Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 54 of 172
Found at i:17663830 original size:23 final size:22
Alignment explanation
Indices: 17663778--17663830 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
17663768 TCCACGTCTT
*
17663778 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
17663800 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
17663823 TTTCTTTT
1 TTTCTTTT
17663831 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:17663875 original size:18 final size:18
Alignment explanation
Indices: 17663806--17663876 Score: 51
Period size: 18 Copynumber: 3.9 Consensus size: 18
17663796 CTAATTCATT
17663806 TTCTCTTCTTTC--TTCAA
1 TTCTCTT-TTTCTTTTCAA
* *
17663823 TT-TCTTTTTCACTCTCAA
1 TTCTCTTTTTC-TTTTCAA
17663841 -TCTCTTTTTGCTCTTTTCAA
1 TTCTC-TTTT--TCTTTTCAA
17663861 TTCTCTTTTTCTTTTC
1 TTCTCTTTTTCTTTTC
17663877 CCTCACTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
15 4 0.09
16 4 0.09
17 3 0.07
18 13 0.30
19 4 0.09
20 9 0.21
21 6 0.14
ACGTcount: A:0.10, C:0.27, G:0.01, T:0.62
Consensus pattern (18 bp):
TTCTCTTTTTCTTTTCAA
Found at i:17679093 original size:13 final size:13
Alignment explanation
Indices: 17679075--17679099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17679065 TGGTCATCAT
17679075 GGTGTGAACACAA
1 GGTGTGAACACAA
17679088 GGTGTGAACACA
1 GGTGTGAACACA
17679100 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:17682117 original size:33 final size:33
Alignment explanation
Indices: 17682079--17682141 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
17682069 GATTACTCAC
17682079 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
17682112 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
17682142 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:17682168 original size:21 final size:21
Alignment explanation
Indices: 17682139--17682194 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
17682129 CAAGCTCTCT
*
17682139 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
17682160 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
17682181 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
17682195 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:17682187 original size:14 final size:14
Alignment explanation
Indices: 17682138--17682194 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
17682128 TCAAGCTCTC
17682138 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
17682151 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
17682165 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
17682179 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
17682193 TT
1 TT
17682195 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:17682222 original size:18 final size:18
Alignment explanation
Indices: 17682156--17682276 Score: 80
Period size: 18 Copynumber: 6.4 Consensus size: 18
17682146 TCTTTTTTCG
17682156 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTCAA-TTT
* **
17682175 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCAATTT
* ** *
17682195 CTCTCACTTTTTTAATTT
1 CTTTTTCTTTTTCAATTT
*
17682213 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCAATTT
* **
17682231 CTTTTTCTTCTTCGTTTT
1 CTTTTTCTTTTTCAATTT
*
17682249 CTTTTTGTTTTCTTTCAATTT
1 C-TTTT-TCTT-TTTCAATTT
17682270 CTTTTTC
1 CTTTTTC
17682277 AATCTCTTTA
Statistics
Matches: 73, Mismatches: 24, Indels: 10
0.68 0.22 0.09
Matches are distributed among these distances:
18 36 0.49
19 8 0.11
20 14 0.19
21 15 0.21
ACGTcount: A:0.08, C:0.19, G:0.02, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTT
Found at i:17682276 original size:6 final size:6
Alignment explanation
Indices: 17682156--17682263 Score: 58
Period size: 6 Copynumber: 17.7 Consensus size: 6
17682146 TCTTTTTTCG
* * * **
17682156 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
* * ** * *
17682207 -TAATTT CTTTTT CTTTTG CAATTT CTTTTT CTTCTT CGTTTT CTTTTT
1 CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
17682255 -GTTTT CTTT
1 CTTTTT CTTT
17682264 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 25, Indels: 10
0.67 0.23 0.09
Matches are distributed among these distances:
5 5 0.07
6 54 0.75
7 10 0.14
8 3 0.04
ACGTcount: A:0.07, C:0.19, G:0.03, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:17683368 original size:14 final size:13
Alignment explanation
Indices: 17683334--17683372 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
17683324 TTCTTTTTTT
*
17683334 ATTTTTTTTT-CA
1 ATTTTTTTTTGAA
17683346 ATTTTTTTTTGAA
1 ATTTTTTTTTGAA
17683359 ATTTTATTTTTGAA
1 ATTTT-TTTTTGAA
17683373 TTTCTTCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.42
13 6 0.25
14 8 0.33
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (13 bp):
ATTTTTTTTTGAA
Found at i:17685105 original size:20 final size:19
Alignment explanation
Indices: 17685082--17685146 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
17685072 AAGCTCAAAC
17685082 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
17685102 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
17685122 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
17685142 GAGCT
1 GAGCT
17685147 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:17692921 original size:11 final size:10
Alignment explanation
Indices: 17692896--17692956 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
17692886 ACCAATAAAA
17692896 TAAA-TGAGC
1 TAAATTGAGC
*
17692905 TGAATTGTAGC
1 TAAATTG-AGC
17692916 TAAATTGAGC
1 TAAATTGAGC
**
17692926 TCGATTGAGC
1 TAAATTGAGC
17692936 TGAAA-TGAGC
1 T-AAATTGAGC
*
17692946 TCAATTGAGC
1 TAAATTGAGC
17692956 T
1 T
17692957 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:17692957 original size:20 final size:20
Alignment explanation
Indices: 17692897--17692957 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
17692887 CCAATAAAAT
*
17692897 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
17692917 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
17692938 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
17692958 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:17695084 original size:13 final size:14
Alignment explanation
Indices: 17695046--17695085 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
17695036 TTTCTCAATC
17695046 TCAA-TTTCTTT-T
1 TCAATTTTCTTTCT
17695058 TCAATTTTCTTTTCT
1 TCAATTTTC-TTTCT
17695073 TC-ATTTTCTTTCT
1 TCAATTTTCTTTCT
17695086 CTCTCACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.16
13 9 0.36
14 9 0.36
15 3 0.12
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (14 bp):
TCAATTTTCTTTCT
Found at i:17696004 original size:10 final size:9
Alignment explanation
Indices: 17695943--17696003 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
17695933 ACTTTTCACT
17695943 TTTTTTTTC
1 TTTTTTTTC
17695952 TTTTTTTTC
1 TTTTTTTTC
***
17695961 TTTTAACTC
1 TTTTTTTTC
**
17695970 GATTTTTT-
1 TTTTTTTTC
**
17695978 TTTCATTTC
1 TTTTTTTTC
17695987 TTTTTTTTC
1 TTTTTTTTC
17695996 TTTTTTTT
1 TTTTTTTT
17696004 TAATTTTTTT
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
8 4 0.11
9 33 0.89
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:17700921 original size:10 final size:10
Alignment explanation
Indices: 17700905--17700962 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
17700895 CAACTCCGAC
17700905 CAGCTCAATT
1 CAGCTCAATT
* *
17700915 GAGCTCATTT
1 CAGCTCAATT
17700925 CAGCTCAA-T
1 CAGCTCAATT
17700934 CAAGCTCAATT
1 C-AGCTCAATT
*
17700945 TAGCTACAATT
1 CAGCT-CAATT
17700956 CAGCTCA
1 CAGCTCA
17700963 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:17703451 original size:28 final size:28
Alignment explanation
Indices: 17703396--17703472 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
17703386 ATCTTCGATG
*
17703396 TCTCGTACACTAAGTGCCATACTCAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
* *
17703424 TCTCGCACACCAAGTGCCACTA-TTAATA
1 TCTCGCACACTAAGTGCCA-TACTCAATA
* **
17703452 TTTTTCACACTAAGTGCCATA
1 TCTCGCACACTAAGTGCCATA
17703473 TACATAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 2 0.05
28 37 0.90
29 2 0.05
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.30
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACTCAATA
Found at i:17704927 original size:23 final size:21
Alignment explanation
Indices: 17704893--17704936 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
17704883 AAAAGACACC
17704893 TGCAATTAACACATTAAAACA
1 TGCAATTAACACATTAAAACA
*
17704914 TGCATATTAAACACATTTAAACA
1 TGCA-ATT-AACACATTAAAACA
17704937 CATAAAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 3 0.15
23 13 0.65
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (21 bp):
TGCAATTAACACATTAAAACA
Found at i:17705912 original size:37 final size:37
Alignment explanation
Indices: 17705867--17705954 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
17705857 CTTGTTCATC
* *
17705867 GTCTTTTCTTTCTT-CAGTCTTTCTCTCTTTTTCAATTT
1 GTCTTTTCTTTCTTGAAATCTTT-T-TCTTTTTCAATTT
*
17705905 -TCTTTTCTTGCTTGAAATCTTTTTCTTTTTCAATTT
1 GTCTTTTCTTTCTTGAAATCTTTTTCTTTTTCAATTT
17705941 GT-TTTTCCTTTCTT
1 GTCTTTT-CTTTCTT
17705955 TCACTCTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
36 17 0.40
37 20 0.47
38 6 0.14
ACGTcount: A:0.09, C:0.20, G:0.06, T:0.65
Consensus pattern (37 bp):
GTCTTTTCTTTCTTGAAATCTTTTTCTTTTTCAATTT
Found at i:17705976 original size:18 final size:18
Alignment explanation
Indices: 17705922--17706007 Score: 73
Period size: 18 Copynumber: 4.6 Consensus size: 18
17705912 TTGCTTGAAA
*
17705922 TCTTTTTCTTTTTCAATT
1 TCTTTTTCTTTTTCACTT
* *
17705940 TGTTTTTCCTTTCTTTCACTC
1 TCTTTTT-C-TT-TTTCACTT
17705961 TCTTTTTCTTTTTCACTT
1 TCTTTTTCTTTTTCACTT
** ** *
17705979 TCTCATTCTTTTTTTCGT
1 TCTTTTTCTTTTTCACTT
17705997 TCTTTTTCTTT
1 TCTTTTTCTTT
17706008 CATTTTTCTC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
18 35 0.66
19 3 0.06
20 3 0.06
21 12 0.23
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.70
Consensus pattern (18 bp):
TCTTTTTCTTTTTCACTT
Found at i:17708143 original size:20 final size:20
Alignment explanation
Indices: 17708097--17708143 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
17708087 AGCTCGTTTC
*
17708097 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
17708117 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
17708137 CAGCTCA
1 CAGCTCA
17708144 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:17708495 original size:209 final size:209
Alignment explanation
Indices: 17708135--17708553 Score: 820
Period size: 209 Copynumber: 2.0 Consensus size: 209
17708125 TCAAGCTCAA
17708135 TTCAGCTCAATCTTAACCCAATGAGCTTATTTTTAGCTTTCTTTAGCTTGCATTTATTTTGCTGA
1 TTCAGCTCAATCTTAACCCAATGAGCTTATTTTTAGCTTTCTTTAGCTTGCATTTATTTTGCTGA
17708200 AATAAACCATTTAATTTGTCATTAGTTAAATTAGTTGTTTATCTTAAGTTAGTTAATTTGTTAAA
66 AATAAACCATTTAATTTGTCATTAGTTAAATTAGTTGTTTATCTTAAGTTAGTTAATTTGTTAAA
* *
17708265 ATCTGGACAAATAATTAATTAAGTGTTTTAATTATATCTAAATTAAATACTTAATTAATTATGTT
131 ATCTGGACAAATAATTAATTAAGTGTTTTAATTATATCTAAATTAAATACTTAATAAATTATGAT
17708330 GTTTTAAATATGTC
196 GTTTTAAATATGTC
17708344 TTCAGCTCAATCTTAACCCAATGAGCTTATTTTTAGCTTTCTTTAGCTTGCATTTATTTTGCTGA
1 TTCAGCTCAATCTTAACCCAATGAGCTTATTTTTAGCTTTCTTTAGCTTGCATTTATTTTGCTGA
17708409 AATAAACCATTTAATTTGTCATTAGTTAAATTAGTTGTTTATCTTAAGTTAGTTAATTTGTTAAA
66 AATAAACCATTTAATTTGTCATTAGTTAAATTAGTTGTTTATCTTAAGTTAGTTAATTTGTTAAA
17708474 ATCTGGACAAATAATTAATTAAGTGTTTTAATTATATCTAAATTAAATACTTAATAAATTATGAT
131 ATCTGGACAAATAATTAATTAAGTGTTTTAATTATATCTAAATTAAATACTTAATAAATTATGAT
17708539 GTTTTAAATATGTC
196 GTTTTAAATATGTC
17708553 T
1 T
17708554 GAAATTGTTA
Statistics
Matches: 208, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 208 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (209 bp):
TTCAGCTCAATCTTAACCCAATGAGCTTATTTTTAGCTTTCTTTAGCTTGCATTTATTTTGCTGA
AATAAACCATTTAATTTGTCATTAGTTAAATTAGTTGTTTATCTTAAGTTAGTTAATTTGTTAAA
ATCTGGACAAATAATTAATTAAGTGTTTTAATTATATCTAAATTAAATACTTAATAAATTATGAT
GTTTTAAATATGTC
Found at i:17711114 original size:22 final size:22
Alignment explanation
Indices: 17711084--17711127 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17711074 TTTGGTATTT
17711084 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
17711106 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
17711128 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:17712752 original size:23 final size:22
Alignment explanation
Indices: 17712700--17712752 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
17712690 TCCACGTCTT
*
17712700 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
17712722 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
17712745 TTTCTTTT
1 TTTCTTTT
17712753 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:17717164 original size:50 final size:50
Alignment explanation
Indices: 17717041--17717168 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 50
17717031 TTGGTACGCA
* ** *
17717041 TAGTAGCCTGCACTTAGTACTACACATG-CGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTCGACCAACCATCCGATACACG
* * *
17717090 TAGTAGCCTGCACTTAGTACTACACACGTC-ACCTAACCGTCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTCGACC-AACCATCCGATACACG
*
17717140 TAGTAGCCTGCACTTTGTACTACACACGT
1 TAGTAGCCTGCACTTAGTACTACACACGT
17717169 GATCGAAGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 30 0.43
50 39 0.57
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTCGACCAACCATCCGATACACG
Found at i:17719230 original size:49 final size:50
Alignment explanation
Indices: 17719120--17719248 Score: 179
Period size: 49 Copynumber: 2.6 Consensus size: 50
17719110 GATCGTATCA
* * *
17719120 AGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAAGTACGCATAGT
1 AGCCTGCACTTAGTACTACACATGTGA-CCAAGTTATCAAGTACACATAGT
* * *
17719171 AGCCTGCACTTAGTACTACACATGCGACCAA-TTATCTAGTACACGTAGT
1 AGCCTGCACTTAGTACTACACATGTGACCAAGTTATCAAGTACACATAGT
*
17719220 AGCCTACACTTAGTACTACACATGTGACC
1 AGCCTGCACTTAGTACTACACATGTGACC
17719249 TCACAATAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
49 42 0.60
50 3 0.04
51 25 0.36
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
AGCCTGCACTTAGTACTACACATGTGACCAAGTTATCAAGTACACATAGT
Found at i:17719930 original size:30 final size:30
Alignment explanation
Indices: 17719896--17719955 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17719886 CTTTAATACG
*
17719896 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGACAAAATTACAC-TTTTGCCCCTA
* *
17719926 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
17719956 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:17721071 original size:14 final size:14
Alignment explanation
Indices: 17721052--17721096 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
17721042 AACTCATCTT
*
17721052 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
17721066 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
17721079 AATTTAATTTAATG
1 AGTTTAATTTAATG
17721093 AGTT
1 AGTT
17721097 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:17722108 original size:29 final size:29
Alignment explanation
Indices: 17722075--17722134 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
17722065 ATAACCAAAC
*
17722075 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
* *
17722104 CTACATAAACTTCATATTCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
17722133 CT
1 CT
17722135 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:17722377 original size:29 final size:30
Alignment explanation
Indices: 17722344--17722402 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17722334 CTTTAATACG
17722344 AACTTTGGCA-AAATAC-CATTTTGCCCCTA
1 AACTTTGGCATAAATACAC-TTTTGCCCCTA
* *
17722373 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCATAAATACACTTTTGCCCCTA
17722403 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 9 0.35
30 16 0.62
31 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (30 bp):
AACTTTGGCATAAATACACTTTTGCCCCTA
Found at i:17724215 original size:23 final size:21
Alignment explanation
Indices: 17724172--17724215 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
17724162 AGGGCTAGTC
*
17724172 GAATGGTCTTTTAAAGGAGCT
1 GAATGGTCTTTTAAAGAAGCT
*
17724193 GAATGGTCACTTTTAATGAAGCT
1 GAATGGT--CTTTTAAAGAAGCT
17724216 AATAATGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (21 bp):
GAATGGTCTTTTAAAGAAGCT
Found at i:17725384 original size:13 final size:12
Alignment explanation
Indices: 17725350--17725382 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
17725340 AGGAAATTTG
17725350 AAAAAAAAATTC
1 AAAAAAAAATTC
17725362 AAAAAAAAATTC
1 AAAAAAAAATTC
17725374 AAAAAAAAA
1 AAAAAAAAA
17725383 ATATTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:17726345 original size:37 final size:37
Alignment explanation
Indices: 17726294--17726364 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
17726284 CATTCTTGTA
17726294 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
17726331 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
17726365 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:17726364 original size:6 final size:6
Alignment explanation
Indices: 17726304--17726353 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
17726294 AAGAGAAAAC
*
17726304 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
17726353 A
1 A
17726354 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:17726446 original size:11 final size:12
Alignment explanation
Indices: 17726414--17726444 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17726404 TTGAGAGAAA
17726414 TTGAAAAAGCCT
1 TTGAAAAAGCCT
17726426 TTGAAAAAGCCT
1 TTGAAAAAGCCT
17726438 TTGAAAA
1 TTGAAAA
17726445 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:17734613 original size:20 final size:20
Alignment explanation
Indices: 17734588--17734626 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17734578 GGATTTTCGT
* *
17734588 AATTTTTGAGAATTTGGTAA
1 AATTTTTAAAAATTTGGTAA
17734608 AATTTTTAAAAATTTGGTA
1 AATTTTTAAAAATTTGGTA
17734627 TTTGGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTTTTAAAAATTTGGTAA
Found at i:17736786 original size:21 final size:20
Alignment explanation
Indices: 17736752--17736819 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
17736742 ACATTCTTGT
17736752 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
17736773 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
17736794 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
17736815 AAAGA
1 AAAGA
17736820 GAAGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:17736787 original size:6 final size:5
Alignment explanation
Indices: 17736763--17736819 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
17736753 AAGAGAAAAC
*
17736763 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
17736810 AAAGA AAAGA
1 AAAGA AAAGA
17736820 GAAGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:17736794 original size:15 final size:14
Alignment explanation
Indices: 17736763--17736819 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
17736753 AAGAGAAAAC
17736763 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
17736779 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
17736794 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
17736810 AAAGAAAAGA
1 AAAGAAAAGA
17736820 GAAGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:17736899 original size:11 final size:12
Alignment explanation
Indices: 17736870--17736897 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17736860 AGAGAACTTC
17736870 AAAAAGCCTTTG
1 AAAAAGCCTTTG
17736882 AAAAAGCCTTTG
1 AAAAAGCCTTTG
17736894 AAAA
1 AAAA
17736898 GCAAAAAGAA
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:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (12 bp):
AAAAAGCCTTTG
Found at i:17736908 original size:12 final size:12
Alignment explanation
Indices: 17736900--17736924 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17736890 TTTGAAAAGC
17736900 AAAAAGAAAATG
1 AAAAAGAAAATG
17736912 AAAAAGAAAATG
1 AAAAAGAAAATG
17736924 A
1 A
17736925 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:17736921 original size:18 final size:18
Alignment explanation
Indices: 17736894--17736946 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
17736884 AAAGCCTTTG
*
17736894 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAATGAAAATGA
* *
17736913 AAAAGAAAATGAGATTGA
1 AAAAGAAAATGAAAATGA
*
17736931 AAAAGAGAATGAAAAT
1 AAAAGAAAATGAAAAT
17736947 AAATTTGAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.68, C:0.02, G:0.19, T:0.11
Consensus pattern (18 bp):
AAAAGAAAATGAAAATGA
Found at i:17736934 original size:30 final size:30
Alignment explanation
Indices: 17736900--17736980 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
17736890 TTTGAAAAGC
*
17736900 AAAAAGAAAATGAAAAAGAAAATGAGATTG
1 AAAAAGAAAATGAAAAAGAAAATGAGAGTG
* **
17736930 AAAAAGAGAATGAAAATA-AATTTGAGAGTG
1 AAAAAGAAAATGAAAA-AGAAAATGAGAGTG
* **
17736960 AAAAATAAGTTGAAAAAGAAA
1 AAAAAGAAAATGAAAAAGAAA
17736981 TTGAAAAAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
29 1 0.03
30 38 0.95
31 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (30 bp):
AAAAAGAAAATGAAAAAGAAAATGAGAGTG
Found at i:17737393 original size:14 final size:14
Alignment explanation
Indices: 17737346--17737393 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
17737336 GTACGAATGG
*
17737346 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
17737360 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
17737374 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
17737388 ATTGGT
1 AATGGT
17737394 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:17741041 original size:22 final size:22
Alignment explanation
Indices: 17741011--17741055 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17741001 CTATTCCATT
17741011 TCTTCAATTCCCCCTTGCCTAA
1 TCTTCAATTCCCCCTTGCCTAA
*
17741033 TCTTTAATTCCCCCTTGCCTAA
1 TCTTCAATTCCCCCTTGCCTAA
17741055 T
1 T
17741056 TGAACCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.38, G:0.04, T:0.40
Consensus pattern (22 bp):
TCTTCAATTCCCCCTTGCCTAA
Found at i:17746572 original size:10 final size:10
Alignment explanation
Indices: 17746553--17746609 Score: 69
Period size: 10 Copynumber: 5.6 Consensus size: 10
17746543 AAATGGAAAA
*
17746553 GAAACAAGCT
1 GAAACGAGCT
17746563 GAAACGAGCT
1 GAAACGAGCT
* *
17746573 AAAATCAAGCT
1 GAAA-CGAGCT
*
17746584 CAAACGAGCT
1 GAAACGAGCT
17746594 GAAACGAGCT
1 GAAACGAGCT
17746604 GAAACG
1 GAAACG
17746610 TGCTCAGGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
10 32 0.80
11 8 0.20
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.11
Consensus pattern (10 bp):
GAAACGAGCT
Found at i:17746581 original size:21 final size:20
Alignment explanation
Indices: 17746554--17746609 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
17746544 AATGGAAAAG
17746554 AAACAAGCTGAAACGAGCTA
1 AAACAAGCTGAAACGAGCTA
* *
17746574 AAATCAAGCTCAAACGAGCTG
1 AAA-CAAGCTGAAACGAGCTA
*
17746595 AAACGAGCTGAAACG
1 AAACAAGCTGAAACG
17746610 TGCTCAGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (20 bp):
AAACAAGCTGAAACGAGCTA
Found at i:17748624 original size:19 final size:19
Alignment explanation
Indices: 17748579--17748624 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
17748569 ATTAACACAC
*
17748579 AATTAATTAAAATATAACT
1 AATTAATAAAAATATAACT
*
17748598 -ATTCATAAAAATCATAA-T
1 AATTAATAAAAAT-ATAACT
17748616 AATTAATAA
1 AATTAATAA
17748625 TTAAACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTAATAAAAATATAACT
Found at i:17751334 original size:45 final size:45
Alignment explanation
Indices: 17751266--17751375 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
17751256 TATAGTACGG
* * * * *
17751266 TACTATTCGAGCTTTTGAACCTAGCAGGCTATGATGTCGGTGAGA
1 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
17751311 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
* *
17751356 TACTATTCGGGCCTTCGAGC
1 TACTATTCGAGCCTTTGAGC
17751376 AAATAGTCAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (45 bp):
TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
Found at i:17752482 original size:12 final size:11
Alignment explanation
Indices: 17752460--17752489 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
17752450 GCAATCAAGC
17752460 TTTTCTTTTCA
1 TTTTCTTTTCA
17752471 TTTTCATTTTCA
1 TTTTC-TTTTCA
17752483 TTTTCTT
1 TTTTCTT
17752490 GTTTTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTCTTTTCA
Found at i:17752531 original size:24 final size:24
Alignment explanation
Indices: 17752483--17752560 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
17752473 TTCATTTTCA
17752483 TTTTCTTGTT-TTTCTTCTCTCATT
1 TTTTCTT-TTCTTTCTTCTCTCATT
*
17752507 TTTTCTTTTCTTTCTT-TTTCTATT
1 TTTTCTTTTCTTTCTTCTCTC-ATT
*
17752531 TTTAC-TTTC-TT-TT-TCTCATTT
1 TTTTCTTTTCTTTCTTCTCTCA-TT
17752552 TTTTCTTTT
1 TTTTCTTTT
17752561 TCATTTTCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
20 1 0.02
21 11 0.24
22 5 0.11
23 9 0.20
24 20 0.43
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.76
Consensus pattern (24 bp):
TTTTCTTTTCTTTCTTCTCTCATT
Found at i:17752544 original size:29 final size:28
Alignment explanation
Indices: 17752508--17752583 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
17752498 TCTCTCATTT
17752508 TTTCTTTTCTTTCTTTTTCTATTTTTAC
1 TTTCTTTTCTTTCTTTTTCTATTTTTAC
* *
17752536 TTTCTTTTTCTCATT-TTTTTCT-TTTTCAT
1 TTTC-TTTTCT--TTCTTTTTCTATTTTTAC
*
17752565 TTTCTTATCTTTCTTTTTC
1 TTTCTTTTCTTTCTTTTTC
17752584 CACTTCATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 2 0.05
27 6 0.15
28 9 0.22
29 15 0.37
30 7 0.17
31 2 0.05
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTCTTTTCTTTCTTTTTCTATTTTTAC
Found at i:17765014 original size:30 final size:30
Alignment explanation
Indices: 17764980--17765040 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17764970 TCCTTAACTC
17764980 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
17765010 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
17765040 A
1 A
17765041 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:17766301 original size:20 final size:21
Alignment explanation
Indices: 17766261--17766301 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
17766251 ATGAAATAAG
**
17766261 AAACGAGCTGGAAGGAAGCTC
1 AAACGAGCTGGAAACAAGCTC
17766282 AAACGAGCT-GAAACAAGCTC
1 AAACGAGCTGGAAACAAGCTC
17766302 CAGTGAGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.10
Consensus pattern (21 bp):
AAACGAGCTGGAAACAAGCTC
Found at i:17767660 original size:29 final size:28
Alignment explanation
Indices: 17767622--17767685 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
17767612 CATAGAAGAG
17767622 AAAAATGATCAGCATGTCATAAAACATA
1 AAAAATGATCAGCATGTCATAAAACATA
* *
17767650 AAAAACTGATCGGTATGTCATAAAACATA
1 AAAAA-TGATCAGCATGTCATAAAACATA
17767679 AGAAAAT
1 A-AAAAT
17767686 AGGCTGAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 5 0.16
29 23 0.72
30 4 0.12
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.22
Consensus pattern (28 bp):
AAAAATGATCAGCATGTCATAAAACATA
Found at i:17768242 original size:46 final size:45
Alignment explanation
Indices: 17768189--17768364 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
17768179 TATTTGGGCA
17768189 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
17768235 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
17768282 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
17768328 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17768365 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:17768344 original size:93 final size:93
Alignment explanation
Indices: 17768185--17768356 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
17768175 GGGATATTTG
* *
17768185 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
17768250 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
17768278 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
17768343 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
17768357 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:17771324 original size:15 final size:15
Alignment explanation
Indices: 17771304--17771372 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
17771294 GTATCTTGGG
17771304 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
17771319 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
17771334 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
17771349 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
17771364 TTTCTTTAT
1 TTTCTTTAT
17771373 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:17771373 original size:30 final size:30
Alignment explanation
Indices: 17771295--17771382 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
17771285 CATAGTATCG
* * * *
17771295 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
17771325 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
17771355 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
17771383 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:17773839 original size:46 final size:45
Alignment explanation
Indices: 17773772--17773944 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
17773762 TATTTGGGCA
*
17773772 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
17773818 TCCGAACTCGTTGAGCTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
17773865 TCCGAGCTCGTTGAGTTGGGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
17773911 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17773945 NNNNNNNNNN
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 61 0.59
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:17773931 original size:93 final size:93
Alignment explanation
Indices: 17773768--17773939 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
17773758 GGGATATTTG
*
17773768 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
17773833 CTGAGTCCGAGTTCGAGAGATGTAACTA
66 CTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
17773861 GGCATCCGAGCTCGTTGAGTTGGGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
*
17773925 GTTGAGTCCGAGTTC
65 GCTGAGTCCGAGTTC
17773940 ACTTANNNNN
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
CTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:17776814 original size:17 final size:16
Alignment explanation
Indices: 17776785--17776828 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
17776775 CTTTTTGCTC
17776785 TCTTTTATTTTCTTT-T
1 TCTTTTATTTT-TTTCT
17776801 TC--TTATTTTTTTCT
1 TCTTTTATTTTTTTCT
17776815 TCTTTTATTTTTTT
1 TCTTTTATTTTTTT
17776829 ACAATCTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 10 0.40
16 12 0.48
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (16 bp):
TCTTTTATTTTTTTCT
Found at i:17778910 original size:11 final size:11
Alignment explanation
Indices: 17778894--17778993 Score: 128
Period size: 11 Copynumber: 8.6 Consensus size: 11
17778884 AGTTTCAATT
17778894 TTTTTTTGAAA
1 TTTTTTTGAAA
17778905 TTTTTTTGAAA
1 TTTTTTTGAAA
17778916 TTTTTTTGAAA
1 TTTTTTTGAAA
17778927 TTTTTTTGAAA
1 TTTTTTTGAAA
*
17778938 TTTTTTTGAAC
1 TTTTTTTGAAA
17778949 TTTTTTTCGAAA
1 TTTTTTT-GAAA
*
17778961 CTTTTTTTTGAAC
1 --TTTTTTTGAAA
*
17778974 TTTTTGTCGAAA
1 TTTTT-TTGAAA
17778986 CTTTTTTT
1 -TTTTTTT
17778994 TCACTTACTT
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
11 55 0.71
12 8 0.10
13 8 0.10
14 7 0.09
ACGTcount: A:0.22, C:0.06, G:0.09, T:0.63
Consensus pattern (11 bp):
TTTTTTTGAAA
Found at i:17782664 original size:30 final size:30
Alignment explanation
Indices: 17782629--17782692 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
17782619 AGCTTGATTT
17782629 AGCTCACA-TGAGCTTAATTTAGCTCGTTTG
1 AGCTCA-ATTGAGCTTAATTTAGCTCGTTTG
* * *
17782659 AGCTCAATTTAGCTTACTTTAGCTTGTTTG
1 AGCTCAATTGAGCTTAATTTAGCTCGTTTG
17782689 AGCT
1 AGCT
17782693 TGGCTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (30 bp):
AGCTCAATTGAGCTTAATTTAGCTCGTTTG
Found at i:17786000 original size:12 final size:12
Alignment explanation
Indices: 17785979--17786105 Score: 55
Period size: 12 Copynumber: 10.6 Consensus size: 12
17785969 AGAAAAGGAG
*
17785979 AAAGAGATTGAA
1 AAAGAAATTGAA
17785991 AAAGAAATTG--
1 AAAGAAATTGAA
**
17786001 AAAGAAA-ACAA
1 AAAGAAATTGAA
**
17786012 AAAGAAAACGAA
1 AAAGAAATTGAA
**
17786024 AAAGAAAAAGAA
1 AAAGAAATTGAA
** *
17786036 ATTGCAAA-AGAA
1 AAAG-AAATTGAA
17786048 AAAGAAATTGAA
1 AAAGAAATTGAA
** **
17786060 AAAGTGAGAGAA
1 AAAGAAATTGAA
*
17786072 AAAGAAAATGAA
1 AAAGAAATTGAA
17786084 GAAATGAAAATTGAA
1 -AAA-G-AAATTGAA
17786099 AAAGAAA
1 AAAGAAA
17786106 AAGCGAAAAA
Statistics
Matches: 87, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
10 7 0.08
11 10 0.11
12 52 0.60
13 7 0.08
14 4 0.05
15 7 0.08
ACGTcount: A:0.69, C:0.02, G:0.19, T:0.10
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:17786031 original size:18 final size:18
Alignment explanation
Indices: 17786005--17786108 Score: 91
Period size: 18 Copynumber: 5.6 Consensus size: 18
17785995 AAATTGAAAG
* *
17786005 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAAATGA
* *
17786023 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAAATGA
*
17786041 AAAAGAAAAAGAAATTGA
1 AAAAGAAAAAGAAAATGA
** * *
17786059 AAAAGTGAGAGAAAAAGA
1 AAAAGAAAAAGAAAATGA
*
17786077 AAATGAAGAAATGAAAATTGA
1 AAAAGAA-AAA-GAAAA-TGA
17786098 AAAAGAAAAAG
1 AAAAGAAAAAG
17786109 CGAAAAAAGA
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
18 48 0.72
19 3 0.04
20 8 0.12
21 8 0.12
ACGTcount: A:0.70, C:0.03, G:0.18, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:17786033 original size:6 final size:6
Alignment explanation
Indices: 17786001--17786108 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
17785991 AAAGAAATTG
* * ** *
17786001 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
17786048 AAAGAA ATTGAA AAAGTG AGAGAA AAAGAA AATGAA GAAATGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA -AAA-GAA AA-AGAA
17786099 AAAGAA AAAG
1 AAAGAA AAAG
17786109 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 24, Indels: 7
0.71 0.23 0.07
Matches are distributed among these distances:
5 3 0.04
6 60 0.80
7 9 0.12
8 3 0.04
ACGTcount: A:0.70, C:0.03, G:0.19, T:0.08
Consensus pattern (6 bp):
AAAGAA
Found at i:17786094 original size:14 final size:13
Alignment explanation
Indices: 17786069--17786106 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
17786059 AAAAGTGAGA
17786069 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
17786081 GAAGAAATGAAAATT
1 GAA-AAA-GAAAATT
17786096 GAAAAAGAAAA
1 GAAAAAGAAAA
17786107 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.13
13 8 0.35
14 8 0.35
15 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:17786120 original size:21 final size:21
Alignment explanation
Indices: 17786070--17786120 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
17786060 AAAGTGAGAG
* *
17786070 AAAAAGAAAATGAAGAAATGA
1 AAAAAGAAAAAGAAGAAACGA
**
17786091 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-CGA
17786112 AAAAAGAAA
1 AAAAAGAAA
17786121 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.08
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAACGA
Found at i:17786357 original size:86 final size:86
Alignment explanation
Indices: 17786212--17786386 Score: 350
Period size: 86 Copynumber: 2.0 Consensus size: 86
17786202 AAGAGAGGAA
17786212 TTCTTTTGCTAACCCCCTTTCGAAATTACCTTGTGATTTTTCTTTGTTTCAGGTTTGCAAGATTC
1 TTCTTTTGCTAACCCCCTTTCGAAATTACCTTGTGATTTTTCTTTGTTTCAGGTTTGCAAGATTC
17786277 CATCCACGGATTGGTTCCAAC
66 CATCCACGGATTGGTTCCAAC
17786298 TTCTTTTGCTAACCCCCTTTCGAAATTACCTTGTGATTTTTCTTTGTTTCAGGTTTGCAAGATTC
1 TTCTTTTGCTAACCCCCTTTCGAAATTACCTTGTGATTTTTCTTTGTTTCAGGTTTGCAAGATTC
17786363 CATCCACGGATTGGTTCCAAC
66 CATCCACGGATTGGTTCCAAC
17786384 TTC
1 TTC
17786387 ATTACCTTTC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (86 bp):
TTCTTTTGCTAACCCCCTTTCGAAATTACCTTGTGATTTTTCTTTGTTTCAGGTTTGCAAGATTC
CATCCACGGATTGGTTCCAAC
Found at i:17790711 original size:17 final size:16
Alignment explanation
Indices: 17790691--17790722 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
17790681 TTTCACAGTC
17790691 TTTCTCTTTTTCTTTCT
1 TTTCT-TTTTTCTTTCT
17790708 TTTCTTTTTTCTTTC
1 TTTCTTTTTTCTTTC
17790723 ACACTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTTTTTTCTTTCT
Found at i:17800668 original size:13 final size:12
Alignment explanation
Indices: 17800650--17800707 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 12
17800640 ACGGTATTGT
*
17800650 AAAAAAAATAT-
1 AAAAAAAATTTA
17800661 AAAAAAAATTTGAA
1 AAAAAAAATTT--A
17800675 AAAAAAAATTTTGA
1 AAAAAAAA-TTT-A
*
17800689 AAAAAAAATTCA
1 AAAAAAAATTTA
17800701 AAAAAAA
1 AAAAAAA
17800708 GTTTGTATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 10 0.25
12 8 0.20
13 2 0.05
14 17 0.43
15 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (12 bp):
AAAAAAAATTTA
Found at i:17800698 original size:14 final size:15
Alignment explanation
Indices: 17800661--17800696 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
17800651 AAAAAAATAT
17800661 AAAAAAAA-TTTGAA
1 AAAAAAAATTTTGAA
17800675 AAAAAAAATTTTGAA
1 AAAAAAAATTTTGAA
17800690 AAAAAAA
1 AAAAAAA
17800697 TTCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAAAAATTTTGAA
Found at i:17800705 original size:14 final size:14
Alignment explanation
Indices: 17800661--17800707 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
17800651 AAAAAAATAT
*
17800661 AAAAAAAATTTGAA
1 AAAAAAAATTTAAA
**
17800675 AAAAAAAATTTTGA
1 AAAAAAAATTTAAA
*
17800689 AAAAAAAATTCAAA
1 AAAAAAAATTTAAA
17800703 AAAAA
1 AAAAA
17800708 GTTTGTATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (14 bp):
AAAAAAAATTTAAA
Found at i:17800785 original size:26 final size:24
Alignment explanation
Indices: 17800755--17800817 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
17800745 ATTGAAGAAA
*
17800755 AAAAAGAAAAAAAAAAATTCGAAATT
1 AAAAA-AAAAAAAAAAA-TCAAAATT
17800781 AAAAAAAAGAAAAAAAATCAAAATT
1 AAAAAAAA-AAAAAAAATCAAAATT
*
17800806 GAAAAAAAAAAA
1 AAAAAAAAAAAA
17800818 GAGTGATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 4 0.12
25 17 0.50
26 13 0.38
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.11
Consensus pattern (24 bp):
AAAAAAAAAAAAAAAATCAAAATT
Found at i:17800813 original size:29 final size:27
Alignment explanation
Indices: 17800745--17800819 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 27
17800735 TGTATTTAGT
*
17800745 ATTGAAGAAAAAAAAG-AAAAAAAAAA
1 ATTGAAAAAAAAAAAGAAAAAAAAAAA
17800771 ATTCGAAATTAAAAAAAAGAAAAAAAATCAAA
1 ATT-GAAA--AAAAAAAAGAAAAAAAA--AAA
17800803 ATTGAAAAAAAAAAAGA
1 ATTGAAAAAAAAAAAGA
17800820 GTGATTGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
26 3 0.07
27 3 0.07
29 19 0.45
30 7 0.17
31 4 0.10
32 6 0.14
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (27 bp):
ATTGAAAAAAAAAAAGAAAAAAAAAAA
Found at i:17801655 original size:21 final size:20
Alignment explanation
Indices: 17801626--17801671 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17801616 AATCTTGAAT
*
17801626 GAAATTGAGAGAAGAAAAAAA
1 GAAAATGAGAG-AGAAAAAAA
* *
17801647 GAAAATGAGAGTGAGAAAAA
1 GAAAATGAGAGAGAAAAAAA
17801667 GAAAA
1 GAAAA
17801672 AAGAATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (20 bp):
GAAAATGAGAGAGAAAAAAA
Found at i:17801715 original size:27 final size:29
Alignment explanation
Indices: 17801647--17801741 Score: 68
Period size: 30 Copynumber: 3.2 Consensus size: 29
17801637 AAGAAAAAAA
*
17801647 GAAAATGAGAGTGAGAAAAAGAAAAAAGAATTT
1 GAAAATGAGAGT-TGAAAAAG-AAAAAG-A-TT
* *
17801680 GAGATTGAGA-TTGAAAAAGAAAAAGA-T
1 GAAAATGAGAGTTGAAAAAGAAAAAGATT
* * * *
17801707 GAAAATGAGATTTCAAAAACAAAAGAGAGT
1 GAAAATGAGAGTTGAAAAAGAAAA-AGATT
17801737 GAAAA
1 GAAAA
17801742 GCAAAAAGAG
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
27 9 0.17
28 11 0.21
29 4 0.08
30 12 0.23
31 7 0.13
32 1 0.02
33 8 0.15
ACGTcount: A:0.59, C:0.02, G:0.23, T:0.16
Consensus pattern (29 bp):
GAAAATGAGAGTTGAAAAAGAAAAAGATT
Found at i:17814800 original size:18 final size:18
Alignment explanation
Indices: 17814779--17814828 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
17814769 AAACTCTTTT
17814779 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
17814797 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
* *
17814815 TCAATCTCCTTTTC
1 TCATTCTCTTTTTC
17814829 TTTTTCTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.14, C:0.30, G:0.00, T:0.56
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:17814818 original size:24 final size:24
Alignment explanation
Indices: 17814754--17814835 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
17814744 GTTATTCACA
* *
17814754 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCATT
* * * *
17814778 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCATT
* *
17814802 TTCTTTTTCACTCTCAATCTCCTT
1 TTCTTTTTCTCTCTCAATCTCATT
17814826 TTCTTTTTCT
1 TTCTTTTTCT
17814836 TTCATTTCTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCATT
Found at i:17817344 original size:10 final size:10
Alignment explanation
Indices: 17817331--17817365 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
17817321 AAGCTCGGTT
17817331 GAGCTCAAAC
1 GAGCTCAAAC
*
17817341 GAGCTGAAAC
1 GAGCTCAAAC
*
17817351 GAGCTCAAAT
1 GAGCTCAAAC
17817361 GAGCT
1 GAGCT
17817366 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:17817374 original size:20 final size:20
Alignment explanation
Indices: 17817328--17817375 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
17817318 AGTAAGCTCG
17817328 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
17817348 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
17817368 GTTGAGCT
1 GTTGAGCT
17817376 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:17828744 original size:15 final size:14
Alignment explanation
Indices: 17828708--17828762 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
17828698 TCTATTGATC
17828708 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
17828722 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
17828736 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
17828751 GAAAGAAAAGAA
1 GAGA-AAAAGAA
17828763 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:17839958 original size:21 final size:21
Alignment explanation
Indices: 17839934--17839993 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
17839924 AAAAGCAAGA
17839934 AAAAAAATGAAAAAGAAAAAG
1 AAAAAAATGAAAAAGAAAAAG
*
17839955 AAAAGAAAGTGGAAAAA-AAAGAG
1 AAAA-AAA-T-GAAAAAGAAAAAG
*
17839978 AAAAAAGTGAGAAAAG
1 AAAAAAATGA-AAAAG
17839994 TGATTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.06
21 9 0.28
22 5 0.16
23 10 0.31
24 6 0.19
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (21 bp):
AAAAAAATGAAAAAGAAAAAG
Found at i:17848931 original size:30 final size:30
Alignment explanation
Indices: 17848876--17849127 Score: 185
Period size: 30 Copynumber: 8.5 Consensus size: 30
17848866 TTGTTACCAG
* * * * *
17848876 CCCTTTTCATAGTTCGGTAGTCGAAGCTAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* * *
17848906 CCCTTTCCATATTTTGATAGCCGAAGACAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* * * *
17848936 CCCTTTTCATTA-TTGATGGTC-ATCA-CCAC
1 CCCTTTTCATAATTTGATAGCCGA--AGCCAT
* *
17848965 CCCTTTTCATAATTTGATAGTCGAAGCTAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* **
17848995 CCCTTTTCATAAATCAATAGCCGAAGCCAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
*
17849025 CCCTTTTCATAATTTGATAGCCAAAGCCAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
** * * *
17849055 CCCTTTTCATAATTCAATGGTCGTCA-CCAT
1 CCCTTTTCATAATTTGATAGCCG-AAGCCAT
* *
17849085 CCCTTTTCAT--TGTTGATAGTCGTCA-CCAT
1 CCCTTTTCATAAT-TTGATAGCCG-AAGCCAT
17849114 CCCTTTTCATAATT
1 CCCTTTTCATAATT
17849128 CAATAGCTGA
Statistics
Matches: 177, Mismatches: 36, Indels: 18
0.77 0.16 0.08
Matches are distributed among these distances:
28 2 0.01
29 45 0.25
30 127 0.72
31 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (30 bp):
CCCTTTTCATAATTTGATAGCCGAAGCCAT
Found at i:17849015 original size:89 final size:89
Alignment explanation
Indices: 17848871--17849069 Score: 238
Period size: 89 Copynumber: 2.2 Consensus size: 89
17848861 GATGGTTGTT
* * * ** **
17848871 ACCAGCCCTTTTCATAGTTCGGTAGTCGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGACAT
1 ACCACCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTCCATAAATCAATAGCCGAAGACAT
17848936 CCCTTTTCATTATTGATGGTCATC
66 CCCTTTTCATTATTGATGGTCATC
* * *
17848960 ACCACCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATAAATCAATAGCCGAAGCCAT
1 ACCACCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTCCATAAATCAATAGCCGAAGACAT
* * * *
17849025 CCCTTTTCATAATTTGATAGCCA-A
66 CCCTTTTCATTA-TTGATGGTCATC
*
17849049 AGCCATCCCTTTTCATAATTC
1 A-CCACCCCTTTTCATAATTC
17849070 AATGGTCGTC
Statistics
Matches: 92, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
89 67 0.73
90 25 0.27
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (89 bp):
ACCACCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTCCATAAATCAATAGCCGAAGACAT
CCCTTTTCATTATTGATGGTCATC
Found at i:17849043 original size:60 final size:60
Alignment explanation
Indices: 17848876--17849149 Score: 229
Period size: 59 Copynumber: 4.6 Consensus size: 60
17848866 TTGTTACCAG
* ** * * * * * *
17848876 CCCTTTTCATAGTTCGGTAGTCGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGACAT
1 CCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCAT
* * * * * *
17848936 CCCTTTTCATTATT-GATGGTC-ATCA-CCACCCCTTTTCATAATTTGATAGTCGAAGCTAT
1 CCCTTTTCATAATTCAATAGCCGA--AGCCATCCCTTTTCATAATTTGATAGTCGAAGCCAT
* * *
17848995 CCCTTTTCATAAATCAATAGCCGAAGCCATCCCTTTTCATAATTTGATAGCCAAAGCCAT
1 CCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCAT
* * * *
17849055 CCCTTTTCATAATTCAATGGTCGTCA-CCATCCCTTTTCAT--TGTTGATAGTCGTCA-CCAT
1 CCCTTTTCATAATTCAATAGCCG-AAGCCATCCCTTTTCATAAT-TTGATAGTCG-AAGCCAT
* * *
17849114 CCCTTTTCATAATTCAATAGCTGAAGCTATCTCTTT
1 CCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTT
17849150 CCATTTTTTG
Statistics
Matches: 172, Mismatches: 33, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
58 3 0.02
59 85 0.49
60 82 0.48
61 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (60 bp):
CCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCAT
Found at i:17849089 original size:90 final size:89
Alignment explanation
Indices: 17848871--17849094 Score: 218
Period size: 89 Copynumber: 2.5 Consensus size: 89
17848861 GATGGTTGTT
* * ** * * ** **
17848871 ACCAGCCCTTTTCATAGTTCGGTAGTCGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGACAT
1 ACCACCCCTTTTCATAATTCAATAGTCGAAGCCATCCCTTTTCATAAATCAATAGCCGAAGACAT
* * * *
17848936 CCCTTTTCATTATTGATGGTCATC
66 CCCTTTTCATAATTGATAGCCATA
** * *
17848960 ACCACCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATAAATCAATAGCCGAAGCCAT
1 ACCACCCCTTTTCATAATTCAATAGTCGAAGCCATCCCTTTTCATAAATCAATAGCCGAAGACAT
17849025 CCCTTTTCATAATTTGATAGCCA-A
66 CCCTTTTCATAA-TTGATAGCCATA
* * *
17849049 AGCCATCCCTTTTCATAATTCAATGGTCGTCA-CCATCCCTTTTCAT
1 A-CCACCCCTTTTCATAATTCAATAGTCG-AAGCCATCCCTTTTCAT
17849095 TGTTGATAGT
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
89 67 0.60
90 44 0.39
91 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (89 bp):
ACCACCCCTTTTCATAATTCAATAGTCGAAGCCATCCCTTTTCATAAATCAATAGCCGAAGACAT
CCCTTTTCATAATTGATAGCCATA
Found at i:17849101 original size:119 final size:118
Alignment explanation
Indices: 17848897--17849183 Score: 355
Period size: 119 Copynumber: 2.4 Consensus size: 118
17848887 GTTCGGTAGT
* * *
17848897 CGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGACATCCCTTTTCATTATTGATGGTCATCAC
1 CGAAGCTATCCCTTTCCATATTTTGATAGCCAAAGACATCCCTTTTCATAATTAATGGTCATCAC
*
17848962 CACCCCTTTTCATAATTTGATAGTCG-AAGCTATCCCTTTTCATAAATCAATAGC
66 CACCCCTTTTCAT-ATTTGATAGTCGTAA-CCATCCCTTTTCATAAATCAATAGC
* * * * *
17849016 CGAAGCCATCCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCATAATTCAATGGTCGTCA
1 CGAAGCTATCCCTTTCCATATTTTGATAGCCAAAGACATCCCTTTTCATAATT-AATGGTCATCA
* * *
17849081 CCATCCCTTTTCAT-TGTTGATAGTCGTCACCATCCCTTTTCATAATTCAATAGC
65 CCACCCCTTTTCATAT-TTGATAGTCGTAACCATCCCTTTTCATAAATCAATAGC
* * * * *
17849135 TGAAGCTATCTCTTTCCATTTTTTGATAACCAAAGTA-ATCCATTTTCAT
1 CGAAGCTATCCCTTTCCATATTTTGATAGCCAAAG-ACATCCCTTTTCAT
17849184 TGGCCGATGA
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
118 1 0.01
119 119 0.83
120 23 0.16
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (118 bp):
CGAAGCTATCCCTTTCCATATTTTGATAGCCAAAGACATCCCTTTTCATAATTAATGGTCATCAC
CACCCCTTTTCATATTTGATAGTCGTAACCATCCCTTTTCATAAATCAATAGC
Found at i:17849126 original size:59 final size:59
Alignment explanation
Indices: 17848904--17849131 Score: 239
Period size: 60 Copynumber: 3.8 Consensus size: 59
17848894 AGTCGAAGCT
* * * * * *
17848904 ATCCCTTTCCATATTTTGATAGCCGAAGACATCCCTTTTCATTATT-GATGGTCATCACC
1 ATCCCTTTTCATA-TTTGATAGTCGAAGCCATCCCTTTTCATAATTCAATGGTCGTCACC
* * * * * *
17848963 ACCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATAAATCAATAGCCG-AAGCC
1 ATCCCTTTTCAT-ATTTGATAGTCGAAGCCATCCCTTTTCATAATTCAATGGTCGTCA-CC
* *
17849023 ATCCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCATAATTCAATGGTCGTCACC
1 ATCCCTTTTCAT-ATTTGATAGTCGAAGCCATCCCTTTTCATAATTCAATGGTCGTCACC
*
17849083 ATCCCTTTTCAT-TGTTGATAGTCGTCA-CCATCCCTTTTCATAATTCAAT
1 ATCCCTTTTCATAT-TTGATAGTCG-AAGCCATCCCTTTTCATAATTCAAT
17849132 AGCTGAAGCT
Statistics
Matches: 140, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
58 1 0.01
59 68 0.49
60 70 0.50
61 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (59 bp):
ATCCCTTTTCATATTTGATAGTCGAAGCCATCCCTTTTCATAATTCAATGGTCGTCACC
Found at i:17849281 original size:12 final size:12
Alignment explanation
Indices: 17849266--17849304 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
17849256 TTATAACATA
17849266 ATTTAAAATGCT
1 ATTTAAAATGCT
17849278 ATTT-AAA--C-
1 ATTTAAAATGCT
17849286 ATTTAAAATGCT
1 ATTTAAAATGCT
17849298 ATTTAAA
1 ATTTAAA
17849305 CATAGGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 4 0.17
9 4 0.17
11 4 0.17
12 11 0.48
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (12 bp):
ATTTAAAATGCT
Found at i:17849291 original size:20 final size:20
Alignment explanation
Indices: 17849266--17849307 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
17849256 TTATAACATA
17849266 ATTTAAAATGCTATTTAAAC
1 ATTTAAAATGCTATTTAAAC
17849286 ATTTAAAATGCTATTTAAAC
1 ATTTAAAATGCTATTTAAAC
17849306 AT
1 AT
17849308 AGGAACTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
ATTTAAAATGCTATTTAAAC
Found at i:17859178 original size:55 final size:55
Alignment explanation
Indices: 17859118--17859226 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
17859108 AGTTTCGAAT
17859118 ACGAACCTGTACCACTCACAACATGATTATATCATTCCATATCATTGTCATAAGA
1 ACGAACCTGTACCACTCACAACATGATTATATCATTCCATATCATTGTCATAAGA
*
17859173 ACGAACCTGTACCACTCACAACATGATTATATCATTCTATATCATTGTCATAAG
1 ACGAACCTGTACCACTCACAACATGATTATATCATTCCATATCATTGTCATAAG
17859227 CTTTTAAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (55 bp):
ACGAACCTGTACCACTCACAACATGATTATATCATTCCATATCATTGTCATAAGA
Found at i:17859552 original size:144 final size:144
Alignment explanation
Indices: 17859339--17859659 Score: 398
Period size: 144 Copynumber: 2.2 Consensus size: 144
17859329 TGTTGAGGCG
* * * * *
17859339 GATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCGTCTCATTGTCAATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGACTCATCGTCAATGCCATGTCCCAAAC
** * *
17859404 ATGGTCTTACACTGGCTCTCATAAGGTAACCGATGCCATGTCCTAGACATGGTCTTACGCTAGCA
66 ATGGTCTTACACTGGCTCTCATAACATAACCGATGCCATGTCCCAGACATGGTCTTACACTA--A
17859469 C-AAC-CATCAATGCC
129 CGAACACATCAATGCC
* * ***
17859483 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ACAAT-ATCGTCGATGCTATGTTTGAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGAC--TCATCGTCAATGCCATGTCCCAA
* **
17859546 ACATGGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGTCCCAGACATGGTCTTACACTAA
64 ACATGGTCTTACACTGGCTCTCATAACATAACCGATGCCATGTCCCAGACATGGTCTTACACTAA
* * *
17859611 CGTACATATCAATGTC
129 CGAACACATCAATGCC
17859627 GATGCCATGTCCCAGACATGGTCTTACACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
17859660 ACACGTATCA
Statistics
Matches: 153, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
142 2 0.01
143 3 0.02
144 147 0.96
145 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (144 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGACTCATCGTCAATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCTCATAACATAACCGATGCCATGTCCCAGACATGGTCTTACACTAACG
AACACATCAATGCC
Found at i:17859669 original size:48 final size:47
Alignment explanation
Indices: 17859292--17859669 Score: 293
Period size: 48 Copynumber: 7.9 Consensus size: 47
17859282 TGAATTGCCA
* * * ** *
17859292 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGA-GGCGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAC-TATCAATGTC-G
* * * * * *
17859340 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCGTCTCATTGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAC-TATCAATGTCG
* *
17859388 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-AT-AAGGTAACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACTATCAATGT---CG
* * * * * *
17859436 ATGCCATGTCCTAGACATGGTCTTACGCTAGCACAACCATCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ACTATCAATGTCG
*
17859484 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-A-CAATATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACTATC-A-AT-GTCG
* *** * * *
17859532 ATGCTATGTTTGAAACATGGTCTTACACTGGCTCTCATATC-ATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAC-TATCAAT-GTCG
**
17859580 ATGCCATGTCCCAGACATGGTCTTACACTAACGT-ACATATCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCAC-TATCAATGTCG
*
17859628 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACGTATCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAC-TATCA
17859670 CCCAAATGTC
Statistics
Matches: 263, Mismatches: 51, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
45 4 0.02
46 3 0.01
47 3 0.01
48 240 0.91
49 6 0.02
50 3 0.01
51 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACTATCAATGTCG
Found at i:17862902 original size:40 final size:40
Alignment explanation
Indices: 17862830--17863014 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
17862820 GCTACTCGTT
* * * *
17862830 CAAATGCCTTTGGGACATAGCTCTG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
17862870 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
17862910 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
17862949 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
17862990 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17863015 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.61
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:17862944 original size:79 final size:80
Alignment explanation
Indices: 17862858--17863014 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
17862848 AGCTCTGTTA
* * *
17862858 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TGGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTC
17862921 GGG-CTTAGCCCGGAAT
64 GGGACTTAGCCCGGAAT
* ** * *
17862937 TAGTAACTCGCACCAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
17863002 GACTTAGCCCGGA
66 GACTTAGCCCGGA
17863015 CATCATTCGA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.04
79 49 0.73
80 15 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:17875491 original size:43 final size:42
Alignment explanation
Indices: 17875415--17875526 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
17875405 TGAGTTTACT
* * *
17875415 TGTAAGACCATATCAGGGATATGGCATCTATATGAGACTT-CG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTGCA
* *
17875457 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATTGCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTGCA
*
17875500 TGTAAGACCATATCTGGGATATCGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
17875527 TGGTACAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTGCA
Found at i:17879876 original size:13 final size:12
Alignment explanation
Indices: 17879854--17879887 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
17879844 GGCCTGCCCG
17879854 TATTAATTTTTTA
1 TATT-ATTTTTTA
17879867 TATTA-TTTTTA
1 TATTATTTTTTA
17879878 TATTATTTTT
1 TATTATTTTT
17879888 AAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 5 0.25
13 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:17879893 original size:13 final size:11
Alignment explanation
Indices: 17879861--17879888 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
17879851 CCGTATTAAT
17879861 TTTTTATATTA
1 TTTTTATATTA
17879872 TTTTTATATTA
1 TTTTTATATTA
17879883 TTTTTA
1 TTTTTA
17879889 AATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:17880053 original size:29 final size:30
Alignment explanation
Indices: 17880011--17880071 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
17880001 CTTAACAAGT
17880011 AAATGCCTCTAAAATAATAA-AAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
17880040 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
17880070 AA
1 AA
17880072 GAAAATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:17890388 original size:22 final size:22
Alignment explanation
Indices: 17890363--17890407 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17890353 TTTAATAAAG
17890363 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
17890385 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
17890407 A
1 A
17890408 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:17894162 original size:22 final size:22
Alignment explanation
Indices: 17894137--17894181 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17894127 TTTAATAAAG
17894137 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
17894159 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
17894181 A
1 A
17894182 CAGTTCCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:17898781 original size:28 final size:28
Alignment explanation
Indices: 17898717--17898773 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
17898707 TTTCTTTCAC
* *
17898717 AAAATGCAAATAAATAAATAAAGTTTAG
1 AAAATGCAAATAAATAAATAAAATTAAG
17898745 AAAATGCAAATAAATAAATAAAATGTAAG
1 AAAATGCAAATAAATAAATAAAAT-TAAG
17898774 GCATGCAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.63, C:0.04, G:0.11, T:0.23
Consensus pattern (28 bp):
AAAATGCAAATAAATAAATAAAATTAAG
Found at i:17900080 original size:286 final size:284
Alignment explanation
Indices: 17898519--17900493 Score: 1388
Period size: 300 Copynumber: 6.8 Consensus size: 284
17898509 TTCCCAAAAA
* * * * ** * * *
17898519 GTCACCCATCCTAGTAT-TACTCTCACCTAAGCACGCTTAATTGTAGAGTTCT-ATTGAAATCCA
1 GTCACCCATCCTAGT-TCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGATGGATA-CGA
* * * ** * * * *
17898582 TTGCATTAATGCTAGTATGATCGCACCCCACAAATCTTGCACAATC-AGTTTATATAAAGGCTAT
64 -TGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTA-TTTACATAAAGGCTAC
* * * * *
17898646 CTCTTATTGCACTTGCGCCTCAAATTTGAATGCAAATTTGACCAAATAATGTTTCAAAAGATTTC
127 CCCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTA
* ** * ***
17898711 TTTCACAAAATGC----AAATAAATAAATAAAGTTTAGAAAATGCAAATAAATAAATAAAATGTA
192 TTTCGCAAAACACAAATAAATAAATAAATAAAGTTTTGAAAACAAAAATAAA-AAATAAAATGTA
**
17898772 AGGCATGCAACACGAGGACTT-CTCAGGAG
256 AGGGGTGCAACACGAGGACTTCCT-AGGAG
* * * *
17898801 GTCATCCATCCTAGTTCTACTCTAACCCAA-CAATGCTTAATTGCAGAGTTCTGATAGGATACGA
1 GTCACCCATCCTAGTTCTACTCTTACCCAAGC-ATGCTTAACTACAGAGTTCTGAT-GGATACGA
* * * * *
17898865 TGCTTTAGTGTTGGTATAATCGCACCTGTCAATTCTTGCGCAAT-TGATTTACATAAAGGCTACC
64 TGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCT-ATTTACATAAAGGCTACC
* * * * *
17898929 CCTTAACGCACTTGTGCCTCGAATTTTAATGCAAATTTGACCAAATAACCTTTCAAAATATTTAT
128 CCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTAT
** * * *
17898994 TTCAAAAAACAAAAATAAATAAATAAATAATGTTTAGAAAGGTTTATTCCACAAAACAGAAATAA
193 TTCGCAAAACACAAATAAATAAAT--A-AA----T--AAA-G-TT-TT---GAAAACAAAAAT-A
* * * * * *
17899059 AAAAAAACAAACGTGAGGGGTGCAACATG-GGACTTCCAAAGAG
242 AAAAATA-AAATGTAAGGGGTGCAACACGAGGACTTCCTAGGAG
* * * * * * * *
17899102 GTCACCCATCCTAGTACTAATCTTGCCCAAGCACGCTTAACTATAGTGTTTTGATGGAATCCAGT
1 GTCACCCATCCTAGTTCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGATGG-ATAC-G-
* * * * *
17899167 AT--ATTAGTGCTAGTATGATCACATCCATCAGTTCTTGCGCAATCTATTTACATAAAGGCTGCC
63 ATGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTACC
* * * ** * **
17899230 CCTTATCGCACTTGCGACTCAAATTTGAATGAAAATTCAACCAAATAA-TTTTCAAATTATTTAT
128 CCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTAT
* * * *
17899294 TTTGCAAAACACAAATAATTAATTAAATTAATGCTGTTTAGAAAACGTAACTAAAAAAATTATAT
193 TTCGCAAAACACAAATAAATAAATAAA-TAAAG-T-TTT-G--AA---AAC---AAAAA-TA-A-
** * * *
17899359 AAAATAAAATGGGAGGGTTGCAACATGAGGACTTCCCAGGAG
243 AAAATAAAATGTAAGGGGTGCAACACGAGGACTTCCTAGGAG
* * * * * * * * * *
17899401 GTCACTCGTCCTAGTACTACTCTCACCCAAGCACGCTTAATTGCGGAGTTCTGATGAGATTCGTT
1 GTCACCCATCCTAGTTCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGATG-GATACGAT
** * * ** * *
17899466 GCATTAGTGCTGGTATGATTTCACCCATCAAATCTTGCATAAT-TATTTTACATAAAAGCTACTC
65 GCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTA-TTTACATAAAGGCTACCC
* *
17899530 CTTA-CTGCACTTGCACCTCGTATTTGAATGCAAATTT------ATAACGTTTCAAAAGATTTAT
129 CTTATC-GCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTAT
* * * *
17899588 TTTGCAAAACGCAAATAAATAAATAATTAAATAATGTTTAGAAAATGCAAAAA-AAAGAAA-AGA
193 TTCGCAAAACACAAATAAAT--A-AA-TAAATAAAGTTTTGAAAA--CAAAAATAAA-AAATA-A
*
17899651 AA-GTAAGGGGTGCAACACGATGACTTCCTAGGAG
250 AATGTAAGGGGTGCAACACGAGGACTTCCTAGGAG
* * * * * * * * *
17899685 GTCACCTATACTAGTTCTACTCTCACCCAAGCATGCCTAATTGC-CAGTTCTGATACGAT-CTGG
1 GTCACCCATCCTAGTTCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGAT-GGATAC-GA
* *
17899748 TGCATTAGTGCTGGTATGATCGCACCCGTTAATTCTTGCGCAATCTATTTACATAAAGGCTACCC
64 TGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTACCC
* * * *
17899813 CTTATTGCACTTGCGCCTTGAATTTGAATGCAAATTTGACCAAATAACGTTTGAAAAGATTTCTT
129 CTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTATT
* * *
17899878 TCGTAAAACGCAAATAAATAAACAAATAAAGTTTTGAAAACAAAAATAAAACAATAAAATGTAAG
194 TCGCAAAACACAAATAAATAAATAAATAAAGTTTTGAAAACAAAAATAAAA-AATAAAATGTAAG
** *
17899943 ATGTGCAACACGAGGACTTTCTAGGAG
258 GGGTGCAACACGAGGACTTCCTAGGAG
* * * * *
17899970 GTCACCCATCGTAGTTCTACCCTTGCCCAACCATGCTTAACTACGGAGTTCTGATAGGATACGAT
1 GTCACCCATCCTAGTTCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGAT-GGATACGAT
* * * *
17900035 GCGTTAGTTCTGGTATGATCACACCCGTCAGTTCTTGCGCAATCTATTTATATAAAGGC-AGCCC
65 GCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTA-CCC
* * * ** *
17900099 CTTATCGCACTTACGCCTCGAATTTTAATCCAAATTTGAAAAAATAACATTTCAAAAGATTTATT
129 CTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTATT
* * *
17900164 TAAG-AAAACACAAATAAATATTTAAATAAATGATGTTTTGAAAATGCAACTAAAAAATTTATAT
194 T-CGCAAAACACAAAT-AA-A--TAAATAAATAAAGTTTTG--AA---AAC--AAAAA--TA-A-
* * * * *
17900228 AAAATAAAATGTGAGGGGTGCAATACGAGTACATCATAGGAG
243 AAAATAAAATGTAAGGGGTGCAACACGAGGACTTCCTAGGAG
* * * * *
17900270 GTCACCCATCCTAGTCCTACT-TT-CGTCCAAGCGTGCTTAACTA-TGAGGTTCTGATGAAATTC
1 GTCACCCATCCTAGTTCTACTCTTAC--CCAAGCATGCTTAACTACAGA-GTTCTGATG-GATAC
* * * ** * * *
17900332 AACGCGTTAGTGCTCATATGATCTCACCCGTCAATTCTTGCGCAATCTATTTACAGAAAGCCT-C
62 GATGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTAC
* * * * *
17900396 CTCCTCATCGCACTTGTGTCTCGAATTTTAATGCAAATTTGACCAAATAATGTTTCAAAAGATTT
127 C-CCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTT
* * **
17900461 ATTTCACAAAACACAAGTAAATATTTAAATAAA
191 ATTTCGCAAAACACAAATAAATAAATAAATAAA
17900494 TGATGTTTAG
Statistics
Matches: 1345, Mismatches: 248, Indels: 186
0.76 0.14 0.10
Matches are distributed among these distances:
281 2 0.00
282 156 0.12
283 110 0.08
284 78 0.06
285 86 0.06
286 148 0.11
287 5 0.00
288 7 0.01
289 42 0.03
290 15 0.01
291 7 0.01
292 7 0.01
293 5 0.00
294 37 0.03
295 8 0.01
296 11 0.01
297 21 0.02
298 32 0.02
299 153 0.11
300 232 0.17
301 158 0.12
302 23 0.02
303 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (284 bp):
GTCACCCATCCTAGTTCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGATGGATACGATG
CATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTACCCCT
TATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTATTTC
GCAAAACACAAATAAATAAATAAATAAAGTTTTGAAAACAAAAATAAAAAATAAAATGTAAGGGG
TGCAACACGAGGACTTCCTAGGAG
Found at i:17905036 original size:48 final size:48
Alignment explanation
Indices: 17904969--17905062 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
17904959 CATCTTATTA
17904969 GGAAAGAAAACCCATAATGACCTTTCCTGGTGGCCTTGTTTAACTTAG
1 GGAAAGAAAACCCATAATGACCTTTCCTGGTGGCCTTGTTTAACTTAG
* *
17905017 GGAAAGAAAAGCCGTAATGACCTTTCCTGGTGGCCTTGTTTAACTT
1 GGAAAGAAAACCCATAATGACCTTTCCTGGTGGCCTTGTTTAACTT
17905063 CTTGTAATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (48 bp):
GGAAAGAAAACCCATAATGACCTTTCCTGGTGGCCTTGTTTAACTTAG
Found at i:17912841 original size:300 final size:298
Alignment explanation
Indices: 17912237--17913437 Score: 1252
Period size: 300 Copynumber: 4.0 Consensus size: 298
17912227 AATAACATTT
* *
17912237 CTACCCCTTATCGCACTTGTGCCTCGAATTTGAATGCAAATTCGACCAAATAA-AGTTTCAAATG
1 CTACCCCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTCAACCAAATAACA--TTCAAATG
** **
17912301 ATTTATTTCGCAAAACGTAAATAACTAATTAAATAAATGATGTTTAGAAAATGCAAATAAAAATA
64 ATTTATTTCGCAAAACACAAATAACTAATTAAATAAATGATGTTTAGAAAACACAAATAAAAA-A
** * * * * * * * *
17912366 ATTATATAAAATCTAATGAGAGGGGTGCAACACAAAGAATTTCGAAAAGGTCATCCATCCTAGTA
128 ATTATATAAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGAA-GTCACCCATCCTAGTA
* * * **
17912431 CTACTCTCTCCCAAGCACGCTTAACAATGAAGTTCTGATGGAATCCGGTGCATTAGTTTTGGTAT
192 CTACTCTCACCCAAGCACGCTTAACAATGAAGTTCTGATGGGATCCGATGCATTAGTGCTGGTAT
* * *
17912496 TATCGGACTCGTCAATTCTTGTGCAATCTATTTACATAAAGG
257 AATCGCACTCGTCAATTCTTGCGCAATCTATTTACATAAAGG
* * * ** ** *
17912538 CTACCCCTTATCACACTTGCGCCTCAAATTTGAATACAAATTTGACCAAATGGCATTCAATTGAT
1 CTACCCCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTCAACCAAATAACATTCAAATGAT
* * * * * *
17912603 TTATTTTGCAAAACACAAATAACTATTTAAATACATGATGTGTAAAAAACACAATTAATAAAAAT
66 TTATTTCGCAAAACACAAATAACTAATTAAATAAATGATGTTTAGAAAACACAAATAA-AAAAAT
*
17912668 TATATAAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGCAAGACACCCATCCTAGTACT
130 TATATAAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAG-AAGTCACCCATCCTAGTACT
* * * *
17912733 GCTCTCACCCAAGCACGTTTAGCAATGGAGTTCTGATGGGATCCGATGCATTAGTGCTGGTATAA
194 ACTCTCACCCAAGCACGCTTAACAATGAAGTTCTGATGGGATCCGATGCATTAGTGCTGGTATAA
* ** *
17912798 TCGCAC-CTGTTAATTCTTGCATAATCTGTTTACATAAAGG
259 TCGCACTC-GTCAATTCTTGCGCAATCTATTTACATAAAGG
* * *
17912838 CTACCGCTTATCGCACTTGCACCTCGAATTCT-AATG-AAATTTCAACCAAAGAACATTTCAAAT
1 CTACCCCTTATCGCACTTGCGCCTCGAATT-TGAATGCAAA-TTCAACCAAATAACA-TTCAAAT
* *
17912901 GATTTATTTCGCAAAACAAAAATAACTAATTAAATAAATGATGTTTAGAAAACGCAAATAAAAAA
63 GATTTATTTCGCAAAACACAAATAACTAATTAAATAAATGATGTTTAGAAAACACAAATAAAAAA
* ** *
17912966 ATTATATAAAATAAAATGGGAGGGGTCCAACACGAGGACTTTCCGGGAGGTCACCCATCCTAGTA
128 ATTATATAAAATAAAATGGGAGGGGTGCAACACGAGGAC-TTCCCAGAAGTCACCCATCCTAGTA
* * ** *
17913031 CTACTCTCGCCCGAA-CACGCTTGACTGCTG-AGTTCTGATGGGATCCGGTGCATTAGTGCTGGT
192 CTACTCTCACCC-AAGCACGCTTAAC-AATGAAGTTCTGATGGGATCCGATGCATTAGTGCTGGT
* ** ** * *
17913094 ATGATAACACTCGTCAACCCTTGCGCAATCTATTTATATAAACG
255 ATAATCGCACTCGTCAATTCTTGCGCAATCTATTTACATAAAGG
* * * *
17913138 TTACCCCTTATTGCACTTGCGCCAT-GAATTTGAATGCAAATTCAACCAAATAACGTTTCAAATT
1 CTACCCCTTATCGCACTTGCGCC-TCGAATTTGAATGCAAATTCAACCAAATAAC-ATTCAAATG
* ** ** *
17913202 ATTTATTTCGCAAAACGCAAATAACTAATTAGTTAAACAATG-TT--------C--A-AAAAAAT
64 ATTTATTTCGCAAAACACAAATAACTAATTAAATAAATGATGTTTAGAAAACACAAATAAAAAAA
* * *
17913255 TTATATAAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAAGAGGTCACCCATGCTACTAC
129 TTATATAAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCC-AGAAGTCACCCATCCTAGTAC
* * * * * * * *
17913320 TGCTCTCATCCAGGCACGCTTAACTACGAAATTCTGATGGGATCCGATGCATTAGTGTTGGTATG
193 TACTCTCACCCAAGCACGCTTAACAATGAAGTTCTGATGGGATCCGATGCATTAGTGCTGGTATA
** * ** * * *
17913385 ATTACACCCGTCAACCCTTTCGCAATCTATTTATATAACGG
258 ATCGCACTCGTCAATTCTTGCGCAATCTATTTACATAAAGG
17913426 CTACCCCTTATC
1 CTACCCCTTATC
17913438 TGTAATAGCC
Statistics
Matches: 757, Mismatches: 125, Indels: 49
0.81 0.13 0.05
Matches are distributed among these distances:
287 6 0.01
288 157 0.21
289 1 0.00
291 1 0.00
299 7 0.01
300 459 0.61
301 125 0.17
302 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (298 bp):
CTACCCCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTCAACCAAATAACATTCAAATGAT
TTATTTCGCAAAACACAAATAACTAATTAAATAAATGATGTTTAGAAAACACAAATAAAAAAATT
ATATAAAATAAAATGGGAGGGGTGCAACACGAGGACTTCCCAGAAGTCACCCATCCTAGTACTAC
TCTCACCCAAGCACGCTTAACAATGAAGTTCTGATGGGATCCGATGCATTAGTGCTGGTATAATC
GCACTCGTCAATTCTTGCGCAATCTATTTACATAAAGG
Found at i:17913829 original size:12 final size:12
Alignment explanation
Indices: 17913812--17913836 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17913802 GAAATTAGCT
17913812 AAAGGAAAAGAA
1 AAAGGAAAAGAA
17913824 AAAGGAAAAGAA
1 AAAGGAAAAGAA
17913836 A
1 A
17913837 GCCATATTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGGAAAAGAA
Found at i:17923301 original size:71 final size:68
Alignment explanation
Indices: 17923182--17923403 Score: 260
Period size: 68 Copynumber: 3.3 Consensus size: 68
17923172 CACTTAGTAC
* *
17923182 CACTCATGCGACCTAGC--CGATTTA--TCT--CGTAGCTCTCTTGTCTACATGGTG-TCCTTCA
1 CACTCATGCGACCTAGCTAC-ATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-
*
17923240 CTTGGAAT
63 C--CGAAT
17923248 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
1 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
*
17923313 TAT
66 AAT
* * *
17923316 CACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTCTCTACATGGGATACATCCCG
1 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
*
17923381 TAT
66 AAT
* *
17923384 CACACATGTGACCTAGCTAC
1 CACTCATGCGACCTAGCTAC
17923404 TATATAGTAT
Statistics
Matches: 142, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
66 17 0.12
67 5 0.04
68 89 0.63
69 3 0.02
70 2 0.01
71 26 0.18
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (68 bp):
CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
AAT
Found at i:17923341 original size:68 final size:68
Alignment explanation
Indices: 17923246--17923403 Score: 289
Period size: 68 Copynumber: 2.3 Consensus size: 68
17923236 TTCACTTGGA
* * *
17923246 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTCTCTACATGGGATACATCC
17923311 CGT
66 CGT
17923314 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTCTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTCTCTACATGGGATACATCC
17923379 CGT
66 CGT
17923382 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
17923404 TATATAGTAT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTCTCTACATGGGATACATCC
CGT
Found at i:17927105 original size:46 final size:46
Alignment explanation
Indices: 17927055--17927230 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
17927045 TGGTTGAGCA
17927055 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17927101 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
17927146 CATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
17927194 -CCCAAGGTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17927231 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 58 0.53
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17927211 original size:93 final size:93
Alignment explanation
Indices: 17927052--17927223 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
17927042 GGATGGTTGA
* *
17927052 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
17927117 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
17927145 GCATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGGTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
*
17927209 TTGAGTTCGAGTTCG
65 TTGAGTCCGAGTTCG
17927224 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17929661 original size:45 final size:45
Alignment explanation
Indices: 17929597--17929685 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
17929587 GGAATTATAA
*
17929597 GAAGCAAAATGTGGGTCTTAAATCCCAGACTACTTCGGCAGCCAG
1 GAAGCAAAATGTGGGTCTTAAATCCCAGAATACTTCGGCAGCCAG
* *
17929642 GAAGCAAAATGTGGGTCTTAAATCTCAGAATACTTCTGCAGCCA
1 GAAGCAAAATGTGGGTCTTAAATCCCAGAATACTTCGGCAGCCA
17929686 ATGTAGGGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (45 bp):
GAAGCAAAATGTGGGTCTTAAATCCCAGAATACTTCGGCAGCCAG
Found at i:17933263 original size:17 final size:17
Alignment explanation
Indices: 17933241--17933285 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
17933231 AACTAAGAAA
17933241 TAAAAGTGTTGAACTTG
1 TAAAAGTGTTGAACTTG
17933258 TAAAAGTGTTGAACTTG
1 TAAAAGTGTTGAACTTG
17933275 TAAAAGTGTTG
1 TAAAAGTGTTG
17933286 TGGCAAAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (17 bp):
TAAAAGTGTTGAACTTG
Found at i:17934754 original size:46 final size:46
Alignment explanation
Indices: 17934704--17934876 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
17934694 TTGAGCATCT
17934704 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
17934750 GAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
*
17934797 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
17934842 CAAGCTCGTTGAGTTGAGTCTGAGTTCTCTTATGG
1 GAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17934877 GCGGGTTTCA
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 54 0.51
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:17934857 original size:93 final size:93
Alignment explanation
Indices: 17934698--17934868 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
17934688 GGATGGTTGA
* * *
17934698 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
17934763 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
17934791 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
17934855 TTGAGTCTGAGTTC
65 TTGAGTCTGAGTTC
17934869 TCTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:17937333 original size:43 final size:43
Alignment explanation
Indices: 17937223--17937425 Score: 279
Period size: 41 Copynumber: 4.8 Consensus size: 43
17937213 CATAGGATTT
* *
17937223 TCGATATGTGATTACGTTTAAGACCATGTTTGGGACATCGGCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCA
* * *
17937266 TCG-TATTTGATT-CGTGTAAGACCATGTCTGGGACGTCAGCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCA
17937307 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCA
* *
17937350 TC-ATATTTGATT-CGTGTAAGACCTTGTCTGGGACATCGGCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCA
* * * *
17937391 TCAATATGTGATTACATGTAAGACAACGTCTGGGA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGA
17937426 TGTTGGGGTT
Statistics
Matches: 141, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
41 58 0.41
42 34 0.24
43 49 0.35
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCA
Found at i:17937364 original size:84 final size:84
Alignment explanation
Indices: 17937223--17937425 Score: 316
Period size: 84 Copynumber: 2.4 Consensus size: 84
17937213 CATAGGATTT
* * *
17937223 TCGATATGTGATTACGTTTAAGACCATGTTTGGGACATCGGCATCGTATTTGATTCGTGTAAGAC
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTCGTGTAAGAC
*
17937288 CATGTCTGGGACGTCAGCA
66 CATGTCTGGGACATCAGCA
17937307 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTCGTGTAAGAC
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTCGTGTAAGAC
* *
17937372 CTTGTCTGGGACATCGGCA
66 CATGTCTGGGACATCAGCA
* * * *
17937391 TCAATATGTGATTACATGTAAGACAACGTCTGGGA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGA
17937426 TGTTGGGGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 109 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (84 bp):
TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTCGTGTAAGAC
CATGTCTGGGACATCAGCA
Found at i:17937587 original size:56 final size:56
Alignment explanation
Indices: 17937439--17937684 Score: 354
Period size: 56 Copynumber: 4.4 Consensus size: 56
17937429 TGGGGTTGGA
*
17937439 CGATATGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
1 CGATAAGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
* *
17937495 CGAT-A-TGTGTGCGAGTAAGACCACGTTTAATGCGTTGGCATCGATATGTGATTC
1 CGATAAGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
* * *
17937549 TGATAAGTGTGTGCAAGTAAGACCACATTTAATACGTTGGCATTGATATGTGATTC
1 CGATAAGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
* * * *
17937605 CGATATGTGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTT
1 CGATAAGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
* *
17937661 CGATATGTG-GTTACGAGTAAGACC
1 CGATAAGTGTG-TGCGAGTAAGACC
17937685 CTGTTTGGGA
Statistics
Matches: 171, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
54 50 0.29
55 2 0.01
56 119 0.70
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (56 bp):
CGATAAGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
Found at i:17939046 original size:13 final size:14
Alignment explanation
Indices: 17939018--17939050 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
17939008 CATTTCGGCC
*
17939018 ATGTTTATATTTAT
1 ATGTTTATATTGAT
17939032 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
17939045 ATGTTT
1 ATGTTT
17939051 GTTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:17940617 original size:45 final size:45
Alignment explanation
Indices: 17940566--17940655 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
17940556 TATGCTATTC
17940566 GTGCTTGCGAGGAGGCTTCAACCCCAGATATTATTACTGGTACAT
1 GTGCTTGCGAGGAGGCTTCAACCCCAGATATTATTACTGGTACAT
*
17940611 GTGCTTGCGAGGAGGCTTCAACCCCAGATGTTATTACTGGTACAT
1 GTGCTTGCGAGGAGGCTTCAACCCCAGATATTATTACTGGTACAT
17940656 TCACTCTCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (45 bp):
GTGCTTGCGAGGAGGCTTCAACCCCAGATATTATTACTGGTACAT
Done.