Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 175 of 343
Found at i:57918849 original size:26 final size:26
Alignment explanation
Indices: 57918818--57918925 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
57918808 TGAAATGCCC
57918818 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
57918844 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
57918870 ATCATGGAATATTTACCTAATA-CATT
1 ATCATGGAACATTTACCTAA-ACCATT
*
57918896 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
57918922 ATCA
1 ATCA
57918926 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:57918896 original size:52 final size:52
Alignment explanation
Indices: 57918818--57918925 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
57918808 TGAAATGCCC
57918818 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
57918870 ATCATGGAATATTTACCTAATA-CATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-ACCATTATCATGGAACATTTACCTAACCCATT
57918922 ATCA
1 ATCA
57918926 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 53 0.98
53 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:57920271 original size:70 final size:70
Alignment explanation
Indices: 57920184--57920323 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
57920174 TTTACTTTAT
*
57920184 ATATTTTTGGAATTTTAAAATTTTAGTACTAATCCAAAACGATAAACACATCTCGTGTTATTACA
1 ATATTTTTGGAATTTTAAAATTTTAGTACTAATCCAAAACGATAAACACATCTCGTGCTATTACA
57920249 TTAGA
66 TTAGA
57920254 ATATTTTTGGAATTTTAAAATTTTAGTACTAATCCAAAACGATAAACACATCTCGTGCTATTACA
1 ATATTTTTGGAATTTTAAAATTTTAGTACTAATCCAAAACGATAAACACATCTCGTGCTATTACA
57920319 TTAGA
66 TTAGA
57920324 GGTTGTTGCA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (70 bp):
ATATTTTTGGAATTTTAAAATTTTAGTACTAATCCAAAACGATAAACACATCTCGTGCTATTACA
TTAGA
Found at i:57921792 original size:30 final size:30
Alignment explanation
Indices: 57921724--57921799 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
57921714 TAACTTACCA
* *
57921724 CCTTTAAAATTTTTAAAATTGTACTTTAAT
1 CCTTTAAAATTTATAAAATTGTAATTTAAT
**
57921754 CCCCTAAAATTTATAATAATT-TAATTTAAT
1 CCTTTAAAATTTATAA-AATTGTAATTTAAT
*
57921784 CTTTTAAAA-TTATAAA
1 CCTTTAAAATTTATAAA
57921800 GATGACTACT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.03
29 6 0.16
30 27 0.71
31 4 0.11
ACGTcount: A:0.42, C:0.11, G:0.01, T:0.46
Consensus pattern (30 bp):
CCTTTAAAATTTATAAAATTGTAATTTAAT
Found at i:57922901 original size:10 final size:10
Alignment explanation
Indices: 57922886--57922921 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
57922876 GAAATAAAAT
*
57922886 TCGAGTCGAG
1 TCGAGTCGAA
57922896 TCGAGTCGAA
1 TCGAGTCGAA
*
57922906 TCGAATCGAA
1 TCGAGTCGAA
57922916 TCGAGT
1 TCGAGT
57922922 GAAATTGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (10 bp):
TCGAGTCGAA
Found at i:57923186 original size:26 final size:26
Alignment explanation
Indices: 57923156--57923212 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
57923146 TAACTTTCTT
* *
57923156 TATATATATATTTAGAATTTTTTAAAAA
1 TATATA-AAATTT-GAAATTTTTAAAAA
*
57923184 TATATAAAATTTGAAATTTTTATAAA
1 TATATAAAATTTGAAATTTTTAAAAA
57923210 TAT
1 TAT
57923213 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.58
27 5 0.19
28 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
TATATAAAATTTGAAATTTTTAAAAA
Found at i:57923219 original size:18 final size:20
Alignment explanation
Indices: 57923193--57923243 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 20
57923183 ATATATAAAA
57923193 TTTGAAATTTTTATAAA-TAT
1 TTTG-AATTTTTATAAATTAT
*
57923213 TTT-AA-TTTTAAAAATTAT
1 TTTGAATTTTTATAAATTAT
57923231 TTTGAATTTTTAT
1 TTTGAATTTTTAT
57923244 TTTATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 2 0.08
20 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTGAATTTTTATAAATTAT
Found at i:57940367 original size:40 final size:40
Alignment explanation
Indices: 57940312--57940569 Score: 396
Period size: 40 Copynumber: 6.5 Consensus size: 40
57940302 TGGATGATAA
* * *
57940312 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
57940352 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57940392 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57940432 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57940472 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
57940512 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
57940552 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57940570 TACTTGGCTT
Statistics
Matches: 205, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.08
40 189 0.92
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57946887 original size:27 final size:28
Alignment explanation
Indices: 57946804--57946907 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 28
57946794 TAAAATTGTT
*
57946804 AAAAATTAT-AAAA-TATTAAAATTTAT
1 AAAAATTATAAAAATTATTAAAAGTTAT
* * *
57946830 ATAAATT-TATAAAATTATAAAAAAGTCAT
1 AAAAATTATA-AAAATTAT-TAAAAGTTAT
*
57946859 AAAAATTATAAAAATTATTATAA-TTAT
1 AAAAATTATAAAAATTATTAAAAGTTAT
* *
57946886 AAAAAATAT-AAAATTAATAAAA
1 AAAAATTATAAAAATTATTAAAA
57946908 CATATTTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
25 1 0.02
26 17 0.27
27 15 0.24
28 6 0.10
29 21 0.34
30 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAAATTATAAAAATTATTAAAAGTTAT
Found at i:57946912 original size:18 final size:17
Alignment explanation
Indices: 57946805--57946912 Score: 92
Period size: 18 Copynumber: 6.0 Consensus size: 17
57946795 AAAATTGTTA
*
57946805 AAAATTATAAAATAT-T
1 AAAATTATAAAAAATAT
**
57946821 AAAATTTATATAAATTTAT
1 AAAA-TTATA-AAAAATAT
57946840 AAAATTATAAAAAAGTCAT
1 AAAATTATAAAAAA-T-AT
*
57946859 AAAAATTATAAAAATTATT
1 -AAAATTATAAAAAATA-T
*
57946878 ATAATTATAAAAAATAT
1 AAAATTATAAAAAATAT
*
57946895 AAAATTAATAAAACATAT
1 AAAATT-ATAAAAAATAT
57946913 TTGATATATT
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.05
17 14 0.18
18 36 0.47
19 9 0.12
20 13 0.17
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:57947004 original size:29 final size:28
Alignment explanation
Indices: 57946939--57947006 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 28
57946929 TTTATAAGGC
*
57946939 TTATAAAAATTCATAAAAAAATATAAAAA
1 TTAT-AAAATTCATAAAAAAATAAAAAAA
57946968 TTAAATAAAATT-ATAATAAAATATAAAAAAA
1 TT--ATAAAATTCATAA-AAAA-ATAAAAAAA
57946999 TTATAAAA
1 TTATAAAA
57947007 ACTATTGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
29 12 0.35
30 10 0.29
31 12 0.35
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (28 bp):
TTATAAAATTCATAAAAAAATAAAAAAA
Found at i:57947007 original size:10 final size:10
Alignment explanation
Indices: 57946764--57947007 Score: 82
Period size: 9 Copynumber: 25.6 Consensus size: 10
57946754 TTTTTCTCAT
57946764 TAAAAAA-TA
1 TAAAAAATTA
57946773 TAAAAGAATTTA
1 TAAAA-AA-TTA
57946785 TAAAAAA-TA
1 TAAAAAATTA
*
57946794 T--AAAATTG
1 TAAAAAATTA
*
57946802 TTAAAAATTA
1 TAAAAAATTA
57946812 T--AAAA-TA
1 TAAAAAATTA
* *
57946819 TTAAAATTTA
1 TAAAAAATTA
*
57946829 T-ATAAATT-
1 TAAAAAATTA
*
57946837 TATAAAATTA
1 TAAAAAATTA
*
57946847 TAAAAAAGTCA
1 TAAAAAA-TTA
57946858 T-AAAAATTA
1 TAAAAAATTA
57946867 T-AAAAATTA
1 TAAAAAATTA
* *
57946876 T-TATAATTA
1 TAAAAAATTA
57946885 TAAAAAA-TA
1 TAAAAAATTA
57946894 T--AAAATTAA
1 TAAAAAATT-A
57946903 TAAAACATATT-
1 TAAAA-A-ATTA
* * *
57946914 TGATATATT-
1 TAAAAAATTA
**
57946923 TAAAATTTTA
1 TAAAAAATTA
***
57946933 T-AAGGCTTA
1 TAAAAAATTA
57946942 T-AAAAATTCA
1 TAAAAAATT-A
*
57946952 TAAAAAAATA
1 TAAAAAATTA
57946962 T-AAAAATTA
1 TAAAAAATTA
57946971 -AATAAAATTA
1 TAA-AAAATTA
57946981 TAATAAAA-TA
1 TAA-AAAATTA
57946991 TAAAAAAATTA
1 T-AAAAAATTA
57947002 TAAAAA
1 TAAAAA
57947008 CTATTGAAAA
Statistics
Matches: 180, Mismatches: 28, Indels: 53
0.69 0.11 0.20
Matches are distributed among these distances:
7 11 0.06
8 8 0.04
9 72 0.40
10 50 0.28
11 28 0.16
12 8 0.04
13 3 0.02
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:57947019 original size:20 final size:21
Alignment explanation
Indices: 57946951--57947025 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 21
57946941 ATAAAAATTC
57946951 ATAAAAAAA-TAT-A-AAAAT
1 ATAAAAAAATTATAATAAAAT
57946969 -TAAATAAAATTATAATAAAAT
1 ATAAA-AAAATTATAATAAAAT
*
57946990 ATAAAAAAATTATAA-AAACT
1 ATAAAAAAATTATAATAAAAT
**
57947010 ATTGAAAAATTATAAT
1 ATAAAAAAATTATAAT
57947026 TTATAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
17 4 0.08
18 4 0.08
19 3 0.06
20 18 0.38
21 15 0.31
22 4 0.08
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (21 bp):
ATAAAAAAATTATAATAAAAT
Found at i:57947514 original size:11 final size:10
Alignment explanation
Indices: 57947490--57947532 Score: 58
Period size: 9 Copynumber: 4.7 Consensus size: 10
57947480 CGATAAATGA
57947490 ATTTTTATA-
1 ATTTTTATAT
57947499 ATTTTTATAT
1 ATTTTTATAT
57947509 ATTTTTA-AT
1 ATTTTTATAT
57947518 A-TTTTATA-
1 ATTTTTATAT
57947526 ATTTTTA
1 ATTTTTA
57947533 AAAAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 6 0.19
9 18 0.58
10 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:57947529 original size:17 final size:17
Alignment explanation
Indices: 57947492--57947533 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
57947482 ATAAATGAAT
57947492 TTTTATAATTTTTATATA
1 TTTT-TAATTTTTATATA
57947510 TTTTTAATATTTTATA-A
1 TTTTTAAT-TTTTATATA
57947527 TTTTTAA
1 TTTTTAA
57947534 AAAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTAATTTTTATATA
Found at i:57947624 original size:19 final size:19
Alignment explanation
Indices: 57947585--57947651 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
57947575 TTTGAATTTA
*
57947585 TTTTATAAGGTTTTATAAATT
1 TTTTATAA-TTTTTAT-AATT
*
57947606 TTTTATTATTTTTATAATT
1 TTTTATAATTTTTATAATT
* * *
57947625 ATTGATAATTATTATAATT
1 TTTTATAATTTTTATAATT
57947644 TTATTATA
1 TT-TTATA
57947652 TGATTCATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 20 0.54
20 10 0.27
21 7 0.19
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTATAATT
Found at i:57947728 original size:10 final size:10
Alignment explanation
Indices: 57947585--57947729 Score: 52
Period size: 10 Copynumber: 14.3 Consensus size: 10
57947575 TTTGAATTTA
**
57947585 TTTTATAAGG
1 TTTTATAATT
57947595 TTTTATAAATT
1 TTTTAT-AATT
*
57947606 TTTTATTA-T
1 TTTTATAATT
57947615 TTTTATAATT
1 TTTTATAATT
* *
57947625 ATTGATAA-T
1 TTTTATAATT
*
57947634 TATTATAATT
1 TTTTATAATT
57947644 TTATTATATGATT
1 TT-TTATA--ATT
**
57947657 CATTAT--TT
1 TTTTATAATT
57947665 TTTTCA-AATT
1 TTTT-ATAATT
* **
57947675 TTTTGTAAGG
1 TTTTATAATT
57947685 TTTTATAATAT
1 TTTTATAAT-T
57947696 TTTTGA-AATT
1 TTTT-ATAATT
*
57947706 TTATGA-AATTT
1 TT-TTATAA-TT
57947717 TTTTATAATT
1 TTTTATAATT
57947727 TTT
1 TTT
57947730 CTAAGCGTGT
Statistics
Matches: 98, Mismatches: 22, Indels: 30
0.65 0.15 0.20
Matches are distributed among these distances:
8 4 0.04
9 15 0.15
10 44 0.45
11 27 0.28
12 5 0.05
13 3 0.03
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:57947914 original size:20 final size:20
Alignment explanation
Indices: 57947889--57947937 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
57947879 ATACTTTTAC
57947889 ATTTTTTATGATTTATTAGA
1 ATTTTTTATGATTTATTAGA
* * *
57947909 ATTTTTT-GGATTTTTTATA
1 ATTTTTTATGATTTATTAGA
57947928 AGTTTTTTAT
1 A-TTTTTTAT
57947938 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.65
Consensus pattern (20 bp):
ATTTTTTATGATTTATTAGA
Found at i:57947920 original size:19 final size:20
Alignment explanation
Indices: 57947898--57947935 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
57947888 CATTTTTTAT
57947898 GATTTATTAGAA-TTTTTTG
1 GATTTATTAGAAGTTTTTTG
* *
57947917 GATTTTTTATAAGTTTTTT
1 GATTTATTAGAAGTTTTTT
57947936 ATAAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (20 bp):
GATTTATTAGAAGTTTTTTG
Found at i:57947945 original size:12 final size:11
Alignment explanation
Indices: 57947918--57948007 Score: 55
Period size: 11 Copynumber: 8.5 Consensus size: 11
57947908 AATTTTTTGG
57947918 ATTTTTTATAA
1 ATTTTTTATAA
*
57947929 GTTTTTTATAA
1 ATTTTTTATAA
*
57947940 A-ATTTTA-AA
1 ATTTTTTATAA
* *
57947949 TATTATTTATTA
1 -ATTTTTTATAA
57947961 A--TTTTATAA
1 ATTTTTTATAA
**
57947970 ATTTTCAAT-A
1 ATTTTTTATAA
* *
57947980 ATTTATTACAA
1 ATTTTTTATAA
*
57947991 TTTTTTTATAA
1 ATTTTTTATAA
57948002 ATTTTT
1 ATTTTT
57948008 AAATATTTTT
Statistics
Matches: 55, Mismatches: 18, Indels: 12
0.65 0.21 0.14
Matches are distributed among these distances:
9 9 0.16
10 12 0.22
11 33 0.60
12 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (11 bp):
ATTTTTTATAA
Found at i:57947992 original size:29 final size:29
Alignment explanation
Indices: 57947932--57948036 Score: 83
Period size: 29 Copynumber: 3.5 Consensus size: 29
57947922 TTTATAAGTT
57947932 TTTTATAAAATTTTAAATATTATTTATTAA
1 TTTTATAAAATTTTAAATA-TATTTATTAA
*
57947962 TTTTAT-AAATTTTCAATA-ATTTATTACAA
1 TTTTATAAAATTTTAAATATATTTATT--AA
* *
57947991 TTTTTTTATAAATTTTTAAATATTTTTA-TAA
1 ---TTTTATAAAATTTTAAATATATTTATTAA
*
57948022 TTGTTA-ATAATTTTA
1 TT-TTATAAAATTTTA
57948037 TACTTTGTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
27 7 0.11
28 9 0.15
29 16 0.26
30 6 0.10
31 2 0.03
32 6 0.10
33 11 0.18
34 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (29 bp):
TTTTATAAAATTTTAAATATATTTATTAA
Found at i:57948035 original size:18 final size:19
Alignment explanation
Indices: 57947994--57948038 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
57947984 ATTACAATTT
* *
57947994 TTTTATAAATTTTTAAATAT
1 TTTTAT-AATTGTTAAATAA
57948014 TTTTATAATTGTT-AATAA
1 TTTTATAATTGTTAAATAA
57948032 TTTTATA
1 TTTTATA
57948039 CTTTGTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 6 0.26
20 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTATAATTGTTAAATAA
Found at i:57949937 original size:13 final size:13
Alignment explanation
Indices: 57949919--57949953 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
57949909 GGGACTCTGC
57949919 ATATTTGTTCTAT
1 ATATTTGTTCTAT
*
57949932 ATATTTGTTCTGT
1 ATATTTGTTCTAT
*
57949945 ATATCTGTT
1 ATATTTGTT
57949954 TTTGTTATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (13 bp):
ATATTTGTTCTAT
Found at i:57953428 original size:105 final size:108
Alignment explanation
Indices: 57953308--57953505 Score: 285
Period size: 105 Copynumber: 1.8 Consensus size: 108
57953298 TTTATTGTGA
*
57953308 TTTTTGTGTTGTTTTTAATTTATTTTAAAGTAATTTTGTTAGTAAC-TATTA-TAAATTATTTGT
1 TTTTTGTGTTGTTTTTAATTTATTTTAAAGTAATTTTGTTAGTAACTTATTAGTAAATTATTTCT
*
57953371 TTAGTTTAATGTTTATTGTGATTTGTTAGATTATGAATGTAAT
66 TTAGTTTAATATTTATTGTGATTTGTTAGATTATGAATGTAAT
* * *
57953414 TTTTTTTGTT-TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTTTTTATTAGGTTAATTAT
1 TTTTTGTGTTGTTTTTAATTTATTTTAAAGTAATTTTGTTAGTAAC---TTATTA-GTAAATTAT
*
57953478 TTCTTTGGTTTAATATTTATTGTGATTT
62 TTCTTTAGTTTAATATTTATTGTGATTT
57953506 TTTATGAGTG
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
105 34 0.43
106 9 0.11
109 5 0.06
111 32 0.40
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.61
Consensus pattern (108 bp):
TTTTTGTGTTGTTTTTAATTTATTTTAAAGTAATTTTGTTAGTAACTTATTAGTAAATTATTTCT
TTAGTTTAATATTTATTGTGATTTGTTAGATTATGAATGTAAT
Found at i:57959912 original size:18 final size:18
Alignment explanation
Indices: 57959886--57959925 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
57959876 CTTTCTTTTC
57959886 TCTTTTTTCTTCT-CCTT
1 TCTTTTTTCTTCTCCCTT
57959903 TCTTTCTTTCTTCTCCCTT
1 TCTTT-TTTCTTCTCCCTT
57959922 TCTT
1 TCTT
57959926 CTTCTCTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.24
18 8 0.38
19 8 0.38
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (18 bp):
TCTTTTTTCTTCTCCCTT
Found at i:57959922 original size:11 final size:10
Alignment explanation
Indices: 57959891--57959927 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 10
57959881 TTTTCTCTTT
57959891 TTTCTTCTCC
1 TTTCTTCTCC
57959901 TTTCTT-T-C
1 TTTCTTCTCC
57959909 TTTCTTCTCCC
1 TTTCTTCT-CC
57959920 TTTCTTCT
1 TTTCTTCT
57959928 TCTCTGCTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.29
9 2 0.08
10 6 0.25
11 9 0.38
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTCTTCTCC
Found at i:57959927 original size:14 final size:15
Alignment explanation
Indices: 57959874--57959931 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 15
57959864 ATTTCTCTTC
* *
57959874 TTCTTTCTTTTCTCT
1 TTCTTTCTTCTCCCT
57959889 TT-TTTCTTCTCCTTTCT
1 TTCTTTCTTCTCC---CT
57959906 TTCTTTCTTCTCCCT
1 TTCTTTCTTCTCCCT
57959921 TTC-TTCTTCTC
1 TTCTTTCTTCTC
57959932 TGCTGCTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 16 0.43
15 7 0.19
17 4 0.11
18 10 0.27
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TTCTTTCTTCTCCCT
Found at i:57964716 original size:10 final size:10
Alignment explanation
Indices: 57964693--57964752 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
57964683 ATTTTAGGAT
* *
57964693 TTATTTTCAT
1 TTATTTTTAA
57964703 TTATTTTTAA
1 TTATTTTTAA
*
57964713 TTATCTTTAA
1 TTATTTTTAA
*
57964723 TTATCTTTAA
1 TTATTTTTAA
* *
57964733 TTATTTGTAT
1 TTATTTTTAA
57964743 TTATCTTTTA
1 TTAT-TTTTA
57964753 GAATTTAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
10 38 0.90
11 4 0.10
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:57964726 original size:20 final size:20
Alignment explanation
Indices: 57964693--57964750 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
57964683 ATTTTAGGAT
* *
57964693 TTATTTTCATTTATTTTTAA
1 TTATTTTTATTTATCTTTAA
* *
57964713 TTATCTTTAATTATCTTTAA
1 TTATTTTTATTTATCTTTAA
*
57964733 TTATTTGTATTTATCTTT
1 TTATTTTTATTTATCTTT
57964751 TAGAATTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTTTTATTTATCTTTAA
Found at i:57972311 original size:85 final size:85
Alignment explanation
Indices: 57972168--57972421 Score: 449
Period size: 85 Copynumber: 3.0 Consensus size: 85
57972158 AGAGAAAAAA
57972168 AACTCCTAACCCCTCCATTTCCTACCCACTATTAATTTTTTTTTGTTATATGTTGTAGGATGAGT
1 AACTCCTAACCCCTCCATTTCCTACCCACTATTAATTTTTTTTTGTTATATGTTGTAGGATGAGT
57972233 AATTGTTCGTAATTTTAAGT
66 AATTGTTCGTAATTTTAAGT
* *
57972253 AACTCCTCACCCCTTCATTTCCTACCCACTATTAATTTTTTTTTGTTATATGTTGTAGGATGAGT
1 AACTCCTAACCCCTCCATTTCCTACCCACTATTAATTTTTTTTTGTTATATGTTGTAGGATGAGT
*
57972318 AATTGTTCATAATTTTAAGT
66 AATTGTTCGTAATTTTAAGT
*
57972338 AACTCCTAACCCCTCCATTTCCTATCCACTATTAA--TTTTTTTGTTATATGTTGTAGGATGAGT
1 AACTCCTAACCCCTCCATTTCCTACCCACTATTAATTTTTTTTTGTTATATGTTGTAGGATGAGT
*
57972401 AATTGTTCGTAATTGTAAGT
66 AATTGTTCGTAATTTTAAGT
57972421 A
1 A
57972422 TTTTTTTTGT
Statistics
Matches: 161, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 47 0.29
85 114 0.71
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (85 bp):
AACTCCTAACCCCTCCATTTCCTACCCACTATTAATTTTTTTTTGTTATATGTTGTAGGATGAGT
AATTGTTCGTAATTTTAAGT
Found at i:57979615 original size:47 final size:47
Alignment explanation
Indices: 57979560--57979733 Score: 155
Period size: 47 Copynumber: 3.7 Consensus size: 47
57979550 TTGGGCATCT
*
57979560 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGTCC
* * *
57979607 AAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATGT-AACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAA--A--CGTCC
* * * *
57979654 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCG-AGCG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGTCC
* *
57979699 TGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57979734 GCAGGTTACA
Statistics
Matches: 105, Mismatches: 11, Indels: 23
0.76 0.08 0.17
Matches are distributed among these distances:
43 3 0.03
44 7 0.07
45 3 0.03
46 35 0.33
47 49 0.47
50 7 0.07
51 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGTCC
Found at i:57984447 original size:93 final size:93
Alignment explanation
Indices: 57984295--57984463 Score: 216
Period size: 93 Copynumber: 1.8 Consensus size: 93
57984285 ATACAAAAGC
* * *
57984295 CAGTGTAAGACATGTCTAGGACATGCACCGGCCTCGCGATATACAAGCTAGTGTAAGACCTA-TC
1 CAGTGTAAGACATGTCTAGGACATGCACCAGCCTCGCGATATACAAGCCAGTGTAAGACCAAGTC
57984359 AGGGACATGGCGTCAGCTTGTTATGTGT
66 AGGGACATGGCGTCAGCTTGTTATGTGT
* * * * * *
57984387 CAGTGTAAGACCTGTTTGGGACATGGCATCAGCCTCGCTATATGA-ACGCCAGTGTAAGACCAAG
1 CAGTGTAAGACATGTCTAGGACAT-GCACCAGCCTCGCGATAT-ACAAGCCAGTGTAAGACCAAG
*
57984451 TCTGGGACATGGC
64 TCAGGGACATGGC
57984464 ATCGGCATCT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
92 21 0.33
93 30 0.47
94 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (93 bp):
CAGTGTAAGACATGTCTAGGACATGCACCAGCCTCGCGATATACAAGCCAGTGTAAGACCAAGTC
AGGGACATGGCGTCAGCTTGTTATGTGT
Found at i:57990257 original size:27 final size:27
Alignment explanation
Indices: 57990219--57990273 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
57990209 TTACACAAAG
*
57990219 TGTGTCTTTACATATAACCATAACATT
1 TGTGTATTTACATATAACCATAACATT
57990246 TGTGTATTTACATATAACCATAACATT
1 TGTGTATTTACATATAACCATAACATT
57990273 T
1 T
57990274 CCTTTACATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (27 bp):
TGTGTATTTACATATAACCATAACATT
Found at i:57997259 original size:50 final size:52
Alignment explanation
Indices: 57997151--57997271 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 52
57997141 AAGAAAAAAT
* *
57997151 GAGTTACTTAATGCATGACTTAATTTAGTGATGCAAACTTTAACTAACATAG
1 GAGTTACATAATGCATGACATAATTTAGTGATGCAAACTTTAACTAACATAG
* * * *
57997203 GAGTTACATAATACATGTCATAATTTA-TGATGCAAAC-TTAACTTACATGG
1 GAGTTACATAATGCATGACATAATTTAGTGATGCAAACTTTAACTAACATAG
57997253 GAGTTACATAATGCATGAC
1 GAGTTACATAATGCATGAC
57997272 TTTATTAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 28 0.46
51 10 0.16
52 23 0.38
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAGTGATGCAAACTTTAACTAACATAG
Found at i:58000868 original size:52 final size:51
Alignment explanation
Indices: 58000811--58000942 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
58000801 ATGAACAAAT
*
58000811 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTAACATGG
* * * *
58000863 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAATTTACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGG
* *
58000913 GAGTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
58000943 CAAAACACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 33 0.47
51 14 0.20
52 23 0.33
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGG
Found at i:58019582 original size:50 final size:49
Alignment explanation
Indices: 58019459--58019733 Score: 154
Period size: 46 Copynumber: 5.8 Consensus size: 49
58019449 GGCAAGTTAT
* *
58019459 CGATGCCATGTCCCAGACATGGTTTTACACTGGCTATCATCACCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCACCGAGGC
* * * * *
58019508 TGATGTCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CATATCC-ATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC--A-CCGAGGC
* ***
58019558 CGATGCCATGTCCCAGACACGGTCTTACACT-GAC-A-CAT-TTTGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCACCG-AGGC
* * *
58019604 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTC-CTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCACCGAGGC
** * **
58019650 TAATG-CATGTCCTAGACAT-GTCTTACACTAGC-A-C-TCATCTTAGTG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCA-CCGAG-GC
* * *
58019695 CGATGCCATGTCCCA-AAATGGTCTTACACTGGCTCTCAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT
58019734 AATGTGTCTG
Statistics
Matches: 175, Mismatches: 29, Indels: 44
0.71 0.12 0.18
Matches are distributed among these distances:
43 2 0.01
44 12 0.07
45 25 0.14
46 62 0.35
47 1 0.01
48 4 0.02
49 35 0.20
50 32 0.18
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCACCGAGGC
Found at i:58019705 original size:46 final size:46
Alignment explanation
Indices: 58019509--58019773 Score: 147
Period size: 46 Copynumber: 5.7 Consensus size: 46
58019499 CACCGAGGCT
* *
58019509 GATGTCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CATATCCA-TGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATC-T-T--AGTGCC
* * *
58019559 GATGCCATGTCCCAGACACGGTCTTACACT-G-ACACAT-TTTGTAGCC
1 GATG-CATGTCCCAGACA-TGTCTTACACTAGCACTCATCTTAGT-GCC
* * *
58019605 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTC--CTGAG-GCT
1 GATGCATGTCCCAGACATGTCTTACACTAGC--AC-TCATCTTAGTGCC
* *
58019651 AATGCATGTCCTAGACATGTCTTACACTAGCACTCATCTTAGTG-C
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTTAGTGCC
* * * ** *
58019696 GATGCCATGTCCCA-AAATGGTCTTACACTGGCTCTCATAAT-GTGTCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTTAGTG-CC
* * *
58019743 GGTGCATGTCCTAGACAAGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
58019774 CCACAATAGC
Statistics
Matches: 168, Mismatches: 29, Indels: 40
0.71 0.12 0.17
Matches are distributed among these distances:
43 2 0.01
44 12 0.07
45 28 0.17
46 85 0.51
47 6 0.04
48 7 0.04
49 2 0.01
50 26 0.15
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTTAGTGCC
Found at i:58019723 original size:92 final size:91
Alignment explanation
Indices: 58019604--58019773 Score: 218
Period size: 92 Copynumber: 1.9 Consensus size: 91
58019594 ATTTTGTAGC
* * **
58019604 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCCTGAGGCTAATGCATGTCCTAGACA
1 CGATGCATGTCCCAGAAATGTCTTACACTGGCTCT-CATAATGAGGCTAATGCATGTCCTAGACA
*
58019668 TGTCTTACACTAGCACTCATCTTAGTG
65 AGTCTTACACTAGCACTCATCTTAGTG
* * **
58019695 CGATGCCATGTCCCA-AAATGGTCTTACACTGGCTCTCATAATGTGTCTGGTGCATGTCCTAGAC
1 CGATG-CATGTCCCAGAAAT-GTCTTACACTGGCTCTCATAATGAGGCTAATGCATGTCCTAGAC
58019759 AAGTCTTACACTAGC
64 AAGTCTTACACTAGC
58019774 CCACAATAGC
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
91 8 0.12
92 58 0.87
93 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (91 bp):
CGATGCATGTCCCAGAAATGTCTTACACTGGCTCTCATAATGAGGCTAATGCATGTCCTAGACAA
GTCTTACACTAGCACTCATCTTAGTG
Found at i:58027210 original size:46 final size:44
Alignment explanation
Indices: 58027145--58027315 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 44
58027135 ACATTTTGTA
*
58027145 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-T-CGTCACAAG
* * * * *
58027191 GCCGATGCATGTCCTAGACATGTCTGACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTCGTCACAAG
*
58027237 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCGTCACAA---G
*
58027285 GCCGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
58027316 AGCCCATAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
45 4 0.04
46 56 0.53
47 29 0.27
48 17 0.16
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCGTCACAAG
Found at i:58027264 original size:94 final size:90
Alignment explanation
Indices: 58027145--58027318 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 90
58027135 ACATTTTGTA
*
58027145 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCCAA-GGCCGATGCATGTCCTAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-T-C-TCACAATGGCCGATGCATGTCCTAGA
58027209 CATGTCTGACACTAGCACTCGTCTCAAT
63 CATGTCTGACACTAGCACTCGTCTCAAT
*
58027237 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCTAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCACAA--TGGCCGATGCATGTCCTAG
*
58027302 ACATGTCTTACACTAGC
62 ACATGTCTGACACTAGC
58027319 CCATAATAAC
Statistics
Matches: 74, Mismatches: 3, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
91 4 0.05
92 8 0.11
93 15 0.20
94 47 0.64
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (90 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCACAATGGCCGATGCATGTCCTAGACAT
GTCTGACACTAGCACTCGTCTCAAT
Found at i:58027312 original size:140 final size:142
Alignment explanation
Indices: 58027000--58027315 Score: 374
Period size: 140 Copynumber: 2.2 Consensus size: 142
58026990 GGGACAAGTT
*
58027000 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCACCGAAGATGATGCCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCACCGAAGACGATGCCATGTCCC
* * * *
58027065 AAACATGGTCTTACACTAGCTCTCACATATCCATGCCGATTCCATGTCCCAGACATGGTCTTACA
64 AAACATGGTCTGACACTAGCACT-ACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACA
**
58027130 CTGACACATTTTGTA
128 CTGACACATAATGTA
* * *
58027145 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTC-CC-AAGGCCGATG-CATGTCCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCACCGAA-GACGATGCCATGTCCC
* * *
58027206 AGACAT-GTCTGACACTAGCACT-CGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
64 AAACATGGTCTGACACTAGCACTACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
* * *
58027269 TGGCTCTCATAATGTG
129 T-G-ACACATAATGTA
*
58027285 GCCGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
58027316 AGCCCATAAT
Statistics
Matches: 150, Mismatches: 17, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
138 38 0.25
139 1 0.01
140 51 0.34
141 14 0.09
142 8 0.05
143 17 0.11
144 14 0.09
145 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (142 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCACCGAAGACGATGCCATGTCCCAA
ACATGGTCTGACACTAGCACTACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
ACACATAATGTA
Found at i:58029225 original size:46 final size:45
Alignment explanation
Indices: 58029110--58029258 Score: 138
Period size: 46 Copynumber: 3.2 Consensus size: 45
58029100 CCTAGACACG
* * *
58029110 GTCTTACACTGGTTTATATCTCAAGCAAAAGCCATGTCCCAGACAT
1 GTCTTACACTGGCTTATATCTCGAGCCAAAG-CATGTCCCAGACAT
* * * *
58029156 GGTCTTACATTGAC-TACCATCTCGTAGCCAACGCATGTCCCAGACAT
1 -GTCTTACACTGGCTTA-TATCTCG-AGCCAAAGCATGTCCCAGACAT
* * * * *
58029203 GTCTTACACTGGCTTATGTCTCGAGGTCGATGCATGTCCCAGACAC
1 GTCTTACACTGGCTTATATCTCGA-GCCAAAGCATGTCCCAGACAT
58029249 GTCTTACACT
1 GTCTTACACT
58029259 AGCACTCATC
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 45 0.54
47 31 0.37
48 6 0.07
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
GTCTTACACTGGCTTATATCTCGAGCCAAAGCATGTCCCAGACAT
Found at i:58038740 original size:27 final size:27
Alignment explanation
Indices: 58038710--58038789 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
58038700 ACTCAACAAG
58038710 CTCGGATGCCTAGTTACATCTCACGAA
1 CTCGGATGCCTAGTTACATCTCACGAA
* *
58038737 CTCGGA---CTCA---AC-TC-AACGAG
1 CTCGGATGCCT-AGTTACATCTCACGAA
*
58038757 TTCGGATGCCTAGTTACATCTCACGAA
1 CTCGGATGCCTAGTTACATCTCACGAA
58038784 CTCGGA
1 CTCGGA
58038790 CTCAACTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 18
0.61 0.10 0.29
Matches are distributed among these distances:
20 9 0.24
21 2 0.05
22 3 0.08
23 2 0.05
24 2 0.05
25 3 0.08
26 2 0.05
27 15 0.39
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (27 bp):
CTCGGATGCCTAGTTACATCTCACGAA
Found at i:58038752 original size:47 final size:47
Alignment explanation
Indices: 58038687--58038809 Score: 228
Period size: 47 Copynumber: 2.6 Consensus size: 47
58038677 ATCCATAAGT
* *
58038687 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58038734 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58038781 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
58038810 CGTTCGCATG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58040641 original size:47 final size:46
Alignment explanation
Indices: 58040572--58040883 Score: 203
Period size: 47 Copynumber: 6.7 Consensus size: 46
58040562 GGTATGGTGC
* * *
58040572 CGATGCCATGTCCCAGACATGGTCTTACAATAGCTCCTATCTCCAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCATATCTCAAGT
** *
58040619 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTTGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-CTCAT-ATC-TCAAGT
* * *
58040667 CGATG-CATGTCCTAGACAT-GTCTTACACTGGATCATATATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCATATCTCAAGT
* * * *
58040712 CGATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCATTTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-CTCAT-ATCTC-AAGT
* * * ** * *
58040760 CAATG-CATGTCCCAGACAT-GTCTTACACCAGCTTACGTCTCGAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACA-CTGCTCATATCTCAAG-T
* * * *
58040806 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCAC-TCCTCTCGA-T
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCAT-ATCTCAAGT
*
58040850 GCTGATGCAATGTCCCAGACATGGTCTTACACTG
1 -C-GATGCCATGTCCCAGACATGGTCTTACACTG
58040884 ACTCTCGTAA
Statistics
Matches: 212, Mismatches: 34, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
45 12 0.06
46 81 0.38
47 95 0.45
48 24 0.11
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGCTCATATCTCAAGT
Found at i:58040738 original size:93 final size:93
Alignment explanation
Indices: 58040570--58040882 Score: 323
Period size: 93 Copynumber: 3.3 Consensus size: 93
58040560 GGGGTATGGT
* * * * * *
58040570 GCCGATGCCATGTCCCAGACATGGTCTTACAATAGCTCCTATCTCCAGTCGATGCCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGATCATATATCAAGTCGATGCCATGTCCCAA
58040635 ACATGGTCTTACACTGACTATCATCTT-GTA
64 ACATGGTCTTACACTGACTATCAT-TTCGTA
* *
58040665 GCCGATGCATGTCCTAGACATGTCTTACACTGGATCATATATCAAGTCGATGCCATGTCCCAAAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGATCATATATCAAGTCGATGCCATGTCCCAAAC
58040730 ATGGTCTTACACTGACTATCATTTCGTA
66 ATGGTCTTACACTGACTATCATTTCGTA
* * * * ** * * *
58040758 GCCAATGCATGTCCCAGACATGTCTTACACCAGCTTACGTCTCGAGACCGATG-CATGTCCCAAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGATCATATATCAAG-TCGATGCCATGTCCCAAA
* *
58040822 CAT-GTCTTACACT-AGC-ACTCCTCTCG-A
65 CATGGTCTTACACTGA-CTA-TCATTTCGTA
*
58040849 TGCTGATGCAATGTCCCAGACATGGTCTTACACT
1 -GCCGATGC-ATGTCCCAGACAT-GTCTTACACT
58040883 GACTCTCGTA
Statistics
Matches: 187, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
91 3 0.02
92 25 0.13
93 125 0.67
94 27 0.14
95 7 0.04
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGATCATATATCAAGTCGATGCCATGTCCCAAAC
ATGGTCTTACACTGACTATCATTTCGTA
Found at i:58040812 original size:46 final size:46
Alignment explanation
Indices: 58040762--58040881 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
58040752 TTCGTAGCCA
* *
58040762 ATGCATGTCCCAGACATGTCTTACACCAGC-TTACGTCTCGA-GACCG
1 ATGCATGTCCCAGACATGTCTTACACCAGCACT-CCTCTCGATG-CCG
* * *
58040808 ATGCATGTCCCAAACATGTCTTACACTAGCACTCCTCTCGATGCTG
1 ATGCATGTCCCAGACATGTCTTACACCAGCACTCCTCTCGATGCCG
58040854 ATGCAATGTCCCAGACATGGTCTTACAC
1 ATGC-ATGTCCCAGACAT-GTCTTACAC
58040882 TGACTCTCGT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 41 0.64
47 14 0.22
48 9 0.14
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACCAGCACTCCTCTCGATGCCG
Found at i:58046457 original size:67 final size:67
Alignment explanation
Indices: 58046374--58046539 Score: 296
Period size: 67 Copynumber: 2.5 Consensus size: 67
58046364 ACCTAGTCAC
* *
58046374 TTTATCTCGTAGCTCTCTTGTTTACATGGTTTCCTTCACCCGGAACCACACATGCAACCTAGCTA
1 TTTATCTCGTAGCTCTCTTGTTTACATGGTGTCATTCACCCGGAACCACACATGCAACCTAGCTA
58046439 CA
66 CA
*
58046441 TTTATCTCGTAGCTCTCTTGTTTACATGGTGTCATTCACCTGGAACCACACATGCAACCTAGCTA
1 TTTATCTCGTAGCTCTCTTGTTTACATGGTGTCATTCACCCGGAACCACACATGCAACCTAGCTA
58046506 CA
66 CA
*
58046508 TTTATCTCGTAGCTCTCTTGTCTACATGGTGT
1 TTTATCTCGTAGCTCTCTTGTTTACATGGTGT
58046540 ACACATAGTA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 95 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (67 bp):
TTTATCTCGTAGCTCTCTTGTTTACATGGTGTCATTCACCCGGAACCACACATGCAACCTAGCTA
CA
Found at i:58046632 original size:68 final size:68
Alignment explanation
Indices: 58046512--58046638 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
58046502 GCTACATTTA
* * *
58046512 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCGTA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCGTA
58046577 ATG
66 ATG
* * * *
58046580 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTATCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAGCTAC
58046639 ATACCATATG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
68 48 0.96
69 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCGTA
ATG
Found at i:58048835 original size:38 final size:38
Alignment explanation
Indices: 58048784--58048859 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
58048774 TATTCCATCA
58048784 TTCTAAACTATTACACAACCTTTGAAAATCAGAATTTT
1 TTCTAAACTATTACACAACCTTTGAAAATCAGAATTTT
58048822 TTCTAAACTATTACACAACCTTTGAAAATCAGAATTTT
1 TTCTAAACTATTACACAACCTTTGAAAATCAGAATTTT
58048860 AACACTAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (38 bp):
TTCTAAACTATTACACAACCTTTGAAAATCAGAATTTT
Found at i:58051719 original size:6 final size:6
Alignment explanation
Indices: 58051708--58051734 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
58051698 ATCTTGTGGC
58051708 AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA
58051735 GAGATGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:58058191 original size:13 final size:13
Alignment explanation
Indices: 58058149--58058208 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
58058139 CACATTAAGA
58058149 TTGCATATCAAGC
1 TTGCATATCAAGC
* * *
58058162 TCGC-TCATTAGGC
1 TTGCAT-ATCAAGC
58058175 TTGCATATCAAGC
1 TTGCATATCAAGC
* * *
58058188 TTGCACATTAGGC
1 TTGCATATCAAGC
58058201 TTGCATAT
1 TTGCATAT
58058209 TGAGCTCACA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
12 1 0.03
13 33 0.94
14 1 0.03
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (13 bp):
TTGCATATCAAGC
Found at i:58058214 original size:26 final size:26
Alignment explanation
Indices: 58058139--58058208 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
58058129 ACACAGTTCT
* *
58058139 CACATTAAGATTGCATATCAAGCTCG
1 CACATTAGGCTTGCATATCAAGCTCG
* *
58058165 CTCATTAGGCTTGCATATCAAGCTTG
1 CACATTAGGCTTGCATATCAAGCTCG
58058191 CACATTAGGCTTGCATAT
1 CACATTAGGCTTGCATAT
58058209 TGAGCTCACA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (26 bp):
CACATTAGGCTTGCATATCAAGCTCG
Found at i:58067281 original size:44 final size:41
Alignment explanation
Indices: 58067231--58067373 Score: 128
Period size: 44 Copynumber: 3.4 Consensus size: 41
58067221 TGTGTTATTG
58067231 TGTAAGACCATGTCTTAGACATTGGCATCGACTTCTGATTTACA
1 TGTAAGACCATGTCTTAGACATTGGCATCGA-TT-TGA-TTACA
* * ** **
58067275 TATAAGACAATGTCTGGGACATCAGCATCGTATTTGATT-CA
1 TGTAAGACCATGTCTTAGACATTGGCATCG-ATTTGATTACA
* *
58067316 TGTAAGACCATGTC-TAGGACAATGGCATTGATGTTTGATTACA
1 TGTAAGACCATGTCTTA-GACATTGGCATCGA--TTTGATTACA
*
58067359 TGTAAGACCACGTCT
1 TGTAAGACCATGTCT
58067374 GGGACGTTGG
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
40 1 0.01
41 23 0.29
42 9 0.12
43 18 0.23
44 26 0.33
45 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTCTTAGACATTGGCATCGATTTGATTACA
Found at i:58067367 original size:43 final size:42
Alignment explanation
Indices: 58067231--58067378 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 42
58067221 TGTGTTATTG
* *
58067231 TGTAAGACCATGTCTTA-GACATTGGCATCGACTTCTGATTTACA
1 TGTAAGACCATGTC-TAGGACAATGGCATCGA-TTTTGA-TTACA
* * * *
58067275 TATAAGACAATGTCTGGGAC-ATCAGCATCG-TATTTGATT-CA
1 TGTAAGACCATGTCTAGGACAAT-GGCATCGAT-TTTGATTACA
*
58067316 TGTAAGACCATGTCTAGGACAATGGCATTGATGTTTGATTACA
1 TGTAAGACCATGTCTAGGACAATGGCATCGAT-TTTGATTACA
* *
58067359 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTAGGAC
58067379 GTTGGCATTG
Statistics
Matches: 84, Mismatches: 14, Indels: 13
0.76 0.13 0.12
Matches are distributed among these distances:
41 24 0.29
42 13 0.15
43 26 0.31
44 21 0.25
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAATGGCATCGATTTTGATTACA
Found at i:58067385 original size:43 final size:42
Alignment explanation
Indices: 58067307--58067388 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
58067297 CAGCATCGTA
*
58067307 TTTGATTCATGTAAGACCATGTCTAGGACAATGGCATTGATG
1 TTTGATTCATGTAAGACCACGTCTAGGACAATGGCATTGATG
* **
58067349 TTTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTG
1 TTTGATT-CATGTAAGACCACGTCTAGGACAATGGCATTG
58067389 TATTTGCTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 7 0.20
43 28 0.80
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
TTTGATTCATGTAAGACCACGTCTAGGACAATGGCATTGATG
Found at i:58070155 original size:46 final size:46
Alignment explanation
Indices: 58070105--58070279 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 46
58070095 TGGTTGAGCA
58070105 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58070151 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
58070196 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58070244 -CCCAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58070280 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 36 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58070220 original size:47 final size:47
Alignment explanation
Indices: 58070102--58070271 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 47
58070092 GGATGGTTGA
*
58070102 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
58070150 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
* *
58070193 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
*
58070243 GC--CC-AGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
58070272 GCTTATGGGC
Statistics
Matches: 105, Mismatches: 8, Indels: 21
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 27 0.26
46 31 0.30
47 29 0.28
48 5 0.05
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:58077854 original size:93 final size:92
Alignment explanation
Indices: 58077696--58077866 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
58077686 TGCCCATAAG
* *
58077696 CGAACTCGGACTCAACTCAACGAGCTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58077761 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
* *
58077788 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCTTCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCT-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58077853 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
58077867 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 25 0.34
93 49 0.66
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:58077882 original size:46 final size:46
Alignment explanation
Indices: 58077692--58077875 Score: 139
Period size: 45 Copynumber: 4.0 Consensus size: 46
58077682 AACCTGCCCA
* * * * * * *
58077692 TAAGCGAACTCGGACTCAACTCAACGAGCTGGGCGTTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCATC
58077737 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * **
58077785 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCTTCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
58077830 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
58077876 CTAGTGACAT
Statistics
Matches: 109, Mismatches: 17, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
43 1 0.01
44 10 0.09
45 32 0.29
46 30 0.28
47 30 0.28
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:58094256 original size:931 final size:931
Alignment explanation
Indices: 58091894--58096545 Score: 9132
Period size: 931 Copynumber: 5.0 Consensus size: 931
58091884 ACATAAACTT
58091894 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
1 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
58091959 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
66 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
58092024 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
131 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
*
58092089 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTCATCGCTCTCATGCCTCATATAGAG
196 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
58092154 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
261 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
58092219 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCTATGTGGTTATGGAGTCGGGTGGTAAGGA
326 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCTATGTGGTTATGGAGTCGGGTGGTAAGGA
58092284 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
391 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
58092349 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
456 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
58092414 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
521 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
*
58092479 TTCGAACTACGGTGCATCAATTTTGGGTCTCATAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
586 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
58092544 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
651 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
58092609 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
716 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
58092674 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
781 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
58092739 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTT-AAAAAAAA-AAATAAGTA
846 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAACAAATAAGTA
58092802 AATCAATTGAAAAATAATTAA
911 AATCAATTGAAAAATAATTAA
*
58092823 CATGTACTCCTGCCACTCTTCTTCTTTTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
1 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
58092888 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
66 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
58092953 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
131 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
58093018 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
196 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
58093083 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
261 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
*
58093148 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCCATGTGGTTATGGAGTCGGGTGGTAAGGA
326 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCTATGTGGTTATGGAGTCGGGTGGTAAGGA
58093213 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
391 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
58093278 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
456 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
58093343 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
521 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
58093408 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
586 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
58093473 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
651 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
58093538 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
716 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
*
58093603 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGACTGATAATTCAGT
781 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
58093668 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAACAAATAAGTA
846 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAACAAATAAGTA
58093733 AATCAATTGAAAAATAATTAA
911 AATCAATTGAAAAATAATTAA
58093754 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
1 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
*
58093819 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACATTTAGAAAGAAAAGCTTCATTTGCAAA
66 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
58093884 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
131 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
*
58093949 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTCATCGCTCTCATGCCTCATATAGAG
196 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
58094014 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
261 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
58094079 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCTATGTGGTTATGGAGTCGGGTGGTAAGGA
326 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCTATGTGGTTATGGAGTCGGGTGGTAAGGA
58094144 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
391 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
58094209 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
456 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
58094274 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
521 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
58094339 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
586 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
58094404 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
651 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
58094469 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
716 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
58094534 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
781 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
58094599 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAAACAAATAAGT
846 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTT-AAAAAAAAACAAATAAGT
58094664 AAATCAATTGAAAAATAATTAA
910 AAATCAATTGAAAAATAATTAA
58094686 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
1 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
58094751 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
66 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
58094816 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
131 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
*
58094881 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAGTCGCTCTCATGCCTCATATAGAG
196 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
**
58094946 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAAAA
261 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
58095011 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCTATGTGGTTATGGAGTCGGGTGGTAAGGA
326 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCTATGTGGTTATGGAGTCGGGTGGTAAGGA
58095076 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
391 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
58095141 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
456 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
58095206 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
521 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
58095271 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
586 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
58095336 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
651 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
58095401 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
716 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
58095466 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
781 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
58095531 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAACAAATAAGTA
846 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAACAAATAAGTA
58095596 AATCAATTGAAAAATAATTAA
911 AATCAATTGAAAAATAATTAA
58095617 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
1 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
*
58095682 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACATTTAGAAAGAAAAGCTTCATTTGCAAA
66 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
58095747 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
131 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
58095812 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
196 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
58095877 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
261 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
*
58095942 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCCATGTGGTTATGGAGTCGGGTGGTAAGGA
326 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCTATGTGGTTATGGAGTCGGGTGGTAAGGA
*
58096007 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTTAAAGCATCAT
391 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
* *
58096072 TGGTCACTCCGACCAATTTTAAGGAGTCCTTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
456 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
58096137 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
521 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
58096202 TTCGAACTACGGTGCATCAATTTTGGGTC-CACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
586 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
58096266 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
651 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
58096331 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
716 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
58096396 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
781 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
58096461 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTT-AAAAAAAACAAATAAGTA
846 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAACAAATAAGTA
58096525 AATCAATTGAAAAATAATTAA
911 AATCAATTGAAAAATAATTAA
58096546 TTTCACAATT
Statistics
Matches: 3697, Mismatches: 23, Indels: 6
0.99 0.01 0.00
Matches are distributed among these distances:
929 925 0.25
930 284 0.08
931 1562 0.42
932 926 0.25
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (931 bp):
CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCTATGTGGTTATGGAGTCGGGTGGTAAGGA
ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAACAAATAAGTA
AATCAATTGAAAAATAATTAA
Found at i:58102658 original size:25 final size:25
Alignment explanation
Indices: 58102630--58102678 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
58102620 CTATTTTTGA
* *
58102630 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
58102655 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
58102679 ATAGACTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:58113842 original size:13 final size:13
Alignment explanation
Indices: 58113824--58113848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58113814 GTAAGTGATT
58113824 TTGATGATTTTTC
1 TTGATGATTTTTC
58113837 TTGATGATTTTT
1 TTGATGATTTTT
58113849 GTACTTTTAG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:58114671 original size:48 final size:46
Alignment explanation
Indices: 58114551--58114671 Score: 172
Period size: 46 Copynumber: 2.6 Consensus size: 46
58114541 TGATATATGT
*
58114551 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAAA
* *
58114597 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACGACAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACA-G-CATGA-AA
*
58114645 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
58114672 GCGTCAGCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 36 0.54
47 2 0.03
48 29 0.43
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAAA
Found at i:58122412 original size:75 final size:79
Alignment explanation
Indices: 58122319--58122487 Score: 229
Period size: 75 Copynumber: 2.2 Consensus size: 79
58122309 CGGATAAGAT
* *
58122319 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C-CGAAGGCATTGTGCGAGTTACTA-
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCGCGAAGGCATTCTGCGAGTTACTAT
* *
58122381 AATCC-GTTAAGTC
66 AACCCGGCTAAGTC
* *
58122394 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGCGAAGGCATTCTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCGCGAAGGCATTCTGCGAGTTACTA
*
58122459 TAACCCGGGCTATGTC
65 TAACCC-GGCTAAGTC
58122475 CCGAAGGCATTTG
1 CCGAAGGCATTTG
58122488 AATGAGTAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
75 35 0.43
77 1 0.01
78 22 0.27
79 4 0.05
81 19 0.23
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCGCGAAGGCATTCTGCGAGTTACTAT
AACCCGGCTAAGTC
Found at i:58122451 original size:40 final size:39
Alignment explanation
Indices: 58122268--58122485 Score: 225
Period size: 38 Copynumber: 5.6 Consensus size: 39
58122258 TCGAATGATG
* * * *
58122268 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
58122307 TCC-GGATAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
58122346 TCCGGGCTAAG--CCGAAGGCATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
*
58122383 TCC--GTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
* *
58122421 TCCGGGTTAAGTCCGCGAAGGCATTCTGCGAGTTACTATAA
1 TCCGGGCTAAGTCC-CGAAGGCATTGTGCGAGTTACTA-AA
* *
58122462 CCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
58122486 TGAATGAGTA
Statistics
Matches: 154, Mismatches: 14, Indels: 21
0.81 0.07 0.11
Matches are distributed among these distances:
35 5 0.03
37 27 0.18
38 45 0.29
39 17 0.11
40 39 0.25
41 21 0.14
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:58132346 original size:27 final size:27
Alignment explanation
Indices: 58132306--58132358 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
58132296 TGGCTTTACA
58132306 CCCACGATCCTTTGGGAATTGGGACTG
1 CCCACGATCCTTTGGGAATTGGGACTG
*
58132333 CCCACGA-CCTTTTGGGTATTGGGACT
1 CCCACGATCC-TTTGGGAATTGGGACT
58132359 AACAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.28
Consensus pattern (27 bp):
CCCACGATCCTTTGGGAATTGGGACTG
Found at i:58137523 original size:56 final size:57
Alignment explanation
Indices: 58137435--58137556 Score: 228
Period size: 56 Copynumber: 2.1 Consensus size: 57
58137425 ACAAGGGATG
58137435 ATGGGCAAAAACATAGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGC-AAAACATAGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
58137493 ATGGGCAAAACAT-GTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATAGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
58137549 ATGGGCAA
1 ATGGGCAA
58137557 TAAACTAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 51 0.80
57 7 0.11
58 6 0.09
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.22
Consensus pattern (57 bp):
ATGGGCAAAACATAGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:58143747 original size:56 final size:56
Alignment explanation
Indices: 58143661--58143836 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
58143651 ACAAGGGATG
*
58143661 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
58143717 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
58143773 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
58143829 ATGGGCAA
1 ATGGGCAA
58143837 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:58145046 original size:40 final size:40
Alignment explanation
Indices: 58144962--58145186 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
58144952 TCGAATGATG
* * * *
58144962 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
58145002 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58145042 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58145081 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58145121 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58145162 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58145187 AACTAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58145208 original size:119 final size:119
Alignment explanation
Indices: 58144962--58145219 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
58144952 TCGAATGATG
* *
58144962 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
58145027 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
58145081 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
58145144 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACTAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
58145201 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
58145220 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:58161009 original size:69 final size:69
Alignment explanation
Indices: 58160877--58161063 Score: 198
Period size: 69 Copynumber: 2.7 Consensus size: 69
58160867 ACACCTCAAA
* ** * *
58160877 GGATGTATAAGATGGAAGACCATAGCTCGGTTATGGCAACTAATAGAGTTTTTCGAGATAGTAAA
1 GGAT-TATAAGATGTAAGACCATAGCTCGACTATGGCAACTAATAGAGTTTATCGAGACAGTAAA
**
58160942 CATGG
65 CACAG
* * * *
58160947 GGATTATAAGATGTAAGACTATAGCTCAACTATGACAACTAATAGAGTTTGAT-GGGACAGTAAA
1 GGATTATAAGATGTAAGACCATAGCTCGACTATGGCAACTAATAGAGTTT-ATCGAGACAGTAAA
*
58161011 CACAT
65 CACAG
* * *
58161016 GGATTATAA-AGTGTAAGTCCATAGCTCGACTATGGCAACCATTAGAGT
1 GGATTATAAGA-TGTAAGACCATAGCTCGACTATGGCAACTAATAGAGT
58161064 CCACCGAGGC
Statistics
Matches: 97, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
68 1 0.01
69 91 0.94
70 5 0.05
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (69 bp):
GGATTATAAGATGTAAGACCATAGCTCGACTATGGCAACTAATAGAGTTTATCGAGACAGTAAAC
ACAG
Found at i:58161847 original size:15 final size:15
Alignment explanation
Indices: 58161827--58161859 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
58161817 GGGAGTTAGA
58161827 AAAATTTTAACTT-TT
1 AAAATTTT-ACTTCTT
58161842 AAAATTTTACTTCTT
1 AAAATTTTACTTCTT
58161857 AAA
1 AAA
58161860 GTTTACGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAATTTTACTTCTT
Found at i:58165217 original size:28 final size:28
Alignment explanation
Indices: 58165180--58165238 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
58165170 ACGGGTAATA
*
58165180 TTTTTATAATTCTTGA-AAATTCTGTTTT
1 TTTTTATAATT-TTGATAAATTCTATTTT
*
58165208 TTTTTATAATTTTTATAAATTCTATTTT
1 TTTTTATAATTTTGATAAATTCTATTTT
58165236 TTT
1 TTT
58165239 CATTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTTATAATTTTGATAAATTCTATTTT
Found at i:58167546 original size:12 final size:12
Alignment explanation
Indices: 58167529--58167554 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58167519 AAACAAAATT
58167529 AAGCGATGTAGA
1 AAGCGATGTAGA
58167541 AAGCGATGTAGA
1 AAGCGATGTAGA
58167553 AA
1 AA
58167555 TTTGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.31, T:0.15
Consensus pattern (12 bp):
AAGCGATGTAGA
Found at i:58171020 original size:342 final size:342
Alignment explanation
Indices: 58170391--58171076 Score: 1007
Period size: 342 Copynumber: 2.0 Consensus size: 342
58170381 GCACTTTCAT
* * *
58170391 CACTATTTCTTGAGTTTAATGCATGTTGTGTTTGCCTTTTAGGCAGCATGTTTTTTGCATGAGAA
1 CACTATTTCTTGAGTTCAATACATGTTGTGTTTGCCTTTTAGGCAGCATGGTTTTTGCATGAGAA
* * ** *
58170456 GGTTCACTTATGCAGTTGAATTTTGAGACAATCATAGGAGCTGTTTTAGTTGCATCATGATTTTC
66 GGTTCACATATGCAGTTGAATTTTGAGACAATCACACCAGCTGTTTTAGTTGCATCATGACTTTC
* * * *
58170521 TGGACCATCACATACAGTCCTGTTCTTTTATCCACTAGCATTATCTCTTTTCACAACTATATTTT
131 TGGACCATCACATACAGTCCTATTCTTTCATCCACTAGCATTATCACTTTTCACAACAATATTTT
* *
58170586 CATTTTGTTGACTCACTTGGCATCGTACATTATTAAATCTGCTAAAATGATGTCCAAATGTCTGA
196 CATTTTGTTGACTCACTTGACATCGTACATTATTAAATCTGCTAAAATGATGTCCAAATGCCTGA
*
58170651 TCTGCATTATGTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTTCAAAGCATGCATCTCT
261 TCTGCATTATCTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTTCAAAGCATGCATCTCT
*
58170716 ATTTGAATCACCAAAAC
326 ATTAGAATCACCAAAAC
* * *
58170733 CACTATTTCTTGAGTTCAATACATGTTTTGTTTTCCTTTTAGGCAGTATGGTTTTTGCACT-AGA
1 CACTATTTCTTGAGTTCAATACATGTTGTGTTTGCCTTTTAGGCAGCATGGTTTTTGCA-TGAGA
* * *
58170797 AGGTTCACATCTTCGGTTGAATTTTGAGACAATCACACCAGCT-TTTTCAGTTGCATCATGACTT
65 AGGTTCACATATGCAGTTGAATTTTGAGACAATCACACCAGCTGTTTT-AGTTGCATCATGACTT
*** * *
58170861 TCTGGACCATCACATGTGGTCCTATTGTTTCCTCCACTAGCATTATCACTTTTCACAACAATATT
129 TCTGGACCATCACATACAGTCCTATTCTTTCATCCACTAGCATTATCACTTTTCACAACAATATT
* * * *
58170926 TTCATTTTGTTGACTCACTTGACATTGTATATTATTAAATCTGCTGAAATGATGTCCAACTGCCT
194 TTCATTTTGTTGACTCACTTGACATCGTACATTATTAAATCTGCTAAAATGATGTCCAAATGCCT
* ** * *
58170991 GATCTGCATTGTCTGAGTGGTAGTGTGTGCTTCTCCAGCCACCTTTTTCTTCAAAGCATGCATCT
259 GATCTGCATTATCTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTTCAAAGCATGCATCT
*
58171056 TTATTAGAATCACCAAAAC
324 CTATTAGAATCACCAAAAC
58171075 CA
1 CA
58171077 TTAGCTTCTA
Statistics
Matches: 305, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
341 4 0.01
342 300 0.98
343 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (342 bp):
CACTATTTCTTGAGTTCAATACATGTTGTGTTTGCCTTTTAGGCAGCATGGTTTTTGCATGAGAA
GGTTCACATATGCAGTTGAATTTTGAGACAATCACACCAGCTGTTTTAGTTGCATCATGACTTTC
TGGACCATCACATACAGTCCTATTCTTTCATCCACTAGCATTATCACTTTTCACAACAATATTTT
CATTTTGTTGACTCACTTGACATCGTACATTATTAAATCTGCTAAAATGATGTCCAAATGCCTGA
TCTGCATTATCTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTTCAAAGCATGCATCTCT
ATTAGAATCACCAAAAC
Found at i:58178522 original size:23 final size:22
Alignment explanation
Indices: 58178462--58178522 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
58178452 AGCTCACGTG
*
58178462 GATATACCACTAGTAGATATGTA
1 GATA-ACCACTAGTAGATATGCA
* * *
58178485 GATGACCTGCCAGTAGATATGCA
1 GATAACC-ACTAGTAGATATGCA
58178508 GATAAGCCACTAGTA
1 GATAA-CCACTAGTA
58178523 ACACTTCCTC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 3 0.10
23 24 0.83
24 2 0.07
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (22 bp):
GATAACCACTAGTAGATATGCA
Found at i:58185127 original size:17 final size:17
Alignment explanation
Indices: 58185105--58185141 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
58185095 TCGTGTGCTA
58185105 GGCCGTGTCCCTCACAC
1 GGCCGTGTCCCTCACAC
*
58185122 GGCCGTGTCCCTTACAC
1 GGCCGTGTCCCTCACAC
58185139 GGC
1 GGC
58185142 TGAGACACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.43, G:0.27, T:0.19
Consensus pattern (17 bp):
GGCCGTGTCCCTCACAC
Found at i:58186117 original size:46 final size:48
Alignment explanation
Indices: 58185983--58186250 Score: 209
Period size: 47 Copynumber: 5.7 Consensus size: 48
58185973 TAAGGTGCCA
* * * * *
58185983 ATGCCATGTCCCAGACACGGTCTTACACTAGCTCAT-ATCTC-ATGTCG
1 ATGCCATGTCCCAGACA-TGTCTTACACTGGCTTATCATCTCGAGGCCG
* *
58186030 ATGCCATGTCCCAGACATAGTCTTACATTGAC-TATCATCTCGTA-GCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTTATCATCTCG-AGGCCG
* *
58186078 ATG-CATGTCCCAGGCATGTCTTACACTGGCTTAT-GTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTTATCATCTCGAGGCCG
* * * * *
58186124 ATG-CATGTCCCAGACATGTCTTACACTAGC--ACTCGTGTCGATGCCA
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTTA-TCATCTCGAGGCCG
* * * **
58186170 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAAT-GTGGTTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTTATCAT-CTCGAGGCCG
* *
58186218 ATG-CATGTCCCAGACATTTCTTACACTAGCTTA
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTTA
58186251 CAATAACCCA
Statistics
Matches: 181, Mismatches: 27, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 73 0.40
47 77 0.43
48 26 0.14
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTTATCATCTCGAGGCCG
Found at i:58186240 original size:140 final size:140
Alignment explanation
Indices: 58185987--58186250 Score: 327
Period size: 140 Copynumber: 1.9 Consensus size: 140
58185977 GTGCCAATGC
* *
58185987 CATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAGACATAGTC
1 CATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGCCAATGCCATGTCCCAGACATAGTC
* * * *
58186052 TTACATTGACTATCATCTCGTAGCCGATGCATGTCCCAGGCATGTCTTACACTGGCTTATGTCTC
66 TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTC
58186117 GAGGCCGATG
131 GAGGCCGATG
* * * * *
58186127 CATGTCCCAGACA-TGTCTTACACTAGCACTCGTGTC-GATGCCAATGCCATGTCCCAGACATGG
1 CATGTCCCAGACACGGTCTTACACTAG--CTCATATCTCATGCCAATGCCATGTCCCAGACATAG
* * * ** *
58186190 TCTTACACTGGCTCTCATAAT-GTGGTTGATGCATGTCCCAGACATTTCTTACACTAGCTTA
64 TCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA
58186251 CAATAACCCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
139 12 0.12
140 85 0.82
141 7 0.07
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGCCAATGCCATGTCCCAGACATAGTC
TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTC
GAGGCCGATG
Found at i:58186944 original size:12 final size:12
Alignment explanation
Indices: 58186927--58186956 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
58186917 TCAAGAAGTT
58186927 ACATGGCCTAGC
1 ACATGGCCTAGC
*
58186939 ACATGGCCTGGC
1 ACATGGCCTAGC
58186951 ACATGG
1 ACATGG
58186957 GCGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:58190391 original size:43 final size:42
Alignment explanation
Indices: 58190305--58190425 Score: 172
Period size: 43 Copynumber: 2.9 Consensus size: 42
58190295 AGGGTTACTA
* *
58190305 AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATACG
1 AGATTACGTGTAAGACCATATCTAGGATATGGCATTGATACG
* *
58190347 AGACTT-CGTGTAAGACCATAGCTAGGCTATTGGCATTGATACG
1 AGA-TTACGTGTAAGACCATATCTAGGATA-TGGCATTGATACG
*
58190390 AGATTACATGTAAGACCATATCTAGGATATGGCATT
1 AGATTACGTGTAAGACCATATCTAGGATATGGCATT
58190426 AGTACTGTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTAGGATATGGCATTGATACG
Found at i:58196763 original size:25 final size:26
Alignment explanation
Indices: 58196714--58196770 Score: 98
Period size: 25 Copynumber: 2.2 Consensus size: 26
58196704 TATGTGGTAA
*
58196714 CTGTGTGAAATAATGGGAATTGTGGG
1 CTGTTTGAAATAATGGGAATTGTGGG
58196740 CTGTTTGAAATAAT-GGAATTGTGGG
1 CTGTTTGAAATAATGGGAATTGTGGG
58196765 CTGTTT
1 CTGTTT
58196771 CTAGTATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.25, C:0.05, G:0.33, T:0.37
Consensus pattern (26 bp):
CTGTTTGAAATAATGGGAATTGTGGG
Found at i:58197266 original size:48 final size:48
Alignment explanation
Indices: 58197211--58197630 Score: 326
Period size: 48 Copynumber: 8.8 Consensus size: 48
58197201 TGATATGTAT
** *
58197211 GCTAGTGTAAGACCATGTCTGGGACATGATGTCGGCCACGATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCATGATATGAGA
* * * * * * * * *
58197259 GCCAGTGTAAGACCATGTTTGGAATATGGCATCGACAATGTTTTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCATGATATGAGA
* * ** * *
58197307 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCATGATATGAGA
* * * ** * *
58197355 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCATGATATGAGA
* ** * *
58197403 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCATGATATGAGA
* * * * **
58197451 GCTAATGTAAGACCATGTCTGGGACATGGCGTCGGCCA-CACCGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCATGA-TATGAGA
* * * * * *
58197499 GCTAGTGTAAGATCATGTCTGGGACATGGCATTGG-TATTGAGAAGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCA-TGATATGAGA
* * * *
58197547 GCTAGTGTAAGACCATGTCTGGGACATGGA-ATCAGCC-TCAACATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GACATCGGCCAT-GATATGAGA
* * * *
58197595 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGC
58197631 AATTCACCCT
Statistics
Matches: 306, Mismatches: 59, Indels: 14
0.81 0.16 0.04
Matches are distributed among these distances:
47 4 0.01
48 300 0.98
49 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCATGATATGAGA
Found at i:58197384 original size:96 final size:96
Alignment explanation
Indices: 58197211--58197630 Score: 405
Period size: 96 Copynumber: 4.4 Consensus size: 96
58197201 TGATATGTAT
*** *** *
58197211 GCTAGTGTAAGACCATGTCTGGGACATGATGTCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGAGAGCTAGTGTAAGACCATG
* * * * *
58197276 TTTGGAATATGGCATCGACAATGTTTTGAGA
66 TCTGGGACATGGCATCGACAATGATATGAGA
* * *
58197307 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGAGAGCTAGTGTAAGACCATG
* ** * *
58197372 TCTGGGACATGGCATTGACGTTGATATGTGC
66 TCTGGGACATGGCATCGACAATGATATGAGA
* * *
58197403 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGAGAGCTAGTGTAAGACCATG
* * * * **
58197468 TCTGGGACATGGCGTCGGCCA-CACCGTGAGA
66 TCTGGGACATGGCATCGACAATGA-TATGAGA
* * ** * *
58197499 GCTAGTGTAAGATCATGTCTGGGACATGGCATTGGTATTGAGAAGAGAGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGAGAGCTAGTGTAAGACCATG
* * * * *
58197564 TCTGGGACATGGAATC-AGC-CTCAACATGTGA
66 TCTGGGACATGGCATCGA-CAAT-GATATGAGA
* * *
58197595 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
58197631 AATTCACCCT
Statistics
Matches: 266, Mismatches: 54, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
95 1 0.00
96 264 0.99
97 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGAGAGCTAGTGTAAGACCATG
TCTGGGACATGGCATCGACAATGATATGAGA
Found at i:58197417 original size:144 final size:143
Alignment explanation
Indices: 58197201--58197630 Score: 395
Period size: 144 Copynumber: 3.0 Consensus size: 143
58197191 GACATTTGGG
* *
58197201 TGATATGT-ATGCTAGTGTAAGACCATGTCTGGGACAT-G-ATGTCGGCCA-CGATATGAGAGCC
1 TGATATGTGA-GCTAGTGTAAGACCATGTCTGGGACATGGCAT-T-GG-CATTGATATGAGAGCT
* * * * *
58197262 AGTGTAAGACCATGTTTGGAATATGGCATCGACAATGTTTTGAGAGCCAGTGTAAGACCATGTCT
62 AGTGTAAGACCATGTCTGGAACATGGCATCGACAATGATATGAGAGCCAATGTAAGACCATGTCT
*
58197327 GGGACATGGCATCGGCGT
127 GGGACATGGCATCGGC-C
* * * * *
58197345 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGCGCTAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGAGAGCTAGTG
* * ** * * *
58197410 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAATGTAAGACCATGTCTGGGA
66 TAAGACCATGTCTGGAACATGGCATCGACAATGATATGAGAGCCAATGTAAGACCATGTCTGGGA
*
58197475 CATGGCGTCGGCC
131 CATGGCATCGGCC
** ** * * * * *
58197488 ACACCGTGAGAGCTAGTGTAAGATCATGTCTGGGACATGGCATTGGTATTGAGAAGAGAGCTAGT
1 TGA-TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGAGAGCTAGT
* * * * * * * *
58197553 GTAAGACCATGTCTGGGACATGGAATC-AGC-CTCAACATGTGAGCCAGTGTAAGACCATGTTTG
65 GTAAGACCATGTCTGGAACATGGCATCGA-CAAT-GATATGAGAGCCAATGTAAGACCATGTCTG
*
58197616 GAACATGGCATCGGC
128 GGACATGGCATCGGC
58197631 AATTCACCCT
Statistics
Matches: 233, Mismatches: 46, Indels: 14
0.80 0.16 0.05
Matches are distributed among these distances:
143 3 0.01
144 226 0.97
145 2 0.01
146 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (143 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGAGAGCTAGTG
TAAGACCATGTCTGGAACATGGCATCGACAATGATATGAGAGCCAATGTAAGACCATGTCTGGGA
CATGGCATCGGCC
Found at i:58200602 original size:42 final size:43
Alignment explanation
Indices: 58200481--58200603 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 43
58200471 GGTTACCCAG
* **
58200481 ATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATCTTTA
1 ATGTGATTACATGTAAGACCATATCTGGGACAT-GGCATCGATA
* *
58200525 AT-TGATTTCGTGTAAGACTC-TATCT-GGACAGTGGCATCGAT-
1 ATGTGATTACATGTAAGAC-CATATCTGGGACA-TGGCATCGATA
* *
58200566 ATGTGATAACATGTAAGACCATATCTGGGATATGGCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATGGCAT
58200604 TGTACAAGCT
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
41 3 0.05
42 36 0.55
43 23 0.35
44 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATGGCATCGATA
Found at i:58201397 original size:22 final size:22
Alignment explanation
Indices: 58201351--58201397 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
58201341 AGGTAAATTG
*
58201351 TGATAGTTTTGACATAATGATT
1 TGATAGTTTTGACATAATGAAT
58201373 TGATATGTTTTGA-AT-ATGGAAT
1 TGATA-GTTTTGACATAAT-GAAT
58201395 TGA
1 TGA
58201398 GTGTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 2 0.09
22 13 0.59
23 7 0.32
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (22 bp):
TGATAGTTTTGACATAATGAAT
Found at i:58205487 original size:60 final size:60
Alignment explanation
Indices: 58205394--58205513 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
58205384 GAAGCTCAGA
*
58205394 AAGTTGATAATGAATTGTTAACAGAACGAGCTCAATGTGATTCAAACTCTGATTCAGAGT
1 AAGTTGATAATGAATTGTTAACAAAACGAGCTCAATGTGATTCAAACTCTGATTCAGAGT
* * *
58205454 AAGTTGATCATGAATTGTTAACAAAATGAGCTCAATGTGATTCGAACTCTGATTCAGAGT
1 AAGTTGATAATGAATTGTTAACAAAACGAGCTCAATGTGATTCAAACTCTGATTCAGAGT
58205514 TTCAAGTTGA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (60 bp):
AAGTTGATAATGAATTGTTAACAAAACGAGCTCAATGTGATTCAAACTCTGATTCAGAGT
Found at i:58212475 original size:47 final size:47
Alignment explanation
Indices: 58212364--58212523 Score: 216
Period size: 47 Copynumber: 3.4 Consensus size: 47
58212354 ATTGATGGTT
*** *
58212364 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGCACTAAGAC
1 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG---TAAGAA
*
58212412 AAGGATACCATGTAAGACCATGTTTGGAACATGGTATTTGGTAAGAA
1 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAA
*
58212459 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAT
1 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAA
*
58212506 AAGGATATCATGTAAGAC
1 AAGGATACCATGTAAGAC
58212524 TATACCAAAG
Statistics
Matches: 102, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
47 67 0.66
48 24 0.24
49 7 0.07
50 4 0.04
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (47 bp):
AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAA
Found at i:58212592 original size:54 final size:53
Alignment explanation
Indices: 58212506--58212687 Score: 188
Period size: 55 Copynumber: 3.4 Consensus size: 53
58212496 TTGGTAAGAT
* * * *
58212506 AAGGATATCATGTAAGACTATACCAA-AGCATGGCATTGATAAGTTGTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGGCATTGATGAGTT-TATAAGGC
* * * *
58212560 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTAATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT--TATAAGGC
* * * *
58212615 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTATAAGGC
*
58212668 AAGGATACCACGTAAGACCA
1 AAGGATACCATGTAAGACCA
58212688 GACATGGAAA
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
52 4 0.04
53 20 0.19
54 37 0.35
55 42 0.39
56 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTATAAGGC
Found at i:58218672 original size:36 final size:36
Alignment explanation
Indices: 58218624--58218696 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
58218614 ATGATTGATA
* * *
58218624 TGAAAGTGAATATGAGGGTGTATTGTTCATGCCATG
1 TGAAAGTAAATATGAGGGTATATTATTCATGCCATG
* *
58218660 TGAAAGTAAATATGTGGGTATGTTATTCATGCCATG
1 TGAAAGTAAATATGAGGGTATATTATTCATGCCATG
58218696 T
1 T
58218697 AACAGTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.36
Consensus pattern (36 bp):
TGAAAGTAAATATGAGGGTATATTATTCATGCCATG
Found at i:58222232 original size:42 final size:43
Alignment explanation
Indices: 58222132--58222280 Score: 153
Period size: 42 Copynumber: 3.5 Consensus size: 43
58222122 AATTATCATG
* * * *
58222132 TAAGACCGTGTCTAGGACATAGGCATCGATTTGAAATTTACGTG
1 TAAGACCATGTCTGGGACATAGGCATCGATCTG-AATTTACGTA
58222176 TAAGACCATGTCTGGGACATCA-GCATCGTATCTG-ATTT-CGTA
1 TAAGACCATGTCTGGGACAT-AGGCATCG-ATCTGAATTTACGTA
* * * *
58222218 TAAGACCTTGTCTGGGACAGAGGCATCGATACTGAA-TTACATG
1 TAAGACCATGTCTGGGACATAGGCATCGAT-CTGAATTTACGTA
*
58222261 TAAGACCATGTCTAGGACAT
1 TAAGACCATGTCTGGGACAT
58222281 TGGTATTATA
Statistics
Matches: 88, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
41 3 0.03
42 32 0.36
43 24 0.27
44 24 0.27
45 5 0.06
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATAGGCATCGATCTGAATTTACGTA
Found at i:58230195 original size:16 final size:18
Alignment explanation
Indices: 58230174--58230210 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
58230164 GCTATTACAA
*
58230174 GAAAT-ATTAGCTAG-AT
1 GAAATAATTACCTAGAAT
58230190 GAAATAATTACCTAGAAT
1 GAAATAATTACCTAGAAT
58230208 GAA
1 GAA
58230211 CTATCATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 8 0.44
18 5 0.28
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (18 bp):
GAAATAATTACCTAGAAT
Found at i:58230933 original size:151 final size:151
Alignment explanation
Indices: 58230658--58230955 Score: 483
Period size: 151 Copynumber: 2.0 Consensus size: 151
58230648 CAAGTTAGTC
* * *
58230658 AAGGTACAAGTGGTGCGTACTGAAAGTCAAGTGGTTTTGAAAAATGAGGTATCAGGACCTTGTTT
1 AAGGTACAAGTGGTGCATACCGAAAGTCAAGTGGTTTTAAAAAATGAGGTATCAGGACCTTGTTT
* * *
58230723 TTGTAAATCGAGTCTGTGAATATTTTTATTAAATATTTATGAAGCTTTTATATAGGTGAATTGAA
66 TTGTAAATCGAGCCCGTGAATATTTTTATTAAATATTTATGAAGCTTTTATATAAGTGAATTGAA
58230788 GTTTGGTCCAAAAATTTGGGG
131 GTTTGGTCCAAAAATTTGGGG
58230809 AAGGTACAAGTGGTGCATACCGAAAGTCAAGTGGTTTTAAAAAATGAGGTATC-GAGACCTTGTT
1 AAGGTACAAGTGGTGCATACCGAAAGTCAAGTGGTTTTAAAAAATGAGGTATCAG-GACCTTGTT
* *
58230873 TTCT-TAAATCGAGCCCGTGAATATTTTTATTAAATATTTATGGAGTTTTTATATAAGTGAATTG
65 TT-TGTAAATCGAGCCCGTGAATATTTTTATTAAATATTTATGAAGCTTTTATATAAGTGAATTG
*
58230937 AAGTTTGGTCTAAAAATTT
129 AAGTTTGGTCCAAAAATTT
58230956 TAGTGATTGA
Statistics
Matches: 136, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
150 1 0.01
151 134 0.99
152 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (151 bp):
AAGGTACAAGTGGTGCATACCGAAAGTCAAGTGGTTTTAAAAAATGAGGTATCAGGACCTTGTTT
TTGTAAATCGAGCCCGTGAATATTTTTATTAAATATTTATGAAGCTTTTATATAAGTGAATTGAA
GTTTGGTCCAAAAATTTGGGG
Found at i:58242206 original size:39 final size:39
Alignment explanation
Indices: 58242157--58242314 Score: 289
Period size: 39 Copynumber: 4.1 Consensus size: 39
58242147 TTATGTTACT
*
58242157 AGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
58242196 AGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
58242235 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
58242274 AGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
58242313 AG
1 AG
58242315 TGTCTTGCTT
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:58244154 original size:28 final size:28
Alignment explanation
Indices: 58244115--58244214 Score: 128
Period size: 28 Copynumber: 3.6 Consensus size: 28
58244105 ATATTTGATG
* *
58244115 TCTCACACACTAAGTGTCATACTCAACA
1 TCTCGCACACTAAGTGTCATACTCAATA
* * * * *
58244143 ACTCGCCCACTAAGTGCCATTCTCAATG
1 TCTCGCACACTAAGTGTCATACTCAATA
*
58244171 TTTCGCACACTAAGTGTCATACTCAATA
1 TCTCGCACACTAAGTGTCATACTCAATA
58244199 TCTCGCACACTAAGTG
1 TCTCGCACACTAAGTG
58244215 CCGTACATAG
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (28 bp):
TCTCGCACACTAAGTGTCATACTCAATA
Found at i:58244291 original size:41 final size:41
Alignment explanation
Indices: 58244243--58244387 Score: 206
Period size: 41 Copynumber: 3.6 Consensus size: 41
58244233 ATCTCAAATC
* * *
58244243 GCACACTAAATGCCACATTTAACTGAAGCTATTTTTGAACA
1 GCACACTAAGTGCCACATTTAGCCGAAGCTATTTTTGAACA
* *
58244284 GCACACTAAGTACCACATTTAGCCGAAGCTATTTTTGAACC
1 GCACACTAAGTGCCACATTTAGCCGAAGCTATTTTTGAACA
*
58244325 GCACACTAAGTGCCACATTTAGCCGAAGCTATTTTCGAAC-
1 GCACACTAAGTGCCACATTTAGCCGAAGCTATTTTTGAACA
*
58244365 -CGCA-TAAGTGCCACATTTAGCCG
1 GCACACTAAGTGCCACATTTAGCCG
58244388 GTATGTTGTC
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 19 0.20
39 3 0.03
41 74 0.77
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (41 bp):
GCACACTAAGTGCCACATTTAGCCGAAGCTATTTTTGAACA
Found at i:58245805 original size:19 final size:20
Alignment explanation
Indices: 58245754--58245820 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
58245744 ATGGAGGCAT
58245754 GCCCGTGTGCATCGGGACAC
1 GCCCGTGTGCATCGGGACAC
58245774 GCCCGTGTGCATCGGGACAC
1 GCCCGTGTGCATCGGGACAC
*
58245794 GCCCGT-TGCATCAGGACAC
1 GCCCGTGTGCATCGGGACAC
58245813 GCCCGTGT
1 GCCCGTGT
58245821 CCCTTATCCA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 18 0.40
20 27 0.60
ACGTcount: A:0.15, C:0.36, G:0.33, T:0.16
Consensus pattern (20 bp):
GCCCGTGTGCATCGGGACAC
Found at i:58246165 original size:25 final size:25
Alignment explanation
Indices: 58246131--58246179 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
58246121 CAGTGGACAC
58246131 ATGGCCGTACAACACGCTCATGGGA
1 ATGGCCGTACAACACGCTCATGGGA
58246156 ATGGCCGTACAACACGCTCATGGG
1 ATGGCCGTACAACACGCTCATGGG
58246180 GCTGACCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.16
Consensus pattern (25 bp):
ATGGCCGTACAACACGCTCATGGGA
Found at i:58246188 original size:25 final size:25
Alignment explanation
Indices: 58246135--58246188 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
58246125 GGACACATGG
*
58246135 CCGTACAACACGCTCATGGGAATGG
1 CCGTACAACACGCTCATGGGAATGA
**
58246160 CCGTACAACACGCTCATGGGGCTGA
1 CCGTACAACACGCTCATGGGAATGA
58246185 CCGT
1 CCGT
58246189 GTGTCACACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.17
Consensus pattern (25 bp):
CCGTACAACACGCTCATGGGAATGA
Found at i:58249991 original size:44 final size:42
Alignment explanation
Indices: 58249923--58250020 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 42
58249913 ATATGTGTTA
58249923 TCGTGTAAGACCACATCTGGGACATTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCACATCTGGGACATTGGCATCGTA-TT-TGATT
* ** *
58249966 TACGTGTAAGATCATGTCTGTGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACATCTGGGACATTGGCATCGTATTTGATT
58250009 TCGTGTAAGACC
1 TCGTGTAAGACC
58250021 CTGTCTAGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
42 10 0.21
43 7 0.15
44 30 0.62
45 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (42 bp):
TCGTGTAAGACCACATCTGGGACATTGGCATCGTATTTGATT
Found at i:58250038 original size:42 final size:44
Alignment explanation
Indices: 58249924--58250039 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 44
58249914 TATGTGTTAT
** * *
58249924 CGTGTAAGACCACATCTGGGACATTGGCATCGACTTATGATTTA
1 CGTGTAAGACCATGTCTGTGACAGTGGCATCGACTTATGATTTA
* *
58249968 CGTGTAAGATCATGTCTGTGACATTGGCATCGTA-TT-TGATTT-
1 CGTGTAAGACCATGTCTGTGACAGTGGCATCG-ACTTATGATTTA
* *
58250010 CGTGTAAGACCCTGTCTAG-GATAGTGGCAT
1 CGTGTAAGACCATGTCT-GTGACAGTGGCAT
58250040 TGATGTTTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
42 24 0.39
43 7 0.11
44 30 0.48
45 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGTGACAGTGGCATCGACTTATGATTTA
Found at i:58250554 original size:13 final size:13
Alignment explanation
Indices: 58250536--58250560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58250526 GTAAGTGATT
58250536 TTGATGATTTTTC
1 TTGATGATTTTTC
58250549 TTGATGATTTTT
1 TTGATGATTTTT
58250561 GCACTTTTAA
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:58251404 original size:46 final size:45
Alignment explanation
Indices: 58251260--58251472 Score: 187
Period size: 46 Copynumber: 4.5 Consensus size: 45
58251250 ATTGTGTGCT
*
58251260 AGTGTAAGACATGTCTAGGACATGCATCGGCCAT-ATTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCC-TGA-AATGAGAGCC
* * * * * *
58251306 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CTGAAATGAGAGCC
*
58251354 AGTGTAAGACATGTCTAGGATATGCATCGGCCTCGAAATGTA-AGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCT-GAAATG-AGAGCC
* * * * *
58251400 AGTGTAAGACATGTATGGGACATGCATCGGCACAGATATGTGAGAGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGGC-CTGA-A-ATGAGAGCC
*
58251448 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTAGGACATG
58251473 GCATTGGCAT
Statistics
Matches: 136, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 53 0.39
47 29 0.21
48 38 0.28
49 15 0.11
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTGAAATGAGAGCC
Found at i:58251457 original size:94 final size:94
Alignment explanation
Indices: 58251257--58251435 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 94
58251247 TTAATTGTGT
* *
58251257 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATATAATGAGAGCCAGTGTAAGACCATGTA
**
58251322 TGGGACATGGCATCGGCATTGAGACGAGG
66 TGGGACATGGCATCGGCACAGAGACGAGG
*
58251351 GCTAGTGTAAGACATGTCTAGGATATGCATCGGCC-TCGA-AATGTA-AGCCAGTGTAAGA-CAT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAT--ATAATG-AGAGCCAGTGTAAGACCAT
58251412 GTATGGGACAT-GCATCGGCACAGA
63 GTATGGGACATGGCATCGGCACAGA
58251436 TATGTGAGAG
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
92 11 0.14
93 14 0.18
94 50 0.65
95 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATATAATGAGAGCCAGTGTAAGACCATGTA
TGGGACATGGCATCGGCACAGAGACGAGG
Found at i:58257617 original size:23 final size:23
Alignment explanation
Indices: 58257590--58257638 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
58257580 TCATTCAATA
* *
58257590 TTACTTTTACTCACTTATTTCTT
1 TTACTTTTACTCACTCAATTCTT
*
58257613 TTACTTTTACTCTCTCAATTCTT
1 TTACTTTTACTCACTCAATTCTT
58257636 TTA
1 TTA
58257639 ATTCATAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.59
Consensus pattern (23 bp):
TTACTTTTACTCACTCAATTCTT
Found at i:58262892 original size:23 final size:22
Alignment explanation
Indices: 58262841--58262892 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
58262831 CCTCGTCTTT
*
58262841 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
58262863 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
58262886 TTCTTTT
1 TTCTTTT
58262893 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:58262901 original size:12 final size:12
Alignment explanation
Indices: 58262850--58262904 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
58262840 TTTCTTTTGT
58262850 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
58262863 -TCATTTTC-TC
1 TTCTTTTTCAAC
58262873 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
58262886 TTCTTTTTCAAT
1 TTCTTTTTCAAC
58262898 TTCTTTT
1 TTCTTTT
58262905 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:58262911 original size:17 final size:18
Alignment explanation
Indices: 58262886--58262923 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
58262876 TTTCTTCAAC
* *
58262886 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
58262903 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
58262921 TTC
1 TTC
58262924 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:58272222 original size:20 final size:20
Alignment explanation
Indices: 58272193--58272232 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
58272183 AAGTAAACTT
*
58272193 CTCCCTTTTTAGATAGAATG
1 CTCCCCTTTTAGATAGAATG
58272213 CTCCCCTTTTAGATAGAATG
1 CTCCCCTTTTAGATAGAATG
58272233 GGTATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
CTCCCCTTTTAGATAGAATG
Found at i:58281743 original size:42 final size:43
Alignment explanation
Indices: 58281645--58281802 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
58281635 AGCTCGTACA
* * * *
58281645 ATGCCAACGTCCTAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
58281688 ATGCCATTGTCCCAGACAAGGTTTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
58281730 ATGCCAATGTCCCAGACATGGTCTTACACGCAAATCACAA-GTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
* *
58281774 ATGCCAATGTCCTAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
58281803 AATATCACAC
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 29 0.30
43 38 0.39
44 30 0.31
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:58284092 original size:85 final size:85
Alignment explanation
Indices: 58283970--58284365 Score: 419
Period size: 85 Copynumber: 4.7 Consensus size: 85
58283960 TTTGTTTCCA
* * *
58283970 AATTAAAAGTGAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTCCATTT
1 AATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCATTT
58284035 TTATTTTATTTCCAAACGAG
66 TTATTTTATTTCCAAACGAG
* * * * *
58284055 AATTAAAGTTAAATAAAATCTGTTTCGGGATTTATTCCCACCATTCAACAAACTTTATTCCATTT
1 AATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCATTT
* *
58284120 TTATTTGATTTCCAAATGAG
66 TTATTTTATTTCCAAACGAG
** * * *
58284140 ------AATTAAATAAAATCTATTTCGGGATTTATTCTTATCGTTCAACATATTTTATTCTATTT
1 AATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCA-TT
* * *
58284199 TTTAGTTTGTTGCCAAAACGAG
65 TTTATTTTATTTCC-AAACGAG
** * * * * *
58284221 AAATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGTCATTTAATAAGATTTTATT-TAA
1 -AATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAA-CAGATTTTATTCCAT
* * **
58284285 TTTTATTTTGTTTTCAAATTAG
64 TTTTATTTTATTTCCAAACGAG
* * *
58284307 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAACAGATTCTATT
1 AATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACAGATTTTATT
58284366 TTGATTTAAT
Statistics
Matches: 258, Mismatches: 43, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
79 47 0.18
80 12 0.05
81 6 0.02
84 9 0.03
85 119 0.46
86 5 0.02
87 12 0.05
88 39 0.15
89 9 0.03
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.43
Consensus pattern (85 bp):
AATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCATTT
TTATTTTATTTCCAAACGAG
Found at i:58289091 original size:6 final size:6
Alignment explanation
Indices: 58289080--58289145 Score: 51
Period size: 6 Copynumber: 11.0 Consensus size: 6
58289070 GTCTTAGTAG
* * *** * *
58289080 CAAATA CAAATA TAGATA CAAATA TTTATG CAAATA CAAATA CTAATA
1 CAAATA CAAATA CAAATA CAAATA CAAATA CAAATA CAAATA CAAATA
* *
58289128 CAAACA CGAATA CAAATA
1 CAAATA CAAATA CAAATA
58289146 TAGATCCTAC
Statistics
Matches: 42, Mismatches: 18, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.58, C:0.15, G:0.05, T:0.23
Consensus pattern (6 bp):
CAAATA
Found at i:58295455 original size:96 final size:96
Alignment explanation
Indices: 58295283--58295482 Score: 294
Period size: 96 Copynumber: 2.1 Consensus size: 96
58295273 GAGGGCCAAA
* * * ** * *
58295283 CAAAAAGA-GGAATACGATTGAGCTATCACCTTTTGTGCACTGTTATTGGTGTAGTTGAAAATAT
1 CAAATAGAGGGAATACGATTGAGATATAACCTTTTGTGCAAAGTTATTGGTGTAGTTCAAAAGAT
*
58295347 CACAAGGCTTTCCAATGTCCAATTAAATATT
66 CACAAGGCTTTCCAATGTCCAATTAAATATC
58295378 CAAATAGAGGGAATACGATTGAGATATAACCTTTTGTGCAAAGTTATTGGTGTAGTTCAAAAGAT
1 CAAATAGAGGGAATACGATTGAGATATAACCTTTTGTGCAAAGTTATTGGTGTAGTTCAAAAGAT
* *
58295443 CATAAGGGTTTCCAATGTCCAATTAAATATC
66 CACAAGGCTTTCCAATGTCCAATTAAATATC
*
58295474 CAACTAGAG
1 CAAATAGAG
58295483 AAGAAAGTAA
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 7 0.08
96 86 0.92
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (96 bp):
CAAATAGAGGGAATACGATTGAGATATAACCTTTTGTGCAAAGTTATTGGTGTAGTTCAAAAGAT
CACAAGGCTTTCCAATGTCCAATTAAATATC
Found at i:58298213 original size:49 final size:49
Alignment explanation
Indices: 58298149--58298323 Score: 217
Period size: 49 Copynumber: 3.5 Consensus size: 49
58298139 TTGGTACGCA
* *
58298149 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCTTGCACTTAGTACTACACATGAGACCAATTATCCGGTACACG
* * * * * *
58298198 TAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCA
1 TAGTAGCTTGCACTTAGTACTACACATGAGA-CCAA-TTATCCGGTACACG
* *
58298249 TAATAGGC-TGCACTTAGTACTACACATGAGACCAATTATCCTGTACACG
1 TAGTA-GCTTGCACTTAGTACTACACATGAGACCAATTATCCGGTACACG
*
58298298 TAGTAGCTTGCACTTAATACTACACA
1 TAGTAGCTTGCACTTAGTACTACACA
58298324 CGTGACCTCA
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.02
49 59 0.56
50 6 0.06
51 36 0.34
52 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCTTGCACTTAGTACTACACATGAGACCAATTATCCGGTACACG
Found at i:58298319 original size:100 final size:100
Alignment explanation
Indices: 58298141--58298328 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
58298131 AAGGCTATTT
* *
58298141 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCT
1 GGTACGCATAATAGCCTGCACTTAGTACTACACATGAGACCAATTATCCGGTACACGTAGTAGCT
*
58298206 TGCACTTAGTACTACACACGTGATCAAAGTTATCG
66 TGCACTTAATACTACACACGTGATCAAAGTTATCG
* *
58298241 GGTACGCATAATAGGCTGCACTTAGTACTACACATGAGACCAATTATCCTGTACACGTAGTAGCT
1 GGTACGCATAATAGCCTGCACTTAGTACTACACATGAGACCAATTATCCGGTACACGTAGTAGCT
58298306 TGCACTTAATACTACACACGTGA
66 TGCACTTAATACTACACACGTGA
58298329 CCTCACAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACGCATAATAGCCTGCACTTAGTACTACACATGAGACCAATTATCCGGTACACGTAGTAGCT
TGCACTTAATACTACACACGTGATCAAAGTTATCG
Found at i:58298501 original size:27 final size:27
Alignment explanation
Indices: 58298471--58298524 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
58298461 TCATACAACC
* *
58298471 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
58298498 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
58298525 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:58301406 original size:36 final size:36
Alignment explanation
Indices: 58301299--58301417 Score: 97
Period size: 36 Copynumber: 3.4 Consensus size: 36
58301289 TTTTGTGCCT
*
58301299 AGCACTAGTCGAACAAATCGACAAATTATT-ATGTCC
1 AGCACTAGTCGAACAAATCGACAAATTATTGA-GCCC
* * * * *
58301335 AGCGCTAGTC-ATATAACT-GAC-GA-TAGTTGTGCCC
1 AGCACTAGTCGA-ACAAATCGACAAATTA-TTGAGCCC
*
58301369 AGCACTAGTCGAACAAGTCGACAAATTATTGAGCCC
1 AGCACTAGTCGAACAAATCGACAAATTATTGAGCCC
58301405 AG-AGCTAGTCGAA
1 AGCA-CTAGTCGAA
58301418 TAACCTATGA
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
33 2 0.03
34 19 0.30
35 9 0.14
36 32 0.50
37 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (36 bp):
AGCACTAGTCGAACAAATCGACAAATTATTGAGCCC
Found at i:58301412 original size:70 final size:69
Alignment explanation
Indices: 58301291--58301506 Score: 285
Period size: 70 Copynumber: 3.1 Consensus size: 69
58301281 AAGATCATTT
* * *
58301291 TTGTGCCTAGCACTAGTCGAACAAATCGACAAATTATTATGTCCAGCGCTAGTCATATAACTGAC
1 TTGTGCCCAGCACTAGTCGAACAAGTCGACAAATTATTATGCCCAGCGCTAGTCA-ATAACTGAC
58301356 GATAG
65 GATAG
*
58301361 TTGTGCCCAGCACTAGTCGAACAAGTCGACAAATTATTGA-GCCCAGAGCTAGTCGAATAACCT-
1 TTGTGCCCAGCACTAGTCGAACAAGTCGACAAATTATT-ATGCCCAGCGCTAGTC-AATAA-CTG
*
58301424 ATGATAG
63 ACGATAG
* * *
58301431 TTGTGCCC-GACACTAGTTGAACAAGTCAACAAATTATTATGCCCAGCGCTAGTCGGATAACTGA
1 TTGTGCCCAG-CACTAGTCGAACAAGTCGACAAATTATTATGCCCAGCGCTAGTC-AATAACTGA
58301495 CGATAG
64 CGATAG
58301501 TTGTGC
1 TTGTGC
58301507 TCACCAAGAA
Statistics
Matches: 130, Mismatches: 10, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
69 4 0.03
70 122 0.94
71 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (69 bp):
TTGTGCCCAGCACTAGTCGAACAAGTCGACAAATTATTATGCCCAGCGCTAGTCAATAACTGACG
ATAG
Done.