Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 231 of 253
Found at i:75349649 original size:14 final size:14
Alignment explanation
Indices: 75349632--75349670 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
75349622 TGTACAGTAG
75349632 ATTTTGAAAAAATA
1 ATTTTGAAAAAATA
* *
75349646 ATTTTGAAAAGATG
1 ATTTTGAAAAAATA
*
75349660 GTTTTGAAAAA
1 ATTTTGAAAAA
75349671 TATCTCGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (14 bp):
ATTTTGAAAAAATA
Found at i:75349741 original size:153 final size:153
Alignment explanation
Indices: 75349463--75349754 Score: 390
Period size: 153 Copynumber: 1.9 Consensus size: 153
75349453 TAGCTGGACT
* *
75349463 TTTTTTTGTACAATTGACTCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATATCCCAAG
1 TTTTTTTGTACAATAGACTCTGAAAAAATAATTTTGAAAAGATGGTTCTGAAAAAATATCCCAAG
* * * *
75349528 ATTTACAGGAAATTTGATAGTTGGGATGAAAAACGCTTCAAGAAAGATGCATTGTTAGCAAA-AG
66 ATTTACAGGAAATTTGATAGTTGGGATGAAAAACGCTTCAAGAAAGATACACTATCAGCAAATA-
75349592 TACTGAAAAAGCTCCCAGTTTGAC
130 TACTGAAAAAGCTCCCAGTTTGAC
* * * * * **
75349616 TTTTTTTGTACAGTAGATTTTGAAAAAATAATTTTGAAAAGATGGTTTTG-AAAAATATCTCGGG
1 TTTTTTTGTACAATAGACTCTGAAAAAATAATTTTGAAAAGATGGTTCTGAAAAAATATCCCAAG
* * * * *
75349680 ATTTACGGGAAATTTGATAGTTGGGTTTGAAAAATGCTTCAAGCAGGATACACTATCAGCAAATA
66 ATTTACAGGAAATTTGATAGTTGGG-ATGAAAAACGCTTCAAGAAAGATACACTATCAGCAAATA
75349745 TACTGAAAAA
130 TACTGAAAAA
75349755 AAGCTCTAAG
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
152 35 0.29
153 83 0.70
154 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (153 bp):
TTTTTTTGTACAATAGACTCTGAAAAAATAATTTTGAAAAGATGGTTCTGAAAAAATATCCCAAG
ATTTACAGGAAATTTGATAGTTGGGATGAAAAACGCTTCAAGAAAGATACACTATCAGCAAATAT
ACTGAAAAAGCTCCCAGTTTGAC
Found at i:75359787 original size:11 final size:11
Alignment explanation
Indices: 75359773--75359810 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
75359763 ATGAGATATT
75359773 TTATTAATTTA
1 TTATTAATTTA
75359784 TTATT-ATTTCA
1 TTATTAATTT-A
*
75359795 TTATTATTTTA
1 TTATTAATTTA
75359806 TTATT
1 TTATT
75359811 TATTATTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 4 0.17
11 17 0.71
12 3 0.12
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTAATTTA
Found at i:75361754 original size:46 final size:46
Alignment explanation
Indices: 75361687--75361960 Score: 336
Period size: 46 Copynumber: 6.0 Consensus size: 46
75361677 GTTTTCTGAA
** *
75361687 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
75361733 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGTAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * ** *
75361779 GA-GAAATGAATAAGACAATGGTTGAAAGATACCATGACAATGTGAT
1 -ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
75361825 ATGAAATGAATAAGACCATGGTCGAAAGATACCATGGAAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
75361871 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
75361917 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
75361961 TCGAAGATAA
Statistics
Matches: 198, Mismatches: 27, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
45 2 0.01
46 195 0.98
47 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:75361941 original size:138 final size:138
Alignment explanation
Indices: 75361687--75361945 Score: 385
Period size: 138 Copynumber: 1.9 Consensus size: 138
75361677 GTTTTCTGAA
** * * * * **
75361687 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTCGAAAGATACCATGGAAACATGACAGGAAATGAATAAGACCAT
* *
75361752 GGTTGAAAAATACCATGGTAACATGACGAGAAATGAATAAGACAATGGTTGAAAGATACCATGAC
66 GGTTGAAAAATACCATGGCAACATGACGAGAAATGAATAAGACAATAGTTGAAAGATACCATGAC
75361817 AATGTGAT
131 AATGTGAT
75361825 ATGAAATGAATAAGACCATGGTCGAAAGATACCATGGAAACATGACAGGAAATGAATAAGACCAT
1 ATGAAATGAATAAGACCATGGTCGAAAGATACCATGGAAACATGACAGGAAATGAATAAGACCAT
* * *
75361890 GGTTGAAAGATACCATGGCAACATGAC-AGAAAATGAGTAAGACCATAGTTGAAAGA
66 GGTTGAAAAATACCATGGCAACATGACGAG-AAATGAATAAGACAATAGTTGAAAGA
75361946 CACTATGGCA
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
137 2 0.02
138 105 0.98
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.20
Consensus pattern (138 bp):
ATGAAATGAATAAGACCATGGTCGAAAGATACCATGGAAACATGACAGGAAATGAATAAGACCAT
GGTTGAAAAATACCATGGCAACATGACGAGAAATGAATAAGACAATAGTTGAAAGATACCATGAC
AATGTGAT
Found at i:75362074 original size:26 final size:25
Alignment explanation
Indices: 75362043--75362112 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
75362033 ACCAGATGAT
*
75362043 GAATGGTTATATGAATTGGTTATACAA
1 GAATGGTTATATGAAAT-GTT-TACAA
* *
75362070 -AATGGTTGTGTGAAATGTTTACAA
1 GAATGGTTATATGAAATGTTTACAA
75362094 GAATTGGTTATATGGAAAT
1 GAA-TGGTTATAT-GAAAT
75362113 ATATGTACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.14
25 5 0.14
26 20 0.57
27 5 0.14
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (25 bp):
GAATGGTTATATGAAATGTTTACAA
Found at i:75372846 original size:15 final size:14
Alignment explanation
Indices: 75372826--75372856 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
75372816 TAGAAAATAT
75372826 TATGAATAATAAGAA
1 TATGAATAATAA-AA
75372841 TATGAATAATAAAA
1 TATGAATAATAAAA
75372855 TA
1 TA
75372857 CAAAACATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (14 bp):
TATGAATAATAAAA
Found at i:75375778 original size:14 final size:17
Alignment explanation
Indices: 75375752--75375795 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 17
75375742 TGACACATCT
75375752 TAAGTA-TTAAATTTT-
1 TAAGTACTTAAATTTTA
75375767 TAA-TAC-TAAATTTTA
1 TAAGTACTTAAATTTTA
75375782 TAAGTACTTAAATT
1 TAAGTACTTAAATT
75375796 ATATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.40
15 6 0.24
16 3 0.12
17 6 0.24
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (17 bp):
TAAGTACTTAAATTTTA
Found at i:75379175 original size:22 final size:22
Alignment explanation
Indices: 75379133--75379177 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
75379123 TAAGTTTAGG
*
75379133 GTATAAAAATAGTTCCGAATAT
1 GTATAAAAATAGTTCCCAATAT
*
75379155 GTATACAAATA-TTCTCCAATAT
1 GTATAAAAATAGTTC-CCAATAT
75379177 G
1 G
75379178 GTATTGAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (22 bp):
GTATAAAAATAGTTCCCAATAT
Found at i:75384843 original size:43 final size:43
Alignment explanation
Indices: 75384785--75384882 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
75384775 AAGATCAAGA
* * ** *
75384785 CTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAAGTCATGG
1 CTTTTAACGGCGTTTGTGAGAAAAGCAACACTAAAAGTCATGG
*
75384828 CTTTTAACGGTGTTTGTGAGAAAAGCAACACTAAAAGTCATGG
1 CTTTTAACGGCGTTTGTGAGAAAAGCAACACTAAAAGTCATGG
*
75384871 CTTTTAGCGGCG
1 CTTTTAACGGCG
75384883 CATTTTTTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
CTTTTAACGGCGTTTGTGAGAAAAGCAACACTAAAAGTCATGG
Found at i:75385752 original size:13 final size:14
Alignment explanation
Indices: 75385726--75385754 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
75385716 ACTAATGATG
75385726 AATTAAACCATTAT
1 AATTAAACCATTAT
75385740 AATTAAA-CATTAT
1 AATTAAACCATTAT
75385753 AA
1 AA
75385755 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:75390881 original size:9 final size:9
Alignment explanation
Indices: 75390867--75390948 Score: 76
Period size: 9 Copynumber: 9.1 Consensus size: 9
75390857 TATGTATTAC
*
75390867 GTAAGTTAA
1 GTAAGTTAT
*
75390876 GTAAGTTTT
1 GTAAGTTAT
75390885 GTAAGTTAT
1 GTAAGTTAT
75390894 GTAAGTTAT
1 GTAAGTTAT
* *
75390903 GTTA-TGAT
1 GTAAGTTAT
* *
75390911 ATACATTTAT
1 GTA-AGTTAT
*
75390921 GTAAGGTAT
1 GTAAGTTAT
75390930 GTAAGTTAT
1 GTAAGTTAT
*
75390939 GTAACTTAT
1 GTAAGTTAT
75390948 G
1 G
75390949 ATATGATATA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
8 4 0.07
9 49 0.84
10 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:75390967 original size:12 final size:12
Alignment explanation
Indices: 75390950--75390974 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75390940 TAACTTATGA
75390950 TATGATATATAT
1 TATGATATATAT
75390962 TATGATATATAT
1 TATGATATATAT
75390974 T
1 T
75390975 TATGTATTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATGATATATAT
Found at i:75391414 original size:3 final size:3
Alignment explanation
Indices: 75391401--75391434 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
75391391 ATACTCGAAT
75391401 CAA CAAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA C-AA CAA CAA CAA CAA CAA CAA CAA CAA CAA
75391435 TAATAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:75391439 original size:3 final size:3
Alignment explanation
Indices: 75391433--75391462 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
75391423 CAACAACAAC
75391433 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
75391463 TATTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:75393989 original size:16 final size:16
Alignment explanation
Indices: 75393968--75394000 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
75393958 TTGAGTGCTG
75393968 AGCATTAACAACAGAA
1 AGCATTAACAACAGAA
*
75393984 AGCATTAACAATAGAA
1 AGCATTAACAACAGAA
75394000 A
1 A
75394001 TCTGCGTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (16 bp):
AGCATTAACAACAGAA
Found at i:75394530 original size:83 final size:84
Alignment explanation
Indices: 75394365--75394571 Score: 213
Period size: 83 Copynumber: 2.5 Consensus size: 84
75394355 ATAATTCAGT
* * * * * *
75394365 TTTTTTGCGGTGTTTCTAAGATAGCGCCACTAATTCCTAC-ACCGCGCCACATAAAACGATGTAG
1 TTTTTAGCGGCGTTTATAAGATAGCGCCACTAAATCC-ACTACCGCGCCAAATAAAACGACGTAG
* ****
75394429 TTTTCATTCGGTTTCTCATA
65 TTTCCATAAAATTTCTCATA
*
75394449 TTTTTAGCGGCGTTTATAAGATAGCGCCACTAAATCCACTACC-CGCGAAATAAAACGACG-ACG
1 TTTTTAGCGGCGTTTATAAGATAGCGCCACTAAATCCACTACCGCGCCAAATAAAACGACGTA-G
75394512 TTTCCATAAAATTTCTCATA
65 TTTCCATAAAATTTCTCATA
* * * ** *
75394532 CTTTTAGTGGCGTTTATGACCTAGCGCCACTAACTCCACT
1 TTTTTAGCGGCGTTTATAAGATAGCGCCACTAAATCCACT
75394572 GGCCTTCCAA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
82 1 0.01
83 66 0.64
84 36 0.35
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (84 bp):
TTTTTAGCGGCGTTTATAAGATAGCGCCACTAAATCCACTACCGCGCCAAATAAAACGACGTAGT
TTCCATAAAATTTCTCATA
Found at i:75394856 original size:14 final size:14
Alignment explanation
Indices: 75394837--75394962 Score: 95
Period size: 14 Copynumber: 9.1 Consensus size: 14
75394827 CTCAATACCT
*
75394837 TAAACCCTATAAAC
1 TAAACCCTATAACC
75394851 TAAACCCTA-AACC
1 TAAACCCTATAACC
* * *
75394864 CAATACCCAATACCC
1 TAA-ACCCTATAACC
75394879 TAAACCCTATAGA-C
1 TAAACCCTATA-ACC
75394893 TAAACCCTA-AACCC
1 TAAACCCTATAA-CC
*
75394907 TAAACCCAAT-ACC
1 TAAACCCTATAACC
75394920 ATAAACCCTATAGA-C
1 -TAAACCCTATA-ACC
75394935 TAAACCCTA-AACC
1 TAAACCCTATAACC
*
75394948 CAATACCCTA-AACC
1 TAA-ACCCTATAACC
75394962 T
1 T
75394963 TATAAACTAA
Statistics
Matches: 90, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
12 2 0.02
13 12 0.13
14 69 0.77
15 6 0.07
16 1 0.01
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.17
Consensus pattern (14 bp):
TAAACCCTATAACC
Found at i:75394870 original size:35 final size:35
Alignment explanation
Indices: 75394821--75394973 Score: 126
Period size: 35 Copynumber: 3.9 Consensus size: 35
75394811 AACCAATAGA
75394821 CTAAACCTCAATACCTTAAACCCTATAAACTAAACC
1 CTAAACC-CAATACCTTAAACCCTATAAACTAAACC
*
75394857 CTAAACCCAATACCCAATACCCTAAACCCTATAGACTAAACCCTAAACC
1 CTAAACCCAATA-CC--T----TAAACCCTAT--A--AAC---TAAACC
* *
75394906 CTAAACCCAATACCATAAACCCTATAGACTAAACC
1 CTAAACCCAATACCTTAAACCCTATAAACTAAACC
* *
75394941 CTAAACCCAATACCCTAAACCTTATAAACTAAA
1 CTAAACCCAATACCTTAAACCCTATAAACTAAA
75394974 TTTCAAACCT
Statistics
Matches: 96, Mismatches: 7, Indels: 29
0.73 0.05 0.22
Matches are distributed among these distances:
35 41 0.43
36 9 0.09
38 2 0.02
40 1 0.01
42 20 0.21
44 1 0.01
46 2 0.02
48 2 0.02
49 18 0.19
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.19
Consensus pattern (35 bp):
CTAAACCCAATACCTTAAACCCTATAAACTAAACC
Found at i:75394876 original size:42 final size:42
Alignment explanation
Indices: 75394829--75394964 Score: 213
Period size: 42 Copynumber: 3.2 Consensus size: 42
75394819 GACTAAACCT
*
75394829 CAATACCTTAAACCCTATAAACTAAACCCTAAACCCAATACC
1 CAATACCTTAAACCCTATAGACTAAACCCTAAACCCAATACC
*
75394871 CAATACCCTAAACCCTATAGACTAAACCCTAAACCCTAA-ACC
1 CAATACCTTAAACCCTATAGACTAAACCCTAAACCC-AATACC
*
75394913 CAATACCATAAACCCTATAGACTAAACCCTAAACCCAATACC
1 CAATACCTTAAACCCTATAGACTAAACCCTAAACCCAATACC
75394955 CTAA-ACCTTA
1 C-AATACCTTA
75394965 TAAACTAAAT
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
41 2 0.02
42 81 0.93
43 4 0.05
ACGTcount: A:0.44, C:0.36, G:0.01, T:0.18
Consensus pattern (42 bp):
CAATACCTTAAACCCTATAGACTAAACCCTAAACCCAATACC
Found at i:75394982 original size:35 final size:35
Alignment explanation
Indices: 75394908--75395016 Score: 123
Period size: 35 Copynumber: 3.1 Consensus size: 35
75394898 CCTAAACCCT
* * * **
75394908 AAACCCAATACCATAAACCCTATAGACTAAA-CCC
1 AAACCCAATACCCTAAACCTTATAAACTAAATTTC
75394942 TAAACCCAATACCCTAAACCTTATAAACTAAATTTC
1 -AAACCCAATACCCTAAACCTTATAAACTAAATTTC
* * *
75394978 AAACCTAATACCCTAAACCTTA-AACCTAAATTTT
1 AAACCCAATACCCTAAACCTTATAAACTAAATTTC
75395012 AAACC
1 AAACC
75395017 TTAACCCCTA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
34 15 0.23
35 49 0.75
36 1 0.02
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (35 bp):
AAACCCAATACCCTAAACCTTATAAACTAAATTTC
Found at i:75395475 original size:22 final size:22
Alignment explanation
Indices: 75395447--75395500 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
75395437 AAAATTTATT
*
75395447 TTTAAGATTTTAGGGTTTAT-G
1 TTTAAGAGTTTAGGGTTTATAG
75395468 ATTTAAGAGTTTAGGGTTTATAG
1 -TTTAAGAGTTTAGGGTTTATAG
75395491 TTTAAG-GTTT
1 TTTAAGAGTTT
75395501 GAGATTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.13
22 25 0.83
23 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (22 bp):
TTTAAGAGTTTAGGGTTTATAG
Found at i:75395494 original size:14 final size:14
Alignment explanation
Indices: 75395475--75395522 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
75395465 ATGATTTAAG
*
75395475 AGTTTAGGGTTTAT
1 AGTTTAAGGTTTAT
*
75395489 AGTTTAAGGTTT-G
1 AGTTTAAGGTTTAT
*
75395502 AGATTTAAGGTCTAT
1 AG-TTTAAGGTTTAT
75395517 AGTTTA
1 AGTTTA
75395523 TGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (14 bp):
AGTTTAAGGTTTAT
Found at i:75399323 original size:22 final size:22
Alignment explanation
Indices: 75399281--75399325 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
75399271 TAAGTTTAGG
*
75399281 GTATAAAAATAGTTCCGAATAT
1 GTATAAAAATAGTTCCCAATAT
*
75399303 GTATACAAATA-TTCTCCAATAT
1 GTATAAAAATAGTTC-CCAATAT
75399325 G
1 G
75399326 GTATTGAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (22 bp):
GTATAAAAATAGTTCCCAATAT
Found at i:75406951 original size:39 final size:39
Alignment explanation
Indices: 75406902--75407002 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
75406892 GCTCTGGTGA
75406902 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
75406941 GCTTCTGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
75406980 ACTTCAGTTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
75407003 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:75407004 original size:18 final size:18
Alignment explanation
Indices: 75406902--75407004 Score: 62
Period size: 18 Copynumber: 5.4 Consensus size: 18
75406892 GCTCTGGTGA
*
75406902 GCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGACTTCGG
* * *
75406920 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAG-ACTT-CGG
* *
75406941 GCTTCTGTTAGCCTTCGG
1 GCTTCAGTTAGACTTCGG
* * *
75406959 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAG-ACTT-CGG
*
75406980 ACTTCAGTTAGACTTCGG
1 GCTTCAGTTAGACTTCGG
75406998 GCTTCAG
1 GCTTCAG
75407005 ATCACGATGT
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
18 20 0.32
19 15 0.24
20 14 0.23
21 13 0.21
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (18 bp):
GCTTCAGTTAGACTTCGG
Found at i:75408341 original size:54 final size:54
Alignment explanation
Indices: 75408274--75408429 Score: 149
Period size: 54 Copynumber: 2.9 Consensus size: 54
75408264 CCATGGCAAC
* * * *
75408274 ATGTGA-TATGTGATTTTCATATAAGACCATAGCTGGGCTATGGTATCA-ATG-T
1 ATGTGATTATGTGATTTCCATATAAGACCATAACTAGGCTATGGCATCAGA-GAT
* *
75408326 GATGTGATTATGTGATTTCCTTATAAGACCATAATTAGGCTATGGCATCAGAGAT
1 -ATGTGATTATGTGATTTCCATATAAGACCATAACTAGGCTATGGCATCAGAGAT
* * * * * * *
75408381 ATGTGATTATGTG-CTTCCGTATAAAATCATATCTGGGATATGGCATCAG
1 ATGTGATTATGTGATTTCCATATAAGACCATAACTAGGCTATGGCATCAG
75408430 TGTGATATGT
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
53 34 0.40
54 50 0.58
55 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (54 bp):
ATGTGATTATGTGATTTCCATATAAGACCATAACTAGGCTATGGCATCAGAGAT
Found at i:75416956 original size:206 final size:206
Alignment explanation
Indices: 75416587--75417308 Score: 1115
Period size: 206 Copynumber: 3.5 Consensus size: 206
75416577 GCAGATCTGG
*
75416587 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGAAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* * *
75416652 GATTTGG-TTTC-CGTGTGCTTACACAGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTT
65 GATTTGGCTTTCAC--GTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTC
* *
75416715 AGAGAACAAATAAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCATATCCAACC
128 AGAGAACAAATAGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACC
75416780 TTCAGATGTTTATA
193 TTCAGATGTTTATA
* * * *
75416794 CTGAAGCAGATCCAAGATAGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCAAAGACATATCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
75416859 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
75416924 GAACAAATTGAAGTTTGGCGTCTCCGTATTCGATGGAGGGCAGACACATAGCAGATCCAACCTTC
131 GAACAAATAGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
*
75416989 AGATGTCTATA
196 AGATGTTTATA
* * *
75417000 CTAAAGCAGATCCAAGATGGTTTGGTATCCTTGCGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
75417065 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * *
75417130 GAACAAATCGAAGTTTGGCGTTTCCATATTCAACGGAGAGCAGACACATAGCAGATCTAACTTTC
131 GAACAAATAGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
* *
75417195 AGATGATTAGA
196 AGATGTTTATA
* * * *
75417206 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGGTCACAAGGAGCAAATCGAAGACATAGCAG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
75417271 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAG
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAG
75417309 CATCTCTGTA
Statistics
Matches: 473, Mismatches: 40, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
206 461 0.97
207 11 0.02
208 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATAGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
AGATGTTTATA
Found at i:75418978 original size:26 final size:25
Alignment explanation
Indices: 75418921--75418982 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
75418911 TATATATATA
*
75418921 ATTTATTTATT-TTTTAAAAAAACT
1 ATTTATATATTATTTTAAAAAAACT
** *
75418945 ATACATATATTATTATTAAAAATACT
1 ATTTATATATTATT-TTAAAAAAACT
75418971 ATTTATAT-TTAT
1 ATTTATATATTAT
75418983 ATAAATTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 8 0.27
25 6 0.20
26 16 0.53
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTATATATTATTTTAAAAAAACT
Found at i:75419032 original size:5 final size:5
Alignment explanation
Indices: 75419017--75419070 Score: 51
Period size: 5 Copynumber: 11.4 Consensus size: 5
75419007 TATTTTCCTA
* * * *
75419017 TATAT TGTAT TATAT TTTAT TATAT AACAT T-TAT TATAT TATA- TATA-
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
75419064 TATAT TA
1 TATAT TA
75419071 CTTATCTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
4 11 0.28
5 28 0.72
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:75419127 original size:22 final size:23
Alignment explanation
Indices: 75419102--75419144 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
75419092 ATATCATATA
75419102 TTAT-CTATTACATTAT-TTATGT
1 TTATACTATT-CATTATATTATGT
75419124 TTATACTATTCATTATATTAT
1 TTATACTATTCATTATATTAT
75419145 TTATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATACTATTCATTATATTATGT
Found at i:75419239 original size:38 final size:39
Alignment explanation
Indices: 75419196--75419281 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 39
75419186 TTTTTAACTC
75419196 ATATTATATACATATTTCATTATTAACT-AT-TTATTTAT
1 ATATTATATACATATTTCATTATTAACTGATATT-TTTAT
* * ** *
75419234 GTATTATGT-GTTATTTCATTTTTAACTGATATTTTTAT
1 ATATTATATACATATTTCATTATTAACTGATATTTTTAT
75419272 ATATTATATA
1 ATATTATATA
75419282 ATTCTTTTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
37 15 0.39
38 21 0.55
39 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.57
Consensus pattern (39 bp):
ATATTATATACATATTTCATTATTAACTGATATTTTTAT
Found at i:75421470 original size:53 final size:53
Alignment explanation
Indices: 75421389--75421526 Score: 222
Period size: 53 Copynumber: 2.6 Consensus size: 53
75421379 CCAATCAATA
* *
75421389 TCCTTCTTATTACATTTGCTATCCTTGATTAACTTATTCATTTCGAGTTAATT
1 TCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTAACT
*
75421442 TCCTTCTTATTACATTTTCTATCTTTGATTAACTTATTCATTTCGAGTTAACT
1 TCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTAACT
* * *
75421495 TCTTTCTTATTGCATTTGCTATATTTGATTAA
1 TCCTTCTTATTACATTTGCTATCTTTGATTAA
75421527 TTCATTTTGA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 78 1.00
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.53
Consensus pattern (53 bp):
TCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTAACT
Found at i:75422564 original size:89 final size:89
Alignment explanation
Indices: 75422418--75422611 Score: 212
Period size: 89 Copynumber: 2.2 Consensus size: 89
75422408 TTAGTGGAGT
* * * * **
75422418 AGATTGAAGACACAAACTTTATGTCCCTGAAATTGCAGCAGAGCTAATTGAAGATAGCGGATCTT
1 AGATTGAAGCCACAAACCTTATCTCCCTGAAATTGCAGCAGAGCTAACTGAAGATAGCAAATCTT
** * *
75422483 ATTTCCCTGACGTTGCAGTGGAAC
66 ATTTCCCAAAAGTTGCAGCGGAAC
* * * *
75422507 AGATTGAAGCCACCAACCTTATCTCCTTGAAGTTGCAGC-GCAGC-AGACTGAATATAGCAAATC
1 AGATTGAAGCCACAAACCTTATCTCCCTGAAATTGCAGCAG-AGCTA-ACTGAAGATAGCAAATC
*
75422570 TTATTTCCCAAAAGTTGCAGCGGAAT
64 TTATTTCCCAAAAGTTGCAGCGGAAC
*
75422596 AGATTGAAGCTACAAA
1 AGATTGAAGCCACAAA
75422612 TTATGGCGGA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
88 2 0.02
89 84 0.98
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (89 bp):
AGATTGAAGCCACAAACCTTATCTCCCTGAAATTGCAGCAGAGCTAACTGAAGATAGCAAATCTT
ATTTCCCAAAAGTTGCAGCGGAAC
Found at i:75422705 original size:99 final size:99
Alignment explanation
Indices: 75422524--75422713 Score: 247
Period size: 99 Copynumber: 1.9 Consensus size: 99
75422514 AGCCACCAAC
* * * * *
75422524 CTTATCTCCTTGAAGTTGCAGCGCAGCAGACTGAATATAGCAAATCTTATTTCCCAAAAGTTGCA
1 CTTACCTCCTTGAAGTTGCAGCGCAGCAAACTGAAGACAACAAATCTTATTTCCCAAAAGTTGCA
* *
75422589 GCGGAATAGATTGAAGCTACAAATTATGGCGGAT
66 GCGGAACAGATTAAAGCTACAAATTATGGCGGAT
* * ** * *
75422623 CTTACCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGATGTTG-T
1 CTTACCTCCTTGAAGTTGCAGCGCAGCAAACTGAAGACAACAAATCTTATTTCCCAAAAGTTGCA
75422687 GCTGGAACAGATTAAAGCTACAAATTA
66 GC-GGAACAGATTAAAGCTACAAATTA
75422714 CGATGAATCT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
98 2 0.03
99 75 0.97
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (99 bp):
CTTACCTCCTTGAAGTTGCAGCGCAGCAAACTGAAGACAACAAATCTTATTTCCCAAAAGTTGCA
GCGGAACAGATTAAAGCTACAAATTATGGCGGAT
Found at i:75422724 original size:99 final size:99
Alignment explanation
Indices: 75422524--75422747 Score: 245
Period size: 99 Copynumber: 2.3 Consensus size: 99
75422514 AGCCACCAAC
* * * * * *
75422524 CTTATCTCCTTGAAGTTGCAGCGCAGCAGACTGAATATAGCAAATCTTATTTCCCAAAAGTTGCA
1 CTTACCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGACAACAAATCTTATTTCCCAAAAGTTGCA
* * * * *
75422589 GCGGAATAGATTGAAGCTACAAATTATGGCGGAT
66 GCGGAACAGATTAAAGCTACAAATTACGACGAAT
* ** * *
75422623 CTTACCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGATGTTG-T
1 CTTACCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGACAACAAATCTTATTTCCCAAAAGTTGCA
*
75422687 GCTGGAACAGATTAAAGCTACAAATTACGATGAAT
66 GC-GGAACAGATTAAAGCTACAAATTACGACGAAT
* *
75422722 CTTATCTTCC-TGAAGTTGCAGTGGAG
1 CTTA-CCTCCTTGAAGTTGCAGCGGAG
75422748 TAGATTGACG
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
98 2 0.02
99 98 0.94
100 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (99 bp):
CTTACCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGACAACAAATCTTATTTCCCAAAAGTTGCA
GCGGAACAGATTAAAGCTACAAATTACGACGAAT
Found at i:75423979 original size:25 final size:27
Alignment explanation
Indices: 75423942--75423994 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
75423932 TCAAACATGC
75423942 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
75423968 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
75423994 A
1 A
75423995 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:75425510 original size:26 final size:26
Alignment explanation
Indices: 75425474--75425583 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
75425464 CATGAAATTC
75425474 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
75425500 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * * *
75425526 TTATCGTGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
75425552 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
75425578 TTATCA
1 TTATCA
75425584 ATTTTTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:75427085 original size:24 final size:22
Alignment explanation
Indices: 75427058--75427111 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
75427048 TAAAGAGTAA
75427058 AAATAATAATAAAATAAATCAAAC
1 AAATAATAA-AAAATAAA-CAAAC
*
75427082 AAATAACATAAAAAATAAACAAAT
1 AAAT-A-ATAAAAAATAAACAAAC
75427106 AAATAA
1 AAATAA
75427112 ATAAGACAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 1 0.04
23 1 0.04
24 12 0.44
25 9 0.33
26 4 0.15
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (22 bp):
AAATAATAAAAAATAAACAAAC
Found at i:75427087 original size:13 final size:12
Alignment explanation
Indices: 75427069--75427126 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 12
75427059 AATAATAATA
75427069 AAATAAATCAAAC
1 AAATAAAT-AAAC
75427082 AAATAACATAAA-
1 AAATAA-ATAAAC
* *
75427094 AAATAAACAAAT
1 AAATAAATAAAC
75427106 AAATAAATAAGAC
1 AAATAAATAA-AC
*
75427119 AAGTAAAT
1 AAATAAAT
75427127 GATTCTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
11 4 0.11
12 15 0.39
13 17 0.45
14 2 0.05
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.17
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:75427103 original size:20 final size:20
Alignment explanation
Indices: 75427073--75427112 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
75427063 ATAATAAAAT
75427073 AAATCAAACAAATAACATAAA
1 AAATCAAACAAATAA-ATAAA
75427094 AAAT-AAACAAATAAATAAA
1 AAATCAAACAAATAAATAAA
75427113 TAAGACAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.15
Consensus pattern (20 bp):
AAATCAAACAAATAAATAAA
Found at i:75427111 original size:4 final size:4
Alignment explanation
Indices: 75427069--75427115 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
75427059 AATAATAATA
* *
75427069 AAAT AAAT CAAAC AAAT AACAT AAA- AAAT AAAC AAAT AAAT AAAT AA
1 AAAT AAAT -AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AA
75427116 GACAAGTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 3 0.08
4 26 0.72
5 7 0.19
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:75427125 original size:17 final size:16
Alignment explanation
Indices: 75427069--75427126 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
75427059 AATAATAATA
* *
75427069 AAATAAATCAAACAAAT
1 AAATAAAT-AAATAAAC
75427086 AACATAAA-AAATAAAC
1 AA-ATAAATAAATAAAC
75427102 AAATAAATAAATAAGAC
1 AAATAAATAAATAA-AC
*
75427119 AAGTAAAT
1 AAATAAAT
75427127 GATTCTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
15 5 0.14
16 14 0.40
17 11 0.31
18 5 0.14
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.17
Consensus pattern (16 bp):
AAATAAATAAATAAAC
Found at i:75427517 original size:21 final size:21
Alignment explanation
Indices: 75427493--75427534 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
75427483 TTAAAGGGGC
75427493 AAATTAAAAAATATAAAAAAT
1 AAATTAAAAAATATAAAAAAT
* * *
75427514 AAATTTAAAATTTTAAAAAAT
1 AAATTAAAAAATATAAAAAAT
75427535 TCAGAAGGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATTAAAAAATATAAAAAAT
Found at i:75435201 original size:26 final size:26
Alignment explanation
Indices: 75435171--75435278 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
75435161 TGAAATGCCC
75435171 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75435197 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
75435223 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
75435249 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75435275 ATCA
1 ATCA
75435279 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:75440742 original size:22 final size:21
Alignment explanation
Indices: 75440706--75440746 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
75440696 CCAATCCCAT
75440706 GCATCAGAAAATAACAACATG
1 GCATCAGAAAATAACAACATG
*
75440727 GCATGCAGTAAATAACAACA
1 GCAT-CAGAAAATAACAACA
75440747 GTCAAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (21 bp):
GCATCAGAAAATAACAACATG
Found at i:75442328 original size:26 final size:26
Alignment explanation
Indices: 75442298--75442405 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
75442288 TGAAATGCCC
75442298 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75442324 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
75442350 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
75442376 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75442402 ATCA
1 ATCA
75442406 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:75445512 original size:43 final size:42
Alignment explanation
Indices: 75445452--75445573 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
75445442 GAGGTGTGAT
* *
75445452 TTCATGTGAGACCATGTCTGGGACATTGGCATCGATATAAGA
1 TTCATGTAAGACTATGTCTGGGACATTGGCATCGATATAAGA
* *
75445494 TTACATGTAAGACTATGTCTGGGACATTAGCATC-ATATACGA
1 TT-CATGTAAGACTATGTCTGGGACATTGGCATCGATATAAGA
* * * *
75445536 TTCGTATAAGACCT-TGTCTAGGACAGTGGCATCGATAT
1 TTCATGTAAGA-CTATGTCTGGGACATTGGCATCGATAT
75445574 GTGAAAATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 23 0.34
42 17 0.25
43 28 0.41
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TTCATGTAAGACTATGTCTGGGACATTGGCATCGATATAAGA
Found at i:75448244 original size:15 final size:16
Alignment explanation
Indices: 75448214--75448246 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
75448204 ATAATTATAT
*
75448214 TTTATTTCTGTGTTTA
1 TTTATTTATGTGTTTA
75448230 TTTATTTAT-TGTTTA
1 TTTATTTATGTGTTTA
75448245 TT
1 TT
75448247 ATTAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (16 bp):
TTTATTTATGTGTTTA
Found at i:75448337 original size:26 final size:26
Alignment explanation
Indices: 75448277--75448329 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
75448267 TTATTACCAC
* *
75448277 TATCATTACTATTATCTTTTATTTTT
1 TATCACTATTATTATCTTTTATTTTT
75448303 TATCACTATTATTAT-TTTTATGTTTT
1 TATCACTATTATTATCTTTTAT-TTTT
75448329 T
1 T
75448330 TTATCTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (26 bp):
TATCACTATTATTATCTTTTATTTTT
Found at i:75448859 original size:26 final size:26
Alignment explanation
Indices: 75448827--75448881 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
75448817 TTATTCCTAA
*
75448827 TATATATACGT-CTTTTAATATCATAT
1 TATATATACATACTTTT-ATATCATAT
*
75448853 TATATATATATACTTTTATATCATAT
1 TATATATACATACTTTTATATCATAT
75448879 TAT
1 TAT
75448882 TGTTATACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (26 bp):
TATATATACATACTTTTATATCATAT
Found at i:75461595 original size:42 final size:42
Alignment explanation
Indices: 75461543--75461670 Score: 186
Period size: 41 Copynumber: 3.1 Consensus size: 42
75461533 GAGCAGCTAA
* * *
75461543 AAGCCACAGCAGATCTCCTTGGAGTTTCAATGGAATTGATCG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
* *
75461585 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGG-ATTAAGCG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
* *
75461626 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATCGATTG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
75461668 AAG
1 AAG
75461671 TCACGTGTCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
41 39 0.51
42 37 0.49
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (42 bp):
AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
Found at i:75463088 original size:15 final size:16
Alignment explanation
Indices: 75463058--75463090 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
75463048 ATAATTATAT
*
75463058 TTTATTTCTGTGTTTA
1 TTTATTTATGTGTTTA
75463074 TTTATTTAT-TGTTTA
1 TTTATTTATGTGTTTA
75463089 TT
1 TT
75463091 ATTAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (16 bp):
TTTATTTATGTGTTTA
Found at i:75463181 original size:26 final size:26
Alignment explanation
Indices: 75463121--75463173 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
75463111 TTATTACCAC
* *
75463121 TATCATTACTATTATCTTTTATTTTT
1 TATCACTATTATTATCTTTTATTTTT
75463147 TATCACTATTATTAT-TTTTATGTTTT
1 TATCACTATTATTATCTTTTAT-TTTT
75463173 T
1 T
75463174 TTATCTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (26 bp):
TATCACTATTATTATCTTTTATTTTT
Found at i:75474402 original size:20 final size:20
Alignment explanation
Indices: 75474377--75474426 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
75474367 ACTAAAGTGA
*
75474377 GTGTGGAGGACTACTCCGGT
1 GTGTGGAGGACTACTCCGAT
*
75474397 GTGTGGAGGACTGCTCCGAT
1 GTGTGGAGGACTACTCCGAT
75474417 GTGTGGAGGA
1 GTGTGGAGGA
75474427 GACCAAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.16, C:0.16, G:0.44, T:0.24
Consensus pattern (20 bp):
GTGTGGAGGACTACTCCGAT
Found at i:75475714 original size:17 final size:17
Alignment explanation
Indices: 75475692--75475726 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
75475682 TTAGAAAAGG
75475692 AATAAATAA-AAATAACA
1 AATAAA-AAGAAATAACA
75475709 AATAAAAAGAAATAACA
1 AATAAAAAGAAATAACA
75475726 A
1 A
75475727 TAATAAGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (17 bp):
AATAAAAAGAAATAACA
Found at i:75475912 original size:13 final size:13
Alignment explanation
Indices: 75475881--75475914 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
75475871 GGTTGTGAGG
75475881 GAGGGGGAAAAGA
1 GAGGGGGAAAAGA
*
75475894 -AAGGGGAAAAGA
1 GAGGGGGAAAAGA
75475906 GAGGGGGAA
1 GAGGGGGAA
75475915 GGGTCGTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (13 bp):
GAGGGGGAAAAGA
Found at i:75480131 original size:21 final size:21
Alignment explanation
Indices: 75480101--75480148 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
75480091 CTCTAGGTTG
* *
75480101 ATTAATTAAAATCTTTTTCTA
1 ATTAAATAAAATCTCTTTCTA
75480122 ATTAAATAAAATCTCTTTCTA
1 ATTAAATAAAATCTCTTTCTA
75480143 ATTAAA
1 ATTAAA
75480149 ACCTATATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTAAATAAAATCTCTTTCTA
Found at i:75481637 original size:24 final size:24
Alignment explanation
Indices: 75481610--75481656 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
75481600 TAAAAAACTA
75481610 AACCCAAAAAACCTAAAAACAAAG
1 AACCCAAAAAACCTAAAAACAAAG
** * *
75481634 AACCCTCAAAACGTAAACACAAA
1 AACCCAAAAAACCTAAAAACAAA
75481657 ATTCTCTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.62, C:0.28, G:0.04, T:0.06
Consensus pattern (24 bp):
AACCCAAAAAACCTAAAAACAAAG
Found at i:75481762 original size:24 final size:24
Alignment explanation
Indices: 75481734--75481785 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
75481724 TTAGTAGGTC
* *
75481734 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
75481758 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
75481782 AAAT
1 AAAT
75481786 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:75496784 original size:13 final size:13
Alignment explanation
Indices: 75496766--75496790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75496756 CCCCGCCCAA
75496766 AAAAAAAAATAAT
1 AAAAAAAAATAAT
75496779 AAAAAAAAATAA
1 AAAAAAAAATAA
75496791 ACCTGCCCGC
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATAAT
Found at i:75498922 original size:20 final size:21
Alignment explanation
Indices: 75498897--75498938 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
75498887 ATCGATATTT
*
75498897 AACCA-TCAAATTACTTTAAA
1 AACCATTCAAATCACTTTAAA
*
75498917 AACCATTTAAATCACTTTAAA
1 AACCATTCAAATCACTTTAAA
75498938 A
1 A
75498939 CAATTTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (21 bp):
AACCATTCAAATCACTTTAAA
Found at i:75498939 original size:20 final size:21
Alignment explanation
Indices: 75498904--75498945 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
75498894 TTTAACCATC
* *
75498904 AAATTACTTTAAAAACCATTT
1 AAATCACTTTAAAAACAATTT
75498925 AAATCACTTT-AAAACAATTT
1 AAATCACTTTAAAAACAATTT
75498945 A
1 A
75498946 GAATTGACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATCACTTTAAAAACAATTT
Found at i:75501732 original size:77 final size:77
Alignment explanation
Indices: 75501598--75501752 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 77
75501588 AGGTAAATTC
*
75501598 TCTCCTCCATGTTAAACTTTTTCTAGTCCATAGTATTACACTCTTTTCTTTCACCTGCTCTGTAC
1 TCTCCTCCATGTTAAACTTTTTCTAGTCCATAGTATTACACTCTTTTCTATCACCTGCTCTGTAC
75501663 TATGCGATGCGG
66 TATGCGATGCGG
*
75501675 TCTCCTCCATGTTAAACTTTTTCTAGTCCATAGTATTACACTCTTTTCTATCGCCTGCTCTGTAC
1 TCTCCTCCATGTTAAACTTTTTCTAGTCCATAGTATTACACTCTTTTCTATCACCTGCTCTGTAC
75501740 TATGCGATGCGG
66 TATGCGATGCGG
75501752 T
1 T
75501753 TCAATATATA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (77 bp):
TCTCCTCCATGTTAAACTTTTTCTAGTCCATAGTATTACACTCTTTTCTATCACCTGCTCTGTAC
TATGCGATGCGG
Found at i:75502999 original size:18 final size:17
Alignment explanation
Indices: 75502959--75502999 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 17
75502949 GAAAAGACTT
75502959 AAAAAGAAGAGAAAAAA
1 AAAAAGAAGAGAAAAAA
75502976 ACAAAAGAAGAGAAAAAGA
1 A-AAAAGAAGAGAAAAA-A
75502995 AAAAA
1 AAAAA
75503000 CTTGACAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 19 0.86
19 2 0.09
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGAGAAAAAA
Found at i:75503288 original size:92 final size:92
Alignment explanation
Indices: 75503107--75503273 Score: 207
Period size: 92 Copynumber: 1.8 Consensus size: 92
75503097 ACAATTTCGA
* * *
75503107 CCATTTAAACCTTCTTTAATTTCCCCTTTCATTGCGGAGTCAATTTTCAATCTCTTCTTTATTGG
1 CCATTTAAACCTTCTTTAATTTCCCCTTTCATTGCAGAGTCAATATTCAATCTCTTCTTGATTGG
** *
75503172 AATTTGGAACCTGTTGCATAATTTTGG
66 AATTTGGAAAATGGTGCATAATTTTGG
* *
75503199 CCATTTAAACCCTT-TTTAATTTCCCCTTTTATTG-AG-GTCAATATTCAATCTTTTCCTTGATT
1 CCATTTAAA-CCTTCTTTAATTTCCCCTTTCATTGCAGAGTCAATATTCAATCTCTT-CTTGATT
*
75503261 GG-ATTTTGAAAAT
64 GGAATTTGGAAAAT
75503274 AGGTCATTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
90 24 0.37
91 9 0.14
92 28 0.43
93 4 0.06
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (92 bp):
CCATTTAAACCTTCTTTAATTTCCCCTTTCATTGCAGAGTCAATATTCAATCTCTTCTTGATTGG
AATTTGGAAAATGGTGCATAATTTTGG
Found at i:75505286 original size:22 final size:22
Alignment explanation
Indices: 75505239--75505286 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
75505229 TTTCCTGTTG
*
75505239 TTATTTTGCTGCCATATTACTG
1 TTATTTTGCTGCCATATTACTA
* * *
75505261 TTATTTTGCTGTCATTTTGCTA
1 TTATTTTGCTGCCATATTACTA
75505283 TTAT
1 TTAT
75505287 ATTACTACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (22 bp):
TTATTTTGCTGCCATATTACTA
Found at i:75508706 original size:22 final size:23
Alignment explanation
Indices: 75508665--75508708 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
75508655 TTAATAAATG
*
75508665 ATAAAATTATATTTTAAATTTTT
1 ATAAAATTATATATTAAATTTTT
75508688 ATAAAATTATA-ATTAAATTTT
1 ATAAAATTATATATTAAATTTT
75508709 GGCCTCGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAAAATTATATATTAAATTTTT
Found at i:75522248 original size:12 final size:12
Alignment explanation
Indices: 75522233--75522274 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
75522223 TTAATAATAC
75522233 TACATAAATATA
1 TACATAAATATA
*
75522245 TACACAAATATA
1 TACATAAATATA
*
75522257 TTA-AAAAATATA
1 -TACATAAATATA
75522269 TACATA
1 TACATA
75522275 TATCATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (12 bp):
TACATAAATATA
Found at i:75522295 original size:27 final size:24
Alignment explanation
Indices: 75522238--75522302 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 24
75522228 AATACTACAT
*
75522238 AAATATATACACAAATATATTAAA
1 AAATATATACATAAATATATTAAA
*
75522262 AAATATATACATATATCATATTAAA
1 AAATATATACATAAAT-ATATTAAA
75522287 AAGAGTATATACATAA
1 AA-A-TATATACATAA
75522303 TAAATATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.40
25 10 0.29
26 1 0.03
27 10 0.29
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (24 bp):
AAATATATACATAAATATATTAAA
Found at i:75522309 original size:27 final size:25
Alignment explanation
Indices: 75522238--75522314 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 25
75522228 AATACTACAT
* *
75522238 AAATATATACACAA-ATATATTAAA
1 AAATATATACATAATAAATATTAAA
*
75522262 AAATATATACAT-ATATCATATTAAA
1 AAATATATACATAATA-AATATTAAA
75522287 AAGAGTATATACATAATAAATA-TAAA
1 AA-A-TATATACATAATAAATATTAAA
75522313 AA
1 AA
75522315 CATAATGTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
23 1 0.02
24 12 0.27
25 10 0.22
26 7 0.16
27 12 0.27
28 3 0.07
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (25 bp):
AAATATATACATAATAAATATTAAA
Found at i:75523112 original size:19 final size:21
Alignment explanation
Indices: 75523080--75523134 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
75523070 TAACATTAAT
* *
75523080 AATA-TTAGAATAATAATGAC
1 AATATTTATAATAATAATAAC
75523100 AATATTTAATAATAATAATAAC
1 AATATTT-ATAATAATAATAAC
75523122 AATATTTAATAAT
1 AATATTT-ATAAT
75523135 GGAACAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 4 0.13
21 2 0.06
22 25 0.81
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (21 bp):
AATATTTATAATAATAATAAC
Found at i:75523116 original size:22 final size:22
Alignment explanation
Indices: 75523088--75523134 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
75523078 ATAATATTAG
*
75523088 AATAATAATGACAATATTTAAT
1 AATAATAATAACAATATTTAAT
75523110 AATAATAATAACAATATTTAAT
1 AATAATAATAACAATATTTAAT
75523132 AAT
1 AAT
75523135 GGAACAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
AATAATAATAACAATATTTAAT
Found at i:75524051 original size:19 final size:20
Alignment explanation
Indices: 75524014--75524052 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
75524004 TGCAGGTAGC
*
75524014 GGTTGAACGGTGGGAATGGG
1 GGTTGAACGGAGGGAATGGG
*
75524034 GGTTG-ACGGAGGGGATGGG
1 GGTTGAACGGAGGGAATGGG
75524053 ACAGAAGCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.18, C:0.05, G:0.59, T:0.18
Consensus pattern (20 bp):
GGTTGAACGGAGGGAATGGG
Found at i:75530446 original size:17 final size:18
Alignment explanation
Indices: 75530420--75530462 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
75530410 GGTCCCAAAA
*
75530420 TTAT-TATTTTATATTTT
1 TTATATATTTTAAATTTT
75530437 TTA-ATATTTTAAATTTT
1 TTATATATTTTAAATTTT
75530454 TTATATATT
1 TTATATATT
75530463 CTTGAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATATATTTTAAATTTT
Found at i:75530521 original size:20 final size:20
Alignment explanation
Indices: 75530479--75530519 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
75530469 AATATTTTGG
75530479 AATTTTTAATATATATTTAA
1 AATTTTTAATATATATTTAA
*
75530499 AATTTTT-ATATATTTTTAA
1 AATTTTTAATATATATTTAA
75530518 AA
1 AA
75530520 ATATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTTTAATATATATTTAA
Found at i:75535770 original size:40 final size:38
Alignment explanation
Indices: 75535684--75535771 Score: 88
Period size: 40 Copynumber: 2.2 Consensus size: 38
75535674 TTTAAAATAG
* **
75535684 AAATGAAAAATAATTAAATAATTAAATTAAAATATAATT
1 AAAT-AAAAATAATTAAATAATAAAAAGAAAATATAATT
* *
75535723 TATTAAAAATATATTACAATAATAAAAAGAAAAT-TAAATT
1 AAATAAAAATA-ATTA-AATAATAAAAAGAAAATAT-AATT
75535763 AAATAAAAA
1 AAATAAAAA
75535772 CAGTTTAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
38 7 0.18
39 7 0.18
40 25 0.64
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (38 bp):
AAATAAAAATAATTAAATAATAAAAAGAAAATATAATT
Found at i:75537165 original size:26 final size:22
Alignment explanation
Indices: 75537136--75537193 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
75537126 AAGTGATTCT
75537136 GAATCGATTAGACTAAAAATTAATA
1 GAATCGATTA-A--AAAAATTAATA
* *
75537161 CGAATTGACTAAAAAAATTAATA
1 -GAATCGATTAAAAAAATTAATA
*
75537184 AAATCGATTA
1 GAATCGATTA
75537194 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
22 7 0.26
23 11 0.41
25 1 0.04
26 8 0.30
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (22 bp):
GAATCGATTAAAAAAATTAATA
Found at i:75537551 original size:20 final size:19
Alignment explanation
Indices: 75537512--75537567 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
75537502 GTTCCCCCAA
*
75537512 AAAAACATAATGAAAA-TAG
1 AAAAACAT-ATAAAAATTAG
*
75537531 AAAATCATGATAAAAATTAG
1 AAAAACAT-ATAAAAATTAG
75537551 AAAAACATATAATAAAT
1 AAAAACATATAA-AAAT
75537568 AATTCCAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.21
Consensus pattern (19 bp):
AAAAACATATAAAAATTAG
Found at i:75542957 original size:17 final size:17
Alignment explanation
Indices: 75542925--75542957 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
75542915 AATAAAGCTA
75542925 TACTAAATATATAATAC
1 TACTAAATATATAATAC
75542942 TACTATAATATA-AATA
1 TACTA-AATATATAATA
75542958 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TACTAAATATATAATAC
Found at i:75543613 original size:22 final size:22
Alignment explanation
Indices: 75543588--75543641 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
75543578 ATTACGCAAT
75543588 ATAATTATTTTGTTTGATAAAA-
1 ATAATTATTTTGTTT-ATAAAAG
* *
75543610 ATAAATA-TTTGTTTTTAAAAG
1 ATAATTATTTTGTTTATAAAAG
*
75543631 ATTATTATTTT
1 ATAATTATTTT
75543642 TTAATTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 5 0.19
21 12 0.46
22 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (22 bp):
ATAATTATTTTGTTTATAAAAG
Found at i:75543710 original size:26 final size:26
Alignment explanation
Indices: 75543681--75543741 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
75543671 TATATTTCAT
* *
75543681 TTTTTTAAAAACAT-AATTTATTTTAA
1 TTTTTTAAAAA-ATAAAATTAATTTAA
*
75543707 TTTTTTAATAAATAAAATTAATTTAA
1 TTTTTTAAAAAATAAAATTAATTTAA
*
75543733 TATTTTAAA
1 TTTTTTAAA
75543742 CATTAAATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTTTAAAAAATAAAATTAATTTAA
Found at i:75551274 original size:25 final size:27
Alignment explanation
Indices: 75551237--75551289 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
75551227 TCAAACATGC
75551237 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
75551263 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
75551289 A
1 A
75551290 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:75552807 original size:32 final size:32
Alignment explanation
Indices: 75552770--75552834 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
75552760 AATGCTTACC
75552770 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
75552802 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
75552834 A
1 A
75552835 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:75557580 original size:12 final size:12
Alignment explanation
Indices: 75557563--75557593 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
75557553 AGTACTACCT
75557563 CGGCCTCAACCA
1 CGGCCTCAACCA
*
75557575 CGGCCTCGACCA
1 CGGCCTCAACCA
75557587 CGGCCTC
1 CGGCCTC
75557594 TTTCCCGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.23, T:0.10
Consensus pattern (12 bp):
CGGCCTCAACCA
Found at i:75559220 original size:25 final size:27
Alignment explanation
Indices: 75559183--75559233 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
75559173 TCAAACATGC
75559183 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
75559209 ATTTCGGT-AATTTATCTCCTAGGGG
1 ATTTAGGTCAATTTAACTCCTAGGGG
75559234 GTAAAACTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:75560730 original size:32 final size:32
Alignment explanation
Indices: 75560693--75560757 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
75560683 AATGCTTACC
75560693 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
75560725 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
75560757 A
1 A
75560758 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:75562717 original size:45 final size:45
Alignment explanation
Indices: 75562666--75562782 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
75562656 TATTTGCAAA
* * **
75562666 ATTTGCTGTGTGTCCACAACCAGAGGCAAATTCCATGTGTGGGTT
1 ATTTGCTGTGTATCCACAACCAGAGGCAAATTCCATGTGCGAATT
* *
75562711 ATTTGCTGTGTATCCATAGCCAGAGGCAAATTCCATGTGCGAATT
1 ATTTGCTGTGTATCCACAACCAGAGGCAAATTCCATGTGCGAATT
* *
75562756 ATTTGCTATGTAATCCACAACTAGAGG
1 ATTTGCTGTGT-ATCCACAACCAGAGG
75562783 TAGATTTCAT
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
45 49 0.80
46 12 0.20
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (45 bp):
ATTTGCTGTGTATCCACAACCAGAGGCAAATTCCATGTGCGAATT
Found at i:75563139 original size:15 final size:15
Alignment explanation
Indices: 75563119--75563157 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
75563109 TTGCAATTTA
*
75563119 TTTTGTGTGACATAT
1 TTTTGTATGACATAT
75563134 TTTTGTATGACATAT
1 TTTTGTATGACATAT
75563149 TTTTGTATG
1 TTTTGTATG
75563158 CTTAATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.05, G:0.18, T:0.56
Consensus pattern (15 bp):
TTTTGTATGACATAT
Found at i:75567796 original size:131 final size:131
Alignment explanation
Indices: 75567489--75567862 Score: 365
Period size: 131 Copynumber: 2.8 Consensus size: 131
75567479 TTGCCTCGCC
* * * * * *
75567489 TTAGAAAATACGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGGAAGATTGCAAC
1 TTAGAAAACATGAATGAAATTCCGAAGGGACATTCGATTATTTTGAACAAACGAAAAATTGCAAC
* * * * ** * *
75567554 CCAGCACGATAGAGCGCTATTCCCCGAATTTCCAGACATCGAACATTTCCCTCGTTTTAAAGAGT
66 CCAGCACGATAGGGCACGATT-CCCAAATCGCCAAACATCGAACATTTCCCTCGTTTCAAAGAGT
75567619 TA
130 TA
* * * * * * **
75567621 TTAGGAAACATGAGTGAAATTCCGAAGGAATC-TTTGATTGTTTTGAACAAATGAAAAAGCGCAA
1 TTAGAAAACATGAATGAAATTCCGAAGGGA-CATTCGATTATTTTGAACAAACGAAAAATTGCAA
* * * *
75567685 CCCAGCACAATAGGGCACGATTCTCAAATCGCCAAACATCGAACATTTCCTTCGTTTCAAATAGT
65 CCCAGCACGATAGGGCACGATTCCCAAATCGCCAAACATCGAACATTTCCCTCGTTTCAAAGAGT
*
75567750 TT
130 TA
* ** * *
75567752 TTAGAAAACGTGAATGAAATTCTAAAGGGACATTCGGTTATTTTGAGA-AAACGAGAAATTGCAA
1 TTAGAAAACATGAATGAAATTCCGAAGGGACATTCGATTATTTTGA-ACAAACGAAAAATTGCAA
* * * * *
75567816 CCCAGCACGTTAGGGCACGATTCCACGAATTGTCAAATATCGAACAT
65 CCCAGCACGATAGGGCACGATTCC-CAAATCGCCAAACATCGAACAT
75567863 CGCCTTCATT
Statistics
Matches: 193, Mismatches: 45, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
130 1 0.01
131 104 0.54
132 88 0.46
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (131 bp):
TTAGAAAACATGAATGAAATTCCGAAGGGACATTCGATTATTTTGAACAAACGAAAAATTGCAAC
CCAGCACGATAGGGCACGATTCCCAAATCGCCAAACATCGAACATTTCCCTCGTTTCAAAGAGTT
A
Found at i:75570479 original size:93 final size:93
Alignment explanation
Indices: 75570367--75570538 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
75570357 GCCCATAAGT
** *
75570367 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAAATCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAAATCAA
75570432 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
75570460 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAAATCAA
*
75570525 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
75570539 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAAATCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:75570534 original size:46 final size:46
Alignment explanation
Indices: 75570359--75570537 Score: 220
Period size: 46 Copynumber: 3.9 Consensus size: 46
75570349 TGTAACCCGC
* *
75570359 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
75570405 CCATAAGTGAACTCGGACTCAAATCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CTCG---CAT
* * * *
75570455 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
*
75570498 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC
75570538 CCAAATATCC
Statistics
Matches: 113, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.63
47 30 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
Found at i:75573853 original size:64 final size:64
Alignment explanation
Indices: 75573740--75573860 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 64
75573730 CTCGTATCTA
* * * *
75573740 TGCTTGTGCCAAATAATTAGGATGCCATGCTCAAAATGAGTCAAATGCTCCTAACTAGATGTGG
1 TGCTTATGCCAAATAATTAGAATGCCATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGG
* * * *
75573804 TGCTTATGTCAAATAATTAGAATGCTATGATCAAAGTGAATCAAGTGCTCCTAACTA
1 TGCTTATGCCAAATAATTAGAATGCCATGATCAAAATGAATCAAATGCTCCTAACTA
75573861 AATGAATGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (64 bp):
TGCTTATGCCAAATAATTAGAATGCCATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGG
Found at i:75579301 original size:48 final size:48
Alignment explanation
Indices: 75579230--75579324 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
75579220 TGAAGAAGAC
*
75579230 ATAATTGTCGGCACTTATATTGCTAACCAAATGGTCCATCTTGTTAAT
1 ATAATTGTCGGCACTTATATTGCTAACCAAACGGTCCATCTTGTTAAT
*
75579278 ATAATTGTCGGCACTTATGTTGCTAACCAAACGGTCCATCTTGTTAA
1 ATAATTGTCGGCACTTATATTGCTAACCAAACGGTCCATCTTGTTAA
75579325 CGGAGATATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (48 bp):
ATAATTGTCGGCACTTATATTGCTAACCAAACGGTCCATCTTGTTAAT
Found at i:75585425 original size:131 final size:132
Alignment explanation
Indices: 75585218--75585516 Score: 325
Period size: 131 Copynumber: 2.3 Consensus size: 132
75585208 GAATTTCCAG
* * *
75585218 ACATCGAACATTTCCCTT-GTTTTAAAGAGTTATTAGAAAACATGAGTGAAATTTTAAAGGAATC
1 ACATCGAACATTT-CCTTCGTTTTAAAAAGTTTTTAGAAAACATGAATGAAATTTTAAAGGAATC
* * *
75585282 TTCGATTGTTTTGAACAAATGAAAAAGCGCAACCCAACACGATAGGGCACGATTCT-CAAATAGC
65 TTCGATTATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACAATTCTGCAAATAGC
75585346 CAA
130 CAA
* * *
75585349 ACATCGAACATTTCCTTCGTTTCAAAAAGTTTTTAGAAAACGTGAATGAAATTTTAAAGGGA-CA
1 ACATCGAACATTTCCTTCGTTTTAAAAAGTTTTTAGAAAACATGAATGAAATTTTAAAGGAATC-
* ** * ** * * * * * *
75585413 TTCGGTTATTTTGAGGAAACGAGAAATTGCACCCCAGCACGTTAGGGCACAATTCTGCGAATTGT
65 TTCGATTATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACAATTCTGCAAATAGC
75585478 CAA
130 CAA
* ** *
75585481 ATATCGAACATCGCCTTCGTTTTAATAAAATTTTTA
1 ACATCGAACATTTCCTTCGTTTTAA-AAAGTTTTTA
75585517 AATGAATAAT
Statistics
Matches: 138, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
130 5 0.04
131 95 0.69
132 29 0.21
133 9 0.07
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (132 bp):
ACATCGAACATTTCCTTCGTTTTAAAAAGTTTTTAGAAAACATGAATGAAATTTTAAAGGAATCT
TCGATTATTTTGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACAATTCTGCAAATAGCC
AA
Found at i:75587508 original size:7 final size:7
Alignment explanation
Indices: 75587496--75587528 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
75587486 AGCCGAATGT
75587496 TAAAAAA
1 TAAAAAA
75587503 TAAAAAA
1 TAAAAAA
75587510 TAAAAAA
1 TAAAAAA
75587517 T-AAAAA
1 TAAAAAA
75587523 TAAAAA
1 TAAAAA
75587529 TACAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:75587515 original size:14 final size:13
Alignment explanation
Indices: 75587496--75587528 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
75587486 AGCCGAATGT
75587496 TAAAAAATAAAAAA
1 TAAAAAAT-AAAAA
75587510 TAAAAAATAAAAA
1 TAAAAAATAAAAA
75587523 TAAAAA
1 TAAAAA
75587529 TACAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:75587654 original size:19 final size:17
Alignment explanation
Indices: 75587609--75587655 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
75587599 GTACGTTGTC
75587609 GTGT-GTACGGGAGTGG
1 GTGTCGTACGGGAGTGG
*
75587625 GCTGGCGTACGGGAGCTGG
1 G-TGTCGTACGGGAG-TGG
75587644 TGTGTCGTACGG
1 -GTGTCGTACGG
75587656 TGCGAGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 2 0.08
18 9 0.36
19 12 0.48
20 1 0.04
ACGTcount: A:0.11, C:0.15, G:0.51, T:0.23
Consensus pattern (17 bp):
GTGTCGTACGGGAGTGG
Found at i:75588977 original size:19 final size:19
Alignment explanation
Indices: 75588948--75588994 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
75588938 TCTTTTCATT
*
75588948 TTTTCTATATTTTATTTTTA
1 TTTT-TATATTTTATATTTA
75588968 TTTTTATATTTTATATTTA
1 TTTTTATATTTTATATTTA
75588987 TCTTTTAT
1 T-TTTTAT
75588995 CATAAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTATATTTTATATTTA
Found at i:75588979 original size:7 final size:7
Alignment explanation
Indices: 75588953--75588994 Score: 54
Period size: 6 Copynumber: 6.4 Consensus size: 7
75588943 TCATTTTTTC
75588953 TATATTT
1 TATATTT
75588960 TAT-TTT
1 TATATTT
75588966 TAT-TTT
1 TATATTT
75588972 TATATTT
1 TATATTT
75588979 TATA-TT
1 TATATTT
*
75588985 TATCTTT
1 TATATTT
75588992 TAT
1 TAT
75588995 CATAAATCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 17 0.53
7 15 0.47
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (7 bp):
TATATTT
Found at i:75588981 original size:13 final size:14
Alignment explanation
Indices: 75588953--75588994 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
75588943 TCATTTTTTC
75588953 TATATTTTAT-TTT
1 TATATTTTATATTT
75588966 TAT-TTTTATATTT
1 TATATTTTATATTT
*
75588979 TATA-TTTATCTTT
1 TATATTTTATATTT
75588992 TAT
1 TAT
75588995 CATAAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TATATTTTATATTT
Found at i:75589868 original size:20 final size:20
Alignment explanation
Indices: 75589843--75589896 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
75589833 ATTTAAATCT
75589843 TTTATTTATTTATTTATCCG
1 TTTATTTATTTATTTATCCG
* ** *
75589863 TTTATTTGTTTACATATTCG
1 TTTATTTATTTATTTATCCG
*
75589883 -TTATTTTTTTATTT
1 TTTATTTATTTATTT
75589897 TATTTGTTTG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.19, C:0.07, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTATTTATTTATTTATCCG
Found at i:75591364 original size:255 final size:256
Alignment explanation
Indices: 75590923--75591385 Score: 784
Period size: 255 Copynumber: 1.8 Consensus size: 256
75590913 TTTTAACATA
*
75590923 AAGGCAATATTCCGTTGTTTGGAAATTTCGAGAAAATCATACCTTACGTGCTAGGTTTCGATTTA
1 AAGGCAATATTCCGTTGTTTGGAAATTTCGAGAAAATCATACCCTACGTGCTAGGTTTCGATTTA
*
75590988 TTGTTTGACCAAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTTGGAAATTATGAGA
66 TCGTTTGACCAAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTTGGAAATTATGAGA
* *
75591053 TGATTTTGATATCGAAGGTTTGAAATATCGTGTCCTACGAGTTGGATGTAATATTTTATTTCTTC
131 TGATTTTGATATCGAAGGTTTGAAATATCGTGTCATACGAGCTGGATGTAATATTTTATTTCTTC
75591118 GAAACAAGAGAATTTTAATCGTTTCATATTATTGCATTTTTACTCAAGACTTTTTAAAAAC
196 GAAACAAGAGAATTTTAATCGTTTCATATTATTGCATTTTTACTCAAGACTTTTTAAAAAC
* ** * * *
75591179 AAGGCAATATTCCGTTGTTTGGAATTTTCGAG-AAATTGTGCCCTACGTGCTGGGTTTTGATTTA
1 AAGGCAATATTCCGTTGTTTGGAAATTTCGAGAAAATCATACCCTACGTGCTAGGTTTCGATTTA
*
75591243 TCGTTTGACTAAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTTGGAAATTATGAGA
66 TCGTTTGACCAAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTTGGAAATTATGAGA
* * * *
75591308 TGATTTTGATATCGAAGGTTTGAAATGTTGTGTCATACGTGCTGGATGTGATATTTTATTTCTTC
131 TGATTTTGATATCGAAGGTTTGAAATATCGTGTCATACGAGCTGGATGTAATATTTTATTTCTTC
75591373 GAAACAAGAGAAT
196 GAAACAAGAGAAT
75591386 CTAAATATCC
Statistics
Matches: 192, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
255 161 0.84
256 31 0.16
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (256 bp):
AAGGCAATATTCCGTTGTTTGGAAATTTCGAGAAAATCATACCCTACGTGCTAGGTTTCGATTTA
TCGTTTGACCAAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTTGGAAATTATGAGA
TGATTTTGATATCGAAGGTTTGAAATATCGTGTCATACGAGCTGGATGTAATATTTTATTTCTTC
GAAACAAGAGAATTTTAATCGTTTCATATTATTGCATTTTTACTCAAGACTTTTTAAAAAC
Found at i:75593152 original size:24 final size:24
Alignment explanation
Indices: 75593111--75593157 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
75593101 CTGTCAGGAG
**
75593111 AGGATTTAAGAGTTGATAAGGGAT
1 AGGATTTAAGAGCAGATAAGGGAT
*
75593135 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAAGAGCAGATAAGGGA
75593158 GGAAATCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.36, T:0.23
Consensus pattern (24 bp):
AGGATTTAAGAGCAGATAAGGGAT
Found at i:75594608 original size:27 final size:26
Alignment explanation
Indices: 75594568--75594679 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
75594558 AGGAAGCGTC
* *
75594568 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCAC-ATTATCTGAT
*
75594595 CTGGTGGA-TCTGCCACATATATCTGTT
1 CTGGT-GACTCTGCCACAT-TATCTGAT
*
75594622 CTGGTGATTCTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCAC-ATTATCTG-AT
* *
75594650 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGAT
75594676 CTGG
1 CTGG
75594680 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
26 9 0.12
27 46 0.63
28 18 0.25
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGAT
Found at i:75597200 original size:30 final size:30
Alignment explanation
Indices: 75597107--75597287 Score: 141
Period size: 30 Copynumber: 6.0 Consensus size: 30
75597097 CACGAGCTGG
* * * *
75597107 CACATGGGGGTGTGGCTAGCTCGTGT-AACT
1 CACACGGGCGTGTGGCTAGCCCGTGTCGA-T
* * * *
75597137 CACACGAGTGTGTTGCTAGCCTGTGT-GACT
1 CACACGGGCGTGTGGCTAGCCCGTGTCGA-T
* * *
75597167 CACACGGGCGTGTGGCTAACCTGTATCGAT
1 CACACGGGCGTGTGGCTAGCCCGTGTCGAT
* * *
75597197 CACATGGGCATGTAGCTAGCCCGTGTCGAT
1 CACACGGGCGTGTGGCTAGCCCGTGTCGAT
* * * *
75597227 TACACAGGTGTGTGGCTAGCCCGTGTCGGT
1 CACACGGGCGTGTGGCTAGCCCGTGTCGAT
* * *
75597257 CACACGGGCGTGTGACGAGCCGGTGTCGAT
1 CACACGGGCGTGTGGCTAGCCCGTGTCGAT
75597287 C
1 C
75597288 TTGGAAACAA
Statistics
Matches: 118, Mismatches: 32, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
30 116 0.98
31 2 0.02
ACGTcount: A:0.17, C:0.25, G:0.34, T:0.24
Consensus pattern (30 bp):
CACACGGGCGTGTGGCTAGCCCGTGTCGAT
Found at i:75602599 original size:28 final size:29
Alignment explanation
Indices: 75602567--75602628 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
75602557 TACATATATG
75602567 CATATGGCCCACTAGGCCC-AATCT-CATT
1 CATATGGCCCACTAGGCCCAAAT-TACATT
* *
75602595 CATATGGCCTATTAGGCCCAAATTACATT
1 CATATGGCCCACTAGGCCCAAATTACATT
75602624 CATAT
1 CATAT
75602629 AGCCTATCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATTACATT
Found at i:75602633 original size:29 final size:28
Alignment explanation
Indices: 75602579--75602635 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
75602569 TATGGCCCAC
*
75602579 TAGGCCCAATCTCATTCATATGGCCTAT
1 TAGGCCCAATCTCATTCATATAGCCTAT
75602607 TAGGCCCAAAT-TACATTCATATAGCCTAT
1 TAGGCCC-AATCT-CATTCATATAGCCTAT
75602636 CTGGCTCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
TAGGCCCAATCTCATTCATATAGCCTAT
Found at i:75606441 original size:29 final size:29
Alignment explanation
Indices: 75606369--75606443 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
75606359 TAAGTCTACA
* * *
75606369 TACATGCATATAGCCCACTAGGCCCAATC
1 TACATTCATATGGCCCATTAGGCCCAATC
75606398 T-CATTCATATGGCCCATTAGGCCCAAAT-
1 TACATTCATATGGCCCATTAGGCCC-AATC
75606426 TACATTCATATGGCCCAT
1 TACATTCATATGGCCCAT
75606444 CTGGCCCGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 21 0.51
29 20 0.49
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (29 bp):
TACATTCATATGGCCCATTAGGCCCAATC
Found at i:75606449 original size:29 final size:30
Alignment explanation
Indices: 75606369--75606455 Score: 103
Period size: 29 Copynumber: 3.0 Consensus size: 30
75606359 TAAGTCTACA
* *
75606369 TACATGCATATAGCCCA-CTAGGCCCAATC
1 TACATTCATATGGCCCATCTAGGCCCAATC
75606398 T-CATTCATATGGCCCAT-TAGGCCCAAAT-
1 TACATTCATATGGCCCATCTAGGCCC-AATC
75606426 TACATTCATATGGCCCATCT-GGCCCGAATC
1 TACATTCATATGGCCCATCTAGGCCC-AATC
75606456 AATTCCAAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
28 21 0.42
29 28 0.56
30 1 0.02
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (30 bp):
TACATTCATATGGCCCATCTAGGCCCAATC
Found at i:75619817 original size:45 final size:45
Alignment explanation
Indices: 75619731--75619826 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
75619721 GAGGACTCAT
* * ***
75619731 ACATGTGGATTCATAAAAAAAACTTCATGGGTATAGCAAATTCAA
1 ACATGCGGATACATAAAAAAAACTTCATGAACATAGCAAATTCAA
* *
75619776 ACATGCGGATACATAAAAAAAACTTCATGAACATAGTAAATTCAT
1 ACATGCGGATACATAAAAAAAACTTCATGAACATAGCAAATTCAA
75619821 ACATGC
1 ACATGC
75619827 AGACTTTGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.25
Consensus pattern (45 bp):
ACATGCGGATACATAAAAAAAACTTCATGAACATAGCAAATTCAA
Found at i:75622513 original size:28 final size:28
Alignment explanation
Indices: 75622474--75622530 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
75622464 CTTACGTAAA
75622474 AAAAATTTGCAGTCCATTGCTTTCATAT
1 AAAAATTTGCAGTCCATTGCTTTCATAT
75622502 AAAAATTTGCAGTCCATTGCTTTCATAT
1 AAAAATTTGCAGTCCATTGCTTTCATAT
75622530 A
1 A
75622531 TTAGGCCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (28 bp):
AAAAATTTGCAGTCCATTGCTTTCATAT
Found at i:75624580 original size:13 final size:13
Alignment explanation
Indices: 75624562--75624587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75624552 TATTCATCCA
75624562 ACCAAATTAATTT
1 ACCAAATTAATTT
75624575 ACCAAATTAATTT
1 ACCAAATTAATTT
75624588 TGATTAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
ACCAAATTAATTT
Found at i:75635282 original size:22 final size:21
Alignment explanation
Indices: 75635241--75635282 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
75635231 CATTATTTCC
**
75635241 TTTTATATTTATTTTATTATA
1 TTTTATATTTACATTATTATA
75635262 TTTTATATGTTACATTATTAT
1 TTTTATAT-TTACATTATTAT
75635283 TATCATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTATATTTACATTATTATA
Found at i:75642907 original size:35 final size:35
Alignment explanation
Indices: 75642857--75642997 Score: 237
Period size: 35 Copynumber: 3.9 Consensus size: 35
75642847 GATAAATATG
75642857 TGATATGCAATCTTAGATATGATACAATCTTAGATA
1 TGAT-TGCAATCTTAGATATGATACAATCTTAGATA
75642893 TGATTGCAATCTTAGATATGATACAATCTTAGATA
1 TGATTGCAATCTTAGATATGATACAATCTTAGATA
* *
75642928 TAATTGCAATCTTAGATATGATACAATCTTAGAAA
1 TGATTGCAATCTTAGATATGATACAATCTTAGATA
75642963 TGATTGCAATCTTAGATATGATATACAATCTTAGA
1 TGATTGCAATCTTAGATATG--ATACAATCTTAGA
75642998 AGATATGATT
Statistics
Matches: 100, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 83 0.83
36 4 0.04
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (35 bp):
TGATTGCAATCTTAGATATGATACAATCTTAGATA
Found at i:75643503 original size:14 final size:14
Alignment explanation
Indices: 75643477--75643525 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
75643467 CCAATATATT
75643477 TTATATATTTTATA
1 TTATATATTTTATA
75643491 TTAT-TATTCTTATA
1 TTATATATT-TTATA
*
75643505 -AATATATTTT-TA
1 TTATATATTTTATA
75643517 TTATATATT
1 TTATATATT
75643526 ATATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 2 0.07
13 15 0.50
14 13 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATATATTTTATA
Found at i:75645333 original size:89 final size:89
Alignment explanation
Indices: 75645182--75645360 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
75645172 GCATGGTCAT
75645182 ATCAGGATATGCCCGGGTTGAGTACCGACATTGTAGTACATCGTCTTCCGATAATACAAGATTGC
1 ATCAGGATATGCCCGGGTTGAGTACCGACATTGTAGTACATCGTCTTCCGATAATACAAGATTGC
75645247 AAACCAGTCCAACAGAAGTTACGG
66 AAACCAGTCCAACAGAAGTTACGG
75645271 ATCAGGATATGCCCGGGTTGAGTACCGACATTGTAGTACATCGTCTTCCGATAATACAAGATTGC
1 ATCAGGATATGCCCGGGTTGAGTACCGACATTGTAGTACATCGTCTTCCGATAATACAAGATTGC
75645336 AAACCAGTCCAACAGAAGTTACGG
66 AAACCAGTCCAACAGAAGTTACGG
75645360 A
1 A
75645361 GAATGCGACT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (89 bp):
ATCAGGATATGCCCGGGTTGAGTACCGACATTGTAGTACATCGTCTTCCGATAATACAAGATTGC
AAACCAGTCCAACAGAAGTTACGG
Found at i:75647530 original size:15 final size:15
Alignment explanation
Indices: 75647510--75647542 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
75647500 CCACCTTCAC
75647510 CTTTGCATGTTATGA
1 CTTTGCATGTTATGA
75647525 CTTTGCATGTTATGA
1 CTTTGCATGTTATGA
75647540 CTT
1 CTT
75647543 CTCCATGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.48
Consensus pattern (15 bp):
CTTTGCATGTTATGA
Found at i:75648078 original size:12 final size:12
Alignment explanation
Indices: 75648061--75648085 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75648051 TTCGAATTTT
75648061 GATGGAGATAAG
1 GATGGAGATAAG
75648073 GATGGAGATAAG
1 GATGGAGATAAG
75648085 G
1 G
75648086 TTAGATGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.44, T:0.16
Consensus pattern (12 bp):
GATGGAGATAAG
Found at i:75648537 original size:18 final size:17
Alignment explanation
Indices: 75648512--75648582 Score: 72
Period size: 17 Copynumber: 4.1 Consensus size: 17
75648502 ATAGAAAATC
75648512 AAAAGAAAAAAACA-AAA
1 AAAAGAAAAAAA-AGAAA
75648529 AACAAGAAAAAAAAGAAA
1 AA-AAGAAAAAAAAGAAA
* *
75648547 AAAAGAAAAAAGAGAGA
1 AAAAGAAAAAAAAGAAA
* * *
75648564 AGAGGAAAAAAGAGAAA
1 AAAAGAAAAAAAAGAAA
75648581 AA
1 AA
75648583 TGGAGAGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
17 31 0.67
18 15 0.33
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAGAAA
Done.