Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 61 of 325
Found at i:18685358 original size:94 final size:93
Alignment explanation
Indices: 18685127--18685389 Score: 259
Period size: 94 Copynumber: 2.8 Consensus size: 93
18685117 AGGCTGACAC
* * * * * * * *
18685127 CATGTCCCAGAAATGGTCTTATATTAGCTCTCACATTTTTGTGCTGATGCCATGTCCCAGACAAG
1 CATGTCCCAGACATGGTCTTACATTGGCTCTCATA-ATGTG-GCCGATG-CATGTCCCAGAC-AT
*
18685192 GTCTTACGCT-G-ACACATCTCATAGCCGATG
62 GTCTTACACTAGCACACATCTCATAGCCGATG
* * * * *
18685222 CATGACCTAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGGTCTTACATTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAGACATGT
* * *
18685284 CTTACACTAGCTCTCGTCTCA-ATGCCGATG
64 CTTACACTAGCACACATCTCATA-GCCGATG
18685314 TCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTC
1 -CATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTC
18685379 TTACACTAGCA
65 TTACACTAGCA
18685390 TACAAATAAC
Statistics
Matches: 137, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
90 10 0.07
91 14 0.10
92 21 0.15
93 14 0.10
94 65 0.47
95 13 0.09
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCT
TACACTAGCACACATCTCATAGCCGATG
Found at i:18691446 original size:29 final size:29
Alignment explanation
Indices: 18691414--18691508 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 29
18691404 CTACAAGCAT
18691414 CAACCAAAGCATAATTCATGACCAAATAA
1 CAACCAAAGCATAATTCATGACCAAATAA
** * ** *
18691443 CAACCTAAAAGGGTCATCTC-T-A-CAAGCAT
1 CAACC--AAAGCATAAT-TCATGACCAAATAA
* *
18691472 CAATCAAAGCATAATTCATGACCAAATAG
1 CAACCAAAGCATAATTCATGACCAAATAA
18691501 CAACCAAA
1 CAACCAAA
18691509 ACCATACCCA
Statistics
Matches: 46, Mismatches: 14, Indels: 12
0.64 0.19 0.17
Matches are distributed among these distances:
26 2 0.04
27 8 0.17
28 1 0.02
29 24 0.52
30 1 0.02
31 8 0.17
32 2 0.04
ACGTcount: A:0.47, C:0.25, G:0.09, T:0.18
Consensus pattern (29 bp):
CAACCAAAGCATAATTCATGACCAAATAA
Found at i:18691461 original size:58 final size:57
Alignment explanation
Indices: 18691391--18691509 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 57
18691381 ATGCCACCCA
18691391 AAAAGGGTCATCTCTACAAGCATCAACCAAAGCATAATTCATGACCAAATAACAACC
1 AAAAGGGTCATCTCTACAAGCATCAACCAAAGCATAATTCATGACCAAATAACAACC
* *
18691448 TAAAAGGGTCATCTCTACAAGCATCAATCAAAGCATAATTCATGACCAAATAGCAACC
1 -AAAAGGGTCATCTCTACAAGCATCAACCAAAGCATAATTCATGACCAAATAACAACC
18691506 AAAA
1 AAAA
18691510 CCATACCCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 4 0.07
58 55 0.93
ACGTcount: A:0.46, C:0.24, G:0.11, T:0.18
Consensus pattern (57 bp):
AAAAGGGTCATCTCTACAAGCATCAACCAAAGCATAATTCATGACCAAATAACAACC
Found at i:18692381 original size:43 final size:43
Alignment explanation
Indices: 18692316--18692479 Score: 134
Period size: 43 Copynumber: 3.9 Consensus size: 43
18692306 AACTCGTACA
* * * **
18692316 ATGCC-ATATCCCAAATATGGTCTTACATGTTATCAAATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCG
* * * * *
18692358 ATGCCACTGTCCCAAACAGGGTCTTACACAAAATCATATA-CT
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCG
* * ** *
18692400 ATGCCAATGTCCCACACATGGTCTTACACGTAATCTCAGATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCG
* * * * *
18692443 ATGTCAATGTCCTAGACATGGTCTTACATGATATCAA
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCAA
18692480 TCTCGGAATC
Statistics
Matches: 93, Mismatches: 27, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
42 38 0.41
43 55 0.59
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCG
Found at i:18693555 original size:13 final size:13
Alignment explanation
Indices: 18693537--18693561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18693527 ACAAACGATA
18693537 AAATTTTCACACG
1 AAATTTTCACACG
18693550 AAATTTTCACAC
1 AAATTTTCACAC
18693562 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:18695793 original size:18 final size:18
Alignment explanation
Indices: 18695770--18695804 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18695760 TGTAAGGACT
18695770 AAATTGAAGGCAAAAAGA
1 AAATTGAAGGCAAAAAGA
**
18695788 AAATTGGGGGCAAAAAG
1 AAATTGAAGGCAAAAAG
18695805 CATGAATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.06, G:0.29, T:0.11
Consensus pattern (18 bp):
AAATTGAAGGCAAAAAGA
Found at i:18698324 original size:12 final size:12
Alignment explanation
Indices: 18698307--18698331 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18698297 GAAAATAGAC
18698307 TCACAAGGGAAG
1 TCACAAGGGAAG
18698319 TCACAAGGGAAG
1 TCACAAGGGAAG
18698331 T
1 T
18698332 TGCCGTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.32, T:0.12
Consensus pattern (12 bp):
TCACAAGGGAAG
Found at i:18706828 original size:12 final size:12
Alignment explanation
Indices: 18706811--18706836 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18706801 TCATGTGTTT
18706811 CTTGAATAGTTA
1 CTTGAATAGTTA
18706823 CTTGAATAGTTA
1 CTTGAATAGTTA
18706835 CT
1 CT
18706837 AGGGCTGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (12 bp):
CTTGAATAGTTA
Found at i:18712031 original size:13 final size:13
Alignment explanation
Indices: 18712013--18712038 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18712003 AATGTCCCTT
18712013 GATGATTAGAGGA
1 GATGATTAGAGGA
18712026 GATGATTAGAGGA
1 GATGATTAGAGGA
18712039 CACTGTTTTT
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:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (13 bp):
GATGATTAGAGGA
Found at i:18717390 original size:42 final size:42
Alignment explanation
Indices: 18717343--18717456 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
18717333 TATGTTATCA
* * *
18717343 TGTAAGACCATATCTGGGATATGACGTTGATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGACATCGAAATGAGATTTCG
*** * * *
18717385 TGTAAGACCGCGTCTAGGACATGGCATCGAAATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGACATCGAAATGAGATTTCG
* *
18717427 TATAAGACGATATCTGGGATATGACATCGA
1 TGTAAGACCATATCTGGGATATGACATCGA
18717457 CGTCAAATCC
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGAAATGAGATTTCG
Found at i:18721734 original size:20 final size:20
Alignment explanation
Indices: 18721681--18721735 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
18721671 CACTGTGATC
*
18721681 AGCAATCAAGGGCACAAAAG
1 AGCAATCAAGGGTACAAAAG
*
18721701 AGAAATCACA-GGTACAAAAG
1 AGCAATCA-AGGGTACAAAAG
* *
18721721 TGCAATCAGGGGTAC
1 AGCAATCAAGGGTAC
18721736 CGGAGTGTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AGCAATCAAGGGTACAAAAG
Found at i:18723872 original size:15 final size:15
Alignment explanation
Indices: 18723852--18723884 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
18723842 TTTGAAATCT
18723852 TTTATTT-TATTTTAC
1 TTTATTTATATTTT-C
18723867 TTTATTTATATTTTC
1 TTTATTTATATTTTC
18723882 TTT
1 TTT
18723885 CTTTCTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTATATTTTC
Found at i:18723976 original size:58 final size:58
Alignment explanation
Indices: 18723909--18724021 Score: 199
Period size: 58 Copynumber: 1.9 Consensus size: 58
18723899 CCAAAATCCC
* *
18723909 CAAAATTCTTATGTCATATTTCTTTTCCATTCTTTTCTTTGACATCTTTCTCTTTGTA
1 CAAAATTCTTATGTCAAATTTCTTTTCCATTCATTTCTTTGACATCTTTCTCTTTGTA
*
18723967 CAAAATTCTTATGTCAAATTTCTTTTCCATTCATTTCTTTGATATCTTTCTCTTT
1 CAAAATTCTTATGTCAAATTTCTTTTCCATTCATTTCTTTGACATCTTTCTCTTT
18724022 TCGGTAAACC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.55
Consensus pattern (58 bp):
CAAAATTCTTATGTCAAATTTCTTTTCCATTCATTTCTTTGACATCTTTCTCTTTGTA
Found at i:18727899 original size:40 final size:40
Alignment explanation
Indices: 18727853--18727996 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 40
18727843 TTAATCTCGT
* * * *
18727853 ACACTAAGTGCCATACATAGCTGAAGCTATTC-CAAATTGT
1 ACACTAAGTGCCATACATAGCCGAAGCTA-TCACGAATCGC
* *
18727893 ACACTAAGTGCGATACATAGCCGAAGCTATCACGAATCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCACGAATCGC
* * *
18727933 ACATTAAGTGCCATACATAGCCGAAACTATCTCGAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCACGAATCGC
*
18727973 ACATTAAGTGCCATACATAGCCGA
1 ACACTAAGTGCCATACATAGCCGA
18727997 TTTGTCATCA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.02
40 90 0.98
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCACGAATCGC
Found at i:18733519 original size:42 final size:42
Alignment explanation
Indices: 18733471--18733556 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
18733461 AATCTAACAA
*
18733471 GTAAGTTCGTAAACATTATTATTTAATATTTACCAATCAAAT
1 GTAAGTTCGTAAACATTATTATTTAAAATTTACCAATCAAAT
* * *
18733513 GTAAGTTCGTAAATATTATTATTTAAAATTTACGAGTCAAAT
1 GTAAGTTCGTAAACATTATTATTTAAAATTTACCAATCAAAT
18733555 GT
1 GT
18733557 GATTTTAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (42 bp):
GTAAGTTCGTAAACATTATTATTTAAAATTTACCAATCAAAT
Found at i:18744464 original size:31 final size:31
Alignment explanation
Indices: 18744426--18744492 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
18744416 GCCATGTGGG
*
18744426 CCACACAGGCATGTGAACCTACACGGGTAAA
1 CCACACAGGCATGTGAACCTACACGGGCAAA
** *
18744457 CCACACAGGCATGTGGGCCTACACGGGCAGA
1 CCACACAGGCATGTGAACCTACACGGGCAAA
18744488 CCACA
1 CCACA
18744493 TGGGTGTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.10
Consensus pattern (31 bp):
CCACACAGGCATGTGAACCTACACGGGCAAA
Found at i:18747691 original size:40 final size:40
Alignment explanation
Indices: 18747636--18747718 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
18747626 TTGGTTTTAC
18747636 TCTTTTGTTTTGAAATGCACTATTGATGTTGAGGTATTGT
1 TCTTTTGTTTTGAAATGCACTATTGATGTTGAGGTATTGT
18747676 TCTTTTGTTTTGAAATGCACTATTGATGTTGAGGTATTGT
1 TCTTTTGTTTTGAAATGCACTATTGATGTTGAGGTATTGT
18747716 TCT
1 TCT
18747719 ATCTATACGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.19, C:0.08, G:0.22, T:0.51
Consensus pattern (40 bp):
TCTTTTGTTTTGAAATGCACTATTGATGTTGAGGTATTGT
Found at i:18749065 original size:20 final size:20
Alignment explanation
Indices: 18749040--18749078 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
18749030 TATTCTCTAA
18749040 AAAGTTTCAATTATGTAATG
1 AAAGTTTCAATTATGTAATG
18749060 AAAGTTTCAATTATGTAAT
1 AAAGTTTCAATTATGTAAT
18749079 TATGTAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (20 bp):
AAAGTTTCAATTATGTAATG
Found at i:18751342 original size:46 final size:46
Alignment explanation
Indices: 18751275--18751450 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
18751265 TGTAACCCGC
* *
18751275 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * *
18751321 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCAT
* *
18751371 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
18751414 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
18751451 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 62 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:18751395 original size:93 final size:93
Alignment explanation
Indices: 18751282--18751453 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
18751272 CGCCCATAAG
* *
18751282 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18751347 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
*
18751375 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
18751440 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
18751454 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:18758965 original size:93 final size:93
Alignment explanation
Indices: 18758852--18759023 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18758842 CGCCCATAAG
* *
18758852 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18758917 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
18758945 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18759010 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18759024 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18759020 original size:46 final size:46
Alignment explanation
Indices: 18758845--18759020 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18758835 TGTAACCCGC
* * *
18758845 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
18758891 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
18758941 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
18758984 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
18759021 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18762646 original size:11 final size:11
Alignment explanation
Indices: 18762627--18762683 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
18762617 TAAGTTATGT
18762627 ATAATAATATA
1 ATAATAATATA
*
18762638 AT-ATGAATAAA
1 ATAAT-AATATA
*
18762649 ATAAGGAAATATA
1 ATAA--TAATATA
18762662 A-AATAATATA
1 ATAATAATATA
18762672 ATAATAATATA
1 ATAATAATATA
18762683 A
1 A
18762684 CAAGTATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
10 9 0.24
11 19 0.51
12 3 0.08
13 6 0.16
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (11 bp):
ATAATAATATA
Found at i:18762756 original size:14 final size:15
Alignment explanation
Indices: 18762727--18762866 Score: 67
Period size: 16 Copynumber: 9.1 Consensus size: 15
18762717 ATTAGTAAAA
18762727 AAGAATATATACATAAT
1 AAGAATATAT--ATAAT
18762744 AA-AATATATATAA-
1 AAGAATATATATAAT
18762757 AAGAATATATA-AGA-
1 AAGAATATATATA-AT
* *
18762771 AA-AATAAATATTAT
1 AAGAATATATATAAT
*
18762785 AAGGAATGTTATATAAT
1 AA-GAAT-ATATATAAT
*
18762802 AAGATATAGTATGTAAT
1 AAGA-ATA-TATATAAT
*
18762819 AA-AATATAAATAAT
1 AAGAATATATATAAT
* * *
18762833 TATAATGAAATATAAT
1 AAGAAT-ATATATAAT
* *
18762849 ATGGTATATATATAAT
1 A-AGAATATATATAAT
18762865 AA
1 AA
18762867 TAGTAATAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
13 11 0.12
14 24 0.26
15 6 0.06
16 29 0.31
17 23 0.25
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.33
Consensus pattern (15 bp):
AAGAATATATATAAT
Found at i:18762766 original size:16 final size:16
Alignment explanation
Indices: 18762725--18762767 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
18762715 TAATTAGTAA
18762725 AAAAGAATATATACAT
1 AAAAGAATATATACAT
18762741 AATAA-AATATAT--AT
1 AA-AAGAATATATACAT
18762755 AAAAGAATATATA
1 AAAAGAATATATA
18762768 AGAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.08
14 11 0.46
16 9 0.38
17 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (16 bp):
AAAAGAATATATACAT
Found at i:18765031 original size:206 final size:206
Alignment explanation
Indices: 18764670--18765217 Score: 823
Period size: 206 Copynumber: 2.7 Consensus size: 206
18764660 AAATCTGCTT
18764670 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
18764735 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAATGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
** * * * * *
18764800 GGATCTGCTTCGGTCTAATCATCTGAAGGT-TAGATCTGCTATTTGTCTACCCTCCGTCGAATAT
131 GGATCTGCTTCAATATAAACATCTGAA-GTCCAGATCTGCTATGTATCTACCCTCCGTCGAATAT
*
18764864 GGAGATGCCAAA
195 GGAGACGCCAAA
* * *
18764876 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATGTTA-AGCTTGCTTCAGCGTAAGCA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGA-TTTGCTTCAGCGTAAGCA
* * * *
18764940 CGTGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATC
65 CGTGAAAGCCAAATCAGCTATG-TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATC
*
18765004 TTGGATCTGCTTCAATATAAACATCTGAAGTCCAGATCTGCTATGTATCTACTCTCCGTCGAATA
129 TTGGATCTGCTTCAATATAAACATCTGAAGTCCAGATCTGCTATGTATCTACCCTCCGTCGAATA
18765069 TGGAGACGCCAAA
194 TGGAGACGCCAAA
* * * *
18765082 CTTCGATTTGTTATTTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
*
18765147 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
18765212 GGATCT
131 GGATCT
18765218 TGCATCAGCC
Statistics
Matches: 305, Mismatches: 32, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
205 4 0.01
206 299 0.98
207 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAATATAAACATCTGAAGTCCAGATCTGCTATGTATCTACCCTCCGTCGAATATG
GAGACGCCAAA
Found at i:18766114 original size:15 final size:16
Alignment explanation
Indices: 18766094--18766123 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18766084 CTCTCCATTT
18766094 TTCTCT-TTTTTTCTC
1 TTCTCTCTTTTTTCTC
18766109 TTCTCTCTTTTTTCT
1 TTCTCTCTTTTTTCT
18766124 TTTTTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTCTCTTTTTTCTC
Found at i:18777152 original size:14 final size:15
Alignment explanation
Indices: 18777123--18777262 Score: 67
Period size: 16 Copynumber: 9.1 Consensus size: 15
18777113 ATTAGTAAAA
18777123 AAGAATATATACATAAT
1 AAGAATATAT--ATAAT
18777140 AA-AATATATATAA-
1 AAGAATATATATAAT
18777153 AAGAATATATA-AGA-
1 AAGAATATATATA-AT
* *
18777167 AA-AATAAATATTAT
1 AAGAATATATATAAT
*
18777181 AAGGAATGTTATATAAT
1 AA-GAAT-ATATATAAT
*
18777198 AAGATATAGTATGTAAT
1 AAGA-ATA-TATATAAT
*
18777215 AA-AATATAAATAAT
1 AAGAATATATATAAT
* * *
18777229 TATAATGAAATATAAT
1 AAGAAT-ATATATAAT
* *
18777245 ATGGTATATATATAAT
1 A-AGAATATATATAAT
18777261 AA
1 AA
18777263 TAGTAATAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
13 11 0.12
14 24 0.26
15 6 0.06
16 29 0.31
17 23 0.25
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.33
Consensus pattern (15 bp):
AAGAATATATATAAT
Found at i:18777162 original size:16 final size:16
Alignment explanation
Indices: 18777121--18777163 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
18777111 TAATTAGTAA
18777121 AAAAGAATATATACAT
1 AAAAGAATATATACAT
18777137 AATAA-AATATAT--AT
1 AA-AAGAATATATACAT
18777151 AAAAGAATATATA
1 AAAAGAATATATA
18777164 AGAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.08
14 11 0.46
16 9 0.38
17 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (16 bp):
AAAAGAATATATACAT
Found at i:18782224 original size:42 final size:42
Alignment explanation
Indices: 18782116--18782226 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
18782106 TGAGATTCCG
* ** * **
18782116 TATAAGACCATATCTCGGATATGGCATCGGTGTGTGATTTTG
1 TATAAGACCATATCTGGGATATGGCATCAATATGTGATTTCA
* *
18782158 TATAAGACCATGT-TAGGGACATGGCATCAATATGAT-ATTTCA
1 TATAAGACCATATCT-GGGATATGGCATCAATATG-TGATTTCA
*
18782200 TGTAAGACCATATCTGGGATATGGCAT
1 TATAAGACCATATCTGGGATATGGCAT
18782227 TGATACGGTA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 52 0.95
43 2 0.04
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (42 bp):
TATAAGACCATATCTGGGATATGGCATCAATATGTGATTTCA
Found at i:18785792 original size:27 final size:28
Alignment explanation
Indices: 18785708--18785805 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
18785698 CATGAGATTG
* * * *
18785708 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
18785737 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
18785765 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
18785792 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
18785806 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:18785816 original size:27 final size:27
Alignment explanation
Indices: 18785736--18785818 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
18785726 TAAATTGTAC
* *
18785736 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
18785764 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
18785791 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
18785818 A
1 A
18785819 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:18785819 original size:29 final size:27
Alignment explanation
Indices: 18785708--18785819 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
18785698 CATGAGATTG
** * *
18785708 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
18785737 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
18785765 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
18785792 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
18785820 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:18793892 original size:27 final size:28
Alignment explanation
Indices: 18793808--18793905 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
18793798 CATGAGATTG
* * * *
18793808 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
18793837 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
18793865 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
18793892 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
18793906 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:18793916 original size:27 final size:27
Alignment explanation
Indices: 18793836--18793918 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
18793826 TAAATTGTAC
* *
18793836 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
18793864 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
18793891 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
18793918 A
1 A
18793919 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:18793919 original size:29 final size:27
Alignment explanation
Indices: 18793808--18793919 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
18793798 CATGAGATTG
** * *
18793808 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
18793837 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
18793865 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
18793892 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
18793920 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:18799761 original size:47 final size:47
Alignment explanation
Indices: 18799710--18799842 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 47
18799700 GAATTATGAG
*
18799710 GCATCCGAACTCGTTGAGTTGCGTTTCGAGTTCACCTATGGATGC-AA
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCA-CTATGGATGCGAA
* * * *
18799757 GCATCTGAACTCGTTGAGTTGTGTTCCGTGTTCATTATGGATGCGAA
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGGATGCGAA
* * * * *
18799804 -CACCCGAGCTCGTTGAGCTGCGTTGCGAGTTCATTATGG
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGG
18799843 GTGAGATTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
46 41 0.56
47 32 0.44
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.32
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGGATGCGAA
Found at i:18805028 original size:23 final size:23
Alignment explanation
Indices: 18805002--18805079 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 23
18804992 AGTGAATAGG
*
18805002 AAATATTCTCTAGCATGAACAGT
1 AAATATTCTCTAGCAAGAACAGT
*
18805025 AAATATTCCCT-GACAAGAACAGT
1 AAATATTCTCTAG-CAAGAACAGT
* *
18805048 AGAA-A-TCTCTAGCAAAAACA-A
1 A-AATATTCTCTAGCAAGAACAGT
18805069 AAATATTCTCT
1 AAATATTCTCT
18805080 GGCGCATGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
20 2 0.04
21 2 0.04
22 17 0.38
23 22 0.49
24 2 0.04
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (23 bp):
AAATATTCTCTAGCAAGAACAGT
Found at i:18805169 original size:20 final size:20
Alignment explanation
Indices: 18805144--18805184 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
18805134 TATTCTCTAA
18805144 AAAGTTTCAATTATGTAATG
1 AAAGTTTCAATTATGTAATG
*
18805164 AAAGTTTCAATTATTTAATG
1 AAAGTTTCAATTATGTAATG
18805184 A
1 A
18805185 GGTAAGGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (20 bp):
AAAGTTTCAATTATGTAATG
Found at i:18807306 original size:22 final size:23
Alignment explanation
Indices: 18807281--18807328 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
18807271 GAGGGGAAAT
*
18807281 GCAATTTATC-GCATTTTTACTA
1 GCAACTTATCTGCATTTTTACTA
* *
18807303 GCAACTTGTCTGTATTTTTACTA
1 GCAACTTATCTGCATTTTTACTA
18807326 GCA
1 GCA
18807329 GAATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (23 bp):
GCAACTTATCTGCATTTTTACTA
Found at i:18807338 original size:24 final size:23
Alignment explanation
Indices: 18807293--18807338 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18807283 AATTTATCGC
*
18807293 ATTTTTACTAGCAACTTGTCTGT
1 ATTTTTACTAGCAAATTGTCTGT
*
18807316 ATTTTTACTAGCAGAATTTTCTG
1 ATTTTTACTAGCA-AATTGTCTG
18807339 CATATTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (23 bp):
ATTTTTACTAGCAAATTGTCTGT
Found at i:18808487 original size:15 final size:15
Alignment explanation
Indices: 18808469--18808506 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
18808459 AAATCGTTTC
18808469 TTCAAATTTTAAGTT
1 TTCAAATTTTAAGTT
*
18808484 TTCAAAATTTAAGTT
1 TTCAAATTTTAAGTT
*
18808499 TTTAAATT
1 TTCAAATT
18808507 ATTTTCCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (15 bp):
TTCAAATTTTAAGTT
Found at i:18808501 original size:16 final size:16
Alignment explanation
Indices: 18808464--18808501 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
18808454 ATCAAAAATC
*
18808464 GTTTCTTCAAATTTTAA
1 GTTT-TTCAAAATTTAA
18808481 G-TTTTCAAAATTTAA
1 GTTTTTCAAAATTTAA
18808496 GTTTTT
1 GTTTTT
18808502 AAATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 12 0.63
16 6 0.32
17 1 0.05
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (16 bp):
GTTTTTCAAAATTTAA
Found at i:18809816 original size:22 final size:22
Alignment explanation
Indices: 18809791--18809837 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
18809781 CATTTTATTG
18809791 TTTTATCTATTT-TGTTTTT-TAT
1 TTTTATCT-TTTCT-TTTTTGTAT
*
18809813 TTTTTTCTTTTCTTTTTTGTAT
1 TTTTATCTTTTCTTTTTTGTAT
18809835 TTT
1 TTT
18809838 CTATATTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.09, C:0.06, G:0.04, T:0.81
Consensus pattern (22 bp):
TTTTATCTTTTCTTTTTTGTAT
Found at i:18811798 original size:34 final size:34
Alignment explanation
Indices: 18811755--18811828 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
18811745 ATTATATGAA
*
18811755 TTAAAACATGAAACTATATGAATATCCTTGTAAG
1 TTAAGACATGAAACTATATGAATATCCTTGTAAG
18811789 TTAAGACATGAAACTATATGAATATCCTTGTAAG
1 TTAAGACATGAAACTATATGAATATCCTTGTAAG
18811823 TTAAGA
1 TTAAGA
18811829 TGAGTAATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (34 bp):
TTAAGACATGAAACTATATGAATATCCTTGTAAG
Found at i:18812302 original size:15 final size:16
Alignment explanation
Indices: 18812270--18812304 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
18812260 TTAAGTTAAA
*
18812270 GAAAGTAGATGCAATG
1 GAAAGTAGATGAAATG
18812286 GAAAGTA-ATGAAATG
1 GAAAGTAGATGAAATG
18812301 GAAA
1 GAAA
18812305 TGAAATAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.51, C:0.03, G:0.29, T:0.17
Consensus pattern (16 bp):
GAAAGTAGATGAAATG
Found at i:18815230 original size:42 final size:42
Alignment explanation
Indices: 18815169--18815330 Score: 173
Period size: 42 Copynumber: 3.8 Consensus size: 42
18815159 TCAAAAGCTT
* * *
18815169 AATAGAAGCTCATGAGAGCTAAACAAAAACCCATAAGGGTTG
1 AATAGAAGCTCATAAGAGCTAAACAAAAACTCATAAGAGTTG
* * * * *
18815211 AGTAGAAGCTCGTAAGAGCTGAAAAAAAAACTCATATGAGTTA
1 AATAGAAGCTCATAAGAGCT-AAACAAAAACTCATAAGAGTTG
* * *
18815254 AACAGAAGCTCATAAGAGCTTAACAGAAACTCATAAGAGTTG
1 AATAGAAGCTCATAAGAGCTAAACAAAAACTCATAAGAGTTG
* * *
18815296 AATAGAAGCTTGA-AAGAGCTGAACGAAAACTCATA
1 AATAGAAGC-TCATAAGAGCTAAACAAAAACTCATA
18815331 TGCATTAAAC
Statistics
Matches: 97, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 61 0.63
43 36 0.37
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (42 bp):
AATAGAAGCTCATAAGAGCTAAACAAAAACTCATAAGAGTTG
Found at i:18815267 original size:21 final size:20
Alignment explanation
Indices: 18815241--18815305 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
18815231 GAAAAAAAAA
*
18815241 CTCATATGAGTTAAACAGAAG
1 CTCATAAGAGTT-AACAGAAG
*
18815262 CTCATAAGAGCTTAACAGAAA
1 CTCATAAGAG-TTAACAGAAG
*
18815283 CTCATAAGAGTTGAATAGAAG
1 CTCATAAGAGTT-AACAGAAG
18815304 CT
1 CT
18815306 TGAAAGAGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.05
21 34 0.89
22 2 0.05
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (20 bp):
CTCATAAGAGTTAACAGAAG
Found at i:18815315 original size:85 final size:84
Alignment explanation
Indices: 18815172--18815360 Score: 245
Period size: 85 Copynumber: 2.2 Consensus size: 84
18815162 AAAGCTTAAT
* * * *
18815172 AGAAGCTCATGAGAGCTAAACAAAAACCCATAAGGGTTGAGTAGAAGCTCGTAAGAGCTGAAAAA
1 AGAAGCTCATAAGAGCTAAACAAAAACCCATAAGAGTTGAATAGAAGCTCGAAAGAGCTG-AAAA
18815237 AAAACTCATATG-AGTTAAAC
65 AAAACTCATATGCA-TTAAAC
* * * * **
18815257 AGAAGCTCATAAGAGCTTAACAGAAACTCATAAGAGTTGAATAGAAGCTTGAAAGAGCTGAACGA
1 AGAAGCTCATAAGAGCTAAACAAAAACCCATAAGAGTTGAATAGAAGCTCGAAAGAGCTGAAAAA
18815322 AAACTCATATGCATTAAAC
66 AAACTCATATGCATTAAAC
**
18815341 AGAAGCTTGTAAGAGCTAAA
1 AGAAGCTCATAAGAGCTAAA
18815361 TGGAAAGTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
84 37 0.41
85 53 0.59
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.19
Consensus pattern (84 bp):
AGAAGCTCATAAGAGCTAAACAAAAACCCATAAGAGTTGAATAGAAGCTCGAAAGAGCTGAAAAA
AAACTCATATGCATTAAAC
Found at i:18815345 original size:42 final size:41
Alignment explanation
Indices: 18815214--18815357 Score: 139
Period size: 42 Copynumber: 3.4 Consensus size: 41
18815204 AGGGTTGAGT
* * *
18815214 AGAAGCTCGTAAGAGCTGAAAAAAAAACTCATATGAGTTAAAC
1 AGAAGCTTGAAAGAGCTG--AACAAAACTCATATGAGTTAAAC
* * * * *
18815257 AGAAGC-TCATAAGAGCTTAACAGAAACTCATAAGAGTTGAAT
1 AGAAGCTTGA-AAGAGCTGAACA-AAACTCATATGAGTTAAAC
18815299 AGAAGCTTGAAAGAGCTGAACGAAAACTCATATGCA-TTAAAC
1 AGAAGCTTGAAAGAGCTGAAC-AAAACTCATATG-AGTTAAAC
*
18815341 AGAAGCTTGTAAGAGCT
1 AGAAGCTTGAAAGAGCT
18815358 AAATGGAAAG
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
41 3 0.04
42 62 0.76
43 17 0.21
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (41 bp):
AGAAGCTTGAAAGAGCTGAACAAAACTCATATGAGTTAAAC
Found at i:18822492 original size:13 final size:13
Alignment explanation
Indices: 18822474--18822498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18822464 CTTAGACCCT
18822474 TGATTATGTGATC
1 TGATTATGTGATC
18822487 TGATTATGTGAT
1 TGATTATGTGAT
18822499 GTATGTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (13 bp):
TGATTATGTGATC
Found at i:18826238 original size:27 final size:26
Alignment explanation
Indices: 18826208--18826279 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 26
18826198 TATAATTAAA
18826208 AGAAACAAATATTTATGGTGAAAGAAG
1 AGAAA-AAATATTTATGGTGAAAGAAG
*
18826235 AGAAAAAATTATTTATATGGTGAAAGGAG
1 AGAAAAAA-TA-TT-TATGGTGAAAGAAG
*
18826264 AGAGAAAATTATTTAT
1 AGA-AAAAATATTTAT
18826280 TCATCTTCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 3 0.08
27 10 0.26
28 4 0.10
29 18 0.46
30 4 0.10
ACGTcount: A:0.50, C:0.01, G:0.21, T:0.28
Consensus pattern (26 bp):
AGAAAAAATATTTATGGTGAAAGAAG
Found at i:18826265 original size:29 final size:29
Alignment explanation
Indices: 18826221--18826279 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
18826211 AACAAATATT
18826221 TATGGTGAAAGAAGAGAAAAAATTATTTA
1 TATGGTGAAAGAAGAGAAAAAATTATTTA
* *
18826250 TATGGTGAAAGGAGAGAGAAAATTATTTA
1 TATGGTGAAAGAAGAGAAAAAATTATTTA
18826279 T
1 T
18826280 TCATCTTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (29 bp):
TATGGTGAAAGAAGAGAAAAAATTATTTA
Found at i:18826714 original size:14 final size:14
Alignment explanation
Indices: 18826695--18826723 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18826685 GAAAGTTACA
18826695 ATATCTTTGATTTT
1 ATATCTTTGATTTT
18826709 ATATCTTTGATTTT
1 ATATCTTTGATTTT
18826723 A
1 A
18826724 GGGACTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (14 bp):
ATATCTTTGATTTT
Found at i:18829196 original size:92 final size:92
Alignment explanation
Indices: 18829039--18829208 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 92
18829029 GGATGGTTGA
* *
18829039 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTATGGATGCGAACGCCCGAACTCGTTGAGTT
18829104 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
18829131 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG-AGTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACGCCCGAACTCGTTGAGT
18829195 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
18829209 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 57 0.77
93 17 0.23
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18829213 original size:45 final size:46
Alignment explanation
Indices: 18829043--18829215 Score: 196
Period size: 45 Copynumber: 3.8 Consensus size: 46
18829033 GGTTGAGCAT
* * *
18829043 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ATTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGC
* *
18829088 CCGAACTCGTTGAGTTGAGTCCGAGTTCG-TGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAAC---GC
*
18829133 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGC
*
18829181 CCG-AGTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
18829216 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 61 0.56
46 3 0.03
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGC
Found at i:18836630 original size:46 final size:45
Alignment explanation
Indices: 18836574--18836747 Score: 194
Period size: 44 Copynumber: 3.8 Consensus size: 45
18836564 TGGTTGAGCA
*
18836574 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
18836620 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
18836665 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
* * *
18836711 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18836748 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 34 0.31
45 3 0.03
46 30 0.27
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:18836689 original size:47 final size:47
Alignment explanation
Indices: 18836571--18836739 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 47
18836561 GGATGGTTGA
* *
18836571 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTGA-GGATGCGAAT
*
18836619 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTGAGGATGCGAA-T
* * *
18836662 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT--GAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTGA-GGATGCGAAT
*
18836710 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
18836740 GCTTATGGGC
Statistics
Matches: 105, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 27 0.26
45 3 0.03
46 31 0.30
47 29 0.28
48 3 0.03
49 2 0.02
50 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTGAGGATGCGAAT
Found at i:18843635 original size:24 final size:25
Alignment explanation
Indices: 18843597--18843643 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
18843587 TTTAATCTAG
*
18843597 TTAAAAATACTTTTAATATTTATCT
1 TTAAAAAAACTTTTAATATTTATCT
18843622 TTAAAAAAAC-TTTAATATTTAT
1 TTAAAAAAACTTTTAATATTTAT
18843644 TAAATAATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAAAAAAACTTTTAATATTTATCT
Found at i:18847692 original size:3 final size:3
Alignment explanation
Indices: 18847684--18847719 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
18847674 CTACAATTGG
* *
18847684 TTA TTA TTA TTA TTA TTA TTA TTG TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18847720 CATAAGAGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18851496 original size:7 final size:7
Alignment explanation
Indices: 18851469--18851516 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
18851459 TAATTGAATT
18851469 TATTTTA
1 TATTTTA
*
18851476 TA-TCTA
1 TATTTTA
18851482 TAATTTTA
1 T-ATTTTA
18851490 TATTTTA
1 TATTTTA
18851497 TATTTTA
1 TATTTTA
18851504 TATTTTA
1 TATTTTA
18851511 TATTTT
1 TATTTT
18851517 TTTGCATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 4 0.11
7 29 0.78
8 4 0.11
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (7 bp):
TATTTTA
Found at i:18859692 original size:24 final size:25
Alignment explanation
Indices: 18859665--18859713 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
18859655 TGAAGTGAAA
18859665 GGTAAATGATATTA-TGAATAATTT
1 GGTAAATGATATTAGTGAATAATTT
* *
18859689 GGTAGATGATTTTATGTGAATAATT
1 GGTAAATGATATTA-GTGAATAATT
18859714 GCAAGTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
26 9 0.43
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (25 bp):
GGTAAATGATATTAGTGAATAATTT
Found at i:18861936 original size:34 final size:34
Alignment explanation
Indices: 18861893--18861957 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
18861883 GAGTTAGGCT
*
18861893 GATCGGTGCTTAGGAGCCCCTAGGTGACCACGCG
1 GATCGGTGCTGAGGAGCCCCTAGGTGACCACGCG
* *
18861927 GATCGGTGCTGCGGAGCCCCTCGGTGACCAC
1 GATCGGTGCTGAGGAGCCCCTAGGTGACCAC
18861958 ATGTTCGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.17
Consensus pattern (34 bp):
GATCGGTGCTGAGGAGCCCCTAGGTGACCACGCG
Found at i:18867200 original size:46 final size:46
Alignment explanation
Indices: 18867146--18867319 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
18867136 GTTGAGCATT
18867146 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * * * *
18867192 CGAACTCGTTGTGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* * * *
18867239 CGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * *
18867285 CGAGCTCCTTGAGTTGAGTCCGATTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18867320 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.57
47 26 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:18874314 original size:46 final size:46
Alignment explanation
Indices: 18874264--18874439 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
18874254 TGGTTGAGCA
*
18874264 TCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
18874310 TCCGAACTCGTTCAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
18874355 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18874403 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18874440 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18874420 original size:93 final size:93
Alignment explanation
Indices: 18874261--18874431 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
18874251 GGATGGTTGA
*
18874261 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTCAGT
1 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTCAGT
18874326 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
18874354 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTCAGT
*
18874419 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
18874432 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTCAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:18877318 original size:12 final size:12
Alignment explanation
Indices: 18877298--18877330 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
18877288 AACACCACAC
*
18877298 GGCCATGTGGTA
1 GGCCGTGTGGTA
18877310 GGCCGTGTGGTA
1 GGCCGTGTGGTA
18877322 GGCCGTGTG
1 GGCCGTGTG
18877331 ATCGACGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.48, T:0.24
Consensus pattern (12 bp):
GGCCGTGTGGTA
Found at i:18882067 original size:14 final size:15
Alignment explanation
Indices: 18882048--18882082 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
18882038 ATTTATTGAC
18882048 ATATTTCT-ATAAAA
1 ATATTTCTAATAAAA
*
18882062 ATATTTTTAATAAAA
1 ATATTTCTAATAAAA
18882077 ATATTT
1 ATATTT
18882083 TCATTCACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTTCTAATAAAA
Found at i:18882532 original size:18 final size:18
Alignment explanation
Indices: 18882481--18882532 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
18882471 AAAATATAAA
*
18882481 AATAATAAATAATAACTTTT
1 AATAA-AAAT-ATAAATTTT
*
18882501 -ATAAAATTATTAAATTTT
1 AATAAAAATA-TAAATTTT
18882519 AATAAAAATATAAA
1 AATAAAAATATAAA
18882533 AAATTTGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 1 0.04
18 14 0.52
19 12 0.44
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAAATATAAATTTT
Found at i:18882824 original size:29 final size:28
Alignment explanation
Indices: 18882790--18882912 Score: 92
Period size: 28 Copynumber: 4.4 Consensus size: 28
18882780 TATATTTTGA
*
18882790 ATAATTTTCTTATGATTTTATTAAATATT
1 ATAATTTTTTTATGATTTTA-TAAATATT
* *
18882819 ATAATTTTTTTAT-ATTTCTATATATTTT
1 ATAATTTTTTTATGATTT-TATAAATATT
* *
18882847 ATAATTTTTTTACGATTTTTGTAAA-ATT
1 ATAATTTTTTTATGA-TTTTATAAATATT
* * * * *
18882875 TTATATTTCTATAT-ATTTTATAATTTTT
1 ATA-ATTTTTTTATGATTTTATAAATATT
18882903 AT-ATTTTTTT
1 ATAATTTTTTT
18882913 CTAATTTTTA
Statistics
Matches: 72, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
26 6 0.08
27 7 0.10
28 30 0.42
29 26 0.36
30 3 0.04
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (28 bp):
ATAATTTTTTTATGATTTTATAAATATT
Found at i:18882890 original size:57 final size:56
Alignment explanation
Indices: 18882770--18882912 Score: 141
Period size: 57 Copynumber: 2.5 Consensus size: 56
18882760 TTACGAAATT
* * * * *
18882770 TATATTTATTTATATTTTGAATAATTTTCTTATGATTTTATTAAATATTATAATTTTTT
1 TATATTT-TATATATTTT--ATAATTTTTTTACGATTTTATTAAATATTATAATTTCTA
*
18882829 TATATTTCTATATATTTTATAATTTTTTTACGATTTT-TGTAAA-ATTTTATATTTCTA
1 TATATTT-TATATATTTTATAATTTTTTTACGATTTTAT-TAAATATTATA-ATTTCTA
18882886 TATATTTTATA-ATTTT-TATATTTTTTT
1 TATATTTTATATATTTTATA-ATTTTTTT
18882913 CTAATTTTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
54 2 0.03
55 13 0.18
56 10 0.14
57 33 0.45
59 16 0.22
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (56 bp):
TATATTTTATATATTTTATAATTTTTTTACGATTTTATTAAATATTATAATTTCTA
Found at i:18883949 original size:16 final size:16
Alignment explanation
Indices: 18883930--18883963 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18883920 GCATGATTTA
* *
18883930 TTTATTTATTATTATT
1 TTTATATATAATTATT
18883946 TTTATATATAATTATT
1 TTTATATATAATTATT
18883962 TT
1 TT
18883964 ATTAAATTAC
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATATATAATTATT
Found at i:18884683 original size:17 final size:18
Alignment explanation
Indices: 18884650--18884688 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
18884640 CTTTCTTTGA
18884650 TTTTCTTTTTCTCCATTT
1 TTTTCTTTTTCTCCATTT
18884668 TTTTCTTTGTT-T-CATTT
1 TTTTCTTT-TTCTCCATTT
18884685 TTTT
1 TTTT
18884689 TATAGTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 9 0.45
19 2 0.10
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTTCTCCATTT
Found at i:18892335 original size:26 final size:26
Alignment explanation
Indices: 18892295--18892403 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
18892285 ATGAAATTCC
*
18892295 TATCATGGAACATTTACCTAACCCAT
1 TATCATGAAACATTTACCTAACCCAT
* * *
18892321 TATAATGGAACATTTACCTAACCTAT
1 TATCATGAAACATTTACCTAACCCAT
18892347 TATCATGAAACATTTACCTAACCCAT
1 TATCATGAAACATTTACCTAACCCAT
18892373 TATCATGAAACATTTACCTAACCCAT
1 TATCATGAAACATTTACCTAACCCAT
18892399 TATCA
1 TATCA
18892404 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TATCATGAAACATTTACCTAACCCAT
Found at i:18893222 original size:269 final size:269
Alignment explanation
Indices: 18892730--18893223 Score: 828
Period size: 269 Copynumber: 1.8 Consensus size: 269
18892720 CGTTACATAA
* * *
18892730 AGTTTTACATTTTATTCAATTTAGTCTCTGAATTCGAAATAGCAATAACTTCCAATTCCTAACCT
1 AGTTTTACATTTTATTCAATTTAGTCCCTAAATTCAAAATAGCAATAACTTCCAATTCCTAACCT
* * *
18892795 CAATTTAAAATTTGACTTCAAATACATTCATTAGGGACCCTCTACTTTCTATTTATACTGAAATT
66 CAATTTAAAATCTGACTTCAAATACATTCATTAGGGACACTCTACTTTCTATTTATACTAAAATT
* * * * *
18892860 TCATAACAGTTTCACATTTTATTCACTTTAGTCCATATGTGCAAAACTAACAATTAAATGTTACA
131 TCACAACAATTTCACATTTTATTCACTTTAATCCATATGTACAAAACTAACAATTAAATGTCACA
*
18892925 ATTTAGTCTTTTTCATAATCTAAGCTTAAATATTTTTCAAGAAATCAACAAAGGAAACTTTCTAA
196 ATCTAGTCTTTTTCATAATCTAAGCTTAAATATTTTTCAAGAAATCAACAAAGGAAACTTTCTAA
18892990 AGCTTTATC
261 AGCTTTATC
* *
18892999 AGTTTTATATTTTATTCAATTTAGTCCCTAAATTCAAAATAGCCATAACTTCCAATTCCTAACCT
1 AGTTTTACATTTTATTCAATTTAGTCCCTAAATTCAAAATAGCAATAACTTCCAATTCCTAACCT
*
18893064 CGATTTAAAATCTGACTTCAAATACATTCATTAGGGACACTCTACTTTCTATTTATACTAAAATT
66 CAATTTAAAATCTGACTTCAAATACATTCATTAGGGACACTCTACTTTCTATTTATACTAAAATT
18893129 TCACAACAATTTCACATTTTATTCACTTTAATCCATATGTACAAAACTAACAATTAAATGTCACA
131 TCACAACAATTTCACATTTTATTCACTTTAATCCATATGTACAAAACTAACAATTAAATGTCACA
*
18893194 ATCTAGTCTTTTTTTATAATCT-AGCTTAAA
196 ATCTAGTC-TTTTTCATAATCTAAGCTTAAA
18893224 ATATATCAAT
Statistics
Matches: 208, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
269 196 0.94
270 12 0.06
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.39
Consensus pattern (269 bp):
AGTTTTACATTTTATTCAATTTAGTCCCTAAATTCAAAATAGCAATAACTTCCAATTCCTAACCT
CAATTTAAAATCTGACTTCAAATACATTCATTAGGGACACTCTACTTTCTATTTATACTAAAATT
TCACAACAATTTCACATTTTATTCACTTTAATCCATATGTACAAAACTAACAATTAAATGTCACA
ATCTAGTCTTTTTCATAATCTAAGCTTAAATATTTTTCAAGAAATCAACAAAGGAAACTTTCTAA
AGCTTTATC
Found at i:18893551 original size:19 final size:20
Alignment explanation
Indices: 18893522--18893566 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
18893512 CACATAATTA
*
18893522 AATTAATTTAAT-CATACTTT
1 AATTAACTTAATCCAT-CTTT
18893542 -ATTAACTTAATCCATCTTT
1 AATTAACTTAATCCATCTTT
18893561 AATTAA
1 AATTAA
18893567 TAAAAGTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTAACTTAATCCATCTTT
Found at i:18896142 original size:41 final size:42
Alignment explanation
Indices: 18896084--18896244 Score: 186
Period size: 41 Copynumber: 3.8 Consensus size: 42
18896074 AGGGTTACTA
* * * * *
18896084 AGACTACGTGTAAGACCATATCTGGGATATGACATCAATATG
1 AGACTACATGTAAGACCATAGCTAGGATATGGCATCGATATG
18896126 AGACTAC-TGTAAGACCATAGCTAGGATATGGCATCGATATG
1 AGACTACATGTAAGACCATAGCTAGGATATGGCATCGATATG
* *
18896167 AGACCT-CATGTAAGACCATAGCT-GAGCTATTGGCAACGATATG
1 AGA-CTACATGTAAGACCATAGCTAG-GATA-TGGCATCGATATG
*
18896210 AG-CTCACATGTAAGACCATATCTAGGATATGGCAT
1 AGACT-ACATGTAAGACCATAGCTAGGATATGGCAT
18896245 TGGTACGGTA
Statistics
Matches: 103, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
41 37 0.36
42 32 0.31
43 33 0.32
44 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (42 bp):
AGACTACATGTAAGACCATAGCTAGGATATGGCATCGATATG
Found at i:18903529 original size:19 final size:19
Alignment explanation
Indices: 18903505--18903542 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18903495 TTGTGATTTC
*
18903505 CCCTTGAACGTATTCGACA
1 CCCTTGAACGTAGTCGACA
18903524 CCCTTGAACGTAGTCGACA
1 CCCTTGAACGTAGTCGACA
18903543 AAGTTTCGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (19 bp):
CCCTTGAACGTAGTCGACA
Found at i:18903708 original size:42 final size:42
Alignment explanation
Indices: 18903620--18903820 Score: 194
Period size: 42 Copynumber: 4.8 Consensus size: 42
18903610 AGGGTTACTA
* * **
18903620 AGACTACGTGTAAGACCATATCTGAGATATGACATCAATAAA
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
*
18903662 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
* * * * * * **
18903704 AGACTTCGTGGACGACTATAGCTGGGCTATTGGCATTGATATG
1 AGACTACGTGTAAGACCATATCTGGGATA-TGGCATCAATATG
* * * *
18903747 AGA-TCACATATAAGACCATATTTGGGATATGACATCAATATG
1 AGACT-ACGTGTAAGACCATATCTGGGATATGGCATCAATATG
*
18903789 AGACTACGTGTACGA-C--ATCTGGGATATGGCAT
1 AGACTACGTGTAAGACCATATCTGGGATATGGCAT
18903821 TGGTACGGTA
Statistics
Matches: 127, Mismatches: 29, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
39 14 0.11
41 1 0.01
42 81 0.64
43 31 0.24
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
Found at i:18904648 original size:11 final size:11
Alignment explanation
Indices: 18904632--18904657 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18904622 AAATCTGATG
18904632 TTTTAAAATTA
1 TTTTAAAATTA
18904643 TTTTAAAATTA
1 TTTTAAAATTA
18904654 TTTT
1 TTTT
18904658 TGTTGTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:18905367 original size:43 final size:43
Alignment explanation
Indices: 18905319--18905487 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 43
18905309 ATTAAGATGT
*
18905319 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTACTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTACTGA
* * * *
18905362 GATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TACTGA
* * * * * *
18905405 TATTTCATGTAAGACCCTGTCTGGGATAGTGGCATCG-ACATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAC-TGA
* * * *
18905448 GA-TAGCATGTAAGATCATATCTGGGATA-TGGCATTGTACT
1 GATTA-CATGTAAGACCATGTCTGGGACATTGGCATCGTACT
18905488 AGCTTATGTG
Statistics
Matches: 101, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 10 0.10
43 87 0.86
44 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTACTGA
Found at i:18915383 original size:3 final size:3
Alignment explanation
Indices: 18915375--18915399 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18915365 GACATTTTAA
18915375 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
18915400 CACATTTGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18915650 original size:25 final size:26
Alignment explanation
Indices: 18915595--18915644 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
18915585 TCAAATTAAC
* *
18915595 TATTAATTTTTAAATTTAATGTAAAA
1 TATTAATATTTAAATTAAATGTAAAA
*
18915621 TATTAATATTT-AATTAAATTTAAA
1 TATTAATATTTAAATTAAATGTAAA
18915645 CAATTATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
TATTAATATTTAAATTAAATGTAAAA
Found at i:18916500 original size:19 final size:19
Alignment explanation
Indices: 18916476--18916520 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
18916466 CTCGGAAGCG
18916476 GATCTCCCTCAAGATCGAA
1 GATCTCCCTCAAGATCGAA
18916495 GATCTCCCTCAAGATCGAA
1 GATCTCCCTCAAGATCGAA
*
18916514 TATCTCC
1 GATCTCC
18916521 ATTTAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.24
Consensus pattern (19 bp):
GATCTCCCTCAAGATCGAA
Found at i:18919749 original size:42 final size:42
Alignment explanation
Indices: 18919691--18919771 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
18919681 TCCTAATTGA
*
18919691 AAAATAATTCTCTTATTCTAATAAACTACTAAAACATAAGGG
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGG
* *
18919733 AAAATAATTCCCTTATTCTAATAAATTACTAAAAGATAA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
18919772 AATAAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGG
Found at i:18919779 original size:42 final size:42
Alignment explanation
Indices: 18919691--18919784 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
18919681 TCCTAATTGA
* **
18919691 AAAATAATTCTCTTATTCTAATAAACTACTAAAACATAAGGG
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAAG
* * *
18919733 AAAATAATTCCCTTATTCTAATAAATTACTAAAAGATAAAAT
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAAG
18919775 AAAAT-ATTCC
1 AAAATAATTCC
18919785 TAGAATACGA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 5 0.11
42 41 0.89
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.32
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAAG
Found at i:18927875 original size:18 final size:20
Alignment explanation
Indices: 18927849--18927890 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
18927839 AAAATATTAG
18927849 AAAATTT-TAGAAA-ATGATA
1 AAAATTTAT-GAAATATGATA
*
18927868 AAAATTTATGAAATATTATA
1 AAAATTTATGAAATATGATA
18927888 AAA
1 AAA
18927891 TAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAATTTATGAAATATGATA
Found at i:18927881 original size:9 final size:10
Alignment explanation
Indices: 18927828--18927936 Score: 59
Period size: 10 Copynumber: 11.1 Consensus size: 10
18927818 TGTTTAAGCT
18927828 TAAAA-ATTA
1 TAAAATATTA
18927837 TTAAAATATTA
1 -TAAAATATTA
* *
18927848 GAAAATTTTA
1 TAAAATATTA
*
18927858 GAAAATGA-TA
1 TAAAAT-ATTA
18927868 -AAAAT-TTA
1 TAAAATATTA
*
18927876 TGAAATATTA
1 TAAAATATTA
*
18927886 TAAAATAATA
1 TAAAATATTA
18927896 -AAAATTATTA
1 TAAAA-TATTA
*
18927906 GAAAA-ATTAA
1 TAAAATATT-A
* * *
18927916 TTACATGTTA
1 TAAAATATTA
18927926 TAAAATATTA
1 TAAAATATTA
18927936 T
1 T
18927937 TAATACATTA
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
8 2 0.03
9 16 0.21
10 48 0.63
11 10 0.13
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.37
Consensus pattern (10 bp):
TAAAATATTA
Found at i:18931247 original size:14 final size:14
Alignment explanation
Indices: 18931211--18931240 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18931201 TATTTTCAAT
*
18931211 TTACTATTATATTA
1 TTACTATTTTATTA
18931225 TTACTATTTTATTA
1 TTACTATTTTATTA
18931239 TT
1 TT
18931241 GTTATTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TTACTATTTTATTA
Found at i:18931884 original size:14 final size:14
Alignment explanation
Indices: 18931865--18931907 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
18931855 CAAAACATTG
18931865 TTAAAATAATTTTT
1 TTAAAATAATTTTT
*
18931879 TTAAAATAATATTT
1 TTAAAATAATTTTT
* *
18931893 TGATAATTAATTTTT
1 TTA-AAATAATTTTT
18931908 ATTTATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TTAAAATAATTTTT
Found at i:18932543 original size:23 final size:22
Alignment explanation
Indices: 18932486--18932555 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 22
18932476 AAAAGTAAAA
*
18932486 TAAATTCAAATCATATATAT-T
1 TAAATTCAAATAATATATATCT
*
18932507 TCAATT--AATAATATATATCT
1 TAAATTCAAATAATATATATCT
* *
18932527 TAATATTCAAATTATATTTATCT
1 TAA-ATTCAAATAATATATATCT
18932550 TAAATT
1 TAAATT
18932556 TAATATTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.28
20 3 0.08
21 8 0.20
22 3 0.08
23 15 0.38
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATTCAAATAATATATATCT
Found at i:18932600 original size:20 final size:21
Alignment explanation
Indices: 18932562--18932604 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
18932552 AATTTAATAT
*
18932562 TTATCATAAAGATAAATGTTA
1 TTATCATAAAGAGAAATGTTA
18932583 TTATCATAAA-AGAAATGTTA
1 TTATCATAAAGAGAAATGTTA
18932603 TT
1 TT
18932605 TAATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (21 bp):
TTATCATAAAGAGAAATGTTA
Found at i:18934002 original size:23 final size:22
Alignment explanation
Indices: 18933970--18934016 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
18933960 CAGAAAGTGT
*
18933970 AATATTTTTATAAAATAATTAA
1 AATATTTTTAGAAAATAATTAA
* *
18933992 AATATGTTTTAGACAATATTTAA
1 AATAT-TTTTAGAAAATAATTAA
18934015 AA
1 AA
18934017 CTTTAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (22 bp):
AATATTTTTAGAAAATAATTAA
Found at i:18935330 original size:51 final size:51
Alignment explanation
Indices: 18935249--18935365 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
18935239 CGGATCACAT
* *
18935249 TTATCACTTGTCACTTGTCACTGGTCAGATAAGTGTAGCTAAAACTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACAAC
* * **
18935300 TTATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTGAGGCTACAAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACAAC
18935351 TTATCACTTGTCACT
1 TTATCACTTGTCACT
18935366 GATCAGAAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACAAC
Found at i:18939752 original size:46 final size:47
Alignment explanation
Indices: 18939704--18939869 Score: 148
Period size: 46 Copynumber: 3.6 Consensus size: 47
18939694 TCCGAACTCG
* *
18939704 TTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGGA-CTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGGAGCTCA
* * * *
18939750 TTGAGTTGAGTCCGAGTT---TGTA-AGATG-TAACTAGGTATCTGAGCTCA
1 TTGAGTTGAGTCCGAGTTCACT-TATGGATGCGAAC---GT-CCGGAGCTCA
* *
18939797 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATTC-GAGCTCA
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGGAGCTCA
* *
18939843 TTGAGTTGAGTCTGAGTTCGCTTATGG
1 TTGAGTTGAGTCCGAGTTCACTTATGG
18939870 CCGGTTAGAT
Statistics
Matches: 98, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 2 0.02
46 52 0.53
47 23 0.23
48 1 0.01
49 2 0.02
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (47 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGGAGCTCA
Found at i:18943608 original size:14 final size:14
Alignment explanation
Indices: 18943589--18943622 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18943579 TAAAACCAAG
18943589 ACCAATCCAAATCA
1 ACCAATCCAAATCA
**
18943603 ACCAATCCATTTCA
1 ACCAATCCAAATCA
18943617 ACCAAT
1 ACCAAT
18943623 TTGATACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:18945258 original size:7 final size:7
Alignment explanation
Indices: 18945246--18945277 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
18945236 TTATCTGATC
18945246 AGTGACA
1 AGTGACA
18945253 AGTGACA
1 AGTGACA
18945260 AGTGACA
1 AGTGACA
*
18945267 AGTGATA
1 AGTGACA
18945274 AGTG
1 AGTG
18945278 GTAGCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:18945292 original size:58 final size:58
Alignment explanation
Indices: 18945195--18945315 Score: 206
Period size: 58 Copynumber: 2.1 Consensus size: 58
18945185 ACTTCTGATC
*
18945195 AGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTAATCAGTGACA
* * *
18945253 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTAATCAGTGACA
18945311 AGTGA
1 AGTGA
18945316 TAAATGTGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (58 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTAATCAGTGACA
Found at i:18948573 original size:27 final size:27
Alignment explanation
Indices: 18948543--18948596 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
18948533 TTTTTCATCC
18948543 ATATTTATAATATTA-AC-CATAAATAAA
1 ATATTT-TAAT-TTATACACATAAATAAA
*
18948570 ATATTTTAATTTATACATATAAATAAA
1 ATATTTTAATTTATACACATAAATAAA
18948597 TTCGCGCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.12
26 6 0.25
27 15 0.62
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (27 bp):
ATATTTTAATTTATACACATAAATAAA
Found at i:18953433 original size:21 final size:21
Alignment explanation
Indices: 18953394--18953433 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18953384 ATTTTTGGTC
**
18953394 TTGTTTTAGTAATTTTTTTTT
1 TTGTTTTAGTAATCATTTTTT
*
18953415 TTGTTTTTGTAATCATTTT
1 TTGTTTTAGTAATCATTTT
18953434 AGGTTAATCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (21 bp):
TTGTTTTAGTAATCATTTTTT
Found at i:18964040 original size:13 final size:13
Alignment explanation
Indices: 18964022--18964047 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18964012 TTTTATTTTA
18964022 TAATATTTTAAAT
1 TAATATTTTAAAT
18964035 TAATATTTTAAAT
1 TAATATTTTAAAT
18964048 GTTTTATAAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAATATTTTAAAT
Found at i:18964128 original size:22 final size:23
Alignment explanation
Indices: 18964103--18964154 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
18964093 TTAAAAATGG
*
18964103 TTTATTATTTAT-TTTATAATAT
1 TTTATAATTTATATTTATAATAT
* *
18964125 TTTA-AATTTATATTTTTAATGT
1 TTTATAATTTATATTTATAATAT
18964147 TTTATAAT
1 TTTATAAT
18964155 ATTTGTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 6 0.24
22 16 0.64
23 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTATAATTTATATTTATAATAT
Found at i:18964158 original size:19 final size:19
Alignment explanation
Indices: 18964134--18964226 Score: 53
Period size: 19 Copynumber: 5.3 Consensus size: 19
18964124 TTTTAAATTT
18964134 ATATTTTTAATGTTTTATA
1 ATATTTTTAATGTTTTATA
*
18964153 ATATTTGTTCA---TTTA-A
1 ATATTT-TTAATGTTTTATA
*
18964169 ATATTTTTTAAT-TTGT-T-
1 ATA-TTTTTAATGTTTTATA
*
18964186 -TATTGTT--TGTTTTATA
1 ATATTTTTAATGTTTTATA
* *
18964202 ATATTATAAATGTTTTATA
1 ATATTTTTAATGTTTTATA
18964221 ATATTT
1 ATATTT
18964227 ATTTATTCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 22
0.65 0.09 0.26
Matches are distributed among these distances:
13 1 0.02
14 3 0.05
15 5 0.09
16 9 0.16
17 12 0.22
18 2 0.04
19 20 0.36
20 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.62
Consensus pattern (19 bp):
ATATTTTTAATGTTTTATA
Found at i:18964424 original size:70 final size:71
Alignment explanation
Indices: 18964350--18964503 Score: 172
Period size: 68 Copynumber: 2.2 Consensus size: 71
18964340 ATAAAACATT
*
18964350 TAAAATATTATAAAAAAATAAGAAAACAAATAATAAACAAATT-AAAAAA-TGTTTAAATAAAGA
1 TAAAA-ATTATAAAAAAATAAGAAAACAAATAATAAACAAATTAAAAAAACCGTTTAAATAAAGA
18964413 AATATTA
65 AATATTA
* * * * * * * * *
18964420 TAAAAA-AATTAAAATATTATAAAACAAATAATAAACAATTTAAAAAAACCGTTTGAATAAATAG
1 TAAAAATTATAAAAAAATAAGAAAACAAATAATAAACAAATTAAAAAAACCGTTTAAATAAAGAA
18964484 ATATTA
66 ATATTA
18964490 TAAAACATT-TAAAA
1 TAAAA-ATTATAAAA
18964504 TATAAATTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
68 29 0.43
69 7 0.10
70 27 0.40
71 5 0.07
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (71 bp):
TAAAAATTATAAAAAAATAAGAAAACAAATAATAAACAAATTAAAAAAACCGTTTAAATAAAGAA
ATATTA
Found at i:18964436 original size:19 final size:19
Alignment explanation
Indices: 18964333--18964448 Score: 74
Period size: 19 Copynumber: 5.9 Consensus size: 19
18964323 TTAAATAAAC
* *
18964333 AAATATTATAAAACATTTA
1 AAATATTATAAAAAAATTA
*
18964352 AAATATTATAAAAAAATAAGAA
1 AAATATTATAAAAAAAT---TA
* * *
18964374 AACAAATAATAAACAAATTA
1 AA-ATATTATAAAAAAATTA
* * * *
18964394 AAAAATGTTTAAATAAA--G
1 AAATAT-TATAAAAAAATTA
18964412 AAATATTATAAAAAAATTA
1 AAATATTATAAAAAAATTA
18964431 AAATATTATAAAACAAAT
1 AAATATTATAAAA-AAAT
18964449 AATAAACAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
17 8 0.11
18 5 0.07
19 32 0.43
20 14 0.19
22 3 0.04
23 12 0.16
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
AAATATTATAAAAAAATTA
Found at i:18964444 original size:68 final size:70
Alignment explanation
Indices: 18964372--18964506 Score: 193
Period size: 70 Copynumber: 2.0 Consensus size: 70
18964362 AAAAAATAAG
*
18964372 AAAACAAATAATAAACAAATT-AAAAAA-TGTTTAAATAAAGAAATATTATAAAAAAATTAAAAT
1 AAAACAAATAATAAACAAATTAAAAAAACCGTTTAAATAAAGAAATATTATAAAAAAATTAAAAT
18964435 ATTAT
66 ATTAT
* * * * * *
18964440 AAAACAAATAATAAACAATTTAAAAAAACCGTTTGAATAAATAGATATTATAAAACATTTAAAAT
1 AAAACAAATAATAAACAAATTAAAAAAACCGTTTAAATAAAGAAATATTATAAAAAAATTAAAAT
18964505 AT
66 AT
18964507 AAATTTTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 20 0.34
69 6 0.10
70 32 0.55
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (70 bp):
AAAACAAATAATAAACAAATTAAAAAAACCGTTTAAATAAAGAAATATTATAAAAAAATTAAAAT
ATTAT
Found at i:18964542 original size:15 final size:15
Alignment explanation
Indices: 18964513--18964542 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18964503 ATATAAATTT
*
18964513 TAAATATTATAAAAA
1 TAAATATTAAAAAAA
18964528 TAAATATTAAAAAAA
1 TAAATATTAAAAAAA
18964543 AGGAAAAGGA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATATTAAAAAAA
Found at i:18973578 original size:10 final size:10
Alignment explanation
Indices: 18973563--18973591 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
18973553 ATTGCTTGTT
18973563 TGAATAGAAA
1 TGAATAGAAA
18973573 TGAATAG-AA
1 TGAATAGAAA
18973582 TGAATAGAAA
1 TGAATAGAAA
18973592 AAGAGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:18974426 original size:53 final size:54
Alignment explanation
Indices: 18974368--18974478 Score: 197
Period size: 53 Copynumber: 2.1 Consensus size: 54
18974358 AAGAAAAGAA
18974368 AATTTCCATTTTCACCCTAAAAGGAAAACTTTTTCTAGTTCTATGTTTTGATT-
1 AATTTCCATTTTCACCCTAAAAGGAAAACTTTTTCTAGTTCTATGTTTTGATTC
* *
18974421 AATTTCTATTTTCACCCTGAAAGGAAAACTTTTTCTAGTTCTATGTTTTGATTC
1 AATTTCCATTTTCACCCTAAAAGGAAAACTTTTTCTAGTTCTATGTTTTGATTC
18974475 AATT
1 AATT
18974479 GGTTCAAGCC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 51 0.93
54 4 0.07
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (54 bp):
AATTTCCATTTTCACCCTAAAAGGAAAACTTTTTCTAGTTCTATGTTTTGATTC
Found at i:18976591 original size:19 final size:19
Alignment explanation
Indices: 18976567--18976604 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18976557 GACACACGCC
18976567 TGTGTTCTAGGTCGTGTAG
1 TGTGTTCTAGGTCGTGTAG
*
18976586 TGTGTTCTAGGTTGTGTAG
1 TGTGTTCTAGGTCGTGTAG
18976605 CACACATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.08, G:0.37, T:0.45
Consensus pattern (19 bp):
TGTGTTCTAGGTCGTGTAG
Found at i:18987609 original size:19 final size:19
Alignment explanation
Indices: 18987577--18987625 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
18987567 TAATTCAATG
* *
18987577 GACATGTAACTCTTGACAT
1 GACATGAAAATCTTGACAT
* *
18987596 GGCATGAAAATCTTGAGAT
1 GACATGAAAATCTTGACAT
*
18987615 GATATGAAAAT
1 GACATGAAAAT
18987626 GACTGGAGAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (19 bp):
GACATGAAAATCTTGACAT
Found at i:18992722 original size:46 final size:46
Alignment explanation
Indices: 18992577--18992740 Score: 179
Period size: 46 Copynumber: 3.5 Consensus size: 46
18992567 TGTGTGCTAA
* * * * *
18992577 TGTAAGACATGTCTGAGACATGCATCGGCCAC-ATTATGAGAGCCAT
1 TGTAAGACATGTCTGGGACATGCATTGGCCTCGA-GATGAGAGCCAG
* * * *
18992623 TGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGATGAGAGCCAG
*
18992671 TGTAAGACATGTCTGGGACATGCATTAGCCTCGAGATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATG-AGAGCCAG
*
18992717 TGTAAGACATGTTTGGGACATGCA
1 TGTAAGACATGTCTGGGACATGCA
18992741 GCGGCTACGA
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
46 48 0.48
47 28 0.28
48 22 0.22
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATGAGAGCCAG
Found at i:19000446 original size:46 final size:46
Alignment explanation
Indices: 19000294--19000508 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 46
19000284 TTTGTGCACT
* * * * *
19000294 AGTGTAAGACATGTCTGAGACATGCATTGGCCAC-ATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAAGCC
* * * * * *
19000340 ATTGTAAGACCATGTCTGGGACATAGCATTGGCATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
* *
19000388 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* * *
19000434 AGTGTAAGACATGTCTGGGACATGCATTGG-CTACAAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
19000478 AGTGTAAGACTATGTCTGGGACATGGCATCG
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCG
19000509 ACACAGATAT
Statistics
Matches: 139, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 62 0.45
47 28 0.20
48 21 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:19000548 original size:50 final size:50
Alignment explanation
Indices: 19000478--19000654 Score: 152
Period size: 49 Copynumber: 3.6 Consensus size: 50
19000468 AAGATGTGTC
*
19000478 AGTGTAAGACTATGTCTGGGACATGGCATCGACAC-AGATATGTGAGAG-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTAGAT-TGTGAGAGTCT
* * * * * * * *
19000528 AGTGTAAGACCATATTTGGGAAATGGAATCGGCCTCGATTTTGATAGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTAGATTGTGAGAGTCT
* * *
19000578 -GTGTATGACCATGTCTGGGACATGGCATCGA-CTTGA-TG-GATGAG-CC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTAGATTGTGA-GAGTCT
* *
19000624 AGTGTAAGACCATGTCTGGAACGTGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
19000655 GCATTATACG
Statistics
Matches: 101, Mismatches: 22, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
46 3 0.03
47 30 0.30
48 4 0.04
49 32 0.32
50 32 0.32
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCTAGATTGTGAGAGTCT
Found at i:19008996 original size:20 final size:20
Alignment explanation
Indices: 19008948--19008998 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
19008938 TTTTTGCTAT
*
19008948 TTTATTATTAAATTAATTAC
1 TTTATTATTATATTAATTAC
19008968 TTTA--A-TATATT-ATTAC
1 TTTATTATTATATTAATTAC
19008984 TATTATTATTATATT
1 T-TTATTATTATATT
19008999 TCTATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
16 6 0.23
17 8 0.31
18 1 0.04
19 1 0.04
20 10 0.38
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTATTATTATATTAATTAC
Found at i:19009130 original size:15 final size:14
Alignment explanation
Indices: 19009099--19009135 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
19009089 AAAACTTTAG
*
19009099 TTATTATTATATTA
1 TTATTATTATATCA
19009113 TTATTATTAATATCA
1 TTATTATT-ATATCA
19009128 TTATTATT
1 TTATTATT
19009136 TTTTAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTATTATATCA
Found at i:19010898 original size:29 final size:29
Alignment explanation
Indices: 19010855--19010912 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
19010845 ATTATTTGAG
* *
19010855 AAGCTGTTAATGAAGCTAACAAGCATCAC
1 AAGCCGTTAACGAAGCTAACAAGCATCAC
19010884 AAGCCGTTAACGAAGCTAACAAGCATCAC
1 AAGCCGTTAACGAAGCTAACAAGCATCAC
19010913 GGGGATGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (29 bp):
AAGCCGTTAACGAAGCTAACAAGCATCAC
Found at i:19051097 original size:95 final size:95
Alignment explanation
Indices: 19050923--19051097 Score: 217
Period size: 95 Copynumber: 1.8 Consensus size: 95
19050913 AGTCTTATCT
* * * * * * *
19050923 CCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGTGAATCTCATTTCCTTGAAGTTGTAGTGGAAC
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCGAATCTCATCTCCCTAAAGTTGTAGTAGAAC
* *
19050988 AGATTAAGATTACAAGTTACAAATCTGATC
66 AAATTAAGACTACAAGTTACAAATCTGATC
* * * *
19051018 CCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCGAGTTTCATCTCCCTAAAGTTGTAGTAGAGC
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCGAATCTCATCTCCCTAAAGTTGTAGTAGAAC
19051083 AAATTAA-AGCTACAA
66 AAATTAAGA-CTACAA
19051098 ATCTAATCTC
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
94 1 0.02
95 65 0.98
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (95 bp):
CCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCGAATCTCATCTCCCTAAAGTTGTAGTAGAAC
AAATTAAGACTACAAGTTACAAATCTGATC
Found at i:19051771 original size:15 final size:15
Alignment explanation
Indices: 19051734--19051773 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
19051724 AAAAAGGTGA
19051734 TTTTTTA-TTC-TGT
1 TTTTTTATTTCATGT
*
19051747 TTTTCT-TTTCATGT
1 TTTTTTATTTCATGT
19051761 TTTTTTATTTCAT
1 TTTTTTATTTCAT
19051774 TTATGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 8 0.36
14 8 0.36
15 6 0.27
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.75
Consensus pattern (15 bp):
TTTTTTATTTCATGT
Found at i:19052499 original size:17 final size:18
Alignment explanation
Indices: 19052456--19052501 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
19052446 TTCTCTATTT
*
19052456 TATTATTAAATTAATTAA
1 TATTATTATATTAATTAA
* *
19052474 T-TTAATATATT-ATTAC
1 TATTATTATATTAATTAA
19052490 TATTATTATATT
1 TATTATTATATT
19052502 TCTATTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 5 0.22
17 17 0.74
18 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTATTATATTAATTAA
Done.