Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 65 of 378
Found at i:16984021 original size:24 final size:24
Alignment explanation
Indices: 16983993--16984041 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
16983983 TTCCTAAGAT
16983993 TATATTTTATTATGTATTTTACTA
1 TATATTTTATTATGTATTTTACTA
16984017 TATATTTTATTATGTATTTTACTA
1 TATATTTTATTATGTATTTTACTA
16984041 T
1 T
16984042 CTAATCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (24 bp):
TATATTTTATTATGTATTTTACTA
Found at i:16992977 original size:15 final size:15
Alignment explanation
Indices: 16992943--16992976 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16992933 TGGCATAATA
*
16992943 ATTTGCTAACTTTGT
1 ATTTTCTAACTTTGT
16992958 ATTTTCTAACTTT-T
1 ATTTTCTAACTTTGT
16992972 ATTTT
1 ATTTT
16992977 TAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (15 bp):
ATTTTCTAACTTTGT
Found at i:16993133 original size:25 final size:26
Alignment explanation
Indices: 16993082--16993133 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
16993072 AACTTTTTCA
* **
16993082 TATTTTAAATAAATTTTTATAGTTTT
1 TATTTTAAATAAATTTTTACACATTT
16993108 TATTTTAAAT-AATTTTTACACATTT
1 TATTTTAAATAAATTTTTACACATTT
16993133 T
1 T
16993134 TATATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
TATTTTAAATAAATTTTTACACATTT
Found at i:16993133 original size:26 final size:26
Alignment explanation
Indices: 16993055--16993136 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 26
16993045 TTTTCACAAA
* *
16993055 ATTTTAAATAA-TTCTACAACTTTTTCAT
1 ATTTTAAATAATTTTTAC-ACATTTT--T
* *
16993083 ATTTTAAATAAATTTTTATA-GTTTTT
1 ATTTTAAAT-AATTTTTACACATTTTT
16993109 ATTTTAAATAATTTTTACACATTTTT
1 ATTTTAAATAATTTTTACACATTTTT
16993135 AT
1 AT
16993137 ATTTTTAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.20
26 17 0.37
28 13 0.28
29 3 0.07
30 4 0.09
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.56
Consensus pattern (26 bp):
ATTTTAAATAATTTTTACACATTTTT
Found at i:16994996 original size:21 final size:20
Alignment explanation
Indices: 16994972--16995021 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
16994962 TATAAACGTG
* *
16994972 AAACAACACCAAAACAGTGA
1 AAACAACACAAAAACAATGA
16994992 CAAACAACAACAAAAACAATGA
1 -AAACAAC-ACAAAAACAATGA
16995014 AAACAACA
1 AAACAACA
16995022 GCAAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.54
22 11 0.42
ACGTcount: A:0.66, C:0.24, G:0.06, T:0.04
Consensus pattern (20 bp):
AAACAACACAAAAACAATGA
Found at i:17000287 original size:25 final size:29
Alignment explanation
Indices: 17000246--17000304 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
17000236 AGAAAATTTG
*
17000246 TTTATTTGTATTTAAAA-T-T-TTATATA
1 TTTATTTGTATTGAAAAGTATATTATATA
17000272 TTTATTT-TATTGAAAAGTATATTATATA
1 TTTATTTGTATTGAAAAGTATATTATATA
17000300 TTTAT
1 TTTAT
17000305 AAGAAGATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.28
26 8 0.28
27 1 0.03
28 12 0.41
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (29 bp):
TTTATTTGTATTGAAAAGTATATTATATA
Found at i:17000297 original size:26 final size:26
Alignment explanation
Indices: 17000246--17000302 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
17000236 AGAAAATTTG
* * *
17000246 TTTATTTGTATTTAAAATTTTATATA
1 TTTATTTGTATTGAAAAGTATATATA
17000272 TTTATTT-TATTGAAAAGTATAT-TA
1 TTTATTTGTATTGAAAAGTATATATA
*
17000296 TATATTT
1 TTTATTT
17000303 ATAAGAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 8 0.30
25 12 0.44
26 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (26 bp):
TTTATTTGTATTGAAAAGTATATATA
Found at i:17002805 original size:16 final size:17
Alignment explanation
Indices: 17002774--17002807 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
17002764 TTTATTTAAT
17002774 TATATTCAATAATTTTA
1 TATATTCAATAATTTTA
*
17002791 TATATTTAA-AATTTTA
1 TATATTCAATAATTTTA
17002807 T
1 T
17002808 TAGTTAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTCAATAATTTTA
Found at i:17005918 original size:17 final size:19
Alignment explanation
Indices: 17005896--17005933 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
17005886 GTCAACAAAT
17005896 AATTTAAAAA-TT-ATAAA
1 AATTTAAAAAGTTGATAAA
17005913 AATTTAAAAAGTTGATAAA
1 AATTTAAAAAGTTGATAAA
17005932 AA
1 AA
17005934 GTTCTAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 2 0.11
19 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AATTTAAAAAGTTGATAAA
Found at i:17006526 original size:27 final size:27
Alignment explanation
Indices: 17006494--17006547 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
17006484 TTAGTCTTGA
17006494 ATCAAATGATAACATTTAAATATATTT
1 ATCAAATGATAACATTTAAATATATTT
17006521 ATCAAATGATAACATTTAAATATATTT
1 ATCAAATGATAACATTTAAATATATTT
17006548 TGTTAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (27 bp):
ATCAAATGATAACATTTAAATATATTT
Found at i:17008511 original size:10 final size:9
Alignment explanation
Indices: 17008462--17008579 Score: 57
Period size: 9 Copynumber: 12.3 Consensus size: 9
17008452 CAGACATACT
17008462 TATACATATA
1 TATA-ATATA
17008472 TAT-ATATA
1 TATAATATA
17008480 TATAA-ATA
1 TATAATATA
17008488 -ATAATATTA
1 TATAATA-TA
*
17008497 GATAATATA
1 TATAATATA
*
17008506 GTATAAAGATA
1 -TAT-AATATA
17008517 TATAACTGATAA
1 TATAA-T-AT-A
*
17008529 TACTAAAATA
1 TA-TAATATA
17008539 TATACATA-A
1 TATA-ATATA
*
17008548 TATTATATA
1 TATAATATA
17008557 TA-AATTATTCA
1 TATAA-TA-T-A
17008568 TATAATATA
1 TATAATATA
17008577 TAT
1 TAT
17008580 TAAAAAATTG
Statistics
Matches: 85, Mismatches: 7, Indels: 33
0.68 0.06 0.26
Matches are distributed among these distances:
7 4 0.05
8 16 0.19
9 22 0.26
10 21 0.25
11 14 0.16
12 5 0.06
13 3 0.04
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (9 bp):
TATAATATA
Found at i:17008781 original size:3 final size:3
Alignment explanation
Indices: 17008768--17008844 Score: 145
Period size: 3 Copynumber: 25.7 Consensus size: 3
17008758 ATAGTAATGT
*
17008768 TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17008816 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
17008845 TTGAAATACA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:17008951 original size:3 final size:3
Alignment explanation
Indices: 17008943--17008970 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17008933 ACTAATGTAC
17008943 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17008971 TTGAAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17009419 original size:11 final size:12
Alignment explanation
Indices: 17009405--17009440 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
17009395 AAGAAAAAAA
17009405 GAAGAGAG-AGG
1 GAAGAGAGAAGG
17009416 GAAGAGAGAAGG
1 GAAGAGAGAAGG
17009428 G-AGAGAGAAGG
1 GAAGAGAGAAGG
17009439 GA
1 GA
17009441 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:17009580 original size:15 final size:14
Alignment explanation
Indices: 17009529--17009584 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
17009519 GGAAAAGGTA
17009529 ATTTTTTTTTA-AT
1 ATTTTTTTTTATAT
*
17009542 ATTTGTTTTGTATAT
1 ATTT-TTTTTTATAT
*
17009557 ATATTTTTATTATAT
1 AT-TTTTTTTTATAT
17009572 ATTTTTTTATTAT
1 ATTTTTTT-TTAT
17009585 GATGTATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 4 0.11
14 11 0.31
15 18 0.51
16 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (14 bp):
ATTTTTTTTTATAT
Found at i:17009637 original size:11 final size:11
Alignment explanation
Indices: 17009623--17009657 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
17009613 AAAAAGGGGA
17009623 AAAAATAAAAT
1 AAAAATAAAAT
17009634 AAAAATAAAAT
1 AAAAATAAAAT
* *
17009645 AAGAGTAAAAT
1 AAAAATAAAAT
17009656 AA
1 AA
17009658 TAAAGAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:17010825 original size:88 final size:87
Alignment explanation
Indices: 17010618--17011086 Score: 427
Period size: 88 Copynumber: 5.5 Consensus size: 87
17010608 TGGTGTGTGA
* * * * * *
17010618 TCCTGA-GCTCAACTCACTTCTCGCGATATGAGTTGA-CTCTTTAAAAACATACA-TT-AAAACA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGA-ATTTGAAAACA
* *
17010679 GAAATTGAAAATAGCGCAGCACGCGAG
65 GAAATTGAAAATA-C-C-TCA-GCGTG
* * * *
17010706 T-C-AAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTTTGAAAACAGAATTTGCAAATCA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAATTTG-AAAACA
**
17010769 TCAATTGAAAATACCTCAGCGTG
65 GAAATTGAAAATACCTCAGCGTG
* * *
17010792 TCCTGAGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTTTGAAGGACAGAAATTGAAAAAC
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-AACAGAATTTG-AAAAC
*
17010857 AGAAATTGAAAATACCTCAGCGTT
64 AGAAATTGAAAATACCTCAGCGTG
*
17010881 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAC---A--T-ATAA-A-
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAATTTGAAAACAG
* * * *
17010935 AAATTGACAATATCTCGGTGTG
66 AAATTGAAAATACCTCAGCGTG
** * * *
17010957 TCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAATATAAATTGGAGAAAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACA-GAATT--TGAAAA
* *
17011020 CAGAAATTGAAATTACCTCAGCATG
63 CAGAAATTGAAAATACCTCAGCGTG
*
17011045 TCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
17011087 GACAAACAGT
Statistics
Matches: 314, Mismatches: 45, Indels: 42
0.78 0.11 0.10
Matches are distributed among these distances:
76 58 0.18
77 4 0.01
78 3 0.01
80 1 0.00
81 1 0.00
82 1 0.00
85 2 0.01
86 10 0.03
87 40 0.13
88 104 0.33
89 71 0.23
90 19 0.06
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (87 bp):
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAATTTGAAAACAG
AAATTGAAAATACCTCAGCGTG
Found at i:17010858 original size:14 final size:14
Alignment explanation
Indices: 17010841--17010868 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17010831 TTTTTGAAGG
17010841 ACAGAAATTGAAAA
1 ACAGAAATTGAAAA
17010855 ACAGAAATTGAAAA
1 ACAGAAATTGAAAA
17010869 TACCTCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
ACAGAAATTGAAAA
Found at i:17010878 original size:89 final size:88
Alignment explanation
Indices: 17010618--17010922 Score: 343
Period size: 89 Copynumber: 3.5 Consensus size: 88
17010608 TGGTGTGTGA
* * * * * * *
17010618 TCCTGA-GCTCAACTCACTTCTCGCGATATGAGTTGA-CTCTTTAAAAACATACATT--AAAACA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAACA
* *
17010679 GAAATTGAAAATAGCGCAGCACGCGAG
66 GAAATTGAAAATA-C-C-TCA-GCGTG
* * * * * *
17010706 T-C-AAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTTTGAAAACAGAATTTGCAAATCA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAACA
**
17010769 TCAATTGAAAATACCTCAGCGTG
66 GAAATTGAAAATACCTCAGCGTG
* *
17010792 TCCTGAGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTTTGAAGGACAGAAATTGAAAAAC
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-AACAGAAATTGAAAAAC
*
17010857 AGAAATTGAAAATACCTCAGCGTT
65 AGAAATTGAAAATACCTCAGCGTG
17010881 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
17010923 GAAACATATA
Statistics
Matches: 184, Mismatches: 26, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
86 6 0.03
87 32 0.17
88 54 0.29
89 76 0.41
90 16 0.09
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (88 bp):
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAACA
GAAATTGAAAATACCTCAGCGTG
Found at i:17011069 original size:164 final size:159
Alignment explanation
Indices: 17010771--17011158 Score: 492
Period size: 164 Copynumber: 2.4 Consensus size: 159
17010761 GCAAATCATC
* ** *
17010771 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTTT
1 AATTGAAAATACCACAGCGTG-CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
* * *
17010836 GAAGGACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTTTCCTGAGGCTCAACTCACCT
63 GAAGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCT
17010901 CTCGCAATATGAGTTGATTTTTGAAACATATA-AAA
128 CTCGCAATATGAGTTGATTTTTG--ACA-A-ACAAA
* * * * *
17010936 AATTGACAATATCTCGGTGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCACAGCGTG-CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* * *
17011001 A-AATATAAATTGGAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCT
65 AGAACAGAAATT-GA-AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCT
* **
17011065 CTCGCAGTATGAGTTGATTTTTGACAAACAGT
128 CTCGCAATATGAGTTGATTTTTGACAAACAAA
* *
17011097 AATTGAAAATACCACAGCGTGCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 AATTGAAAATACCACAGCGTGCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
17011159 TGAACAGAAA
Statistics
Matches: 197, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
160 40 0.20
161 18 0.09
162 10 0.05
163 10 0.05
164 68 0.35
165 51 0.26
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (159 bp):
AATTGAAAATACCACAGCGTGCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
GAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGACAAACAAA
Found at i:17011135 original size:72 final size:73
Alignment explanation
Indices: 17011017--17011158 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 73
17011007 AAATTGGAGA
* * * *
17011017 AAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGA
1 AAACAGAAATTGAAAATACCACAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
17011082 TTTTTGAC
66 TTTTTGAC
* * *
17011090 AAACAGTAATTGAAAATACCACAGCGTG-CCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA
1 AAACAGAAATTGAAAATACCACAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
17011154 TTTTT
66 TTTTT
17011159 TGAACAGAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 38 0.61
73 24 0.39
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (73 bp):
AAACAGAAATTGAAAATACCACAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAC
Found at i:17020520 original size:15 final size:17
Alignment explanation
Indices: 17020492--17020523 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
17020482 TTGTATATAT
17020492 TATATTTATATTATGTA
1 TATATTTATATTATGTA
17020509 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
17020524 CGTCTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:17022530 original size:24 final size:25
Alignment explanation
Indices: 17022503--17022562 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
17022493 AGCCCTCCAA
17022503 AAAAAACCTAA-CAAAAAAAAAAAG
1 AAAAAACCTAACCAAAAAAAAAAAG
**
17022527 AAAAAACCTAACCCCCAAAAAAAAAG
1 AAAAAACCTAA-CCAAAAAAAAAAAG
17022553 -AAAAACCTAA
1 AAAAAACCTAA
17022563 ACCCCCCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 11 0.34
25 10 0.31
26 11 0.34
ACGTcount: A:0.72, C:0.20, G:0.03, T:0.05
Consensus pattern (25 bp):
AAAAAACCTAACCAAAAAAAAAAAG
Found at i:17022546 original size:25 final size:27
Alignment explanation
Indices: 17022517--17022577 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
17022507 AACCTAACAA
17022517 AAAAAAAAAGAAAAAACCT-AA-CCCCC
1 AAAAAAAAAG-AAAAACCTAAACCCCCC
17022543 AAAAAAAAAGAAAAACCTAAACCCCCC
1 AAAAAAAAAGAAAAACCTAAACCCCCC
*
17022570 CAAAAAAA
1 AAAAAAAA
17022578 CCAAGAAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 8 0.25
26 12 0.38
27 12 0.38
ACGTcount: A:0.67, C:0.26, G:0.03, T:0.03
Consensus pattern (27 bp):
AAAAAAAAAGAAAAACCTAAACCCCCC
Found at i:17023404 original size:15 final size:15
Alignment explanation
Indices: 17023381--17023423 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
17023371 TTTCTAATAC
17023381 GTATATATATATGTAT
1 GTATATATATAT-TAT
*
17023397 -TTTATATATATTAT
1 GTATATATATATTAT
17023411 GTATATATATATT
1 GTATATATATATT
17023424 TTTAATGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
GTATATATATATTAT
Found at i:17023415 original size:13 final size:15
Alignment explanation
Indices: 17023384--17023420 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
17023374 CTAATACGTA
*
17023384 TATATATATGTATTT
1 TATATATATGTATTG
17023399 TATATATAT-TA-TG
1 TATATATATGTATTG
17023412 TATATATAT
1 TATATATAT
17023421 ATTTTTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
TATATATATGTATTG
Found at i:17023748 original size:3 final size:3
Alignment explanation
Indices: 17023700--17023734 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17023690 TTATTGTAGA
17023700 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
17023735 CATACTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17025454 original size:12 final size:12
Alignment explanation
Indices: 17025437--17025472 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
17025427 ATTCATTTGA
17025437 CATTCATGCATT
1 CATTCATGCATT
17025449 CATTCATGCATT
1 CATTCATGCATT
*
17025461 CATTCATACATT
1 CATTCATGCATT
17025473 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:17033774 original size:65 final size:68
Alignment explanation
Indices: 17033611--17033780 Score: 213
Period size: 69 Copynumber: 2.5 Consensus size: 68
17033601 TTTTCAAGGG
* *
17033611 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTT-ATTTGT
17033676 TTTC
65 TTTC
* * *
17033680 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTT-TTATGT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTATT-TGT
17033743 TTT-
65 TTTC
* * * *
17033746 AAATTGAA-TCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
17033781 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
65 24 0.27
66 8 0.09
67 5 0.06
68 17 0.19
69 36 0.40
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTATTTGTT
TTC
Found at i:17033901 original size:69 final size:70
Alignment explanation
Indices: 17033780--17033939 Score: 224
Period size: 69 Copynumber: 2.3 Consensus size: 70
17033770 GAGTTAAGCC
* *
17033780 TTTT-AATTTT-TGTTTTCAA-ATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGG-CACGC
1 TTTTCAATTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
17033841 TGAGGTA
65 TGA-GTA
17033848 -TTTCAATTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT
1 TTTTCAATTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT
17033912 GAGTA
66 GAGTA
*
17033917 TTTTCAATTTCTGT-TTTCAATTT
1 TTTTCAATTT-TGTGTTTTAATTT
17033940 ACGTTGTTCA
Statistics
Matches: 83, Mismatches: 3, Indels: 10
0.86 0.03 0.10
Matches are distributed among these distances:
67 3 0.04
68 8 0.10
69 44 0.53
70 25 0.30
71 3 0.04
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (70 bp):
TTTTCAATTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT
GAGTA
Found at i:17034179 original size:136 final size:138
Alignment explanation
Indices: 17033873--17034354 Score: 782
Period size: 136 Copynumber: 3.5 Consensus size: 138
17033863 TTAATTTCAA
17033873 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGA-GTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
17033937 TTTACGTTGTTCAAAAATCAACTCATATTGCGAGAGGTGGTTGAACCTTTTAATTTCTACTTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGG-GGTTGAACCTTTTAATTTCTAC-TTTT
17034002 TCAAAAT-AG
129 TCAAAATCAG
17034011 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
17034076 TTTACGTTG-TCAAGAATCAACTCATATTGCGAG-GGGGTTGAACCTTTTAATTTCTAC-TTTTC
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGGGTTGAACCTTTTAATTTCTACTTTTTC
17034138 AAAATCAAG
131 AAAATC-AG
*
17034147 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTA--TTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
17034210 TTTACGTTGTTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTT
66 TTTACGTTG-TTCAAGAATCAACTCATATTGCGAG-AG-GGGTTGAACCTTTTAATTTCTACTTT
17034275 TTCAAAATCAG
128 TTCAAAATCAG
*
17034286 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTAATTTTCAATTTCCGTCT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGT-ATTTTCAATTTCTGT-T
17034350 TTCAA
61 TTCAA
17034355 AAAAAAAATT
Statistics
Matches: 324, Mismatches: 4, Indels: 25
0.92 0.01 0.07
Matches are distributed among these distances:
134 37 0.11
136 92 0.28
137 2 0.01
138 67 0.21
139 90 0.28
140 11 0.03
141 7 0.02
142 1 0.00
144 11 0.03
145 6 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (138 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGGGTTGAACCTTTTAATTTCTACTTTTTC
AAAATCAG
Found at i:17039953 original size:69 final size:70
Alignment explanation
Indices: 17039835--17040007 Score: 219
Period size: 69 Copynumber: 2.5 Consensus size: 70
17039825 TTTTCAAGGG
*
17039835 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
17039898 -TTTTCA
65 GTTTT-A
** * *
17039904 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATG
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
17039969 TTTTA
66 TTTTA
* * * *
17039974 AATTGAA-TCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
17040008 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
69 79 0.86
70 9 0.10
71 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTTA
Found at i:17040127 original size:70 final size:71
Alignment explanation
Indices: 17040007--17040170 Score: 235
Period size: 70 Copynumber: 2.3 Consensus size: 71
17039997 GAGTTAAGCC
* ** *
17040007 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGC
1 TTTTCAATTTCTG-TTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
17040070 TGAGGTA
65 TGAGGTA
* *
17040077 TTTTCAATTT-TGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTCTGT-TTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
17040141 TGAGGTA
65 TGAGGTA
17040148 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTCTGTTTTCAATTT
17040171 ACGTTGTTCA
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
69 1 0.01
70 43 0.51
71 37 0.44
72 3 0.04
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (71 bp):
TTTTCAATTTCTGTTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:17040267 original size:140 final size:140
Alignment explanation
Indices: 17040103--17040589 Score: 915
Period size: 140 Copynumber: 3.5 Consensus size: 140
17040093 TTAATTTCAA
17040103 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
17040168 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
17040233 TCAAAATCAG
131 TCAAAATCAG
17040243 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
17040308 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
17040373 TCAAAATCAG
131 TCAAAATCAG
17040383 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT-AGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
17040447 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGGTGGGTTGAACCTTTTAATTTCTACTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAG-AGGTGGGTTGAACCTTTTAATTTCTACTTT
17040512 TTCAAAATCAG
130 TTCAAAATCAG
*
17040523 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGTATTTTCAATTTCCGTCTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC--GCTGAGGTATTTTCAATTTCTGT-TTT
17040587 CAA
63 CAA
17040590 AAAAAAAATT
Statistics
Matches: 341, Mismatches: 1, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
139 65 0.19
140 249 0.73
141 3 0.01
142 18 0.05
143 6 0.02
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:17040707 original size:72 final size:72
Alignment explanation
Indices: 17040510--17040734 Score: 274
Period size: 72 Copynumber: 3.0 Consensus size: 72
17040500 AATTTCTACT
* ** * * * *
17040510 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGTATTTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAATTT
*
17040573 CAATTTCCG
64 CAATTTCTG
*
17040582 TCTTTCAAAAAAAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 T-TTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
17040647 AATTTCAATTTCTG
59 AATTTCAATTTCTG
17040661 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
17040726 ATTTCTG
66 ATTTCTG
17040733 TT
1 TT
17040735 CAAAATGAGT
Statistics
Matches: 134, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
72 69 0.51
73 4 0.03
78 4 0.03
79 27 0.20
80 29 0.22
81 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:17040745 original size:49 final size:49
Alignment explanation
Indices: 17040688--17040783 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
17040678 ATATTGCGAG
*
17040688 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
17040737 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
17040784 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:17040830 original size:121 final size:121
Alignment explanation
Indices: 17040616--17040855 Score: 435
Period size: 121 Copynumber: 2.0 Consensus size: 121
17040606 ATATTGCAAG
*
17040616 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
17040681 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
17040737 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
17040802 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
17040856 TTTCAAAAAA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 114 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:17040944 original size:347 final size:348
Alignment explanation
Indices: 17040515--17041395 Score: 1426
Period size: 347 Copynumber: 2.5 Consensus size: 348
17040505 CTACTTTTTC
* * ** *
17040515 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACATGCTGAGGTATTTTCAATTT
*
17040579 CCGTCTTTCAAAAAAAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGA
64 CCGTCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
17040644 GGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
129 GGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
17040709 ACGTTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
194 ACGTTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
*
17040774 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGG
259 AATTTCAGTTTTCAAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGG
17040839 TATTTTCAATTTCTGTTTTTC-AAA
324 TATTTTCAATTTCTGTTTTTCAAAA
*
17040863 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCC
17040928 GTCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
66 GTCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
17040993 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
131 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
17041058 GTTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
196 GTTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
17041123 TTTCAGTTTTCAAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTA
261 TTTCAGTTTTCAAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTA
17041188 TTTTCAATTTCTGTTTTTCAAAAA
326 TTTTCAATTTCTGTTTTTC-AAAA
* *
17041212 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCC
1 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCC
* * ** *
17041277 GTTTTTCAATTTCTGCCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 GTCTTTCAA-----------AAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
* * * *
17041341 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAG
120 ACACGTTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAG
17041396 CGGCGAGTTG
Statistics
Matches: 497, Mismatches: 20, Indels: 19
0.93 0.04 0.04
Matches are distributed among these distances:
347 301 0.61
348 33 0.07
349 74 0.15
359 62 0.12
360 7 0.01
361 20 0.04
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (348 bp):
AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCC
GTCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
GTTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
TTTCAGTTTTCAAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTA
TTTTCAATTTCTGTTTTTCAAAA
Found at i:17041054 original size:72 final size:73
Alignment explanation
Indices: 17040737--17041081 Score: 523
Period size: 72 Copynumber: 4.6 Consensus size: 73
17040727 TTTCTGTTCA
17040737 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC-AAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATTCAACTCAT
17040801 ATTGCGAG
66 ATTGCGAG
* * * *
17040809 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-AAAAATTCAACTC
*
17040874 ATATTGTGAG
64 ATATTGCGAG
* *
17040884 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAATTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGT-TTTC-----AAAAATTCA
17040949 ACTCATATTGCGAG
60 ACTCATATTGCGAG
*
17040963 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC-AAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATTCAACTCAT
17041027 ATTGCGAG
66 ATTGCGAG
*
17041035 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
17041082 CAAAATGAGT
Statistics
Matches: 254, Mismatches: 11, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
72 111 0.44
73 5 0.02
74 1 0.00
75 68 0.27
78 4 0.02
79 65 0.26
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (73 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATTCAACTCAT
ATTGCGAG
Found at i:17041177 original size:121 final size:121
Alignment explanation
Indices: 17040963--17041202 Score: 426
Period size: 121 Copynumber: 2.0 Consensus size: 121
17040953 ATATTGCGAG
* *
17040963 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCAGTTTTCAAAATTCAACTCATA
*
17041028 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
17041084 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCAGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCAGTTTTCAAAATTCAACTCATA
* * *
17041149 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
17041203 TTTCAAAAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCAGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:17041249 original size:77 final size:75
Alignment explanation
Indices: 17041087--17041285 Score: 251
Period size: 77 Copynumber: 2.7 Consensus size: 75
17041077 CTGTTCAAAA
* * *
17041087 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCAG-TTTTC--AAAATTCAACTCATA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
**
17041149 TTGCGAGAAA
66 TTGCGAGAGG
* *
17041159 TTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCA
* **
17041224 TATTGTGAGAAA
64 TATTGCGAGAGG
* *
17041236 TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
17041286 TTTCTGCCTT
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
72 38 0.34
73 5 0.04
75 2 0.02
77 67 0.60
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (75 bp):
TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
TTGCGAGAGG
Found at i:17041344 original size:89 final size:90
Alignment explanation
Indices: 17041188--17041364 Score: 266
Period size: 89 Copynumber: 2.0 Consensus size: 90
17041178 TGCTGAGGTA
** *
17041188 TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGA
1 TTTTCAATTTCTGCCTTTC-AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
*
17041253 CACGCCGAGGTATTTTCAATTTCCGT
65 CACGCCGAGGTAATTTCAATTTCCGT
** *
17041279 TTTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
*
17041343 ACGCTGAGGTAATTTCAATTTC
66 ACGCCGAGGTAATTTCAATTTC
17041365 TGTTGTCAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 61 0.78
91 17 0.22
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (90 bp):
TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
ACGCCGAGGTAATTTCAATTTCCGT
Found at i:17041566 original size:77 final size:77
Alignment explanation
Indices: 17041279--17041606 Score: 432
Period size: 77 Copynumber: 4.3 Consensus size: 77
17041269 CAATTTCCGT
*
17041279 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
17041342 CACGCTGAGGTA
66 CACGCTGAGGTA
* * * * * *
17041354 ATTTCAATTTCTGT-TGTCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
* *
17041418 TACGCCGAGGTA
66 CACGCTGAGGTA
* * *
17041430 TTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGC
1 TTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
* *
17041494 TCACGCGCTGAGCTA
63 TCACACGCTGAGGTA
*
17041509 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
17041574 CACGGC-GAGGTA
66 CAC-GCTGAGGTA
* *
17041586 TTTTCAATTTCCGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
17041607 TTTCTGTCTT
Statistics
Matches: 215, Mismatches: 30, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
74 42 0.20
75 12 0.06
76 23 0.11
77 70 0.33
78 5 0.02
79 63 0.29
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
CACGCTGAGGTA
Found at i:17041605 original size:14 final size:14
Alignment explanation
Indices: 17041586--17041620 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
17041576 CGGCGAGGTA
17041586 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
17041600 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
17041614 CTTTCAA
1 TTTTCAA
17041621 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:17041664 original size:91 final size:88
Alignment explanation
Indices: 17041509--17041863 Score: 424
Period size: 91 Copynumber: 4.0 Consensus size: 88
17041499 CGCTGAGCTA
17041509 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
17041574 CACGGCGAGGTATTTTCAATTTCCGT
64 CAC-GCGAGGTATTTTCAATTTCCGT
*
17041600 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTCTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
17041665 CGTAC-TGAGGTATTTT---TTT---T
64 C--ACGCGAGGTATTTTCAATTTCCGT
* * * * *
17041685 TACTTCAATTTATATTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 T-TTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
*
17041750 ACGCCGAGGTATTTTCAATTTCCAT
65 ACG-CGAGGTATTTTCAATTTCCGT
* ** *
17041775 TTTTCAATTTCTGT-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACA
1 TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
* *
17041837 CGTTGAGGTATTTTCAATTTCTGT
66 CG-CGAGGTATTTTCAATTTCCGT
17041861 TTT
1 TTT
17041864 CAAAAAATCA
Statistics
Matches: 234, Mismatches: 19, Indels: 27
0.84 0.07 0.10
Matches are distributed among these distances:
82 2 0.01
84 53 0.23
85 2 0.01
86 40 0.17
87 4 0.02
88 44 0.19
89 10 0.04
90 2 0.01
91 75 0.32
93 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (88 bp):
TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
CGCGAGGTATTTTCAATTTCCGT
Found at i:17041745 original size:84 final size:84
Alignment explanation
Indices: 17041509--17042400 Score: 426
Period size: 88 Copynumber: 10.7 Consensus size: 84
17041499 CGCTGAGCTA
*
17041509 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCT-TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
17041574 C--ACGGCGAGGTATTTTCAATTTCCGT
63 CGTAC--CGAGGTATTTT--ATTT-C-T
* *
17041600 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCT-TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
17041665 CGTACTGAGGTATTTT-TTT-T
63 CGTACCGAGGTATTTTATTTCT
* * *
17041685 TACTTCAATTTATATTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 T-TTTCAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
***
17041750 ACGCCGAGGTATTTTCAATTTCCAT
64 GTACCGAGGTATTTT--ATTT-C-T
* * **
17041775 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA-CACG
1 TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGATCACG
*
17041839 T--TGAGG-----TA-----
65 TACCGAGGTATTTTATTTCT
** * ** *
17041847 TTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACG
** * * *
17041912 CGCTGAGCTA---T-TTTCA
65 TACCGAGGTATTTTATTTCT
* * *** * **
17041928 ATTTC--TGTC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
1 TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACGT
* *
17041990 ACTGAGGTATTTT-TTTCA
66 ACCGAGGTATTTTATTTCT
* * *** * * * * *
17042008 ATTT--ATAT-TTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACAT
1 TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACGT
** **
17042070 GTCGAGGTATTTTCAAAATCT
66 ACCGAGGTATTTT--ATTTCT
* * * ** *
17042091 ATTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
1 -TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACG
* * *
17042156 TGCTGAGCTATTTTCAATTTCT
65 TACCGAGGTATTTT--ATTTCT
* *** * * **
17042178 GTTT---TTT-TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTT
1 TTTTCAATTTCTTTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGATCA
* * * *
17042238 CTGTGA--GAGTTGAGTTGA-GT-T
63 C-GT-ACCGAGGT-ATTTTATTTCT
* *
17042259 TTTT-AATTTCTGTTTTTC-AAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTCCAG-TCAC
1 TTTTCAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCAC
* * **
17042321 ATATCGAGGTATTTTCAAAATCT
64 GTACCGAGGTATTTT--ATTTCT
* ***
17042344 GCTTTTCAAGTT-AAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 --TTTTCAATTTCTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
17042401 TGGCTCATGC
Statistics
Matches: 633, Mismatches: 112, Indels: 115
0.74 0.13 0.13
Matches are distributed among these distances:
72 13 0.02
73 40 0.06
75 4 0.01
77 53 0.08
79 4 0.01
80 70 0.11
81 14 0.02
82 16 0.03
83 66 0.10
84 69 0.11
85 13 0.02
86 27 0.04
87 68 0.11
88 85 0.13
89 12 0.02
90 2 0.00
91 75 0.12
93 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (84 bp):
TTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACGT
ACCGAGGTATTTTATTTCT
Found at i:17041745 original size:175 final size:164
Alignment explanation
Indices: 17041453--17042227 Score: 739
Period size: 175 Copynumber: 4.7 Consensus size: 164
17041443 CCTTTCAAAA
* * * * ** *
17041453 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGCGCTGAGCTA---TTTTC
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCAGATCACGTACTGAGGTATTTTTTTC
* *
17041514 AATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGG
65 AATTTAT-TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGG
17041579 CGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTC
128 CGAGGTATTTTCAATTT-C-TTTTTCAATTTCTGT-TTTC
*
17041619 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACGTACTGAGGTATTTTTTT
1 --AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCACGTACTGAGGTA----TTT
*
17041684 TTACTTCAATTTATATTTTTC-AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
60 TT--TTCAATTTAT-TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
*
17041748 ACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGTTTTC
122 ACACGGCGAGGTATTTTCAATTT-C-TTTTTCAATTTCTGTTTTC
* * *
17041793 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA-CACGT--TGAGGTA---TTTTC
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTC-AGATCACGTACTGAGGTATTTTTTTC
* * * ** * *
17041852 AATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC-GCT
65 AATTTATTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGGC-
* * **
17041916 GAGCTATTTTCAATTTC--TGTC--TTTC-----AA
129 GAGGTATTTTCAATTTCTTTTTCAATTTCTGTTTTC
* **
17041943 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTCA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCACGTACTGAGGTATTTTTTTCA
* * * * * *
17042008 ATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTC
66 ATTTAT-TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGGC
** *
17042073 GAGGTATTTTCAAAATCTATTTTCAAATTCTGTTTTC
129 GAGGTATTTTCAATTTCT-TTTTCAATTTCTGTTTTC
* * * *
17042110 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCAGATCACGTACTGAGGTATTTT---T
** *
17042174 TTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
62 TTCAATTTATTTTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
17042228 TTTTTAATTT
Statistics
Matches: 506, Mismatches: 64, Indels: 72
0.79 0.10 0.11
Matches are distributed among these distances:
149 3 0.01
150 37 0.07
152 7 0.01
155 15 0.03
156 5 0.01
157 58 0.11
158 1 0.00
160 10 0.02
161 65 0.13
162 3 0.01
163 2 0.00
167 52 0.10
168 49 0.10
169 13 0.03
170 43 0.08
172 39 0.08
173 3 0.01
174 4 0.01
175 83 0.16
177 14 0.03
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (164 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCACGTACTGAGGTATTTTTTTCA
ATTTATTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGGCGA
GGTATTTTCAATTTCTTTTTCAATTTCTGTTTTC
Found at i:17042041 original size:80 final size:76
Alignment explanation
Indices: 17041775--17042229 Score: 341
Period size: 80 Copynumber: 5.8 Consensus size: 76
17041765 CAATTTCCAT
* * ** * *
17041775 TTTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GAC
1 TTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
*
17041836 ACGTTGAGGTA
66 ACGCTGAGGTA
* * * *
17041847 TTTTCAATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCA
1 TTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCA
* *
17041910 CGCGCTGAGCTA
65 CACGCTGAGGTA
*
17041922 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
*
17041987 CACACTGAGGTA
65 CACGCTGAGGTA
* * * * * *
17041999 TTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 ---TTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA
*
17042064 TCACATG-TCGAGGTA
62 TCACACGCT-GAGGTA
** * *
17042079 TTTTCAAAATCTATTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
1 TTTTCAATTTCTTTTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * ** *
17042144 CCTT-GGCTCACGTGCTGAGCTA
55 -CTTCAGATCACACGCTGAGGTA
17042166 TTTTCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT
1 TTTTCAATTTC------TTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCTT
17042230 TTTAATTTCT
Statistics
Matches: 309, Mismatches: 43, Indels: 52
0.76 0.11 0.13
Matches are distributed among these distances:
72 18 0.06
73 30 0.10
74 2 0.01
75 22 0.07
76 12 0.04
77 58 0.19
79 1 0.00
80 65 0.21
82 8 0.03
83 28 0.09
87 54 0.17
88 3 0.01
92 2 0.01
93 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (76 bp):
TTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
ACGCTGAGGTA
Found at i:17042081 original size:157 final size:147
Alignment explanation
Indices: 17041775--17042099 Score: 364
Period size: 157 Copynumber: 2.1 Consensus size: 147
17041765 CAATTTCCAT
* * **
17041775 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACAC
* * * *
17041840 TGAGGTATTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTG
66 TGAGGTATTTTCAATTTATGTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCG
*
17041905 GCTCACGCGCTGAGCTA
131 GCTCACACGCTGAGCTA
** *
17041922 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CA
* *
17041987 CACACTGAGGTATTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAG
61 CACACTGAGGTA---TTTTCAATTTAT-GTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAG
* * *
17042052 TTGAGCCTCGGGTCACATG-TCGAGGTA
121 TTGAGCCTCGGCTCACACGCT-GAGCTA
** *
17042079 TTTTCAAAATCTATTTTCAAA
1 TTTTCAATTTCTGTTTTCAAA
17042100 TTCTGTTTTC
Statistics
Matches: 147, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
147 14 0.10
148 4 0.03
150 35 0.24
151 1 0.01
152 11 0.07
154 3 0.02
155 11 0.07
156 10 0.07
157 58 0.39
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (147 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACAC
TGAGGTATTTTCAATTTATGTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCG
GCTCACACGCTGAGCTA
Found at i:17042095 original size:13 final size:13
Alignment explanation
Indices: 17042077--17042113 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
17042067 CATGTCGAGG
17042077 TATTTTCAAAATC
1 TATTTTCAAAATC
*
17042090 TATTTTCAAATTC
1 TATTTTCAAAATC
*
17042103 TGTTTTCAAAA
1 TATTTTCAAAA
17042114 ATCAACTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.49
Consensus pattern (13 bp):
TATTTTCAAAATC
Found at i:17042169 original size:87 final size:84
Alignment explanation
Indices: 17042023--17042486 Score: 259
Period size: 88 Copynumber: 5.4 Consensus size: 84
17042013 TATTTTTCAA
* * * * * *
17042023 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGT-GAGCTATTTTCAAAA
17042088 TCTATTTTCAAATTCTGTTTTC
65 TCT-TTTT-AAATTCTGTTTTC
* **
17042110 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTG-TGAGCTATTTTCAAAA
*
17042175 TCTGTTT---TT-T-TTTTC
65 TCTTTTTAAATTCTGTTTTC
* *** ** * * *
17042190 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTGTGAGAGTTGA-GTT
1 --AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC-CTTGGCTCAC-GTGTGAGCT-ATTTT
* * *
17042254 --GAGT-TTTTTAATTTCTGTTTTTC
60 CAAAATCTTTTTAAATTCTG-TTTTC
* * ** * * *
17042277 -AAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACATATCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGT-GAGCTATTTTCAAA
* **
17042340 ATCTGCTTTTCAAGTTAAG-TTTC
64 ATCT--TTTT-AAATTCTGTTTTC
* * *
17042363 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTG-TGAGCTATTTTCAAA
* * *
17042428 TTCTGTTTTTAATGTCTGTTTTT
64 ATCT-TTTTAAAT-TCTGTTTTC
* * * * **
17042451 AGAGAGTCAATTCATATTGCGAAAAATGAGTTGAGC
1 A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
17042487 TCAGGATCAC
Statistics
Matches: 284, Mismatches: 64, Indels: 57
0.70 0.16 0.14
Matches are distributed among these distances:
80 5 0.02
81 7 0.02
82 17 0.06
83 57 0.20
84 18 0.06
85 6 0.02
86 9 0.03
87 75 0.26
88 89 0.31
89 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (84 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTGAGCTATTTTCAAAAT
CTTTTTAAATTCTGTTTTC
Found at i:17042223 original size:170 final size:169
Alignment explanation
Indices: 17041919--17042227 Score: 419
Period size: 170 Copynumber: 1.8 Consensus size: 169
17041909 ACGCGCTGAG
* *
17041919 CTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA
1 CTATTTTCAAATTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGA
* *
17041984 TCACACACTGAGGTATTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGT
65 TCACACACTGAGCTATTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGAGGT
17042049 GAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAAT
130 GAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAAT
* *
17042089 CTATTTTCAAATTCTGT-TTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGC
1 CTATTTTCAAATTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCAGA
*** ** * *
17042151 TCACGTGCTGAGCTATTTTCAATTTCTGTTT-TTTTTTTCAAAAAAATTCAACTCATATTGCGAG
65 TCACACACTGAGCTATTTT---TTTCAATTTATATTTTTCAAAAAAA-TCAACTCACATTGCGAG
17042215 AGGTGAGTTGAGC
126 AGGTGAGTTGAGC
17042228 TTTTTAATTT
Statistics
Matches: 121, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
167 49 0.40
168 3 0.02
169 18 0.15
170 51 0.42
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (169 bp):
CTATTTTCAAATTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGAT
CACACACTGAGCTATTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGAGGTG
AGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAAT
Found at i:17042252 original size:30 final size:30
Alignment explanation
Indices: 17042212--17042271 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
17042202 CTCATATTGC
17042212 GAGAGGTGAGTTGAGCTTTTTAATTTCTGT
1 GAGAGGTGAGTTGAGCTTTTTAATTTCTGT
* *
17042242 GAGAGTTGAGTTGAGTTTTTTAATTTCTGT
1 GAGAGGTGAGTTGAGCTTTTTAATTTCTGT
17042272 TTTTCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.05, G:0.28, T:0.47
Consensus pattern (30 bp):
GAGAGGTGAGTTGAGCTTTTTAATTTCTGT
Found at i:17042375 original size:659 final size:647
Alignment explanation
Indices: 17041117--17042486 Score: 1459
Period size: 659 Copynumber: 2.1 Consensus size: 647
17041107 GCTGAGGTAA
* * *
17041117 TTTCAATTTCAGTTTTCAAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCT
1 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
*
17041182 GAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC
66 GAGGTATTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
* *
17041247 TCAAGACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTC
129 TCAAGACACGCCGAGGTA--TGC-A--T-C-ATTTTCAATTTCTGCCTTTCAAAAAAATCAACTC
* * *
17041312 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
187 ATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTTCAATTTATGTTGTCAAAAA
* ** * * **
17041377 AGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCATACGCCGAGGTATTTTCAATTTCT
252 AATCAACTCACATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAAATCT
* * *
17041442 GCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGC
317 GACTTTCAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGCGCTGAGC
17041507 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
382 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
* * *
17041572 CACACGGCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATAT
447 -ACACGGCGAGGTATGTTCAAGTTCAGTTTTTCAATTTCTGTCTTTC--AAAAATCAACTCATAT
* * * ** * * *
17041637 TGCGAGAGGTGAGTTGAGCTTCAGATCACGTACTGAGGTATTTTTTTTTACTTCAATTTATATTT
509 TGCGAGAGGTGAGTTGACCTCCAGATCACATACTGAGGTATTTTAATCTACTTCAAGTTATATGT
* *
17041702 TTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCA
574 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTCA
17041767 ATTTCCATT
639 ATTTCCATT
*
17041776 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
* **
17041841 GAGGTATTTTCAATTTCTG-TTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-
66 GAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
** * ** *
17041903 TGGCTCACG-CGCTG-A-GC-T-ATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCG
131 AAG-ACACGCCGAGGTATGCATCATTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCG
* * * *
17041963 AGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTCAATTTATATTTTTCAAAAAAA
195 AGAGGTGAGTTGAGCCTCAG--CACACACTGAGGTA---ATTTCAATTTAT-GTTGTCAAAAAAA
* * * * *
17042028 TCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCT-A
254 TCAACTCACATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAAATCTGA
* * *
17042092 TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGT
319 CTTTCAAA---------AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGC
*
17042157 GCTGAGCTATTTTCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG
375 GCTGAGCTATTTTCAATTTCTG-----TCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAG
* * ** * * * * * *
17042222 TTGAGCTTTTTA-AT-TTCTGTGA-G-A-GTT-GAGTTGAGTTTTTTAATTTCTGTTTTTC-AAA
434 TTGAGC--CTCAGATACACGGCGAGGTATGTTCAAGTTCAGTTTTTCAATTTCTGTCTTTCAAAA
*
17042280 ATCAACTTATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACATA-TCGAGGTATTTTCAAAATC
497 ATCAACTCATATTGCGAGAGGTGAGTTG-ACCTCCAGATCACATACT-GAGGTATTTT---AATC
* ** *
17042343 TGCTTTTCAAGTTA-A-GTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
557 TAC--TTCAAGTTATATGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
** * **
17042406 CATGCGCTGAGCTATTTTCAATTTCTGTT
619 CACACGCCGAGCTATTTTCAATTTCCATT
* * * * * *
17042435 TTT-AATGTCTGTTTTTAGAGAGTCAATTCATATTGCGAAAAATGAGTTGAGC
1 TTTCAATTTCTGTTTTCA-AAATTCAACTCATATTGCGAGAAATGAGTTGAGC
17042487 TCAGGATCAC
Statistics
Matches: 597, Mismatches: 81, Indels: 66
0.80 0.11 0.09
Matches are distributed among these distances:
643 59 0.10
645 12 0.02
646 1 0.00
648 17 0.03
649 62 0.10
650 1 0.00
653 1 0.00
654 5 0.01
655 84 0.14
656 6 0.01
657 66 0.11
658 46 0.08
659 177 0.30
660 9 0.02
661 1 0.00
662 16 0.03
663 30 0.05
664 2 0.00
665 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (647 bp):
TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
GAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
AAGACACGCCGAGGTATGCATCATTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTTCAATTTATGTTGTCAAAAAAATCAACTC
ACATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAAATCTGACTTTCAA
AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
TTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATACACGGCGA
GGTATGTTCAAGTTCAGTTTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGA
GTTGACCTCCAGATCACATACTGAGGTATTTTAATCTACTTCAAGTTATATGTTTCAAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTCAATTTCCATT
Found at i:17042424 original size:254 final size:248
Alignment explanation
Indices: 17041845--17042437 Score: 756
Period size: 254 Copynumber: 2.4 Consensus size: 248
17041835 CACGTTGAGG
* ** *
17041845 TATTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
1 TATTTTCAAATTAAGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
17041910 CGCGCTGAGCTATTTTCAATTTCTG-----TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTG
66 CGCGCTGAGCTATTTTCAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTG
*
17041970 AGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTCAATTTATATTTTTCAAAAAAATCAACTC
131 AGTTGAGCTTCAGATCACACACTGAGGTAGTTTTTTCAATTTATATTTTTC--AAAAATCAACTC
* * ** *
17042035 ACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATC
194 ACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATC
** *
17042090 TATTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCA
1 TATTTTCAAATTAAGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
* *
17042154 CGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGT
66 CGCGCTGAGCTATTTTCAATTTCTGTTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGT
* ** * * * * *
17042219 GAGTTGAGCTTTTTA-ATTTCTGTGAGAGTTGAGTTGAGTTTTTT-AATTTCTGTTTTTC-AAAA
130 GAGTTGAGC--TTCAGA--TC--ACACA-CTGAGGT-AGTTTTTTCAATTTATATTTTTCAAAAA
* *
17042281 TCAACTTATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATC
187 TCAACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATC
* *
17042343 TGCTTTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 T-ATTTTCAAATTAAGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
*
17042407 ATGCGCTGAGCTATTTTCAATTTCTGTTTTT
65 ACGCGCTGAGCTATTTTCAATTTCTGTTTTT
17042438 AATGTCTGTT
Statistics
Matches: 304, Mismatches: 28, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
244 66 0.22
245 19 0.06
249 12 0.04
250 30 0.10
251 1 0.00
252 3 0.01
253 66 0.22
254 81 0.27
255 2 0.01
256 17 0.06
257 7 0.02
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (248 bp):
TATTTTCAAATTAAGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
CGCGCTGAGCTATTTTCAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTG
AGTTGAGCTTCAGATCACACACTGAGGTAGTTTTTTCAATTTATATTTTTCAAAAATCAACTCAC
ATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATC
Found at i:17043141 original size:25 final size:25
Alignment explanation
Indices: 17043111--17043169 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
17043101 ACCTAACCAA
*
17043111 AAAAAAAAGAAAAAACCTAACCCCCCC
1 AAAAAAAAG--AAAACCTAAACCCCCC
17043138 AAAAAAAAGAAAACCTAAACCCCCC
1 AAAAAAAAGAAAACCTAAACCCCCC
17043163 AAAAAAA
1 AAAAAAA
17043170 CCAAGAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 22 0.71
27 9 0.29
ACGTcount: A:0.64, C:0.29, G:0.03, T:0.03
Consensus pattern (25 bp):
AAAAAAAAGAAAACCTAAACCCCCC
Found at i:17043978 original size:2 final size:2
Alignment explanation
Indices: 17043971--17044019 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
17043961 TTCTAATACG
* * *
17043971 TA TA TA TA TA TA TA TG TA T- TT TA TA TA TA T- TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17044011 TA TA TA TA T
1 TA TA TA TA T
17044020 TTTAATGCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (2 bp):
TA
Found at i:17043997 original size:17 final size:16
Alignment explanation
Indices: 17043970--17044019 Score: 73
Period size: 17 Copynumber: 3.0 Consensus size: 16
17043960 TTTCTAATAC
17043970 GTATATATATATATAT
1 GTATATATATATATAT
*
17043986 GTATTTTATATATATTAT
1 GTA-TATATATATA-TAT
17044004 GTATATATATATATAT
1 GTATATATATATATAT
17044020 TTTAATGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 6 0.20
17 18 0.60
18 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (16 bp):
GTATATATATATATAT
Found at i:17044008 original size:13 final size:15
Alignment explanation
Indices: 17043977--17044013 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
17043967 TACGTATATA
*
17043977 TATATATATGTATTT
1 TATATATATGTATTG
17043992 TATATATAT-TA-TG
1 TATATATATGTATTG
17044005 TATATATAT
1 TATATATAT
17044014 ATATATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
TATATATATGTATTG
Found at i:17044341 original size:3 final size:3
Alignment explanation
Indices: 17044302--17044327 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17044292 TTATTGTAGA
17044302 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
17044328 CATACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:17048435 original size:2 final size:2
Alignment explanation
Indices: 17048428--17048459 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
17048418 AAAAACAGTA
*
17048428 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17048460 CTAATAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17048496 original size:3 final size:3
Alignment explanation
Indices: 17048483--17048712 Score: 164
Period size: 3 Copynumber: 73.7 Consensus size: 3
17048473 ATAGTAATGT
*
17048483 TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
17048531 TAA TAA TAA TAT TGA -AA TACA AAA GCT-A TTA TAA TAA AAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA --TAA TAA TAA TAA TAA TAA TAA
* * * *
17048577 -AA TAA -AG TAA TAA AAA TAT TAC TACA T-A TATA TATA TATA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TA-A TA-A TA-A
* ** *
17048621 TACA TGAA GATA TACA TTAA TGT TCAA TAA TAA TGA TAA TAA TAA TAA
1 TA-A T-AA TA-A TA-A -TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
17048669 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
17048713 TTGAAATACA
Statistics
Matches: 183, Mismatches: 30, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
2 7 0.04
3 146 0.80
4 27 0.15
5 3 0.02
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17049203 original size:11 final size:12
Alignment explanation
Indices: 17049187--17049222 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
17049177 AGAAAAAAAA
17049187 GAAGAGAG-AGG
1 GAAGAGAGAAGG
17049198 GAAGAGAGAAGG
1 GAAGAGAGAAGG
17049210 G-AGAGAGAAGG
1 GAAGAGAGAAGG
17049221 GA
1 GA
17049223 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:17049360 original size:13 final size:13
Alignment explanation
Indices: 17049312--17049366 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
17049302 GAAAAGGTAA
*
17049312 ATTTTTTTTTTAAT
1 ATTTTTTTATT-AT
*
17049326 ATTTGTTTTGTATAT
1 ATTT-TTTTAT-TAT
*
17049341 ATATTTTTATTAT
1 ATTTTTTTATTAT
17049354 ATTTTTTTATTAT
1 ATTTTTTTATTAT
17049367 GATGTATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 15 0.43
14 9 0.26
15 10 0.29
16 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (13 bp):
ATTTTTTTATTAT
Found at i:17051540 original size:39 final size:40
Alignment explanation
Indices: 17051484--17051575 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 40
17051474 AAATTAATAA
*
17051484 ATAAAAAATTTAAAATAAGTATGAAAAATAATTAT-TTTT
1 ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
17051523 ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
1 ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
*
17051563 -T-ATAATTTTAAAA
1 ATAATAAATTTAAAA
17051576 ATGAAACATA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
38 11 0.22
39 35 0.70
40 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (40 bp):
ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
Found at i:17054321 original size:26 final size:26
Alignment explanation
Indices: 17054285--17054419 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
17054275 ACATGAATTC
17054285 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
17054311 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
17054337 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
17054363 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
17054388 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
17054414 TTATCA
1 TTATCA
17054420 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:17054396 original size:51 final size:52
Alignment explanation
Indices: 17054285--17054419 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
17054275 ACATGAATTC
* *
17054285 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
17054337 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
17054388 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
17054420 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 49 0.60
52 32 0.40
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:17060093 original size:26 final size:26
Alignment explanation
Indices: 17060057--17060192 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
17060047 CATGATATTC
17060057 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
17060083 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
17060109 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
17060135 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
17060161 TTATCATGGAACATTTACCTAGCCTA
1 TTATCATGAAACATTTACCTAACCCA
17060187 TTATCA
1 TTATCA
17060193 ATTTGTGTCA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:17060205 original size:10 final size:10
Alignment explanation
Indices: 17060188--17060219 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
17060178 CCTAGCCTAT
17060188 TATCAATTTG
1 TATCAATTTG
*
17060198 TGTCAATTTG
1 TATCAATTTG
17060208 TATCAATTTG
1 TATCAATTTG
17060218 TA
1 TA
17060220 CCATGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.50
Consensus pattern (10 bp):
TATCAATTTG
Found at i:17071041 original size:3 final size:3
Alignment explanation
Indices: 17071033--17071085 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
17071023 AAATTTCCCA
*
17071033 AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAAG AA- AAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG
17071077 AAG AA- AAG A
1 AAG AAG AAG A
17071086 GGTGCCAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 6 0.14
3 35 0.80
4 3 0.07
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17071072 original size:4 final size:5
Alignment explanation
Indices: 17071036--17071085 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
17071026 TTTCCCAAAG
*
17071036 AAGAA GAAGAA AA-AG AAGAA GAAGAA GAAG-A AAGAA AAGAA AAGAA
1 AAGAA -AAGAA AAGAA AAGAA -AAGAA -AAGAA AAGAA AAGAA AAGAA
17071082 AAGA
1 AAGA
17071086 GGTGCCAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
4 6 0.15
5 19 0.49
6 14 0.36
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:17073295 original size:132 final size:132
Alignment explanation
Indices: 17073056--17073885 Score: 1173
Period size: 132 Copynumber: 6.3 Consensus size: 132
17073046 ATCGGTGAAT
*
17073056 TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCTCTG
1 TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCTCTA
* * *
17073121 AAGTTGCAGTGGAGTAGATTTAAGTCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAA
66 AAGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
17073186 GA
131 GA
* * * * * * *
17073188 TTGCAGATCTTGTCTCCCTGAAGTTGCAGCGAAACAGATCGAAGACGGCGGATCTTATTTCTCTA
1 TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCTCTA
* *
17073253 AAGTTGCAGTGGAGCAGATTTAAGCCACCATCATATCCCCCTAAGCAGTAGTGGAGTAGGCTGAA
66 AAGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
17073318 GA
131 GA
* * * * *
17073320 TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACAGCGAATCCTGTCTCTTTG
1 TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCTCTA
* * * * * *
17073385 AAGTTGTAGTGGAACAGATTTAAGCCACCGTCCTATCTTCCTAAGCAGTAGTGGAATAGGTTGAA
66 AAGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
17073450 GA
131 GA
* ** * *
17073452 TTGTAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATAAAAAACGGTGAATCTTGTCTCTCTG
1 TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCTCTA
17073517 AAGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
66 AAGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
17073582 GA
131 GA
* *
17073584 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTA
1 TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCTCTA
* **
17073649 ACCAG-T--AGCGGAATAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTG
66 A--AGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTG
17073711 AAGA
129 AAGA
* *
17073715 TTACAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTA
1 TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCTCTA
** * * *
17073780 AA-CAGTAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAA
66 AAGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
17073844 GA
131 GA
** * ** * * *
17073846 TTATAGATCTTATCTATCTGAAGTTGCAGTAGAGCAGATC
1 TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC
17073886 AAAACAAACC
Statistics
Matches: 623, Mismatches: 70, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
129 1 0.00
131 209 0.34
132 410 0.66
133 1 0.00
134 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (132 bp):
TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCTCTA
AAGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
GA
Found at i:17073364 original size:45 final size:45
Alignment explanation
Indices: 17073315--17073649 Score: 120
Period size: 45 Copynumber: 7.6 Consensus size: 45
17073305 GGAGTAGGCT
17073315 GAAGATTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC
1 GAAGATTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC
** * ** * * *
17073360 GAAGACAGC-GAATCCTGTCTCTTTGAAGTTGTAGTGGAACAGATT
1 GAAGATTGCAG-ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC
* *** * * * * ** * * * *
17073405 TAAG-CCACCG-TCCTATCTTCCT-AAGCAGTAGTGGAATAGGTT
1 GAAGATTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC
* *
17073447 GAAGATTGTAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATA
1 GAAGATTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC
* * * * * * *
17073492 AAAAACGGTG-A-ATCTTGTCTCTCTGAAGTTGCAGTGGAGCAGATT
1 GAAGA--TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC
* * * * * ** * ** *
17073537 TAAG---CCACCATCCTATCTCCCT-AAGCAGTAGTGGAGTAG-GC
1 GAAGATTGCA-GATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC
*
17073578 TGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
1 -GAAGATTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC
*
17073624 GAAGACGGTG-A-ATCTTGTCTCCCTAA
1 GAAGA--TTGCAGATCTTGTCTCCCTAA
17073650 CCAGTAGCGG
Statistics
Matches: 206, Mismatches: 66, Indels: 36
0.67 0.21 0.12
Matches are distributed among these distances:
41 1 0.00
42 35 0.17
43 19 0.09
44 23 0.11
45 121 0.59
46 3 0.01
47 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
GAAGATTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC
Found at i:17073962 original size:44 final size:43
Alignment explanation
Indices: 17073910--17074052 Score: 135
Period size: 44 Copynumber: 3.3 Consensus size: 43
17073900 CTCATTGAAA
*
17073910 TTGCAGTGGAGCAGGTTGAAATTACGAATCTTATCTCCCTAAAG
1 TTGCAGTGGAGCAGGTTGAAGTTAC-AATCTTATCTCCCTAAAG
* * ** * * *
17073954 TTGTAGTGGAGTAGGTTGAAGCCACAAACCTTATCCCCCTGAAG
1 TTGCAGTGGAGCAGGTTGAAGTTAC-AATCTTATCTCCCTAAAG
* * *
17073998 TTGCAGTGGGGCAAGTTGAAGTTACAAGTCTTACCTCCCTGAAA-
1 TTGCAGTGGAGCAGGTTGAAGTTACAA-TCTTATCTCCCT-AAAG
*
17074042 TTACAGTGGAG
1 TTGCAGTGGAG
17074053 TAGACTAAAG
Statistics
Matches: 76, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
43 2 0.03
44 72 0.95
45 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
TTGCAGTGGAGCAGGTTGAAGTTACAATCTTATCTCCCTAAAG
Found at i:17074002 original size:88 final size:88
Alignment explanation
Indices: 17073889--17074055 Score: 212
Period size: 88 Copynumber: 1.9 Consensus size: 88
17073879 GCAGATCAAA
* * * *
17073889 ACAAACCTTATCTCATTGAAATTGCAGTGGAGCAGGTTGAAATTACGAA-TCTTATCTCCCT-AA
1 ACAAACCTTATCCCACTGAAATTGCAGTGGAGCAAGTTGAAATTAC-AAGTCTTACCTCCCTGAA
**
17073952 AGTTGTAGTGGAGTAGGTTGAAGCC
65 A-TTACAGTGGAGTAGGTTGAAGCC
* * * *
17073977 ACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAAGTTGAAGTTACAAGTCTTACCTCCCTGAAA
1 ACAAACCTTATCCCACTGAAATTGCAGTGGAGCAAGTTGAAATTACAAGTCTTACCTCCCTGAAA
17074042 TTACAGTGGAGTAG
66 TTACAGTGGAGTAG
17074056 ACTAAAGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 2 0.03
88 62 0.93
89 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
ACAAACCTTATCCCACTGAAATTGCAGTGGAGCAAGTTGAAATTACAAGTCTTACCTCCCTGAAA
TTACAGTGGAGTAGGTTGAAGCC
Found at i:17088372 original size:9 final size:9
Alignment explanation
Indices: 17088358--17088551 Score: 92
Period size: 10 Copynumber: 20.4 Consensus size: 9
17088348 TTCTAATTTT
17088358 TTTTTATAA
1 TTTTTATAA
17088367 TTTTTATAA
1 TTTTTATAA
*
17088376 GTTTATATCAA
1 -TTTTTAT-AA
* *
17088387 TTTTAATAC
1 TTTTTATAA
*
17088396 TTTTTATGA
1 TTTTTATAA
17088405 TTTTTATAGAA
1 TTTTTAT--AA
* *
17088416 TTTTAATATG
1 TTTTTATA-A
17088426 TTTTTATAAA
1 TTTTTAT-AA
*
17088436 ATTTTA-AA
1 TTTTTATAA
* *
17088444 CATTTTAAACA
1 -TTTTTATA-A
17088455 TTTTTATTAA
1 TTTTTA-TAA
*
17088465 -TTTTGTAA
1 TTTTTATAA
17088473 TTTTTAATAA
1 TTTTT-ATAA
17088483 TTTATTAT--
1 TTT-TTATAA
17088491 TTTTTATATA
1 TTTTTATA-A
17088501 TTTTTATAA
1 TTTTTATAA
* *
17088510 TATTTAT-T
1 TTTTTATAA
17088518 TTTTTATAA
1 TTTTTATAA
*
17088527 GTTTATATCAA
1 -TTTTTAT-AA
*
17088538 TTTTCATATA
1 TTTTTATA-A
17088548 TTTT
1 TTTT
17088552 AATATTTAAT
Statistics
Matches: 141, Mismatches: 24, Indels: 39
0.69 0.12 0.19
Matches are distributed among these distances:
7 4 0.03
8 14 0.10
9 46 0.33
10 61 0.43
11 16 0.11
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:17088431 original size:21 final size:22
Alignment explanation
Indices: 17088400--17088442 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
17088390 TAATACTTTT
*
17088400 TATGATTTTTATAGAATTTTAA
1 TATGATTTTTATAAAATTTTAA
17088422 TATG-TTTTTATAAAATTTTAA
1 TATGATTTTTATAAAATTTTAA
17088443 ACATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
TATGATTTTTATAAAATTTTAA
Found at i:17088475 original size:18 final size:17
Alignment explanation
Indices: 17088454--17088517 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
17088444 CATTTTAAAC
17088454 ATTTTTATTAATTTTGTA
1 ATTTTTATTAATTTT-TA
*
17088472 ATTTTTAATAATTTATTA
1 ATTTTTATTAATTT-TTA
* *
17088490 TTTTTTATATATTTTTATA
1 ATTTTTAT-TAATTTT-TA
*
17088509 ATATTTATT
1 ATTTTTATT
17088518 TTTTTATAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 23 0.62
19 14 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTTTTATTAATTTTTA
Found at i:17088522 original size:27 final size:28
Alignment explanation
Indices: 17088472--17088525 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
17088462 TAATTTTGTA
*
17088472 ATTTTTAATAATTTATTATTTTTTATAT
1 ATTTTTAATAATATATTATTTTTTATAT
17088500 ATTTTT-ATAATAT-TTATTTTTT-TAT
1 ATTTTTAATAATATATTATTTTTTATAT
17088525 A
1 A
17088526 AGTTTATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 4 0.16
26 9 0.36
27 6 0.24
28 6 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (28 bp):
ATTTTTAATAATATATTATTTTTTATAT
Found at i:17088567 original size:9 final size:9
Alignment explanation
Indices: 17088474--17088578 Score: 67
Period size: 8 Copynumber: 11.4 Consensus size: 9
17088464 ATTTTGTAAT
17088474 TTTTA-ATA
1 TTTTATATA
* *
17088482 ATTTATTATT
1 TTTTA-TATA
17088492 TTTTATATA
1 TTTTATATA
17088501 TTTT-TATAA
1 TTTTATAT-A
*
17088510 TATTTAT-TT
1 T-TTTATATA
17088519 TTTTATA-A
1 TTTTATATA
*
17088527 GTTTATATCAA
1 TTTTATAT--A
17088538 TTTTCATATA
1 TTTT-ATATA
17088548 TTTTA-ATA
1 TTTTATATA
*
17088556 TTTAATATA
1 TTTTATATA
17088565 TTTTATATGA
1 TTTTATAT-A
17088575 TTTT
1 TTTT
17088579 TTCCGATGTT
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
8 25 0.33
9 21 0.28
10 20 0.27
11 5 0.07
12 4 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTATATA
Found at i:17089243 original size:17 final size:17
Alignment explanation
Indices: 17089223--17089299 Score: 66
Period size: 17 Copynumber: 4.5 Consensus size: 17
17089213 TGAAAAATAC
*
17089223 AAAAATGTGAAAATTTT
1 AAAAATATGAAAATTTT
* **
17089240 AAAAATCTGCTAATTTT
1 AAAAATATGAAAATTTT
*
17089257 AAAAA-ATAAAAATATTT
1 AAAAATATGAAAAT-TTT
* *
17089274 AAAAAAATTAAATATTTT
1 AAAAATATGAAA-ATTTT
17089292 AAAAATAT
1 AAAAATAT
17089300 ATAAAAGTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
16 4 0.08
17 27 0.56
18 15 0.31
19 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (17 bp):
AAAAATATGAAAATTTT
Found at i:17089851 original size:13 final size:13
Alignment explanation
Indices: 17089833--17089857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17089823 CTTTATATTT
17089833 TTTAAAACAATTG
1 TTTAAAACAATTG
17089846 TTTAAAACAATT
1 TTTAAAACAATT
17089858 TTTTTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
TTTAAAACAATTG
Found at i:17089866 original size:15 final size:15
Alignment explanation
Indices: 17089830--17089880 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
17089820 AATCTTTATA
17089830 TTTTTTAAAACAA--
1 TTTTTTAAAACAATT
*
17089843 TTGTTTAAAACAATT
1 TTTTTTAAAACAATT
*
17089858 TTTTTTAAAA-TATT
1 TTTTTTAAAACAATT
17089872 TATTTTTAA
1 T-TTTTTAA
17089881 CTTTATAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 12 0.38
14 4 0.12
15 16 0.50
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (15 bp):
TTTTTTAAAACAATT
Found at i:17090451 original size:34 final size:34
Alignment explanation
Indices: 17090413--17090480 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
17090403 GTTTGATAAT
17090413 CATTTTAATTTTTACTTAATATAAAAATTTTAAC
1 CATTTTAATTTTTACTTAATATAAAAATTTTAAC
17090447 CATTTTAATTTTTACTTAATATAAAAATTTTAAC
1 CATTTTAATTTTTACTTAATATAAAAATTTTAAC
17090481 AAAATAGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (34 bp):
CATTTTAATTTTTACTTAATATAAAAATTTTAAC
Found at i:17091551 original size:18 final size:18
Alignment explanation
Indices: 17091524--17091601 Score: 63
Period size: 17 Copynumber: 4.3 Consensus size: 18
17091514 GATTCACACC
*
17091524 AAAATTATAAATATA-TA
1 AAAATTATAAAAATATTA
17091541 AAAACTTATAAAAATATTA
1 AAAA-TTATAAAAATATTA
*
17091560 AAAA-TA-CAAAATATTTA
1 AAAATTATAAAAATA-TTA
* *
17091577 AAATTTTATAGAAATATTCA
1 AAA-ATTATAAAAATATT-A
17091597 AAAAT
1 AAAAT
17091602 AATTATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 6 0.12
17 12 0.25
18 10 0.21
19 11 0.23
20 9 0.19
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAATTATAAAAATATTA
Found at i:17091564 original size:36 final size:38
Alignment explanation
Indices: 17091524--17091601 Score: 90
Period size: 36 Copynumber: 2.1 Consensus size: 38
17091514 GATTCACACC
*
17091524 AAAATTA-TAAATATATAAAAACTTATAAAAATATT-A
1 AAAATTACAAAATATATAAAAACTTATAAAAATATTCA
* ** *
17091560 AAAA-TACAAAATATTTAAAATTTTATAGAAATATTCA
1 AAAATTACAAAATATATAAAAACTTATAAAAATATTCA
17091597 AAAAT
1 AAAAT
17091602 AATTATAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
35 2 0.06
36 27 0.79
37 5 0.15
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (38 bp):
AAAATTACAAAATATATAAAAACTTATAAAAATATTCA
Found at i:17092562 original size:14 final size:16
Alignment explanation
Indices: 17092543--17092574 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17092533 AGGGGTTGAA
17092543 ATGATTT-T-TTTTTT
1 ATGATTTCTATTTTTT
17092557 ATGATTTCTATTTTTT
1 ATGATTTCTATTTTTT
17092573 AT
1 AT
17092575 ATATTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 1 0.06
16 8 0.50
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (16 bp):
ATGATTTCTATTTTTT
Found at i:17093352 original size:14 final size:15
Alignment explanation
Indices: 17093335--17093363 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17093325 TAAAATATAG
17093335 TACAAAAAA-AAGAA
1 TACAAAAAATAAGAA
17093349 TACAAAAAATAAGAA
1 TACAAAAAATAAGAA
17093364 AAAGTAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (15 bp):
TACAAAAAATAAGAA
Found at i:17093958 original size:9 final size:9
Alignment explanation
Indices: 17093940--17093982 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
17093930 GTTAATTTTA
17093940 ATTT-TTAT
1 ATTTATTAT
17093948 ATTTATTAT
1 ATTTATTAT
* *
17093957 ATTAAATAT
1 ATTTATTAT
17093966 ATTTATTAT
1 ATTTATTAT
*
17093975 ATGTATTA
1 ATTTATTA
17093983 ATGTATAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
8 4 0.14
9 25 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTATTAT
Found at i:17107020 original size:15 final size:14
Alignment explanation
Indices: 17106999--17107034 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
17106989 TGCTGAGGTA
*
17106999 TTTTCAATTTCTAT
1 TTTTCAATTTATAT
17107013 TCTTTCAATTTATAT
1 T-TTTCAATTTATAT
17107028 TTTTCAA
1 TTTTCAA
17107035 AAAACCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:17107212 original size:107 final size:107
Alignment explanation
Indices: 17107014--17107335 Score: 518
Period size: 107 Copynumber: 3.0 Consensus size: 107
17107004 AATTTCTATT
* * *
17107014 CTTTCAATTTATATTTTTCAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTT
1 CTTTTAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CTTTTAATTT
*
17107079 TTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
64 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
*
17107123 CTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACGTTTAATTTCT
1 CTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTTTTAATTTCT
17107188 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
* * * * *
17107230 ATTTTAATTTCTGTTTTTGAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTAATTTC
1 CTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-ACTTTTAATTTC
*
17107295 TGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
65 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
17107336 GCCTCGGATC
Statistics
Matches: 200, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
107 100 0.50
108 83 0.41
109 17 0.09
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (107 bp):
CTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTTTTAATTTCT
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
Found at i:17107305 original size:161 final size:162
Alignment explanation
Indices: 17107027--17107335 Score: 539
Period size: 161 Copynumber: 1.9 Consensus size: 162
17107017 TCAATTTATA
* *
17107027 TTTTTCAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTTTGTTTTTCAAAA
1 TTTTTCAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACATTTTAATTTCTGTTTTTCAAAA
*
17107092 ATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTATGTTTTTCAAAAATCAACTCATA
66 ATCAACTCATATTACGAGAGGTGAGTTGAACCTTTTAATTTATGTTTTTCAAAAATCAACTCATA
*
17107157 TTGCGAGAGGTGAGTTGAACGTTTAATTTCTG
131 TTACGAGAGGTGAGTTGAACGTTTAATTTCTG
* *
17107189 TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACATTTTAATTTCTGTTTTTGAAAA
1 TTTTTCAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACATTTTAATTTCTGTTTTTCAAAA
* *
17107253 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATA
66 ATCAACTCATATTACGAGAGGTGAGTTGAACCTTTTAATTTATGTTTTTCAAAAATCAACTCATA
17107318 TTACGAGAGGTGAGTTGA
131 TTACGAGAGGTGAGTTGA
17107336 GCCTCGGATC
Statistics
Matches: 139, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
161 133 0.96
162 6 0.04
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (162 bp):
TTTTTCAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACATTTTAATTTCTGTTTTTCAAAA
ATCAACTCATATTACGAGAGGTGAGTTGAACCTTTTAATTTATGTTTTTCAAAAATCAACTCATA
TTACGAGAGGTGAGTTGAACGTTTAATTTCTG
Found at i:17107339 original size:54 final size:54
Alignment explanation
Indices: 17107027--17107335 Score: 521
Period size: 54 Copynumber: 5.7 Consensus size: 54
17107017 TCAATTTATA
* *
17107027 TTTTTCAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTTTG
1 TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
*
17107082 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTATG
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
*
17107136 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CGTTTAATTTCTG
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
*
17107189 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACATTTTAATTTCTG
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
* * *
17107243 TTTTTGAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTAATTTCTG
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
*
17107297 TTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
17107336 GCCTCGGATC
Statistics
Matches: 242, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
53 51 0.21
54 185 0.76
55 6 0.02
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (54 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
Found at i:17108552 original size:14 final size:15
Alignment explanation
Indices: 17108535--17108563 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17108525 TAAAATATAG
17108535 TACAAAAAA-AAGAA
1 TACAAAAAATAAGAA
17108549 TACAAAAAATAAGAA
1 TACAAAAAATAAGAA
17108564 AAAAAGTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (15 bp):
TACAAAAAATAAGAA
Found at i:17109180 original size:9 final size:9
Alignment explanation
Indices: 17109162--17109204 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
17109152 GTTAACTTTA
17109162 ATTT-TTAT
1 ATTTATTAT
17109170 ATTTATTAT
1 ATTTATTAT
* *
17109179 ATTAAATAT
1 ATTTATTAT
17109188 ATTTATTAT
1 ATTTATTAT
*
17109197 ATGTATTA
1 ATTTATTA
17109205 ATGTATAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
8 4 0.14
9 25 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTATTAT
Found at i:17110463 original size:26 final size:26
Alignment explanation
Indices: 17110427--17110535 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
17110417 TGATACAAAT
17110427 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
17110453 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
17110479 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
17110505 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
17110531 T-ATAA
1 TGATAA
17110536 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 4 0.05
26 77 0.95
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:17113820 original size:24 final size:23
Alignment explanation
Indices: 17113783--17113829 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
17113773 TTTAAATATG
* *
17113783 TTTTTATATGTTTTATTAGTTTTT
1 TTTTTATATATTTT-TAAGTTTTT
*
17113807 TTTTTCTATATTTTTAAGTTTTT
1 TTTTTATATATTTTTAAGTTTTT
17113830 ATGGATTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.74
Consensus pattern (23 bp):
TTTTTATATATTTTTAAGTTTTT
Found at i:17113826 original size:23 final size:24
Alignment explanation
Indices: 17113783--17113829 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
17113773 TTTAAATATG
17113783 TTTTTATATGTTTTATTAGTTTTTT
1 TTTTTATATGTTTTA-TAGTTTTTT
17113808 TTTTCTATAT-TTTTA-AGTTTTT
1 TTTT-TATATGTTTTATAGTTTTT
17113830 ATGGATTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
25 9 0.43
26 5 0.24
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.74
Consensus pattern (24 bp):
TTTTTATATGTTTTATAGTTTTTT
Found at i:17113908 original size:10 final size:10
Alignment explanation
Indices: 17113807--17113932 Score: 73
Period size: 10 Copynumber: 12.7 Consensus size: 10
17113797 ATTAGTTTTT
*
17113807 TTTTTCTATA
1 TTTTTATATA
*
17113817 TTTTTA-A-G
1 TTTTTATATA
**
17113825 TTTTTATGGA
1 TTTTTATATA
*
17113835 TTCTTTAAATA
1 TT-TTTATATA
*
17113846 TTTTTTTATCA
1 TTTTTATAT-A
*
17113857 TTTTTCTATA
1 TTTTTATATA
17113867 TTTTT-TATA
1 TTTTTATATA
** *
17113876 AGTTTATTTA
1 TTTTTATATA
17113886 TTTTTA-ATA
1 TTTTTATATA
17113895 -TTTTATATA
1 TTTTTATATA
*
17113904 TTTTTATGATTT
1 TTTTTAT-A-TA
*
17113916 TTTTTATAAA
1 TTTTTATATA
17113926 TTTTTAT
1 TTTTTAT
17113933 GATTATATGA
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
8 11 0.12
9 13 0.15
10 38 0.43
11 18 0.20
12 8 0.09
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.67
Consensus pattern (10 bp):
TTTTTATATA
Found at i:17113915 original size:18 final size:17
Alignment explanation
Indices: 17113843--17113916 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 17
17113833 GATTCTTTAA
*
17113843 ATATTTTTTTATCATTTTT
1 ATATATTTTTAT-A-TTTT
* *
17113862 CTATATTTTTTATAAGTTT
1 ATATA-TTTTTAT-ATTTT
*
17113881 ATTTATTTTTAATATTTT
1 ATATATTTTT-ATATTTT
17113899 ATATATTTTTATGATTTT
1 ATATATTTTTAT-ATTTT
17113917 TTTTATAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
17 2 0.05
18 23 0.52
19 11 0.25
20 8 0.18
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
ATATATTTTTATATTTT
Found at i:17113917 original size:28 final size:26
Alignment explanation
Indices: 17113843--17113918 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 26
17113833 GATTCTTTAA
*
17113843 ATATTTTTTTATCATTTTTCTATATTTT
1 ATATATTTTTAT-ATTTTT-TATATTTT
* *
17113871 TTATAAGTTTATT-TATTTTTAATATTTT
1 ATAT-A-TTT-TTATATTTTTTATATTTT
17113899 ATATATTTTTATGATTTTTT
1 ATATATTTTTAT-ATTTTTT
17113919 TTATAAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
25 2 0.05
26 4 0.11
27 7 0.18
28 13 0.34
29 6 0.16
30 4 0.11
31 2 0.05
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (26 bp):
ATATATTTTTATATTTTTTATATTTT
Found at i:17113920 original size:22 final size:22
Alignment explanation
Indices: 17113895--17113936 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17113885 ATTTTTAATA
*
17113895 TTTTATATATTTTTATGATTTT
1 TTTTATAAATTTTTATGATTTT
17113917 TTTTATAAATTTTTATGATT
1 TTTTATAAATTTTTATGATT
17113937 ATATGAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTATAAATTTTTATGATTTT
Found at i:17114485 original size:2 final size:2
Alignment explanation
Indices: 17114480--17114508 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17114470 TTTTTATACT
17114480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17114509 TATCAGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17116601 original size:21 final size:22
Alignment explanation
Indices: 17116575--17116615 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
17116565 TACAAGGGTG
* *
17116575 TTTGGATGGTGGTGG-AGAGTC
1 TTTGGAAGATGGTGGTAGAGTC
17116596 TTTGGAAGATGGTGGTAGAG
1 TTTGGAAGATGGTGGTAGAG
17116616 AGTATGGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.02, G:0.46, T:0.32
Consensus pattern (22 bp):
TTTGGAAGATGGTGGTAGAGTC
Found at i:17118690 original size:23 final size:22
Alignment explanation
Indices: 17118664--17118717 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
17118654 GTAAATCGCC
17118664 TTATATACTTTTCAAA-ATTCTAT
1 TTATATA-TTTT-AAAGATTCTAT
*
17118687 TTATTTATTTTAAAGTATTCTAT
1 TTATATATTTTAAAG-ATTCTAT
17118710 TTAT-TATT
1 TTATATATT
17118718 CATTATAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 8 0.29
23 17 0.61
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (22 bp):
TTATATATTTTAAAGATTCTAT
Found at i:17118818 original size:27 final size:27
Alignment explanation
Indices: 17118762--17118816 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
17118752 TTTATGTACA
* *
17118762 TATATGTATATTACTTGTTCTAAAATT
1 TATATATATATCACTTGTTCTAAAATT
* *
17118789 TATATATATATCATCTTTTTCTTAAATT
1 TATATATATATCA-CTTGTTCTAAAATT
17118817 ATTTTATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.55
Consensus pattern (27 bp):
TATATATATATCACTTGTTCTAAAATT
Found at i:17122666 original size:19 final size:19
Alignment explanation
Indices: 17122625--17122677 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
17122615 CGCCTCTTTT
**
17122625 TGCATT-CATTTCATTCATT
1 TGCATTACATTTCA-TCACA
17122644 TGCATTACATTTCATCACA
1 TGCATTACATTTCATCACA
*
17122663 TGCATTAAATTTCAT
1 TGCATTACATTTCAT
17122678 GAAAAGGCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (19 bp):
TGCATTACATTTCATCACA
Found at i:17130734 original size:70 final size:70
Alignment explanation
Indices: 17130637--17130810 Score: 262
Period size: 70 Copynumber: 2.5 Consensus size: 70
17130627 GATTGAAATT
* *
17130637 ACCATGGAAAATCTTATC-CCTCTGAAGTTGCAGTCGGGCAGGTTGAATTGCAGCAGGTC-AGAT
1 ACCATGGCAAATCTTCTCTCC-CTGAAGTTGCAGTCGGGCAGGTTGAATTGCAGCAGGTCGA-AT
*
17130700 TAAATCC
64 CAAATCC
* *
17130707 ACCATGGCAATTCTTCTCTCCCTGAAGTTGCAGTCGGGTAGGTTGAATTGCAGCAGGTCGAATCA
1 ACCATGGCAAATCTTCTCTCCCTGAAGTTGCAGTCGGGCAGGTTGAATTGCAGCAGGTCGAATCA
17130772 AATCC
66 AATCC
*
17130777 ACCATGGCAAATCTTCTCTCCCTGAAGTTACAGT
1 ACCATGGCAAATCTTCTCTCCCTGAAGTTGCAGT
17130811 GGAGTAGATT
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
70 92 0.97
71 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (70 bp):
ACCATGGCAAATCTTCTCTCCCTGAAGTTGCAGTCGGGCAGGTTGAATTGCAGCAGGTCGAATCA
AATCC
Found at i:17131000 original size:88 final size:88
Alignment explanation
Indices: 17130795--17131001 Score: 222
Period size: 88 Copynumber: 2.3 Consensus size: 88
17130785 AAATCTTCTC
* * * *
17130795 TCCCTGAAGTTACAGTGGAGTAGATTGGAGTTACAGATCTCATCTCCCTAAAGTTTCAGTAGAAT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAGATCTCATCTCCCTAAAGTTGCAGTAGAAT
*
17130860 AGATCGAAGATAGCAAACCTTAT
66 AGATCGAAGATAGCAAACCTCAT
* * * * * *
17130883 CCCTCTGAAGTTGCAGTGGGGCAGGTTGAAG-TACA-AGTCTTATCTCCCTGAAGTTGCAGTAGG
1 TCC-CTGAAGTTGCAGTGGAGCAGATTGAAGTTACAGA-TCTCATCTCCCTAAAGTTGCAGTAGA
* * *
17130946 GTAGA-CTGAAGATAGCTAATCTCATT
64 ATAGATC-GAAGATAGCAAACCTCA-T
*
17130972 TCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAG
17131002 CTACCAGTAC
Statistics
Matches: 97, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
87 2 0.02
88 70 0.72
89 25 0.26
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (88 bp):
TCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAGATCTCATCTCCCTAAAGTTGCAGTAGAAT
AGATCGAAGATAGCAAACCTCAT
Found at i:17131121 original size:45 final size:45
Alignment explanation
Indices: 17130783--17131149 Score: 179
Period size: 45 Copynumber: 7.9 Consensus size: 45
17130773 ATCCACCATG
* * * * *
17130783 GCAAATCTTCTCTCCCTGAAGTTACAGTGGAGTAGATTGGAG-TT
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATT
* * * * * * ** *
17130827 ACAGATCTCATCTCCCTAAAGTTTCAGTAGAATAGA-TCGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATT
* * **
17130872 GCAAACCTTATC-CCTCTGAAGTTGCAGTGGGGCAGGTTGAAG--T
1 GCAAATCTTATCTCC-CTGAAGTTGCAGTGGAGCAGACTGAAGATT
* * * *
17130915 ACAAGTCTTATCTCCCTGAAGTTGCAGTAGG-GTAGACTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGACTGAAGATT
* * * * * *
17130960 GCTAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACCAGTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-----A-TT
* * * * * *
17131011 CCAAATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCAAAGCTAAAGATT
1 GCAAATCTTATCTCCCTGAAGTTGCAGT---G--GAGCAGA-CTGAAGATT
* ** *
17131062 ACAGAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATT
1 GCA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATT
* * *
17131108 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
17131150 CTATAAATCC
Statistics
Matches: 238, Mismatches: 63, Indels: 43
0.69 0.18 0.12
Matches are distributed among these distances:
43 31 0.13
44 39 0.16
45 91 0.38
46 11 0.05
47 5 0.02
49 1 0.00
50 1 0.00
51 27 0.11
52 22 0.09
54 1 0.00
56 5 0.02
57 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (45 bp):
GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATT
Found at i:17133364 original size:23 final size:23
Alignment explanation
Indices: 17133338--17133391 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
17133328 GTAAATCGCC
*
17133338 TTATATACTTTTCAAA-ATTCTAT
1 TTATATA-TTTTAAAATATTCTAT
*
17133361 TTATTTATTTTAAAATATTCTAT
1 TTATATATTTTAAAATATTCTAT
17133384 TTAT-TATT
1 TTATATATT
17133392 CATTATAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATATATTTTAAAATATTCTAT
Found at i:17133391 original size:22 final size:22
Alignment explanation
Indices: 17133346--17133388 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
17133336 CCTTATATAC
*
17133346 TTTTCAAAATTCTATTTATTTA
1 TTTTAAAAATTCTATTTATTTA
17133368 TTTTAAAATATTCTATTTATT
1 TTTTAAAA-ATTCTATTTATT
17133389 ATTCATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTAAAAATTCTATTTATTTA
Found at i:17133492 original size:27 final size:27
Alignment explanation
Indices: 17133436--17133490 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
17133426 TTTATGTACA
* *
17133436 TATATGTATATTACTTGTTCTAAAATT
1 TATATATATATCACTTGTTCTAAAATT
* *
17133463 TATATATATATCATCTTTTTCTTAAATT
1 TATATATATATCA-CTTGTTCTAAAATT
17133491 ATTTTATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.55
Consensus pattern (27 bp):
TATATATATATCACTTGTTCTAAAATT
Found at i:17145446 original size:16 final size:16
Alignment explanation
Indices: 17145412--17145455 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
17145402 ATGATTTTCT
*
17145412 CTAAACCC-TAACGCA
1 CTAAACCCTTAAAGCA
*
17145427 CTAAACCCTTAAATCA
1 CTAAACCCTTAAAGCA
*
17145443 CTAAACCTTTAAA
1 CTAAACCCTTAAA
17145456 CCCTTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (16 bp):
CTAAACCCTTAAAGCA
Found at i:17145501 original size:14 final size:14
Alignment explanation
Indices: 17145482--17145550 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
17145472 CACTAGATCG
*
17145482 TAACCCATAAATCC
1 TAACCCATAAACCC
*
17145496 TAACCCATTAACCC
1 TAACCCATAAACCC
*
17145510 TGACTCC-T-AACTCC
1 TAAC-CCATAAAC-CC
*
17145524 TAACCCCTAAACCC
1 TAACCCATAAACCC
17145538 TAAACCCATAAAC
1 T-AACCCATAAAC
17145551 TATAGGCCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
13 5 0.11
14 25 0.56
15 15 0.33
ACGTcount: A:0.38, C:0.41, G:0.01, T:0.20
Consensus pattern (14 bp):
TAACCCATAAACCC
Found at i:17146103 original size:42 final size:42
Alignment explanation
Indices: 17146036--17146177 Score: 126
Period size: 42 Copynumber: 3.6 Consensus size: 42
17146026 TTTAAAATTT
*
17146036 AGGTTTAAGGT-TTAGGGTATT-GGGTTCAGGATTTAGTTTATA
1 AGGTTTAAGGTATTAGGGTATTAGGGTT-AGG-TTTAGTCTATA
17146078 AGGTTTAAGGTATT-GGGT-TTA--G---GGTTTAGTCTATA
1 AGGTTTAAGGTATTAGGGTATTAGGGTTAGGTTTAGTCTATA
* *
17146113 AGGTTTAGGGTATT-GGGTATTAGGTTTAAGGTTTAGTCTATA
1 AGGTTTAAGGTATTAGGGTATTAGGGTT-AGGTTTAGTCTATA
* * *
17146155 TGGTTTAGGGTATTGGGGT-TTAG
1 AGGTTTAAGGTATTAGGGTATTAG
17146178 TCTATTAGTT
Statistics
Matches: 86, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
35 27 0.31
36 5 0.06
40 1 0.01
41 2 0.02
42 45 0.52
43 6 0.07
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (42 bp):
AGGTTTAAGGTATTAGGGTATTAGGGTTAGGTTTAGTCTATA
Found at i:17146117 original size:21 final size:21
Alignment explanation
Indices: 17146093--17146165 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
17146083 TAAGGTATTG
17146093 GGTTTAGGGTTTAGTCTATAA
1 GGTTTAGGGTTTAGTCTATAA
** *
17146114 GGTTTAGGGTATT-GGGTATTA
1 GGTTTAGGGT-TTAGTCTATAA
* *
17146135 GGTTTAAGGTTTAGTCTATAT
1 GGTTTAGGGTTTAGTCTATAA
17146156 GGTTTAGGGT
1 GGTTTAGGGT
17146166 ATTGGGGTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 2 0.05
21 37 0.90
22 2 0.05
ACGTcount: A:0.21, C:0.03, G:0.33, T:0.44
Consensus pattern (21 bp):
GGTTTAGGGTTTAGTCTATAA
Found at i:17146123 original size:28 final size:28
Alignment explanation
Indices: 17146078--17146148 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 28
17146068 TTAGTTTATA
17146078 AGGTTTAAGGTATT-GGGT-TTAGGGT-TT
1 AGGTTTAAGGT-TTAGGGTATT-GGGTATT
17146105 A-GTCTATAAGGTTTAGGGTATTGGGTATT
1 AGGT-T-TAAGGTTTAGGGTATTGGGTATT
17146134 AGGTTTAAGGTTTAG
1 AGGTTTAAGGTTTAG
17146149 TCTATATGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 24 0.63
29 6 0.16
30 2 0.05
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (28 bp):
AGGTTTAAGGTTTAGGGTATTGGGTATT
Found at i:17146139 original size:35 final size:34
Alignment explanation
Indices: 17146041--17146140 Score: 146
Period size: 35 Copynumber: 2.9 Consensus size: 34
17146031 AATTTAGGTT
* *
17146041 TAAGGTTTAGGGTATTGGGTTCAGGATTTAGTTTA
1 TAAGGTTTAGGGTATTGGGTTTAGG-TTTAGTCTA
*
17146076 TAAGGTTTAAGGTATTGGGTTTAGGGTTTAGTCTA
1 TAAGGTTTAGGGTATTGGGTTTA-GGTTTAGTCTA
17146111 TAAGGTTTAGGGTATTGGGTATTAGGTTTA
1 TAAGGTTTAGGGTATTGGGT-TTAGGTTTA
17146141 AGGTTTAGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
35 54 0.92
36 5 0.08
ACGTcount: A:0.23, C:0.02, G:0.32, T:0.43
Consensus pattern (34 bp):
TAAGGTTTAGGGTATTGGGTTTAGGTTTAGTCTA
Found at i:17146555 original size:84 final size:84
Alignment explanation
Indices: 17146383--17146584 Score: 212
Period size: 84 Copynumber: 2.4 Consensus size: 84
17146373 GACAGTGGAG
** * * * * * *
17146383 TTAGTGGCGCTAGGTCATAAACGCCACTAAAAGTATGAGAAATTGTATTGAAACGTCGTCGTTTT
1 TTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGGAAACGTCGTCATTTT
* *
17146448 ATTTGGCGGGGTAGTGGAT
66 ATGTGGCGGGGTAGTGCAT
* *
17146467 TTAGTGGCGTTATCTTATAAATGCCACTAAAAATATGAGAAATCGAATGGAAAC-TACGTCATTT
1 TTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGGAAACGT-CGTCATTT
*
17146531 TATGTGGCGTGGTTCAG-GCA-
65 TATGTGGCG-GGGT-AGTGCAT
* * *
17146551 TTAGTGGCGCTATCTTAGAAACGCCGCAAAAAAT
1 TTAGTGGCGCTATCTTATAAACGCCACTAAAAAT
17146585 TTGAATTACT
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
83 1 0.01
84 89 0.92
85 5 0.05
86 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (84 bp):
TTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGGAAACGTCGTCATTTT
ATGTGGCGGGGTAGTGCAT
Done.