Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 67 of 322
Found at i:21434150 original size:18 final size:18
Alignment explanation
Indices: 21434109--21434143 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
21434099 GCCAGGTGCG
21434109 TATCCTAACCCTTATATA
1 TATCCTAACCCTTATATA
21434127 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
21434144 GTTTCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:21437850 original size:126 final size:126
Alignment explanation
Indices: 21437625--21437995 Score: 507
Period size: 124 Copynumber: 3.0 Consensus size: 126
21437615 AAGCATGAAC
* * * * * *
21437625 TACTGTAGAAAAAGAGCATCCATGTGGGAGCTTTTTTTAGAAATTTTGTTGACAGTGCATCTTGC
1 TACTGTAGAAAAAGAGCGTTCACGTGGAAGCTTTTTTTAGAAATTTTGCTGACAGTGCATCCTGC
* *
21437690 TTGAAACGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAAGAAT
66 TTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAAT
* *
21437751 TACTGTAGAAAAAGAGTGTTCACGTGGAAGCTTTTTTTAGAAATTTTGCTGACAATGCATCCTGC
1 TACTGTAGAAAAAGAGCGTTCACGTGGAAGCTTTTTTTAGAAATTTTGCTGACAGTGCATCCTGC
* * *
21437816 TTGAAGCGTTTTTGACAATATTTGTTTAGAAACGTTTTCTC--AATTATTTTTTCAAGAAT
66 TTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAAT
* * *
21437875 TACTGTAGAAAAAGAACGTTCACAT-GAGAGCTTTTTTCTA-TAATTTTGCTGACAGTGCATCCT
1 TACTGTAGAAAAAGAGCGTTCACGTGGA-AGCTTTTTT-TAGAAATTTTGCTGACAGTGCATCCT
** * * *
21437938 TATTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTTCAATATTATTTTTTCA
64 GCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCA
21437996 GGGTCAAAAT
Statistics
Matches: 215, Mismatches: 26, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
123 2 0.01
124 106 0.49
125 2 0.01
126 105 0.49
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (126 bp):
TACTGTAGAAAAAGAGCGTTCACGTGGAAGCTTTTTTTAGAAATTTTGCTGACAGTGCATCCTGC
TTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAAT
Found at i:21438083 original size:28 final size:29
Alignment explanation
Indices: 21438050--21438217 Score: 136
Period size: 30 Copynumber: 5.8 Consensus size: 29
21438040 TTTAAAAAAA
*
21438050 CTAAACCCTAATTTAATTAATTT-TAACC
1 CTAAACCCTAATTTAATTAATTTAAAACC
*
21438078 CTAAACCCTAATTTAATTTATTTAAAACC
1 CTAAACCCTAATTTAATTAATTTAAAACC
*
21438107 ATAGAACCCTAATTTAATTAATTTATTTAAACAC
1 CTA-AACCCTAATTTAATTAATTTA---AAAC-C
* * **
21438141 CATAAACCCTAGTTTCATTCCTTTAAAACC
1 C-TAAACCCTAATTTAATTAATTTAAAACC
*
21438171 CT-AA---T--TTT-ATTTATTTAAAACC
1 CTAAACCCTAATTTAATTAATTTAAAACC
*
21438193 CTAAAACCCTAATTTACTTAATTTA
1 CT-AAACCCTAATTTAATTAATTTA
21438218 TTTAAAAATC
Statistics
Matches: 112, Mismatches: 13, Indels: 28
0.73 0.08 0.18
Matches are distributed among these distances:
22 14 0.12
23 3 0.03
24 2 0.02
25 1 0.01
27 1 0.01
28 24 0.21
29 10 0.09
30 29 0.26
31 4 0.04
33 4 0.04
34 18 0.16
35 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.01, T:0.39
Consensus pattern (29 bp):
CTAAACCCTAATTTAATTAATTTAAAACC
Found at i:21438117 original size:30 final size:29
Alignment explanation
Indices: 21438051--21438131 Score: 119
Period size: 28 Copynumber: 2.8 Consensus size: 29
21438041 TTAAAAAAAC
* *
21438051 TAAACCCTAATTTAATTAATTT-TAACCC
1 TAAACCCTAATTTAATTAATTTAAAACCA
*
21438079 TAAACCCTAATTTAATTTATTTAAAACCA
1 TAAACCCTAATTTAATTAATTTAAAACCA
21438108 TAGAACCCTAATTTAATTAATTTA
1 TA-AACCCTAATTTAATTAATTTA
21438132 TTTAAACACC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
28 21 0.45
29 6 0.13
30 20 0.43
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.40
Consensus pattern (29 bp):
TAAACCCTAATTTAATTAATTTAAAACCA
Found at i:21438170 original size:22 final size:22
Alignment explanation
Indices: 21438144--21438196 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
21438134 TAAACACCAT
* *
21438144 AAACCCTAGTTTCATTCCTTTA
1 AAACCCTAATTTCATTCATTTA
* *
21438166 AAACCCTAATTTTATTTATTTA
1 AAACCCTAATTTCATTCATTTA
21438188 AAACCCTAA
1 AAACCCTAA
21438197 AACCCTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.40
Consensus pattern (22 bp):
AAACCCTAATTTCATTCATTTA
Found at i:21439137 original size:27 final size:28
Alignment explanation
Indices: 21439093--21439149 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
21439083 CATTTAATTC
*
21439093 AAATAAAATAAATTATTAAAAATTTATAA
1 AAATAAAATAAATAATTAAAAA-TTATAA
*
21439122 AAAT-AAA-AAATAATTATAAATTATAA
1 AAATAAAATAAATAATTAAAAATTATAA
21439148 AA
1 AA
21439150 TACGATTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.31
27 11 0.42
28 3 0.12
29 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (28 bp):
AAATAAAATAAATAATTAAAAATTATAA
Found at i:21439149 original size:18 final size:18
Alignment explanation
Indices: 21439100--21439151 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
21439090 TTCAAATAAA
*
21439100 ATAAATTATTAAAA-ATTT
1 ATAAATTA-TAAAATAATT
* *
21439118 ATAAAAATAAAAAATAATT
1 AT-AAATTATAAAATAATT
21439137 ATAAATTATAAAATA
1 ATAAATTATAAAATA
21439152 CGATTCAACC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAATTATAAAATAATT
Found at i:21442909 original size:9 final size:9
Alignment explanation
Indices: 21442890--21442936 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
21442880 ATCGAGGTTT
21442890 TTTTTTAAAA
1 TTTTTT-AAA
21442900 TTTTTTAAA
1 TTTTTTAAA
21442909 -TTTTTAAA
1 TTTTTTAAA
*
21442917 TTTTTAAAA
1 TTTTTTAAA
*
21442926 TTTTTTTAA
1 TTTTTTAAA
21442935 TT
1 TT
21442937 GGACCGATCG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.24
9 19 0.58
10 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:21442912 original size:8 final size:9
Alignment explanation
Indices: 21442891--21442930 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
21442881 TCGAGGTTTT
21442891 TTTTTAAAA
1 TTTTTAAAA
*
21442900 TTTTTTAAA
1 TTTTTAAAA
21442909 TTTTT-AAA
1 TTTTTAAAA
21442917 TTTTTAAAA
1 TTTTTAAAA
21442926 TTTTT
1 TTTTT
21442931 TTAATTGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:21442920 original size:7 final size:8
Alignment explanation
Indices: 21442891--21442930 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
21442881 TCGAGGTTTT
21442891 TTTTTAAAA
1 TTTTT-AAA
21442900 TTTTTTAAA
1 -TTTTTAAA
21442909 TTTTTAAA
1 TTTTTAAA
21442917 TTTTTAAAA
1 TTTTT-AAA
21442926 TTTTT
1 TTTTT
21442931 TTAATTGGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.45
9 11 0.38
10 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTTAAA
Found at i:21450219 original size:27 final size:27
Alignment explanation
Indices: 21450165--21450272 Score: 148
Period size: 27 Copynumber: 4.0 Consensus size: 27
21450155 AGCATGGCTG
* *
21450165 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
21450191 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
21450218 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
21450245 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
21450272 C
1 C
21450273 AGGACGCTTC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.78
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:21451528 original size:28 final size:28
Alignment explanation
Indices: 21451497--21451551 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
21451487 GAAAGATTCG
21451497 GCTG-TAGAGTAAAGAAGAAAAAGAAAAA
1 GCTGATAGAG-AAAGAAGAAAAAGAAAAA
* * *
21451525 GCTGATGGAGAGAGGAGAAAAAGAAAA
1 GCTGATAGAGAAAGAAGAAAAAGAAAA
21451552 GAAGAGGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.56, C:0.04, G:0.31, T:0.09
Consensus pattern (28 bp):
GCTGATAGAGAAAGAAGAAAAAGAAAAA
Found at i:21451735 original size:24 final size:24
Alignment explanation
Indices: 21451700--21451752 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
21451690 CCAACATCGT
*
21451700 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTAATCAGCTCCCAAATCC
* *
21451724 TCTCCCTTATCAGCTCCCAAATCT
1 TCTCCCTAATCAGCTCCCAAATCC
21451748 TCTCC
1 TCTCC
21451753 TGACAGCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.43, G:0.04, T:0.32
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCCCAAATCC
Found at i:21452127 original size:28 final size:27
Alignment explanation
Indices: 21452070--21452127 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
21452060 CCAAACATTC
* *
21452070 AAAACACAGAAATTTTAAAATTTGTTAA
1 AAAACACAGAAATTTGAAAATCTG-TAA
*
21452098 AAACCACAGAAATCTTGAAAATCT-TAA
1 AAAACACAGAAAT-TTGAAAATCTGTAA
21452125 AAA
1 AAA
21452128 TTGGGGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 6 0.23
28 12 0.46
29 8 0.31
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.26
Consensus pattern (27 bp):
AAAACACAGAAATTTGAAAATCTGTAA
Found at i:21452969 original size:81 final size:79
Alignment explanation
Indices: 21452826--21453062 Score: 312
Period size: 81 Copynumber: 2.9 Consensus size: 79
21452816 GGGCAACATG
* * * * *
21452826 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACC
1 GTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTGA-TATTTCTACC
*
21452891 CTACAATGGTATTTCA
64 CTACAAGGGTATTTCA
* * *
21452907 GTAATTCTACCCTTCAGTGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACC
1 GTAATTCTACCCTACAG-GGTATTTCAGTAATTCTACCCTACAGGGGTATTT-GATATTTCTACC
*
21452972 CTACAGGGGTATTTCA
64 CTACAAGGGTATTTCA
* *
21452988 GTAATTCTACCCTACAGGGCTATTTCAGTAATTCTACCTTACAGGGGTATTTTGGTATTTCTACC
1 GTAATTCTACCCTACAGGG-TATTTCAGTAATTCTACCCTACAGGGGTA-TTTGATATTTCTACC
21453053 CTACAAGGGT
64 CTACAAGGGT
21453063 GTTTTGATAA
Statistics
Matches: 136, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
80 4 0.03
81 128 0.94
82 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (79 bp):
GTAATTCTACCCTACAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTGATATTTCTACCCT
ACAAGGGTATTTCA
Found at i:21453068 original size:27 final size:27
Alignment explanation
Indices: 21452826--21453062 Score: 273
Period size: 27 Copynumber: 8.8 Consensus size: 27
21452816 GGGCAACATG
* * * *
21452826 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
21452853 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
21452880 GTATTTCTACCCTACAATGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
21452907 GTAATTCTACCCTTC-AGTGGTATTTCA
1 GTAATTCTACCCTACAAG-GGTATTTCA
* *
21452934 GTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
21452960 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
21452988 GTAATTCTACCCTAC-AGGGCTATTTCA
1 GTAATTCTACCCTACAAGGG-TATTTCA
* * **
21453015 GTAATTCTACCTTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
21453042 GTATTTCTACCCTACAAGGGT
1 GTAATTCTACCCTACAAGGGT
21453063 GTTTTGATAA
Statistics
Matches: 179, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
26 5 0.03
27 169 0.94
28 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:21453074 original size:54 final size:54
Alignment explanation
Indices: 21452826--21453062 Score: 307
Period size: 54 Copynumber: 4.4 Consensus size: 54
21452816 GGGCAACATG
* * * * *
21452826 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
* * * *
21452880 GTATTTCTACCCTACAATGGTATTTCAGTAATTCTACCCTTCAGTGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
* *
21452934 GTAATTCTACCCTATAGGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCA
* **
21452988 GTAATTCTACCCTAC-AGGGCTATTTCAGTAATTCTACCTTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGG-TATTTCAGTAATTCTACCCTACAGGGGTATTTCA
*
21453042 GTATTTCTACCCTACAAGGGT
1 GTAATTCTACCCTACAAGGGT
21453063 GTTTTGATAA
Statistics
Matches: 158, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
53 4 0.03
54 149 0.94
55 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
Found at i:21453074 original size:81 final size:81
Alignment explanation
Indices: 21452826--21453101 Score: 310
Period size: 81 Copynumber: 3.4 Consensus size: 81
21452816 GGGCAACATG
* * * * *
21452826 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACC
1 GTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACC
* *
21452891 CTACAATGGT-ATTTCA
65 CTACAAGGGTGTTTTCA
* * * * *
21452907 GTAATTCTACCCTTCAGTGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACC
1 GTAATTCTACCCTACAG-GGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACC
21452972 CTAC-AGGG-GTATTTCA
65 CTACAAGGGTGT-TTTCA
*
21452988 GTAATTCTACCCTACAGGGCTATTTCAGTAATTCTACCTTACAGGGGTATTTTGGTATTTCTACC
1 GTAATTCTACCCTACAGGG-TATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACC
*
21453053 CTACAAGGGTGTTTTGA
65 CTACAAGGGTGTTTTCA
* **
21453070 -TAATTTTACAAATTA-AGGGTATTTCAGTAATT
1 GTAATTCTAC--CCTACAGGGTATTTCAGTAATT
21453102 TTACAATCGA
Statistics
Matches: 165, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
80 7 0.04
81 142 0.86
82 12 0.07
83 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCC
TACAAGGGTGTTTTCA
Found at i:21453169 original size:27 final size:26
Alignment explanation
Indices: 21453071--21453291 Score: 131
Period size: 27 Copynumber: 8.3 Consensus size: 26
21453061 GTGTTTTGAT
** * *
21453071 AATTTTACAAATTAAGGGTATTTCAGT
1 AATTTTAC-AATCGAGGGTATTTCGGA
* *
21453098 AATTTTACAATCGACGGTATTTCGGT
1 AATTTTACAATCGAGGGTATTTCGGA
* * *
21453124 AATTTTATAAACCGGGGGTACTTT-GGA
1 AATTTTA-CAATCGAGGGTA-TTTCGGA
* *
21453151 AATTTTACAAGTCGAGGGTATTTCAGT
1 AATTTTACAA-TCGAGGGTATTTCGGA
* * * * *
21453178 AATTTTGCAAATCAATGGTATTTCAGT
1 AATTTTAC-AATCGAGGGTATTTCGGA
* * *
21453205 AATTTTCCAAACTGAGGGTATTTC-AA
1 AATTTTACAATC-GAGGGTATTTCGGA
* * *
21453231 TAATTTTACAAATTGAGGGTATTTCAGT
1 -AATTTTAC-AATCGAGGGTATTTCGGA
* * *
21453259 AATTTTACAATCGACGGTATTTCAGT
1 AATTTTACAATCGAGGGTATTTCGGA
21453285 AATTTTA
1 AATTTTA
21453292 TAAACCGGGG
Statistics
Matches: 155, Mismatches: 30, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
26 52 0.34
27 96 0.62
28 7 0.05
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (26 bp):
AATTTTACAATCGAGGGTATTTCGGA
Found at i:21453183 original size:54 final size:53
Alignment explanation
Indices: 21453070--21453321 Score: 256
Period size: 54 Copynumber: 4.7 Consensus size: 53
21453060 GGTGTTTTGA
*** *
21453070 TAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGG
1 TAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAG
* * * * *
21453123 TAATTTTATAAACCGGGGGTACTTT-GGAAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTACAAACCGAGGGTA-TTTCAGTAATTTTACAA-TCGACGGTATTTCAG
* * * * * * * *
21453177 TAATTTTGCAAATCAATGGTATTTCAGTAATTTTCCAAACTGAGGGTATTTCAA
1 TAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAATC-GACGGTATTTCAG
**
21453231 TAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAG
1 TAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAG
* * *
21453284 TAATTTTATAAACCGGGGGTACTTT-GGTAATTTTACAA
1 TAATTTTACAAACCGAGGGTA-TTTCAGTAATTTTACAA
21453322 ACCAGGGGTA
Statistics
Matches: 161, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
53 71 0.44
54 90 0.56
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (53 bp):
TAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAG
Found at i:21453239 original size:81 final size:81
Alignment explanation
Indices: 21453069--21453322 Score: 325
Period size: 80 Copynumber: 3.2 Consensus size: 81
21453059 GGGTGTTTTG
* * *
21453069 ATAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGGTAATTTTATAA
1 ATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTACAA
* **
21453134 ACCGGGGGTACTTTGG
66 ACCGAGGGTACTTTCA
* * * * * *
21453150 A-AATTTTACAAGTCGAGGGTATTTCAGTAATTTTGCAAATCAATGGTATTTCAGTAATTTTCCA
1 ATAATTTTACAAATTGAGGGTATTTCAGTAATTTTAC-AATCGACGGTATTTCAGTAATTTTACA
*
21453214 AACTGAGGGTA-TTTCA
65 AACCGAGGGTACTTTCA
*
21453230 ATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTATAA
1 ATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTACAA
* *
21453295 ACCGGGGGTACTTT-G
66 ACCGAGGGTACTTTCA
*
21453310 GTAATTTTACAAA
1 ATAATTTTACAAA
21453323 CCAGGGGTAT
Statistics
Matches: 146, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
80 79 0.54
81 67 0.46
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (81 bp):
ATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTACAA
ACCGAGGGTACTTTCA
Found at i:21453313 original size:27 final size:27
Alignment explanation
Indices: 21453283--21453343 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
21453273 CGGTATTTCA
* *
21453283 GTAATTTTATAAACCGGGGGTACTTTG
1 GTAATTTTACAAACCAGGGGTACTTTG
*
21453310 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTACTTTG
*
21453337 GTGATTT
1 GTAATTT
21453344 GGTAAACTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACCAGGGGTACTTTG
Found at i:21453350 original size:27 final size:27
Alignment explanation
Indices: 21453283--21453350 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
21453273 CGGTATTTCA
* *
21453283 GTAATTTTATAAACCGGGGGTACTTTG
1 GTAATTTGATAAACCAGGGGTACTTTG
* * *
21453310 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTGATAAACCAGGGGTACTTTG
* *
21453337 GTGATTTGGTAAAC
1 GTAATTTGATAAAC
21453351 TAAAGTATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (27 bp):
GTAATTTGATAAACCAGGGGTACTTTG
Found at i:21453359 original size:80 final size:78
Alignment explanation
Indices: 21453065--21453359 Score: 238
Period size: 80 Copynumber: 3.7 Consensus size: 78
21453055 ACAAGGGTGT
* ** * * *
21453065 TTTGATAATTTTACAAATTAAGGGTATTTCAGTAATTT-TACAATCGACGGTATTTCGGTAATTT
1 TTTGGTAATTTTACAAA-CGAGGGTATTTCAGTAATTTGTA-AA-CTAAGGTATTTCAGTAATTT
21453129 TATAAACCGGGGGTAC
63 TATAAACCGGGGGTAC
* * *
21453145 TTTGGAAATTTTACAAGTCGAGGGTATTTCAGTAATTTTGCAAA-TCAATGGTATTTCAGTAATT
1 TTTGGTAATTTTACAA-ACGAGGGTATTTCAGTAA-TTTGTAAACT-AA-GGTATTTCAGTAATT
** * *
21453209 TTCCAAACTGAGGGTA-
62 TTATAAACCGGGGGTAC
** * * *
21453225 TTTCAATAATTTTACAAATTGAGGGTATTTCAGTAATTT-TACAATCGACGGTATTTCAGTAATT
1 TTT-GGTAATTTTACAAA-CGAGGGTATTTCAGTAATTTGTA-AA-CTAAGGTATTTCAGTAATT
21453289 TTATAAACCGGGGGTAC
62 TTATAAACCGGGGGTAC
* ** * *
21453306 TTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTGGTAAACTAAAGTATT
1 TTTGGTAATTTTACAAACGA-GGGTATTTCAGTAATTT-GTAAACTAAGGTATT
21453360 CTAAATAGAG
Statistics
Matches: 166, Mismatches: 35, Indels: 28
0.72 0.15 0.12
Matches are distributed among these distances:
79 2 0.01
80 98 0.59
81 63 0.38
82 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (78 bp):
TTTGGTAATTTTACAAACGAGGGTATTTCAGTAATTTGTAAACTAAGGTATTTCAGTAATTTTAT
AAACCGGGGGTAC
Found at i:21466118 original size:42 final size:43
Alignment explanation
Indices: 21466014--21466157 Score: 159
Period size: 42 Copynumber: 3.3 Consensus size: 43
21466004 TGTGTTATCG
** * * *
21466014 TGTAAGACCACATCTGGGACATTAGCATCG-ACTGATGATTTACT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTA-T-TTGATTTACA
*
21466058 TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGATTT-CA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTACA
* * *
21466100 TGTAAGACCCTGTCTGGGACAATGGCATCAATATTTG-TTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-GTATTTGATTTACA
21466143 TGTAAGACCATGTCT
1 TGTAAGACCATGTCT
21466158 AAGATGTTGG
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
42 30 0.35
43 28 0.33
44 27 0.31
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTACA
Found at i:21469346 original size:42 final size:40
Alignment explanation
Indices: 21469286--21469415 Score: 111
Period size: 39 Copynumber: 3.2 Consensus size: 40
21469276 GGGCCATGAG
* ** * * *
21469286 CCTAGCAGGCATAATGCCGGTGAATGAGTTTCAGACTTAATG
1 CCTAGCAGGCCTCGTGCCGGTGAATAAATTT-AG-CTTAATA
* * *
21469328 TCTAGCAGGCCTCGTGCCGGTG-ATAAATTTAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGAATAAATTTAGCTTAATA
* * * *
21469367 CCTAGCAGGCCTCGTGCCGGTG-ATAAGTTCAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGAATAAATTTAGCTTAATA
21469406 CCTAGCAGGC
1 CCTAGCAGGC
21469416 TAATTGCCAG
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 50 0.66
40 2 0.03
41 6 0.08
42 18 0.24
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCTAGCAGGCCTCGTGCCGGTGAATAAATTTAGCTTAATA
Found at i:21469379 original size:39 final size:39
Alignment explanation
Indices: 21469329--21469415 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
21469319 GACTTAATGT
*
21469329 CTAGCAGGCCTCGTGCCGGTGATAAATTTAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
*
21469368 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
21469407 CTAGCAGGC
1 CTAGCAGGC
21469416 TAATTGCCAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:21476210 original size:16 final size:16
Alignment explanation
Indices: 21476140--21476201 Score: 88
Period size: 16 Copynumber: 3.9 Consensus size: 16
21476130 GTTTGGTTCA
*
21476140 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
* *
21476156 CTGTAATTGAAGAGAG
1 CTGTAATGGAATAGAG
21476172 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
21476188 TTGTAATGGAATAG
1 CTGTAATGGAATAG
21476202 CGCTATAATC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:21476543 original size:28 final size:26
Alignment explanation
Indices: 21476431--21476554 Score: 97
Period size: 28 Copynumber: 4.5 Consensus size: 26
21476421 AATAAATAAT
* *
21476431 TTAATAATATTTTAACATAATTATTA
1 TTAAGAATATTTTAATATAATTATTA
* * *
21476457 TTAA-ATACAATTTAATAAAATAATATATAA
1 TTAAGA-A-TATTT--TAATATAAT-TATTA
* *
21476487 TTTAATAACATTCTTAATATAATTATTA
1 -TTAAGAATATT-TTAATATAATTATTA
21476515 TTAAGAATATTTTAATATAAAATTATTA
1 TTAAGAATATTTTAATAT--AATTATTA
21476543 TTAAGAATATTT
1 TTAAGAATATTT
21476555 CAATGCCTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
25 1 0.01
26 12 0.15
27 13 0.16
28 24 0.30
29 16 0.20
30 7 0.09
31 6 0.08
32 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (26 bp):
TTAAGAATATTTTAATATAATTATTA
Found at i:21483364 original size:27 final size:27
Alignment explanation
Indices: 21483334--21483512 Score: 241
Period size: 27 Copynumber: 6.6 Consensus size: 27
21483324 TTAGTTTACC
21483334 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
21483361 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
21483388 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
21483415 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
21483442 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
21483469 AAATTACCAAAATACCCCTGATTTATG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
21483496 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
21483513 TGGACCTGTA
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 135 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:21483523 original size:81 final size:81
Alignment explanation
Indices: 21483334--21483574 Score: 218
Period size: 81 Copynumber: 3.0 Consensus size: 81
21483324 TTAGTTTACC
* * ** * * * * *
21483334 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTATCAAAATACCCCTAGCCTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAA
* *
21483399 ATACCCCTGGTTTGTA
66 ATACCCCTGATTTATA
** *
21483415 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTATCAAAATACCCCTAGCCTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAA
*
21483480 ATACCCCTGATTTATG
66 ATACCCCTGATTTATA
* * ** * * *
21483496 AAATTA-CTGAAATA-CCCTGGACCTGTAAAATTGTTGAAATA-CCCTCGACTTGTAAAATTACC
1 AAATTATC-AAAATACCCCTAG-CCTGTAAAATTACTAAAATACCCCTAG-TTTGTAAAATTACC
* *
21483558 AAAGTACCCTTGATTTA
63 AAAATACCCCTGATTTA
21483575 CAGAATTACT
Statistics
Matches: 134, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
80 11 0.08
81 123 0.92
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTATCAAAATACCCCTAGCCTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCCTGATTTATA
Found at i:21483567 original size:27 final size:26
Alignment explanation
Indices: 21483334--21483566 Score: 178
Period size: 27 Copynumber: 8.7 Consensus size: 26
21483324 TTAGTTTACC
*
21483334 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* * * * *
21483361 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCC-CGATTTGTA
* *
21483388 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* *
21483415 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
*
21483442 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
* *
21483469 AAATTACCAAAATACCCCTGATTTATG
1 AAATTACCAAAATACCCC-GATTTGTA
** * **
21483496 AAATTACTGAAATACCCTGGACCTGTA
1 AAATTACCAAAATACCC-CGATTTGTA
**** *
21483523 AAATTGTTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCC-CGATTTGTA
*
21483550 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
21483567 TTGATTTACA
Statistics
Matches: 170, Mismatches: 31, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
27 169 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (26 bp):
AAATTACCAAAATACCCCGATTTGTA
Found at i:21483606 original size:81 final size:81
Alignment explanation
Indices: 21483464--21483620 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
21483454 TACCCCTAGT
* * * *
21483464 TTGTAAAATTACCAAAATACCCCTGATTTATGAAATTACTGAAATACCCTGGACCTGTAAAATTG
1 TTGTAAAATTACCAAAATACCCCTGATTTAAGAAATTACTGAAATACCCTCGACCTATAAAATTA
*
21483529 TTGAAATACCCTCGAC
66 TCGAAATACCCTCGAC
* * *** **
21483545 TTGTAAAATTACCAAAGTACCCTTGATTTACAG-AATTACTGTTTTACCCTCGATTTATAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTTA-AGAAATTACTGAAATACCCTCGACCTATAAAATT
21483609 ATCGAAATACCC
65 ATCGAAATACCC
21483621 CTGTAGGGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
81 62 0.98
82 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTAAGAAATTACTGAAATACCCTCGACCTATAAAATTA
TCGAAATACCCTCGAC
Found at i:21483635 original size:27 final size:27
Alignment explanation
Indices: 21483605--21484047 Score: 525
Period size: 27 Copynumber: 16.3 Consensus size: 27
21483595 CGATTTATAA
*
21483605 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21483632 AATTATCGAAATACCCCTACCCTTGTAGGGTAG
1 AATTACCGAAATA---C--CCC-TGTAGGGTAG
* * *
21483665 AATTACTGGAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
21483692 AATTACCGGAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
21483719 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
21483746 AATTATCTG-AATACCCCTATAGGGTAG
1 AATTA-CCGAAATACCCCTGTAGGGTAG
*
21483773 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21483800 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21483827 AATTACC-ATAATACCCCAGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
21483854 AATTACTGAAATACCCCAGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21483881 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
21483908 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
21483935 AATTA-TGCAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
21483961 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
21483988 AATTACTAAAATACCCTTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
21484015 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
21484041 AATTACC
1 AATTACC
21484048 ATTTTGCCCC
Statistics
Matches: 367, Mismatches: 38, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
26 43 0.12
27 294 0.80
28 5 0.01
30 2 0.01
32 3 0.01
33 20 0.05
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:21484209 original size:16 final size:16
Alignment explanation
Indices: 21484188--21484218 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21484178 CAAATATGGG
21484188 CATGACATGCTGCATA
1 CATGACATGCTGCATA
*
21484204 CATGACATGTTGCAT
1 CATGACATGCTGCAT
21484219 GGGTTGGGAT
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:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (16 bp):
CATGACATGCTGCATA
Found at i:21484526 original size:22 final size:22
Alignment explanation
Indices: 21484474--21484538 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
21484464 TTAAAGCCTT
* *
21484474 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
21484496 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
21484518 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
21484539 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:21484923 original size:6 final size:6
Alignment explanation
Indices: 21484885--21485030 Score: 68
Period size: 6 Copynumber: 23.3 Consensus size: 6
21484875 TTGCATTCAT
* * *
21484885 ATTCTG ACTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTTG ATTCT-
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG A-TTCTG ATTCTG
* * *
21484935 ATTACCTG ATACTG ATTCTG ATTTTG ATTCTG -TTAGCTG ATACTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
21484986 ATTCTG -TCACCTA ATTTTG ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
21485031 AATGTTTCTT
Statistics
Matches: 104, Mismatches: 20, Indels: 32
0.67 0.13 0.21
Matches are distributed among these distances:
5 9 0.09
6 69 0.66
7 21 0.20
8 5 0.05
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:21484924 original size:25 final size:25
Alignment explanation
Indices: 21484914--21485013 Score: 65
Period size: 25 Copynumber: 3.7 Consensus size: 25
21484904 TTACCTGATA
* * *
21484914 CTGATTCTGATTTTTGATTCTATTAC
1 CTGATACTGA-TTCTGATTCTGTTAC
*
21484940 CTGATACTGATTCTGATTTTGATTCTGTTAG
1 CTGATACTGATTC-----T-GATTCTGTTAC
*
21484971 CTGATACTGATTCTGATTCTGTCAC
1 CTGATACTGATTCTGATTCTGTTAC
* **
21484996 CTAATTTTGATTCTGATT
1 CTGATACTGATTCTGATT
21485014 TTGATTCTAG
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
25 26 0.44
26 10 0.17
30 1 0.02
31 22 0.37
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (25 bp):
CTGATACTGATTCTGATTCTGTTAC
Found at i:21484929 original size:32 final size:32
Alignment explanation
Indices: 21484885--21484988 Score: 174
Period size: 32 Copynumber: 3.3 Consensus size: 32
21484875 TTGCATTCAT
*
21484885 ATTCTGACTTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTTGATTCTGTTACCTGATACTG
*
21484917 ATTCTGATTTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTTGATTCTGTTACCTGATACTG
*
21484949 ATTCTGA-TTTTGATTCTGTTAGCTGATACTG
1 ATTCTGATTTTTGATTCTGTTACCTGATACTG
21484980 ATTCTGATT
1 ATTCTGATT
21484989 CTGTCACCTA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 29 0.43
32 38 0.57
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (32 bp):
ATTCTGATTTTTGATTCTGTTACCTGATACTG
Found at i:21487405 original size:27 final size:26
Alignment explanation
Indices: 21487357--21487408 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21487347 GCGAGGCTGC
*
21487357 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
21487383 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
21487409 TTGCAGCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:21488093 original size:27 final size:27
Alignment explanation
Indices: 21488063--21488131 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
21488053 ACCCCATGAA
* *
21488063 GGTATCTCGGTAATTCTACCATACAGG
1 GGTATTTCAGTAATTCTACCATACAGG
* *
21488090 GGTATTTCAGCAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCATACAGG
21488117 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
21488132 TTACAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCATACAGG
Found at i:21488144 original size:27 final size:26
Alignment explanation
Indices: 21488114--21488213 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 26
21488104 TCTACCCTAC
*
21488114 AGGGGTATTTCAGTAATTTTACAAATT
1 AGGGGTATTTTAGTAATTTTACAAA-T
* *
21488141 AGGGGTATTTTGGTAATTTTACTAAT
1 AGGGGTATTTTAGTAATTTTACAAAT
* * *
21488167 CGAGGGTATTTTAGTAATTTTGCTAAT
1 AG-GGGTATTTTAGTAATTTTACAAAT
* *
21488194 CGAGGGTATTTTGGTAATTT
1 AG-GGGTATTTTAGTAATTT
21488214 GGCTAATCTA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.03
27 63 0.97
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (26 bp):
AGGGGTATTTTAGTAATTTTACAAAT
Found at i:21488220 original size:54 final size:54
Alignment explanation
Indices: 21488116--21488221 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
21488106 TACCCTACAG
* *
21488116 GGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACTAATCGA
1 GGGTATTTCAGTAATTTTACAAATGAGGGGTATTTTGGTAATTTGACTAATCGA
* * * *
21488170 GGGTATTTTAGTAATTTTGCTAATCGA-GGGTATTTTGGTAATTTGGCTAATC
1 GGGTATTTCAGTAATTTTACAAAT-GAGGGGTATTTTGGTAATTTGACTAATC
21488222 TAAAGTATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 44 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAATGAGGGGTATTTTGGTAATTTGACTAATCGA
Found at i:21488230 original size:27 final size:27
Alignment explanation
Indices: 21488143--21488221 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
21488133 TACAAATTAG
*
21488143 GGGTATTTTGGTAATTTTACTAATCGA
1 GGGTATTTTGGTAATTTTGCTAATCGA
*
21488170 GGGTATTTTAGTAATTTTGCTAATCGA
1 GGGTATTTTGGTAATTTTGCTAATCGA
*
21488197 GGGTATTTTGGTAATTTGGCTAATC
1 GGGTATTTTGGTAATTTTGCTAATC
21488222 TAAAGTATTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGCTAATCGA
Found at i:21495981 original size:27 final size:27
Alignment explanation
Indices: 21495910--21495993 Score: 118
Period size: 27 Copynumber: 3.1 Consensus size: 27
21495900 AGTCGGGGGC
21495910 ATTTCGGTAATTTCACAAATC-GAAGGT
1 ATTTCGGTAATTTCACAAATCAG-AGGT
21495937 ATTTCGGTAATTTCACAAATCAGAGGT
1 ATTTCGGTAATTTCACAAATCAGAGGT
**
21495964 ATTTCGGTAA-TTCTACAACCCAGAGGT
1 ATTTCGGTAATTTC-ACAAATCAGAGGT
21495991 ATT
1 ATT
21495994 AACAACCCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
26 3 0.06
27 49 0.92
28 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (27 bp):
ATTTCGGTAATTTCACAAATCAGAGGT
Found at i:21499608 original size:27 final size:27
Alignment explanation
Indices: 21499578--21499629 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
21499568 CCCAATATTG
*
21499578 GTAAAATTACCGAAATACCCTTGTAGT
1 GTAAAATTACCGAAATACCCGTGTAGT
* *
21499605 GTAAAATTACTGTAATACCCGTGTA
1 GTAAAATTACCGAAATACCCGTGTA
21499630 TGGTAGAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCGTGTAGT
Found at i:21502098 original size:158 final size:159
Alignment explanation
Indices: 21501858--21502178 Score: 572
Period size: 158 Copynumber: 2.0 Consensus size: 159
21501848 GATTTTAATT
* * * *
21501858 GAAAACATGATCGACTGTGGCACAAATATTATAAGGATGAACCAAATAAATATTATTCAATCAAA
1 GAAAACATGATCGACTGAGGAACAAATATTATAAGCATGAACCAAATAAATAATATTCAATCAAA
21501923 ATAATCATCCTAGCTTAAATAAAATTAAGCTATCATTGTTGTAAACAAGAACAGTAAACACATAG
66 ATAATCATCCTAGCTTAAATAAAATTAAGCTATCATTGTTGTAAACAAGAACAGTAAACACATAG
21501988 CAAACATTATTGAATTAAGTTAAAGAAAA
131 CAAACATTATTGAATTAAGTTAAAGAAAA
*
21502017 GAAAACATGATCGACTGAGGAACAAATATTATAAGCATGAATCAAA-AAATAATATTCAATCAAA
1 GAAAACATGATCGACTGAGGAACAAATATTATAAGCATGAACCAAATAAATAATATTCAATCAAA
*
21502081 ATAATCATCCTAGCTTAAATAAAATTAAGCTATCATTGTTGTAAACAAGAACATTAAACACATAG
66 ATAATCATCCTAGCTTAAATAAAATTAAGCTATCATTGTTGTAAACAAGAACAGTAAACACATAG
*
21502146 CAAACATTCTTGAATTAAGTTAAAGAAAA
131 CAAACATTATTGAATTAAGTTAAAGAAAA
21502175 GAAA
1 GAAA
21502179 GATTAAACCC
Statistics
Matches: 155, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
158 113 0.73
159 42 0.27
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.26
Consensus pattern (159 bp):
GAAAACATGATCGACTGAGGAACAAATATTATAAGCATGAACCAAATAAATAATATTCAATCAAA
ATAATCATCCTAGCTTAAATAAAATTAAGCTATCATTGTTGTAAACAAGAACAGTAAACACATAG
CAAACATTATTGAATTAAGTTAAAGAAAA
Found at i:21504188 original size:27 final size:27
Alignment explanation
Indices: 21504077--21504576 Score: 389
Period size: 27 Copynumber: 18.7 Consensus size: 27
21504067 TTAGTTTACC
* * *
21504077 AAATTATTGAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
21504103 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* * **
21504130 AAATTACCGAAATTCTGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21504156 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21504183 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
*
21504210 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
21504237 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
21504264 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
21504291 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21504318 AAATTACTGAAATACCGTCGA-TTATA
1 AAATTACTGAAATACCCTCGATTTGTA
21504344 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21504371 AAATTA-TCAAAATACCATCGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
21504397 AAATTACTGAAATGCCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21504424 AACTTACCGAAATACCCTC-AGTTTGCT-
1 AAATTACTGAAATACCCTCGA-TTTG-TA
* **
21504451 AAATTACTAAAATACCCTCGACATGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
21504478 AAATTA-TCAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* * ** **
21504505 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTGA-AATACCCTCGATTTGTA
* **
21504532 AAATTATTGAAATACCC-CTG-TAGGGTA
1 AAATTACTGAAATACCCTC-GAT-TTGTA
21504559 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
21504577 TGTAAGGAAG
Statistics
Matches: 375, Mismatches: 76, Indels: 44
0.76 0.15 0.09
Matches are distributed among these distances:
25 3 0.01
26 89 0.24
27 272 0.73
28 11 0.03
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:21504468 original size:214 final size:214
Alignment explanation
Indices: 21504125--21504547 Score: 516
Period size: 214 Copynumber: 2.0 Consensus size: 214
21504115 TACCCCCGGT
* ** * *
21504125 TTATAAAATTACCGAAATTCTGTCGATTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTAC
1 TTATAAAATTACCGAAATACCCTCGATTGTAAAATTACTAAAATACCATCAATTTGTAAAATTAC
* * * *
21504190 CGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTTGATTTGTAAAATTATTGAAATACCCT
66 CGAAATACCCTCAGTTTGCAAAATTACCGAAATACCCTAGATTTGTAAAATTACTAAAATACCCT
* * * * **
21504255 TGACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCA-AATATCCTCGATTTGTAA
131 CGACATGTAAAATTACCAAAGTACCCCCGATTTATAAAATTA-CCATAATACCCTCGATTTACAA
21504319 AATTACTGAAATACCGTCGA
195 AATTACTGAAATACCGTCGA
* *
21504339 TTATAAAATTACTGAAATACCCTCGATTTGTAAAATTA-TCAAAATACCATCGA-TTGTAAAATT
1 TTATAAAATTACCGAAATACCCTCGA-TTGTAAAATTACT-AAAATACCATCAATTTGTAAAATT
* * * *
21504402 ACTGAAATGCCCTC-GATTTGTAAACTTACCGAAATACCCTCAG-TTTGCT-AAATTACTAAAAT
64 ACCGAAATACCCTCAG-TTTGCAAAATTACCGAAATACCCT-AGATTTG-TAAAATTACTAAAAT
* * **
21504464 ACCCTCGACATGTAAAATTATCAAAGTACCCCCGATTTATAGAATTACCATTTTACCCTCGATTT
126 ACCCTCGACATGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCATAATACCCTCGATTT
*
21504529 ACAAAATTATTGAAATACC
191 ACAAAATTACTGAAATACC
21504548 CCTGTAGGGT
Statistics
Matches: 177, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
213 4 0.02
214 150 0.85
215 23 0.13
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (214 bp):
TTATAAAATTACCGAAATACCCTCGATTGTAAAATTACTAAAATACCATCAATTTGTAAAATTAC
CGAAATACCCTCAGTTTGCAAAATTACCGAAATACCCTAGATTTGTAAAATTACTAAAATACCCT
CGACATGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCATAATACCCTCGATTTACAAA
ATTACTGAAATACCGTCGA
Found at i:21504580 original size:27 final size:27
Alignment explanation
Indices: 21504531--21504970 Score: 414
Period size: 27 Copynumber: 16.3 Consensus size: 27
21504521 CTCGATTTAC
*
21504531 AAAATTATTGAAATACCCCTGTAGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
* *
21504558 AAAATTACTGAAATACCCTTGTAAGG-
1 AAAATTACTGAAATACCCCTGTAGGGT
* * *
21504584 AAGAAATACCGAAATACCCTTGTAGGGT
1 AA-AATTACTGAAATACCCCTGTAGGGT
*
21504612 AGAAA-TA-TCAAAATACCCCTGTAGGGT
1 A-AAATTACT-GAAATACCCCTGTAGGGT
* *
21504639 AGAATTACTGAAATACCCCTATAGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
* *
21504666 AGAATTA-TCGAAATACCCTTGTAGGGT
1 AAAATTACT-GAAATACCCCTGTAGGGT
*
21504693 AGAAA-TACCGAAATACCCCTGTAGGGT
1 A-AAATTACTGAAATACCCCTGTAGGGT
* *
21504720 AGAATTACTGAAATACCCTTGTAGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
* *
21504747 AGAAA-TACCGAAATACCCTTGTAGGGT
1 A-AAATTACTGAAATACCCCTGTAGGGT
* * *
21504774 AAAAATACCGAAATACCCCTGTAGGAT
1 AAAATTACTGAAATACCCCTGTAGGGT
* * *
21504801 AGAATTATTGAAATACCCCTGTAGGAT
1 AAAATTACTGAAATACCCCTGTAGGGT
* * *
21504828 AGAAA-TACCGAAACACCCTTGTAGGGT
1 A-AAATTACTGAAATACCCCTGTAGGGT
21504855 AGAAA-TA-TCGAAATACCCCTGTAGGGT
1 A-AAATTACT-GAAATACCCCTGTAGGGT
* * ** *
21504882 AGAATTACTAAAATACCCCCATAGGAT
1 AAAATTACTGAAATACCCCTGTAGGGT
* *
21504909 AGAATTACTGAAATACCCTTGTAGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
*
21504936 AGAAA-TACCGAAATACCCCTGTAGGGT
1 A-AAATTACTGAAATACCCCTGTAGGGT
*
21504963 AGAATTAC
1 AAAATTAC
21504971 AGGTCGCACG
Statistics
Matches: 344, Mismatches: 51, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
26 14 0.04
27 316 0.92
28 13 0.04
29 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTGTAGGGT
Found at i:21504602 original size:81 final size:81
Alignment explanation
Indices: 21504540--21504970 Score: 623
Period size: 81 Copynumber: 5.3 Consensus size: 81
21504530 CAAAATTATT
* *
21504540 GAAATACCCCTGTAGGGTAAAATTACTGAAATACCCTTGTAAGGAAGAAATACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGAAGAAATACCGAAATACCCTT
21504605 GTAGGGTAGAAATATC
66 GTAGGGTAGAAATATC
* * * * * *
21504621 AAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGAAGAAATACCGAAATACCCTT
*
21504686 GTAGGGTAGAAATACC
66 GTAGGGTAGAAATATC
* * *
21504702 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGAAGAAATACCGAAATACCCTT
* *
21504767 GTAGGGTAAAAATACC
66 GTAGGGTAGAAATATC
* * *
21504783 GAAATACCCCTGTAGGATAGAATTATTGAAATACCCCTGT-AGGATAGAAATACCGAAACACCCT
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGA-AGAAATACCGAAATACCCT
21504847 TGTAGGGTAGAAATATC
65 TGTAGGGTAGAAATATC
* ** * *
21504864 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCCAT-AGGATAGAATTACTGAAATACCCT
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGA-AGAAATACCGAAATACCCT
*
21504928 TGTAGGGTAGAAATACC
65 TGTAGGGTAGAAATATC
21504945 GAAATACCCCTGTAGGGTAGAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
21504971 AGGTCGCACG
Statistics
Matches: 317, Mismatches: 32, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
80 2 0.01
81 315 0.99
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGAAGAAATACCGAAATACCCTT
GTAGGGTAGAAATATC
Found at i:21504967 original size:54 final size:54
Alignment explanation
Indices: 21504533--21504970 Score: 520
Period size: 54 Copynumber: 8.1 Consensus size: 54
21504523 CGATTTACAA
* * * * *
21504533 AATTATTGAAATACCCCTGTAGGGTA-AAATTACTGAAATACCCTTGTAAGGAAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAA-TACCGAAATACCCCTGTAGGGTAG
* * * * *
21504587 AAATACCGAAATACCCTTGTAGGGTAGAAATATCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * *
21504641 AATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * *
21504695 AAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * *
21504749 AAATACCGAAATACCCTTGTAGGGTAAAAATACCGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * *
21504803 AATTATTGAAATACCCCTGTAGGATAGAAATACCGAAACACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * ** ** *
21504857 AAATA-TCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCCATAGGATAG
1 AATTACT-GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
*
21504911 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
21504965 AATTAC
1 AATTAC
21504971 AGGTCGCACG
Statistics
Matches: 326, Mismatches: 55, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.00
54 321 0.98
55 4 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:21505168 original size:22 final size:22
Alignment explanation
Indices: 21505116--21505180 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
21505106 TTAAAGCCTT
* *
21505116 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
21505138 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
21505160 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
21505181 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:21505359 original size:25 final size:26
Alignment explanation
Indices: 21505331--21505415 Score: 82
Period size: 27 Copynumber: 3.3 Consensus size: 26
21505321 TGCCACGTAT
* *
21505331 TCTGTT-AAGTGGCTTTGCCACATTA
1 TCTGTTCAAGTGGCTCTGCCACAATA
**
21505356 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCAAGTGGCTCTGCCACAATA
** * *
21505382 TCTGTATCTGGTGACTCTGTCACAATA
1 TCTGT-TCAAGTGGCTCTGCCACAATA
21505409 TCTGTTC
1 TCTGTTC
21505416 TGGCAGCCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 6 0.12
26 22 0.42
27 24 0.46
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (26 bp):
TCTGTTCAAGTGGCTCTGCCACAATA
Found at i:21505375 original size:26 final size:26
Alignment explanation
Indices: 21505339--21505418 Score: 115
Period size: 26 Copynumber: 3.0 Consensus size: 26
21505329 ATTCTGTTAA
* *
21505339 GTGGCTTTGCCACATTATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
21505365 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
21505392 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
21505418 G
1 G
21505419 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 25 0.51
27 24 0.49
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:21505399 original size:27 final size:26
Alignment explanation
Indices: 21505346--21505418 Score: 110
Period size: 27 Copynumber: 2.8 Consensus size: 26
21505336 TAAGTGGCTT
* *
21505346 TGCCACATTATCTGTTCTGGTGGCTC
1 TGCCACAATATCTGTTCTGGTGACTC
21505372 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
21505399 TGTCACAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
21505419 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 19 0.44
27 24 0.56
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:21505545 original size:6 final size:6
Alignment explanation
Indices: 21505536--21505614 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
21505526 TTGCATTTAC
* *
21505536 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTA ATTCTG -TCTCCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-T-CTG
* * *
21505586 ATTCTG ATTCTA ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
21505615 AGTTCTAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
5 3 0.05
6 46 0.79
7 7 0.12
8 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.11, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:21505567 original size:25 final size:25
Alignment explanation
Indices: 21505539--21505602 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
21505529 CATTTACATT
*
21505539 CTGATTCTGATTCTGT-TACCTGATA
1 CTGATTCTAATTCTGTCT-CCTGATA
*
21505564 CTGATTCTAATTCTGTCTCCTGATT
1 CTGATTCTAATTCTGTCTCCTGATA
21505589 CTGATTCTAATTCT
1 CTGATTCTAATTCT
21505603 CATTTTGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (25 bp):
CTGATTCTAATTCTGTCTCCTGATA
Found at i:21516924 original size:28 final size:28
Alignment explanation
Indices: 21516884--21516948 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
21516874 ATGTACTAGA
* *
21516884 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATACAAAATGACCATT
*
21516912 ATACCCCTATGTATACAAAATGACCTTT
1 ATACCCCTATGTATACAAAATGACCATT
21516940 ATACCCCTA
1 ATACCCCTA
21516949 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATACAAAATGACCATT
Found at i:21517095 original size:28 final size:29
Alignment explanation
Indices: 21517054--21517116 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
21517044 AGGAAGCGTC
* *
21517054 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTATAT
21517082 CTGGTGGC-ACTGCCACAAAATATCTATAT
1 CTGGTGGCTA-TGCCACAAAATATCTATAT
21517111 CTGGTG
1 CTGGTG
21517117 ACTCTGTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.74
29 7 0.23
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTATAT
Found at i:21517127 original size:29 final size:28
Alignment explanation
Indices: 21517064--21517127 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
21517054 CTGGTGGCTA
* * *
21517064 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTATTCTGGTGACAC
*
21517092 TGCCACAAAATATCTATATCTGGTGACTC
1 TGCCACAAAATATCTAT-TCTGGTGACAC
*
21517121 TGTCACA
1 TGCCACA
21517128 TTTTCTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTATTCTGGTGACAC
Found at i:21519863 original size:623 final size:623
Alignment explanation
Indices: 21518671--21519916 Score: 2366
Period size: 623 Copynumber: 2.0 Consensus size: 623
21518661 TTTCTGAACG
* *
21518671 ACTCCGGGCTAACGGAGCGGAGATCTTTAGGGGTGTGTCTGGTGTAGCCCCGAATGTGGCAGAAT
1 ACTCCAGGCTAACGGAGCGGAGATCTTTAGGGGTGTATCTGGTGTAGCCCCGAATGTGGCAGAAT
21518736 ATTGGTTGGAGGCCACGGAACGAATTATGGATGACTTGGACTGTTTGTGGAGCAAAAGCTAAAGG
66 ATTGGTTGGAGGCCACGGAACGAATTATGGATGACTTGGACTGTTTGTGGAGCAAAAGCTAAAGG
21518801 GGGTCGTATCATTGCTGCGAGATGAGGCTTATCAGTGGTGGCTCACCGTGAGGGATGGAACCCCA
131 GGGTCGTATCATTGCTGCGAGATGAGGCTTATCAGTGGTGGCTCACCGTGAGGGATGGAACCCCA
*
21518866 GCTGATAGGGTTACTTGGGAGCTGTTTAAGACAGCCTTTAAAGGAAAGTACGTCGGGGCAAGTTA
196 GCTGATAGGGTTACTTGGGAGCTGTTTAAGACAGCCTTTAAAGGAAAGTACATCGGGGCAAGTTA
*
21518931 TGTGGATGCCCGTAGGAAAGAATTCCTGAATCTGGTCCAAGGAGGCAAAACTGTTGCTGAGTACG
261 TGTGGACGCCCGTAGGAAAGAATTCCTGAATCTGGTCCAAGGAGGCAAAACTGTTGCTGAGTACG
21518996 AGGCTGAATTTCTGAGGCTGAGTAGGTATGCTGTGGGAATAGTTGCTACGGAGTATGAGCGTAGC
326 AGGCTGAATTTCTGAGGCTGAGTAGGTATGCTGTGGGAATAGTTGCTACGGAGTATGAGCGTAGC
21519061 GTTCGCTTTGAGGATGGACTCAGAGATGACCTTAAAGTGCTGATTGCTCCGCAGAGGGAGCGTGA
391 GTTCGCTTTGAGGATGGACTCAGAGATGACCTTAAAGTGCTGATTGCTCCGCAGAGGGAGCGTGA
*
21519126 CTTCACGGTTCTAGTGGAAAAAGCTAAGATTGCTGAAGAGGTAAAGCGTACTGAGAGGCAGAACC
456 CTTCACGGTTCTAGTGGAAAAAGCTAAGATCGCTGAAGAGGTAAAGCGTACTGAGAGGCAGAACC
*
21519191 GTGAGAAAGATCGGAACCGTTTCTGGAGGGATTATGGACCTTCGGGTGGAGCAAACAAGAATGCC
521 GTGAGAAAGATCGGAACCGTTTCCGGAGGGATTATGGACCTTCGGGTGGAGCAAACAAGAATGCC
*
21519256 AAAAGGGCGAGAGTGGAGGAGCCAGTTCGAGCTGTTCC
586 AAAAGGGCGAGAGTGGAGGAGCCAGTTCGAGCCGTTCC
21519294 ACTCCAGGCTAACGGAGCGGAGATCTTTAGGGGTGTATCTGGTGTAGCCCCGAATGTGGCAGAAT
1 ACTCCAGGCTAACGGAGCGGAGATCTTTAGGGGTGTATCTGGTGTAGCCCCGAATGTGGCAGAAT
21519359 ATTGGTTGGAGGCCACGGAACGAATTATGGATGACTTGGACTGTTTGTGGAGCAAAAGCTAAAGG
66 ATTGGTTGGAGGCCACGGAACGAATTATGGATGACTTGGACTGTTTGTGGAGCAAAAGCTAAAGG
21519424 GGGTCGTATCATTGCTGCGAGATGAGGCTTATCAGTGGTGGCTCACCGTGAGGGATGGAACCCCA
131 GGGTCGTATCATTGCTGCGAGATGAGGCTTATCAGTGGTGGCTCACCGTGAGGGATGGAACCCCA
21519489 GCTGATAGGGTTACTTGGGAGCTGTTTAAGACAGCCTTTAAAGGAAAGTACATCGGGGCAAGTTA
196 GCTGATAGGGTTACTTGGGAGCTGTTTAAGACAGCCTTTAAAGGAAAGTACATCGGGGCAAGTTA
21519554 TGTGGACGCCCGTAGGAAAGAATTCCTGAATCTGGTCCAAGGAGGCAAAACTGTTGCTGAGTACG
261 TGTGGACGCCCGTAGGAAAGAATTCCTGAATCTGGTCCAAGGAGGCAAAACTGTTGCTGAGTACG
21519619 AGGCTGAATTTCTGAGGCTGAGTAGGTATGCTGTGGGAATAGTTGCTACGGAGTATGAGCGTAGC
326 AGGCTGAATTTCTGAGGCTGAGTAGGTATGCTGTGGGAATAGTTGCTACGGAGTATGAGCGTAGC
*
21519684 GTTCGCTTTGAGGATGGACTCAGAGATGACCTTAAGGTGCTGATTGCTCCGCAGAGGGAGCGTGA
391 GTTCGCTTTGAGGATGGACTCAGAGATGACCTTAAAGTGCTGATTGCTCCGCAGAGGGAGCGTGA
* * *
21519749 CTTCGCGGTTCTGGTGGAAAAAGCTAAGATCGCTGAGGAGGTAAAGCGTACTGAGAGGCAGAACC
456 CTTCACGGTTCTAGTGGAAAAAGCTAAGATCGCTGAAGAGGTAAAGCGTACTGAGAGGCAGAACC
* *
21519814 GTGAGAAAGATCGGAACCGTTTCCGGAGGGATTCTGGACCTTCGGGTGGAGCAAACAAGAATGTC
521 GTGAGAAAGATCGGAACCGTTTCCGGAGGGATTATGGACCTTCGGGTGGAGCAAACAAGAATGCC
*
21519879 AAAAGGGCGAGAGTGGAGGAGCCAGTTTGAGCCGTTCC
586 AAAAGGGCGAGAGTGGAGGAGCCAGTTCGAGCCGTTCC
21519917 GATGAATGTG
Statistics
Matches: 609, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
623 609 1.00
ACGTcount: A:0.26, C:0.17, G:0.34, T:0.23
Consensus pattern (623 bp):
ACTCCAGGCTAACGGAGCGGAGATCTTTAGGGGTGTATCTGGTGTAGCCCCGAATGTGGCAGAAT
ATTGGTTGGAGGCCACGGAACGAATTATGGATGACTTGGACTGTTTGTGGAGCAAAAGCTAAAGG
GGGTCGTATCATTGCTGCGAGATGAGGCTTATCAGTGGTGGCTCACCGTGAGGGATGGAACCCCA
GCTGATAGGGTTACTTGGGAGCTGTTTAAGACAGCCTTTAAAGGAAAGTACATCGGGGCAAGTTA
TGTGGACGCCCGTAGGAAAGAATTCCTGAATCTGGTCCAAGGAGGCAAAACTGTTGCTGAGTACG
AGGCTGAATTTCTGAGGCTGAGTAGGTATGCTGTGGGAATAGTTGCTACGGAGTATGAGCGTAGC
GTTCGCTTTGAGGATGGACTCAGAGATGACCTTAAAGTGCTGATTGCTCCGCAGAGGGAGCGTGA
CTTCACGGTTCTAGTGGAAAAAGCTAAGATCGCTGAAGAGGTAAAGCGTACTGAGAGGCAGAACC
GTGAGAAAGATCGGAACCGTTTCCGGAGGGATTATGGACCTTCGGGTGGAGCAAACAAGAATGCC
AAAAGGGCGAGAGTGGAGGAGCCAGTTCGAGCCGTTCC
Found at i:21520760 original size:112 final size:112
Alignment explanation
Indices: 21520560--21520783 Score: 412
Period size: 112 Copynumber: 2.0 Consensus size: 112
21520550 TAAGGCGACT
21520560 CTGGACTGTGCTGCTAAGCGAATGGTGCTAAGGACCACGGAAGGGGATGAGGTTATGGTGATAGG
1 CTGGACTGTGCTGCTAAGCGAATGGTGCTAAGGACCACGGAAGGGGATGAGGTTATGGTGATAGG
* *
21520625 TGAGCGAAGGGACTATTTGTCTAATGTGATATCGGCATTGAGGGCTG
66 TGAGCAAAGGGACTATTTATCTAATGTGATATCGGCATTGAGGGCTG
* *
21520672 CTGGATTGTGCTGCTAAGCGAATGGTGCTAAGGACCACGGAATGGGATGAGGTTATGGTGATAGG
1 CTGGACTGTGCTGCTAAGCGAATGGTGCTAAGGACCACGGAAGGGGATGAGGTTATGGTGATAGG
21520737 TGAGCAAAGGGACTATTTATCTAATGTGATATCGGCATTGAGGGCTG
66 TGAGCAAAGGGACTATTTATCTAATGTGATATCGGCATTGAGGGCTG
21520784 AAAAGTGGAT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 108 1.00
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.26
Consensus pattern (112 bp):
CTGGACTGTGCTGCTAAGCGAATGGTGCTAAGGACCACGGAAGGGGATGAGGTTATGGTGATAGG
TGAGCAAAGGGACTATTTATCTAATGTGATATCGGCATTGAGGGCTG
Found at i:21525511 original size:28 final size:28
Alignment explanation
Indices: 21525471--21525535 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
21525461 ATGTACTAGA
*
21525471 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
21525499 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
21525527 ATACCCCTA
1 ATACCCCTA
21525536 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:21525699 original size:27 final size:27
Alignment explanation
Indices: 21525641--21525730 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
21525631 AGGAAGCGTC
21525641 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
21525669 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
21525696 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
21525725 CTGGTG
1 CTGGTG
21525731 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:21525749 original size:55 final size:56
Alignment explanation
Indices: 21525641--21525755 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
21525631 AGGAAGCGTC
* *
21525641 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
21525696 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
21525752 CTGG
1 CTGG
21525756 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:21536753 original size:16 final size:16
Alignment explanation
Indices: 21536710--21536754 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
21536700 AAAACCTAAT
21536710 TTTCGGCTTTTTGGTG
1 TTTCGGCTTTTTGGTG
* *
21536726 TTTCGACATTTTGG-G
1 TTTCGGCTTTTTGGTG
21536741 ATTTCGGCTTTTTG
1 -TTTCGGCTTTTTG
21536755 CCGGTCTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.07, C:0.13, G:0.27, T:0.53
Consensus pattern (16 bp):
TTTCGGCTTTTTGGTG
Found at i:21542154 original size:12 final size:12
Alignment explanation
Indices: 21542137--21542170 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
21542127 AATTTGACCG
21542137 AATGTTCATACC
1 AATGTTCATACC
*
21542149 AATGTTAATACC
1 AATGTTCATACC
21542161 AATGTTCATA
1 AATGTTCATA
21542171 TATCTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (12 bp):
AATGTTCATACC
Found at i:21562125 original size:166 final size:166
Alignment explanation
Indices: 21561851--21562173 Score: 646
Period size: 166 Copynumber: 1.9 Consensus size: 166
21561841 TATGAGTATT
21561851 CGAATATGAAATGATAGTATGGCGTGAAATTGAATTATTCATTGGGAAATGATTAATGTAGATTC
1 CGAATATGAAATGATAGTATGGCGTGAAATTGAATTATTCATTGGGAAATGATTAATGTAGATTC
21561916 GGCCAAGACAAAGTGTATACATGATAGTATATGTGATATGTGAAGTATATTTGGATAATTGTGAT
66 GGCCAAGACAAAGTGTATACATGATAGTATATGTGATATGTGAAGTATATTTGGATAATTGTGAT
21561981 GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
131 GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
21562017 CGAATATGAAATGATAGTATGGCGTGAAATTGAATTATTCATTGGGAAATGATTAATGTAGATTC
1 CGAATATGAAATGATAGTATGGCGTGAAATTGAATTATTCATTGGGAAATGATTAATGTAGATTC
21562082 GGCCAAGACAAAGTGTATACATGATAGTATATGTGATATGTGAAGTATATTTGGATAATTGTGAT
66 GGCCAAGACAAAGTGTATACATGATAGTATATGTGATATGTGAAGTATATTTGGATAATTGTGAT
21562147 GTGAAAGTGTATATATGTGATAAGGCC
131 GTGAAAGTGTATATATGTGATAAGGCC
21562174 TAATAGGCGA
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 157 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.33
Consensus pattern (166 bp):
CGAATATGAAATGATAGTATGGCGTGAAATTGAATTATTCATTGGGAAATGATTAATGTAGATTC
GGCCAAGACAAAGTGTATACATGATAGTATATGTGATATGTGAAGTATATTTGGATAATTGTGAT
GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:21562196 original size:47 final size:47
Alignment explanation
Indices: 21562145--21562363 Score: 305
Period size: 49 Copynumber: 4.6 Consensus size: 47
21562135 GATAATTGTG
21562145 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGG-CGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GGCCGATGTGATGA
*
21562192 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGACGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21562241 ATGTGAAAGTGAATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
21562290 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGAA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG-A
*
21562338 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
21562364 TCCCGAAGGG
Statistics
Matches: 157, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
47 40 0.25
48 26 0.17
49 91 0.58
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:21579544 original size:15 final size:17
Alignment explanation
Indices: 21579526--21579562 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
21579516 TATTTTCATT
21579526 TTTTTCA-TTTCT-TCC
1 TTTTTCATTTTCTCTCC
21579541 TTTTTCATTTTCTCTCC
1 TTTTTCATTTTCTCTCC
21579558 TTTTT
1 TTTTT
21579563 GACAAACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 5 0.25
17 8 0.40
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTCATTTTCTCTCC
Found at i:21579544 original size:17 final size:19
Alignment explanation
Indices: 21579524--21579562 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 19
21579514 CATATTTTCA
21579524 TTTTTTTCA-TTTCT-TCC
1 TTTTTTTCATTTTCTCTCC
21579541 --TTTTTCATTTTCTCTCC
1 TTTTTTTCATTTTCTCTCC
21579558 TTTTT
1 TTTTT
21579563 GACAAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 6
0.75 0.00 0.25
Matches are distributed among these distances:
15 7 0.39
16 5 0.28
17 3 0.17
19 3 0.17
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTTCATTTTCTCTCC
Found at i:21581741 original size:22 final size:22
Alignment explanation
Indices: 21581716--21581762 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
21581706 CAATGTTATT
*
21581716 AGTGGCAGTTTATCT-ACAAATC
1 AGTGGCAATTTATCTCA-AAATC
21581738 AGTGGCAATTTATCTCAAAATC
1 AGTGGCAATTTATCTCAAAATC
21581760 AGT
1 AGT
21581763 AGTGGCTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (22 bp):
AGTGGCAATTTATCTCAAAATC
Found at i:21581772 original size:73 final size:73
Alignment explanation
Indices: 21581685--21581826 Score: 230
Period size: 73 Copynumber: 1.9 Consensus size: 73
21581675 TATATGTAAT
* * * *
21581685 TCAGTGGTGGCTTGTCCATATCAATGTTATTAGTGGCAGTTTATCTACAAATCAGTGGCAATTTA
1 TCAGTAGTGGCTTGTCCACATCAATGTTATTAGTCGCAGTTTATCTAAAAATCAGTGGCAATTTA
21581750 TCTCAAAA
66 TCTCAAAA
* *
21581758 TCAGTAGTGGCTTGTCCACATCACTGTTATTAGTCGCAGTTTATTTAAAAATCAGTGGCAATTTA
1 TCAGTAGTGGCTTGTCCACATCAATGTTATTAGTCGCAGTTTATCTAAAAATCAGTGGCAATTTA
21581823 TCTC
66 TCTC
21581827 TGTAACACCC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (73 bp):
TCAGTAGTGGCTTGTCCACATCAATGTTATTAGTCGCAGTTTATCTAAAAATCAGTGGCAATTTA
TCTCAAAA
Found at i:21582501 original size:6 final size:6
Alignment explanation
Indices: 21582490--21582674 Score: 159
Period size: 6 Copynumber: 30.5 Consensus size: 6
21582480 AACCAAAATG
*
21582490 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
21582538 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
21582587 AGAATC AGTAA-C AGAATC AGAATC AGAATT AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
21582635 AGAATC AGAATT AGAATT ACGTGA-C AGAATC AGAATC AGA
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGA
21582675 TTGTGAATGC
Statistics
Matches: 149, Mismatches: 14, Indels: 32
0.76 0.07 0.16
Matches are distributed among these distances:
5 11 0.07
6 125 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:21582505 original size:30 final size:30
Alignment explanation
Indices: 21582469--21582674 Score: 214
Period size: 30 Copynumber: 7.0 Consensus size: 30
21582459 AAGAAACATT
* *
21582469 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
21582499 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
21582529 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
21582559 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
21582590 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * *
21582614 ATTAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
21582644 ATTAGAATTACGTG-ACAGAATCAGAATCAGA
1 ATCAGAATTA-G-GAACAGAATCAGAATCAGA
21582675 TTGTGAATGC
Statistics
Matches: 153, Mismatches: 11, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
24 21 0.14
27 1 0.01
28 1 0.01
29 1 0.01
30 85 0.56
31 44 0.29
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:21582590 original size:85 final size:85
Alignment explanation
Indices: 21582490--21582674 Score: 334
Period size: 85 Copynumber: 2.2 Consensus size: 85
21582480 AACCAAAATG
21582490 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
21582555 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
* *
21582575 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATTAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
21582640 CAGAATTAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
21582660 AGAATCAGAATCAGA
1 AGAATCAGAATCAGA
21582675 TTGTGAATGC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:21582831 original size:27 final size:26
Alignment explanation
Indices: 21582794--21582853 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
21582784 AGCATGGCTG
*
21582794 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
21582820 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
21582847 CCAGAAC
1 CCAGAAC
21582854 GCTTCCTCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:21583082 original size:27 final size:27
Alignment explanation
Indices: 21583052--21583247 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
21583042 GGGGCAAAAT
* * *
21583052 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
21583079 GGTAATTCTACCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
*
21583106 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
21583133 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21583160 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
21583187 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
21583214 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
21583241 AGTAATT
1 GGTAATT
21583248 TCACAATCAA
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 3 0.02
27 142 0.96
28 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:21583118 original size:54 final size:54
Alignment explanation
Indices: 21583052--21583247 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
21583042 GGGGCAAAAT
* * * * *
21583052 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
21583106 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * *
21583160 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
21583214 AGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
21583248 TCACAATCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:21583282 original size:27 final size:27
Alignment explanation
Indices: 21583252--21583525 Score: 349
Period size: 27 Copynumber: 10.2 Consensus size: 27
21583242 GTAATTTCAC
*
21583252 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
21583279 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
21583306 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** *
21583333 AATCGAGGGTAAAATAGT-ATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
21583359 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
21583386 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
21583413 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
21583440 AATCGAGGGTAAAACAGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
21583467 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
21583494 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
21583521 AATCG
1 AATCG
21583526 GGAGTACTTT
Statistics
Matches: 220, Mismatches: 20, Indels: 14
0.87 0.08 0.06
Matches are distributed among these distances:
25 1 0.00
26 23 0.10
27 194 0.88
28 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:21583538 original size:27 final size:27
Alignment explanation
Indices: 21583252--21583556 Score: 278
Period size: 27 Copynumber: 11.3 Consensus size: 27
21583242 GTAATTTCAC
* * *
21583252 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
21583279 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
21583306 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* * *
21583333 AATCGAGGGTAAAATAGT-ATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
21583359 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* * *
21583386 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
21583413 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
** * *
21583440 AATCGAGGGTAAAACAGTAATTTTAAA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
21583467 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
21583494 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*** *
21583521 AATCG-GGAGTACTTTGGTAATTTTATA
1 AATCGAGG-GTAAAATGGTAATTCTATA
*
21583548 AGTCGAGGG
1 AATCGAGGG
21583557 CATTTCAGTA
Statistics
Matches: 243, Mismatches: 26, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.00
26 25 0.10
27 213 0.88
28 4 0.02
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:21583541 original size:81 final size:81
Alignment explanation
Indices: 21583252--21583556 Score: 350
Period size: 81 Copynumber: 3.8 Consensus size: 81
21583242 GTAATTTCAC
* * * *
21583252 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTAAA-CTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATC-GAGGGT
* *
21583316 AAAATGGTAATTTTGTA
65 AAAACGGTAATTCTGTA
** * * * *
21583333 AATCGAGGGTAAAATAGT-ATTTTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTTTATAAATCGAGGGT
21583396 AAAACGGTAATTCTGTA
65 AAAACGGTAATTCTGTA
* *
21583413 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTAAAAATCGAGGGT
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGT
*
21583477 AAAACGGTAATTCTATA
65 AAAACGGTAATTCTGTA
* **** *
21583494 AATCGAGGGTAAAATGGTAATTCTGTAAATCG-GGAGTACTTTGGTAATTTTATAAGTCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAACGGTAATTTTATAAATCGAGGG
21583557 CATTTCAGTA
Statistics
Matches: 190, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
79 2 0.01
80 68 0.36
81 118 0.62
82 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTA
AAACGGTAATTCTGTA
Found at i:21583548 original size:54 final size:54
Alignment explanation
Indices: 21583257--21583522 Score: 392
Period size: 54 Copynumber: 4.9 Consensus size: 54
21583247 TTCACAATCA
*
21583257 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACTG
* * *
21583311 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGT-ATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACTG
* * *
21583364 AGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACTG
** * *
21583418 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTT-AAAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACT-G
* *
21583472 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAA
21583523 TCGGGAGTAC
Statistics
Matches: 189, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
53 52 0.28
54 134 0.71
55 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACTG
Found at i:21588423 original size:27 final size:27
Alignment explanation
Indices: 21588393--21588483 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
21588383 ATTACCAAAG
* *
21588393 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
21588420 TACCATTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
21588447 TACCCTCAATTGT-GAAAA-TA-TAGTTT
1 TACCCTCGATT-TACAAAATTACT-GTTT
21588473 TACCCTCGATT
1 TACCCTCGATT
21588484 GTGAAATTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
25 1 0.02
26 16 0.30
27 35 0.66
28 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:21588545 original size:27 final size:27
Alignment explanation
Indices: 21588515--21588628 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
21588505 TATAGGGTAG
*
21588515 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * * *
21588542 AATTACCAAATTACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
**
21588569 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
21588596 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
21588623 AATTAC
1 AATTAC
21588629 AGAAATAACC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.04
27 65 0.90
28 4 0.06
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:21588626 original size:54 final size:54
Alignment explanation
Indices: 21588535--21588695 Score: 153
Period size: 54 Copynumber: 2.9 Consensus size: 54
21588525 ATACCCCTAG
* * ***
21588535 TTTGTAAAATTACCAAATTACCACTAGTTTGTGAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTAATTTACAAAATTACTGAAATACCCTCAA
* * * * *
21588589 TTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAATAACCTTGAC
1 TTTGTAAAATTACCAAAATACCACTAATTTACAAAATTACTGAAAT-ACCCTCAA
* * * * *
21588644 TTTCTAAAAGTTA-TAGAAATACCATTGATTTACAAAATTATTGAAATACCCT
1 TTTGTAAAA-TTACCA-AAATACCACTAATTTACAAAATTACTGAAATACCCT
21588696 TGGTTTGTAG
Statistics
Matches: 86, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
54 39 0.45
55 18 0.21
56 29 0.34
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTAATTTACAAAATTACTGAAATACCCTCAA
Found at i:21588634 original size:27 final size:28
Alignment explanation
Indices: 21588568--21588635 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
21588558 CTAGTTTGTG
* **
21588568 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACAGAAATACCCCTCAATTTACA
21588595 AAATTACCA-AAATACCCCT-AATTTACA
1 AAATTA-CAGAAATACCCCTCAATTTACA
21588622 AAATTACAGAAATA
1 AAATTACAGAAATA
21588636 ACCTTGACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 2 0.06
27 28 0.80
28 5 0.14
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (28 bp):
AAATTACAGAAATACCCCTCAATTTACA
Found at i:21588662 original size:29 final size:27
Alignment explanation
Indices: 21588615--21588697 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 27
21588605 AATACCCCTA
*
21588615 ATTTACAAAATTACAGAAATAACCTTG
1 ATTTACAAAATTATAGAAATAACCTTG
21588642 ACTTT-CTAAAAGTTATAGAAAT-ACCATTG
1 A-TTTAC-AAAA-TTATAGAAATAACC-TTG
* *
21588671 ATTTACAAAATTATTGAAATACCCTTG
1 ATTTACAAAATTATAGAAATAACCTTG
21588698 GTTTGTAGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
27 14 0.30
28 19 0.40
29 14 0.30
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.34
Consensus pattern (27 bp):
ATTTACAAAATTATAGAAATAACCTTG
Found at i:21588833 original size:25 final size:26
Alignment explanation
Indices: 21588754--21588823 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
21588744 TACCCCTAAT
*
21588754 TGGTAAAAAGACCGTAA-AGCCCCTGTA
1 TGGTAAAATGACCG-AATA-CCCCTGTA
* *
21588781 GGGTAAAGTGACCGAATACCCCTGTA
1 TGGTAAAATGACCGAATACCCCTGTA
21588807 TGGTAAAATGA-CGAATA
1 TGGTAAAATGACCGAATA
21588824 TGCCTTTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 6 0.16
26 19 0.51
27 12 0.32
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (26 bp):
TGGTAAAATGACCGAATACCCCTGTA
Found at i:21589666 original size:25 final size:25
Alignment explanation
Indices: 21589628--21589697 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
21589618 AGGAAGTGCT
* *
21589628 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
21589653 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
* *
21589678 AAAAAGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
21589698 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:21589699 original size:24 final size:24
Alignment explanation
Indices: 21589653--21589724 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
21589643 TAGTTTACCG
* *
21589653 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAAGGCTTTGCCCCAG-TTATCA
*
21589678 AAAAAGGCTTTGCCCCAGTTATTA
1 AAAAAGGCTTTGCCCCAGTTATCA
* **
21589702 AAAGAGGCTAAGCCTCCAGTTAT
1 AAAAAGGCTTTGCC-CCAGTTAT
21589725 ATTATAAAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.40
25 24 0.60
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (24 bp):
AAAAAGGCTTTGCCCCAGTTATCA
Found at i:21589966 original size:31 final size:31
Alignment explanation
Indices: 21589917--21589999 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
21589907 CGCTTACAGT
*
21589917 AAAGGCTTAGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21589947 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21589978 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
21590000 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 15 0.29
31 36 0.71
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:21595655 original size:22 final size:22
Alignment explanation
Indices: 21595630--21595671 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21595620 ATGATGATTG
21595630 ATATGT-TGAGATTGATATTTTA
1 ATATGTATGAGATT-ATATTTTA
*
21595652 ATATGTATGCGATTATATTT
1 ATATGTATGAGATTATATTT
21595672 GTGATGATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (22 bp):
ATATGTATGAGATTATATTTTA
Found at i:21600858 original size:47 final size:47
Alignment explanation
Indices: 21600798--21600927 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 47
21600788 GTGTGAATAA
* * * *
21600798 TACCTTAATTTGGCTATAGGCCATGGTATTGGTATTCAATGA-AGAGT
1 TACCTTGATTTGGCTATAGGCCATGGTATAGGTACTCAAGGATA-AGT
* **
21600845 TACCTTGATTTGGCTA-CGAGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTATAG-GCCATGGTATAGGTACTCAAGGATAAGT
*
21600892 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATAGGCCATGGTATAGGTACT
21600928 TATCGATTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
46 1 0.01
47 69 0.96
48 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTATAGGCCATGGTATAGGTACTCAAGGATAAGT
Found at i:21602900 original size:26 final size:27
Alignment explanation
Indices: 21602855--21602926 Score: 105
Period size: 26 Copynumber: 2.8 Consensus size: 27
21602845 CTCTTTTAAT
*
21602855 AACTGGGGC-AAAGCCCTTTTTGA-TA
1 AACTGGGGCAAAAGCCCTTTTTCAGTA
21602880 AACTGGGGCAAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAAGCCCTTTTTCAGTA
*
21602906 AACTAGGGCAAAAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
21602927 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.33
26 25 0.60
27 3 0.07
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (27 bp):
AACTGGGGCAAAAGCCCTTTTTCAGTA
Found at i:21603010 original size:11 final size:10
Alignment explanation
Indices: 21602982--21603027 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
21602972 ACATCATATA
*
21602982 CATATCAT-A
1 CATATCATGT
21602991 CATATCATGT
1 CATATCATGT
21603001 GCATATCATGT
1 -CATATCATGT
*
21603012 CAAATCATGT
1 CATATCATGT
21603022 -ATATCA
1 CATATCA
21603028 AGGTCTCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (10 bp):
CATATCATGT
Found at i:21609911 original size:27 final size:27
Alignment explanation
Indices: 21609880--21610057 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21609870 TAAATTGTAC
21609880 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21609907 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21609933 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21609961 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21609989 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21610016 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21610043 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21610058 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21609994 original size:82 final size:81
Alignment explanation
Indices: 21609881--21610036 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21609871 AAATTGTACA
* *
21609881 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21609945 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21609962 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21610027 TGCGAGTTGA
65 TGCGAATTGA
21610037 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21610048 original size:82 final size:81
Alignment explanation
Indices: 21609877--21610057 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21609867 GATTAAATTG
* *
21609877 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21609942 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21609958 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21610022 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21610040 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21610058 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21611990 original size:27 final size:27
Alignment explanation
Indices: 21611960--21612020 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
21611950 TTTACTAAAG
21611960 TACCCCTAAGTATG-AAAATTACCATTA
1 TACCCCTAAG-ATGCAAAATTACCATTA
* *
21611987 TA-CCCTTAGGTGCAAAATTACCATTA
1 TACCCCTAAGATGCAAAATTACCATTA
21612013 TACCCCTA
1 TACCCCTA
21612021 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 21 0.72
27 6 0.21
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCCTAAGATGCAAAATTACCATTA
Found at i:21612185 original size:27 final size:26
Alignment explanation
Indices: 21612124--21612210 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 26
21612114 TGGAGGAAGC
* * *
21612124 GTTCTGGCGGCTCTGCCACAAATATCT
1 GTTCTGGTGACTCTACCAC-AATATCT
* * *
21612151 AATT-TGGTGGCTCTACCACAATATTT
1 -GTTCTGGTGACTCTACCACAATATCT
*
21612177 GTATCTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGACTCTACCACAATATCT
21612204 GTTCTGG
1 GTTCTGG
21612211 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
25 1 0.02
26 12 0.24
27 34 0.69
28 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGACTCTACCACAATATCT
Found at i:21626653 original size:40 final size:40
Alignment explanation
Indices: 21626598--21626865 Score: 437
Period size: 40 Copynumber: 6.7 Consensus size: 40
21626588 GAGCATTGGA
21626598 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
21626638 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
21626678 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
21626718 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
21626758 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
21626798 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
21626838 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
21626866 AGGTGTTTGC
Statistics
Matches: 209, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 209 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:21643472 original size:27 final size:26
Alignment explanation
Indices: 21643432--21643546 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
21643422 ATGGAGGAAG
*
21643432 TGTTCTGGCT-GCTCTGCCACAAATATT
1 TGTTCTGG-TGGCTCTGCCAC-AATATC
21643459 TGTTCTGGTGGCTCTGCCACAAATATC
1 TGTTCTGGTGGCTCTGCCAC-AATATC
*
21643486 TGTTTTTGGTGGCTCTGCCACAATATC
1 TG-TTCTGGTGGCTCTGCCACAATATC
* *
21643513 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTCTGCCACAATATC
21643540 TGTTCTG
1 TGTTCTG
21643547 TCAGCCATGC
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
26 6 0.08
27 57 0.71
28 17 0.21
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
TGTTCTGGTGGCTCTGCCACAATATC
Found at i:21651523 original size:47 final size:47
Alignment explanation
Indices: 21651472--21651839 Score: 503
Period size: 47 Copynumber: 7.7 Consensus size: 47
21651462 TTAGGATTCT
* * * *
21651472 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
21651519 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
21651566 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* **
21651615 ATGTGATGAATGTGAAAGTGTATATATATGTGATTA----TATATGTGATAAG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA-ATG-G--CCG
21651664 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
21651711 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
21651758 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
21651805 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
21651840 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 17, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
45 2 0.01
46 4 0.01
47 199 0.68
49 83 0.28
50 3 0.01
51 2 0.01
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:21651759 original size:192 final size:188
Alignment explanation
Indices: 21651472--21651836 Score: 599
Period size: 192 Copynumber: 1.9 Consensus size: 188
21651462 TTAGGATTCT
* *
21651472 ATGTGATGGATGTGAACATGCATATATGAGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
21651537 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
* *
21651602 GGCCTAAT-GACCGATGTGATGAATGTGAAAGTGTATATATATGTGATTATATATGTGATAAG
129 GGCCTAATAG-CCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGATTATATATGTGATAAG
* *
21651664 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
21651728 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
21651793 GCCTAATAGCCAACGTGATGGATGTGAAAGTGTATAAATGTGAT
130 GCCTAATAGCCAACGTGATGAATGTGAAAGTGTATAAATGTGAT
21651837 AAGTCCCGAA
Statistics
Matches: 164, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
188 7 0.04
189 1 0.01
190 46 0.28
191 2 0.01
192 108 0.66
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (188 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATAGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATTATATATGTGATAAG
Found at i:21652014 original size:37 final size:37
Alignment explanation
Indices: 21651958--21652036 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
21651948 CCGAGCTCTA
* * *
21651958 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
21651995 AAGATCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21652032 AAGAC
1 AAGAC
21652037 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21657593 original size:8 final size:8
Alignment explanation
Indices: 21657567--21657601 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
21657557 GCAAATCTCA
21657567 AAATGCCG
1 AAATGCCG
* *
21657575 AAAAGCTG
1 AAATGCCG
21657583 AAATGCCG
1 AAATGCCG
21657591 AAATGCCG
1 AAATGCCG
21657599 AAA
1 AAA
21657602 AGTTGGAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:21657862 original size:28 final size:28
Alignment explanation
Indices: 21657822--21657924 Score: 127
Period size: 28 Copynumber: 3.7 Consensus size: 28
21657812 ATTGCATGAC
* *
21657822 TATGAGTGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* **
21657850 TATGAAGGTGATTGGGCCAAATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
21657878 TATGAATGTGATT-GGCCTCGATGGGCCA
1 TATGAATGTGATTGGGCCT-GATGGGCCA
* *
21657906 TATAAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
21657925 AAAGGGGCCA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 4 0.06
28 54 0.86
29 5 0.08
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:21657888 original size:56 final size:57
Alignment explanation
Indices: 21657822--21657940 Score: 152
Period size: 56 Copynumber: 2.1 Consensus size: 57
21657812 ATTGCATGAC
* * * *
21657822 TATGAGTGTGATTGGGCCT-GACGGGCCATATGAAGGTGATTGGGCC-AAATGGGCCA
1 TATGAATGTGATT-GGCCTCGACGGGCCATATAAAGGAGATTGGGCCTAAAGGGGCCA
* *
21657878 TATGAATGTGATTGGCCTCGATGGGCCATATAAATGAGATTGGGCCTAAAGGGGCCA
1 TATGAATGTGATTGGCCTCGACGGGCCATATAAAGGAGATTGGGCCTAAAGGGGCCA
*
21657935 AATGAA
1 TATGAA
21657941 GAAGTATGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 5 0.09
56 35 0.65
57 14 0.26
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.24
Consensus pattern (57 bp):
TATGAATGTGATTGGCCTCGACGGGCCATATAAAGGAGATTGGGCCTAAAGGGGCCA
Found at i:21657985 original size:27 final size:27
Alignment explanation
Indices: 21657947--21657998 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
21657937 TGAAGAAGTA
* *
21657947 TGGATTTGTTAGTGTTTAGTAAGGGTT
1 TGGATTTGTTAGTGCTTAATAAGGGTT
21657974 TGGATTTGTTAGTGCTTAATAAGGG
1 TGGATTTGTTAGTGCTTAATAAGGG
21657999 GTTGTGGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (27 bp):
TGGATTTGTTAGTGCTTAATAAGGGTT
Found at i:21664803 original size:28 final size:28
Alignment explanation
Indices: 21664755--21664851 Score: 131
Period size: 28 Copynumber: 3.5 Consensus size: 28
21664745 TGACTATAAG
**
21664755 TGTGATTGGGCCTGACAGGCCATATGAA
1 TGTGATTGGGCCTGATGGGCCATATGAA
* *
21664783 GGTGATTGGGCTTGATGGGCCATATGAA
1 TGTGATTGGGCCTGATGGGCCATATGAA
**
21664811 TGTGATTGGGCCCAATGGGCCATATGAA
1 TGTGATTGGGCCTGATGGGCCATATGAA
*
21664839 TGAGATTGGGCCT
1 TGTGATTGGGCCT
21664852 AAAGGGGCCA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (28 bp):
TGTGATTGGGCCTGATGGGCCATATGAA
Found at i:21664868 original size:29 final size:28
Alignment explanation
Indices: 21664772--21664868 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
21664762 GGGCCTGACA
* * *** *
21664772 GGCCATATGAAGGTGATTGGGCTTGATG
1 GGCCATATGAATGAGATTGGGCCAAAGG
* * *
21664800 GGCCATATGAATGTGATTGGGCCCAATG
1 GGCCATATGAATGAGATTGGGCCAAAGG
21664828 GGCCATATGAATGAGATTGGGCCTAAAGG
1 GGCCATATGAATGAGATTGGGCC-AAAGG
*
21664857 GGCCAAATGAAT
1 GGCCATATGAAT
21664869 AAGTATGGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 46 0.77
29 14 0.23
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (28 bp):
GGCCATATGAATGAGATTGGGCCAAAGG
Found at i:21676750 original size:28 final size:28
Alignment explanation
Indices: 21676687--21676784 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
21676677 AGATTAAGTC
*
21676687 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
21676714 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
21676742 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
21676771 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21676785 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21686020 original size:12 final size:12
Alignment explanation
Indices: 21686003--21686028 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21685993 TGTTCAGTTT
21686003 GATGGTTTGCAG
1 GATGGTTTGCAG
21686015 GATGGTTTGCAG
1 GATGGTTTGCAG
21686027 GA
1 GA
21686029 CAAGGATCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.08, G:0.42, T:0.31
Consensus pattern (12 bp):
GATGGTTTGCAG
Found at i:21693180 original size:93 final size:93
Alignment explanation
Indices: 21693067--21693238 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
21693057 CGCCCATAAG
* * * *
21693067 CGAACTCGGTCTCAACTCAACGAGCTGGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21693132 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
21693160 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
21693225 AGGAGTTCGGATGC
66 ACGAGCTCGGATGC
21693239 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:21693231 original size:46 final size:46
Alignment explanation
Indices: 21693060--21693235 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
21693050 TGTAACCCGC
* * * *
21693060 CCATAAGCGAACTCGGTCTCAACTCAACGAGCTGGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
21693106 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
21693156 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
21693199 CCATAAGTGAACTCGGACTCAACTCAAGGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
21693236 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:21693254 original size:46 final size:44
Alignment explanation
Indices: 21693111--21693254 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
21693101 CGCATCCATA
*
21693111 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
21693158 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
21693204 AGTGAACTCGGACTCAACTCAAGGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
21693250 AGTGA
1 AGTGA
21693255 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.41
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:21696929 original size:27 final size:27
Alignment explanation
Indices: 21696893--21697140 Score: 352
Period size: 27 Copynumber: 9.2 Consensus size: 27
21696883 AAAGGTCGTT
* *
21696893 AAATGACCGTAATGCCTCTGTAGAGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
21696920 AAATAACCGTAATGCTCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
21696947 AAATGACCGTGATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * *
21696974 AAATGACTGTAATGCCCCTATAGAGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
21697001 AAACGACCGTAATGCCCCTATAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
21697028 AAATGACCGTAATGCCACTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
21697055 AAATGATCGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
21697082 AAATGACCATAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
21697109 AAATGACCGTAATACCCCTGTATGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
21697136 AAATG
1 AAATG
21697141 TCGATTATGC
Statistics
Matches: 195, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 195 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTGTAGGGTA
Found at i:21697369 original size:27 final size:27
Alignment explanation
Indices: 21697283--21697377 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 27
21697273 GGAAGTTTTG
* * *
21697283 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATTTACTGT
* * **
21697310 TACTGGTGGCTATGCCACAATTATTAA
1 TACTGGTGGCTATGCCACATTTACTGT
*
21697337 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACATTTACTGT
* *
21697364 TTCTGGTAGCTATG
1 TACTGGTGGCTATG
21697378 TTGCATTATT
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACATTTACTGT
Done.