Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 169 of 206
Found at i:51442214 original size:20 final size:20
Alignment explanation
Indices: 51442181--51442255 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
51442171 CTTTTTAACT
*
51442181 TATATAATATAATACAATATAA
1 TATATAATAAAATA-AA-ATAA
51442203 TA-A-AATAAAATAATATATAA
1 TATATAATAAAATAA-A-ATAA
51442223 TATATAATATATAATAAAATAA
1 TATATAATA-A-AATAAAATAA
51442245 TATAT-ATAAAA
1 TATATAATAAAA
51442256 CATAAAAATC
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
19 3 0.06
20 17 0.36
21 5 0.11
22 15 0.32
23 2 0.04
24 5 0.11
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (20 bp):
TATATAATAAAATAAAATAA
Found at i:51442260 original size:24 final size:24
Alignment explanation
Indices: 51442182--51442260 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
51442172 TTTTTAACTT
*
51442182 ATATAATATAATACA-ATATAATAAA
1 ATATAATAAAATA-ATATAT-ATAAA
* * *
51442207 ATAAAATAATAT-ATAATATATAAT
1 ATATAATAAAATAAT-ATATATAAA
51442231 ATATAATAAAATAATATATATAAA
1 ATATAATAAAATAATATATATAAA
*
51442255 ACATAA
1 ATATAA
51442261 AAATCTAAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
23 1 0.02
24 27 0.63
25 15 0.35
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (24 bp):
ATATAATAAAATAATATATATAAA
Found at i:51446597 original size:16 final size:16
Alignment explanation
Indices: 51446576--51446607 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
51446566 GTATGAACTT
51446576 AGTTAATTGAATGCAA
1 AGTTAATTGAATGCAA
51446592 AGTTAATTGAATGCAA
1 AGTTAATTGAATGCAA
51446608 TATGTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
AGTTAATTGAATGCAA
Found at i:51448734 original size:16 final size:17
Alignment explanation
Indices: 51448702--51448741 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
51448692 AATCATTATC
51448702 AAATAATTACTAAAATAA
1 AAATAATTAC-AAAATAA
51448720 AAATAATTA-AAAATAA
1 AAATAATTACAAAATAA
*
51448736 TAATAA
1 AAATAA
51448742 ATGGTAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATAATTACAAAATAA
Found at i:51449806 original size:15 final size:16
Alignment explanation
Indices: 51449781--51449814 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
51449771 TTGAAGAGAT
*
51449781 AAAAATAAATAACGAA
1 AAAAATAAATAAAGAA
51449797 AAAAAT-AATAAAGAA
1 AAAAATAAATAAAGAA
51449812 AAA
1 AAA
51449815 TAAACAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAATAAATAAAGAA
Found at i:51455980 original size:27 final size:27
Alignment explanation
Indices: 51455942--51456188 Score: 302
Period size: 27 Copynumber: 9.2 Consensus size: 27
51455932 AATAGGCCTC
* *
51455942 TAAAATTACCGAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
51455969 TAAAATGACCGAAATACCTTCGAAGAG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
51455996 TAAAATTACCGAAATACCCTTG-AGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
51456022 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
51456049 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
51456076 TAAAATTATCAAAATACCCTCGAATGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
51456103 TAAAATGACCGAAATACCCTCAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
51456130 TAAAATGACCAAAATACCC-CGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
51456156 TAAAATGACCAAAATACCC-CCATAGGG
1 TAAAATGACCGAAATACCCTCGA-AGGG
51456183 TAAAAT
1 TAAAAT
51456189 AACTGTTATA
Statistics
Matches: 193, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 49 0.25
27 144 0.75
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:51456079 original size:80 final size:81
Alignment explanation
Indices: 51455942--51456188 Score: 329
Period size: 80 Copynumber: 3.1 Consensus size: 81
51455932 AATAGGCCTC
* * * * * *
51455942 TAAAATTACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCTTCGAAGAGTAAAATTACCG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCA
*
51456007 AAATACCCTTG-AGGG
66 AAATACCCTCGAAGGG
* *
51456022 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATTATCA
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCA
*
51456087 AAATACCCTCGAATGG
66 AAATACCCTCGAAGGG
* * * *
51456103 TAAAATGACCGAAATACCCTCAAAAGGTAAAATGACCAAAATACCC-CGAAAGGTAAAATGACCA
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCA
*
51456167 AAATACCC-CCATAGGG
66 AAATACCCTCGA-AGGG
51456183 TAAAAT
1 TAAAAT
51456189 AACTGTTATA
Statistics
Matches: 147, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
79 2 0.01
80 99 0.67
81 46 0.31
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.19
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCA
AAATACCCTCGAAGGG
Found at i:51456185 original size:53 final size:54
Alignment explanation
Indices: 51455965--51456188 Score: 242
Period size: 53 Copynumber: 4.2 Consensus size: 54
51455955 ATACCCTTGA
* * * * *
51455965 AGGGTAAAATGACCGAAATACCTTCG-AAGAGTAAAATTACCGAAATA--CCCTT
1 AGGGTAAAATGACCAAAATACCCTCGAAAG-GTAAAATGACCAAAATACCCCCAT
* * * *
51456017 GAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGA-
1 -AGGGTAAAATGACCAAAATACCCTCGAAAGGTAAAATGACCAAAATACCC-CCAT
* * * * * *
51456072 AGGGTAAAATTATCAAAATACCCTCGAATGGTAAAATGACCGAAATACCCTCAA
1 AGGGTAAAATGACCAAAATACCCTCGAAAGGTAAAATGACCAAAATACCCCCAT
*
51456126 AAGGTAAAATGACCAAAATACCC-CGAAAGGTAAAATGACCAAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCTCGAAAGGTAAAATGACCAAAATACCCCCAT
51456179 AGGGTAAAAT
1 AGGGTAAAAT
51456189 AACTGTTATA
Statistics
Matches: 145, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
53 75 0.52
54 68 0.47
55 1 0.01
56 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (54 bp):
AGGGTAAAATGACCAAAATACCCTCGAAAGGTAAAATGACCAAAATACCCCCAT
Found at i:51456558 original size:30 final size:30
Alignment explanation
Indices: 51456524--51456631 Score: 144
Period size: 30 Copynumber: 3.6 Consensus size: 30
51456514 TACATTTGCA
*
51456524 CTGTTACTGTATTGGGATAAGGCCCACACT
1 CTGTTACTGTATTGGGCTAAGGCCCACACT
* *
51456554 CTGTTACTGTATTGGGCTAAGACTCACACT
1 CTGTTACTGTATTGGGCTAAGGCCCACACT
* * *
51456584 CTGTTACTGTATTGGGCTATGGCCTACACA
1 CTGTTACTGTATTGGGCTAAGGCCCACACT
* *
51456614 CTGCTACTGTATAGGGCT
1 CTGTTACTGTATTGGGCT
51456632 CAGACCTAGA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (30 bp):
CTGTTACTGTATTGGGCTAAGGCCCACACT
Found at i:51456622 original size:60 final size:60
Alignment explanation
Indices: 51456524--51456636 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 60
51456514 TACATTTGCA
* * *
51456524 CTGTTACTGTATTGGGATAAGGCCCACACTCTGTTACTGTATTGGGCTAAGACTCACACT
1 CTGTTACTGTATTGGGATAAGGCCCACACACTGCTACTGTATAGGGCTAAGACTCACACT
* * * *
51456584 CTGTTACTGTATTGGGCTATGGCCTACACACTGCTACTGTATAGGGCTCAGAC
1 CTGTTACTGTATTGGGATAAGGCCCACACACTGCTACTGTATAGGGCTAAGAC
51456637 CTAGACTGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (60 bp):
CTGTTACTGTATTGGGATAAGGCCCACACACTGCTACTGTATAGGGCTAAGACTCACACT
Found at i:51457261 original size:25 final size:25
Alignment explanation
Indices: 51457242--51457322 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
51457232 AAGCTCCTCT
51457242 GAGCTGA-AATACGGTAAGCTCATAC
1 GAGCTGAGAAT-CGGTAAGCTCATAC
*
51457267 GAGCTGAGAATCGTTAAGCTC-TCAC
1 GAGCTGAGAATCGGTAAGCTCAT-AC
* *
51457292 GAGTTTCA-AATCGGTAAGCTCATAC
1 GAG-CTGAGAATCGGTAAGCTCATAC
51457317 GAGCTG
1 GAGCTG
51457323 TGGTGAGTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 2 0.04
25 38 0.83
26 6 0.13
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (25 bp):
GAGCTGAGAATCGGTAAGCTCATAC
Found at i:51463884 original size:17 final size:17
Alignment explanation
Indices: 51463862--51463896 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51463852 ATTACAAAAT
*
51463862 CAAATCTTATCAGATTA
1 CAAATCTTATAAGATTA
*
51463879 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
51463896 C
1 C
51463897 TTTTCATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:51471009 original size:1 final size:1
Alignment explanation
Indices: 51471005--51471030 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
51470995 GGGTTTTTTT
51471005 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
51471031 GGATTGCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:51474889 original size:16 final size:17
Alignment explanation
Indices: 51474858--51474891 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
51474848 TATTCTAGAC
*
51474858 ATTTTGTCATAAATTTT
1 ATTTTGTCAAAAATTTT
51474875 ATTTT-TCAAAAATTTT
1 ATTTTGTCAAAAATTTT
51474891 A
1 A
51474892 AATTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTGTCAAAAATTTT
Found at i:51475041 original size:49 final size:48
Alignment explanation
Indices: 51474981--51475096 Score: 137
Period size: 49 Copynumber: 2.4 Consensus size: 48
51474971 TTAAGTTTTC
* * * *
51474981 TTTTTGCAATTTTTGTAAATTTAAA-TACCTTTTTTA-AAATTTTTATATT
1 TTTTTG-AATTTTT-AAAATTTAAATTACATATTTTAGAAATTTATATA-T
51475030 TATTTTGAATTTTTAAAATTTAAATTTACATATTTTAGAAATTTATATAT
1 T-TTTTGAATTTTTAAAATTTAAA-TTACATATTTTAGAAATTTATATAT
51475080 TTTTTGAATTTTTAAAA
1 TTTTTGAATTTTTAAAA
51475097 AAAAATTTGA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
48 9 0.15
49 24 0.41
50 16 0.27
51 10 0.17
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.57
Consensus pattern (48 bp):
TTTTTGAATTTTTAAAATTTAAATTACATATTTTAGAAATTTATATAT
Found at i:51475113 original size:49 final size:50
Alignment explanation
Indices: 51475006--51475113 Score: 132
Period size: 49 Copynumber: 2.2 Consensus size: 50
51474996 TAAATTTAAA
* * **
51475006 TACCTTTTTTAAAATTTTTATATTTATTTTGAATTTTTAAAATTTAAATT
1 TACCTATTTTAAAATTTATATATTTATTTTGAATTTTTAAAATAAAAATT
*
51475056 TACATATTTTAGAAATTTATATA-TT-TTTTGAATTTTTAAAA-AAAAATT
1 TACCTATTTTA-AAATTTATATATTTATTTTGAATTTTTAAAATAAAAATT
51475104 TGACCTATTT
1 T-ACCTATTT
51475114 ATATTATATA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 6 0.12
49 23 0.46
50 11 0.22
51 10 0.20
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.55
Consensus pattern (50 bp):
TACCTATTTTAAAATTTATATATTTATTTTGAATTTTTAAAATAAAAATT
Found at i:51477202 original size:20 final size:20
Alignment explanation
Indices: 51477173--51477217 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
51477163 CATTTTACTG
51477173 TTTTTATCTCTTTTTATTTT-
1 TTTTTATCTC-TTTTATTTTC
*
51477193 TTTTTCTCTCTTTTATTTTC
1 TTTTTATCTCTTTTATTTTC
51477213 TTTTT
1 TTTTT
51477218 TGTACTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTATCTCTTTTATTTTC
Found at i:51477208 original size:19 final size:18
Alignment explanation
Indices: 51477173--51477217 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
51477163 CATTTTACTG
*
51477173 TTTTTATCTCTTTTTATT
1 TTTTTTTCTCTTTTTATT
51477191 TTTTTTTCTCTCTTTTATT
1 TTTTTTTCTCT-TTTTATT
51477210 TTCTTTTT
1 TT-TTTTT
51477218 TGTACTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.42
19 9 0.38
20 5 0.21
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTCTCTTTTTATT
Found at i:51480694 original size:61 final size:61
Alignment explanation
Indices: 51480619--51480745 Score: 247
Period size: 61 Copynumber: 2.1 Consensus size: 61
51480609 ATATATCGAT
51480619 AGTTTGGAAGGTAAAGATGTTTGTACCTTTGAGGAAGAAACTAAGAAAAAAACTATCAGGA
1 AGTTTGGAAGGTAAAGATGTTTGTACCTTTGAGGAAGAAACTAAGAAAAAAACTATCAGGA
51480680 AGTTTGGAAGGTAAAGATGTTTGTACCTTTGAGGAAGAAACTAAGAAAAAAACTATCAGGA
1 AGTTTGGAAGGTAAAGATGTTTGTACCTTTGAGGAAGAAACTAAGAAAAAAACTATCAGGA
51480741 A-TTTG
1 AGTTTG
51480746 TTTCTACATC
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
60 4 0.06
61 62 0.94
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (61 bp):
AGTTTGGAAGGTAAAGATGTTTGTACCTTTGAGGAAGAAACTAAGAAAAAAACTATCAGGA
Found at i:51481907 original size:1 final size:1
Alignment explanation
Indices: 51481901--51481978 Score: 75
Period size: 1 Copynumber: 78.0 Consensus size: 1
51481891 CAGTGGAGGC
* * * * * * * *
51481901 AAAAAAAAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAAACAAAAAACAAAAACAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
51481966 AAAAATAAAAAAA
1 AAAAAAAAAAAAA
51481979 CCTCTACCGG
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:51481918 original size:8 final size:7
Alignment explanation
Indices: 51481900--51481977 Score: 97
Period size: 7 Copynumber: 11.0 Consensus size: 7
51481890 TCAGTGGAGG
51481900 CAAAAAA
1 CAAAAAA
*
51481907 AAAAAAA
1 CAAAAAA
51481914 CAAAAAAA
1 C-AAAAAA
51481922 CAAAAAAA
1 C-AAAAAA
51481930 CAAAAAA
1 CAAAAAA
51481937 -ACAAAAA
1 CA-AAAAA
51481944 CAAAAAA
1 CAAAAAA
51481951 C-AAAAA
1 CAAAAAA
51481957 CAAAAAA
1 CAAAAAA
51481964 CAAAAAA
1 CAAAAAA
*
51481971 TAAAAAA
1 CAAAAAA
51481978 ACCTCTACCG
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
6 7 0.11
7 41 0.64
8 16 0.25
ACGTcount: A:0.87, C:0.12, G:0.00, T:0.01
Consensus pattern (7 bp):
CAAAAAA
Found at i:51481920 original size:13 final size:13
Alignment explanation
Indices: 51481902--51481977 Score: 93
Period size: 13 Copynumber: 5.9 Consensus size: 13
51481892 AGTGGAGGCA
51481902 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
*
51481915 -AAAAAAACAAA-
1 AAAAAAAAAAAAC
*
51481926 AAAACAAAAAAAC
1 AAAAAAAAAAAAC
*
51481939 AAAAACAAAAAAC
1 AAAAAAAAAAAAC
*
51481952 AAAAACAAAAAAC
1 AAAAAAAAAAAAC
51481965 AAAAAATAAAAAA
1 AAAAAA-AAAAAA
51481978 ACCTCTACCG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
12 19 0.35
13 29 0.54
14 6 0.11
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:51482446 original size:13 final size:12
Alignment explanation
Indices: 51482411--51482459 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
51482401 TACTTCATTT
51482411 GAAAA-AAACAAA
1 GAAAAGAAA-AAA
51482423 CGAAAAGAAAAAA
1 -GAAAAGAAAAAA
*
51482436 GAAAAGAAAAAT
1 GAAAAGAAAAAA
51482448 GAAAAAGAAAAA
1 G-AAAAGAAAAA
51482460 GGAGAGGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
12 12 0.36
13 18 0.55
14 3 0.09
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (12 bp):
GAAAAGAAAAAA
Found at i:51483815 original size:50 final size:50
Alignment explanation
Indices: 51483758--51483905 Score: 136
Period size: 50 Copynumber: 3.0 Consensus size: 50
51483748 ATTACAATTT
* *
51483758 AAAAGATTGAAGCCGCAATGGTAAATCTTACTTCCATGGCGATGCAGTGG
1 AAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCATGGCGATGCAGTGG
* * ** * * * * * * * **
51483808 AACAGATTAAAGCTACAACAGCGAATCTTGCTTTCTTGAC-ATTGCAATTT
1 AAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCATGGCGA-TGCAGTGG
*
51483858 AAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCACGGCGATGCAGT
1 AAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCATGGCGATGCAGT
51483906 AGAGTAGATT
Statistics
Matches: 69, Mismatches: 27, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
49 1 0.01
50 67 0.97
51 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (50 bp):
AAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCATGGCGATGCAGTGG
Found at i:51483861 original size:100 final size:100
Alignment explanation
Indices: 51483700--51484039 Score: 425
Period size: 100 Copynumber: 3.4 Consensus size: 100
51483690 TCCCTGACAG
** * * * * *
51483700 TGCAGTGGAGTAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTACAATTTAAAAGAT
1 TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTTCTCGACATTGCAATTTAAAAGAT
* *
51483765 TGAAGCCGCAATGGTAAATCTTACTTCCATGGCGA
66 TGAAGCCGCAACGGTGAATCTTACTTCCATGGCGA
*
51483800 TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTTCTTGACATTGCAATTTAAAAGAT
1 TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTTCTCGACATTGCAATTTAAAAGAT
*
51483865 TGAAGCCGCAACGGTGAATCTTACTTCCACGGCGA
66 TGAAGCCGCAACGGTGAATCTTACTTCCATGGCGA
* ** **
51483900 TGCAGTAGAGTAGATTAAAGCTACAATGGCGAATCTTGC-TTCTCCGACATTGCAATTTAAAAGA
1 TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTTCT-CGACATTGCAATTTAAAAGA
* * * * * *
51483964 TTGAGGTCGCAACGGCGGATCTTACTTCTC-TGGTGG
65 TTGAAGCCGCAACGGTGAATCTTACTTC-CATGGCGA
* *
51484000 TGTA-TGGAACAGATTGAAGCTACAACAGCGAATCTTGCTT
1 TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTT
51484040 CCCCGGCATC
Statistics
Matches: 206, Mismatches: 31, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
99 32 0.16
100 173 0.84
101 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (100 bp):
TGCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTTCTCGACATTGCAATTTAAAAGAT
TGAAGCCGCAACGGTGAATCTTACTTCCATGGCGA
Found at i:51484155 original size:45 final size:45
Alignment explanation
Indices: 51484084--51484776 Score: 904
Period size: 45 Copynumber: 15.4 Consensus size: 45
51484074 ACATTGCAGA
* *
51484084 TCTTGTCTTCCTATATTGGCAACGAAGTAGA-TCGAAGATAGCAAG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAAG
* *
51484129 TCTTATCTTCCTGTATTAGCAGCGAAGTAGACTGAAGATAGCAAG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
51484174 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
* *
51484219 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAAC-AG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
* **
51484263 ATCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-TCAAAGATAATAAG
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAAG
* * * * *
51484309 TTTTGTCTTCCTATATTGGAAGCGAAGTAGACTGAAGATAACAAA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
*
51484354 TCTCGTCTTCCTGTATTGGCAGCGAAGTAGA-TCGAAGATAGCAAG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAAG
* *
51484399 TCTTATCTTCCTGTATTAGCAGCGAAGTAGACTGAAGATAGCAAG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
* *
51484444 TCTTGTCTTCCTGTATTGACAGCGAAGTAGACTGAAGATAAC-AG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
* * *
51484488 ATCTTGTGTTCATATATT-GCTAGCGAAGTAGA-TCGAAGATAGCAAG
1 -TCTTGTCTTCCTGTATTGGC-AGCGAAGTAGACT-GAAGATAGCAAG
*
51484534 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAAC-AG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
* * * *
51484578 ATCTTGTCTTCCTATATTTGCAGTGAGGTAGACTGAAGATAGCAAG
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
* *
51484624 TCTTGTCTTCCTGTATTAGCAGCGAAGTAGACTGAAGATAACATA-
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCA-AG
*
51484669 TCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-TCGAAGATAGCAAG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAAG
* * *
51484714 TCTTGTCTTCCTGTATTAGCAGCAAAGTAGACTGAAGATAAC-AG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
*
51484758 ATCTTGCCTTCCTGTATTG
1 -TCTTGTCTTCCTGTATTG
51484777 ATGGCGAAGC
Statistics
Matches: 573, Mismatches: 55, Indels: 40
0.86 0.08 0.06
Matches are distributed among these distances:
44 14 0.02
45 545 0.95
46 14 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (45 bp):
TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAAG
Found at i:51484963 original size:50 final size:50
Alignment explanation
Indices: 51484815--51484963 Score: 181
Period size: 50 Copynumber: 3.0 Consensus size: 50
51484805 TTTGCAGCAA
* * ** ** * *
51484815 AAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCTGACGGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAATTG
* ** *
51484865 AACAGATTGAAGCTACAACGGCGAATCTTGTTTCCCCAACATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAATTG
*
51484915 AAAAGATTGAAGCTACAACGACGAATCTTACTTCCCCAACATTGCAATT
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAATT
51484964 AAACATATAA
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 83 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAATTG
Found at i:51485032 original size:44 final size:43
Alignment explanation
Indices: 51484984--51485608 Score: 437
Period size: 44 Copynumber: 14.6 Consensus size: 43
51484974 AAGCCAAGCC
* * * *
51484984 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAACCACAGATCT
* * * ** *
51485028 TATCTCTCTGAAGTTGTAGTAGAGCAGATC-GCATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAACCACAGATCT
** * ** *
51485069 TATCTCCCT-AAGCAGTAGTGGAGCAGACAAAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAA-CCA-CAGATCT
*
51485112 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAACCACAGATCT
* * * * *
51485156 TATCTCTCTGAAGTTGCAGTAGAGCAGATC-ACATC-TAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAACCACAGATCT
* * ** *
51485197 TATCTCCCTGAAGTTTCAGTAGAGCAGACAAAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAA-CCA-CAGATCT
*
51485241 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAACCACAGATCT
* * * *
51485285 TATCTCTCTGAAGTTGCAGTTGAGCAGATC-ACATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAACCACAGATCT
* * ** *
51485326 TATCTCCCTGAAGTTTCAATGGAGCAGACAAAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAA-CCA-CAGATCT
*
51485370 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAACCACAGATCT
* * * *
51485414 TATCTCTCTGAAGTTGCAGTAGAGCAGATC-ACATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAACCACAGATCT
* * * ** *
51485455 TATCTCCCTAAAGTTTCAGTGAAGCAGACAAAAGAAACCA-ATCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAA-CCA-CAGATCT
*
51485499 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACATG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAACCACA-GATCT
* ** * * *
51485543 TATCTCTCTGAAGTTGCAGTAAAGCAGATC-ACATCA-AG-CCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAACCACAGATCT
51485584 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
51485609 GGGTTGAAGA
Statistics
Matches: 456, Mismatches: 95, Indels: 63
0.74 0.15 0.10
Matches are distributed among these distances:
39 1 0.00
40 19 0.04
41 123 0.27
42 12 0.03
43 36 0.08
44 245 0.54
45 20 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAACCACAGATCT
Found at i:51485626 original size:129 final size:129
Alignment explanation
Indices: 51484977--51485608 Score: 1054
Period size: 129 Copynumber: 4.9 Consensus size: 129
51484967 CATATAAAAG
* * * *
51484977 CCAAGCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCGTATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
* * **
51485042 TGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT-AAGCAGT-AGTGGAGCAGACAAAAGAAA
66 TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAG-TTTCAGTGGAGCAGACAAAAGAAA
51485105 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
* *
51485170 TGCAGTAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTTCAGTAGAGCAGACAAAAGAAA
66 TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGACAAAAGAAA
51485234 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
* *
51485299 TGCAGTTGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTTCAATGGAGCAGACAAAAGAAA
66 TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGACAAAAGAAA
51485363 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
* *
51485428 TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAAGTTTCAGTGAAGCAGACAAAAGAAA
66 TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGACAAAAGAAA
*
51485492 CCAATCATATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACATG-TCTTATCTCTCTGAAG
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACA-GATCTTATCTCTCTGAAG
* * * *
51485556 TTGCAGTAAAGCAGATCACATCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGC
65 TTGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTTCAGTGGAGC
51485609 GGGTTGAAGA
Statistics
Matches: 476, Mismatches: 25, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
128 95 0.20
129 380 0.80
130 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (129 bp):
CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGT
TGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGACAAAAGAAA
Found at i:51486060 original size:19 final size:19
Alignment explanation
Indices: 51486036--51486082 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
51486026 TGCCTCAGCG
51486036 CTGCACACCTCTGTCACCA
1 CTGCACACCTCTGTCACCA
51486055 CTGCACACCTCTGTCACCA
1 CTGCACACCTCTGTCACCA
51486074 CTGCACACC
1 CTGCACACC
51486083 AGCATCCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.21, C:0.49, G:0.11, T:0.19
Consensus pattern (19 bp):
CTGCACACCTCTGTCACCA
Found at i:51499744 original size:229 final size:231
Alignment explanation
Indices: 51499234--51499765 Score: 761
Period size: 231 Copynumber: 2.3 Consensus size: 231
51499224 AAACGCCACA
* *
51499234 AATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTCTATA
1 AATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTTTGTA
* *
51499299 AAACGCCACTAAATGTTAGGTAATAGCAGCGCACGTAAACAAACGCTGCAAAAAAGTTGATCAAA
66 AAACGCCACTAAAGGTTAGGTAATAGCAGCGCACGTAAACAAACGCCGCAAAAAAGTTGATCAAA
* * * * *
51499364 ATGACAAGGTTTTATTTCTTCGCTTTACTTAATTTAGTGGCGTTTTTTCTAAAAATGTCGCAACT
131 ACGACAAGGTTTCATTTCTTCGCTTTACTTAATTTAGTGGCGTATTTTCTAAAAACGCCGCAACT
*
51499429 TTCGGGTTTTACCGGCGCTTTTCTAAAAGCGCCGCT
196 TTCGGGTTTTACCGGCGCTTTTCCAAAAGCGCCGCT
* * * *
51499465 AGTAAGTTAAGAAAAACGACGTTGTTTTCTGTTCATGTATAGGGACATTAGCGGCGCTTTTTGTA
1 AATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTTTGTA
* * * * *
51499530 AAACGCCGCTAAAGGTTAGGTGATAGCGGCGCATGTAAACAAACGCCGC-ATAAAGTTGATCAAA
66 AAACGCCACTAAAGGTTAGGTAATAGCAGCGCACGTAAACAAACGCCGCAAAAAAGTTGATC-AA
* * *
51499594 AACGGC-AGCGTTTCATTTCTTCGCTTTACTTGATTTCGTGGCG-ATTTT-TAAAAACGCCGCAA
130 AACGACAAG-GTTTCATTTCTTCGCTTTACTTAATTTAGTGGCGTATTTTCTAAAAACGCCGCAA
* *
51499656 CTTTC-GGTCTTTACCGGCGCTTTTCCAAAAGTGTCG-T
194 CTTTCGGGT-TTTACCGGCGCTTTTCCAAAAGCGCCGCT
*
51499693 CAATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGTACATTAGCGGCGCTTTTTGT
1 -AATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTTTGT
51499758 AAAACGCC
65 AAAACGCC
51499766 TCAAATATGT
Statistics
Matches: 268, Mismatches: 29, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
228 4 0.01
229 108 0.40
230 17 0.06
231 139 0.52
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (231 bp):
AATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTTTGTA
AAACGCCACTAAAGGTTAGGTAATAGCAGCGCACGTAAACAAACGCCGCAAAAAAGTTGATCAAA
ACGACAAGGTTTCATTTCTTCGCTTTACTTAATTTAGTGGCGTATTTTCTAAAAACGCCGCAACT
TTCGGGTTTTACCGGCGCTTTTCCAAAAGCGCCGCT
Found at i:51500274 original size:21 final size:20
Alignment explanation
Indices: 51500248--51500286 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
51500238 GTTTGTGCAT
*
51500248 GGTTTATGGTTCAAGGGTTGG
1 GGTTTAAGGTT-AAGGGTTGG
51500269 GGTTTAAGGTTAAGGGTT
1 GGTTTAAGGTTAAGGGTT
51500287 TAGGATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.18, C:0.03, G:0.41, T:0.38
Consensus pattern (20 bp):
GGTTTAAGGTTAAGGGTTGG
Found at i:51500379 original size:7 final size:7
Alignment explanation
Indices: 51500358--51500562 Score: 64
Period size: 7 Copynumber: 28.7 Consensus size: 7
51500348 TGAAGGGTGA
*
51500358 AGGGTTA
1 AGGGTTT
*
51500365 AGGCTTT
1 AGGGTTT
51500372 AGGGTTT
1 AGGGTTT
*
51500379 AATGG-TT
1 -AGGGTTT
*
51500386 AGAGTTT
1 AGGGTTT
*
51500393 AAGGTTT
1 AGGGTTT
*
51500400 AGAGGTTA
1 AG-GGTTT
* *
51500408 AGGATTA
1 AGGGTTT
*
51500415 AGGG-AT
1 AGGGTTT
51500421 AGGGGTTT
1 A-GGGTTT
51500429 AGGGTTT
1 AGGGTTT
*
51500436 AGGGTATA
1 AGGGT-TT
51500444 AGGG-TT
1 AGGGTTT
51500450 -GGGTTTT
1 AGGG-TTT
*
51500457 AAGGTTT
1 AGGGTTT
**
51500464 -GTGGACT
1 AG-GGTTT
*
51500471 AGGGATT
1 AGGGTTT
51500478 ATGGGTTT
1 A-GGGTTT
*
51500486 AGGGATT
1 AGGGTTT
*
51500493 GGGGTTT
1 AGGGTTT
51500500 ATGGG-TT
1 A-GGGTTT
51500507 AGGG-TT
1 AGGGTTT
**
51500513 AAAGTTT
1 AGGGTTT
*
51500520 AAGGTTT
1 AGGGTTT
* *
51500527 AAGTGTTAA
1 -AGGGTT-T
*
51500536 AGTGTTT
1 AGGGTTT
51500543 AGGGTTT
1 AGGGTTT
51500550 AGGGTTTT
1 AGGG-TTT
51500558 AGGGT
1 AGGGT
51500563 AACTGGTTTA
Statistics
Matches: 146, Mismatches: 35, Indels: 34
0.68 0.16 0.16
Matches are distributed among these distances:
5 3 0.02
6 11 0.08
7 87 0.60
8 45 0.31
ACGTcount: A:0.23, C:0.01, G:0.38, T:0.38
Consensus pattern (7 bp):
AGGGTTT
Found at i:51503026 original size:21 final size:21
Alignment explanation
Indices: 51503002--51503117 Score: 89
Period size: 21 Copynumber: 5.5 Consensus size: 21
51502992 CCTCCATAAT
51503002 AACTTACATAACTTATATATA
1 AACTTACATAACTTATATATA
* * *
51503023 AACTTAAATAAAATTTTTATATA
1 AACTTACAT--AACTTATATATA
* *
51503046 AAC-TA-ATTACATA-ATGCAT-
1 AACTTACATAACTTATAT--ATA
51503065 AACTTACATAACTTATATATA
1 AACTTACATAACTTATATATA
* *
51503086 AACTTGCATAACTTACATA-A
1 AACTTACATAACTTATATATA
51503106 TAACTTACATAA
1 -AACTTACATAA
51503118 TACATAGCCT
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.03
19 5 0.07
20 7 0.09
21 43 0.58
22 4 0.05
23 13 0.18
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (21 bp):
AACTTACATAACTTATATATA
Found at i:51503076 original size:9 final size:9
Alignment explanation
Indices: 51503062--51503594 Score: 266
Period size: 9 Copynumber: 62.0 Consensus size: 9
51503052 TTACATAATG
51503062 CATAACTTA
1 CATAACTTA
51503071 CATAACTTATA
1 CATAAC-T-TA
* *
51503082 TATAAACTTG
1 CAT-AACTTA
51503092 CATAACTTA
1 CATAACTTA
51503101 CATAATAACTTA
1 C---ATAACTTA
51503113 CATAA--TA
1 CATAACTTA
* *
51503120 CATAGCCTA
1 CATAACTTA
51503129 CATAACTTA
1 CATAACTTA
*
51503138 CATGA--TA
1 CATAACTTA
*
51503145 CACAACTTATTA
1 CATAAC---TTA
51503157 CATAACTTA
1 CATAACTTA
*
51503166 AATAACTTA
1 CATAACTTA
51503175 CATAA--TA
1 CATAACTTA
*
51503182 CATAACTTT
1 CATAACTTA
51503191 CATAACTTA
1 CATAACTTA
*
51503200 CATTA--TA
1 CATAACTTA
*
51503207 CACAACTTA
1 CATAACTTA
*
51503216 CATAAATTA
1 CATAACTTA
*
51503225 -AT-ATTATA
1 CATAACT-TA
*
51503233 CACAACTTA
1 CATAACTTA
51503242 CATAA--TA
1 CATAACTTA
*
51503249 CATTACTTA
1 CATAACTTA
51503258 CATAACTTA
1 CATAACTTA
*
51503267 CATTA--TA
1 CATAACTTA
*
51503274 CACAACTTA
1 CATAACTTA
*
51503283 CATAAATTA
1 CATAACTTA
*
51503292 -AT-ATTATA
1 CATAACT-TA
*
51503300 CACAACTTA
1 CATAACTTA
51503309 CATAA--TA
1 CATAACTTA
*
51503316 CATTACTTA
1 CATAACTTA
51503325 CATAACTTA
1 CATAACTTA
*
51503334 CATTA--TA
1 CATAACTTA
*
51503341 CACAACTTA
1 CATAACTTA
51503350 CATAACTTA
1 CATAACTTA
** *
51503359 TTTAATATTATA
1 CAT-A-ACT-TA
51503371 CATAACTTA
1 CATAACTTA
51503380 CATAA--TA
1 CATAACTTA
51503387 CATAACTTA
1 CATAACTTA
*
51503396 TATAACTTA
1 CATAACTTA
51503405 CATAA--TA
1 CATAACTTA
51503412 CATAACTTA
1 CATAACTTA
51503421 CATAAC-T-
1 CATAACTTA
*
51503428 CACAACTTA
1 CATAACTTA
51503437 CATAACTTA
1 CATAACTTA
* *
51503446 AATACATTATA
1 CATA-ACT-TA
**
51503457 CCCAACTTA
1 CATAACTTA
51503466 CAT-A--T-
1 CATAACTTA
51503471 -ATAACTTA
1 CATAACTTA
*
51503479 CATAGCTTA
1 CATAACTTA
*
51503488 CAT-TC-TA
1 CATAACTTA
*
51503495 CACAACTTA
1 CATAACTTA
**
51503504 CATAAGATA
1 CATAACTTA
51503513 CATAA--TA
1 CATAACTTA
51503520 CATAACTTA
1 CATAACTTA
51503529 CATAA--TA
1 CATAACTTA
*
51503536 CATAGCTTA
1 CATAACTTA
51503545 CATAA--TA
1 CATAACTTA
*
51503552 CACAACTTA
1 CATAACTTA
*
51503561 CATAGCTTA
1 CATAACTTA
51503570 CATAA--TA
1 CATAACTTA
*
51503577 CATGACTTA
1 CATAACTTA
*
51503586 CATAGCTTA
1 CATAACTTA
51503595 ATTATACTTA
Statistics
Matches: 392, Mismatches: 75, Indels: 114
0.67 0.13 0.20
Matches are distributed among these distances:
4 2 0.01
5 1 0.00
6 1 0.00
7 98 0.25
8 13 0.03
9 229 0.58
10 15 0.04
11 11 0.03
12 22 0.06
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:51503108 original size:12 final size:12
Alignment explanation
Indices: 51503093--51503119 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51503083 ATAAACTTGC
51503093 ATAACTTACATA
1 ATAACTTACATA
51503105 ATAACTTACATA
1 ATAACTTACATA
51503117 ATA
1 ATA
51503120 CATAGCCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:51503189 original size:25 final size:25
Alignment explanation
Indices: 51503155--51503533 Score: 195
Period size: 25 Copynumber: 14.6 Consensus size: 25
51503145 CACAACTTAT
*
51503155 TACATAACTTAAATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
51503180 TACATAACTTTCATAACTTACATTA
1 TACATAACTTACATAACTTACATAA
* *
51503205 TACACAACTTACATAAATTA-ATATTA
1 TACATAACTTACATAACTTACATA--A
* *
51503231 TACACAACTTACATAATACATTACTTACA
1 TACATAACTTACAT-A-AC-TTACATA-A
* * *
51503260 TAACTTACATTATACACAACTTACATAAA
1 T-ACATA-ACT-TACATAACTTACAT-AA
** * *
51503289 TTAAT-ATTATACACAACTTACATAA
1 TACATAACT-TACATAACTTACATAA
* *
51503314 TACATTACTTACATAACTTACATTA
1 TACATAACTTACATAACTTACATAA
* *
51503339 TACACAACTTACATAACTTATTTAATATTA
1 TACATAACTTACATAACTTA---CATA--A
51503369 TACATAACTTACATAA--TACATAA
1 TACATAACTTACATAACTTACATAA
*
51503392 CTTATATAACTTACATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
*
51503417 CTTACATAAC-T-CACAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
* * **
51503442 CTTAAATACATTATACCCAACTTACAT-A
1 --TACATA-ACT-TACATAACTTACATAA
* **
51503470 T--ATAACTTACATAGCTTACATTC
1 TACATAACTTACATAACTTACATAA
* **
51503493 TACACAACTTACATAAGATACATAA
1 TACATAACTTACATAACTTACATAA
51503518 TACATAACTTACATAA
1 TACATAACTTACATAA
51503534 TACATAGCTT
Statistics
Matches: 280, Mismatches: 47, Indels: 54
0.73 0.12 0.14
Matches are distributed among these distances:
22 11 0.04
23 8 0.03
24 6 0.02
25 155 0.55
26 37 0.13
27 1 0.00
28 8 0.03
29 23 0.08
30 24 0.09
31 3 0.01
32 4 0.01
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.34
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:51503189 original size:37 final size:36
Alignment explanation
Indices: 51503069--51503574 Score: 182
Period size: 37 Copynumber: 14.8 Consensus size: 36
51503059 ATGCATAACT
* *
51503069 TACATAACTTATATATAAACTTGCATAACTTACATAA
1 TACATAACTTATACAT-AACTTACATAACTTACATAA
* * * * *
51503106 TA-ACTTACATAATACATAGCCTACATAACTTACATGA
1 TACA-TAAC-TTATACATAACTTACATAACTTACATAA
* *
51503143 TACACAACTTATTACATAACTTAAATAACTTACATAA
1 TACATAACTTA-TACATAACTTACATAACTTACATAA
* *
51503180 TACATAACTT-T-CATAACTTACATTA--TACACAA
1 TACATAACTTATACATAACTTACATAACTTACATAA
* * * *
51503212 CTTACATAAATTA-ATATTA--TACACAACTTACATAA
1 --TACATAACTTATACATAACTTACATAACTTACATAA
* * *
51503247 TACATTAC-T-TACATAACTTACATTA--TACACAA
1 TACATAACTTATACATAACTTACATAACTTACATAA
* * * *
51503279 CTTACATAAATTA-ATATTA--TACACAACTTACATAA
1 --TACATAACTTATACATAACTTACATAACTTACATAA
* * *
51503314 TACATTAC-T-TACATAACTTACATTA--TACACAA
1 TACATAACTTATACATAACTTACATAACTTACATAA
*
51503346 CTTACATAACTTATTTA-AT-ATTATACATAACTTACATAA
1 --TACATAACTTA--TACATAACT-TACATAACTTACATAA
51503385 TACATAACTTAT--ATAACTTACATAA--TACATAA
1 TACATAACTTATACATAACTTACATAACTTACATAA
*
51503417 CTTACATAAC---T-CACAACTTACATAACTT--A-AA
1 --TACATAACTTATACATAACTTACATAACTTACATAA
** * *
51503448 TAC---A-TTATACCCAACTTACATATA-TAACTTACA
1 TACATAACTTATACATAACTTACATA-ACTTACATA-A
* * * **
51503481 TAGC-TTACATTCTACACAACTTACATAAGATACATAA
1 TA-CATAAC-TTATACATAACTTACATAACTTACATAA
*
51503518 TACATAAC-T-TACATAA--TACATAGCTTACATAA
1 TACATAACTTATACATAACTTACATAACTTACATAA
* *
51503550 TACACAAC-T-TACATAGCTTACATAA
1 TACATAACTTATACATAACTTACATAA
51503575 TACATGACTT
Statistics
Matches: 347, Mismatches: 67, Indels: 113
0.66 0.13 0.21
Matches are distributed among these distances:
26 1 0.00
28 1 0.00
29 16 0.05
30 1 0.00
31 3 0.01
32 76 0.22
33 25 0.07
34 75 0.22
35 26 0.07
36 7 0.02
37 81 0.23
38 29 0.08
39 6 0.02
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.33
Consensus pattern (36 bp):
TACATAACTTATACATAACTTACATAACTTACATAA
Found at i:51503264 original size:67 final size:67
Alignment explanation
Indices: 51503107--51503425 Score: 434
Period size: 67 Copynumber: 4.8 Consensus size: 67
51503097 CTTACATAAT
* * * * *
51503107 AACTTACATAATACA-TAGCCTACATAACTTACATGATACACAACTTA-TTACA-TAA-CTTA-A
1 AACTTACATAATACATTA-CTTACATAACTTACATTATACACAACTTACATAAATTAATATTATA
*
51503167 -AT
65 CAC
* *
51503169 AACTTACATAATACATAACTTTCATAACTTACATTATACACAACTTACATAAATTAATATTATAC
1 AACTTACATAATACATTACTTACATAACTTACATTATACACAACTTACATAAATTAATATTATAC
51503234 AC
66 AC
51503236 AACTTACATAATACATTACTTACATAACTTACATTATACACAACTTACATAAATTAATATTATAC
1 AACTTACATAATACATTACTTACATAACTTACATTATACACAACTTACATAAATTAATATTATAC
51503301 AC
66 AC
51503303 AACTTACATAATACATTACTTACATAACTTACATTATACACAACTTACATAACTTATTTAATATT
1 AACTTACATAATACATTACTTACATAACTTACATTATACACAACTTACATAA---A-TTAATATT
*
51503368 ATACAT
62 ATACAC
* * * *
51503374 AACTTACATAATACATAACTTATATAACTTACATAATACATAACTTACATAA
1 AACTTACATAATACATTACTTACATAACTTACATTATACACAACTTACATAA
51503426 CTCACAACTT
Statistics
Matches: 232, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
62 41 0.18
63 4 0.02
64 3 0.01
65 3 0.01
66 1 0.00
67 118 0.51
70 1 0.00
71 61 0.26
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (67 bp):
AACTTACATAATACATTACTTACATAACTTACATTATACACAACTTACATAAATTAATATTATAC
AC
Found at i:51503562 original size:25 final size:25
Alignment explanation
Indices: 51503534--51503594 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
51503524 ACTTACATAA
51503534 TACATAGCTTACATAATACACAACT
1 TACATAGCTTACATAATACACAACT
**
51503559 TACATAGCTTACATAATACATGACT
1 TACATAGCTTACATAATACACAACT
51503584 TACATAGCTTA
1 TACATAGCTTA
51503595 ATTATACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (25 bp):
TACATAGCTTACATAATACACAACT
Found at i:51503579 original size:16 final size:16
Alignment explanation
Indices: 51503127--51503564 Score: 159
Period size: 16 Copynumber: 26.9 Consensus size: 16
51503117 ATACATAGCC
*
51503127 TACATAACTTACATGA
1 TACATAACTTACATAA
*
51503143 TACACAACTTATTACATAA
1 TACATAAC---TTACATAA
*
51503162 CTTAAATAACTTACATAA
1 --TACATAACTTACATAA
*
51503180 TACATAACTTTCATAA
1 TACATAACTTACATAA
* *
51503196 CTTACATTA--TACACAA
1 --TACATAACTTACATAA
*
51503212 CTTACATAAATTA-ATATTA
1 --TACATAACTTACATA--A
*
51503231 TACACAACTTACATAA
1 TACATAACTTACATAA
*
51503247 TACATTACTTACATAA
1 TACATAACTTACATAA
* *
51503263 CTTACATTA--TACACAA
1 --TACATAACTTACATAA
*
51503279 CTTACATAAATTA-ATATTA
1 --TACATAACTTACATA--A
*
51503298 TACACAACTTACATAA
1 TACATAACTTACATAA
*
51503314 TACATTACTTACATAA
1 TACATAACTTACATAA
* *
51503330 CTTACATTA--TACACAA
1 --TACATAACTTACATAA
*
51503346 CTTACATAACTTATTTAATATTA
1 --TACATAACTTA---CATA--A
51503369 TACATAACTTACATAA
1 TACATAACTTACATAA
51503385 TACATAAC-T---T-A
1 TACATAACTTACATAA
51503396 T--ATAACTTACATAA
1 TACATAACTTACATAA
51503410 TACATAACTTACATAA
1 TACATAACTTACATAA
*
51503426 CT-CACAACTTACAT-A
1 -TACATAACTTACATAA
* * *
51503441 -ACTTAA-ATACATTA
1 TACATAACTTACATAA
**
51503455 TACCCAACTTACAT-A
1 TACATAACTTACATAA
*
51503470 T--ATAACTTACATAGCT
1 TACATAACTTACATA--A
* *
51503486 TACAT-TC-TACACAA
1 TACATAACTTACATAA
**
51503500 CTTACATAAGATACATAA
1 --TACATAACTTACATAA
51503518 TACATAACTTACATAA
1 TACATAACTTACATAA
*
51503534 TACATAGCTTACATAA
1 TACATAACTTACATAA
*
51503550 TACACAACTTACATA
1 TACATAACTTACATA
51503565 GCTTACATAA
Statistics
Matches: 325, Mismatches: 48, Indels: 98
0.69 0.10 0.21
Matches are distributed among these distances:
9 5 0.02
10 1 0.00
11 2 0.01
12 1 0.00
13 15 0.05
14 6 0.02
15 8 0.02
16 183 0.56
17 24 0.07
18 51 0.16
19 9 0.03
21 19 0.06
23 1 0.00
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:51505001 original size:43 final size:43
Alignment explanation
Indices: 51504953--51505246 Score: 407
Period size: 43 Copynumber: 6.9 Consensus size: 43
51504943 CTTCCAAAAT
* * * *
51504953 TAGCGGCGTTTGTGGAAAAAGTGCCACTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
51504996 TAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCAT-GTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
*
51505038 TAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
* * *
51505081 TAGCGGCGTTTTTGGGAAAAGCGCCGCTACAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
51505124 TAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
51505167 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
*
51505210 TAGCGGCGTTTTTCTGG---AAGCGCCGCTAAAGGTCATG
1 TAGCGGCG--TTTGTGGAAAAAGCGCCGCTAAAGGTCATG
51505247 AACTTTAGCG
Statistics
Matches: 228, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
42 57 0.25
43 165 0.72
45 6 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTA
Found at i:51505068 original size:85 final size:86
Alignment explanation
Indices: 51504953--51505262 Score: 412
Period size: 85 Copynumber: 3.6 Consensus size: 86
51504943 CTTCCAAAAT
* * * **
51504953 TAGCGGCGTTTGTGGAAAAAGTGCCACTAAAAGTCATGATCTATAGCGGCGTTTGTGAAAAAAGC
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
*
51505018 ACCGCTAAAGGTCAT-GTCTA
66 GCCGCTAAAGGTCATGGTCTA
* * *
51505038 TAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTTTGGGAAAAGC
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
*
51505103 GCCGCTACAGGTCATGGTCTA
66 GCCGCTAAAGGTCATGGTCTA
* * *
51505124 TAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
*
51505189 GCCACTAAAGGTCATGGTCTA
66 GCCGCTAAAGGTCATGGTCTA
* * * *
51505210 TAGCGGCGTTTTTCTGG---AAGCGCCGCTAAAGGTCATGAACTTTAGCGGTGTTT
1 TAGCGGCG--TTTGTGGAAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTT
51505263 ATTTCTAAAA
Statistics
Matches: 200, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
85 102 0.51
86 92 0.46
88 6 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
GCCGCTAAAGGTCATGGTCTA
Found at i:51513555 original size:16 final size:16
Alignment explanation
Indices: 51513534--51513564 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51513524 AGGAACACTT
51513534 GATTTTTATTAATTTA
1 GATTTTTATTAATTTA
*
51513550 GATTTTTTTTAATTT
1 GATTTTTATTAATTT
51513565 TATTTTATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
GATTTTTATTAATTTA
Found at i:51514994 original size:21 final size:21
Alignment explanation
Indices: 51514968--51515049 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
51514958 CAAGTGGATT
**
51514968 AGCTCTTTTGAGCTTCTGTTA
1 AGCTCTTACGAGCTTCTGTTA
* *
51514989 AGCTCTTACGAGCTT-TAATTC
1 AGCTCTTACGAGCTTCT-GTTA
* *
51515010 AGCTCTTACAAGCTTTTGTTA
1 AGCTCTTACGAGCTTCTGTTA
**
51515031 AGCTCTTTTGAGCTTCTGT
1 AGCTCTTACGAGCTTCTGT
51515050 GGTGTGTTCG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTA
Found at i:51520206 original size:7 final size:7
Alignment explanation
Indices: 51520196--51520225 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
51520186 CCTTTTTAGA
51520196 TTTTTATT
1 TTTTTA-T
51520204 TTTTTAT
1 TTTTTAT
51520211 TTTTTAT
1 TTTTTAT
51520218 TTTTTAT
1 TTTTTAT
51520225 T
1 T
51520226 CTTATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.73
8 6 0.27
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:51520212 original size:14 final size:14
Alignment explanation
Indices: 51520195--51520232 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
51520185 TCCTTTTTAG
51520195 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
51520209 ATTTTT-TATTTTTT
1 ATTTTTAT-TTTTTT
*
51520223 ATTCTTATTT
1 ATTTTTATTT
51520233 ATTTCTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:51520465 original size:11 final size:11
Alignment explanation
Indices: 51520436--51520472 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
51520426 TAAGTCTTGT
51520436 TTCTTTTAGTA
1 TTCTTTTAGTA
*
51520447 TTATTTTTAGTA
1 TT-CTTTTAGTA
51520459 TTCTTTTAGTA
1 TTCTTTTAGTA
51520470 TTC
1 TTC
51520473 ATATCATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (11 bp):
TTCTTTTAGTA
Found at i:51521844 original size:6 final size:6
Alignment explanation
Indices: 51521829--51521909 Score: 74
Period size: 6 Copynumber: 13.2 Consensus size: 6
51521819 ATTTGTTTTG
* * * *
51521829 TTTA-T TTTATT TTTATT TTTAAT TTTAAT TTTAAT TTTATT TTAATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
51521876 TTAATT TTAATT TTTAGTTGT TTTATT TTTATT T
1 TTTATT TTTATT TTTA--T-T TTTATT TTTATT T
51521910 CTTAGACTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
5 4 0.06
6 57 0.84
7 1 0.01
8 1 0.01
9 5 0.07
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:51521854 original size:12 final size:11
Alignment explanation
Indices: 51521829--51521889 Score: 86
Period size: 12 Copynumber: 5.3 Consensus size: 11
51521819 ATTTGTTTTG
*
51521829 TTTATTTTATT
1 TTTATTTTAAT
51521840 TTTATTTTTAAT
1 TTTA-TTTTAAT
51521852 TTTAATTTTAAT
1 TTT-ATTTTAAT
51521864 TTTATTTTAAT
1 TTTATTTTAAT
51521875 TTTAATTTTAAT
1 TTT-ATTTTAAT
51521887 TTT
1 TTT
51521890 TAGTTGTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
11 15 0.33
12 30 0.65
13 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTTAAT
Found at i:51521855 original size:23 final size:24
Alignment explanation
Indices: 51521832--51521909 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
51521822 TGTTTTGTTT
51521832 ATTTTATTTTTATTTTTAATTTTA
1 ATTTTATTTTTATTTTTAATTTTA
*
51521856 ATTTTAATTTTA-TTTTAATTTTA
1 ATTTTATTTTTATTTTTAATTTTA
* *
51521879 ATTTTAATTTTTAGTTGTTTTATTTTT
1 ATTTT-ATTTTTA-TT-TTTAATTTTA
51521906 ATTT
1 ATTT
51521910 CTTAGACTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
23 16 0.35
24 17 0.37
26 1 0.02
27 12 0.26
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (24 bp):
ATTTTATTTTTATTTTTAATTTTA
Found at i:51533111 original size:21 final size:21
Alignment explanation
Indices: 51533085--51533126 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
51533075 GTTGTTGACC
*
51533085 AGGAAGTTGCTGCTGTAGAAG
1 AGGAAGTTGCTGCTGAAGAAG
*
51533106 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGCTGCTGAAGAAG
51533127 TTGTTGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.38, T:0.24
Consensus pattern (21 bp):
AGGAAGTTGCTGCTGAAGAAG
Found at i:51546088 original size:40 final size:40
Alignment explanation
Indices: 51546043--51546124 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
51546033 GGCGAGGGAA
*
51546043 AGAGAAATAATGAGGTGAGCTTGTAAATAAATTGGACCCG
1 AGAGAAATAAGGAGGTGAGCTTGTAAATAAATTGGACCCG
*
51546083 AGAGAAATAAGGAGGTGAGCTTGTAAATAAATTGGACGCG
1 AGAGAAATAAGGAGGTGAGCTTGTAAATAAATTGGACCCG
51546123 AG
1 AG
51546125 TAGGGAACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (40 bp):
AGAGAAATAAGGAGGTGAGCTTGTAAATAAATTGGACCCG
Found at i:51548688 original size:12 final size:12
Alignment explanation
Indices: 51548671--51548698 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
51548661 CATGACTTAA
51548671 AAATTTAACATT
1 AAATTTAACATT
51548683 AAATTTAACATT
1 AAATTTAACATT
51548695 AAAT
1 AAAT
51548699 ATGCCCATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (12 bp):
AAATTTAACATT
Found at i:51559058 original size:12 final size:13
Alignment explanation
Indices: 51559041--51559069 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51559031 AGAGTTAGGG
51559041 TTTAAA-TATTTA
1 TTTAAAGTATTTA
51559053 TTTAAAGTATTTA
1 TTTAAAGTATTTA
51559066 TTTA
1 TTTA
51559070 GGTCATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTTAAAGTATTTA
Found at i:51560228 original size:15 final size:15
Alignment explanation
Indices: 51560208--51560236 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51560198 CAATGAAAAG
51560208 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
51560223 GATGAAAAGGTTAT
1 GATGAAAAGGTTAT
51560237 TGATTGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.28, T:0.28
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:51566141 original size:15 final size:15
Alignment explanation
Indices: 51566121--51566153 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
51566111 ATTTCCTCAC
*
51566121 ATTTTCATTTCTAAA
1 ATTTTCATATCTAAA
51566136 ATTTTCATATCTAAA
1 ATTTTCATATCTAAA
51566151 ATT
1 ATT
51566154 ACTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTTCATATCTAAA
Found at i:51569212 original size:45 final size:45
Alignment explanation
Indices: 51569163--51569363 Score: 244
Period size: 45 Copynumber: 4.5 Consensus size: 45
51569153 TCCATAGTGC
* * * * *
51569163 CTTTCAACCATGGTCTTA-TCCATTTGATTCATGATGCCATAGCAT
1 CTTTCAGCCATGGTCTTACTCGA-TAGAATCATGATGCCATAACAT
*
51569208 CTTTCAGCTAT-GTCTTACTCGATAGAATCATGATGCCATAACAT
1 CTTTCAGCCATGGTCTTACTCGATAGAATCATGATGCCATAACAT
* * *
51569252 CTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGTCATAACAT
1 CTTTCAGCCATGGTCTTACTCGATAGAATCATGATGCCATAACAT
* * * *
51569297 CTTTCAGTCATGGTCTTACTTGATAGAATCATGATGCGATAACGT
1 CTTTCAGCCATGGTCTTACTCGATAGAATCATGATGCCATAACAT
* *
51569342 CTTTCAGTCATGGTCTTGCTCG
1 CTTTCAGCCATGGTCTTACTCG
51569364 TTTCTAGTAT
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
44 34 0.25
45 103 0.75
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (45 bp):
CTTTCAGCCATGGTCTTACTCGATAGAATCATGATGCCATAACAT
Found at i:51569240 original size:44 final size:45
Alignment explanation
Indices: 51569191--51569363 Score: 260
Period size: 45 Copynumber: 3.9 Consensus size: 45
51569181 TCCATTTGAT
*
51569191 TCATGATGCCATAGCATCTTTCAG-CTAT-GTCTTACTCGATAGAA
1 TCATGATGCCATAACATCTTTCAGTC-ATGGTCTTACTCGATAGAA
51569235 TCATGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
1 TCATGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
* * *
51569280 TCGTGATGTCATAACATCTTTCAGTCATGGTCTTACTTGATAGAA
1 TCATGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
* * *
51569325 TCATGATGCGATAACGTCTTTCAGTCATGGTCTTGCTCG
1 TCATGATGCCATAACATCTTTCAGTCATGGTCTTACTCG
51569364 TTTCTAGTAT
Statistics
Matches: 117, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
44 25 0.21
45 92 0.79
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (45 bp):
TCATGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
Found at i:51571825 original size:19 final size:20
Alignment explanation
Indices: 51571788--51571826 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
51571778 TTGTCTAAAA
*
51571788 AAAGGAAAAGAAAAGGTTGG
1 AAAGGAAAAGAAAAAGTTGG
*
51571808 AAAGTAAAA-AAAAAGTTGG
1 AAAGGAAAAGAAAAAGTTGG
51571827 GGAGGCCGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.13
Consensus pattern (20 bp):
AAAGGAAAAGAAAAAGTTGG
Found at i:51575605 original size:20 final size:20
Alignment explanation
Indices: 51575580--51575622 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
51575570 CACATTCAGT
* *
51575580 ATTTTCGGTTTGATTTATTA
1 ATTTTCAGTTTAATTTATTA
51575600 ATTTTCAGTTTAATTTATTA
1 ATTTTCAGTTTAATTTATTA
51575620 ATT
1 ATT
51575623 ATCTTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (20 bp):
ATTTTCAGTTTAATTTATTA
Found at i:51578176 original size:9 final size:10
Alignment explanation
Indices: 51578153--51578177 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51578143 TCAATATATA
51578153 TTTTTTATTC
1 TTTTTTATTC
51578163 TTTTTTATTC
1 TTTTTTATTC
51578173 TTTTT
1 TTTTT
51578178 CTCTCTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTATTC
Found at i:51587580 original size:18 final size:18
Alignment explanation
Indices: 51587554--51587596 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
51587544 GACTGGGAAA
* *
51587554 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
51587572 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
51587590 AGGATAC
1 AGGATAC
51587597 GCACTTGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:51588193 original size:7 final size:7
Alignment explanation
Indices: 51588183--51588207 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51588173 TTATATACAT
51588183 AATACTA
1 AATACTA
51588190 AATACTA
1 AATACTA
51588197 AATACTA
1 AATACTA
51588204 AATA
1 AATA
51588208 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:51590303 original size:27 final size:27
Alignment explanation
Indices: 51590244--51590305 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
51590234 AAGTTTAAAT
*
51590244 TTATTATATTATTTAAATATTAATGTA
1 TTATTATATTATTTAAATATTAATATA
* *
51590271 TT-TTATATATTTTTAAAT-TTTATATA
1 TTATTATAT-TATTTAAATATTAATATA
51590297 TTATTATAT
1 TTATTATAT
51590306 GTTATGAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTATTATATTATTTAAATATTAATATA
Found at i:51590406 original size:51 final size:51
Alignment explanation
Indices: 51590333--51590430 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 51
51590323 ATTTTTGAAT
* * * *
51590333 TTTTTTAGAATTATGATCAAATTCAGATCATTTGTAAATTTTGAGGGTTAC
1 TTTTTTAAAATTATAATCAAATTCAGATAATATGTAAATTTTGAGGGTTAC
***
51590384 TTTTTTAAAATTATAA-CTAAATTGTTATAATATGTAAATTTTGAGGG
1 TTTTTTAAAATTATAATC-AAATTCAGATAATATGTAAATTTTGAGGG
51590431 CTAAATTTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.03
51 38 0.97
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (51 bp):
TTTTTTAAAATTATAATCAAATTCAGATAATATGTAAATTTTGAGGGTTAC
Found at i:51590791 original size:21 final size:21
Alignment explanation
Indices: 51590766--51590810 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
51590756 TAAGTAATTG
*
51590766 TAAATTTTAAGAAAGGTCTTT
1 TAAATTTTAAGAAAGGTCCTT
51590787 TAAATTTTAAGAAAGGTCCTT
1 TAAATTTTAAGAAAGGTCCTT
51590808 TAA
1 TAA
51590811 GTAGATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (21 bp):
TAAATTTTAAGAAAGGTCCTT
Found at i:51604206 original size:26 final size:24
Alignment explanation
Indices: 51604153--51604206 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
51604143 AGTATCAAGT
*
51604153 TATTTTAATTATGATTTTTTAAAA
1 TATTTTAATTATGATTTTGTAAAA
*
51604177 -ATTTTAATTATTATGTTTGTAAACA
1 TATTTTAATTATGAT-TTTGTAAA-A
51604202 TATTT
1 TATTT
51604207 ATTAACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 1 0.04
26 4 0.16
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (24 bp):
TATTTTAATTATGATTTTGTAAAA
Found at i:51606484 original size:117 final size:117
Alignment explanation
Indices: 51606341--51606691 Score: 702
Period size: 117 Copynumber: 3.0 Consensus size: 117
51606331 GAATTAGTTC
51606341 GACCTAACTACTACGCCTCTAGTTATTGAGGTAAGTTCGTATGAACTTTTATCGTGTTTATGTTA
1 GACCTAACTACTACGCCTCTAGTTATTGAGGTAAGTTCGTATGAACTTTTATCGTGTTTATGTTA
51606406 TTTAAATTGAATGTTATTATGTTATTTTTAATGTAAGTGGATTGATATATAT
66 TTTAAATTGAATGTTATTATGTTATTTTTAATGTAAGTGGATTGATATATAT
51606458 GACCTAACTACTACGCCTCTAGTTATTGAGGTAAGTTCGTATGAACTTTTATCGTGTTTATGTTA
1 GACCTAACTACTACGCCTCTAGTTATTGAGGTAAGTTCGTATGAACTTTTATCGTGTTTATGTTA
51606523 TTTAAATTGAATGTTATTATGTTATTTTTAATGTAAGTGGATTGATATATAT
66 TTTAAATTGAATGTTATTATGTTATTTTTAATGTAAGTGGATTGATATATAT
51606575 GACCTAACTACTACGCCTCTAGTTATTGAGGTAAGTTCGTATGAACTTTTATCGTGTTTATGTTA
1 GACCTAACTACTACGCCTCTAGTTATTGAGGTAAGTTCGTATGAACTTTTATCGTGTTTATGTTA
51606640 TTTAAATTGAATGTTATTATGTTATTTTTAATGTAAGTGGATTGATATATAT
66 TTTAAATTGAATGTTATTATGTTATTTTTAATGTAAGTGGATTGATATATAT
51606692 AAACATATCA
Statistics
Matches: 234, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 234 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (117 bp):
GACCTAACTACTACGCCTCTAGTTATTGAGGTAAGTTCGTATGAACTTTTATCGTGTTTATGTTA
TTTAAATTGAATGTTATTATGTTATTTTTAATGTAAGTGGATTGATATATAT
Found at i:51616968 original size:20 final size:20
Alignment explanation
Indices: 51616943--51616987 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
51616933 GCTATGTGGC
51616943 TAGGCTATGTGGAATACCTT
1 TAGGCTATGTGGAATACCTT
*
51616963 TAGGCTGTGTGGAATACCTT
1 TAGGCTATGTGGAATACCTT
*
51616983 CAGGC
1 TAGGC
51616988 CGTGTGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (20 bp):
TAGGCTATGTGGAATACCTT
Found at i:51616992 original size:20 final size:20
Alignment explanation
Indices: 51616950--51616993 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
51616940 GGCTAGGCTA
* *
51616950 TGTGGAATACCTTTAGGCTG
1 TGTGGAATACCTTCAGGCCG
51616970 TGTGGAATACCTTCAGGCCG
1 TGTGGAATACCTTCAGGCCG
51616990 TGTG
1 TGTG
51616994 ACATTCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (20 bp):
TGTGGAATACCTTCAGGCCG
Found at i:51619808 original size:23 final size:24
Alignment explanation
Indices: 51619760--51619806 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
51619750 TGAGTATGTT
*
51619760 TGATTGTATTTTGAATAGGTTAAA
1 TGATTGTATTTTGAATAGCTTAAA
*
51619784 TGATTGGT-TTTTGAATTGCTTAA
1 TGATT-GTATTTTGAATAGCTTAA
51619807 TGCCCAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (24 bp):
TGATTGTATTTTGAATAGCTTAAA
Found at i:51620332 original size:29 final size:29
Alignment explanation
Indices: 51620299--51620357 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
51620289 TTTGAAAAGG
*
51620299 TAAAAGTCCCTAGGTTTGCCGTCTACTAT
1 TAAAAGTCCCTAGGTTTGCCGTCCACTAT
51620328 TAAAAGTCCCTAGGTTTGCCGTCCACTAT
1 TAAAAGTCCCTAGGTTTGCCGTCCACTAT
51620357 T
1 T
51620358 TTCTTCTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (29 bp):
TAAAAGTCCCTAGGTTTGCCGTCCACTAT
Found at i:51628389 original size:50 final size:52
Alignment explanation
Indices: 51628325--51628464 Score: 171
Period size: 50 Copynumber: 2.8 Consensus size: 52
51628315 TGAAAGTGAG
51628325 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-G-AT-A
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATAGTATCA
* * * * *
51628375 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTATCA
* * *
51628427 -ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA
51628465 TCGGATGGTA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
49 3 0.04
50 39 0.51
51 33 0.43
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (52 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTATCA
Found at i:51628486 original size:51 final size:49
Alignment explanation
Indices: 51628332--51628518 Score: 173
Period size: 51 Copynumber: 3.8 Consensus size: 49
51628322 GAGGGTCACA
* * **
51628332 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATA-GGTCGC
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGGTATTATCGC
* * * *
51628381 ATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCAATCAC
1 -TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGTATT--ATCGC
* * *
51628432 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATGGTAATTTTCGC
1 -TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT-ATTATCGC
* * *
51628483 -GTGTAGTACTATGTGCAGACTACTATGTGAACCGGA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
51628519 CATCATTGAT
Statistics
Matches: 111, Mismatches: 21, Indels: 11
0.78 0.15 0.08
Matches are distributed among these distances:
49 35 0.32
50 32 0.29
51 42 0.38
53 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGTATTATCGC
Found at i:51628517 original size:100 final size:100
Alignment explanation
Indices: 51628327--51628518 Score: 253
Period size: 100 Copynumber: 1.9 Consensus size: 100
51628317 AAAGTGAGGG
*
51628327 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCA-GTGTAGTAC
* *
51628392 TATGTGCAGGCTACTATGCGTACCGGATAGTTTCAA
65 TATGTGCAGACTACTATGCGAACCGGATAGTTTCAA
* * * * **
51628428 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GGATGGTAATTTTCGC-GTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAATGAT-A-GGTCGCAGTGTAGTA
*
51628491 CTATGTGCAGACTACTATGTGAACCGGA
64 CTATGTGCAGACTACTATGCGAACCGGA
51628519 CATCATTGAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
100 38 0.48
101 37 0.47
102 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCAGTGTAGTACT
ATGTGCAGACTACTATGCGAACCGGATAGTTTCAA
Found at i:51641224 original size:16 final size:16
Alignment explanation
Indices: 51641199--51641229 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51641189 TGATATATGT
*
51641199 TTGTTTGAATGATAAG
1 TTGTTGGAATGATAAG
51641215 TTGTTGGAATGATAA
1 TTGTTGGAATGATAA
51641230 AATTTATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (16 bp):
TTGTTGGAATGATAAG
Found at i:51649996 original size:15 final size:16
Alignment explanation
Indices: 51649978--51650041 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 16
51649968 CTCCATATCA
51649978 TCCTCCTC-TCTTTCT
1 TCCTCCTCATCTTTCT
* *
51649993 TCCTCATCTTC-TTCT
1 TCCTCCTCATCTTTCT
** *
51650008 TATTCCTCATCTTTAT
1 TCCTCCTCATCTTTCT
*
51650024 T-CTCCTCATCTTTTT
1 TCCTCCTCATCTTTCT
51650039 TCC
1 TCC
51650042 CATCATCCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
15 31 0.82
16 7 0.18
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.55
Consensus pattern (16 bp):
TCCTCCTCATCTTTCT
Found at i:51652028 original size:40 final size:40
Alignment explanation
Indices: 51651971--51652174 Score: 261
Period size: 40 Copynumber: 5.1 Consensus size: 40
51651961 AATTATTATA
* * *
51651971 TGAATGCACATATGTGCCCCTGATTGTACTTCT-ATACCCT
1 TGAATGCACATACGTGCCCCTGATTGTACTT-TGGTACCCC
** **
51652011 TGAATGCACATACGTGCCATTGATTGTACTTTGGCCCCCC
1 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCC
51652051 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCC
* * *
51652091 TGAATGCACATGCATGCCCCTGATTATACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCC
**
51652131 TGAATGCACATACGTG-CCCT-ATTTGTACTTTGGTAGTCC
1 TGAATGCACATACGTGCCCCTGA-TTGTACTTTGGTACCCC
51652170 TGAAT
1 TGAAT
51652175 TAAATAATAC
Statistics
Matches: 143, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.01
39 24 0.17
40 118 0.83
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGATTGTACTTTGGTACCCC
Found at i:51652072 original size:20 final size:20
Alignment explanation
Indices: 51652047--51652149 Score: 71
Period size: 20 Copynumber: 5.2 Consensus size: 20
51652037 TACTTTGGCC
51652047 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
* * * ** *
51652067 CCCCTGATTGTACTTTGGTA
1 CCCCTGAATGCACATACGTG
* *
51652087 CCCCTGAATGCACATGCATG
1 CCCCTGAATGCACATACGTG
* ** * ** *
51652107 CCCCTGATTATACTTTGGTA
1 CCCCTGAATGCACATACGTG
51652127 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
51652147 CCC
1 CCC
51652150 TATTTGTACT
Statistics
Matches: 55, Mismatches: 28, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.27
Consensus pattern (20 bp):
CCCCTGAATGCACATACGTG
Found at i:51657112 original size:20 final size:20
Alignment explanation
Indices: 51657084--51657128 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
51657074 TAATTAGAGC
*
51657084 TAAAGATTAAA-TTCATAAAA
1 TAAAGATTAAACTAC-TAAAA
*
51657104 TAAATATTAAACTACTAAAA
1 TAAAGATTAAACTACTAAAA
51657124 TAAAG
1 TAAAG
51657129 TTGACAAACG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (20 bp):
TAAAGATTAAACTACTAAAA
Found at i:51658649 original size:20 final size:20
Alignment explanation
Indices: 51658624--51658684 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
51658614 GCTTGTACGG
51658624 GATTGCACTTCGATGCCTCT
1 GATTGCACTTCGATGCCTCT
* *
51658644 GATTGCACATTTG-TGCCTTT
1 GATTGCAC-TTCGATGCCTCT
* *
51658664 GTTTGCATTTCGATGCCTCT
1 GATTGCACTTCGATGCCTCT
51658684 G
1 G
51658685 TTAAGCATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.41
Consensus pattern (20 bp):
GATTGCACTTCGATGCCTCT
Found at i:51665562 original size:18 final size:18
Alignment explanation
Indices: 51665539--51665575 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
51665529 TCTCAAATGC
51665539 AGTGAGATGAAAAAGCTT
1 AGTGAGATGAAAAAGCTT
*
51665557 AGTGAGATGAAGAAGCTT
1 AGTGAGATGAAAAAGCTT
51665575 A
1 A
51665576 CCAGCTTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.30, T:0.22
Consensus pattern (18 bp):
AGTGAGATGAAAAAGCTT
Found at i:51674373 original size:23 final size:23
Alignment explanation
Indices: 51674349--51674399 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
51674339 GTAAATTAAT
*
51674349 TTTTTGTTA-AAAAAATTATCTA
1 TTTTTATTATAAAAAATTATCTA
*
51674371 TTTTTATTATAAAAAATTATC-C
1 TTTTTATTATAAAAAATTATCTA
51674393 TTTTTAT
1 TTTTTAT
51674400 GTTAGCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTTTATTATAAAAAATTATCTA
Found at i:51674584 original size:28 final size:29
Alignment explanation
Indices: 51674553--51674617 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
51674543 TACCAAAAAA
51674553 GCCCATTTTTTTA-AATTTACCGAAATGG
1 GCCCATTTTTTTATAATTTACCGAAATGG
** * * *
51674581 GCCCGGTATTTTATTATTTACCGGAATGG
1 GCCCATTTTTTTATAATTTACCGAAATGG
51674610 G-CCATTTT
1 GCCCATTTT
51674618 CCCCTAAAAC
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (29 bp):
GCCCATTTTTTTATAATTTACCGAAATGG
Found at i:51674842 original size:21 final size:22
Alignment explanation
Indices: 51674817--51674865 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
51674807 CCGTTTCTCC
**
51674817 AAGGTT-AGGTTTTGGGTTTTT
1 AAGGTTAAGGTTTAAGGTTTTT
51674838 AAGGTTAAGGTTTAAGGTTTTT
1 AAGGTTAAGGTTTAAGGTTTTT
*
51674860 AGGGTT
1 AAGGTT
51674866 TTGGAGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (22 bp):
AAGGTTAAGGTTTAAGGTTTTT
Found at i:51675215 original size:126 final size:126
Alignment explanation
Indices: 51674978--51675299 Score: 459
Period size: 126 Copynumber: 2.5 Consensus size: 126
51674968 TAAGATAAAA
* *
51674978 TCAAAGCAAGATGCTTTATCAGAAGAATTTCTG-AAGCTGCGCCCA-CGTGGACGCGCTTTTGCT
1 TCAAA-CAGGATGCTTTATCAGAAGAATTTCTGAAATC-GCG-CCATCGTGGACGCGCTTTTGCT
*
51675041 ACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACACT
63 ACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAAACACT
* * *
51675105 TCAAACAGGATGCTTTATTAGAAGAATTTCTGAAATCGCGCCATTGTGTACGCGCTTTTGCTACA
1 TCAAACAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACA
* * ***
51675170 GTAGGTCCTGGAAAAATAATTTCGACTTGATGTTTCTGAGTAAATAGTATAAAAAAATGTT
66 GTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAAACACT
* * * * *
51675231 TCAAGCAGGATGCTTTATCAAAAGAATTTCTGAAATCGTGCCCTCGTGGACACGCTTTTGCTACA
1 TCAAACAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACA
51675296 GTAG
66 GTAG
51675300 CATGTTTGGG
Statistics
Matches: 174, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
125 3 0.02
126 163 0.94
127 8 0.05
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (126 bp):
TCAAACAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACA
GTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAAACACT
Found at i:51678363 original size:19 final size:18
Alignment explanation
Indices: 51678339--51678469 Score: 62
Period size: 16 Copynumber: 7.3 Consensus size: 18
51678329 ATCTAACATT
51678339 TTGTTAGTAAAATTATTAA
1 TTGTTA-TAAAATTATTAA
*
51678358 TTG-T-T-AATTGTATTAA
1 TTGTTATAAAAT-TATTAA
* *
51678374 TTGTTAGTAAATTTATCAAA
1 TTGTTA-TAAAATTAT-TAA
* *
51678394 TT-ATATCAAATTATTAA
1 TTGTTATAAAATTATTAA
*
51678411 TTG-T-T-AATTGTATTAA
1 TTGTTATAAAAT-TATTAA
*
51678427 TTGTTAGTAAAATTATCAAA
1 TTGTTA-TAAAATTAT-TAA
* *
51678447 TT-ATATCAAATTATTAA
1 TTGTTATAAAATTATTAA
51678464 TTGTTA
1 TTGTTA
51678470 GTACTAGTCA
Statistics
Matches: 85, Mismatches: 13, Indels: 29
0.67 0.10 0.23
Matches are distributed among these distances:
15 6 0.07
16 20 0.24
17 11 0.13
18 18 0.21
19 15 0.18
20 15 0.18
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (18 bp):
TTGTTATAAAATTATTAA
Found at i:51678407 original size:53 final size:53
Alignment explanation
Indices: 51678348--51678571 Score: 263
Period size: 53 Copynumber: 4.1 Consensus size: 53
51678338 TTTGTTAGTA
51678348 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAATTTATCAAATTATATC
1 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAATTTATCAAATTATATC
*
51678401 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATC
1 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAATTTATCAAATTATATC
* ** * * ** *
51678454 AAATTATTAATTGTTAGTACTAGTCAAAACATT-TT-GTAAAATCTAACATTTTGCTAGTC
1 AAATTATTAATTGTTA--A-TTGT-ATTA-ATTGTTAGT-AAATTTATCAAATT-ATA-TC
*
51678513 AAATTATTAATTGCTAATTGTATTAATTGTTAGTAAATTTATCAAATTATATC
1 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAATTTATCAAATTATATC
*
51678566 ATATTA
1 AAATTA
51678572 GGGTTAGGGT
Statistics
Matches: 141, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
53 75 0.53
54 5 0.04
55 15 0.11
56 10 0.07
57 14 0.10
58 5 0.04
59 17 0.12
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (53 bp):
AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAATTTATCAAATTATATC
Found at i:51678580 original size:6 final size:6
Alignment explanation
Indices: 51678569--51678600 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
51678559 TTATATCATA
51678569 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
51678601 TTTGTTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:51678607 original size:18 final size:18
Alignment explanation
Indices: 51678569--51678621 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
51678559 TTATATCATA
**
51678569 TTAGGGTTAGGGTTAGGG
1 TTAGGGTTAGGGTTTTGG
*
51678587 TTAGGGTTAGGGTTTTTG
1 TTAGGGTTAGGGTTTTGG
* *
51678605 TTAAGATTAGGGTTTTG
1 TTAGGGTTAGGGTTTTG
51678622 AGGCTTGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (18 bp):
TTAGGGTTAGGGTTTTGG
Found at i:51678709 original size:43 final size:42
Alignment explanation
Indices: 51678660--51678837 Score: 258
Period size: 43 Copynumber: 4.3 Consensus size: 42
51678650 TAACGGTTAT
*
51678660 GGTTAGGGTTTTTAAGTTAAGAGTTTAGGATTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTTAGG-TTTTTAAGTTAAG
51678703 GGTTAGGGTTTTTAAGTTAAGGG-TTATGGTTTTTAAG----G
1 GGTTAGGGTTTTTAAGTTAAGGGTTTA-GGTTTTTAAGTTAAG
*
51678741 GTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTT-AGGTTTTTAAGTTAAG
*
51678784 GGTTAGGGTTTTTAAATTAAGGGTTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTTA-GGTTTTTAAGTTAAG
51678827 GGTTAGGGTTT
1 GGTTAGGGTTT
51678838 AGGGTTAGGA
Statistics
Matches: 123, Mismatches: 4, Indels: 16
0.86 0.03 0.11
Matches are distributed among these distances:
38 23 0.19
39 12 0.10
40 1 0.01
42 12 0.10
43 75 0.61
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (42 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTTAGGTTTTTAAGTTAAG
Found at i:51678740 original size:16 final size:17
Alignment explanation
Indices: 51678719--51678756 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
51678709 GGTTTTTAAG
*
51678719 TTAAGGG-TTATGGTTT
1 TTAAGGGTTTAGGGTTT
51678735 TTAAGGGTTTAGGGTTT
1 TTAAGGGTTTAGGGTTT
51678752 TTAAG
1 TTAAG
51678757 TTAAGGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (17 bp):
TTAAGGGTTTAGGGTTT
Found at i:51678747 original size:81 final size:82
Alignment explanation
Indices: 51678662--51678821 Score: 270
Period size: 81 Copynumber: 2.0 Consensus size: 82
51678652 ACGGTTATGG
*
51678662 TTAGGGTTTTTAAGTTAAGAGTTT-AGGATTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGAGTTTAAGG-TTTTTAAGTTAAGGGTTAGGGTTTTTAAATTAAGGG
*
51678726 -TTATGGTTTTTAAGGGT
65 TTTAGGGTTTTTAAGGGT
*
51678743 TTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAATTAAGGGT
1 TTAGGGTTTTTAAGTTAAGAGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAATTAAGGGT
51678808 TTAGGGTTTTTAAG
66 TTAGGGTTTTTAAG
51678822 TTAAGGGTTA
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
81 58 0.78
82 16 0.22
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (82 bp):
TTAGGGTTTTTAAGTTAAGAGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAATTAAGGGT
TTAGGGTTTTTAAGGGT
Found at i:51678834 original size:21 final size:21
Alignment explanation
Indices: 51678660--51678837 Score: 247
Period size: 21 Copynumber: 8.5 Consensus size: 21
51678650 TAACGGTTAT
51678660 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
* *
51678681 AGTTTAGGATTTTTAAGTTAAG
1 -GGTTAGGGTTTTTAAGTTAAG
51678703 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
51678724 GGTTATGGTTTTTAAG----G
1 GGTTAGGGTTTTTAAGTTAAG
*
51678741 GTTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
51678762 GGTTTAAGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
*
51678784 GGTTAGGGTTTTTAAATTAAG
1 GGTTAGGGTTTTTAAGTTAAG
51678805 GGTTTAGGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
51678827 GGTTAGGGTTT
1 GGTTAGGGTTT
51678838 AGGGTTAGGA
Statistics
Matches: 138, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
17 15 0.11
21 64 0.46
22 59 0.43
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:51678881 original size:7 final size:7
Alignment explanation
Indices: 51678869--51678900 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
51678859 GTTTGTCAAT
51678869 TAAATTA
1 TAAATTA
51678876 TAAATT-
1 TAAATTA
51678882 T-AATTA
1 TAAATTA
51678888 TAAATTA
1 TAAATTA
51678895 TAAATT
1 TAAATT
51678901 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.17
6 2 0.09
7 17 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:51679125 original size:21 final size:21
Alignment explanation
Indices: 51679101--51679161 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
51679091 TTGTCCAACT
* *
51679101 TCCGGTGGGGGTTGTGGTTAC
1 TCCGGTGGGGATTCTGGTTAC
* *
51679122 TCCGGCGGGGATTCTGGTTCC
1 TCCGGTGGGGATTCTGGTTAC
*
51679143 TCCGGTAGGGCA-TCTGGTT
1 TCCGGT-GGGGATTCTGGTT
51679162 GTCGGTGTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.07, C:0.21, G:0.41, T:0.31
Consensus pattern (21 bp):
TCCGGTGGGGATTCTGGTTAC
Found at i:51679444 original size:18 final size:18
Alignment explanation
Indices: 51679403--51679445 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
51679393 GACTTGGGAA
* * *
51679403 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
*
51679421 AAGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
51679439 AGGATAC
1 AGGATAC
51679446 GCACCTAGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:51681244 original size:20 final size:20
Alignment explanation
Indices: 51681218--51681259 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
51681208 TTACAATTTA
51681218 AAATTTTTTTAAAAA-AATT
1 AAATTTTTTTAAAAACAATT
51681237 AAATTTTTTTAAAAACAATT
1 AAATTTTTTTAAAAACAATT
51681257 AAA
1 AAA
51681260 AATAGGGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTTTTTTAAAAACAATT
Found at i:51681283 original size:11 final size:12
Alignment explanation
Indices: 51681267--51681303 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
51681257 AAAAATAGGG
51681267 ATTTAAGAG-AA
1 ATTTAAGAGCAA
51681278 ATTTAAGAGCAA
1 ATTTAAGAGCAA
*
51681290 A-TTGAGAGCAA
1 ATTTAAGAGCAA
51681301 ATT
1 ATT
51681304 GAAATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:51681320 original size:51 final size:50
Alignment explanation
Indices: 51681259--51681356 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
51681249 AAACAATTAA
*
51681259 AAATAGGGATTTAAGAGAAATTT-AAGAGCAAATTGAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTGAAG-G-AAATTGAAAGCAAATTGAAATT
* *
51681310 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAAAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTT-GAAGGAAATTGAAAGCAAATTGA
51681357 GAGGATATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 38 0.90
52 1 0.02
53 3 0.07
ACGTcount: A:0.48, C:0.03, G:0.23, T:0.26
Consensus pattern (50 bp):
AAATAGGGATTTAAGAGAAATTTGAAGGAAATTGAAAGCAAATTGAAATT
Found at i:51681514 original size:27 final size:27
Alignment explanation
Indices: 51681477--51681562 Score: 147
Period size: 27 Copynumber: 3.2 Consensus size: 27
51681467 GCACTGTTCA
51681477 CGCGCGGGGAAAACGAGTCCCCAGGGG
1 CGCGCGGGGAAAACGAGTCCCCAGGGG
51681504 CGCGCGGGGAAAAC-ACGTCCCCAGGGG
1 CGCGCGGGGAAAACGA-GTCCCCAGGGG
*
51681531 CGCGCGGGGAAAACGCGTCCCCAGGGG
1 CGCGCGGGGAAAACGAGTCCCCAGGGG
51681558 CGCGC
1 CGCGC
51681563 TACGTGGCAG
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
26 1 0.02
27 55 0.98
ACGTcount: A:0.20, C:0.34, G:0.43, T:0.03
Consensus pattern (27 bp):
CGCGCGGGGAAAACGAGTCCCCAGGGG
Found at i:51683693 original size:11 final size:11
Alignment explanation
Indices: 51683677--51683702 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51683667 TCACTTCGAA
51683677 TCAAAAAATTT
1 TCAAAAAATTT
51683688 TCAAAAAATTT
1 TCAAAAAATTT
51683699 TCAA
1 TCAA
51683703 TGGGGCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (11 bp):
TCAAAAAATTT
Found at i:51684022 original size:61 final size:58
Alignment explanation
Indices: 51683910--51684108 Score: 166
Period size: 61 Copynumber: 3.2 Consensus size: 58
51683900 ATCACTTTAA
*
51683910 TATTAAATTAATATAATACTTATCAAGATAAATATTAAATTAAATTAAATATTAAATG
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTAAATATTAAATG
* * * * * *
51683968 TATTAAATTAATAGAATATTTATTTACAAGATGAATATTTAATTTAATTTAATATTAAGATAA
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATTAAATATTAA-AT-G
* * *
51684031 TCACTTTAATATTAAGTTAATAAATA-TAATCAAGATAAGTATTAAATTAAATTAAATATTAAAT
1 T-A--TTAA-ATTAA--T-A-GAATACTTATCAAGATAAATATTAAATTAAATTAAATATTAAAT
*
51684095 T
58 G
*
51684096 TATTAAAATAATA
1 TATTAAATTAATA
51684109 TTTTTTTGGA
Statistics
Matches: 112, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
58 21 0.19
59 1 0.01
60 1 0.01
61 32 0.29
62 6 0.05
63 1 0.01
64 2 0.02
65 1 0.01
66 6 0.05
67 32 0.29
68 1 0.01
69 1 0.01
70 3 0.03
71 4 0.04
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTAAATATTAAATG
Found at i:51684060 original size:20 final size:20
Alignment explanation
Indices: 51684017--51684060 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
51684007 TAATTTAATT
* * *
51684017 TAATATTAAGATAATCACTT
1 TAATATTAAGATAATAAATA
*
51684037 TAATATTAAGTTAATAAATA
1 TAATATTAAGATAATAAATA
51684057 TAAT
1 TAAT
51684061 CAAGATAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATATTAAGATAATAAATA
Found at i:51685489 original size:39 final size:37
Alignment explanation
Indices: 51685442--51685530 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 37
51685432 TTAAATTTAA
51685442 TATTAAGATAATTATTTTAATATTAAA-TTAATA-AAATAC
1 TATTAAGATAATTA--TTAA-ATTAAAGTTAATATAAAT-C
*
51685481 TATTAAGATAAGTATTAAATTAAAGTTAATATTAAATC
1 TATTAAGATAATTATTAAATTAAAGTTAATA-TAAATC
*
51685519 TATTAAAATAAT
1 TATTAAGATAAT
51685531 AATATTTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 6 0.14
37 10 0.23
38 11 0.25
39 17 0.39
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (37 bp):
TATTAAGATAATTATTAAATTAAAGTTAATATAAATC
Found at i:51691736 original size:19 final size:18
Alignment explanation
Indices: 51691694--51691736 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
51691684 ATGCAAGTAG
*
51691694 TTTGGTTTGTAATGTGGA
1 TTTGGTTTGTAATGTGAA
51691712 TTTGGTTTGATAAT-TGAA
1 TTTGGTTTG-TAATGTGAA
51691730 TTGTGGT
1 TT-TGGT
51691737 GTTAATGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (18 bp):
TTTGGTTTGTAATGTGAA
Found at i:51695786 original size:25 final size:26
Alignment explanation
Indices: 51695758--51695808 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
51695748 TTGTAAATAA
51695758 GAAAAAATATC-TCTAGA-AATTTTCT
1 GAAAAAATATCTTC-AGAGAATTTTCT
* *
51695783 GAAATAATTTCTTCAGAGAATTTTCT
1 GAAAAAATATCTTCAGAGAATTTTCT
51695809 CTCTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (26 bp):
GAAAAAATATCTTCAGAGAATTTTCT
Found at i:51696034 original size:68 final size:69
Alignment explanation
Indices: 51695905--51696039 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 69
51695895 TAATTAAACT
* * *
51695905 TAATCACTTTAATACTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATACTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATT
51695970 AAGA
66 AAGA
* * * * * **
51695974 TAATCATTTTAATATTAAATTTATAAAATA-CTATTAAGATAAGTATTAAATTTTATTTAATATT
1 TAATCACTTTAATACTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATT
51696038 AA
66 AA
51696040 ATTTATTAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
68 30 0.54
69 26 0.46
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (69 bp):
TAATCACTTTAATACTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:51696052 original size:17 final size:17
Alignment explanation
Indices: 51696017--51696049 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
51696007 TTAAGATAAG
*
51696017 TATTAAATTTTATTTAA
1 TATTAAATTTTATTAAA
51696034 TATTAAA-TTTATTAAA
1 TATTAAATTTTATTAAA
51696050 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATTTTATTAAA
Found at i:51700989 original size:50 final size:50
Alignment explanation
Indices: 51700872--51701106 Score: 177
Period size: 50 Copynumber: 4.6 Consensus size: 50
51700862 ACATGTCAAA
* * * **
51700872 GCCATGTCCCAGACATGGTCTTACATGGGATG-TTTCCT-GTACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATATTGGTGCCAAT
* * * * *
51700921 GCCATATCCCAGATATGGTTTTACATGGGAGTTCTCATATTGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATTGGTGCCAAT
*** * * * *
51700971 GCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATTGGTGCCAAT
* * * * *
51701021 ACCATGTCCTAGACAGGGTCTTACATGGGAGCTCTCATAGTCTCAATGATGTCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATA---T---TGGTGCCAAT
* *
51701077 GCCATGTTCCAAACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
51701107 TCTCATCACC
Statistics
Matches: 140, Mismatches: 38, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
48 1 0.01
49 31 0.22
50 76 0.54
53 1 0.01
56 31 0.22
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATTGGTGCCAAT
Found at i:51702395 original size:2 final size:2
Alignment explanation
Indices: 51702388--51702422 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
51702378 AGTAAGCAAG
51702388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51702423 CGGCTTTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:51706223 original size:23 final size:23
Alignment explanation
Indices: 51706197--51706253 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
51706187 TACGGAATAG
51706197 AATAGAACACCG-TCGAAGCAGAT
1 AATAGAACACCGCT-GAAGCAGAT
**
51706220 AATAGAACACCGCTGAAGTGGAT
1 AATAGAACACCGCTGAAGCAGAT
*
51706243 AATAAAACACC
1 AATAGAACACC
51706254 ACAGAAGCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.14
Consensus pattern (23 bp):
AATAGAACACCGCTGAAGCAGAT
Found at i:51706260 original size:23 final size:23
Alignment explanation
Indices: 51706217--51706260 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
51706207 CGTCGAAGCA
* * *
51706217 GATAATAGAACACCGCTGAAGTG
1 GATAATAAAACACCACAGAAGTG
51706240 GATAATAAAACACCACAGAAG
1 GATAATAAAACACCACAGAAG
51706261 CGAATAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (23 bp):
GATAATAAAACACCACAGAAGTG
Found at i:51706267 original size:23 final size:23
Alignment explanation
Indices: 51706218--51706267 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
51706208 GTCGAAGCAG
* * * * *
51706218 ATAATAGAACACCGCTGAAGTGG
1 ATAATAAAACACCACAGAAGCGA
51706241 ATAATAAAACACCACAGAAGCGA
1 ATAATAAAACACCACAGAAGCGA
51706264 ATAA
1 ATAA
51706268 ACAGATAGCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.14
Consensus pattern (23 bp):
ATAATAAAACACCACAGAAGCGA
Found at i:51710075 original size:15 final size:15
Alignment explanation
Indices: 51710055--51710084 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51710045 AACATATGTA
51710055 CATTATTTCACATAT
1 CATTATTTCACATAT
51710070 CATTATTTCACATAT
1 CATTATTTCACATAT
51710085 TTCTCATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
CATTATTTCACATAT
Found at i:51711534 original size:22 final size:24
Alignment explanation
Indices: 51711506--51711549 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
51711496 ATTTTGTTTA
51711506 ATTTTAACTT-TTAT-TCAAAAAC
1 ATTTTAACTTGTTATATCAAAAAC
*
51711528 ATTTTAATTTGTTATATCAAAA
1 ATTTTAACTTGTTATATCAAAA
51711550 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTTAACTTGTTATATCAAAAAC
Found at i:51716262 original size:16 final size:16
Alignment explanation
Indices: 51716237--51716295 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
51716227 ATTCGTCCTC
51716237 TTTATAATAATTATTT
1 TTTATAATAATTATTT
*
51716253 TTTATGATAA-TATTT
1 TTTATAATAATTATTT
51716268 TATTATAATAATTAAATTT
1 T-TTATAATAATT--ATTT
*
51716287 GTTATAATA
1 TTTATAATA
51716296 TTGAGTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.17
16 17 0.47
17 1 0.03
18 8 0.22
19 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTATAATAATTATTT
Found at i:51716504 original size:17 final size:17
Alignment explanation
Indices: 51716472--51716504 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51716462 GATAAAATAT
51716472 ATAAATTTTATATAAAA
1 ATAAATTTTATATAAAA
51716489 ATAATATTTTAT-TAAA
1 ATAA-ATTTTATATAAA
51716505 TGAAAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAAATTTTATATAAAA
Found at i:51720442 original size:5 final size:5
Alignment explanation
Indices: 51720428--51720460 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
51720418 TGCTTCTAAA
51720428 ATGA- ATGAT ATGAT ATGAT ATGAT ATGAT ATGA
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGA
51720461 ATTGATCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (5 bp):
ATGAT
Done.