Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 68 of 230
Found at i:18577258 original size:48 final size:46
Alignment explanation
Indices: 18577123--18577296 Score: 161
Period size: 48 Copynumber: 3.5 Consensus size: 46
18577113 ATGGTCACGT
* *
18577123 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATAGGTCGTAT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTATC-G---GATAGGTCGTAC
* * * *
18577173 GTGTAGTACTATGTGCAGGCTACTATGCGTATTGGATAGCTTCGATCAC
1 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-GTCG-T-AC
*
18577222 GTGT-GTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCAC
1 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-G-TCGT-AC
*
18577270 ATGTGTAGTACTATGTGTAGGCTACTA
1 --GTGTAGTACTATGTGCAGGCTACTA
18577297 TGTGAACCAG
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
46 5 0.05
47 3 0.03
48 36 0.35
49 8 0.08
50 33 0.32
51 19 0.18
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (46 bp):
GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGGTCGTAC
Found at i:18583609 original size:16 final size:16
Alignment explanation
Indices: 18583588--18583618 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18583578 TTTTATATTA
*
18583588 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
18583604 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
18583619 AAATTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:18592675 original size:62 final size:63
Alignment explanation
Indices: 18592535--18592676 Score: 178
Period size: 62 Copynumber: 2.3 Consensus size: 63
18592525 ATTTATATGC
** * * * * *
18592535 TACACGGCCTAGACACACGCCCATGTCCTCTGCTCGTGTGGTTTTAAAACATAAATAGTGAGT
1 TACACGGCCTAGACACACGCCCATGTCCTAGGCTCGTGTAGTCTTAAAACACAAACAGAGAGT
* **
18592598 TACACGGCCTGGACACACGCCCATGTCCTAGGC-CGTGTAGTCTTAAGTCACAAACAGAGAGT
1 TACACGGCCTAGACACACGCCCATGTCCTAGGCTCGTGTAGTCTTAAAACACAAACAGAGAGT
*
18592660 TACACGGCTTAGACACA
1 TACACGGCCTAGACACA
18592677 TGCCTGTGTC
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
62 37 0.55
63 30 0.45
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (63 bp):
TACACGGCCTAGACACACGCCCATGTCCTAGGCTCGTGTAGTCTTAAAACACAAACAGAGAGT
Found at i:18593555 original size:126 final size:125
Alignment explanation
Indices: 18593353--18593611 Score: 439
Period size: 126 Copynumber: 2.1 Consensus size: 125
18593343 TATGGAAGCA
*
18593353 AGCAAAAAGATAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAATAAAAAGGGAA
1 AGCAAAAAGATAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAGGGAA
* * *
18593418 AGAATGATAGAATTAATTCAGAATGATTTAAGTTAACCACCAACCAGCCTTCCGGCGTTT
66 AGAACGATAGAATTAATTCAAAATGATTTAAGTTAACCACCAACCAGCCTTCCAGCGTTT
18593478 AG-AAAAAGATAAAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAGGG
1 AGCAAAAAGAT--AAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAGGG
* *
18593542 AAAGAACGGTAGAATTAATTCAAAATGATTTAAGTTAACCATCAACCAGCCTTCCAGCGTTT
64 AAAGAACGATAGAATTAATTCAAAATGATTTAAGTTAACCACCAACCAGCCTTCCAGCGTTT
18593604 AGCAAAAA
1 AGCAAAAA
18593612 TATTTCCCTA
Statistics
Matches: 125, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
124 8 0.06
125 2 0.02
126 110 0.88
127 5 0.04
ACGTcount: A:0.54, C:0.12, G:0.19, T:0.15
Consensus pattern (125 bp):
AGCAAAAAGATAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAGGGAA
AGAACGATAGAATTAATTCAAAATGATTTAAGTTAACCACCAACCAGCCTTCCAGCGTTT
Found at i:18595879 original size:6 final size:6
Alignment explanation
Indices: 18595868--18595902 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
18595858 AAATTATAAT
*
18595868 ATATTA ATATTA CTATTA ATATTA ATATTA ATATT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATT
18595903 CATAACATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:18596117 original size:42 final size:36
Alignment explanation
Indices: 18596082--18596156 Score: 123
Period size: 37 Copynumber: 2.1 Consensus size: 36
18596072 TTCACATGGG
18596082 AATACAAACTAATATATAGTACAAATAACTCCTTCAA
1 AATACAAACTAATATATAGTACAAAT-ACTCCTTCAA
* *
18596119 AATGCAACCTAATATATAGTACAAATACTCCTTCAA
1 AATACAAACTAATATATAGTACAAATACTCCTTCAA
18596155 AA
1 AA
18596157 CAATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 12 0.33
37 24 0.67
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (36 bp):
AATACAAACTAATATATAGTACAAATACTCCTTCAA
Found at i:18597857 original size:93 final size:95
Alignment explanation
Indices: 18597740--18597912 Score: 219
Period size: 94 Copynumber: 1.8 Consensus size: 95
18597730 ACCGAAATAA
* * * * * * *
18597740 TAATTAATTTGTATTTGAACCCTATAATTTATATAAATTTTGCA-ATTGGT-TT-GCACGAACAC
1 TAATAAATTTGTATTTGAACCCTATAAATTAAATAAACTAT-AAGATTGGTATTCGCA-AAACAC
*
18597802 GTGTAATTTTAAGAACTATGAACGCATGACGT
64 GTGTAATATTAAGAACTATGAACGCATGACGT
*
18597834 TAATAAATTT-TATTTGAATCCTATAAATTAAATAAACTATAAGATTGGTATTCGCAAAACACGT
1 TAATAAATTTGTATTTGAACCCTATAAATTAAATAAACTATAAGATTGGTATTCGCAAAACACGT
18597898 GTAATATTAAGAACT
66 GTAATATTAAGAACT
18597913 GCAGACGAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 1 0.01
93 31 0.46
94 32 0.48
95 3 0.04
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.37
Consensus pattern (95 bp):
TAATAAATTTGTATTTGAACCCTATAAATTAAATAAACTATAAGATTGGTATTCGCAAAACACGT
GTAATATTAAGAACTATGAACGCATGACGT
Found at i:18598273 original size:288 final size:288
Alignment explanation
Indices: 18597892--18598444 Score: 763
Period size: 288 Copynumber: 1.9 Consensus size: 288
18597882 TATTCGCAAA
* * * *
18597892 ACACGTGTAATATTAAGAACTGCAGACGAATAAATGAAGATGATGGTTTGTATTTGAACTCTAAA
1 ACACATGTAATATTAAGAACTGCAGACGAATAAATGAAGATGATAGCTTGTATTTGAACACTAAA
* * * * *
18597957 AATCAAATAAATTATACTATCGATTTTCACAAACATGTGTAATATTGAGAACTACATATGAATAA
66 AATCAAATAAATTATACGATCAATTTTCACAAACACGTGTAATACTAAGAACTACATATGAATAA
* * *
18598022 ACGACGGCAATAATTTATATTTGAATCCCAAAAATTAAATAAGTTATAAAATTGTTCTTTGCAAA
131 ACGAAGACAATAATTTATATTTGAATCCCAAAAATTAAATAAATTATAAAATTGTTCTTTGCAAA
* * **
18598087 ACATGTGCAATATTAAGAACAACATAAGATTTAAT-AAAGATC-AGTTTTTTATTTGGAAATCTA
196 ACATGTGCAATATTAAAAACAACATAAGATTTAATGAAA-ATCGA-TTTCTTATTTAAAAATCTA
*
18598150 GGGTGATATTTATCATCTAATTCATATCGC
259 AGGTGATATTTATCATCTAATTCATATCGC
18598180 ACACATGTAATATTAAGAACTGCAGACGAATAAATGAAGACT-ATAGCTTGTAGTTT-AACACTA
1 ACACATGTAATATTAAGAACTGCAGACGAATAAATGAAGA-TGATAGCTTGTA-TTTGAACACTA
* * * * * * * *
18598243 GAAATCAAATCAATTATAGGATTAATTTTCACAAATACGTGTAATACTAAGAACTGCGTATGATT
64 AAAATCAAATAAATTATACGATCAATTTTCACAAACACGTGTAATACTAAGAACTACATATGAAT
* * * * *
18598308 GAATGAATACAATAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGTTCTTTGCA
129 AAACGAAGACAATAATTTATATTTGAATCCCAAAAATTAAATAAATTATAAAATTGTTCTTTGCA
*
18598373 AAACATGTGCAATATTAAAAACGACATAAGATTTAATGAAAATCGATTTCTTATTTAAAAATCTA
194 AAACATGTGCAATATTAAAAACAACATAAGATTTAATGAAAATCGATTTCTTATTTAAAAATCTA
18598438 AGGTGAT
259 AGGTGAT
18598445 GTGTATCACT
Statistics
Matches: 230, Mismatches: 31, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
288 222 0.97
289 8 0.03
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (288 bp):
ACACATGTAATATTAAGAACTGCAGACGAATAAATGAAGATGATAGCTTGTATTTGAACACTAAA
AATCAAATAAATTATACGATCAATTTTCACAAACACGTGTAATACTAAGAACTACATATGAATAA
ACGAAGACAATAATTTATATTTGAATCCCAAAAATTAAATAAATTATAAAATTGTTCTTTGCAAA
ACATGTGCAATATTAAAAACAACATAAGATTTAATGAAAATCGATTTCTTATTTAAAAATCTAAG
GTGATATTTATCATCTAATTCATATCGC
Found at i:18602978 original size:195 final size:195
Alignment explanation
Indices: 18602692--18603047 Score: 459
Period size: 195 Copynumber: 1.8 Consensus size: 195
18602682 AATTTAAAGA
*
18602692 ACTACATATGAATGAATGACGACAATAATTTCTATTTGAATCCTATAAATTAAATAAACTATATG
1 ACTACATATGAATGAATGACGACAATAATTTATATTTGAATCCTATAAATTAAATAAACTATATG
*** * * * * *
18602757 ATTGATGTTGACAAAACCCATGTAATATTGAGAACAACATAAAAATAAATGAAGACGATGGTTTG
66 ACCCATCTTGACAAAACACATGTAATAATAAGAACAACATAAAAACAAATGAAGACGATGGTTTG
* *
18602822 TATTTTAACTCTAAATATCAAATCAATTATATGATCGATCTTCACAAACATGAGTAATATTGATT
131 TATTTTAACACTAAAAATCAAATCAATTATATGATCGATCTTCACAAACATGAGTAATATTGATT
* * *
18602887 ACTACATATGAAT-ACATGACGATAATAATTTATATTTGAAT-CTCGTAAATTAAATAAATTATA
1 ACTACATATGAATGA-ATGACGACAATAATTTATATTTGAATCCT-ATAAATTAAATAAACTAT-
* ** * * *
18602950 AT-ACCCATCTTCG-CAAAACACGTGTAATAATAAGAACTGCATAAGAACCAATGAAGACTATGG
63 ATGACCCATCTT-GACAAAACACATGTAATAATAAGAACAACATAAAAACAAATGAAGACGATGG
*
18603013 TTTTTATTTTAACACTAAAAATCAAATCAATTATA
127 TTTGTATTTTAACACTAAAAATCAAATCAATTATA
18603048 ATACTCTTTG
Statistics
Matches: 136, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
194 3 0.02
195 130 0.96
196 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (195 bp):
ACTACATATGAATGAATGACGACAATAATTTATATTTGAATCCTATAAATTAAATAAACTATATG
ACCCATCTTGACAAAACACATGTAATAATAAGAACAACATAAAAACAAATGAAGACGATGGTTTG
TATTTTAACACTAAAAATCAAATCAATTATATGATCGATCTTCACAAACATGAGTAATATTGATT
Found at i:18604762 original size:26 final size:26
Alignment explanation
Indices: 18604726--18604775 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
18604716 TTTTGGACAT
18604726 ATTCATAACCAAATATGTGATTTTAA
1 ATTCATAACCAAATATGTGATTTTAA
*
18604752 ATTCATAACCATATATGTGATTTT
1 ATTCATAACCAAATATGTGATTTT
18604776 GGACAACTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (26 bp):
ATTCATAACCAAATATGTGATTTTAA
Found at i:18604877 original size:13 final size:13
Alignment explanation
Indices: 18604833--18604879 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
18604823 ATTAAACGAA
18604833 AATGTTACCAAAT
1 AATGTTACCAAAT
* * *
18604846 AACTATTA-AAAAA
1 AA-TGTTACCAAAT
18604859 AATGTTACCAAAT
1 AATGTTACCAAAT
18604872 AATGTTAC
1 AATGTTAC
18604880 AATTGATTGG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (13 bp):
AATGTTACCAAAT
Found at i:18607103 original size:17 final size:17
Alignment explanation
Indices: 18607081--18607120 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
18607071 TTAGGTCGTA
18607081 TGGGCCACAC-AGGCGTG
1 TGGGCCACACGA-GCGTG
18607098 TGGGCCACACGAGCGTG
1 TGGGCCACACGAGCGTG
18607115 TGGGCC
1 TGGGCC
18607121 TACATGGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.15, C:0.30, G:0.42, T:0.12
Consensus pattern (17 bp):
TGGGCCACACGAGCGTG
Found at i:18608102 original size:28 final size:28
Alignment explanation
Indices: 18608063--18608132 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
18608053 ACATGCAGTA
* * *
18608063 ACAGT-ACAGTGTGGGCCTTAGCCCGAT
1 ACAGTAACAGTGTGAGACTTAGCCCAAT
*
18608090 ACAGTAACAGTGTGAGATTTAGCCCAAT
1 ACAGTAACAGTGTGAGACTTAGCCCAAT
*
18608118 ACAATAACAGTGTGA
1 ACAGTAACAGTGTGA
18608133 TAATGCAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 5 0.14
28 32 0.86
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTGTGAGACTTAGCCCAAT
Found at i:18608486 original size:27 final size:26
Alignment explanation
Indices: 18608456--18608759 Score: 256
Period size: 27 Copynumber: 11.4 Consensus size: 26
18608446 TCGACTCCTA
**
18608456 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCT-TG
18608483 GGGGTATTTCAGTCATTTTACCCTTTG
1 GGGGTATTTCAGTCATTTTACCC-TTG
18608510 GGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTT-G
* *
18608537 GGGGTATTTCGGTCATTTTACCCTTTA
1 GGGGTATTTCAGTCATTTTACCC-TTG
** * *
18608564 GAAGTA-TTCTGGTCA-TTTACCTTTTG
1 GGGGTATTTC-AGTCATTTTACC-CTTG
18608590 GGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTT-G
* * *
18608617 GAGGTATTTCGGTCATTTTACCCTTTA
1 GGGGTATTTCAGTCATTTTACCC-TTG
** * * *
18608644 GGGGTATTTTGGTCA-TTGACCTGTTA
1 GGGGTATTTCAGTCATTTTACC-CTTG
* * *
18608670 TGGGTATTTCGGTCATTTTACCTTTTG
1 GGGGTATTTCAGTCATTTTACC-CTTG
* * * **
18608697 GGGGTATTTTAATCACTTTACATTTTG
1 GGGGTATTTCAGTCATTTTAC-CCTTG
18608724 GGGGTATTTCAGTCA-TTTACCCTTTG
1 GGGGTATTTCAGTCATTTTACCC-TTG
18608750 GGGGTATTTC
1 GGGGTATTTC
18608760 GGGCTTACCA
Statistics
Matches: 230, Mismatches: 34, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
26 62 0.27
27 163 0.71
28 5 0.02
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (26 bp):
GGGGTATTTCAGTCATTTTACCCTTG
Found at i:18608603 original size:107 final size:107
Alignment explanation
Indices: 18608467--18608761 Score: 384
Period size: 107 Copynumber: 2.8 Consensus size: 107
18608457 GGGTATAACA
* *
18608467 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACC
1 GTCATTTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACC
* *
18608532 CTTCGGGGGTATTTCGGTCATTTTACCCT-TTA-GAAGTA-TTCTG
66 CTTTGGGGGTATTTCGGTCA-TTGA-CCTGTTATG-AGTATTTC-G
* * *
18608575 GTCA-TTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTCGGAGGTATTTCGGTCATTTTACC
1 GTCATTTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACC
* * *
18608639 CTTTAGGGGTATTTTGGTCATTGACCTGTTATGGGTATTTCG
66 CTTTGGGGGTATTTCGGTCATTGACCTGTTATGAGTATTTCG
* * * **
18608681 GTCATTTTACCTTTTGGGGGTATTTTAATCACTTTACATTTTGGGGGTATTTCAGTCA-TTTACC
1 GTCATTTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACC
18608745 CTTTGGGGGTATTTCGG
66 CTTTGGGGGTATTTCGG
18608762 GCTTACCACT
Statistics
Matches: 163, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
105 3 0.02
106 35 0.21
107 121 0.74
108 4 0.02
ACGTcount: A:0.16, C:0.17, G:0.23, T:0.44
Consensus pattern (107 bp):
GTCATTTTACCTTTTGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACC
CTTTGGGGGTATTTCGGTCATTGACCTGTTATGAGTATTTCG
Found at i:18608761 original size:80 final size:80
Alignment explanation
Indices: 18608467--18608759 Score: 347
Period size: 80 Copynumber: 3.6 Consensus size: 80
18608457 GGGTATAACA
* *
18608467 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACC
1 GTCATTTTACCCTTTAGGGGTATTTCAGTCA-TTTACCCTTTGGGGGTATTTCAGTCATTTTACC
18608532 CTTCGGGGGTATTTCG
65 CTTCGGGGGTATTTCG
** * *
18608548 GTCATTTTACCCTTTAGAAGTA-TTCTGGTCATTTACCTTTTGGGGGTATTTCAGTCATTTTACC
1 GTCATTTTACCCTTTAGGGGTATTTC-AGTCATTTACCCTTTGGGGGTATTTCAGTCATTTTACC
*
18608612 CTTCGGAGGTATTTCG
65 CTTCGGGGGTATTTCG
** * ** *
18608628 GTCATTTTACCCTTTAGGGGTATTTTGGTCATTGA-CCTGTTATGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTTTAGGGGTATTTCAGTCATTTACCCT-TTGGGGGTATTTCAGTCATTTTACC
* * **
18608692 TTTTGGGGGTATTTTA
65 CTTCGGGGGTATTTCG
* * ** *
18608708 ATCACTTTACATTTTGGGGGTATTTCAGTCATTTACCCTTTGGGGGTATTTC
1 GTCATTTTACCCTTTAGGGGTATTTCAGTCATTTACCCTTTGGGGGTATTTC
18608760 GGGCTTACCA
Statistics
Matches: 178, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
79 2 0.01
80 149 0.84
81 27 0.15
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.44
Consensus pattern (80 bp):
GTCATTTTACCCTTTAGGGGTATTTCAGTCATTTACCCTTTGGGGGTATTTCAGTCATTTTACCC
TTCGGGGGTATTTCG
Found at i:18611262 original size:98 final size:96
Alignment explanation
Indices: 18610972--18611267 Score: 269
Period size: 98 Copynumber: 3.0 Consensus size: 96
18610962 ATTGATATTT
* * * *
18610972 ACAAAACCCATGTAATATTGAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTGAACT
1 ACAAAACACGTGTAATATTGAGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTT-AACT
18611037 CTAAAAATCAAATCAATTATACGATCGATCTTC
65 CTAAAAATCAAATCAATTATACGATC-ATCTTC
* * * * * * ** *
18611070 AC--AACACGAGTAATATTGATAACTACATATGAATACATGATGA-TAATAATTTATATTTTAAT
1 ACAAAACACGTGTAATATTGAGAACTGCATAAGAATAAATGAAGACT-ATGGTTTGTA-TTTAA-
* * **
18611132 CTCGT--AAATTAAATAAATTATAATATTCATCTTC
63 CTC-TAAAAATCAAATCAATTATACGA-TCATCTTC
* * * * *
18611166 ACAAAACACGTGTAATATTAAGCATTGCATAAGAGTAAATGAAGACTATGGTTTGTATATTAACA
1 ACAAAACACGTGTAATATTGAGAACTGCATAAGAATAAATGAAGACTATGGTTTGTAT-TTAACT
*
18611231 CTAAAAATCAAATCAATTATCCGATCAATCTTC
65 CTAAAAATCAAATCAATTATACGATC-ATCTTC
18611264 ACAA
1 ACAA
18611268 GTACGTGTAA
Statistics
Matches: 150, Mismatches: 36, Indels: 24
0.71 0.17 0.11
Matches are distributed among these distances:
96 66 0.44
97 13 0.09
98 70 0.47
99 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (96 bp):
ACAAAACACGTGTAATATTGAGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTAACTC
TAAAAATCAAATCAATTATACGATCATCTTC
Found at i:18611379 original size:194 final size:193
Alignment explanation
Indices: 18610922--18611391 Score: 521
Period size: 194 Copynumber: 2.4 Consensus size: 193
18610912 CAATAATAAT
* * * * * *
18610922 TAATTTCTATTTGAATCCTATAAATTAAATAAACTATATGATTGATATTTACAAAACCCATGTAA
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGATCTTT-CAAAACACATGTAA
* *
18610987 TATTGAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTGAACTCTAAAAATCAAATCA
65 TATTAAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTGAACACTAAAAATCAAATCA
* * ** * ** *
18611052 ATTATACGATCGATCTTCACAACACGAGTAATATTGATAACTACATATGAATACATGATGATAA
130 ATTATACGATCAATCTTCACAACACGAGTAACATAAAGAACTACATATGAATACATGAACACAA
* * * * * * *
18611116 TAATTTATATTTTAATCTCGTAAATTAAATAAATTATAATATTCATCTTCACAAAACACGTGTAA
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGATCTT-TCAAAACACATGTAA
* * * * *
18611181 TATTAAGCATTGCATAAGAGTAAATGAAGACTATGGTTTGTATATT-AACACTAAAAATCAAATC
65 TATTAAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTAT-TTGAACACTAAAAATCAAATC
* * * * * * *
18611245 AATTATCCGATCAATCTTCACAAGTACGTGTAACATAAAGAATTGCGTCTGAATGA-ATGAACAC
129 AATTATACGATCAATCTTCACAA-CACGAGTAACATAAAGAACTACATATGAAT-ACATGAACAC
18611309 AA
192 AA
* ** *
18611311 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGTTCTTTTTAAACACATGAAAT
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGATCTTTCAAAACACATGTAAT
*
18611376 ATTAAGAACCGCATAA
66 ATTAAGAACTGCATAA
18611392 TTAAAGATTT
Statistics
Matches: 223, Mismatches: 49, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
194 150 0.67
195 72 0.32
196 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (193 bp):
TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGATCTTTCAAAACACATGTAAT
ATTAAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTGAACACTAAAAATCAAATCAA
TTATACGATCAATCTTCACAACACGAGTAACATAAAGAACTACATATGAATACATGAACACAA
Found at i:18613255 original size:36 final size:38
Alignment explanation
Indices: 18613210--18613296 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 38
18613200 GGAGTTGTAA
* * * *
18613210 GTGACTATTCATCTATATCAC-TAAATGC-TAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATACATAAGAGTT
*
18613246 GTGACTATTCATTTACATAACTTAAATACTATAAGAGTT
1 GTGACTATTCATCTACATAACTTAAATAC-ATAAGAGTT
18613285 GTGACTATTCAT
1 GTGACTATTCAT
18613297 GCATATGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 18 0.42
37 6 0.14
39 19 0.44
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (38 bp):
GTGACTATTCATCTACATAACTTAAATACATAAGAGTT
Found at i:18613355 original size:32 final size:32
Alignment explanation
Indices: 18613319--18613383 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
18613309 TTTTTCATCT
* *
18613319 TCAAGTCTCTTCGCATTATTAACTCTTCATAA
1 TCAAGTCTCTTCACATTAGTAACTCTTCATAA
* *
18613351 TCAAGTCTCTTCACATTCGTAACTTTTCATAA
1 TCAAGTCTCTTCACATTAGTAACTCTTCATAA
18613383 T
1 T
18613384 TTATTTTCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (32 bp):
TCAAGTCTCTTCACATTAGTAACTCTTCATAA
Found at i:18617856 original size:32 final size:32
Alignment explanation
Indices: 18617820--18617883 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
18617810 ACTTTTTATC
* *
18617820 TTCAAGTCTCTTCGCATTATTAACTCTTCATA
1 TTCAAGTCTCTTCACATTAGTAACTCTTCATA
* *
18617852 TTCAAGTCTCTTCACATTCGTAACTTTTCATA
1 TTCAAGTCTCTTCACATTAGTAACTCTTCATA
18617884 ATTTATTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
TTCAAGTCTCTTCACATTAGTAACTCTTCATA
Found at i:18621383 original size:16 final size:17
Alignment explanation
Indices: 18621351--18621388 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
18621341 AAACATTAAT
18621351 ATTCATATCATTAAAAA
1 ATTCATATCATTAAAAA
*
18621368 ATTCATATCATAAAAAA
1 ATTCATATCATTAAAAA
18621385 ATTC
1 ATTC
18621389 GATAACACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTCATATCATTAAAAA
Found at i:18624584 original size:3 final size:3
Alignment explanation
Indices: 18624576--18624612 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
18624566 AGTATAGAGT
*
18624576 ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
18624613 TGTACAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18627675 original size:28 final size:28
Alignment explanation
Indices: 18627638--18627694 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
18627628 TGAAACTTAT
18627638 TTGAATCAAGAAAAATGATCGTAAATTA
1 TTGAATCAAGAAAAATGATCGTAAATTA
18627666 TTGAATCAAGAAAAATGATCGTAAATTA
1 TTGAATCAAGAAAAATGATCGTAAATTA
18627694 T
1 T
18627695 GGTAATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (28 bp):
TTGAATCAAGAAAAATGATCGTAAATTA
Found at i:18630389 original size:52 final size:52
Alignment explanation
Indices: 18630311--18630466 Score: 312
Period size: 52 Copynumber: 3.0 Consensus size: 52
18630301 TCGCTCCCAA
18630311 ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAGGAGCATCAAGTT
1 ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAGGAGCATCAAGTT
18630363 ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAGGAGCATCAAGTT
1 ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAGGAGCATCAAGTT
18630415 ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAGGAGCATCAAGTT
1 ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAGGAGCATCAAGTT
18630467 CACTAATTTG
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (52 bp):
ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAGGAGCATCAAGTT
Found at i:18632083 original size:32 final size:33
Alignment explanation
Indices: 18632026--18632090 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
18632016 TCTGAGAAAA
*
18632026 CTAATAAGAAAATAAAAAAATAGTGAAGAAGAT
1 CTAATAAGAAAATAAAAAAACAGTGAAGAAGAT
*
18632059 CTAATAAGAACAT-AAAAAACAGTGAAGAAGAT
1 CTAATAAGAAAATAAAAAAACAGTGAAGAAGAT
18632091 TAAAAGGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.17
Consensus pattern (33 bp):
CTAATAAGAAAATAAAAAAACAGTGAAGAAGAT
Found at i:18637450 original size:24 final size:23
Alignment explanation
Indices: 18637419--18637464 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
18637409 TATACATACC
*
18637419 TTATTATATATCTTTATATCTTA
1 TTATTATATATCTATATATCTTA
*
18637442 TTATGTATATATCTATATCTCTT
1 TTAT-TATATATCTATATATCTT
18637465 TTTAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATTATATATCTATATATCTTA
Found at i:18637792 original size:19 final size:19
Alignment explanation
Indices: 18637759--18637819 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
18637749 TATTTTTATA
*
18637759 TATATATTT-ATATATTCTT
1 TATATATTTAAAATATT-TT
18637778 TATAT-TTTAAAATATATTT
1 TATATATTTAAAATAT-TTT
* *
18637797 TATATATTTTATATATTTT
1 TATATATTTAAAATATTTT
18637816 TATA
1 TATA
18637820 ATTCACATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.08
19 24 0.67
20 9 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATATTTAAAATATTTT
Found at i:18637792 original size:21 final size:21
Alignment explanation
Indices: 18637768--18637819 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
18637758 ATATATATTT
18637768 ATATATTCTT-TATATTTTAAA
1 ATATATT-TTATATATTTTAAA
*
18637789 ATATATTTTATATATTTT-AT
1 ATATATTTTATATATTTTAAA
18637809 ATAT-TTTTATA
1 ATATATTTTATA
18637820 ATTCACATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.24
20 7 0.24
21 15 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATATTTTATATATTTTAAA
Found at i:18637905 original size:21 final size:21
Alignment explanation
Indices: 18637881--18637921 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18637871 TCTTTACATT
18637881 TTTTATTGT-ATTCATTATTTA
1 TTTTATTGTCATT-ATTATTTA
*
18637902 TTTTATTTTCATTATTATTT
1 TTTTATTGTCATTATTATTT
18637922 TGAATGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTATTGTCATTATTATTTA
Found at i:18642438 original size:16 final size:16
Alignment explanation
Indices: 18642409--18642450 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
18642399 TACATAATAT
* *
18642409 ATTATTAATTAATAAA
1 ATTATAAATCAATAAA
18642425 ATTATAAATCAATAAA
1 ATTATAAATCAATAAA
18642441 ATTATTAAAT
1 ATTA-TAAAT
18642451 ATAACTGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATAAATCAATAAA
Found at i:18642517 original size:15 final size:15
Alignment explanation
Indices: 18642505--18642534 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18642495 AATATAATTT
18642505 TGTAATAATTAATAA
1 TGTAATAATTAATAA
*
18642520 TGTTATAATTAATAA
1 TGTAATAATTAATAA
18642535 AAATTAAATG
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:0.07, T:0.43
Consensus pattern (15 bp):
TGTAATAATTAATAA
Found at i:18647520 original size:19 final size:19
Alignment explanation
Indices: 18647480--18647523 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
18647470 TCCTCAACTC
*
18647480 ATTGTGATTCTTTTTTTCT
1 ATTGTGATTCTTTGTTTCT
*
18647499 ATTGTGATTGTTATGTTT-T
1 ATTGTGATTCTT-TGTTTCT
18647518 ATTGTG
1 ATTGTG
18647524 GGATGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.14, C:0.05, G:0.18, T:0.64
Consensus pattern (19 bp):
ATTGTGATTCTTTGTTTCT
Found at i:18651110 original size:21 final size:22
Alignment explanation
Indices: 18651067--18651117 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
18651057 ATATAAATAA
*
18651067 AATAATAAATATGTAATTATAT
1 AATAATAAATATATAATTATAT
* *
18651089 AATAA-AAATATATATTTTTAT
1 AATAATAAATATATAATTATAT
18651110 ATATAATA
1 A-ATAATA
18651118 TTTTTAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 14 0.58
22 9 0.38
23 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATAATAAATATATAATTATAT
Found at i:18651119 original size:86 final size:86
Alignment explanation
Indices: 18650995--18651152 Score: 241
Period size: 86 Copynumber: 1.8 Consensus size: 86
18650985 ATGTTTGAGC
* *
18650995 AATTAATAATTAATAAATATATTTTTTTTAATTCATATTTTTAATTAATAACTCTTTTATTTATA
1 AATTAATAATTAATAAATATATTTTTTATAATTAATATTTTTAATTAATAACTCTTTTATTTATA
18651060 TAAATAAAATAATAAATATGT
66 TAAATAAAATAATAAATATGT
18651081 AATTATATAA-TAA-AAATATATATTTTTAT-ATATAATATTTTTAATTAATAACTCTTTTATTT
1 AATTA-ATAATTAATAAATATAT-TTTTTATAAT-TAATATTTTTAATTAATAACTCTTTTATTT
*
18651143 ATATATATAA
63 ATATAAATAA
18651153 TAAAAATTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
85 10 0.15
86 52 0.79
87 4 0.06
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.51
Consensus pattern (86 bp):
AATTAATAATTAATAAATATATTTTTTATAATTAATATTTTTAATTAATAACTCTTTTATTTATA
TAAATAAAATAATAAATATGT
Found at i:18651821 original size:40 final size:41
Alignment explanation
Indices: 18651737--18651823 Score: 106
Period size: 40 Copynumber: 2.1 Consensus size: 41
18651727 TGTAGGGCGT
* * *
18651737 GTTTTTAAACAAGTCAAGAGAAAACGCTTCCTGCAGGACGC
1 GTTTTCAAACAAGTCAAGAGAAAACGCTTCCTACAGGACAC
* *
18651778 GTTTTCAAACAAGTC-AGCA-AAAATGCTTCCTATAGGACAC
1 GTTTTCAAACAAGTCAAG-AGAAAACGCTTCCTACAGGACAC
18651818 GTTTTC
1 GTTTTC
18651824 TGTTTCCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 25 0.62
41 15 0.38
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (41 bp):
GTTTTCAAACAAGTCAAGAGAAAACGCTTCCTACAGGACAC
Found at i:18654507 original size:22 final size:23
Alignment explanation
Indices: 18654470--18654514 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
18654460 TAATTTATGG
18654470 CTCACATGCAATATACATTCTTGA
1 CTCACAT-CAATATACATTCTTGA
18654494 CTCACAT-AATATACATTCTTG
1 CTCACATCAATATACATTCTTG
18654515 CCTTGCATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.67
24 7 0.33
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (23 bp):
CTCACATCAATATACATTCTTGA
Found at i:18654523 original size:22 final size:22
Alignment explanation
Indices: 18654479--18654550 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
18654469 GCTCACATGC
**
18654479 AATATACATTCTTGACTCACAT
1 AATATACATTCTTGACTTGCAT
*
18654501 AATATACATTCTTGCCTTGCAT
1 AATATACATTCTTGACTTGCAT
* * *
18654523 AGTACAC-TTACTTGACTTGCAA
1 AATATACATT-CTTGACTTGCAT
18654545 AATATA
1 AATATA
18654551 GTGGTTTGCA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 2 0.05
22 38 0.95
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (22 bp):
AATATACATTCTTGACTTGCAT
Found at i:18654653 original size:22 final size:22
Alignment explanation
Indices: 18654570--18654660 Score: 67
Period size: 22 Copynumber: 4.0 Consensus size: 22
18654560 ATGTAATTCA
* *
18654570 TGACTTGCATAAAGTATACATTCT
1 TGACTTGCAT-AA-TACACATACT
* * * *
18654594 TGAATCGCATAATATACATTCT
1 TGACTTGCATAATACACATACT
* * *
18654616 TG-CCTCCTATAGTACACATACT
1 TGACTTGC-ATAATACACATACT
18654638 TGACTTGCATAATACACATACT
1 TGACTTGCATAATACACATACT
18654660 T
1 T
18654661 AACTCGTATA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
21 1 0.02
22 39 0.74
23 5 0.09
24 8 0.15
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (22 bp):
TGACTTGCATAATACACATACT
Found at i:18654671 original size:22 final size:22
Alignment explanation
Indices: 18654623--18654673 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
18654613 TCTTGCCTCC
* * *
18654623 TATAGTACACATACTTGACTTG
1 TATAATACACATACTTAACTCG
*
18654645 CATAATACACATACTTAACTCG
1 TATAATACACATACTTAACTCG
18654667 TATAATA
1 TATAATA
18654674 TAGTGGTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (22 bp):
TATAATACACATACTTAACTCG
Found at i:18654711 original size:103 final size:103
Alignment explanation
Indices: 18654604--18654802 Score: 292
Period size: 103 Copynumber: 1.9 Consensus size: 103
18654594 TGAATCGCAT
* * * * * *
18654604 AATATACATTCTTGCCTCCT-ATAGTACACATACTTGACTTGCATAATACACATACTTAACTCGT
1 AATATACATTCTTG-ATCCTCATAATACACATACTTGACTCGCATAACACACATACCTAACTCGC
18654668 ATAATATAGTGGTTCACATGTAATTTATGACTTATATGC
65 ATAATATAGTGGTTCACATGTAATTTATGACTTATATGC
* * *
18654707 AATATACGTTCTTGATTCTCATAATACACATGCTTGACTCGCATAACACACATACCTAACTCGCA
1 AATATACATTCTTGATCCTCATAATACACATACTTGACTCGCATAACACACATACCTAACTCGCA
*
18654772 TAATATAGTGGTTCGCATGTAATTTATGACT
66 TAATATAGTGGTTCACATGTAATTTATGACT
18654803 CGCATGCAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 3 0.04
103 82 0.96
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (103 bp):
AATATACATTCTTGATCCTCATAATACACATACTTGACTCGCATAACACACATACCTAACTCGCA
TAATATAGTGGTTCACATGTAATTTATGACTTATATGC
Found at i:18654713 original size:125 final size:125
Alignment explanation
Indices: 18654479--18654776 Score: 321
Period size: 125 Copynumber: 2.4 Consensus size: 125
18654469 GCTCACATGC
* * * * * * *
18654479 AATATACATTCTTGACTCACATAATATACATTCTTGCCTTGCATAGTACACTTACTTGACTTGCA
1 AATATACATTCTTGACTCACATAATACACATACTTGACTTGCATAATACACATACTTAACTCGCA
** *
18654544 AAATATAGTGGTTTGCATGTAATTCATGACTTGCATAAAGTATACATTCTTGAATCGCAT
66 AAATATAGTGGTTCACATGTAATTCATGACTTACATAAAGTATACATTCTTGAATCGCAT
* * *
18654604 AATATACATTCTTGCCTC-CTATAGTACACATACTTGACTTGCATAATACACATACTTAACTCGT
1 AATATACATTCTTGACTCAC-ATAATACACATACTTGACTTGCATAATACACATACTTAACTCGC
* * * * * * *
18654668 ATAATATAGTGGTTCACATGTAATTTATGACTTATATGCAA-TATACGTTCTTGATTCTCAT
65 AAAATATAGTGGTTCACATGTAATTCATGACTTACAT-AAAGTATACATTCTTGAATCGCAT
* * * * * * *
18654729 AATACACATGCTTGACTCGCATAACACACATACCTAACTCGCATAATA
1 AATATACATTCTTGACTCACATAATACACATACTTGACTTGCATAATA
18654777 TAGTGGTTCG
Statistics
Matches: 142, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
124 1 0.01
125 138 0.97
126 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (125 bp):
AATATACATTCTTGACTCACATAATACACATACTTGACTTGCATAATACACATACTTAACTCGCA
AAATATAGTGGTTCACATGTAATTCATGACTTACATAAAGTATACATTCTTGAATCGCAT
Found at i:18654742 original size:22 final size:22
Alignment explanation
Indices: 18654717--18654774 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
18654707 AATATACGTT
* * *
18654717 CTTGATTCTCATAATACACATG
1 CTTGACTCGCATAACACACATG
*
18654739 CTTGACTCGCATAACACACATA
1 CTTGACTCGCATAACACACATG
* *
18654761 CCTAACTCGCATAA
1 CTTGACTCGCATAA
18654775 TATAGTGGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.09, T:0.28
Consensus pattern (22 bp):
CTTGACTCGCATAACACACATG
Found at i:18654810 original size:103 final size:103
Alignment explanation
Indices: 18654628--18654824 Score: 304
Period size: 103 Copynumber: 1.9 Consensus size: 103
18654618 CCTCCTATAG
* * * *
18654628 TACACATACTTGACTTGCATAATACACATACTTAACTCGTATAATATAGTGGTTCACATGTAATT
1 TACACATACTTGACTCGCATAACACACATACCTAACTCGCATAATATAGTGGTTCACATGTAATT
* *
18654693 TATGACTTATATGCAATATACGTTCTTGATTCTCATAA
66 TATGACTCACATGCAATATACGTTCTTGATTCTCATAA
* *
18654731 TACACATGCTTGACTCGCATAACACACATACCTAACTCGCATAATATAGTGGTTCGCATGTAATT
1 TACACATACTTGACTCGCATAACACACATACCTAACTCGCATAATATAGTGGTTCACATGTAATT
* *
18654796 TATGACTCGCATGCAATATTCGTTCTTGA
66 TATGACTCACATGCAATATACGTTCTTGA
18654825 CTCGCAAATA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (103 bp):
TACACATACTTGACTCGCATAACACACATACCTAACTCGCATAATATAGTGGTTCACATGTAATT
TATGACTCACATGCAATATACGTTCTTGATTCTCATAA
Found at i:18655014 original size:29 final size:29
Alignment explanation
Indices: 18654978--18655114 Score: 211
Period size: 29 Copynumber: 4.7 Consensus size: 29
18654968 CATGTTCACT
*
18654978 TATACTAGGGCTCGCACAACAACTTTACA
1 TATACTAGGGCTCGCACAACAGCTTTACA
* * *
18655007 TATACTAGTGCTCACACAATAGCTTTACA
1 TATACTAGGGCTCGCACAACAGCTTTACA
18655036 TATACTAGGGCTCGCACAACAGCTTTACA
1 TATACTAGGGCTCGCACAACAGCTTTACA
* * *
18655065 TATACTAGTGCTCACACAATAGCTTTACA
1 TATACTAGGGCTCGCACAACAGCTTTACA
18655094 TATACTAGGGCTCGCACAACA
1 TATACTAGGGCTCGCACAACA
18655115 AGGCTTGCAC
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (29 bp):
TATACTAGGGCTCGCACAACAGCTTTACA
Found at i:18655048 original size:58 final size:58
Alignment explanation
Indices: 18654978--18655115 Score: 267
Period size: 58 Copynumber: 2.4 Consensus size: 58
18654968 CATGTTCACT
18654978 TATACTAGGGCTCGCACAACAACTTTACATATACTAGTGCTCACACAATAGCTTTACA
1 TATACTAGGGCTCGCACAACAACTTTACATATACTAGTGCTCACACAATAGCTTTACA
*
18655036 TATACTAGGGCTCGCACAACAGCTTTACATATACTAGTGCTCACACAATAGCTTTACA
1 TATACTAGGGCTCGCACAACAACTTTACATATACTAGTGCTCACACAATAGCTTTACA
18655094 TATACTAGGGCTCGCACAACAA
1 TATACTAGGGCTCGCACAACAA
18655116 GGCTTGCACA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
58 78 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (58 bp):
TATACTAGGGCTCGCACAACAACTTTACATATACTAGTGCTCACACAATAGCTTTACA
Found at i:18662045 original size:22 final size:23
Alignment explanation
Indices: 18661998--18662045 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
18661988 TTGAAACTAT
**
18661998 TTTTGCTTTTATAATTCTAAGTA
1 TTTTGCTTTTATAATTCTAAACA
18662021 TTTTG-TTTTAT-ATTCTCAAACA
1 TTTTGCTTTTATAATTCT-AAACA
18662043 TTT
1 TTT
18662046 AATCTAAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 12 0.55
23 5 0.23
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.58
Consensus pattern (23 bp):
TTTTGCTTTTATAATTCTAAACA
Found at i:18662516 original size:20 final size:19
Alignment explanation
Indices: 18662470--18662516 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
18662460 TTTAATTTTT
18662470 AATTTT-TATATTTAAATA
1 AATTTTATATATTTAAATA
* * *
18662488 TAGTTTATATATTCTAATTA
1 AATTTTATATATT-TAAATA
18662508 AATTTTATA
1 AATTTTATA
18662517 AATAATTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
AATTTTATATATTTAAATA
Found at i:18662764 original size:13 final size:13
Alignment explanation
Indices: 18662743--18662806 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
18662733 ACACTCAAAT
*
18662743 TTCTTAAAAGCAC
1 TTCTCAAAAGCAC
*
18662756 TTCTCAAAAACAC
1 TTCTCAAAAGCAC
* *
18662769 TTTTGAAAAGCAC
1 TTCTCAAAAGCAC
18662782 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
18662795 TTCTCAAAAGCA
1 TTCTCAAAAGCA
18662807 ATGAAGAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.27
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:18668882 original size:27 final size:28
Alignment explanation
Indices: 18668843--18668901 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
18668833 TTGTAAATGG
* *
18668843 TTTATTTTAAGTTATTTTGTATATT-AT
1 TTTATTTTAAGTTACTTTATATATTAAT
*
18668870 TTTATTTCT-AGTTGCTTTATATATTAAT
1 TTTATTT-TAAGTTACTTTATATATTAAT
18668898 TTTA
1 TTTA
18668902 AAATTATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.64
Consensus pattern (28 bp):
TTTATTTTAAGTTACTTTATATATTAAT
Found at i:18668974 original size:4 final size:4
Alignment explanation
Indices: 18668965--18668993 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
18668955 TTTCACGTAC
18668965 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
18668994 TATCACTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:18669343 original size:23 final size:23
Alignment explanation
Indices: 18669317--18669362 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18669307 AATTTATTGT
18669317 TTATATTGATGATTTTAAATTTC
1 TTATATTGATGATTTTAAATTTC
18669340 TTATATTGATGATTTTAAATTTC
1 TTATATTGATGATTTTAAATTTC
18669363 CTTACTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (23 bp):
TTATATTGATGATTTTAAATTTC
Found at i:18674182 original size:20 final size:19
Alignment explanation
Indices: 18674157--18674226 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
18674147 TTATAAAAAC
18674157 ATTCAAAATAATTTTCACAA
1 ATTCAAAATAATTTTCA-AA
* *
18674177 ATTCAATATAATTTTTAAA
1 ATTCAAAATAATTTTCAAA
*
18674196 ATTCAAAAT-ATTTATAAAA
1 ATTCAAAATAATTT-TCAAA
*
18674215 ATTTAAAA-AATT
1 ATTCAAAATAATT
18674227 CTAAAGAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.09
19 24 0.56
20 15 0.35
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTCAAAATAATTTTCAAA
Found at i:18674199 original size:19 final size:19
Alignment explanation
Indices: 18674157--18674214 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
18674147 TTATAAAAAC
*
18674157 ATTCAAAATAATTTTCACAA
1 ATTCAAAATAATTTTTA-AA
*
18674177 ATTCAATATAATTTTTAAA
1 ATTCAAAATAATTTTTAAA
*
18674196 ATTCAAAAT-ATTTATAAA
1 ATTCAAAATAATTTTTAAA
18674214 A
1 A
18674215 ATTTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 15 0.44
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTCAAAATAATTTTTAAA
Found at i:18674217 original size:19 final size:20
Alignment explanation
Indices: 18674145--18674215 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
18674135 TCCTAACAAA
*
18674145 AATTATAAAAACATTCAAAAT
1 AATTTTAAAAA-ATTCAAAAT
* * *
18674166 AATTTTCACAAATTCAATAT
1 AATTTTAAAAAATTCAAAAT
*
18674186 AATTTT-TAAAATTCAAAAT
1 AATTTTAAAAAATTCAAAAT
18674205 -ATTTATAAAAA
1 AATTT-TAAAAA
18674216 TTTAAAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
18 4 0.10
19 11 0.28
20 17 0.43
21 8 0.20
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTTTAAAAAATTCAAAAT
Found at i:18675588 original size:144 final size:144
Alignment explanation
Indices: 18675404--18675694 Score: 530
Period size: 144 Copynumber: 2.0 Consensus size: 144
18675394 CAAGTTTTCA
*
18675404 GTATCAAATGTGTTCCATATGATGGCCCAATTACAAAAGATATCCCCTATTCAAGTATATCCAAA
1 GTATCAAATGTGTTCCATATGATGACCCAATTACAAAAGATATCCCCTATTCAAGTATATCCAAA
18675469 -AGAACACTTTCAGTTTTGCAACTAAATACAAAAAAGTTGTAAAGTAAAAGAAGTTGCAAATGAA
66 GA-AACACTTTCAGTTTTGCAACTAAATACAAAAAAGTTGTAAAGTAAAAGAAGTTGCAAATGAA
18675533 AGTATTCTAAAGTTT
130 AGTATTCTAAAGTTT
*
18675548 GTATCAAATGTGTTCCATATGATGACCTAATTACAAAAGATATCCCCTATTCAAGTATATCCAAA
1 GTATCAAATGTGTTCCATATGATGACCCAATTACAAAAGATATCCCCTATTCAAGTATATCCAAA
*
18675613 GAAACACTTTCAGTTTTGCAACTAAATACAAAAAAGTTGTAAAGTAGAAGAAGTTGCAAATGAAA
66 GAAACACTTTCAGTTTTGCAACTAAATACAAAAAAGTTGTAAAGTAAAAGAAGTTGCAAATGAAA
*
18675678 GTGTTCTAAAGTTT
131 GTATTCTAAAGTTT
18675692 GTA
1 GTA
18675695 AAACTTTGTA
Statistics
Matches: 142, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
144 141 0.99
145 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (144 bp):
GTATCAAATGTGTTCCATATGATGACCCAATTACAAAAGATATCCCCTATTCAAGTATATCCAAA
GAAACACTTTCAGTTTTGCAACTAAATACAAAAAAGTTGTAAAGTAAAAGAAGTTGCAAATGAAA
GTATTCTAAAGTTT
Found at i:18679761 original size:49 final size:48
Alignment explanation
Indices: 18679603--18679786 Score: 149
Period size: 49 Copynumber: 3.8 Consensus size: 48
18679593 GGTATCCAGA
* *
18679603 TATGA-AGAGCCACTAGTAGGGCATGTTAGTTGCAAACCAGAATGGCAAA
1 TATGATAG-GCCACTAGTAGGGCATGTTAGTTGCTAACCAGAATGGC-AG
* * * * * * *
18679652 TGTGCTAGACTACT-GATAGGGCATGCTAGTTGCTAACCAG-GTGGGAG
1 TATGATAGGCCACTAG-TAGGGCATGTTAGTTGCTAACCAGAATGGCAG
* * *
18679699 AATATGATAGGCCACTGGTAGGGCATATTAGTTGCTAACCAGATTGGCATG
1 --TATGATAGGCCACTAGTAGGGCATGTTAGTTGCTAACCAGAATGGCA-G
* * * *
18679750 TATGTTGGGCCACTAGTAGGACATGTTAGTTGTTAAC
1 TATGATAGGCCACTAGTAGGGCATGTTAGTTGCTAAC
18679787 TAGGTTGATG
Statistics
Matches: 105, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 92 0.88
50 7 0.07
51 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (48 bp):
TATGATAGGCCACTAGTAGGGCATGTTAGTTGCTAACCAGAATGGCAG
Found at i:18679780 original size:98 final size:98
Alignment explanation
Indices: 18679602--18679791 Score: 213
Period size: 98 Copynumber: 1.9 Consensus size: 98
18679592 CGGTATCCAG
* * *
18679602 ATATGAAGAGCCACTAGTAGGGCATGTTAGTTGCAAACCAGAATGGCAAATGTGCTAGACTACTG
1 ATATGAAGAGCCACTAGTAGGGCATATTAGTTGCAAACCAGAATGGCAAATATGCTAGACCACTG
*
18679667 ATAGGGCATGCTAGTTGCTAACCAGGTGGGAGA
66 ATAGGACATGCTAGTTGCTAACCAGGTGGGAGA
* * * ** * * *
18679700 ATATGATAG-GCCACTGGTAGGGCATATTAGTTGCTAACCAGATTGGCATGTATGTTGGGCCACT
1 ATATGA-AGAGCCACTAGTAGGGCATATTAGTTGCAAACCAGAATGGCAAATATGCTAGACCACT
* * *
18679764 -AGTAGGACATGTTAGTTGTTAACTAGGT
65 GA-TAGGACATGCTAGTTGCTAACCAGGT
18679792 TGATGGCCAC
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
97 1 0.01
98 72 0.96
99 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (98 bp):
ATATGAAGAGCCACTAGTAGGGCATATTAGTTGCAAACCAGAATGGCAAATATGCTAGACCACTG
ATAGGACATGCTAGTTGCTAACCAGGTGGGAGA
Found at i:18680114 original size:48 final size:48
Alignment explanation
Indices: 18680036--18680164 Score: 204
Period size: 48 Copynumber: 2.7 Consensus size: 48
18680026 AAGAAATGAT
* * *
18680036 TTGAAAAGAGTAAGTTAATATCAATTTGTATGTGATATATGTTATGTA
1 TTGAAAAGAGTAAGTTAATATGACTCTGTATGTGATATATGTTATGTA
* *
18680084 TTGAAAAGGGTAAGTTAATATGACTCTGTATATGATATATGTTATGTA
1 TTGAAAAGAGTAAGTTAATATGACTCTGTATGTGATATATGTTATGTA
*
18680132 TTGAAAAGAGTAAGTTAATATGACTCTATATGT
1 TTGAAAAGAGTAAGTTAATATGACTCTGTATGT
18680165 TTTGAATGTT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (48 bp):
TTGAAAAGAGTAAGTTAATATGACTCTGTATGTGATATATGTTATGTA
Found at i:18680174 original size:48 final size:47
Alignment explanation
Indices: 18680036--18680180 Score: 175
Period size: 48 Copynumber: 3.0 Consensus size: 47
18680026 AAGAAATGAT
* * * * *
18680036 TTGAAAAGAGTAAGTTAATATCAATTTGTATGTGATATATGTTATGTA
1 TTGAAAAGAGTAAGTTAATATGACTCTATATGTTATA-ATGTTATGTA
* *
18680084 TTGAAAAGGGTAAGTTAATATGACTCTGTATATGATAT-ATGTTATGTA
1 TTGAAAAGAGTAAGTTAATATGACTC--TATATGTTATAATGTTATGTA
*
18680132 TTGAAAAGAGTAAGTTAATATGACTCTATATGTTTTGAATGTTATGTA
1 TTGAAAAGAGTAAGTTAATATGACTCTATATGTTAT-AATGTTATGTA
18680180 T
1 T
18680181 AATTACTGAC
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
46 8 0.10
48 68 0.82
50 7 0.08
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.41
Consensus pattern (47 bp):
TTGAAAAGAGTAAGTTAATATGACTCTATATGTTATAATGTTATGTA
Found at i:18687479 original size:15 final size:16
Alignment explanation
Indices: 18687454--18687489 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
18687444 TAAGTGAAAG
18687454 AAAATATTTTATGTTA
1 AAAATATTTTATGTTA
*
18687470 AAAATA-TTTATTTTA
1 AAAATATTTTATGTTA
18687485 AAAAT
1 AAAAT
18687490 TTATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
AAAATATTTTATGTTA
Found at i:18687493 original size:13 final size:14
Alignment explanation
Indices: 18687454--18687495 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
18687444 TAAGTGAAAG
*
18687454 AAAATATTTTATGTTA
1 AAAATA-TTTAT-TTT
18687470 AAAATATTTATTTT
1 AAAATATTTATTTT
18687484 AAAA-ATTTATTT
1 AAAATATTTATTT
18687496 AATAATGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 6 0.24
15 5 0.20
16 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
AAAATATTTATTTT
Found at i:18688471 original size:9 final size:8
Alignment explanation
Indices: 18688448--18688473 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18688438 TAATTAATTC
18688448 TTTAAAAA
1 TTTAAAAA
18688456 TTTAAAAA
1 TTTAAAAA
18688464 TTTAAAAA
1 TTTAAAAA
18688472 TT
1 TT
18688474 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTTAAAAA
Found at i:18689158 original size:21 final size:20
Alignment explanation
Indices: 18689132--18689195 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
18689122 AATAATTTTC
18689132 AAAATTTTAAAACATTTATAA
1 AAAATTTTAAAA-ATTTATAA
*
18689153 AAAATTCTAAAGAATATT-TAAA
1 AAAATTTTAAA-AAT-TTAT-AA
*
18689175 AAAAATTTAAAAATTT-TAA
1 AAAATTTTAAAAATTTATAA
18689194 AA
1 AA
18689196 CTTTGCAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 4 0.11
20 3 0.08
21 16 0.43
22 14 0.38
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAATTTTAAAAATTTATAA
Found at i:18689177 original size:23 final size:21
Alignment explanation
Indices: 18689132--18689195 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 21
18689122 AATAATTTTC
* * *
18689132 AAAATTTTAAAACATTTATAA
1 AAAATTTAAAAATATTTAAAA
18689153 AAAATTCTAAAGAATATTTAAAA
1 AAAATT-TAAA-AATATTTAAAA
18689176 AAAATTTAAAAAT-TTTAAAA
1 AAAATTTAAAAATATTTAAAA
18689196 CTTTGCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
20 7 0.18
21 9 0.24
22 7 0.18
23 15 0.39
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAATTTAAAAATATTTAAAA
Found at i:18689182 original size:11 final size:11
Alignment explanation
Indices: 18689140--18689187 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
18689130 TCAAAATTTT
* *
18689140 AAAACATTTAT
1 AAAAAATTTAA
18689151 AAAAAATTCTAA
1 AAAAAATT-TAA
* *
18689163 AGAATATTTAA
1 AAAAAATTTAA
18689174 AAAAAATTTAA
1 AAAAAATTTAA
18689185 AAA
1 AAA
18689188 TTTTAAAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 22 0.73
12 8 0.27
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (11 bp):
AAAAAATTTAA
Found at i:18689192 original size:9 final size:9
Alignment explanation
Indices: 18689125--18689195 Score: 52
Period size: 9 Copynumber: 7.1 Consensus size: 9
18689115 AAAATAAAAT
*
18689125 AATTTTCAA
1 AATTTTAAA
18689134 AATTTTAAA
1 AATTTTAAA
18689143 ACATTTATAAAA
1 A-ATTT-T-AAA
*
18689155 AATTCTAAA
1 AATTTTAAA
18689164 GAATATTTAAAAA
1 -AAT-TTT--AAA
*
18689177 AAATTTAAA
1 AATTTTAAA
18689186 AATTTTAAA
1 AATTTTAAA
18689195 A
1 A
18689196 CTTTGCAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
9 24 0.48
10 8 0.16
11 9 0.18
12 6 0.12
13 3 0.06
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (9 bp):
AATTTTAAA
Found at i:18690671 original size:114 final size:112
Alignment explanation
Indices: 18690310--18690671 Score: 399
Period size: 113 Copynumber: 3.2 Consensus size: 112
18690300 CCTCAACAAC
* * *
18690310 TAGTGGCGTTTCTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTGTAAGCGCCGCA
1 TAGTGGCGTTTC-GATAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTGTAAGCGCCGCA
* * *
18690375 AAATACCTTAACCAAAATGCAGCGTTTGG-TTCAATTGTATATTAGAAT
65 AAATACCTTAACCAAAACGCAGCGTTTGGTTTCGA-GGTATATTAGAAT
* * * * **
18690423 TAGTGGCGTTTTCGATAAGACGCCGCT-AAAGAATATTATTAGCGGCGTTTTACAAG-AAGCGCC
1 TAGTGGCG-TTTCGATAAAACGCCG-TAAAAGAACATAATTAGTGGCG-TTTA-TTGTAAGCGCC
* * * * *
18690486 GC-AAATATCTTAACGAAAACGCAGCGTTTGGTCTCGAGGTAGATTAGTAT
62 GCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTCGAGGTATATTAGAAT
** * *
18690536 TAGTGGCGTTTTTAAACAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGC
1 TAGTGGCGTTTCGATA-AAACGCCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGCGCCGC
* *
18690601 AAAATACCTTAACCAAAACGCAGCGCTTGGTTTTGAGGTATATTAGAAT
64 AAAATACCTTAACCAAAACGCAGCGTTTGGTTTCGAGGTATATTAGAAT
*
18690650 TAGTGGTGTTTACGATAAAACG
1 TAGTGGCGTTT-CGATAAAACG
18690672 AAGCAAATAT
Statistics
Matches: 201, Mismatches: 38, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
112 11 0.05
113 110 0.55
114 77 0.38
115 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (112 bp):
TAGTGGCGTTTCGATAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTGTAAGCGCCGCAA
AATACCTTAACCAAAACGCAGCGTTTGGTTTCGAGGTATATTAGAAT
Found at i:18690803 original size:188 final size:188
Alignment explanation
Indices: 18690486--18691130 Score: 654
Period size: 188 Copynumber: 3.3 Consensus size: 188
18690476 AAGAAGCGCC
*
18690486 GCAAATATCTTAACGAAAACGCAGCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGCGTTTTTAA
1 GCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGCGTTTTTAA
*
18690551 ACAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCA
66 ACAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCA
* **
18690616 AAACGCAGCGCTTGGTTTTGA-GGTATATTAGAATTAGTGGTGTTTACGATAAAACGAA
131 AAACGCAGCGCTTGG-ATCAATGGTATATTAGAATTAGTGGTGTTTACGATAAAACGAA
* * *
18690674 GCAAATATCTTAACGAAAATGCACCGTTTGGTCTTGAGGTAGATTAGTGTTAGTGGCGTTTTTAA
1 GCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGCGTTTTTAA
* * *
18690739 AGAAACGCCGTAAAAGAACATAATTAGTGGTGTTTACTTT-TAAGCGCCGTAAAATACCTTAACC
66 ACAAACGCCGTAAAAGAACATAATTAGTGGCGTTTA-TTTGTAAGCGCCGCAAAATACCTTAACC
* * * *
18690803 AAAACGCAGCGTTTGGATCAATTGTATATTAGAATTAGTGGTGTTTTCTATAAAACGCCGCTAAA
130 AAAACGCAGCGCTTGGATCAATGGTATATTAGAATTAGTGGTGTTTACGATAAAA---CG---AA
* * * *** * * *** *
18690868 GAATAGAATTAGCGGTGTATCACAAAAAGCGC-CGCAAAT-ATCT-TAACCAGAGGTAGATTAGT
1 G--CA-AA-TATC--T-TA--ACGAAAA-CGCAC-CGTTTGGTCTCGAGGTAGA-TTAG--T---
* *
18690930 ATTAGTGGCGTTTTTAAACAAACACCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCC
49 ATTAGTGGCGTTTTTAAACAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTAAGCGCC
* * * ** *
18690995 GCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGA-GGTATATTAGAATTAGTGGCGTTTAC
114 GCAAAATACCTTAACCAAAACGCAGCGCTTGG-ATCAATGGTATATTAGAATTAGTGGTGTTTAC
* **
18691059 GATAAAATGCC
178 GATAAAACGAA
* *
18691070 GCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAGTTTTAGTGGCGTTT
1 GCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGCGTTT
18691131 ATTTGTAAGC
Statistics
Matches: 369, Mismatches: 58, Indels: 60
0.76 0.12 0.12
Matches are distributed among these distances:
187 2 0.01
188 174 0.47
189 3 0.01
191 3 0.01
192 5 0.01
193 13 0.04
194 7 0.02
195 2 0.01
196 2 0.01
197 2 0.01
198 6 0.02
199 2 0.01
200 2 0.01
201 2 0.01
202 5 0.01
203 13 0.04
204 4 0.01
205 2 0.01
207 3 0.01
208 115 0.31
209 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (188 bp):
GCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGCGTTTTTAA
ACAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCA
AAACGCAGCGCTTGGATCAATGGTATATTAGAATTAGTGGTGTTTACGATAAAACGAA
Found at i:18691184 original size:75 final size:75
Alignment explanation
Indices: 18690969--18691206 Score: 338
Period size: 75 Copynumber: 3.2 Consensus size: 75
18690959 AAAGAACATC
18690969 ATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAG
1 ATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAG
18691034 GTATATTAGA
66 GTATATTAGA
* ** * * * *
18691044 ATTAGTGGCGTTTA--CGATAAAATGCCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTG
1 ATTAGTGGCGTTTATTTG-T-AAGCGCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTG
* *
18691106 AGGTAGATTAGT
64 AGGTATATTAGA
* *
18691118 TTTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAG
1 ATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAG
18691183 GTATATTAGA
66 GTATATTAGA
18691193 ATTAGTGGCGTTTA
1 ATTAGTGGCGTTTA
18691207 AGGTGAAACG
Statistics
Matches: 138, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
73 1 0.01
74 61 0.44
75 75 0.54
76 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (75 bp):
ATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAG
GTATATTAGA
Found at i:18691640 original size:7 final size:7
Alignment explanation
Indices: 18691630--18691666 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
18691620 GGTTTATAGA
18691630 TTAGGGG
1 TTAGGGG
18691637 TTAGGGG
1 TTAGGGG
18691644 TTAGGGG
1 TTAGGGG
18691651 TTA--GG
1 TTAGGGG
18691656 TTAGGGG
1 TTAGGGG
18691663 TTAG
1 TTAG
18691667 ATGTTAAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.18
7 23 0.82
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:18691659 original size:12 final size:12
Alignment explanation
Indices: 18691630--18691666 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
18691620 GGTTTATAGA
18691630 TTAGGGGTTAGGGG
1 TTAGGGGTTA--GG
18691644 TTAGGGGTTAGG
1 TTAGGGGTTAGG
18691656 TTAGGGGTTAG
1 TTAGGGGTTAG
18691667 ATGTTAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 13 0.57
14 10 0.43
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.32
Consensus pattern (12 bp):
TTAGGGGTTAGG
Found at i:18691672 original size:19 final size:20
Alignment explanation
Indices: 18691635--18691682 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
18691625 ATAGATTAGG
*
18691635 GGTTAGGGGTTAGGGGTT-A
1 GGTTAGGGGTTAGAGGTTAA
*
18691654 GGTTAGGGGTTAGATGTTAA
1 GGTTAGGGGTTAGAGGTTAA
18691674 GAGTTAGGG
1 G-GTTAGGG
18691683 ATTTAGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.64
20 2 0.08
21 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.31
Consensus pattern (20 bp):
GGTTAGGGGTTAGAGGTTAA
Found at i:18691672 original size:26 final size:26
Alignment explanation
Indices: 18691630--18691681 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18691620 GGTTTATAGA
* * *
18691630 TTAGGGGTTAGGGGTTAGGGGTTAGG
1 TTAGGGGTTAGAGGTTAAGAGTTAGG
*
18691656 TTAGGGGTTAGATGTTAAGAGTTAGG
1 TTAGGGGTTAGAGGTTAAGAGTTAGG
18691682 GATTTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (26 bp):
TTAGGGGTTAGAGGTTAAGAGTTAGG
Found at i:18691778 original size:7 final size:7
Alignment explanation
Indices: 18691766--18691841 Score: 57
Period size: 7 Copynumber: 10.9 Consensus size: 7
18691756 TAAATAAGGT
18691766 TTAGGGG
1 TTAGGGG
18691773 TTAGGGG
1 TTAGGGG
*
18691780 TTAGTGG
1 TTAGGGG
*
18691787 TTAGAGG
1 TTAGGGG
*
18691794 TTATGGG
1 TTAGGGG
*
18691801 TTAAGGGT
1 TT-AGGGG
*
18691809 TTA-AGG
1 TTAGGGG
*
18691815 TTAAGGGT
1 TT-AGGGG
18691823 TTA-GGG
1 TTAGGGG
*
18691829 TTAAGGG
1 TTAGGGG
18691836 TTAGGG
1 TTAGGG
18691842 ATTGGGTTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
6 8 0.15
7 37 0.70
8 8 0.15
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:18691790 original size:21 final size:20
Alignment explanation
Indices: 18691766--18691850 Score: 68
Period size: 21 Copynumber: 4.2 Consensus size: 20
18691756 TAAATAAGGT
*
18691766 TTAGGGGTTAGGGGTTAGTGG
1 TTAGAGGTTAGGGGTTAG-GG
*
18691787 TTAGAGGTTATGGGTTAAGGG
1 TTAGAGGTTAGGGGTT-AGGG
*
18691808 TTTA-AGGTTAAGGGTTTAGGG
1 -TTAGAGGTT-AGGGGTTAGGG
*
18691829 TTA-AGGGTTAGGGATT-GGG
1 TTAGA-GGTTAGGGGTTAGGG
18691848 TTA
1 TTA
18691851 TGGTTTAAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.11
20 10 0.18
21 29 0.53
22 10 0.18
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (20 bp):
TTAGAGGTTAGGGGTTAGGG
Found at i:18692091 original size:21 final size:21
Alignment explanation
Indices: 18692038--18692091 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
18692028 TAAAGATTAT
18692038 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
18692059 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
18692080 TAATTTAAAATT
1 TAATTTAAAATT
18692092 GTAACAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:18692120 original size:20 final size:20
Alignment explanation
Indices: 18692086--18692130 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
18692076 ATAATAATTT
**
18692086 AAAATTGTAACAATTGTAAA
1 AAAATTGTAACAATTACAAA
18692106 AAAATTGTCAA-AATTACAAA
1 AAAATTGT-AACAATTACAAA
18692126 AAAAT
1 AAAAT
18692131 GAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (20 bp):
AAAATTGTAACAATTACAAA
Found at i:18692206 original size:47 final size:47
Alignment explanation
Indices: 18692154--18692245 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 47
18692144 AAAAAAGAAA
** **
18692154 TAAAAAACTAAAATTTTTATTTTTACCTAATTTTTATAAATATTACT
1 TAAAAAACTAAAATTGATAAATTTACCTAATTTTTATAAATATTACT
* * * *
18692201 TAAAAAACTGAGATTGATAAATTTATCTAATTTTTTTAAATATTA
1 TAAAAAACTAAAATTGATAAATTTACCTAATTTTTATAAATATTA
18692246 ACGAAATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (47 bp):
TAAAAAACTAAAATTGATAAATTTACCTAATTTTTATAAATATTACT
Found at i:18692772 original size:198 final size:198
Alignment explanation
Indices: 18692522--18692947 Score: 685
Period size: 198 Copynumber: 2.2 Consensus size: 198
18692512 GCCTAATATT
* * * * * *
18692522 TAGTGGCGCTTATGTATAAATGCCGCAATTTACAGAAATTGTTTAGGAAAACGGCTCCATTTTCT
1 TAGTGGCGCTTGTATATAAACGCCGCAAATTACAGAAATTGTTTAAGAAAACGACTCCATTTTCT
18692587 TATTTAAC-TTTAGTGGCGCTTTTAGTAAACGCCGC-AAAATGGTTTTAATTTTTATGGAGACGA
66 TATTT-ACTTTTAGTGGCGCTTTTAGTAAACGCCGCAAAAAT-GTTTTAATTTTTATGGAGACGA
* * * *
18692650 TGCCGTTTTCTCTAAAACGCCATGAGTTTTAGTTAACTAATCGGGAAACGACAGCGTTTGATCAT
129 TGCCGTTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGAGAAACGACAGCGTTTGATCAT
18692715 ATTAC
194 ATTAC
* *
18692720 TAGTGGCGCTGGTATATAAACGCCGCAAATTACAGAAATTGTTTAAGAAAACGACTTCATTTTCT
1 TAGTGGCGCTTGTATATAAACGCCGCAAATTACAGAAATTGTTTAAGAAAACGACTCCATTTTCT
18692785 TATTTACTTTTAGTGGCGCTTTTAGTAAACGCCGCAAAAATGTTTTAATTTTTATGGAGACGATG
66 TATTTACTTTTAGTGGCGCTTTTAGTAAACGCCGCAAAAATGTTTTAATTTTTATGGAGACGATG
* *
18692850 CCGTTTTCTCTAAAATGCAATGACTTTGAGTTAACTGATCGAGAAACGACAGCGTTTGATCATAT
131 CCGTTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGAGAAACGACAGCGTTTGATCATAT
*
18692915 TAG
196 TAC
18692918 TAGTGGCGCTTGTATATAAACGCCGCAAAT
1 TAGTGGCGCTTGTATATAAACGCCGCAAAT
18692948 GGGTTAATTA
Statistics
Matches: 210, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
197 2 0.01
198 203 0.97
199 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (198 bp):
TAGTGGCGCTTGTATATAAACGCCGCAAATTACAGAAATTGTTTAAGAAAACGACTCCATTTTCT
TATTTACTTTTAGTGGCGCTTTTAGTAAACGCCGCAAAAATGTTTTAATTTTTATGGAGACGATG
CCGTTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGAGAAACGACAGCGTTTGATCATAT
TAC
Found at i:18694194 original size:18 final size:19
Alignment explanation
Indices: 18694171--18694214 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
18694161 CAGAAATTTC
*
18694171 TGTTTCTCTAGCA-TGTTA
1 TGTTTCTCTACCATTGTTA
* *
18694189 TGTTTCTGTACCATTTTTA
1 TGTTTCTCTACCATTGTTA
18694208 TGTTTCT
1 TGTTTCT
18694215 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (19 bp):
TGTTTCTCTACCATTGTTA
Found at i:18694230 original size:7 final size:7
Alignment explanation
Indices: 18694218--18694305 Score: 95
Period size: 7 Copynumber: 12.3 Consensus size: 7
18694208 TGTTTCTTTA
18694218 TTTTCTG
1 TTTTCTG
18694225 TTTTCTG
1 TTTTCTG
* *
18694232 TTTTATAT
1 TTTTCT-G
18694240 TTTTCTG
1 TTTTCTG
*
18694247 TTTTCTA
1 TTTTCTG
18694254 TTTTCTG
1 TTTTCTG
*
18694261 TGTTCTG
1 TTTTCTG
*
18694268 TTTTCTA
1 TTTTCTG
*
18694275 TTTTTTG
1 TTTTCTG
18694282 TTTTCTG
1 TTTTCTG
*
18694289 TTTTGCTA
1 TTTT-CTG
18694297 TTTTCTG
1 TTTTCTG
18694304 TT
1 TT
18694306 GAATGAAGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
7 54 0.83
8 11 0.17
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (7 bp):
TTTTCTG
Found at i:18694242 original size:21 final size:21
Alignment explanation
Indices: 18694218--18694305 Score: 113
Period size: 21 Copynumber: 4.1 Consensus size: 21
18694208 TGTTTCTTTA
* * *
18694218 TTTTCTGTTTTCTGTTTTATAT
1 TTTTCTGTTTTCTATTTTCT-G
18694240 TTTTCTGTTTTCTATTTTCTG
1 TTTTCTGTTTTCTATTTTCTG
* *
18694261 TGTTCTGTTTTCTATTTTTTG
1 TTTTCTGTTTTCTATTTTCTG
18694282 TTTTCTGTTTTGCTATTTTCTG
1 TTTTCTGTTTT-CTATTTTCTG
18694304 TT
1 TT
18694306 GAATGAAGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 29 0.50
22 29 0.50
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (21 bp):
TTTTCTGTTTTCTATTTTCTG
Found at i:18694267 original size:43 final size:43
Alignment explanation
Indices: 18694220--18694304 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
18694210 TTTCTTTATT
*
18694220 TTCTGTTTTCTGTTTTATAT-TTTTCTGTTTT-CTATTTTCTGTG
1 TTCTGTTTTCTATTTT-T-TGTTTTCTGTTTTGCTATTTTCTGTG
18694263 TTCTGTTTTCTATTTTTTGTTTTCTGTTTTGCTATTTTCTGT
1 TTCTGTTTTCTATTTTTTGTTTTCTGTTTTGCTATTTTCTGT
18694305 TGAATGAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 1 0.03
42 12 0.31
43 26 0.67
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (43 bp):
TTCTGTTTTCTATTTTTTGTTTTCTGTTTTGCTATTTTCTGTG
Found at i:18694770 original size:13 final size:13
Alignment explanation
Indices: 18694752--18694803 Score: 70
Period size: 13 Copynumber: 4.0 Consensus size: 13
18694742 ACTTATTACT
*
18694752 AATATATTACTTG
1 AATATATTACTTA
18694765 AATATATTACTTA
1 AATATATTACTTA
18694778 AATA-AGTTACTTA
1 AATATA-TTACTTA
*
18694791 AATACATTACTTA
1 AATATATTACTTA
18694804 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 1 0.03
13 34 0.94
14 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:18694840 original size:53 final size:53
Alignment explanation
Indices: 18694771--18695173 Score: 231
Period size: 53 Copynumber: 7.6 Consensus size: 53
18694761 CTTGAATATA
*
18694771 TTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
* * * * *
18694824 TTATTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
*** * * *
18694877 TTACTTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTTCA
1 TTACTTAAATATGTTACTTAAATACATTACTTACTA-AAATTT-CGT-TAAATTT-T
* * * * * * *
18694934 TTACTTAAATAAATATT-TTTAAGT--A-TA-TT--TTAGATGTC-TTACAATATTAA
1 TTACTTAAAT--ATGTTACTTAAATACATTACTTACTAAAATTTCGTTA-AAT-TT-T
* * * * * * * * *
18694984 TAAATAAAACATATTTTTTAC-TAAAT--TTTAC-T-CTTAATATATTAC-TTGAATATA
1 TTACT-TAA-ATA--TGTTACTTAAATACATTACTTAC-TAA-A-ATTTCGTTAAATTTT
* ** * *
18695038 TTACTTAAATAAGTTACTTAAATGGATTACTCACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
* * * *
18695091 TTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
18695144 TTACTTAAATATGTTACTTAAATACATTAC
1 TTACTTAAATATGTTACTTAAATACATTAC
18695174 CCGCTATAAA
Statistics
Matches: 263, Mismatches: 62, Indels: 50
0.70 0.17 0.13
Matches are distributed among these distances:
48 2 0.01
49 3 0.01
50 11 0.04
51 11 0.04
52 16 0.06
53 165 0.63
54 13 0.05
55 8 0.03
56 10 0.04
57 15 0.06
58 5 0.02
59 4 0.02
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
Found at i:18695037 original size:13 final size:13
Alignment explanation
Indices: 18695019--18695060 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
18695009 TTTTACTCTT
*
18695019 AATATATTACTTG
1 AATATATTACTTA
18695032 AATATATTACTTA
1 AATATATTACTTA
18695045 AATA-AGTTACTTA
1 AATATA-TTACTTA
18695058 AAT
1 AAT
18695061 GGATTACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 1 0.04
13 26 0.96
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:18695226 original size:267 final size:267
Alignment explanation
Indices: 18694751--18695474 Score: 1367
Period size: 267 Copynumber: 2.7 Consensus size: 267
18694741 AACTTATTAC
18694751 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
1 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
*
18694816 TAAATTTTTTATTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
66 TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
*
18694881 TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTTCATTACTTAAATAA
131 TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTAAATAA
18694946 ATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAAAACATATTTTTTACTAAATT
196 ATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAAAACATATTTTTTACTAAATT
*
18695011 TTACTCT
261 TTAATCT
** * *
18695018 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATGGATTACTCACTAAAATTTGGT
1 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
18695083 TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
66 TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
18695148 TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTAAATAA
131 TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTAAATAA
18695213 ATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAAAACATATTTTTTACTAAATT
196 ATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAAAACATATTTTTTACTAAATT
18695278 TTAATCT
261 TTAATCT
*
18695285 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATCACTTACTAAAATTTCGT
1 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
18695350 TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
66 TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
*
18695415 TTAAGTATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTA
131 TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTA
18695475 CAGAACTTGT
Statistics
Matches: 444, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
267 444 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.45
Consensus pattern (267 bp):
TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTAAATAA
ATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAAAACATATTTTTTACTAAATT
TTAATCT
Found at i:18695304 original size:13 final size:13
Alignment explanation
Indices: 18695286--18695328 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
18695276 TTTTAATCTT
*
18695286 AATATATTACTTG
1 AATATATTACTTA
18695299 AATATATTACTTA
1 AATATATTACTTA
18695312 AATA-AGTTACTTA
1 AATATA-TTACTTA
18695325 AATA
1 AATA
18695329 CATCACTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 1 0.04
13 27 0.96
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:18695363 original size:53 final size:53
Alignment explanation
Indices: 18695305--18695437 Score: 203
Period size: 53 Copynumber: 2.5 Consensus size: 53
18695295 CTTGAATATA
* *
18695305 TTACTTAAATAAGTTACTTAAATACATCACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATCAATTACTAAAATTTCGTTAAATTTT
* * * *
18695358 TTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATCAATTACTAAAATTTCGTTAAATTTT
*
18695411 TTACTTAAGTATGTTACTTAAATACAT
1 TTACTTAAATATGTTACTTAAATACAT
18695438 TACCCGCTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 71 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.44
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATCAATTACTAAAATTTCGTTAAATTTT
Found at i:18695609 original size:9 final size:9
Alignment explanation
Indices: 18695585--18695826 Score: 150
Period size: 9 Copynumber: 27.8 Consensus size: 9
18695575 TATGTACAAG
18695585 AACTTACAT
1 AACTTACAT
* *
18695594 AATTTACAC
1 AACTTACAT
18695603 AACTTACAT
1 AACTTACAT
*
18695612 AACCTACAT
1 AACTTACAT
18695621 AACTTACAT
1 AACTTACAT
18695630 AA--TACA-
1 AACTTACAT
18695636 AAGCTTACAT
1 AA-CTTACAT
* *
18695646 AACTGAAAT
1 AACTTACAT
*
18695655 AGCTTACAT
1 AACTTACAT
18695664 AACTTACAT
1 AACTTACAT
*
18695673 AACTTACAG
1 AACTTACAT
* *
18695682 AAGTTATAT
1 AACTTACAT
18695691 AA--TACAT
1 AACTTACAT
18695698 AACAACTTAC--
1 ---AACTTACAT
18695708 AACTTACAT
1 AACTTACAT
*
18695717 AACATACAT
1 AACTTACAT
* **
18695726 TACTTTGAT
1 AACTTACAT
18695735 AACTTACAT
1 AACTTACAT
*
18695744 AAGTTACAT
1 AACTTACAT
*
18695753 AA--TACAC
1 AACTTACAT
18695760 AACTTACAT
1 AACTTACAT
** *
18695769 AGTTTACTT
1 AACTTACAT
*
18695778 AA--TACAA
1 AACTTACAT
*
18695785 AACTTAAAT
1 AACTTACAT
18695794 AACTT--AT
1 AACTTACAT
*
18695801 ACACGTACAT
1 A-ACTTACAT
18695811 AACTTACAT
1 AACTTACAT
*
18695820 AATTTAC
1 AACTTAC
18695827 TTAATACATA
Statistics
Matches: 176, Mismatches: 39, Indels: 36
0.70 0.16 0.14
Matches are distributed among these distances:
6 2 0.01
7 29 0.16
8 3 0.02
9 132 0.75
10 7 0.04
12 3 0.02
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:18695648 original size:34 final size:35
Alignment explanation
Indices: 18695585--18695680 Score: 108
Period size: 34 Copynumber: 2.7 Consensus size: 35
18695575 TATGTACAAG
*
18695585 AACTTACATAATTTACACAACTTACATAACCT-ACAT
1 AACTTACATAA-TTACACAACTTACATAA-CTGAAAT
18695621 AACTTACATAA-TACA-AAGCTTACATAACTGAAAT
1 AACTTACATAATTACACAA-CTTACATAACTGAAAT
* *
18695655 AGCTTACATAACTTACATAACTTACA
1 AACTTACATAA-TTACACAACTTACA
18695681 GAAGTTATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
33 4 0.08
34 26 0.49
36 21 0.40
37 2 0.04
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.29
Consensus pattern (35 bp):
AACTTACATAATTACACAACTTACATAACTGAAAT
Found at i:18695769 original size:25 final size:25
Alignment explanation
Indices: 18695735--18695834 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 25
18695725 TTACTTTGAT
*
18695735 AACTTACATAAGTTACATAATACAC
1 AACTTACATAAGTTACATAATACAA
*
18695760 AACTTACAT-AGTTTACTTAATACAA
1 AACTTACATAAG-TTACATAATACAA
* * * * * *
18695785 AACTTAAATAACTTATACACGTACAT
1 AACTTACATAAGTTACATA-ATACAA
* *
18695811 AACTTACATAATTTACTTAATACA
1 AACTTACATAAGTTACATAATACA
18695835 TAAATATATA
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
24 2 0.04
25 36 0.63
26 19 0.33
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (25 bp):
AACTTACATAAGTTACATAATACAA
Found at i:18701383 original size:12 final size:12
Alignment explanation
Indices: 18701366--18701405 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
18701356 AGCAGATGCC
18701366 GCAGCGAGAGAA
1 GCAGCGAGAGAA
18701378 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
18701390 GCAGCGATAGAA
1 GCAGCGAGAGAA
18701402 GCAG
1 GCAG
18701406 AGGTTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.40, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:18701969 original size:42 final size:42
Alignment explanation
Indices: 18701873--18702056 Score: 226
Period size: 42 Copynumber: 4.3 Consensus size: 42
18701863 CTTTTTGAAC
* * * * * *
18701873 AAGCACCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCCA
1 AAGCGCCGCTAAAGAACATGATCTTTT-GCGGCGTTTT-TTTCT
* *
18701916 AAACGCCGCTAAAGAATATGATCTTTTGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCT
18701958 AAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCT
* * *
18702000 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTGT
1 AAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTT-TCT
*
18702043 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
18702057 TTAGCGACGT
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 80 0.65
43 39 0.31
44 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCT
Found at i:18701991 original size:85 final size:85
Alignment explanation
Indices: 18701873--18702056 Score: 228
Period size: 85 Copynumber: 2.2 Consensus size: 85
18701863 CTTTTTGAAC
* * * *
18701873 AAGCACCGCTATAGAACATTACTTTTAGAGGCGTTTTCTTCCAAAACGCCGCTAAAGAATATGAT
1 AAGCGCCGCTAAAGAACATGACTTTTAGAGGCGTTTT-TTCCAAAACGCCGCTAAAGAACATGAT
*
18701938 CTTTTGCGGCGTTTTTT-TCT
65 CTTTAGCGGCGTTTTTTCTCT
* * * * *
18701958 AAGCGCCGCTAAAGAACATGATCTTTT-GCGGCGTTTTTTTCTAAGCGCTGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGA-CTTTTAGAGGCGTTTTTTCCAAAACGCCGCTAAAGAACATGAT
*
18702022 CTTTAGCGGCGTTTTTTCTGT
65 CTTTAGCGGCGTTTTTTCTCT
*
18702043 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
18702057 TTAGCGACGT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
84 38 0.45
85 42 0.49
86 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGAGGCGTTTTTTCCAAAACGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTCTCT
Found at i:18702159 original size:22 final size:22
Alignment explanation
Indices: 18702128--18702170 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18702118 TAGTGGCGTC
* *
18702128 AAAAAGCGCCGCTAAAGACTTA
1 AAAAAACGCCGCTAAAAACTTA
18702150 AAAAAACGCCGCTAAAAACTT
1 AAAAAACGCCGCTAAAAACTT
18702171 GTTCTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACTTA
Found at i:18705855 original size:57 final size:58
Alignment explanation
Indices: 18705793--18705911 Score: 143
Period size: 57 Copynumber: 2.1 Consensus size: 58
18705783 TCATTTTCAT
** * *
18705793 TTTTCATTTTAATTTTAGAGGAAACCACATTCATTTCCAAATGATT-CC-ATTTCTCCA
1 TTTTCATTTTAATTTTAGAAAAAACCACAATAATTTCCAAAT-ATTCCCTATTTCTCCA
* * * *
18705850 TTTTCATTTTTATTTTGGAAAAAACCATAATAATTTCCAAATCTTCCCTATTTCTCCA
1 TTTTCATTTTAATTTTAGAAAAAACCACAATAATTTCCAAATATTCCCTATTTCTCCA
18705908 TTTT
1 TTTT
18705912 ACCATTTCTA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
56 2 0.04
57 37 0.71
58 13 0.25
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.45
Consensus pattern (58 bp):
TTTTCATTTTAATTTTAGAAAAAACCACAATAATTTCCAAATATTCCCTATTTCTCCA
Found at i:18708487 original size:49 final size:49
Alignment explanation
Indices: 18708434--18708590 Score: 137
Period size: 49 Copynumber: 3.2 Consensus size: 49
18708424 AGCCACTTAG
*
18708434 GATGGTAGAATATGAAAATAGTGAAAGCTATCGTTGT-TGGACCATCC-GA
1 GATGGTAGAATATGAAAATAGTGAAAGCTATCGTTGTCAGG-CCA-CCTGA
* * *
18708483 GATGGTGGAGAAT-TG-AAATAGTGAAAGCCATTGTTGTCAGGCCACCTGG
1 GATGGT--AGAATATGAAAATAGTGAAAGCTATCGTTGTCAGGCCACCTGA
* * * *
18708532 GATGGTAGAATATGAAAACAGTAAAAG-TCATCGTTG-CTAAGCCACCCGA
1 GATGGTAGAATATGAAAATAGTGAAAGCT-ATCGTTGTC-AGGCCACCTGA
*
18708581 GATGATAGAA
1 GATGGTAGAA
18708591 CATTCAAATT
Statistics
Matches: 88, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
47 5 0.06
48 5 0.06
49 69 0.78
50 4 0.05
51 5 0.06
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (49 bp):
GATGGTAGAATATGAAAATAGTGAAAGCTATCGTTGTCAGGCCACCTGA
Found at i:18708508 original size:98 final size:98
Alignment explanation
Indices: 18708379--18708567 Score: 224
Period size: 98 Copynumber: 1.9 Consensus size: 98
18708369 TTTTCGGGTT
* *
18708379 ATCCAAGATGGTAGAAAATCGAAATACTGAAAGTCATCATT-TT-TTA-GCCACTTAGGATGGTA
1 ATCCAAGATGGTAGAAAATCGAAATACTGAAAG-C--CATTGTTGTCAGGCCACCTAGGATGGTA
* *
18708441 GAATATGAAAATAGTGAAAG-CTATCGTTGTTGGACC
63 GAATATGAAAACAGTAAAAGTC-ATCGTTGTTGGACC
* * * * * *
18708477 ATCCGAGATGGTGGAGAATTGAAATAGTGAAAGCCATTGTTGTCAGGCCACCTGGGATGGTAGAA
1 ATCCAAGATGGTAGAAAATCGAAATACTGAAAGCCATTGTTGTCAGGCCACCTAGGATGGTAGAA
18708542 TATGAAAACAGTAAAAGTCATCGTTG
66 TATGAAAACAGTAAAAGTCATCGTTG
18708568 CTAAGCCACC
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
95 4 0.05
96 2 0.03
97 3 0.04
98 67 0.87
99 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.26
Consensus pattern (98 bp):
ATCCAAGATGGTAGAAAATCGAAATACTGAAAGCCATTGTTGTCAGGCCACCTAGGATGGTAGAA
TATGAAAACAGTAAAAGTCATCGTTGTTGGACC
Found at i:18711891 original size:20 final size:20
Alignment explanation
Indices: 18711848--18711892 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
18711838 TTGTTTAATC
* ** *
18711848 TTTTCTTTACCTAATTTTCT
1 TTTTATTTACCTAATTACCA
18711868 TTTTATTTACCTAATTACCA
1 TTTTATTTACCTAATTACCA
18711888 TTTTA
1 TTTTA
18711893 ACCTTATTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATTTACCTAATTACCA
Found at i:18714959 original size:547 final size:545
Alignment explanation
Indices: 18713927--18715022 Score: 2084
Period size: 547 Copynumber: 2.0 Consensus size: 545
18713917 AAATGACACT
*
18713927 ACAAGGACCTCATTATCATAGACAGTGAGTAGGGTCGAAAAATTATTAAAAGCATCAAAAGAAAA
1 ACAAGGACCTCATTATCATAGACAGTGAGTAGGGCCGAAAAATTATTAAAAGCATCAAAAGAAAA
*
18713992 ATTTTGGGAACATGAAAATAAACTTGTAAAATAGGAAATTACAGTACTATTTATACTCACTCCAC
66 ATTTTGGGAACATGAAAATAAACTTGTAAAATAGGAAATTACAATACTATTTATACTCACTCCAC
18714057 CTTTTTTATAATTGTTTAATTTTTTATTAAAGATATAAGTTTGTATTATTTTTTACGGCTAATAT
131 CTTTTTTATAATTGTTTAATTTTTTATTAAAGATATAAGTTTGTATTATTTTTTACGGCTAATAT
*
18714122 TTGATGCATTGGTGACGAATGATTTTTTACATCATTAGTGGATCAAATAATGTCCTGTCATTAGA
196 TTGATGCATTGGTGACGAATGATTTTTTACATCATTAGTGGATCAAATAATGTCATGTCATTAGA
18714187 AATAAAGTTAATATTAAAATTTTCCAATAACATGTCATTAATTGATTCACTAATGGTTTATAAAA
261 AATAAAGTTAATATTAAAATTTTCCAATAACATGTCATTAATTGATTCACTAATGGTTTATAAAA
18714252 TCACATACCCTCAATGCATCAAATTAAATTATTTTTTAATAAAAAAGGAAAATAAAAAAATTTAA
326 TCACATACCCTCAATGCATCAAATTAAATTATTTTTTAATAAAAAAGGAAAATAAAAAAATTTAA
18714317 CAAAACATATTTTTTATTTTTTGTAATAAAAAGGACAAATACCCTAAGCTATTGTTTGAAAATTA
391 CAAAACATATTTTTTATTTTTTGTAATAAAAAGGACAAATACCCTAAGCTATTGTTTGAAAATTA
18714382 ACACAATTTCTTGAATAAGTCACCCCTAGCAAAAGGTGGTTTTAGATGATTTCACGGAATACAAA
456 ACACAATTTCTTGAATAAGTCACCCCTAGCAAAAGGTGGTTTTAGATGATTTCACGGAATACAAA
18714447 TTTACATGCAAGTCAAAAGAATCAA
521 TTTACATGCAAGTCAAAAGAATCAA
* *
18714472 ACAAGGACCTTATTATCATAGACAGTGAGTAGGGCCGAAAAATTATTAAAAGCATCAAAAGAAAC
1 ACAAGGACCTCATTATCATAGACAGTGAGTAGGGCCGAAAAATTATTAAAAGCATCAAAAGAAAA
18714537 ATTTTGGGAACATGAAAATAAACTTGTAAAATAGGAAATTACAATACTATTTATACTCACTCCAC
66 ATTTTGGGAACATGAAAATAAACTTGTAAAATAGGAAATTACAATACTATTTATACTCACTCCAC
*
18714602 CTTTTTTATAATTGTTTAATTTTTTTTATTAAAGATATAAGTTTGTATTATTTTTTAGGGCTAAT
131 CTTTTTTATAATTGTTTAA--TTTTTTATTAAAGATATAAGTTTGTATTATTTTTTACGGCTAAT
*
18714667 ATTTGTTGCATTGGTGACGAATGATTTTTTACATCATTAGTGGATCAAATAATGTCATGTCATTA
194 ATTTGATGCATTGGTGACGAATGATTTTTTACATCATTAGTGGATCAAATAATGTCATGTCATTA
18714732 GAAATAAAGTTAATATTAAAATTTTCCAATAACATGTCATTAATTGATTCACTAATGGTTTATAA
259 GAAATAAAGTTAATATTAAAATTTTCCAATAACATGTCATTAATTGATTCACTAATGGTTTATAA
*
18714797 AATCACATACCCTCAATGCATCAAATTAAATTATTTTTTAATAAAAGAGGAAAATAAAAAAATTT
324 AATCACATACCCTCAATGCATCAAATTAAATTATTTTTTAATAAAAAAGGAAAATAAAAAAATTT
18714862 AACAAAACATATTTTTTATTTTTTGTAATAAAAAGGACAAATACCCTAAGCTATTGTTTGAAAAT
389 AACAAAACATATTTTTTATTTTTTGTAATAAAAAGGACAAATACCCTAAGCTATTGTTTGAAAAT
*
18714927 TAACACAATTTCTTGGATAAGTCACCCCTAGCAAAAGGTGGTTTTAGATGATTTCACGGAATACA
454 TAACACAATTTCTTGAATAAGTCACCCCTAGCAAAAGGTGGTTTTAGATGATTTCACGGAATACA
*
18714992 AATTTACATTCAAGTCAAAAGAATCAA
519 AATTTACATGCAAGTCAAAAGAATCAA
18715019 ACAA
1 ACAA
18715023 TTTTAACATA
Statistics
Matches: 539, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
545 145 0.27
547 394 0.73
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (545 bp):
ACAAGGACCTCATTATCATAGACAGTGAGTAGGGCCGAAAAATTATTAAAAGCATCAAAAGAAAA
ATTTTGGGAACATGAAAATAAACTTGTAAAATAGGAAATTACAATACTATTTATACTCACTCCAC
CTTTTTTATAATTGTTTAATTTTTTATTAAAGATATAAGTTTGTATTATTTTTTACGGCTAATAT
TTGATGCATTGGTGACGAATGATTTTTTACATCATTAGTGGATCAAATAATGTCATGTCATTAGA
AATAAAGTTAATATTAAAATTTTCCAATAACATGTCATTAATTGATTCACTAATGGTTTATAAAA
TCACATACCCTCAATGCATCAAATTAAATTATTTTTTAATAAAAAAGGAAAATAAAAAAATTTAA
CAAAACATATTTTTTATTTTTTGTAATAAAAAGGACAAATACCCTAAGCTATTGTTTGAAAATTA
ACACAATTTCTTGAATAAGTCACCCCTAGCAAAAGGTGGTTTTAGATGATTTCACGGAATACAAA
TTTACATGCAAGTCAAAAGAATCAA
Found at i:18717166 original size:26 final size:26
Alignment explanation
Indices: 18717137--18717228 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 26
18717127 ATCCTCTTTC
*
18717137 GAGCCATATAACAGGAAACTCACAAA
1 GAGCCATATAACAGGAAGCTCACAAA
*
18717163 GAGCTAT-TAATCAGGAAGCTCACAAA
1 GAGCCATATAA-CAGGAAGCTCACAAA
*
18717189 GAG-CATAT--CGGGAAGCTCACAAA
1 GAGCCATATAACAGGAAGCTCACAAA
18717212 GAGCC-TAT--CAGGAAGCT
1 GAGCCATATAACAGGAAGCT
18717229 TATCTGGGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
23 28 0.48
24 1 0.02
25 5 0.09
26 24 0.41
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (26 bp):
GAGCCATATAACAGGAAGCTCACAAA
Found at i:18717206 original size:23 final size:23
Alignment explanation
Indices: 18717148--18717228 Score: 108
Period size: 23 Copynumber: 3.4 Consensus size: 23
18717138 AGCCATATAA
*
18717148 CAGGAAACTCACAAAGAGCTATTAAT
1 CAGGAAGCTCACAAAGAGC-A-T-AT
18717174 CAGGAAGCTCACAAAGAGCATAT
1 CAGGAAGCTCACAAAGAGCATAT
* *
18717197 CGGGAAGCTCACAAAGAGCCTAT
1 CAGGAAGCTCACAAAGAGCATAT
18717220 CAGGAAGCT
1 CAGGAAGCT
18717229 TATCTGGGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 31 0.61
24 1 0.02
25 1 0.02
26 18 0.35
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (23 bp):
CAGGAAGCTCACAAAGAGCATAT
Found at i:18717318 original size:26 final size:26
Alignment explanation
Indices: 18717265--18717355 Score: 105
Period size: 26 Copynumber: 3.5 Consensus size: 26
18717255 ATAAGAGTCA
* * * *
18717265 TAATCAGGAAGTTCACAAAGAACTTT
1 TAATCAGGAAGCTCACGAAGAGCCTT
18717291 TAATCAGGAAGCTCACGAAGAGCCTT
1 TAATCAGGAAGCTCACGAAGAGCCTT
* *
18717317 TAAAT-GGGAAGCTCATGAAGAGCCTT
1 T-AATCAGGAAGCTCACGAAGAGCCTT
18717343 TAATCAGG-AGCTC
1 TAATCAGGAAGCTC
18717356 TGGATAGCCA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
25 8 0.14
26 45 0.80
27 3 0.05
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (26 bp):
TAATCAGGAAGCTCACGAAGAGCCTT
Found at i:18717518 original size:64 final size:64
Alignment explanation
Indices: 18717412--18717540 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
18717402 TTTGGAGAGC
* * * *
18717412 CATATAACAGGACGCTCATAAAGAGCTACGGTATGTCTGCAACACATGCAGGATCACTACCGAT
1 CATATAAAAGGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACAACCGAT
* *
18717476 CATATAAAAGGACGCTCACAAAGAGTTACGGTATGTCCGCAACATATGCAGGATCACAACCGAT
1 CATATAAAAGGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACAACCGAT
18717540 C
1 C
18717541 GGGGTGTTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (64 bp):
CATATAAAAGGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACAACCGAT
Found at i:18720187 original size:21 final size:21
Alignment explanation
Indices: 18720161--18720236 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
18720151 ATTTAAAGAT
18720161 TTTGAAAATTATATATAATTG
1 TTTGAAAATTATATATAATTG
*
18720182 TTTGAAAATTATAT-T-TTTG
1 TTTGAAAATTATATATAATTG
** *
18720201 AAGTGAATATTATATATAATTG
1 -TTTGAAAATTATATATAATTG
18720223 TTTGAAAATTATAT
1 TTTGAAAATTATAT
18720237 TTTTTTATTG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.07
20 12 0.27
21 26 0.59
22 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (21 bp):
TTTGAAAATTATATATAATTG
Found at i:18720216 original size:41 final size:41
Alignment explanation
Indices: 18720163--18720240 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
18720153 TTAAAGATTT
18720163 TGAAAATTATATATAATTGTTTGAAAATTATATTTTTGAAG
1 TGAAAATTATATATAATTGTTTGAAAATTATATTTTTGAAG
*
18720204 TGAATATTATATATAATTGTTTGAAAATTATATTTTT
1 TGAAAATTATATATAATTGTTTGAAAATTATATTTTT
18720241 TTATTGACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (41 bp):
TGAAAATTATATATAATTGTTTGAAAATTATATTTTTGAAG
Found at i:18724832 original size:23 final size:25
Alignment explanation
Indices: 18724788--18724833 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
18724778 TTTGGTGCAA
*
18724788 TTAACTCATTATTTTAATTTAAAAT
1 TTAACTCATTATTTTAAATTAAAAT
18724813 TTAA-TCATT-TTTTAAATTAAA
1 TTAACTCATTATTTTAAATTAAA
18724834 TCGAACTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 5 0.25
25 4 0.20
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAACTCATTATTTTAAATTAAAAT
Found at i:18726155 original size:15 final size:15
Alignment explanation
Indices: 18726135--18726168 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18726125 ACGTTTCAAG
*
18726135 AATTAAAATTTACCA
1 AATTAAAATATACCA
18726150 AATTAAAATATACCA
1 AATTAAAATATACCA
18726165 AATT
1 AATT
18726169 TACCAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (15 bp):
AATTAAAATATACCA
Found at i:18731084 original size:7 final size:6
Alignment explanation
Indices: 18731050--18731086 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
18731040 TCTTTGCTTC
*
18731050 AAGAAA AAGAAA AAGAAA AGGAAA AAGAAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAGAAA
18731087 CCCTATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:18735680 original size:31 final size:31
Alignment explanation
Indices: 18735645--18735708 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
18735635 ATATTACAAA
* *
18735645 AATTTAAATATAATTA-AAA-TGATATTTAAAT
1 AATTT-AACATAATTATAAAGT-ATAGTTAAAT
18735676 AATTTAACATAATTATAAAGTATAGTTAAAT
1 AATTTAACATAATTATAAAGTATAGTTAAAT
18735707 AA
1 AA
18735709 CTTTTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 9 0.31
31 19 0.66
32 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (31 bp):
AATTTAACATAATTATAAAGTATAGTTAAAT
Found at i:18735792 original size:31 final size:31
Alignment explanation
Indices: 18735726--18735792 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
18735716 ATTGAATAGT
* * * *
18735726 TAAATAATTTAATATAATAATAGATGATATT
1 TAAATAATTTAATATAATAATACATAAAATA
18735757 TAAATAATTTAATATAATGAA-ACATAAAATA
1 TAAATAATTTAATATAAT-AATACATAAAATA
18735788 TAAAT
1 TAAAT
18735793 TAATCTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (31 bp):
TAAATAATTTAATATAATAATACATAAAATA
Found at i:18737708 original size:46 final size:46
Alignment explanation
Indices: 18737604--18737895 Score: 462
Period size: 46 Copynumber: 6.6 Consensus size: 46
18737594 TACATATGAT
* *
18737604 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
18737647 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
18737693 CACTTATCATTTTGTCACTTGATCTGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
18737739 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
18737781 --C-TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
18737824 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
18737870 CACTTATCACTTTGTCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
18737896 AGTACTCAAA
Statistics
Matches: 232, Mismatches: 7, Indels: 18
0.90 0.03 0.07
Matches are distributed among these distances:
39 38 0.16
40 1 0.00
43 10 0.04
44 5 0.02
45 29 0.12
46 149 0.64
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:18737796 original size:85 final size:85
Alignment explanation
Indices: 18737608--18737874 Score: 396
Period size: 85 Copynumber: 3.1 Consensus size: 85
18737598 TATGATCACT
* *
18737608 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACTTGAT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGAT
18737670 CAGATAAGTGTAGCTAAAGCTACCAC
66 CAGATAAGTGTAGCTAAAG------C
* *
18737696 TTATCATTTTGTCACTTGATCTGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGA
1 -TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGA
18737761 TCAGATAAGTGTAGCTAAAGC
65 TCAGATAAGTGTAGCTAAAGC
*
18737782 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGAT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGAT
18737847 CAGATAAGTGTAGCTAAAGC
66 CAGATAAGTGTAGCTAAAGC
*
18737867 TACCACTT
1 TATCACTT
18737875 ATCACTTTGT
Statistics
Matches: 167, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
85 89 0.53
86 1 0.01
89 5 0.03
90 5 0.03
91 19 0.11
92 48 0.29
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (85 bp):
TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGAT
CAGATAAGTGTAGCTAAAGC
Found at i:18737861 original size:131 final size:132
Alignment explanation
Indices: 18737604--18737895 Score: 466
Period size: 131 Copynumber: 2.2 Consensus size: 132
18737594 TACATATGAT
*
18737604 CACTTATCAC-TTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTGATCAGATAAGTGTAGCTA-G--A-CACTTATCACTTTGTCACTTG
* *
18737668 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTTGTCACTTGATCTGATAAGTGTAGCTAA
62 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA
18737733 AGCTAC
127 AGCTAC
18737739 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-A-AGC-TATCACTTTGTCACTTGAT
1 CACTTATCACTTTGTCAC-TGATCAGATAAGTGTAGCTAGACA-CTTATCACTTTGTCACTTGAT
*
18737801 CAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
64 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
18737866 CTAC
129 CTAC
18737870 CACTTATCACTTTGTCACTGATCAGA
1 CACTTATCACTTTGTCACTGATCAGA
18737896 AGTACTCAAA
Statistics
Matches: 150, Mismatches: 4, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
130 8 0.05
131 104 0.69
132 1 0.01
133 1 0.01
135 10 0.07
136 6 0.04
137 20 0.13
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (132 bp):
CACTTATCACTTTGTCACTGATCAGATAAGTGTAGCTAGACACTTATCACTTTGTCACTTGATCA
GATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
AC
Found at i:18743047 original size:22 final size:22
Alignment explanation
Indices: 18743022--18743097 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 22
18743012 ATAATATGGG
18743022 ATATGATATGATAATATATGAA
1 ATATGATATGATAATATATGAA
* *
18743044 ATATGGTA-CA-ACATGATATGAA
1 ATATGATATGATA-AT-ATATGAA
* * * *
18743066 ATATGATTTGATAAGATACGAT
1 ATATGATATGATAATATATGAA
*
18743088 ATAAGATATG
1 ATATGATATG
18743098 CTCTAATTTG
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
20 1 0.03
21 3 0.08
22 33 0.82
23 2 0.05
24 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
ATATGATATGATAATATATGAA
Found at i:18744979 original size:18 final size:18
Alignment explanation
Indices: 18744952--18744990 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18744942 TCCATAGGCA
18744952 GAGCCAGTTG-CTAGAGTT
1 GAGCCAGTTGTC-AGAGTT
*
18744970 GAGCCTGTTGTCAGAGTT
1 GAGCCAGTTGTCAGAGTT
18744988 GAG
1 GAG
18744991 TAGGTACCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.28
Consensus pattern (18 bp):
GAGCCAGTTGTCAGAGTT
Found at i:18746231 original size:31 final size:31
Alignment explanation
Indices: 18746196--18746264 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
18746186 TATAGGCAAA
*
18746196 TTTCAAAAGTAATTGAATCCTAATAAAACTC
1 TTTCAAAAGTAATTGAAGCCTAATAAAACTC
*
18746227 TTTCAAGAGTAATTGAAGCCTAATAAAACTC
1 TTTCAAAAGTAATTGAAGCCTAATAAAACTC
18746258 TTT-AAAA
1 TTTCAAAA
18746265 TTATCTAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 3 0.09
31 32 0.91
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (31 bp):
TTTCAAAAGTAATTGAAGCCTAATAAAACTC
Found at i:18748103 original size:15 final size:15
Alignment explanation
Indices: 18748083--18748112 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18748073 ACTTCTAGTG
18748083 CAACTCTTTATCATA
1 CAACTCTTTATCATA
18748098 CAACTCTTTATCATA
1 CAACTCTTTATCATA
18748113 GGTCGAATAG
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:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (15 bp):
CAACTCTTTATCATA
Done.