATTTTAACTTAGATTA
1 ATTTTAACTTAGATTA
**
18897453 ATTTTAGTTTAGATTA
1 ATTTTAACTTAGATTA
18897469 AT
1 AT
18897471 ATTCATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (16 bp):
ATTTTAACTTAGATTA
Found at i:18899378 original size:27 final size:28
Alignment explanation
Indices: 18899347--18899426 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
18899337 CAGTCCATTT
*
18899347 AGAGTATGCCATAAAGGTTGTTCTTTTC
1 AGAGTATGCCACAAAGGTTGTTCTTTTC
* * * *
18899375 -GAGTACGCTACAAATGTTATTC-TTTC
1 AGAGTATGCCACAAAGGTTGTTCTTTTC
*
18899401 ATAGTATGCCACAAAGGTTGTTCTTT
1 AGAGTATGCCACAAAGGTTGTTCTTT
18899427 CCTGACGTGT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
26 4 0.10
27 34 0.85
28 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (28 bp):
AGAGTATGCCACAAAGGTTGTTCTTTTC
Found at i:18906079 original size:137 final size:137
Alignment explanation
Indices: 18905794--18906213 Score: 587
Period size: 137 Copynumber: 3.1 Consensus size: 137
18905784 TTGAACATAG
** *
18905794 ATATAATTAATATATGAATTTGATTC-TACAAAATATTAACAGTATATATTTTAC-TGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAAG-ATTTAT
* * *
18905857 TAATATAAAGAATTATATTAATTAATTTAAGTCAAAGTATAAAAGACATGGACATTAATATTCTT
65 TAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGA-ATTAATATTCTT
*
18905922 TTCGAAAGA
129 TTGGAAAGA
* * *
18905931 ATATAATTAATATATTAATTTGATTCAAACAAAATATTAATTGCATATATTTTACAAGATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAAGATTTATT
* *
18905996 AAT-TAAA-ATAGTCATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAATTAATATTCTT
66 AATATAAACA-A-TTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAATTAATATTCTT
18906059 TTGGAAAGA
129 TTGGAAAGA
* * *
18906068 ATATAATTAATATATGAATTAGATTCATACAAAATATTAATTGTATATATTTTATAAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAAGATTTATT
* * * *
18906133 CATATAAACAATTATATTAATTAATTTCAGTAAAAATATACAAGACATGAAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATG-GAATTAATATTCTTT
*
18906198 TGCAAAGA
130 TGGAAAGA
18906206 ATATAATT
1 ATATAATT
18906214 CCCTTTTCTA
Statistics
Matches: 252, Mismatches: 24, Indels: 13
0.87 0.08 0.04
Matches are distributed among these distances:
136 1 0.00
137 145 0.58
138 104 0.41
139 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (137 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAAGATTTATT
AATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAATTAATATTCTTTT
GGAAAGA
Found at i:18906280 original size:75 final size:75
Alignment explanation
Indices: 18906189--18906335 Score: 208
Period size: 75 Copynumber: 2.0 Consensus size: 75
18906179 ATGAAAATTA
* *
18906189 ATATTCTTTTGCAAAGAATATAATTCCCTTTTCTAACTTTCCATTT-TCAT-TCTCTATTAATAA
1 ATATTCTTTTGCAAAGAATATAATTCACTTTTCTAACTTTCCATTTGACATAT-T-TATTAATAA
18906252 GGGAATAATTCT
64 GGGAATAATTCT
* * * *
18906264 ATATTCTTTTGGAAAGAATATAATTCATTTTTTTAACTTTTCATTTGACATATTTATTAATAAGG
1 ATATTCTTTTGCAAAGAATATAATTCACTTTTCTAACTTTCCATTTGACATATTTATTAATAAGG
18906329 GAATAAT
66 GAATAAT
18906336 CTTAATTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
75 59 0.92
76 4 0.06
77 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTGCAAAGAATATAATTCACTTTTCTAACTTTCCATTTGACATATTTATTAATAAGG
GAATAATTCT
Found at i:18907751 original size:13 final size:13
Alignment explanation
Indices: 18907733--18907758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18907723 AATTTTGATC
18907733 AAAATATAAAAGA
1 AAAATATAAAAGA
18907746 AAAATATAAAAGA
1 AAAATATAAAAGA
18907759 CATGAAAATT
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAAATATAAAAGA
Found at i:18907864 original size:77 final size:77
Alignment explanation
Indices: 18907776--18907919 Score: 236
Period size: 77 Copynumber: 1.9 Consensus size: 77
18907766 ATTAATATTC
*
18907776 TTTTGGAAAGAACATAA-TTCATTTTTCTATCTTTCCATTTGTATTCTCTATTAATAAGGGAATA
1 TTTTGGAAAGAACATAATTTC-TTTTTCTAACTTTCCATTTGTATTCTCTATTAATAAGGGAATA
18907840 ATCCTATATTTTA
65 ATCCTATATTTTA
* * *
18907853 TTTTGGAAAGAATATAATTTCTTTTTTTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAA
1 TTTTGGAAAGAACATAATTTCTTTTTCTAACTTTCCATTTGTATTCTCTATTAATAAGGGAATAA
18907918 TC
66 TC
18907920 TTGGTTTTAC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
77 59 0.95
78 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (77 bp):
TTTTGGAAAGAACATAATTTCTTTTTCTAACTTTCCATTTGTATTCTCTATTAATAAGGGAATAA
TCCTATATTTTA
Found at i:18909619 original size:37 final size:37
Alignment explanation
Indices: 18909551--18909643 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
18909541 GTAATTTTAA
* * *
18909551 TCCAGAATTGCACCCAAACA-TGTCGCTGCATGAGTACT
1 TCCAG-ATTGCACCCAAA-ATTATCGCCGCATGAGCACT
* *
18909589 TCTAGATTGCGCCCAAAATTATCGCCGCATGAGCACT
1 TCCAGATTGCACCCAAAATTATCGCCGCATGAGCACT
*
18909626 TCCAGATTTCACCCAAAA
1 TCCAGATTGCACCCAAAA
18909644 CTGTCGTCGT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 1 0.02
37 41 0.89
38 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (37 bp):
TCCAGATTGCACCCAAAATTATCGCCGCATGAGCACT
Found at i:18909723 original size:38 final size:37
Alignment explanation
Indices: 18909670--18909773 Score: 120
Period size: 38 Copynumber: 2.8 Consensus size: 37
18909660 ATTTTCGGGA
*
18909670 TGCACCCAAGACTATCGCTGCATAAATATTCTTCAAAT
1 TGCACCCAAAACTATCGCTGCATAAATATTCTTC-AAT
* * * *
18909708 TGCATCCAAAACTATCACTACATAAGTATTCTTCAAT
1 TGCACCCAAAACTATCGCTGCATAAATATTCTTCAAT
* *
18909745 TGCACCCAAGAA-TGTCGCTGCATGAATAT
1 TGCACCCAA-AACTATCGCTGCATAAATAT
18909774 GTCCAGAATT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
37 23 0.43
38 31 0.57
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.29
Consensus pattern (37 bp):
TGCACCCAAAACTATCGCTGCATAAATATTCTTCAAT
Found at i:18913071 original size:17 final size:17
Alignment explanation
Indices: 18913034--18913091 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
18913024 TAATTATCCC
* *
18913034 TGCATTTTTATTGACAC
1 TGCATTTTTATTGTCAT
*
18913051 TGCATTTTTATTGTCGT
1 TGCATTTTTATTGTCAT
* **
18913068 TGCATCTACATTGTCAT
1 TGCATTTTTATTGTCAT
18913085 TGCATTT
1 TGCATTT
18913092 CCATATATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (17 bp):
TGCATTTTTATTGTCAT
Found at i:18914281 original size:37 final size:36
Alignment explanation
Indices: 18914240--18914453 Score: 124
Period size: 37 Copynumber: 5.7 Consensus size: 36
18914230 CAAACATGTT
*
18914240 GCTGCATGAGTACTTCTAGATTGCACCCAAAACTATC
1 GCTGCATGAGTA-TTCTAAATTGCACCCAAAACTATC
* * * * *
18914277 GCTGCATGAGCACTTCCAAATTTCACCAAAAACTGTC
1 GCTGCATGAGTA-TTCTAAATTGCACCCAAAACTATC
* * * * ** * *
18914314 ACCGCAGGAATATTTTCGGAA-TGCACCCAATACTGTC
1 GCTGCATGAGTA--TTCTAAATTGCACCCAAAACTATC
* * *
18914351 GCTGCATAAATATTCTTCAAATTGCATCCAAAACTATC
1 GCTGCATGAGTATTC-T-AAATTGCACCCAAAACTATC
* * *
18914389 ACTGCATAAGTATTCTTTAAATTGCATCCAAAACTATC
1 GCTGCATGAGTATTC--TAAATTGCACCCAAAACTATC
** * *
18914427 ATTGCATAAGTATTCTTTAATTGCACC
1 GCTGCATGAGTATTC-TAAATTGCACC
18914454 TAGGAATGTC
Statistics
Matches: 141, Mismatches: 31, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
35 3 0.02
37 71 0.50
38 65 0.46
39 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.30
Consensus pattern (36 bp):
GCTGCATGAGTATTCTAAATTGCACCCAAAACTATC
Found at i:18914470 original size:37 final size:38
Alignment explanation
Indices: 18914353--18914451 Score: 164
Period size: 38 Copynumber: 2.6 Consensus size: 38
18914343 ATACTGTCGC
* * *
18914353 TGCATAAATATTCTTCAAATTGCATCCAAAACTATCAC
1 TGCATAAGTATTCTTTAAATTGCATCCAAAACTATCAT
18914391 TGCATAAGTATTCTTTAAATTGCATCCAAAACTATCAT
1 TGCATAAGTATTCTTTAAATTGCATCCAAAACTATCAT
18914429 TGCATAAGTATTCTTT-AATTGCA
1 TGCATAAGTATTCTTTAAATTGCA
18914452 CCTAGGAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
37 7 0.12
38 51 0.88
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (38 bp):
TGCATAAGTATTCTTTAAATTGCATCCAAAACTATCAT
Found at i:18930451 original size:21 final size:21
Alignment explanation
Indices: 18930427--18930471 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
18930417 AAATGATTCC
18930427 TTTTCTGTTCTAATATTTTAG
1 TTTTCTGTTCTAATATTTTAG
18930448 TTTTCTGTTCTAATATTTTAG
1 TTTTCTGTTCTAATATTTTAG
18930469 TTT
1 TTT
18930472 AGTGTGGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (21 bp):
TTTTCTGTTCTAATATTTTAG
Found at i:18935570 original size:25 final size:25
Alignment explanation
Indices: 18935539--18935589 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
18935529 ACTACTTTTG
18935539 TTGGTTGAATTCAAACCTTACTTCA
1 TTGGTTGAATTCAAACCTTACTTCA
18935564 TTGGTTGAATTCAAACCTTACTTCA
1 TTGGTTGAATTCAAACCTTACTTCA
18935589 T
1 T
18935590 GGGGAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (25 bp):
TTGGTTGAATTCAAACCTTACTTCA
Found at i:18937750 original size:18 final size:16
Alignment explanation
Indices: 18937713--18937752 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
18937703 GATAGGGGAA
*
18937713 GGAGAGGAATTAGAAT
1 GGAGAGGAATGAGAAT
18937729 GGAGATGGAATGAGAGAT
1 GGAGA-GGAATGAGA-AT
18937747 GGAGAG
1 GGAGAG
18937753 AGAGAGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.45, T:0.15
Consensus pattern (16 bp):
GGAGAGGAATGAGAAT
Found at i:18938405 original size:32 final size:34
Alignment explanation
Indices: 18938353--18938415 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
18938343 TTGTAATTAA
18938353 TTTAAAATTTTCAACAAATT-AATTT-TTTAGAT
1 TTTAAAATTTTCAACAAATTAAATTTATTTAGAT
* **
18938385 TTTAAAATTTTTAATTAATTAAATTTATTTA
1 TTTAAAATTTTCAACAAATTAAATTTATTTA
18938416 ATTGAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 17 0.65
33 5 0.19
34 4 0.15
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (34 bp):
TTTAAAATTTTCAACAAATTAAATTTATTTAGAT
Found at i:18938424 original size:32 final size:30
Alignment explanation
Indices: 18938349--18938426 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 30
18938339 TAAGTTGTAA
18938349 TTAATTTAAAATTTTCAACAAATTAATTTT
1 TTAATTTAAAATTTTCAACAAATTAATTTT
* **
18938379 TTAGATTTTAAAATTTTTAATTAATTAAATTTAT
1 TTA-A-TTTAAAATTTTCAACAAATT-AATTT-T
*
18938413 TTAATTGAAAATTT
1 TTAATTTAAAATTT
18938427 GTTCTCATCC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.08
31 1 0.03
32 26 0.65
33 6 0.15
34 4 0.10
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
TTAATTTAAAATTTTCAACAAATTAATTTT
Found at i:18938756 original size:21 final size:20
Alignment explanation
Indices: 18938732--18938779 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
18938722 AAGATATGAT
18938732 TATATTTTAAAAAATAAAATA
1 TATATTTT-AAAAATAAAATA
* *
18938753 TATATCTTAAAATTAAAATA
1 TATATTTTAAAAATAAAATA
18938773 T-TATTTT
1 TATATTTT
18938780 TATCATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.21
20 12 0.50
21 7 0.29
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATTTTAAAAATAAAATA
Found at i:18938870 original size:10 final size:10
Alignment explanation
Indices: 18938855--18938888 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
18938845 AATTTGAGTA
18938855 TAATTATTTG
1 TAATTATTTG
*
18938865 TAATTATGTG
1 TAATTATTTG
18938875 TAATTATTT-
1 TAATTATTTG
18938884 TAATT
1 TAATT
18938889 CTCACAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (10 bp):
TAATTATTTG
Found at i:18940217 original size:15 final size:15
Alignment explanation
Indices: 18940197--18940226 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18940187 ATTCTAATTT
18940197 TTTTAAATATTAAAA
1 TTTTAAATATTAAAA
*
18940212 TTTTAAATTTTAAAA
1 TTTTAAATATTAAAA
18940227 AAAATTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAAATATTAAAA
Found at i:18963111 original size:28 final size:28
Alignment explanation
Indices: 18963065--18963131 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
18963055 CGAAGGATAG
18963065 CTCGATTAGAGCTCCGGTATGCTTACGT
1 CTCGATTAGAGCTCCGGTATGCTTACGT
*
18963093 CTCAGA-TAGAGCTCTGGTATGCTTACGT
1 CTC-GATTAGAGCTCCGGTATGCTTACGT
18963121 CTCGATTAGAG
1 CTCGATTAGAG
18963132 TGTAATGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 2 0.06
28 32 0.89
29 2 0.06
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (28 bp):
CTCGATTAGAGCTCCGGTATGCTTACGT
Found at i:18963196 original size:56 final size:55
Alignment explanation
Indices: 18963134--18963265 Score: 140
Period size: 56 Copynumber: 2.4 Consensus size: 55
18963124 GATTAGAGTG
* * *
18963134 TAATGCTATGTATACCTCGGTTAGAGAT-TTAAATTGATTACATCTTGGTTAGAACA
1 TAATGCTATGTATAGCTCGG-TAGAGATATGAAA-TGATTACATCTCGGTTAGAACA
* * * * * *
18963190 TAATGCTATATATAGCTCGAGTATAGCTATGAAATGCTTACGTCTCGGTTAGAGCA
1 TAATGCTATGTATAGCTCG-GTAGAGATATGAAATGATTACATCTCGGTTAGAACA
*
18963246 TAATGCTATGCATAGCTCGG
1 TAATGCTATGTATAGCTCGG
18963266 GTAAAGCATT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
55 1 0.02
56 57 0.90
57 5 0.08
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (55 bp):
TAATGCTATGTATAGCTCGGTAGAGATATGAAATGATTACATCTCGGTTAGAACA
Found at i:18963414 original size:22 final size:22
Alignment explanation
Indices: 18963389--18963454 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
18963379 GATGTGGTAA
18963389 ACTATTCTTATCTTGTGAACTT
1 ACTATTCTTATCTTGTGAACTT
**
18963411 ACTAAGC---T-TTGT-AAGCTT
1 ACTATTCTTATCTTGTGAA-CTT
18963429 ACTATTCTTATCTTGTGAACTT
1 ACTATTCTTATCTTGTGAACTT
18963451 ACTA
1 ACTA
18963455 AGCTTTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
17 2 0.06
18 12 0.35
19 1 0.03
21 1 0.03
22 16 0.47
23 2 0.06
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (22 bp):
ACTATTCTTATCTTGTGAACTT
Found at i:18963422 original size:18 final size:18
Alignment explanation
Indices: 18963401--18963462 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
18963391 TATTCTTATC
18963401 TTGTGAACTTACTAAGCT
1 TTGTGAACTTACTAAGCT
**
18963419 TTGT-AAGCTTACTATTCTTAT
1 TTGTGAA-CTTACTAAGC---T
18963440 CTTGTGAACTTACTAAGCT
1 -TTGTGAACTTACTAAGCT
18963459 TTGT
1 TTGT
18963463 AAGCTTACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
17 2 0.06
18 16 0.47
19 1 0.03
21 1 0.03
22 12 0.35
23 2 0.06
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (18 bp):
TTGTGAACTTACTAAGCT
Found at i:18963433 original size:40 final size:40
Alignment explanation
Indices: 18963389--18963470 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
18963379 GATGTGGTAA
18963389 ACTATTCTTATCTTGTGAACTTACTAAGCTTTGTAAGCTT
1 ACTATTCTTATCTTGTGAACTTACTAAGCTTTGTAAGCTT
18963429 ACTATTCTTATCTTGTGAACTTACTAAGCTTTGTAAGCTT
1 ACTATTCTTATCTTGTGAACTTACTAAGCTTTGTAAGCTT
18963469 AC
1 AC
18963471 CTGTGGTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (40 bp):
ACTATTCTTATCTTGTGAACTTACTAAGCTTTGTAAGCTT
Found at i:18963469 original size:18 final size:18
Alignment explanation
Indices: 18963408--18963470 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
18963398 ATCTTGTGAA
18963408 CTTACTAAGCTTTGTAAG
1 CTTACTAAGCTTTGTAAG
**
18963426 CTTACTATTCTTATCTTGTGAA-
1 CTTACTAAGC---T-TTGT-AAG
18963448 CTTACTAAGCTTTGTAAG
1 CTTACTAAGCTTTGTAAG
18963466 CTTAC
1 CTTAC
18963471 CTGTGGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
17 2 0.06
18 17 0.49
19 1 0.03
21 1 0.03
22 12 0.34
23 2 0.06
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (18 bp):
CTTACTAAGCTTTGTAAG
Found at i:18970310 original size:56 final size:56
Alignment explanation
Indices: 18970220--18970421 Score: 237
Period size: 56 Copynumber: 3.6 Consensus size: 56
18970210 TCGTCAAAGG
* * *
18970220 ATAGCTCGGTTAGAGCTCTG-ATATGCTTACGTCTCGGTTAGAGTGTAATGCTATGT
1 ATAGCTCGGGTAGAGCTTTGAAT-TGCTTACGTCTCGGTTAGAGCGTAATGCTATGT
* * * *
18970276 ATACCTCGGTTAGAGCTTTGAATTGCTTACGTCTCGGTTAGAACGTAATGCTATAT
1 ATAGCTCGGGTAGAGCTTTGAATTGCTTACGTCTCGGTTAGAGCGTAATGCTATGT
* * * * *
18970332 ATAGCTCGGGTAGAGCTATGGAA-TGCATACATTTCGGTTAGAGCATAATGCTATGT
1 ATAGCTCGGGTAGAGCT-TTGAATTGCTTACGTCTCGGTTAGAGCGTAATGCTATGT
** *
18970388 ATAGCTCGGGTAGAGCTTTGTTTTACTTACGTCT
1 ATAGCTCGGGTAGAGCTTTGAATTGCTTACGTCT
18970422 TTATTAAAGC
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
55 2 0.02
56 114 0.93
57 6 0.05
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (56 bp):
ATAGCTCGGGTAGAGCTTTGAATTGCTTACGTCTCGGTTAGAGCGTAATGCTATGT
Found at i:18970311 original size:28 final size:28
Alignment explanation
Indices: 18970224--18970317 Score: 81
Period size: 28 Copynumber: 3.4 Consensus size: 28
18970214 CAAAGGATAG
18970224 CTCGGTTAGAGCTCTG-ATATGCTTACGT
1 CTCGGTTAGAGCTCTGAAT-TGCTTACGT
* *
18970252 CTCGGTTAGAG-TGT-AA-TGC-TATGTAT
1 CTCGGTTAGAGCTCTGAATTGCTTACG--T
*
18970278 ACCTCGGTTAGAGCTTTGAATTGCTTACGT
1 --CTCGGTTAGAGCTCTGAATTGCTTACGT
18970308 CTCGGTTAGA
1 CTCGGTTAGA
18970318 ACGTAATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
24 3 0.06
25 3 0.06
26 1 0.02
27 3 0.06
28 32 0.60
29 2 0.04
30 3 0.06
31 3 0.06
32 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (28 bp):
CTCGGTTAGAGCTCTGAATTGCTTACGT
Found at i:18970396 original size:28 final size:27
Alignment explanation
Indices: 18970252--18970403 Score: 71
Period size: 28 Copynumber: 5.4 Consensus size: 27
18970242 ATGCTTACGT
** *
18970252 CTCGGTTAGAGTGTAATGCTATGTATAC
1 CTCGGTTAGAGCATAATGCTAT-TATAG
* *
18970280 CTCGGTTAGAGCTTTGAATTGC--TTA-CG
1 CTCGGTTAGAGC-AT-AA-TGCTATTATAG
* *
18970307 TCTCGGTTAGAACGTAATGCTATATATAG
1 -CTCGGTTAGAGCATAATGCTAT-TATAG
* * *
18970336 CTCGGGTAGAGCTATGGAATGC-A-TACAT
1 CTCGGTTAGAGC-AT--AATGCTATTATAG
*
18970364 TTCGGTTAGAGCATAATGCTATGTATAG
1 CTCGGTTAGAGCATAATGCTAT-TATAG
*
18970392 CTCGGGTAGAGC
1 CTCGGTTAGAGC
18970404 TTTGTTTTAC
Statistics
Matches: 92, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
25 8 0.09
26 3 0.03
27 4 0.04
28 62 0.67
29 4 0.04
30 3 0.03
31 8 0.09
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (27 bp):
CTCGGTTAGAGCATAATGCTATTATAG
Found at i:18970417 original size:112 final size:112
Alignment explanation
Indices: 18970220--18970421 Score: 280
Period size: 112 Copynumber: 1.8 Consensus size: 112
18970210 TCGTCAAAGG
* * * * **
18970220 ATAGCTCGGTTAGAGCTCTGATATGCTTACGTCTCGGTTAGAGTGTAATGCTATGTATACCTCGG
1 ATAGCTCGGGTAGAGCTATGATATGCATACATCTCGGTTAGAGCATAATGCTATGTATACCTCGG
* *
18970285 TTAGAGCTTTGAATTGCTTACGTCTCGGTTAGAACGTAATGCTATAT
66 GTAGAGCTTTGAATTACTTACGTCTCGGTTAGAACGTAATGCTATAT
* *
18970332 ATAGCTCGGGTAGAGCTATGGA-ATGCATACATTTCGGTTAGAGCATAATGCTATGTATAGCTCG
1 ATAGCTCGGGTAGAGCTAT-GATATGCATACATCTCGGTTAGAGCATAATGCTATGTATACCTCG
**
18970396 GGTAGAGCTTTGTTTTACTTACGTCT
65 GGTAGAGCTTTGAATTACTTACGTCT
18970422 TTATTAAAGC
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
112 75 0.97
113 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (112 bp):
ATAGCTCGGGTAGAGCTATGATATGCATACATCTCGGTTAGAGCATAATGCTATGTATACCTCGG
GTAGAGCTTTGAATTACTTACGTCTCGGTTAGAACGTAATGCTATAT
Done.