Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 130 of 427
Found at i:34860906 original size:30 final size:29
Alignment explanation
Indices: 34860851--34860953 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
34860841 ATAGTGAATC
34860851 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
34860880 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
34860910 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
34860939 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34860954 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:34860943 original size:59 final size:60
Alignment explanation
Indices: 34860850--34860983 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
34860840 TATAGTGAAT
* * *
34860850 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
34860909 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
34860969 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
34860984 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:34868904 original size:30 final size:29
Alignment explanation
Indices: 34868845--34868947 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
34868835 ATAGTGAATC
34868845 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
34868874 CGCACACTTAGTGCTATATAATTTTTAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
34868904 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
34868933 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34868948 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 43 0.61
30 28 0.39
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:34868937 original size:59 final size:60
Alignment explanation
Indices: 34868844--34868977 Score: 225
Period size: 59 Copynumber: 2.2 Consensus size: 60
34868834 TATAGTGAAT
* *
34868844 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTT-AGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* *
34868903 TCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
34868963 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
34868978 CAATCTTGTC
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
59 53 0.77
60 16 0.23
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:34872490 original size:40 final size:40
Alignment explanation
Indices: 34872435--34872644 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
34872425 AACATTGGAA
34872435 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
34872475 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
34872515 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
34872555 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
34872594 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
34872635 CTATATCCGG
1 ATATATCCGG
34872645 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:34880622 original size:40 final size:40
Alignment explanation
Indices: 34880567--34880776 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
34880557 AACATTGGAA
34880567 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
34880607 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
34880647 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
34880687 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
34880726 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
34880767 CTATATCCGG
1 ATATATCCGG
34880777 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:34882834 original size:43 final size:43
Alignment explanation
Indices: 34882763--34882913 Score: 189
Period size: 43 Copynumber: 3.5 Consensus size: 43
34882753 TATCCCAGAT
* *
34882763 ATGGTCTTACATGTTATCACATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCTAGAC
* * * *
34882806 ATGGTCTTACACGAAATCATATAACGATGCCAATGT-CTCAAAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCT-AGAC
* * *
34882849 ATGATCTTACATGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATA-ACGATGCCAATGTCCTAGAC
34882892 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
34882914 CTCGATAATC
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 3 0.03
43 86 0.96
44 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCTAGAC
Found at i:34887141 original size:10 final size:10
Alignment explanation
Indices: 34887126--34887150 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34887116 AATTATTTTC
34887126 AAATGATTTG
1 AAATGATTTG
34887136 AAATGATTTG
1 AAATGATTTG
34887146 AAATG
1 AAATG
34887151 TTTTACTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (10 bp):
AAATGATTTG
Found at i:34892816 original size:2 final size:2
Alignment explanation
Indices: 34892809--34892854 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
34892799 TGTTTTCTTA
34892809 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
34892851 CT CT
1 CT CT
34892855 GCTGTAGTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:34895380 original size:41 final size:41
Alignment explanation
Indices: 34895323--34895400 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
34895313 ACAACTTACC
* *
34895323 TGATACAATACATTGGCACGAAGCCTGCTTGGCACAAGGCT
1 TGATACAATACATTGGCACGAAGCCTACTAGGCACAAGGCT
* *
34895364 TGATATAATACATTGGCATGAAGCCTACTAGGCACAA
1 TGATACAATACATTGGCACGAAGCCTACTAGGCACAA
34895401 AACTCGAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (41 bp):
TGATACAATACATTGGCACGAAGCCTACTAGGCACAAGGCT
Found at i:34895461 original size:38 final size:39
Alignment explanation
Indices: 34895384--34895530 Score: 120
Period size: 38 Copynumber: 3.8 Consensus size: 39
34895374 CATTGGCATG
* ** **
34895384 AAGCCTACTAGGCAC-AAAACTCGAATATCACCAACACA
1 AAGCCTACTAGGCACGGAGCCTCGAATATCACCGGCACA
*
34895422 AAGCCTACTAGGCACGGAGCCT-GAATATCACCGGGACA
1 AAGCCTACTAGGCACGGAGCCTCGAATATCACCGGCACA
* * * * **
34895460 AAGCTTGCTAGGAACAGAG-CTCGAATATCAATGGCACA
1 AAGCCTACTAGGCACGGAGCCTCGAATATCACCGGCACA
** * * *
34895498 AAGCCTGTTAGGCATGGAGCCCCAAATATCACC
1 AAGCCTACTAGGCACGGAGCCTCGAATATCACC
34895531 AAGTTTCTAT
Statistics
Matches: 84, Mismatches: 22, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
37 2 0.02
38 70 0.83
39 12 0.14
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.16
Consensus pattern (39 bp):
AAGCCTACTAGGCACGGAGCCTCGAATATCACCGGCACA
Found at i:34897206 original size:20 final size:19
Alignment explanation
Indices: 34897146--34897212 Score: 50
Period size: 20 Copynumber: 3.5 Consensus size: 19
34897136 TGAATTTAAC
34897146 CACATCATGAGTGACCTTAG
1 CACATCATGA-TGACCTTAG
** *
34897166 --CAT-ATGATGAATTTAAC
1 CACATCATGATGACCTT-AG
34897183 CACATCATGATTGACCTTAG
1 CACATCATGA-TGACCTTAG
34897203 CACATGCATG
1 CACAT-CATG
34897213 CATATATGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 11
0.67 0.12 0.21
Matches are distributed among these distances:
16 5 0.14
17 5 0.14
18 3 0.09
19 3 0.09
20 10 0.29
21 9 0.26
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (19 bp):
CACATCATGATGACCTTAG
Found at i:34898972 original size:14 final size:15
Alignment explanation
Indices: 34898953--34898984 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
34898943 CATAAATATG
34898953 TATTATATTA-TTAT
1 TATTATATTATTTAT
34898967 TATTATATTATTTAT
1 TATTATATTATTTAT
34898982 TAT
1 TAT
34898985 GGTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTATATTATTTAT
Found at i:34901243 original size:93 final size:93
Alignment explanation
Indices: 34901084--34901254 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
34901074 GGATGGTTGA
* ***
34901084 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAATGTTTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34901149 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
34901177 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34901242 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34901255 TCTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34901253 original size:46 final size:46
Alignment explanation
Indices: 34901088--34901259 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
34901078 GGTTGAGCAT
* * *
34901088 CCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
** * * * *
34901134 TTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* *
34901179 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
34901227 CCGAGCTCGTTGAGTTGAGTCCGAGTTCTCTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
34901260 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 55 0.54
47 26 0.26
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:34903989 original size:86 final size:86
Alignment explanation
Indices: 34903844--34904015 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
34903834 AATAGGACTT
34903844 ATGTGAAAATTTCTAAAAATGCTATAGGCTAATTTGTAGTGGCCAAATAAACAGTAGTGCAAAAT
1 ATGTGAAAATTTCTAAAAATGCTATAGGCTAATTTGTAGTGGCCAAATAAACAGTAGTGCAAAAT
34903909 AGGAGGATTTGCATGTCAAAC
66 AGGAGGATTTGCATGTCAAAC
34903930 ATGTGAAAATTTCTAAAAATGCTATAGGCTAATTTGTAGTGGCCAAATAAACAGTAGTGCAAAAT
1 ATGTGAAAATTTCTAAAAATGCTATAGGCTAATTTGTAGTGGCCAAATAAACAGTAGTGCAAAAT
34903995 AGGAGGATTTGCATGTCAAAC
66 AGGAGGATTTGCATGTCAAAC
34904016 CTCCCATTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (86 bp):
ATGTGAAAATTTCTAAAAATGCTATAGGCTAATTTGTAGTGGCCAAATAAACAGTAGTGCAAAAT
AGGAGGATTTGCATGTCAAAC
Found at i:34906237 original size:38 final size:40
Alignment explanation
Indices: 34906195--34906278 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
34906185 GCAGGCTATA
34906195 TGCTGGAATTATATCTG-GGTTAAA-TCCCGTAGGCCTAG
1 TGCTGGAATTATATCTGAGGTTAAAGTCCCGTAGGCCTAG
* * * *
34906233 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGAATTATATCTGAGGTTAAAGTCCCGTAGGCCTAG
34906273 TGCTGG
1 TGCTGG
34906279 TGTTATGCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 16 0.40
39 6 0.15
40 18 0.45
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (40 bp):
TGCTGGAATTATATCTGAGGTTAAAGTCCCGTAGGCCTAG
Found at i:34909772 original size:39 final size:39
Alignment explanation
Indices: 34909718--34909880 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
34909708 TGTGAATGAA
34909718 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
34909757 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
34909796 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34909835 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
34909875 TGTGCG
1 TGTGCG
34909881 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34909896 original size:40 final size:39
Alignment explanation
Indices: 34909718--34909910 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
34909708 TGTGAATGAA
* *
34909718 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
34909757 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
34909796 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34909835 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
34909875 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
34909911 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34916984 original size:38 final size:39
Alignment explanation
Indices: 34916905--34917066 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
34916895 TGTGAATGAA
34916905 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
34916944 TGTGCGAATTGTGATATCCGGGCTAAG-CCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
34916982 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34917021 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
34917061 TGTGCG
1 TGTGCG
34917067 GGTTACCATA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 35 0.31
39 62 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34917033 original size:77 final size:78
Alignment explanation
Indices: 34916916--34917066 Score: 259
Period size: 77 Copynumber: 1.9 Consensus size: 78
34916906 GTGCGAATTG
34916916 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
34916980 ATTGTGCGAGCTA
66 ATTGTGCGAGCTA
* *
34916993 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
*
34917058 ATTTGTGCG
65 AATTGTGCG
34917067 GGTTACCATA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 53 0.77
79 16 0.23
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
ATTGTGCGAGCTA
Found at i:34919978 original size:12 final size:12
Alignment explanation
Indices: 34919963--34919988 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34919953 TGGATGAGAA
34919963 TTGAATTAGTTT
1 TTGAATTAGTTT
34919975 TTGAATTAGTTT
1 TTGAATTAGTTT
34919987 TT
1 TT
34919989 CCTAATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
TTGAATTAGTTT
Found at i:34929238 original size:41 final size:42
Alignment explanation
Indices: 34929191--34929294 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
34929181 GATTACGTTG
* * *
34929191 AAGACCATATCT-GGATATGACATCGATATGAGGCTTA-GTGT
1 AAGACCATATCTGGGATATGACATCGATACGA-GATTACATGT
* * *
34929232 AAGACCATAGCTGGGCTATTGGCATCGATACGAGATTACATGT
1 AAGACCATATCTGGGATA-TGACATCGATACGAGATTACATGT
34929275 AAGACCATATCTGGGATATG
1 AAGACCATATCTGGGATATG
34929295 GCACTGGTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 11 0.21
42 10 0.19
43 31 0.60
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (42 bp):
AAGACCATATCTGGGATATGACATCGATACGAGATTACATGT
Found at i:34932455 original size:16 final size:15
Alignment explanation
Indices: 34932431--34932460 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34932421 AACTATTTTA
34932431 TTACAAATTTCACTC
1 TTACAAATTTCACTC
34932446 TTACATAATTTCACT
1 TTACA-AATTTCACT
34932461 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:34932778 original size:50 final size:49
Alignment explanation
Indices: 34932666--34933100 Score: 291
Period size: 50 Copynumber: 8.7 Consensus size: 49
34932656 AGCTGTCTAG
* * * * * **
34932666 TACACATAGTAGCCTGCACTTAGTACTTCACATGCGACCAACAATCCAA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGA
** *
34932715 TACACGTAGTAGCCTAAACTTAGTACTACACAAGTGATCCAACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAACCATCTGA
* * * ** ***
34932765 TACACGCAGTAGCCTGCAATTAGTACTACATACGTGATTGAAGTTGTCATG-
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATC-TGA
* * * * * * *
34932816 TACGCATAATAGACTGCACTTAGTACTACACATGAGACCTAACTATCT-A
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCTGA
*
34932865 GTACACGTAGTAGTCTGCACTTAGTACTACACACGTGACCTAACCATCTGA
1 -TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCTGA
* * * ** ** *
34932916 TACATGTAGTAGCCTACACTTAGTACTACACACATGATTGAA-GTTCTTAGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAACCATC-T-GA
* * * * * *
34932967 TACCCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCTGA
* *
34933017 TACACGTAGTAGCCTGCACTTTGTACTACACACGTGACCTAAAACCATCTTA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC---AACCATCTGA
* * * * * *
34933069 AACACATATTAGCCTACACATAGTATTACACA
1 TACACGTAGTAGCCTGCACTTAGTACTACACA
34933101 TGTGTTCTCA
Statistics
Matches: 296, Mismatches: 76, Indels: 25
0.75 0.19 0.06
Matches are distributed among these distances:
49 34 0.11
50 159 0.54
51 67 0.23
52 36 0.12
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGA
Found at i:34932910 original size:151 final size:151
Alignment explanation
Indices: 34932665--34933058 Score: 549
Period size: 151 Copynumber: 2.6 Consensus size: 151
34932655 AAGCTGTCTA
* * * *
34932665 GTACACATAGTAGCCTGCACTTAGTACTTCACATGCGACC-AACAATCCAATACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGCC
** * *
34932729 TAAACTTAGTACTACACAAGTGATCC-AACCATCTGATACACGCAGTAGCCTGCAATTAGTACTA
66 TGCACTTAGTACTACACACGTGA-CCTAACCATCTGATACACGCAGTAGCCTACAATTAGTACTA
* * * *
34932793 CATACGTGATTGAAGTTGTCAT
130 CACACATGATTGAAGTTCTCAG
* * * * *
34932815 GTACGCATAATAGACTGCACTTAGTACTACACATGAGACCTAACTATCTAGTACACGTAGTAGTC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGCC
* * *
34932880 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCCTACACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGCAGTAGCCTACAATTAGTACTAC
*
34932945 ACACATGATTGAAGTTCTTAG
131 ACACATGATTGAAGTTCTCAG
* *
34932966 GTACCCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGCC
*
34933031 TGCACTTTGTACTACACACGTGACCTAA
66 TGCACTTAGTACTACACACGTGACCTAA
34933059 AACCATCTTA
Statistics
Matches: 214, Mismatches: 28, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
150 37 0.17
151 177 0.83
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (151 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGCAGTAGCCTACAATTAGTACTAC
ACACATGATTGAAGTTCTCAG
Found at i:34933100 original size:151 final size:149
Alignment explanation
Indices: 34932665--34933102 Score: 522
Period size: 151 Copynumber: 2.9 Consensus size: 149
34932655 AAGCTGTCTA
* * * *
34932665 GTACACATAGTAGCCTGCACTTAGTACTTCACATGCGACC-AACAATCCAATACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGCC
** * * * *
34932729 TAAACTTAGTACTACACAAGTGATCC-AACCATCTGATACACGCAGTAGCCTGCA-ATTAGTACT
66 TGCACTTAGTACTACACACGTGA-CCTAACCATCTGATACACGTAGTAGCCTACACA-TAGTATT
* * *
34932792 ACATACGTGATTGAAGTTGTCAT
129 AC--ACATGATTGAAGTTCTCAG
* * * * *
34932815 GTACGCATAATAGACTGCACTTAGTACTACACATGAGACCTAACTATCTAGTACACGTAGTAGTC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGCC
* * *
34932880 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCCTACACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACATAGTA-T-T
*
34932945 ACACATGATTGAAGTTCTTAG
129 ACACATGATTGAAGTTCTCAG
* *
34932966 GTACCCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGCC
* * * * *
34933031 TGCACTTTGTACTACACACGTGACCTAAAACCATCTTAAACACATATTAGCCTACACATAGTATT
66 TGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTAGTAGCCTACACATAGTATT
34933096 ACACATG
129 ACACATG
34933103 TGTTCTCACA
Statistics
Matches: 245, Mismatches: 36, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
150 37 0.15
151 176 0.72
152 1 0.00
153 31 0.13
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (149 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACATAGTATTAC
ACATGATTGAAGTTCTCAG
Found at i:34934689 original size:46 final size:46
Alignment explanation
Indices: 34934639--34934814 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
34934629 TGGTTGAGCA
34934639 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34934685 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
34934730 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
34934778 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34934815 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34934795 original size:93 final size:93
Alignment explanation
Indices: 34934636--34934807 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
34934626 GGATGGTTGA
* * *
34934636 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
34934701 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
34934729 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
34934794 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
34934808 CTTATGGGCG
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:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34942244 original size:46 final size:46
Alignment explanation
Indices: 34942194--34942369 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
34942184 TGGTTGAGCA
34942194 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34942240 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
34942285 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34942333 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34942370 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34942350 original size:93 final size:93
Alignment explanation
Indices: 34942191--34942362 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
34942181 GGATGGTTGA
* *
34942191 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34942256 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
34942284 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34942349 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
34942363 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34949762 original size:16 final size:15
Alignment explanation
Indices: 34949738--34949767 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34949728 AACTGTTTTA
34949738 TTACAAATTTCACTC
1 TTACAAATTTCACTC
34949753 TTACATAATTTCACT
1 TTACA-AATTTCACT
34949768 TAATCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:34950086 original size:50 final size:50
Alignment explanation
Indices: 34950029--34950365 Score: 238
Period size: 50 Copynumber: 6.7 Consensus size: 50
34950019 TGGTACACGT
* *
34950029 AGTAGCCTGCACTTAGCACTACAAACGTGACCTAACCATCTGATAAATGA
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATAAATGA
* *** * *
34950079 AGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGT--ATGCA
1 AGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CCATCTGATAAATG-A
* * * * *
34950129 CAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACT-T
1 -AGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATA-AATGA
* * * * * *
34950180 AGTAGCCTACACTTAGTACTACACACATGACCTAACCATTTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATAAATGA
* *** * * *
34950230 AGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCAGGTGCACAT--
1 AGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CCATCTGAT--AAATGA
*** * * * * *
34950281 AGTAGCCTGCACTTAGTACTACATGTGCGACCTAACTATCTGGTACATGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATAAATGA
34950331 AGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAA
34950366 AACCATCTTA
Statistics
Matches: 225, Mismatches: 46, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
48 4 0.02
49 5 0.02
50 144 0.64
51 66 0.29
52 2 0.01
53 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
AGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATAAATGA
Found at i:34950211 original size:151 final size:151
Alignment explanation
Indices: 34949971--34950365 Score: 564
Period size: 151 Copynumber: 2.6 Consensus size: 151
34949961 GAAGCTATCC
* * * * * * *
34949971 GGTATGCATATTAGCCTGCACTTAATATTACACATACGACC-AACAATCTGGTACACGTAGTAGC
1 GGTATGCACAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACTTAGTAGC
* * *
34950035 CTGCACTTAGCACTACAAACGTGACCTAACCATCTGATAAATGAAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATAAACGAAGTAGCCTGCACTTAGTACTA
*
34950100 CACACGTGATTGAAGTTGTCG
131 CACACGTGATTGAAGTTGTCA
*
34950121 GGTATGCACAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACTTAGTAGC
1 GGTATGCACAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACTTAGTAGC
* * * * *
34950186 CTACACTTAGTACTACACACATGACCTAACCATTTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATAAACGAAGTAGCCTGCACTTAGTACTA
34950251 CACACGTGATTGAAGTTGTCA
131 CACACGTGATTGAAGTTGTCA
**
34950272 GG--TGCACATAGTAGCCTGCACTTAGTACTACATGTGCGACCTAACTATCTGGTACA-TGTAGT
1 GGTATGCAC--AGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACT-TAGT
34950334 AGCCTGCACTTAGTACTACACACGTGACCTAA
63 AGCCTGCACTTAGTACTACACACGTGACCTAA
34950366 AACCATCTTA
Statistics
Matches: 219, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
149 5 0.02
150 36 0.16
151 178 0.81
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (151 bp):
GGTATGCACAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACTTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTGATAAACGAAGTAGCCTGCACTTAGTACTA
CACACGTGATTGAAGTTGTCA
Found at i:34950284 original size:101 final size:100
Alignment explanation
Indices: 34949977--34950365 Score: 315
Period size: 101 Copynumber: 3.9 Consensus size: 100
34949967 ATCCGGTATG
* * * * * * *
34949977 CATATTAGCCTGCACTTAATATTACACATACGACC-AACAATCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTACACTTAGTACTACACACACGACCTAACCATCTGATACACGTAGTAGCCTGCAC
* * * * *
34950041 TTAGCACTACAAACGTGACCTAACCATCTGATA-A
66 TTAGTACTACACACGTGACCTAACTATCAGGTACA
* ** * *** * *
34950075 -ATGAAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTATGCAC--AGTAGC
1 CAT--AGTAGCCTACACTTAGTACTACACACACGACCT-AA-CCATC-TG-ATACACGTAGTAGC
* *
34950136 CTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACA
60 CTGCACTTAGTACTACACACGTGACCTAACTATCAGGTACA
* * *
34950177 CTTAGTAGCCTACACTTAGTACTACACACATGACCTAACCATTTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTACACTTAGTACTACACACACGACCTAACCATCTGATACACGTAGTAGCCTGCAC
* * * *
34950242 TTAGTACTACACACGTGA-TTGAAGTTGTCAGGTGCA
66 TTAGTACTACACACGTGACCT-AA-CTATCAGGTACA
* **** * * *
34950278 CATAGTAGCCTGCACTTAGTACTACATGTGCGACCTAACTATCTGGTACATGTAGTAGCCTGCAC
1 CATAGTAGCCTACACTTAGTACTACACACACGACCTAACCATCTGATACACGTAGTAGCCTGCAC
34950343 TTAGTACTACACACGTGACCTAA
66 TTAGTACTACACACGTGACCTAA
34950366 AACCATCTTA
Statistics
Matches: 230, Mismatches: 46, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
97 2 0.01
98 5 0.02
99 26 0.11
100 34 0.15
101 154 0.67
102 4 0.02
103 5 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
CATAGTAGCCTACACTTAGTACTACACACACGACCTAACCATCTGATACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGACCTAACTATCAGGTACA
Found at i:34962689 original size:40 final size:39
Alignment explanation
Indices: 34962562--34962691 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
34962552 ATGCTGGAAA
* *
34962562 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
34962602 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
34962642 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
34962682 TTATATCCGG
1 TTATATCCGG
34962692 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:34970743 original size:40 final size:39
Alignment explanation
Indices: 34970616--34970745 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
34970606 ATGCTGGAAA
* *
34970616 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
34970656 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
34970696 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
34970736 TTATATCCGG
1 TTATATCCGG
34970746 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:34979797 original size:40 final size:39
Alignment explanation
Indices: 34979670--34979799 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
34979660 ATGCTGGAAA
* *
34979670 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
34979710 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
34979750 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
34979790 TTATATCCGG
1 TTATATCCGG
34979800 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:34987864 original size:40 final size:39
Alignment explanation
Indices: 34987737--34987866 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
34987727 ATGCTGGAAA
* *
34987737 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
34987777 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
34987817 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
34987857 TTATATCCGG
1 TTATATCCGG
34987867 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:34996078 original size:34 final size:35
Alignment explanation
Indices: 34996032--34996105 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 35
34996022 TCTGGGACTG
* * * *
34996032 AGCCC-TTAACAATAGTATTATCAGTGTGGGCTTT
1 AGCCCATTAACAATAATAGTATCAGTATGGGCCTT
34996066 AGCCCATT-ACAATAATAGTATCAGTATGGGCCTT
1 AGCCCATTAACAATAATAGTATCAGTATGGGCCTT
34996100 AGCCCA
1 AGCCCA
34996106 ATTCAGTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 33 0.94
35 2 0.06
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (35 bp):
AGCCCATTAACAATAATAGTATCAGTATGGGCCTT
Found at i:34999243 original size:18 final size:18
Alignment explanation
Indices: 34999220--34999273 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
34999210 GAGTAATCAG
34999220 TACGAACAGGTATGAAAT
1 TACGAACAGGTATGAAAT
*
34999238 TACGAATAGGTATGAAAT
1 TACGAACAGGTATGAAAT
*
34999256 TACGAACATGTATGAAAT
1 TACGAACAGGTATGAAAT
34999274 GGGTAGATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.26
Consensus pattern (18 bp):
TACGAACAGGTATGAAAT
Found at i:35022761 original size:43 final size:42
Alignment explanation
Indices: 35022662--35022780 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 42
35022652 TTAGGGTTAC
* *
35022662 TGAGATTACATGTAAGACCATATCAAGGATATGGAATCGATA
1 TGAGATTACATGTAAGACCATAGCAAGGATATGGAATCAATA
* * * *
35022704 TGAGA-CATCGTGTAAGACCATAGCTAA-GCTATTGGCATCAATA
1 TGAGATTA-CATGTAAGACCATAGC-AAGGATA-TGGAATCAATA
* *
35022747 TGAGATTACATGTAAGACCATATCTAGGATATGG
1 TGAGATTACATGTAAGACCATAGCAAGGATATGG
35022781 CATTGATACG
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 33 0.54
44 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATAGCAAGGATATGGAATCAATA
Found at i:35024491 original size:37 final size:37
Alignment explanation
Indices: 35024449--35024523 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
35024439 AAGACTTCAT
35024449 TTGCATAATTTCATCCAAATATTACCATACCAAAACA
1 TTGCATAATTTCATCCAAATATTACCATACCAAAACA
35024486 TTGCATAATTTCATCCAAATATTACCATACCAAAACA
1 TTGCATAATTTCATCCAAATATTACCATACCAAAACA
35024523 T
1 T
35024524 ACACCATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.43, C:0.24, G:0.03, T:0.31
Consensus pattern (37 bp):
TTGCATAATTTCATCCAAATATTACCATACCAAAACA
Found at i:35025177 original size:23 final size:23
Alignment explanation
Indices: 35025131--35025205 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
35025121 TCACAGTCGA
*
35025131 TAAGCTCCTTTGAGCT-AAACAG
1 TAAGCTCCTATGAGCTGAAACAG
*
35025153 TAAGCTCCAATGAGCTGAAACAG
1 TAAGCTCCTATGAGCTGAAACAG
* * *
35025176 TAAGCTCTTACGAGCTGAATCAG
1 TAAGCTCCTATGAGCTGAAACAG
35025199 TAAGCTC
1 TAAGCTC
35025206 TTACTAACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 14 0.30
23 32 0.70
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (23 bp):
TAAGCTCCTATGAGCTGAAACAG
Found at i:35025206 original size:23 final size:23
Alignment explanation
Indices: 35025142--35025238 Score: 106
Period size: 23 Copynumber: 4.3 Consensus size: 23
35025132 AAGCTCCTTT
** *
35025142 GAGCT-AAACAGTAAGCTCCAAT
1 GAGCTGAAACAGTAAGCTCTTAC
35025164 GAGCTGAAACAGTAAGCTCTTAC
1 GAGCTGAAACAGTAAGCTCTTAC
*
35025187 GAGCTGAATCAGTAAGCTCTTAC
1 GAGCTGAAACAGTAAGCTCTTAC
* * ** *
35025210 TAACTGAATTAGTAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCTTAC
35025233 GAGCTG
1 GAGCTG
35025239 TGGTGAGTCC
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
22 5 0.08
23 59 0.92
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTTAC
Found at i:35027469 original size:58 final size:58
Alignment explanation
Indices: 35027376--35027489 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 58
35027366 GAGATATTAG
*
35027376 ACTGTGGTACACCATGTAATCATACGATTTTAGATACGTACAATTCAGCTAACCTAAT
1 ACTGTGGTACACCATGTAATCATACGATTTCAGATACGTACAATTCAGCTAACCTAAT
* * *
35027434 ACTGTGGTACACCATGTAATCGTATGATTTCAGATATGTACAATTCAGCTAACCTA
1 ACTGTGGTACACCATGTAATCATACGATTTCAGATACGTACAATTCAGCTAACCTA
35027490 TCTAGAGAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (58 bp):
ACTGTGGTACACCATGTAATCATACGATTTCAGATACGTACAATTCAGCTAACCTAAT
Found at i:35030407 original size:40 final size:40
Alignment explanation
Indices: 35030362--35030529 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
35030352 CGGAATATAA
35030362 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
35030402 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
35030442 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
35030482 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
35030522 CCGGATAT
1 CCGGATAT
35030530 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35032315 original size:66 final size:68
Alignment explanation
Indices: 35032239--35032425 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
35032229 TAGTACCACT
*
35032239 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
35032301 CACG
65 CACG
35032305 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
35032370 ATCACG
63 ATCACG
35032376 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
35032426 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:35032350 original size:71 final size:71
Alignment explanation
Indices: 35032262--35032425 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35032252 CGATTTGTCT
35032262 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35032327 CTTTCA
66 CTTTCA
35032333 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35032398 CTTTCA
66 CTTTCA
35032404 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35032426 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35032463 original size:71 final size:70
Alignment explanation
Indices: 35032262--35032459 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
35032252 CGATTTGTCT
* * *
35032262 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
35032327 CTTTCA
65 CTTTCA
* * *
35032333 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
35032398 CTTTCA
65 CTTTCA
* *
35032404 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
35032460 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35039885 original size:66 final size:68
Alignment explanation
Indices: 35039809--35039995 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
35039799 TAGTACCACT
*
35039809 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
35039871 CACG
65 CACG
35039875 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
35039940 ATCACG
63 ATCACG
35039946 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
35039996 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:35039920 original size:71 final size:71
Alignment explanation
Indices: 35039832--35039995 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35039822 CGATTTGTCT
35039832 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35039897 CTTTCA
66 CTTTCA
35039903 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35039968 CTTTCA
66 CTTTCA
35039974 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35039996 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35040033 original size:71 final size:70
Alignment explanation
Indices: 35039832--35040029 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
35039822 CGATTTGTCT
* * *
35039832 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
35039897 CTTTCA
65 CTTTCA
* * *
35039903 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
35039968 CTTTCA
65 CTTTCA
* *
35039974 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
35040030 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35053168 original size:25 final size:25
Alignment explanation
Indices: 35053134--35053203 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
35053124 AGGAAGTGCT
* *
35053134 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
35053159 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
35053184 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
35053204 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:35053216 original size:24 final size:24
Alignment explanation
Indices: 35053133--35053216 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
35053123 GAGGAAGTGC
* *
35053133 TAAAAGGGCTTTGCCCTAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
35053158 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
35053182 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
35053206 TAAAAGAGGCT
1 TAAAAG-GGCT
35053217 AGGCCTTGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:35064795 original size:14 final size:14
Alignment explanation
Indices: 35064776--35064803 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35064766 TATATTAGTA
35064776 TTTTCTATTCTATT
1 TTTTCTATTCTATT
35064790 TTTTCTATTCTATT
1 TTTTCTATTCTATT
35064804 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:35064811 original size:6 final size:6
Alignment explanation
Indices: 35064800--35064878 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
35064790 TTTTCTATTC
* *
35064800 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
35064847 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
35064879 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:35064826 original size:11 final size:11
Alignment explanation
Indices: 35064801--35064882 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
35064791 TTTCTATTCT
35064801 ATTAGTATTAG
1 ATTAGTATTAG
35064812 ---AGTATTAG
1 ATTAGTATTAG
**
35064820 ATTAGTATTCT
1 ATTAGTATTAG
*
35064831 ATT-CTATTAG
1 ATTAGTATTAG
35064841 TATTAG-ATTAG
1 -ATTAGTATTAG
35064852 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
35064867 ATTAGTATTAG
1 ATTAGTATTAG
35064878 -TTAGT
1 ATTAGT
35064883 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:35064867 original size:20 final size:21
Alignment explanation
Indices: 35064837--35064882 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
35064827 TTCTATTCTA
35064837 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
35064858 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
35064878 TTAGT
1 TTAGT
35064883 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:35065065 original size:27 final size:27
Alignment explanation
Indices: 35065035--35065191 Score: 224
Period size: 27 Copynumber: 5.8 Consensus size: 27
35065025 ATTACCAAAG
* *
35065035 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
35065062 TACCCTCGATTTGCAAATTTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
35065089 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
35065116 TATCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
35065143 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
35065170 TACCCTCGATTTATAGAATTAC
1 TACCCTCGATTTACAAAATTAC
35065192 TGAAATACCC
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:35065084 original size:54 final size:53
Alignment explanation
Indices: 35065008--35065181 Score: 213
Period size: 54 Copynumber: 3.2 Consensus size: 53
35064998 ATTACTGAAA
* * *** * *
35065008 TACCCTCGACTTGTTAAATTACCAAAGTACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTG-CAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
*
35065062 TACCCTCGATTTGCAAATTTACCATTTTACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTGCAAA-TTACCATTTTACCCTCGATTTACAAAATTACCGTTT
* * * *
35065116 TATCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTGC-AAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
35065170 TACCCTCGATTT
1 TACCCTCGATTT
35065182 ATAGAATTAC
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
53 3 0.03
54 98 0.94
55 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.39
Consensus pattern (53 bp):
TACCCTCGATTTGCAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
Found at i:35065200 original size:27 final size:27
Alignment explanation
Indices: 35064996--35065201 Score: 110
Period size: 27 Copynumber: 7.6 Consensus size: 27
35064986 CGGGTTTACC
* * * *
35064996 AAATTACTGAAATACCCTCGACTTGTT
1 AAATTACCGAAATACCCTCGATTTATA
* *
35065023 AAATTACC-AAAGTACCCTCAATTTACA
1 AAATTACCGAAA-TACCCTCGATTTATA
* *** **
35065050 GAATTACCGTTTTACCCTCGATTTGCA
1 AAATTACCGAAATACCCTCGATTTATA
* ** *
35065077 AATTTACC-ATTTTACCCTCGATTTACA
1 AAATTACCGA-AATACCCTCGATTTATA
* *** * *
35065104 AAATTATCGTTTTATCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTATA
***
35065131 AAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTATA
***
35065158 AAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTATA
* *
35065185 GAATTACTGAAATACCC
1 AAATTACCGAAATACCC
35065202 CTGTAGGGTA
Statistics
Matches: 147, Mismatches: 28, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
26 3 0.02
27 144 0.98
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTATA
Found at i:35065625 original size:27 final size:27
Alignment explanation
Indices: 35065183--35065624 Score: 596
Period size: 27 Copynumber: 16.4 Consensus size: 27
35065173 CCTCGATTTA
*
35065183 TAGAATTACTGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
35065210 TAGAATTATCGAAATATCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
35065237 TAGGATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * * *
35065264 TAAAATTATCGAAATACCCCTATAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
35065291 TAGAATTACCGAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
35065318 TAGAATTACCAAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
35065345 TAGAATTACTGAAATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
35065372 TAGAATTATCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * *
35065399 TAGAATTATCGAAATACTCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * *
35065426 TAGAATTATCGAAATACCCTTGTAGAG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
35065453 TAGAATTATCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
35065480 TAGAATTATCGAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
35065507 TAGAATTATCGAAATACCCCTATAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
** *
35065534 TAGAATTACTAAAATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
35065561 TAGAATTACCGAAATCCCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * *
35065588 TAGAATTACCAAAATACCCTTGTGGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
35065615 TAAAATTACC
1 TAGAATTACC
35065625 ATTTTACCCC
Statistics
Matches: 366, Mismatches: 49, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 366 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:35066087 original size:37 final size:37
Alignment explanation
Indices: 35066046--35066124 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
35066036 ATTCTGTTAC
* *
35066046 CTGATACTAATTTTGATTCTAATTCTGTCACCTAATT
1 CTGATACTAATTCTAATTCTAATTCTGTCACCTAATT
* * * *
35066083 CTGATTCTGATTCTAATTCTGATTCTGTCACCTGATT
1 CTGATACTAATTCTAATTCTAATTCTGTCACCTAATT
35066120 CTGAT
1 CTGAT
35066125 TTTGATTCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (37 bp):
CTGATACTAATTCTAATTCTAATTCTGTCACCTAATT
Found at i:35066089 original size:6 final size:6
Alignment explanation
Indices: 35066080--35066154 Score: 64
Period size: 6 Copynumber: 12.3 Consensus size: 6
35066070 CTGTCACCTA
* * *
35066080 ATTCTG ATTCTG ATTCTA ATTCTG ATTCTG -TCACCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
35066129 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
35066155 AATGTTTCTT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
5 2 0.04
6 47 0.87
7 4 0.07
8 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:35066125 original size:37 final size:37
Alignment explanation
Indices: 35066061--35066145 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
35066051 ACTAATTTTG
*
35066061 ATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTA
1 ATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTA
* * *
35066098 ATTCTGATTCTGTCACCTGATTCTGATTTTGATTCTC
1 ATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTA
*
35066135 ATTTTGATTCT
1 ATTCTGATTCT
35066146 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (37 bp):
ATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTA
Found at i:35066133 original size:31 final size:31
Alignment explanation
Indices: 35066034--35066133 Score: 92
Period size: 31 Copynumber: 3.0 Consensus size: 31
35066024 ATTCTTATTT
* * *
35066034 TGATTCTGTTACCTGATACTAATTTTGATTC
1 TGATTCTGTCACCTGATTCTGATTTTGATTC
* * *
35066065 TAATTCTGTCACCTAATTCTGATTCTGATTCTAATTC
1 TGATTCTGTCA-C-----CTGATTCTGATTTTGATTC
35066102 TGATTCTGTCACCTGATTCTGATTTTGATTC
1 TGATTCTGTCACCTGATTCTGATTTTGATTC
35066133 T
1 T
35066134 CATTTTGATT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
31 27 0.50
32 1 0.02
36 1 0.02
37 25 0.46
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (31 bp):
TGATTCTGTCACCTGATTCTGATTTTGATTC
Found at i:35067470 original size:30 final size:30
Alignment explanation
Indices: 35067425--35067528 Score: 127
Period size: 30 Copynumber: 3.5 Consensus size: 30
35067415 GTGTGCTAGC
* *
35067425 TCGTGTGCCATACACAGCCGTGTAACATGA
1 TCGTGTGTCACACACAGCCGTGTAACATGA
* *
35067455 CCGTGTGTCACACACAACCGTGTAACATGA
1 TCGTGTGTCACACACAGCCGTGTAACATGA
* * ** *
35067485 TTGTGTGTTACACATGGCTGTGTAACATGA
1 TCGTGTGTCACACACAGCCGTGTAACATGA
35067515 TCGTGTGTCACACA
1 TCGTGTGTCACACA
35067529 TGGCTGAGAC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (30 bp):
TCGTGTGTCACACACAGCCGTGTAACATGA
Found at i:35067949 original size:32 final size:32
Alignment explanation
Indices: 35067908--35067972 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
35067898 CTTAAACCAT
35067908 GATACCAAAACATAACTATTATCATCAAACTA
1 GATACCAAAACATAACTATTATCATCAAACTA
35067940 GATACCAAAACATAACTATTATCATCAAACTA
1 GATACCAAAACATAACTATTATCATCAAACTA
35067972 G
1 G
35067973 TCTATACATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.25
Consensus pattern (32 bp):
GATACCAAAACATAACTATTATCATCAAACTA
Found at i:35068938 original size:8 final size:8
Alignment explanation
Indices: 35068925--35068964 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
35068915 AGGTGATTCA
35068925 TTTTTTCT
1 TTTTTTCT
35068933 TTTTTTCT
1 TTTTTTCT
35068941 TTTTTTCT
1 TTTTTTCT
35068949 TTTTTTCT
1 TTTTTTCT
*
35068957 TTTGTTCT
1 TTTTTTCT
35068965 GAATATATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:35069428 original size:30 final size:30
Alignment explanation
Indices: 35069394--35069450 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
35069384 TATAATTTCA
* *
35069394 TTTTATTTTTATTTTAATTTGGTCCTAACC
1 TTTTATTCTTATTTTAATTTAGTCCTAACC
*
35069424 TTTTATTCTTGTTTTAATTTAGTCCTA
1 TTTTATTCTTATTTTAATTTAGTCCTA
35069451 GCTGCTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTTATTCTTATTTTAATTTAGTCCTAACC
Found at i:35069642 original size:19 final size:19
Alignment explanation
Indices: 35069618--35069805 Score: 77
Period size: 19 Copynumber: 9.6 Consensus size: 19
35069608 TTAATCCTTC
*
35069618 TATATATATATATACATTT
1 TATATATATATATATATTT
* *
35069637 TATATATAATTTTAAATATTT
1 TATATAT-A-TATATATATTT
*
35069658 TATATATAT-TATTTATTTT
1 TATATATATATATATA-TTT
* *
35069677 TATATATATTATTTATACATGTA
1 TATATATA-TA--TATATAT-TT
* *
35069700 AAAATTATTATATATGATATTT
1 TATA-TA-TATATAT-ATATTT
* *
35069722 T-TATTTATGTA-ATA-TT
1 TATATATATATATATATTT
* *
35069738 TATCATGTTATTTATATATTT
1 TAT-AT-ATATATATATATTT
*
35069759 TAT-TATATATTGTATATTT
1 TATATATATA-TATATATTT
35069778 TAT-TATATATAT-TCATTT
1 TATATATATATATAT-ATTT
35069796 TAT-TATATAT
1 TATATATATAT
35069806 TATCATTTAT
Statistics
Matches: 130, Mismatches: 21, Indels: 37
0.69 0.11 0.20
Matches are distributed among these distances:
16 3 0.02
17 5 0.04
18 25 0.19
19 48 0.37
20 7 0.05
21 21 0.16
22 5 0.04
23 10 0.08
24 4 0.03
25 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (19 bp):
TATATATATATATATATTT
Found at i:35069764 original size:12 final size:12
Alignment explanation
Indices: 35069749--35069806 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
35069739 ATCATGTTAT
35069749 TTATATATTTTA
1 TTATATATTTTA
*
35069761 TTATATATTGTA
1 TTATATATTTTA
35069773 -TAT-T-TTATTA
1 TTATATATT-TTA
35069783 TATATATTCATTTTA
1 T-TATA-T-ATTTTA
35069798 TTATATATT
1 TTATATATT
35069807 ATCATTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
9 2 0.05
10 3 0.08
11 3 0.08
12 17 0.46
13 1 0.03
14 5 0.14
15 4 0.11
16 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
TTATATATTTTA
Found at i:35070232 original size:17 final size:18
Alignment explanation
Indices: 35070197--35070233 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
35070187 CATAAATTAT
35070197 TTTATTATTTTTATGATA
1 TTTATTATTTTTATGATA
*
35070215 TTTATTGTTTTTAT-ATA
1 TTTATTATTTTTATGATA
35070232 TT
1 TT
35070234 CGCATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTATTATTTTTATGATA
Found at i:35071175 original size:22 final size:22
Alignment explanation
Indices: 35071150--35071236 Score: 86
Period size: 23 Copynumber: 3.9 Consensus size: 22
35071140 AAGCTCCTTC
35071150 GAGCTGAACAGTAAGCTCTATT
1 GAGCTGAACAGTAAGCTCTATT
*
35071172 GAGCT-AAAATGGTAAGCTCTATT
1 GAGCTGAACA--GTAAGCTCTATT
* * *
35071195 GAGCTGAACGGTAAGCTCCAAT
1 GAGCTGAACAGTAAGCTCTATT
**
35071217 GAGCCAAAACAGTAAGCTCT
1 GAG-CTGAACAGTAAGCTCT
35071237 TACGAGCTGT
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
21 3 0.06
22 18 0.35
23 29 0.56
24 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCTCTATT
Found at i:35071186 original size:45 final size:44
Alignment explanation
Indices: 35071136--35071245 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 44
35071126 AAGTCATGGT
* * *
35071136 CGGTAAGCTCCTTCGAGCTGAACAGTAAGCTCTATTGAGCTAAAA
1 CGGTAAGCT-CTTCGAGCTGAACAGTAAGCTCCAATGAGCCAAAA
* * *
35071181 TGGTAAGCTCTATTGAGCTGAACGGTAAGCTCCAATGAGCCAAAA
1 CGGTAAGCTCT-TCGAGCTGAACAGTAAGCTCCAATGAGCCAAAA
*
35071226 CAGTAAGCTCTTACGAGCTG
1 CGGTAAGCTCTT-CGAGCTG
35071246 TGGTGAGTCC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
44 3 0.06
45 51 0.94
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
CGGTAAGCTCTTCGAGCTGAACAGTAAGCTCCAATGAGCCAAAA
Found at i:35071189 original size:23 final size:23
Alignment explanation
Indices: 35071160--35071236 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 23
35071150 GAGCTGAACA
*
35071160 GTAAGCTCTATTGAGCTAAAATG
1 GTAAGCTCTATTGAGCTAAAACG
*
35071183 GTAAGCTCTATTGAGCT-GAACG
1 GTAAGCTCTATTGAGCTAAAACG
* * * *
35071205 GTAAGCTCCAATGAGCCAAAACA
1 GTAAGCTCTATTGAGCTAAAACG
35071228 GTAAGCTCT
1 GTAAGCTCT
35071237 TACGAGCTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
22 17 0.38
23 28 0.62
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTAAAACG
Found at i:35073574 original size:27 final size:26
Alignment explanation
Indices: 35073520--35073633 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
35073510 AGCATGGCTG
* * ** *
35073520 CCAGAAAAGATATTGTGACAGGGTCA
1 CCAGAACAGATATTGTGGCATAGCCA
35073546 CCAGATACAGATATTGTGGC-TAAGCCA
1 CCAGA-ACAGATATTGTGGCAT-AGCCA
*
35073573 CCAGAACATATAATTGTGGCATAGCCA
1 CCAGAACAGAT-ATTGTGGCATAGCCA
*
35073600 CTAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCATAGCCA
35073627 CCAGAAC
1 CCAGAAC
35073634 GCTTCCTCCA
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.15
27 62 0.84
28 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCATAGCCA
Found at i:35082223 original size:80 final size:80
Alignment explanation
Indices: 35082139--35082287 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
35082129 TATGGTAACC
* * * *
35082139 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
35082203 CCCGGATAGAATGACG
65 CCCGGATAGAATGACG
* * * * * * *
35082219 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
35082284 CCGG
66 CCGG
35082288 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACG
Found at i:35082271 original size:40 final size:39
Alignment explanation
Indices: 35082180--35082330 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
35082170 ATCACGATTT
*
35082180 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACGC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACGA
* *
35082220 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACGA
* * * ** *
35082260 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACGA
* * *
35082300 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
35082331 TCATTCAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACGA
Found at i:35092488 original size:29 final size:29
Alignment explanation
Indices: 35092449--35092536 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
35092439 CAAAGATAAC
*
35092449 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
35092478 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
35092507 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
35092537 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:35092507 original size:15 final size:15
Alignment explanation
Indices: 35092449--35092527 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
35092439 CAAAGATAAC
*
35092449 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35092463 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
35092478 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
35092492 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
35092507 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
35092522 AAGAAA
1 AAGAAA
35092528 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35092536 original size:15 final size:15
Alignment explanation
Indices: 35092460--35092536 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
35092450 AGAAAACCGA
35092460 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
35092475 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
35092489 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
35092503 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35092519 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35092534 ATA
1 ATA
35092537 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35095595 original size:93 final size:93
Alignment explanation
Indices: 35095436--35095606 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35095426 GCCCATAAGT
* * *
35095436 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35095501 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
35095529 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35095594 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35095607 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35095603 original size:46 final size:46
Alignment explanation
Indices: 35095428--35095603 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
35095418 TGTAACCCGC
* * * *
35095428 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
35095474 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
35095524 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
35095567 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35095604 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:35098230 original size:46 final size:46
Alignment explanation
Indices: 35098180--35098355 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
35098170 TGGTTGAGCA
35098180 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35098226 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35098271 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
35098319 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35098356 GAGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35098336 original size:93 final size:93
Alignment explanation
Indices: 35098177--35098348 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
35098167 GGATGGTTGA
*
35098177 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
35098242 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35098270 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
35098334 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
35098349 CTTATGGGAG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35105682 original size:46 final size:46
Alignment explanation
Indices: 35105615--35105780 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
35105605 ACCCGCCCAT
35105615 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCAC
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCAC
* * *
35105661 AAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT-CTC
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCATCCAC
* * * *
35105710 ---TCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT
1 AAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCAC
35105754 AAGTGAACTCGGACTCAACTCAACGAG
1 AAGTGAACTCGGACTCAACTCAACGAG
35105781 TTCGAATGCT
Statistics
Matches: 99, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
46 55 0.56
47 26 0.26
48 1 0.01
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCAC
Found at i:35108946 original size:15 final size:15
Alignment explanation
Indices: 35108926--35108956 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35108916 TCCATACATG
35108926 ATAATTTAGATCATA
1 ATAATTTAGATCATA
35108941 ATAATTTAGATCATA
1 ATAATTTAGATCATA
35108956 A
1 A
35108957 ATGAACTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
ATAATTTAGATCATA
Found at i:35111589 original size:70 final size:70
Alignment explanation
Indices: 35111506--35111653 Score: 208
Period size: 70 Copynumber: 2.1 Consensus size: 70
35111496 TAGTTTATTA
* * * *
35111506 CTAATTAATATGCTATTGTAATACTGTAAATTATTGGCTA-TCCAAATTAGGACAAATTTATGGT
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGC-AGTCCAAATTAGGACAAAATCACGGT
35111570 GCTTAG
65 GCTTAG
* * *
35111576 CTAATTAATATGCTGCTGTAATACTTTAAATTGTTGGCAGTCCAAATTAGGACAAAATCACGGTG
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCAGTCCAAATTAGGACAAAATCACGGTG
*
35111641 TTTAG
66 CTTAG
35111646 CTAATTAA
1 CTAATTAA
35111654 AATGTGTTGT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 1 0.01
70 68 0.99
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (70 bp):
CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCAGTCCAAATTAGGACAAAATCACGGTG
CTTAG
Found at i:35112093 original size:44 final size:44
Alignment explanation
Indices: 35112027--35112185 Score: 146
Period size: 44 Copynumber: 3.7 Consensus size: 44
35112017 TATGTGATAT
*
35112027 CGTGTAAGACCACGTCTAGGACATTGGCATCGACTTTTTTTATA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTTTTTTATA
* * * **
35112071 CGTGTAAGACCATGTCTGGGACATTGGCGTCGACTCTGATT-T-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTTTTTTATA
* * * * * * *
35112113 CGTGTAAAACCATGTCAGAGACAGTGGCATCGA--TGTTTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTTTTTTA-TA
* *
35112156 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
35112186 TGTATATGCT
Statistics
Matches: 89, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
40 1 0.01
42 29 0.33
43 24 0.27
44 35 0.39
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTTTTTTATA
Found at i:35114175 original size:39 final size:39
Alignment explanation
Indices: 35114098--35114175 Score: 90
Period size: 38 Copynumber: 2.0 Consensus size: 39
35114088 ATATGGTATG
*
35114098 TCATTATACATGAACATACTTCATTTGAATTCATCATTT
1 TCATTATACATGAACATACTTCATTTGAATTCACCATTT
*
35114137 TCATTA-ACAT-AAGCATACTTCCA-TTGAATCTTACCATTT
1 TCATTATACATGAA-CATACTT-CATTTGAAT-TCACCATTT
35114176 CAACCCTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 2 0.06
38 17 0.50
39 15 0.44
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (39 bp):
TCATTATACATGAACATACTTCATTTGAATTCACCATTT
Found at i:35125194 original size:17 final size:17
Alignment explanation
Indices: 35125172--35125205 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35125162 GTGATTATTT
35125172 TAAATGCATGCATGTAA
1 TAAATGCATGCATGTAA
35125189 TAAATGCATGCATGTAA
1 TAAATGCATGCATGTAA
35125206 CCTCTTGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
TAAATGCATGCATGTAA
Found at i:35125936 original size:20 final size:20
Alignment explanation
Indices: 35125875--35125937 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
35125865 ATCCGATACA
** *
35125875 AAACAGAGGCACTGAAGTAC
1 AAACAGAGGCACCAAAGTGC
*
35125895 AGACA-AGG-ACACAAATGTGC
1 AAACAGAGGCAC-CAAA-GTGC
35125915 AAACAGAGGCACCAAAGTGC
1 AAACAGAGGCACCAAAGTGC
35125935 AAA
1 AAA
35125938 TCCCGTACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
18 2 0.06
19 5 0.15
20 18 0.53
21 7 0.21
22 2 0.06
ACGTcount: A:0.48, C:0.21, G:0.24, T:0.08
Consensus pattern (20 bp):
AAACAGAGGCACCAAAGTGC
Found at i:35134566 original size:20 final size:18
Alignment explanation
Indices: 35134529--35134579 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
35134519 CTATAGCAAC
35134529 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
35134546 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
35134566 TTACAACTTTACAA
1 TCACAA-TTTACAA
35134580 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:35134792 original size:13 final size:13
Alignment explanation
Indices: 35134774--35134798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35134764 TTAAAAGTGT
35134774 AAAAGTCATCAAG
1 AAAAGTCATCAAG
35134787 AAAAGTCATCAA
1 AAAAGTCATCAA
35134799 AATCACTTAC
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:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (13 bp):
AAAAGTCATCAAG
Found at i:35141023 original size:12 final size:12
Alignment explanation
Indices: 35141006--35141039 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
35140996 ATTTCACACA
35141006 TTTACAACTTAT
1 TTTACAACTTAT
35141018 TTTACAACTTAT
1 TTTACAACTTAT
35141030 TTTACAACTT
1 TTTACAACTT
35141040 TACAAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTACAACTTAT
Found at i:35142660 original size:13 final size:13
Alignment explanation
Indices: 35142638--35142673 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
35142628 CTCAATTGGT
*
35142638 AATTGAACTTGAA
1 AATTGGACTTGAA
35142651 AATTGGACTTGAA
1 AATTGGACTTGAA
35142664 AATTGGACTT
1 AATTGGACTT
35142674 CAGATCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.33
Consensus pattern (13 bp):
AATTGGACTTGAA
Found at i:35143863 original size:17 final size:17
Alignment explanation
Indices: 35143841--35143873 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35143831 AAGGTACAAA
*
35143841 CCTTTACCCCATTTATC
1 CCTTTACCACATTTATC
35143858 CCTTTACCACATTTAT
1 CCTTTACCACATTTAT
35143874 GGTTCAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.42
Consensus pattern (17 bp):
CCTTTACCACATTTATC
Found at i:35153445 original size:40 final size:40
Alignment explanation
Indices: 35153386--35153603 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
35153376 TGGATGATAA
35153386 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
35153426 CCGGGCTAAGTCCCAAAGGCATTTGTACGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35153466 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35153506 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
35153546 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
35153586 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35153604 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 15 0.09
40 147 0.91
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35167531 original size:9 final size:9
Alignment explanation
Indices: 35167517--35167557 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
35167507 ATAACTTGTT
35167517 AAAATTTTA
1 AAAATTTTA
35167526 AAAATTTTA
1 AAAATTTTA
* *
35167535 TAAGATGTTA
1 -AAAATTTTA
35167545 AAAATTTTA
1 AAAATTTTA
35167554 AAAA
1 AAAA
35167558 AAAATGTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (9 bp):
AAAATTTTA
Found at i:35172841 original size:46 final size:45
Alignment explanation
Indices: 35172776--35173034 Score: 245
Period size: 46 Copynumber: 5.9 Consensus size: 45
35172766 TTATCTTCCA
* * * *
35172776 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCTGT
*
35172822 CATGTTGCCATGGTATCTTTCGAA-CATGG------TC--TTGTG-
1 CATGTTGCCATGGTATCTTTC-AACCATGGTCTTACTCATTTCTGT
* *
35172858 CA--TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTGT
** *
35172901 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TGT
* * * * *
35172947 CACGTTGTCATGGTATCTTTCAACCACGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TGT
* *
35172993 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
35173035 ATTTCAGAAA
Statistics
Matches: 177, Mismatches: 22, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
33 2 0.01
34 22 0.12
36 2 0.01
37 4 0.02
40 4 0.02
42 3 0.02
43 2 0.01
45 35 0.20
46 101 0.57
47 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (45 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTGT
Found at i:35173931 original size:20 final size:20
Alignment explanation
Indices: 35173906--35173946 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
35173896 CATATTTCAT
35173906 CCGGAATTATTACTTTATTG
1 CCGGAATTATTACTTTATTG
35173926 CCGGAATTATTACTTTATTG
1 CCGGAATTATTACTTTATTG
35173946 C
1 C
35173947 TCTAGCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (20 bp):
CCGGAATTATTACTTTATTG
Found at i:35173971 original size:71 final size:71
Alignment explanation
Indices: 35173855--35173997 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
35173845 CATACTTCAT
*
35173855 CCGGAATTATTACTTTGTTGCTCTAGCTTCAACAAGAGCTTCATATTTCATCCGGAATTATTACT
1 CCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGAGCTTCATATTTCATCCGGAATTATTACT
35173920 TTATTG
66 TTATTG
*
35173926 CCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGAGCTTCATATTTCATCTGGAATTATTACT
1 CCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGAGCTTCATATTTCATCCGGAATTATTACT
35173991 TTATTG
66 TTATTG
35173997 C
1 C
35173998 TCTAGCTTCA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (71 bp):
CCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGAGCTTCATATTTCATCCGGAATTATTACT
TTATTG
Found at i:35180508 original size:133 final size:135
Alignment explanation
Indices: 35180111--35180521 Score: 423
Period size: 135 Copynumber: 3.1 Consensus size: 135
35180101 GAATTCACAA
* * *
35180111 ATCTTATCTCCCTGAAA-TAACAAGTGGAGTAGATCAAAGACGA-GAAATCTTATCCTT-TCG-A
1 ATCTTATCTCCCT-AAAGCAGCAAGTGGAGTAGATCAAAGACGACG-AATCTTAT-CTTCCCGAA
* * *
35180172 GATAGCAGGGGAGGAGA-TTCTAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGAAGCAGGTTG
63 G-TAGCAAGGGAAGAGATTTC-AGCCACCAGCCTTATCTTCCTGAAGTAGCAAGGAAGCAGGTT-
35180236 AAA-ATTGTAG
125 AAAGATTGTAG
** * * * *
35180246 ATCTCGTCTCCTTAAAGTAGCAAGTGGAGTAGATCAAAGACGGCGAATCTTATCTTCCCGAGGTA
1 ATCTTATCTCCCTAAAGCAGCAAGTGGAGTAGATCAAAGACGACGAATCTTATCTTCCCGAAGTA
* * * * *** *
35180311 GTAAAGG-AGTAGATTTAAGCCACCAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAAACTGAAGA
66 GCAAGGGAAG-AGATTTCAGCCACCAGCCTTATCTTCCTGAAGTAGCAAGGAAGCAGGTTAAAGA
35180375 TTGTAG
130 TTGTAG
* * *
35180381 ATCTTATCTCCCT-AAGCAG-TAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCGAAGTA
1 ATCTTATCTCCCTAAAGCAGCAAGTGGAGTAGATCAAAGACGACGAATCTTATCTTCCCGAAGTA
* * *
35180444 GCAAGGGAAGAGATTTCAGCCATCAGCCTTAT-TTCTCTGAAGTAGTAAGGGAA-CGGGTTAAAG
66 GCAAGGGAAGAGATTTCAGCCACCAGCCTTATCTTC-CTGAAGTAGCAA-GGAAGCAGGTTAAAG
35180507 ATTGTAG
129 ATTGTAG
35180514 -TCTTATCT
1 ATCTTATCT
35180522 TCTTGAGGTA
Statistics
Matches: 228, Mismatches: 38, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
132 11 0.05
133 86 0.38
134 20 0.09
135 107 0.47
136 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (135 bp):
ATCTTATCTCCCTAAAGCAGCAAGTGGAGTAGATCAAAGACGACGAATCTTATCTTCCCGAAGTA
GCAAGGGAAGAGATTTCAGCCACCAGCCTTATCTTCCTGAAGTAGCAAGGAAGCAGGTTAAAGAT
TGTAG
Found at i:35180728 original size:45 final size:45
Alignment explanation
Indices: 35180648--35180864 Score: 185
Period size: 45 Copynumber: 4.8 Consensus size: 45
35180638 TAGCCATTAG
* * *
35180648 CCTTATCTCCCT-AAGGTAGCAAG-GGAGTAGGCTGAAGATAGCAGGA
1 CCTTATCTCCCTGAA-GTTGC-AGTGGAATAGACTGAAGATAGCA-GA
** *
35180694 -CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAGA
1 CCTTATCTCCCTGAAGTTGCAGTGGAATAGACTGAAGATAGCAGA
* * *
35180738 TCTTATCTCCCTGAAGTTACAGTGGAATAGA-TCGAAGATAGCAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAATAGACT-GAAGATAGCAGA
* * * **
35180783 CCTTATCTCTCTAAAGTTGCAGTAGAATAGGTTGAAG-TAGCA-A
1 CCTTATCTCCCTGAAGTTGCAGTGGAATAGACTGAAGATAGCAGA
* * * *
35180826 GTCTTATCTCCCTGAAGTTGTAGTGGAACAAACTGAAGA
1 -CCTTATCTCCCTGAAGTTGCAGTGGAATAGACTGAAGA
35180865 CCACAAATCT
Statistics
Matches: 140, Mismatches: 24, Indels: 15
0.78 0.13 0.08
Matches are distributed among these distances:
43 1 0.01
44 38 0.27
45 98 0.70
46 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (45 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAATAGACTGAAGATAGCAGA
Found at i:35180778 original size:90 final size:89
Alignment explanation
Indices: 35180681--35180853 Score: 206
Period size: 90 Copynumber: 1.9 Consensus size: 89
35180671 GGAGTAGGCT
* * * * *
35180681 GAAGATAGCAGGA-CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG-TAGATCTTAT
1 GAAGATAGCA-AACCTTATCTCCCTAAAGTTGCAGTAGAACAGACTGAAG-TAGCAAG-TCTTAT
35180744 CTCCCTGAAGTTACAGTGGAATAGATC
63 CTCCCTGAAGTTACAGTGGAATAGATC
* * **
35180771 GAAGATAGCAAACCTTATCTCTCTAAAGTTGCAGTAGAATAGGTTGAAGTAGCAAGTCTTATCTC
1 GAAGATAGCAAACCTTATCTCCCTAAAGTTGCAGTAGAACAGACTGAAGTAGCAAGTCTTATCTC
**
35180836 CCTGAAGTTGTAGTGGAA
66 CCTGAAGTTACAGTGGAA
35180854 CAAACTGAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
89 29 0.41
90 41 0.59
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (89 bp):
GAAGATAGCAAACCTTATCTCCCTAAAGTTGCAGTAGAACAGACTGAAGTAGCAAGTCTTATCTC
CCTGAAGTTACAGTGGAATAGATC
Found at i:35180977 original size:91 final size:91
Alignment explanation
Indices: 35180869--35181141 Score: 440
Period size: 91 Copynumber: 3.0 Consensus size: 91
35180859 TGAAGACCAC
*
35180869 AAATCTTATTCCCCTGAAGTTGTAGTGGGACGGATTGAAGTTATAATATCAGATCTTATCTCTCT
1 AAATCTTATTCCCCTGAAGTTGCAGTGGGACGGATTGAAGTTATAATATCAGATCTTATCTCTCT
35180934 GAAGTTGCAGTAGAGTAGATCAAAAT
66 GAAGTTGCAGTAGAGTAGATCAAAAT
*
35180960 AAATCTTATTCCCCTGAAGTTGCAGTGGGACGAATTGAAGTTATAATATCAGATCTTATCTCTCT
1 AAATCTTATTCCCCTGAAGTTGCAGTGGGACGGATTGAAGTTATAATATCAGATCTTATCTCTCT
* * *
35181025 GAATTTGCAGAAGAGCAGATCAAAAT
66 GAAGTTGCAGTAGAGTAGATCAAAAT
* *
35181051 AAATCATATTCCCCTGAAGTTGCAGTGGGACGGATTGAAGCTATAA-ATTACAGATCTTATCTCT
1 AAATCTTATTCCCCTGAAGTTGCAGTGGGACGGATTGAAGTTATAATA-T-CAGATCTTATCTCT
* *
35181115 CTGAAGTTGTAGTGGAGTAGATCAAAA
64 CTGAAGTTGCAGTAGAGTAGATCAAAA
35181142 CAAACCCTAT
Statistics
Matches: 167, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
90 1 0.01
91 130 0.78
92 36 0.22
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (91 bp):
AAATCTTATTCCCCTGAAGTTGCAGTGGGACGGATTGAAGTTATAATATCAGATCTTATCTCTCT
GAAGTTGCAGTAGAGTAGATCAAAAT
Found at i:35180978 original size:41 final size:41
Alignment explanation
Indices: 35180932--35181076 Score: 112
Period size: 41 Copynumber: 3.3 Consensus size: 41
35180922 TCTTATCTCT
35180932 CTGAAGTTGCAGTAGAGTAGATCAAAATAAATCTTATTCCC
1 CTGAAGTTGCAGTAGAGTAGATCAAAATAAATCTTATTCCC
* * * * *
35180973 CTGAAGTTGCAGTGGGACGAATTGAAGTTATAATATCAGATCTTA-TCTCT
1 CTGAAGTTGCAGT---A-GAGTAG-A-TCA-AA-AT-AAATCTTATTC-CC
* * * *
35181023 CTGAATTTGCAGAAGAGCAGATCAAAATAAATCATATTCCC
1 CTGAAGTTGCAGTAGAGTAGATCAAAATAAATCTTATTCCC
35181064 CTGAAGTTGCAGT
1 CTGAAGTTGCAGT
35181077 GGGACGGATT
Statistics
Matches: 77, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
41 31 0.40
42 4 0.05
43 2 0.03
44 3 0.04
45 5 0.06
46 4 0.05
47 3 0.04
48 2 0.03
49 4 0.05
50 19 0.25
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (41 bp):
CTGAAGTTGCAGTAGAGTAGATCAAAATAAATCTTATTCCC
Found at i:35181569 original size:13 final size:13
Alignment explanation
Indices: 35181551--35181578 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35181541 GTTCAATTAA
35181551 CACCCCACTAAAC
1 CACCCCACTAAAC
35181564 CACCCCACTAAAC
1 CACCCCACTAAAC
35181577 CA
1 CA
35181579 ACTACTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.54, G:0.00, T:0.07
Consensus pattern (13 bp):
CACCCCACTAAAC
Found at i:35181734 original size:25 final size:24
Alignment explanation
Indices: 35181702--35181753 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
35181692 TTTGGAGAAA
* *
35181702 AAAAGGAGAGAGATTCGAATACAAG
1 AAAAGGAGAAACATTC-AATACAAG
*
35181727 AAAAGGAGAAACTTTCAATACAAG
1 AAAAGGAGAAACATTCAATACAAG
35181751 AAA
1 AAA
35181754 TACACGAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.56, C:0.10, G:0.21, T:0.13
Consensus pattern (24 bp):
AAAAGGAGAAACATTCAATACAAG
Found at i:35182410 original size:14 final size:14
Alignment explanation
Indices: 35182391--35182424 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
35182381 TTCCTATTAT
35182391 TATTATTATTAATG
1 TATTATTATTAATG
*
35182405 TATTATTATTATTG
1 TATTATTATTAATG
35182419 TATTAT
1 TATTAT
35182425 CACTGTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (14 bp):
TATTATTATTAATG
Found at i:35182438 original size:3 final size:3
Alignment explanation
Indices: 35182045--35182417 Score: 95
Period size: 3 Copynumber: 123.3 Consensus size: 3
35182035 TTAACTTTAA
* * * * * * *
35182045 TAT TAT TAT TGT TAT TAC TAG TAT TAT TAT AAA TAT TAT TCT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
35182093 TAT TAT TAC TAT TTT CTAT TTT TTT TAC AAT TAT TAT TAT T-T TCAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* * * *
35182139 TAT TAT TCAT ATAT TAT TAAT TGCT T-T T-T TTT TAT TGT CAT TAT TAT
1 TAT TAT T-AT -TAT TAT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
35182186 TAACG TAT CAT TAT TTT TAT TTT TAT TAT TTT TAT TAT CT-T CTA- CAT
1 T-A-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT
* * * * * *
35182233 TTT TAT TAT TAG TGT TAT T-T CAT TAT TAT TAT ATGT TAC TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * * * *
35182277 CAT TCAT TTT TTT TAT TCT TTT TAT TAA TAT TAT TAT TAC TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
35182323 T-T TTT TAC TAT T-T T-T TGT TA- TAC TAT AAT TAT TCT TAT TAA TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * **
35182366 TAT TAT TGTT TCT TTT TCC TAT TAT TAT TAT TAT TAAT GTAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT
35182414 TAT T
1 TAT T
35182418 GTATTATCAC
Statistics
Matches: 265, Mismatches: 82, Indels: 46
0.67 0.21 0.12
Matches are distributed among these distances:
2 19 0.07
3 216 0.82
4 27 0.10
5 3 0.01
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:35183758 original size:24 final size:23
Alignment explanation
Indices: 35183715--35183759 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
35183705 AAATCGATAG
*
35183715 CGACTCCATTTTTATTTTTAAGT
1 CGACTCCATTTTTATATTTAAGT
35183738 CGACTCCTATTTTTCA-ATTTAA
1 CGACTCC-ATTTTT-ATATTTAA
35183760 AAATGGTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 11 0.58
25 1 0.05
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.49
Consensus pattern (23 bp):
CGACTCCATTTTTATATTTAAGT
Found at i:35183997 original size:19 final size:19
Alignment explanation
Indices: 35183975--35184013 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35183965 TTTTATCATT
35183975 TTTACTCTTTTTGATACAA
1 TTTACTCTTTTTGATACAA
35183994 TTTACTCTTTTTGATACAA
1 TTTACTCTTTTTGATACAA
35184013 T
1 T
35184014 GACTAAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTACTCTTTTTGATACAA
Found at i:35192457 original size:40 final size:40
Alignment explanation
Indices: 35192392--35192595 Score: 268
Period size: 40 Copynumber: 5.1 Consensus size: 40
35192382 TCTTCGGAAT
* ** *
35192392 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
35192431 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
35192471 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCTGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
35192511 TTAGCTCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
35192551 TTAGCCCGGATATAATC-ACTAGCATAAGTGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
35192591 TTAGC
1 TTAGC
35192596 TCGGGTATCA
Statistics
Matches: 145, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 3 0.02
40 141 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:35194529 original size:48 final size:48
Alignment explanation
Indices: 35194473--35194605 Score: 180
Period size: 48 Copynumber: 2.8 Consensus size: 48
35194463 TTCAATCGAT
* *
35194473 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCC-CC-
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGCAACTTA-CCTCCG
** *
35194520 AGAGTACCTATACCATGGCCCGAAGAAAAATCAAGGCAATTTACCTCCG
1 A-AGTACCTATACCATGGCCCGAAGCCAAATCAAGGCAACTTACCTCCG
*
35194569 AAGTGCCTATACCATGGCCCGAAGCCAAATCAAGGCA
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGCA
35194606 TAACTCGCAC
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
47 3 0.04
48 71 0.95
49 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGCAACTTACCTCCG
Found at i:35195578 original size:97 final size:97
Alignment explanation
Indices: 35195412--35195605 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
35195402 AAAACCGTAC
35195412 CTTAATTGACAAATATGGCATAGCCGAATGAAGAGAAAAGAATTAGCTTTCTTTAGCCCTAACTT
1 CTTAATTGACAAATATGGCATAGCCGAATGAAGAGAAAAGAATTAGCTTTCTTTAGCCCTAACTT
35195477 TCGGTTGAACAAGATGATAATAAGACTTATTT
66 TCGGTTGAACAAGATGATAATAAGACTTATTT
35195509 CTTAATTGACAAATATGGCATAGCCGAATGAAGAGAAAAGAATTAGCTTTCTTTAGCCCTAACTT
1 CTTAATTGACAAATATGGCATAGCCGAATGAAGAGAAAAGAATTAGCTTTCTTTAGCCCTAACTT
35195574 TCGGTTGAACAAGATGATAATAAGACTTATTT
66 TCGGTTGAACAAGATGATAATAAGACTTATTT
35195606 TAACTTTGTT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (97 bp):
CTTAATTGACAAATATGGCATAGCCGAATGAAGAGAAAAGAATTAGCTTTCTTTAGCCCTAACTT
TCGGTTGAACAAGATGATAATAAGACTTATTT
Found at i:35195633 original size:26 final size:26
Alignment explanation
Indices: 35195604--35195659 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
35195594 TAAGACTTAT
35195604 TTTAACTTTGTTTTATCTATTATATG
1 TTTAACTTTGTTTTATCTATTATATG
35195630 TTTAACTTTGTTTTATCTATTATATG
1 TTTAACTTTGTTTTATCTATTATATG
35195656 TTTA
1 TTTA
35195660 TTAACATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.62
Consensus pattern (26 bp):
TTTAACTTTGTTTTATCTATTATATG
Found at i:35201208 original size:40 final size:40
Alignment explanation
Indices: 35201153--35201289 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
35201143 TGGATGATAA
35201153 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35201193 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35201233 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TATCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
35201272 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35201290 TACTTGGCTT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
38 15 0.17
39 15 0.17
40 59 0.66
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Done.