Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2293
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: 86217
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:6970 original size:13 final size:13
Alignment explanation
Indices: 6952--6979 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6942 ATACAAAGAT
6952 CAATGTATCGATA
1 CAATGTATCGATA
6965 CAATGTATCGATA
1 CAATGTATCGATA
6978 CA
1 CA
6980 TTGAATAATG
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:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:6976 original size:33 final size:33
Alignment explanation
Indices: 6934--6999 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6924 AAATTCCCAG
6934 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
6967 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
7000 TTTACTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:15944 original size:13 final size:13
Alignment explanation
Indices: 15926--15955 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
15916 ACAATTCATT
15926 ATGTATCGATACA
1 ATGTATCGATACA
15939 ATGTATCGATACA
1 ATGTATCGATACA
15952 ATGT
1 ATGT
15956 GCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:15963 original size:33 final size:32
Alignment explanation
Indices: 15905--15972 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
15895 CGTTTGAAGA
*
15905 AATGTATCGATACAATTCATTATGTATCGATAC
1 AATGTATCGATACAATTCA-CATGTATCGATAC
15938 AATGTATCGATACAATGTGC-CATGTATCGATAC
1 AATGTATCGATACAAT-T-CACATGTATCGATAC
15971 AA
1 AA
15973 AAAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (32 bp):
AATGTATCGATACAATTCACATGTATCGATAC
Found at i:16046 original size:19 final size:19
Alignment explanation
Indices: 16001--16053 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
15991 CTGCTAGTTT
* *
16001 CATGTATCGATACAATTAT
1 CATGTATCGATACAATGAA
16020 CTATGTATCGATACAATGAA
1 C-ATGTATCGATACAATGAA
16040 CATGTATCGATACA
1 CATGTATCGATACA
16054 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:16060 original size:13 final size:13
Alignment explanation
Indices: 16042--16066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16032 ACAATGAACA
16042 TGTATCGATACAT
1 TGTATCGATACAT
16055 TGTATCGATACA
1 TGTATCGATACA
16067 AAGCATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16086 original size:33 final size:32
Alignment explanation
Indices: 16023--16087 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
16013 CAATTATCTA
* *
16023 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCAATACAT
16055 TGTATCGATACAAAGCATA-ATGTATCAATACAT
1 TGTATCGATACAAAG-A-ACATGTATCAATACAT
16088 CTGGGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCAATACAT
Found at i:18047 original size:65 final size:65
Alignment explanation
Indices: 17965--18104 Score: 208
Period size: 65 Copynumber: 2.2 Consensus size: 65
17955 CCGAGAAGAT
**
17965 ACTCCAACCCTATTTTTACATTAAAATTTGATTTATTTAAACATCAAATCATCATCTTCGGAGAC
1 ACTCCAACCCTATTTTTACATTAAAATTTGATTTATAAAAACATCAAATCATCATCTTCGGAGAC
* * ** * *
18030 ACTCCAACCCTGTTTTTATATTAAAATTTGATTTATAAAAACATCAAATTGTCATCTTCGGTGAT
1 ACTCCAACCCTATTTTTACATTAAAATTTGATTTATAAAAACATCAAATCATCATCTTCGGAGAC
18095 ACTCCAACCC
1 ACTCCAACCC
18105 CACTATTTTC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.36
Consensus pattern (65 bp):
ACTCCAACCCTATTTTTACATTAAAATTTGATTTATAAAAACATCAAATCATCATCTTCGGAGAC
Found at i:18178 original size:158 final size:158
Alignment explanation
Indices: 17883--18197 Score: 377
Period size: 158 Copynumber: 2.0 Consensus size: 158
17873 GAGTAATATC
*
17883 GTTTTTACACTAAAATTCGATTTATAAAAAATATCAAATTGTCATTTCGAGGACACTCCAACCCC
1 GTTTTTACACTAAAATTCGATTTATAAAAAACATCAAATTGTCATTTCGAGGACACTCCAACCCC
* * **
17948 ACCATTTCCGAGAAGATACTCCAACCCTATTTTTACATTAAAATTTGATTTATTTAAACATCAAA
66 ACCATTTCCGAGAAGATACTCCAACCCTATTTTTACACTAAAATTCGATTTATGAAAACATCAAA
*
18013 TCATCATCTTC-GGAGACACTCCAACCCT
131 TCATCATCTCCAGG-GACACTCCAACCCT
* * * *
18041 GTTTTTATATTAAAATTTGATTTAT-AAAAACATCAAATTGTCATCTTCG-GTGATACTCCAACC
1 GTTTTTACACTAAAATTCGATTTATAAAAAACATCAAATTGTCAT-TTCGAG-GACACTCCAACC
* * ** * * *
18104 CCACTATTTTCGAGGGGATACTCTAACCTCT-TTTTTGCACTAAAATTCGATTTATGAAAATATC
64 CCACCATTTCCGAGAAGATACTCCAACC-CTATTTTTACACTAAAATTCGATTTATGAAAACATC
* ** *
18168 AATTTTTCATCTCCAGGGATACTCCAACCC
128 AAATCATCATCTCCAGGGACACTCCAACCC
18198 CACCATCTTC
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
157 19 0.14
158 109 0.83
159 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (158 bp):
GTTTTTACACTAAAATTCGATTTATAAAAAACATCAAATTGTCATTTCGAGGACACTCCAACCCC
ACCATTTCCGAGAAGATACTCCAACCCTATTTTTACACTAAAATTCGATTTATGAAAACATCAAA
TCATCATCTCCAGGGACACTCCAACCCT
Found at i:18209 original size:93 final size:93
Alignment explanation
Indices: 18051--18224 Score: 251
Period size: 93 Copynumber: 1.9 Consensus size: 93
18041 GTTTTTATAT
* * * *
18051 TAAAATTTGATTTATAAAAACATCAAATTGTCATCTTCGGTGATACTCCAACCCCACTATTTTCG
1 TAAAATTCGATTTATAAAAACATCAAATTGTCATCTCCGGTGATACTCCAACCCCACCATCTTCG
*
18116 AGGGGATACTCTAACCTCTTTTTTGCAC
66 AGGGGATACTCCAACCTCTTTTTTGCAC
* * * *
18144 TAAAATTCGATTTATGAAAATATCAATTTTTCATCTCCAGG-GATACTCCAACCCCACCATCTTC
1 TAAAATTCGATTTATAAAAACATCAAATTGTCATCTCC-GGTGATACTCCAACCCCACCATCTTC
18208 GAGGGGATACTCCAACC
65 GAGGGGATACTCCAACC
18225 CTGCTTGTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (93 bp):
TAAAATTCGATTTATAAAAACATCAAATTGTCATCTCCGGTGATACTCCAACCCCACCATCTTCG
AGGGGATACTCCAACCTCTTTTTTGCAC
Found at i:18901 original size:20 final size:20
Alignment explanation
Indices: 18878--18948 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
18868 ACAATTCAAA
18878 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
18898 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
18919 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
18939 GTATCGATAC
1 GTATCGATAC
18949 GTAAAAAAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:18922 original size:21 final size:21
Alignment explanation
Indices: 18896--18971 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
18886 ACATGTTGCA
18896 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
18917 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
* *
18937 ATGTATCGATACGTAAAAAAG
1 ATGTATCGATACATGAAAAAG
18958 ATGTATCGATACAT
1 ATGTATCGATACAT
18972 TTCTTGGCAG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 14 0.33
21 29 0.67
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:18929 original size:41 final size:41
Alignment explanation
Indices: 18878--18971 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
18868 ACAATTCAAA
*
18878 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
18919 GTATCGATACATGTTGCAATGTATCGATACGTAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
18960 GTATCGATACAT
1 GTATCGATACAT
18972 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:19028 original size:13 final size:13
Alignment explanation
Indices: 19010--19035 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19000 TACAGCAAGT
19010 ATGTATCGATACA
1 ATGTATCGATACA
19023 ATGTATCGATACA
1 ATGTATCGATACA
19036 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:23119 original size:15 final size:15
Alignment explanation
Indices: 23099--23129 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23089 TAAAAATGTC
*
23099 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
23114 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
23129 C
1 C
23130 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:25219 original size:20 final size:20
Alignment explanation
Indices: 25140--25219 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
25130 AATGTCCAAA
*
25140 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
25160 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
25185 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
25205 TTGTATCGATACATT
1 ATGTATCGATACATT
25220 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:25223 original size:13 final size:13
Alignment explanation
Indices: 25205--25243 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
25195 ACATTTTTCT
25205 TTGTATCGATACA
1 TTGTATCGATACA
25218 TTGTATCGATACA
1 TTGTATCGATACA
*
25231 CTGTATCGATACA
1 TTGTATCGATACA
25244 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:27723 original size:20 final size:20
Alignment explanation
Indices: 27700--27770 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
27690 ACAATTCAAA
27700 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
27720 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
27741 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
27761 GTATCGATAC
1 GTATCGATAC
27771 GTAAAAAAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:27744 original size:21 final size:21
Alignment explanation
Indices: 27718--27793 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
27708 ACATGTTGCA
27718 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
27739 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
* *
27759 ATGTATCGATACGTAAAAAAG
1 ATGTATCGATACATGAAAAAG
27780 ATGTATCGATACAT
1 ATGTATCGATACAT
27794 TTCTTGGCAG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 14 0.33
21 29 0.67
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:27751 original size:41 final size:41
Alignment explanation
Indices: 27700--27793 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
27690 ACAATTCAAA
*
27700 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
27741 GTATCGATACATGTTGCAATGTATCGATACGTAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
27782 GTATCGATACAT
1 GTATCGATACAT
27794 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:27850 original size:13 final size:13
Alignment explanation
Indices: 27832--27857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27822 TACAGCAAGT
27832 ATGTATCGATACA
1 ATGTATCGATACA
27845 ATGTATCGATACA
1 ATGTATCGATACA
27858 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:30174 original size:20 final size:19
Alignment explanation
Indices: 30151--30222 Score: 81
Period size: 20 Copynumber: 3.7 Consensus size: 19
30141 CACACCCAGA
*
30151 TGTATCGATACATCTTGCTT
1 TGTATCGATACATCTT-CAT
*
30171 TGTATCGATACATGTTCAT
1 TGTATCGATACATCTTCAT
** *
30190 TGTATCGATACATGGATAAT
1 TGTATCGATACAT-CTTCAT
30210 TGTATCGATACAT
1 TGTATCGATACAT
30223 GCAACTGGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
19 15 0.32
20 32 0.68
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATCTTCAT
Found at i:30223 original size:20 final size:20
Alignment explanation
Indices: 30170--30223 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
30160 ACATCTTGCT
* *
30170 TTGTATCGATACAT-GTTCA
1 TTGTATCGATACATGGATAA
30189 TTGTATCGATACATGGATAA
1 TTGTATCGATACATGGATAA
30209 TTGTATCGATACATG
1 TTGTATCGATACATG
30224 CAACTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGGATAA
Found at i:30289 original size:13 final size:13
Alignment explanation
Indices: 30268--30298 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30258 CGATACATGG
*
30268 TACAATGTATCGA
1 TACATTGTATCGA
30281 TACATTGTATCGA
1 TACATTGTATCGA
30294 TACAT
1 TACAT
30299 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:30294 original size:33 final size:32
Alignment explanation
Indices: 30252--30318 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
30242 CTATCACTAT
30252 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
30285 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
30318 T
1 T
30319 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:31105 original size:13 final size:13
Alignment explanation
Indices: 31087--31116 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
31077 ACAATTCATT
31087 ATGTATCGATACA
1 ATGTATCGATACA
31100 ATGTATCGATACA
1 ATGTATCGATACA
31113 ATGT
1 ATGT
31117 GCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:31187 original size:20 final size:19
Alignment explanation
Indices: 31162--31234 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
31152 CTACCAGTTT
* *
31162 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGA-A
31182 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
31201 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
31222 -ATGTATCGATACA
1 CATGTATCGATACA
31235 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 16 0.33
20 31 0.65
21 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:31852 original size:28 final size:28
Alignment explanation
Indices: 31820--31875 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
31810 CAAACGGTTA
31820 AAAAGATTTTCTCCCCCTTAATAAAAAT
1 AAAAGATTTTCTCCCCCTTAATAAAAAT
*
31848 AAAAGATTTTCTCCCCCTTGATAAAAAT
1 AAAAGATTTTCTCCCCCTTAATAAAAAT
31876 TTATTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAAGATTTTCTCCCCCTTAATAAAAAT
Found at i:33706 original size:13 final size:13
Alignment explanation
Indices: 33688--33713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33678 TAGTAACCCT
33688 TGTATCGATACAA
1 TGTATCGATACAA
33701 TGTATCGATACAA
1 TGTATCGATACAA
33714 AGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:39895 original size:33 final size:32
Alignment explanation
Indices: 39833--39901 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
39823 CCGTTTGAAG
*
39833 CAATGTATCGATATAATTCATTATATATCGATA
1 CAATGTATCGATATAATTCA-CATATATCGATA
*
39866 CAATGTATCGATATAATATGC-CATGTATCGATA
1 CAATGTATCGATATAAT-T-CACATATATCGATA
39899 CAA
1 CAA
39902 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATATAATTCACATATATCGATA
Found at i:39974 original size:19 final size:19
Alignment explanation
Indices: 39931--40002 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
39921 TGCCAGTTTT
**
39931 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAA-TGAAC
39951 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
*
39970 ATGTATCGATACAAAGCATA-
1 ATGTATCGATACAATG-A-AC
39990 ATGTATCGATACA
1 ATGTATCGATACA
40003 TTCAAGGGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 18 0.38
20 28 0.60
21 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:41680 original size:48 final size:48
Alignment explanation
Indices: 41569--41698 Score: 156
Period size: 48 Copynumber: 2.7 Consensus size: 48
41559 TTTGTATCCT
* * *
41569 TACAGTGAACAATGTATCAATACATATG-GATTTTTCCAAAATGTATCGA
1 TACAATGAA-AATGTATCGATACATCTGAG-TTTTTCCAAAATGTATCGA
* *
41618 TACAATGCAAAATGTATCGATACATCTGAGTTTTT-TAAAATGTATTGA
1 TACAATG-AAAATGTATCGATACATCTGAGTTTTTCCAAAATGTATCGA
*
41666 TACAATGAATAATGTATCGATATATCTGAGTTT
1 TACAATGAA-AATGTATCGATACATCTGAGTTT
41699 CTAAATTATA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
47 2 0.03
48 40 0.56
49 27 0.38
50 3 0.04
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (48 bp):
TACAATGAAAATGTATCGATACATCTGAGTTTTTCCAAAATGTATCGA
Found at i:43848 original size:155 final size:154
Alignment explanation
Indices: 43500--43855 Score: 350
Period size: 155 Copynumber: 2.3 Consensus size: 154
43490 AAGAGTGGTG
* * *
43500 ACTTAGGACTCGATTCT--AAAATTACAAAAATGCCCTTAGGGGATACCTTCGACATAAAAGTAC
1 ACTTAGGACTCAATTATAAAAAATTACGAAAATGCCC-TAGGGGATACCTTCGACATAAAAGTAC
* *
43563 TTGATACCCCTAAAAGACTTAAAAAGGTAAAAGGATGGGATGAATCTATCCTAAATACCCACCTT
65 CTGATACCCCTAAAAGACTTAAAAAGATAAAAGGATGGGATGAATCTATCCTAAATACCCACCTT
* *
43628 TGGCATAAAAGCGAACTCGATGACA
130 TGACATAAAAGCGAACCCGATGACA
** * ** * *
43653 ACTTAGGACTCGGTTATGAAAAATTACGAAAATAAACCTAGGGGATACCTAT-GACTTTGAAA-T
1 ACTTAGGACTCAATTATAAAAAATTACGAAAAT-GCCCTAGGGGATACCT-TCGAC-ATAAAAGT
* * * * * * *
43716 GCCTGATACCCTTAAATGACTTAAAAAAGATTATA-GATTGGATGAA-CTTATCCTAAGTACCCA
63 ACCTGATACCCCTAAAAGACTT-AAAAAGATAAAAGGATGGGATGAATC-TATCCTAAATACCCA
*
43779 -CTTTCGACATAAAAGC-AGACCCGATGATA
126 CCTTT-GACATAAAAGCGA-ACCCGATGACA
* * *
43808 ACTTAGTACTCAATTTTAAAAAATTACGAAAATGCTCCTAGAGGATAC
1 ACTTAGGACTCAATTATAAAAAATTACGAAAATGC-CCTAGGGGATAC
43856 TTTTAATGTA
Statistics
Matches: 166, Mismatches: 27, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
153 15 0.09
154 6 0.04
155 129 0.78
156 16 0.10
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (154 bp):
ACTTAGGACTCAATTATAAAAAATTACGAAAATGCCCTAGGGGATACCTTCGACATAAAAGTACC
TGATACCCCTAAAAGACTTAAAAAGATAAAAGGATGGGATGAATCTATCCTAAATACCCACCTTT
GACATAAAAGCGAACCCGATGACA
Found at i:44256 original size:138 final size:140
Alignment explanation
Indices: 44004--44340 Score: 407
Period size: 138 Copynumber: 2.4 Consensus size: 140
43994 TTTCGAAGAT
* * *
44004 ATCATTTCGTATCTTAATGGAGAACCGAAAAGATACAAAAAAGTTTTAAAGATTGCTATACCCCT
1 ATCATTTCATACCTTAATGGAGAACCGAAAAGATACAAAAAAGTTTTAAAGATTGCTATACCCCC
*
44069 ACGAAAAATCATAGAAATATTAGAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATCTTT-
66 ACGAAAAATCATAGAAATATTAGAAATATTAAAAAATTAAGATAATAATTTTTATTTAATCTTTA
44133 ATTTCAAAAA
131 ATTTCAAAAA
* * ** *
44143 ATTCATTTTATTCCTTAATGGAGAATTGAAAAGATA-AAAAAAGTTTTGAAA-ATT-TTCATACC
1 A-TCATTTCATACCTTAATGGAGAACCGAAAAGATACAAAAAAGTTTT-AAAGATTGCT-ATACC
* * * * *
44205 CCCAC-AATACTCATGGAAATATTAGAAATATTAAGAAATTAAGATAATAATTTTTATTTAATTT
63 CCCACGAAAAATCATAGAAATATTAGAAATATTAAAAAATTAAGATAATAATTTTTATTTAATCT
*
44269 TTAATTTTAAAAA
128 TTAATTTCAAAAA
* ** *** *
44282 ATCATTTCGTACCTTAATGGAGAACAAAAAAGATGTGAAAAA-TTTTAAAGATTTCTATA
1 ATCATTTCATACCTTAATGGAGAACCGAAAAGATACAAAAAAGTTTTAAAGATTGCTATA
44341 TCTCTATGGA
Statistics
Matches: 167, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
137 3 0.02
138 93 0.56
139 40 0.24
140 31 0.19
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (140 bp):
ATCATTTCATACCTTAATGGAGAACCGAAAAGATACAAAAAAGTTTTAAAGATTGCTATACCCCC
ACGAAAAATCATAGAAATATTAGAAATATTAAAAAATTAAGATAATAATTTTTATTTAATCTTTA
ATTTCAAAAA
Found at i:45475 original size:20 final size:20
Alignment explanation
Indices: 45447--45486 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45437 TTAGAATTTC
45447 ATTAGATGAAATTTAAAAAT
1 ATTAGATGAAATTTAAAAAT
* *
45467 ATTATATGAATTTTAAAAAT
1 ATTAGATGAAATTTAAAAAT
45487 TTTAAATCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
ATTAGATGAAATTTAAAAAT
Found at i:48029 original size:26 final size:27
Alignment explanation
Indices: 48000--48051 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
47990 TCATTTTTGA
48000 TGGA-AAACGGGGTTGGAGTGTCCCCT
1 TGGAGAAACGGGGTTGGAGTGTCCCCT
* *
48026 TGGAGGAATGGGGTTGGAGTGTCCCC
1 TGGAGAAACGGGGTTGGAGTGTCCCC
48052 GGTGAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.17, C:0.17, G:0.42, T:0.23
Consensus pattern (27 bp):
TGGAGAAACGGGGTTGGAGTGTCCCCT
Found at i:50262 original size:52 final size:52
Alignment explanation
Indices: 50192--50312 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
50182 GAAAATTTAT
*
50192 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
50244 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
50296 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
50313 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:50325 original size:52 final size:51
Alignment explanation
Indices: 50192--50332 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
50182 GAAAATTTAT
50192 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
50244 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
50296 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
50333 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:50339 original size:13 final size:13
Alignment explanation
Indices: 50321--50345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50311 CAAAGATCAG
50321 TGTATCGATACAA
1 TGTATCGATACAA
50334 TGTATCGATACA
1 TGTATCGATACA
50346 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:50429 original size:13 final size:13
Alignment explanation
Indices: 50411--50435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50401 CAAAAAAATA
50411 TGTATCGATACAT
1 TGTATCGATACAT
50424 TGTATCGATACA
1 TGTATCGATACA
50436 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:50431 original size:33 final size:33
Alignment explanation
Indices: 50389--50455 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
50379 AGTAGCTTAA
50389 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
50422 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
50455 A
1 A
50456 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:51487 original size:43 final size:45
Alignment explanation
Indices: 51426--51559 Score: 191
Period size: 43 Copynumber: 2.9 Consensus size: 45
51416 GATGGAAAAT
51426 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-G-
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
* *
51469 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-ATG-A
*
51517 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
51560 AATGATGATG
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
43 37 0.46
44 2 0.03
45 1 0.01
46 1 0.01
47 1 0.01
48 3 0.04
49 35 0.44
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (45 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
Found at i:51525 original size:49 final size:49
Alignment explanation
Indices: 51383--51569 Score: 233
Period size: 49 Copynumber: 3.9 Consensus size: 49
51373 GATGTCAACG
* *
51383 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
51435 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
51478 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
51527 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
51570 AGAAGAGTGA
Statistics
Matches: 119, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
43 36 0.30
44 2 0.02
45 1 0.01
46 1 0.01
48 2 0.02
49 46 0.39
50 1 0.01
51 2 0.02
52 28 0.24
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:51556 original size:92 final size:94
Alignment explanation
Indices: 51382--51559 Score: 306
Period size: 92 Copynumber: 1.9 Consensus size: 94
51372 GGATGTCAAC
51382 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAA-GTGCCAATATGCTGATTCAAG
*
51447 GCCAGCTATATTGGACTTAAAGGTGCCAAT
65 GCCAGCGATATTGGACTTAAAGGTGCCAAT
* *
51477 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA-TGCCAATATGCTGATTCAAGG
1 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGTGCCAATATGCTGATTCAAGG
51540 CCAGCGATATTGGACTTAAA
66 CCAGCGATATTGGACTTAAA
51560 AATGATGATG
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
92 40 0.50
94 4 0.05
95 36 0.45
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (94 bp):
GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGTGCCAATATGCTGATTCAAGG
CCAGCGATATTGGACTTAAAGGTGCCAAT
Found at i:51681 original size:55 final size:52
Alignment explanation
Indices: 51621--51725 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
51611 CGATATTGGG
* *
51621 CTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* * * *
51676 CTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCCGCTATATTG
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTG
51726 GGCTTAGAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
52 28 0.64
53 5 0.11
54 1 0.02
55 10 0.23
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
Found at i:51715 original size:52 final size:55
Alignment explanation
Indices: 51584--51725 Score: 155
Period size: 55 Copynumber: 2.6 Consensus size: 55
51574 GAGTGATAAA
* * * * **
51584 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
* ** * *
51639 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
*
51692 G-TGCCAATATGCTGATTCAAGGCCCGCTATATTG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTG
51726 GGCTTAGAGG
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
52 28 0.39
53 5 0.07
54 1 0.01
55 37 0.52
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (55 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
Found at i:51723 original size:266 final size:266
Alignment explanation
Indices: 51245--51731 Score: 902
Period size: 266 Copynumber: 1.8 Consensus size: 266
51235 TTTTAGAGAT
* *
51245 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAATGAAGATGAGAAAA
51310 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
51375 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
51440 ATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
196 ATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
51505 CTTAAA
261 CTTAAA
* * *
51511 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAATGAAGATGAGAAAA
*
51576 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
51641 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
* *
51706 ATTCAAGGCCCGCTATATTGGGCTTA
196 ATTCAAGGCCAGCTATATTGGACTTA
51732 GAGGGGTTGC
Statistics
Matches: 213, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
266 213 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (266 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
ATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
CTTAAA
Found at i:51849 original size:35 final size:34
Alignment explanation
Indices: 51798--52239 Score: 512
Period size: 34 Copynumber: 12.9 Consensus size: 34
51788 GGGCTTTGGG
*
51798 AAGGAAAAA-AGATGCCACGGAGTTGTGGACTTAA
1 AAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTAA
*
51832 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
51867 AA-GAAAAA-AGTGCCACGGAGTTGTGGGTTTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* * *
51899 AAGGAAAAATAGTGCCACAGAGTTGTGGGCTTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
51933 AAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTTA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
51966 AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
*
52001 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAA
*
52037 AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
52072 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAA
* *
52108 AAAGAAAAAGTA-TGCCACAGAGTTGTGGGCTTTAA
1 AAGGAAAAAG-AGTGCCACGGAGTTGTGGGC-TTAA
* *
52143 GATGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
* *
52178 AA-GAAGAAG-GTGCCACGGAGTTGTGGGCTTTA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
52210 AAGG-AAAAG-GTGCCACGAAGTTGTGGGCTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
52240 TGAAGAAAAA
Statistics
Matches: 364, Mismatches: 28, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
32 50 0.14
33 68 0.19
34 95 0.26
35 82 0.23
36 20 0.05
37 49 0.13
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.21
Consensus pattern (34 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
Found at i:51860 original size:71 final size:70
Alignment explanation
Indices: 51785--52240 Score: 559
Period size: 71 Copynumber: 6.6 Consensus size: 70
51775 CACCGACTTG
* *
51785 TGTGGGCTTTGGGAAGGAAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTGAGAAGGAAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAA-GGAAAAAGAGTGCC
51849 ACGGAGT
64 ACGGAGT
* *
51856 TGTGGGCTTT-A-AA-GAAAAAAGTGCCACGGAGTTGTGGG-TTTAGAAGGAAAAATAGTGCCAC
1 TGTGGGCTTTGAGAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCAC
*
51917 AGAGT
66 GGAGT
* *
51922 TGTGGGC-TT-AGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT-AAAGG-AAAAGAGTGCCAC
1 TGTGGGCTTTGAGAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCAC
51983 GGAGT
66 GGAGT
* * *
51988 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCC
1 TGTGGGCTTTGAGAA-GGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCC
52052 ACGGAGT
64 ACGGAGT
* *
52059 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTA-TGC
1 TGTGGGCTTTGAGAA-GGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAG-AGTGC
*
52123 CACAGAGT
63 CACGGAGT
* * *
52131 TGTGGGCTTTAAG-ATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAG-GTGCCA
1 TGTGGGCTTTGAGAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAAGAGTGCCA
52193 CGGAGT
65 CGGAGT
* *
52199 TGTGGGCTTT-A-AAGG-AAAAGGTGCCACGAAGTTGTGGGCTTT
1 TGTGGGCTTTGAGAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTT
52241 GAAGAAAAAA
Statistics
Matches: 345, Mismatches: 25, Indels: 35
0.85 0.06 0.09
Matches are distributed among these distances:
65 3 0.01
66 76 0.22
67 53 0.15
68 34 0.10
69 37 0.11
70 31 0.09
71 85 0.25
72 26 0.08
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.21
Consensus pattern (70 bp):
TGTGGGCTTTGAGAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCAC
GGAGT
Found at i:52977 original size:16 final size:16
Alignment explanation
Indices: 52956--52997 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
52946 CTCACCGAGA
*
52956 TTTTCTGTTTTGTTTT
1 TTTTCTGTTTTCTTTT
*
52972 TTTTCTTTTTTCTTTT
1 TTTTCTGTTTTCTTTT
*
52988 TTTTGTGTTT
1 TTTTCTGTTT
52998 GGAAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (16 bp):
TTTTCTGTTTTCTTTT
Found at i:58006 original size:26 final size:27
Alignment explanation
Indices: 57977--58028 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
57967 TCATTTTTGA
57977 TGGA-AAACGGGGTTGGAGTGTCCCCT
1 TGGAGAAACGGGGTTGGAGTGTCCCCT
* *
58003 TGGAGGAATGGGGTTGGAGTGTCCCC
1 TGGAGAAACGGGGTTGGAGTGTCCCC
58029 GGTGAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.17, C:0.17, G:0.42, T:0.23
Consensus pattern (27 bp):
TGGAGAAACGGGGTTGGAGTGTCCCCT
Found at i:60239 original size:52 final size:52
Alignment explanation
Indices: 60169--60289 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
60159 GAAAATTTAT
*
60169 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
60221 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
60273 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
60290 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:60302 original size:52 final size:51
Alignment explanation
Indices: 60169--60309 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
60159 GAAAATTTAT
60169 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
60221 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
60273 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
60310 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:60316 original size:13 final size:13
Alignment explanation
Indices: 60298--60322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60288 CAAAGATCAG
60298 TGTATCGATACAA
1 TGTATCGATACAA
60311 TGTATCGATACA
1 TGTATCGATACA
60323 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:60406 original size:13 final size:13
Alignment explanation
Indices: 60388--60412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60378 CAAAAAAATA
60388 TGTATCGATACAT
1 TGTATCGATACAT
60401 TGTATCGATACA
1 TGTATCGATACA
60413 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:60408 original size:33 final size:33
Alignment explanation
Indices: 60366--60432 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
60356 AGTAGCTTAA
60366 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
60399 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
60432 A
1 A
60433 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:60815 original size:47 final size:47
Alignment explanation
Indices: 60742--61002 Score: 240
Period size: 47 Copynumber: 5.6 Consensus size: 47
60732 TACAATAATT
* * * *
60742 AAACGAGGGTAAAAAGAGTTTAACCAAGTACTAACGCTAATACAGTC
1 AAACAAGGGTAAAAAGAGTTTGACCAAGTCCTAACGCCAATACAGTC
* ** *
60789 AAACGAGGGTGGAAAGAGTTTGACCAACTCCTAACGCCAATACAGTC
1 AAACAAGGGTAAAAAGAGTTTGACCAAGTCCTAACGCCAATACAGTC
* * * *
60836 AAACAAAGGTAAAAATAGTTTGACCATGTCCTAACGCCAATACAATC
1 AAACAAGGGTAAAAAGAGTTTGACCAAGTCCTAACGCCAATACAGTC
* *
60883 AAACAAGGGTAAAAAGAGTTTGACCAGATGT--TAACACCAATACAGTT
1 AAACAAGGGTAAAAAGAGTTTGACCA-A-GTCCTAACGCCAATACAGTC
* * ** * * * *
60930 AGACAACGGTGGAAAGAGTTTGACTAGGTCCTAATGCTAATGA-AGTC
1 AAACAAGGGTAAAAAGAGTTTGACCAAGTCCTAACGCCAAT-ACAGTC
* ** *
60977 AAACGATAGTAAAAAAAGTTTGACCA
1 AAACAAGGGTAAAAAGAGTTTGACCA
61003 TATACAGTCA
Statistics
Matches: 171, Mismatches: 38, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
45 2 0.01
47 166 0.97
48 1 0.01
49 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (47 bp):
AAACAAGGGTAAAAAGAGTTTGACCAAGTCCTAACGCCAATACAGTC
Found at i:60950 original size:141 final size:140
Alignment explanation
Indices: 60742--61003 Score: 323
Period size: 141 Copynumber: 1.9 Consensus size: 140
60732 TACAATAATT
* * * * *
60742 AAACGAGGGTAAAAAGAGTTTAACCAAGTACTAACGCTAATACAGTCAAACGAGGGTGGAAAGAG
1 AAACAAGGGTAAAAAGAGTTTAACCAAGTA-TAACACCAATACAGTCAAACAACGGTGGAAAGAG
*
60807 TTTGACCAACTCCTAACGCCAAT-ACAGTCAAAC-AAAGGTAAAAATAGTTTGACCATGTCCTAA
65 TTTGACCAACTCCTAACGCCAATGA-AGTCAAACGAAA-GTAAAAAAAGTTTGACCATGTCCTAA
60870 CGCCAATACAATC
128 CGCCAATACAATC
* * *
60883 AAACAAGGGTAAAAAGAGTTTGACCAGATGT-TAACACCAATACAGTTAGACAACGGTGGAAAGA
1 AAACAAGGGTAAAAAGAGTTTAACCA-A-GTATAACACCAATACAGTCAAACAACGGTGGAAAGA
* ** * * *
60947 GTTTGACTAGGTCCTAATGCTAATGAAGTCAAACGATAGTAAAAAAAGTTTGACCAT
64 GTTTGACCAACTCCTAACGCCAATGAAGTCAAACGAAAGTAAAAAAAGTTTGACCAT
61004 ATACAGTCAA
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
141 96 0.94
142 4 0.04
143 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.21
Consensus pattern (140 bp):
AAACAAGGGTAAAAAGAGTTTAACCAAGTATAACACCAATACAGTCAAACAACGGTGGAAAGAGT
TTGACCAACTCCTAACGCCAATGAAGTCAAACGAAAGTAAAAAAAGTTTGACCATGTCCTAACGC
CAATACAATC
Found at i:60979 original size:94 final size:94
Alignment explanation
Indices: 60749--61002 Score: 269
Period size: 94 Copynumber: 2.7 Consensus size: 94
60739 ATTAAACGAG
* * **
60749 GGTAAAAAGAGTTTAACCAAGTACTAACGCTAATACAGTCAAACGAGGGTGGAAAGAGTTTGACC
1 GGTAAAAAGAGTTTGACCAAGTCCTAACGCTAATACAGTCAAACGAGGGTAAAAAGAGTTTGACC
*
60814 AACTCCTAACGCCAATACAGTCAAACAAA
66 AACTCCTAACACCAATACAGTCAAACAAA
* * * * *
60843 GGTAAAAATAGTTTGACCATGTCCTAACGCCAATACAATCAAACAAGGGTAAAAAGAGTTTGACC
1 GGTAAAAAGAGTTTGACCAAGTCCTAACGCTAATACAGTCAAACGAGGGTAAAAAGAGTTTGACC
** * * *
60908 AGA-TGTTAACACCAATACAGTTAGACAAC
66 A-ACTCCTAACACCAATACAGTCAAACAAA
** * * * ** *
60937 GGTGGAAAGAGTTTGACTAGGTCCTAATGCTAATGA-AGTCAAACGATAGTAAAAAAAGTTTGAC
1 GGTAAAAAGAGTTTGACCAAGTCCTAACGCTAAT-ACAGTCAAACGAGGGTAAAAAGAGTTTGAC
61001 CA
65 CA
61003 TATACAGTCA
Statistics
Matches: 131, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
94 129 0.98
95 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.21
Consensus pattern (94 bp):
GGTAAAAAGAGTTTGACCAAGTCCTAACGCTAATACAGTCAAACGAGGGTAAAAAGAGTTTGACC
AACTCCTAACACCAATACAGTCAAACAAA
Found at i:61032 original size:35 final size:35
Alignment explanation
Indices: 60973--61084 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 35
60963 ATGCTAATGA
* ** * *
60973 AGTCAAACGATAGTAAAAAAAGTTTGACCATATAC
1 AGTCAAACGATAATGGAAAGAGTTTGACCAGATAC
*
61008 AGTCAAACGATAATGGAAAGAGTTTAACCAGATAC
1 AGTCAAACGATAATGGAAAGAGTTTGACCAGATAC
* * * *
61043 ATTCAAATGATGATGGAAAGATTTTGACCAGATAC
1 AGTCAAACGATAATGGAAAGAGTTTGACCAGATAC
61078 AGTCAAA
1 AGTCAAA
61085 TAAGGATGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (35 bp):
AGTCAAACGATAATGGAAAGAGTTTGACCAGATAC
Found at i:61085 original size:35 final size:35
Alignment explanation
Indices: 60993--61104 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 35
60983 TAGTAAAAAA
* * *
60993 AGTTTGACCATATACAGTCAAACGATAATGGAAAG
1 AGTTTGACCAGATACAGTCAAATGATGATGGAAAG
* *
61028 AGTTTAACCAGATACATTCAAATGATGATGGAAAG
1 AGTTTGACCAGATACAGTCAAATGATGATGGAAAG
* * * *
61063 ATTTTGACCAGATACAGTCAAATAAGGATGAAAAG
1 AGTTTGACCAGATACAGTCAAATGATGATGGAAAG
61098 AGTTTGA
1 AGTTTGA
61105 TGAAGAGCGA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.25
Consensus pattern (35 bp):
AGTTTGACCAGATACAGTCAAATGATGATGGAAAG
Found at i:62432 original size:20 final size:20
Alignment explanation
Indices: 62410--62455 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
62400 TTTTCATTCC
62410 TTTCATTCTTTTTTTTTTTCT
1 TTTC-TTCTTTTTTTTTTTCT
*
62431 TTTCTTCTTTTTTTTTCT-T
1 TTTCTTCTTTTTTTTTTTCT
62450 TTTCTT
1 TTTCTT
62456 TTCACAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
20 13 0.54
21 4 0.17
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTCTTCTTTTTTTTTTTCT
Found at i:62452 original size:19 final size:17
Alignment explanation
Indices: 62415--62457 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 17
62405 ATTCCTTTCA
62415 TTCTTTTTTTTTTTCTT
1 TTCTTTTTTTTTTTCTT
62432 TTCTTCTTTTTTTTTCTTT
1 TTCTT-TTTTTTTTTC-TT
62451 TTCTTTT
1 TTCTTTT
62458 CACAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.21
18 12 0.50
19 7 0.29
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTCTTTTTTTTTTTCTT
Found at i:68491 original size:155 final size:154
Alignment explanation
Indices: 68123--68493 Score: 393
Period size: 155 Copynumber: 2.4 Consensus size: 154
68113 CTCGATTCTG
* * * * ** * * * *
68123 AAATTACAAAAATAGCCTTAGGGGATACCTTTGACATAGAAGTACTCGGCACCTTTAAAGGACTC
1 AAATTACGAAAATACCCCTAGAGGATACCTTCAACTTAAAAGTACTC-GCACCTCTAAAAGACTC
* * *
68188 AAAAAGGTAAAAAGATGGGATGAACCTATCCTTAATACCCACCTTCAACATAAAAGCAGACTCGA
65 AAAAAGGTAAAAAGATGGGATGAACCCATCCTAAATACCCACCTTCAACATAAAAGCAAACTCGA
* *
68253 TGACAACTTAGGACTCGATTATAAA
130 TGACAACCTAAGACTCGATTATAAA
* * * ** * * * * *
68278 AAATTATGAAAATACCCCTAGGGGATACTTTTGACTTAAAAATGCTCGATACCCCTAAAAGACTT
1 AAATTACGAAAATACCCCTAGAGGATACCTTCAACTTAAAAGTACTCG-CACCTCTAAAAGACTC
* * * *
68343 AAAAAGG-ATTATAGATGGGATGAACCCATCCTAAATGCCCACTTTCAACATAAAAGCAAACTCG
65 AAAAAGGTA-AAAAGATGGGATGAACCCATCCTAAATACCCACCTTCAACATAAAAGCAAACTCG
* *
68407 GTGACAACCTAAGACTCGATTTTAAA
129 ATGACAACCTAAGACTCGATTATAAA
***
68433 AAATTACGAAAATACTTTTAGAGGATACCTTCAACTTAAAAGTACTCAGCACCTCTAAAAG
1 AAATTACGAAAATACCCCTAGAGGATACCTTCAACTTAAAAGTACTC-GCACCTCTAAAAG
68494 GGCTCGAAAA
Statistics
Matches: 176, Mismatches: 37, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
154 2 0.01
155 173 0.98
156 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (154 bp):
AAATTACGAAAATACCCCTAGAGGATACCTTCAACTTAAAAGTACTCGCACCTCTAAAAGACTCA
AAAAGGTAAAAAGATGGGATGAACCCATCCTAAATACCCACCTTCAACATAAAAGCAAACTCGAT
GACAACCTAAGACTCGATTATAAA
Found at i:68946 original size:137 final size:139
Alignment explanation
Indices: 68689--68950 Score: 361
Period size: 137 Copynumber: 1.9 Consensus size: 139
68679 AAACCTTAGG
* * * *
68689 AATATTAAAAATATTGAAAAATTAAGACAATAATTTTTGTTTAATTTTTATTTCAAAAAATTTAT
1 AATATTAAAAATATGGAAAAATTAAGAAAATAATTTTTGTTTAATTTTTAATTCAAAAAAATTAT
* * * *
68754 TTCATACTTTAATAGAGAACTGAAAAGATACAAAAAGTTTTGAAAATTTTCATACCCCTATAGAT
66 TTCATACCTTAATAGAGAACCGAAAAGACACAAAAAGTGTTGAAAATTTTCATACCCCTATAGAT
68819 ACCCATGAA
131 ACCCATGAA
* *
68828 AATATTAGAAATATGGAGAAATTAAGAAAATAATTTTT-TTTAATTTTTAATT-AAAAAAATTAT
1 AATATTAAAAATATGGAAAAATTAAGAAAATAATTTTTGTTTAATTTTTAATTCAAAAAAATTAT
** *
68891 TTCATACCTTAAT-GAAGAACCGAAAAGACAGGAAAAGTGTTGAAGA-TTTCTATACCCCTA
66 TTCATACCTTAATAG-AGAACCGAAAAGACACAAAAAGTGTTGAAAATTTTC-ATACCCCTA
68951 CGGATAAACA
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
136 5 0.05
137 56 0.52
138 13 0.12
139 34 0.31
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (139 bp):
AATATTAAAAATATGGAAAAATTAAGAAAATAATTTTTGTTTAATTTTTAATTCAAAAAAATTAT
TTCATACCTTAATAGAGAACCGAAAAGACACAAAAAGTGTTGAAAATTTTCATACCCCTATAGAT
ACCCATGAA
Found at i:68974 original size:137 final size:139
Alignment explanation
Indices: 68622--68978 Score: 402
Period size: 139 Copynumber: 2.6 Consensus size: 139
68612 CATTTTGTAT
* * * * * * *
68622 CTTAATGGAGAAGCGAAAAGATACAAAAAGTTTTGAAGATTGCTATAACTCTACCGA-AAACCTT
1 CTTAATGAAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTACAGATAAA-CAT
* * * * * *
68686 AGGAATATTAAAAATATTGAAAAATTAAGACAATAATTTTTGTTTAATTTTTATTTCAAAAAATT
65 AAGAATATTAGAAATATGGAAAAATTAAGAAAATAATTTTTGTTTAATTTTTAATTCAAAAAAAT
68751 TATTTCATAC
130 TATTTCATAC
* * * * **
68761 TTTAAT-AGAGAACTGAAAAGATACAAAAAGTTTTGAAAATTT-TCATACCCCTATAGATACCCA
1 CTTAATGA-AGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCT-ATACCCCTACAGATAAACA
*
68824 TGAA-AATATTAGAAATATGGAGAAATTAAGAAAATAATTTTT-TTTAATTTTTAATT-AAAAAA
64 T-AAGAATATTAGAAATATGGAAAAATTAAGAAAATAATTTTTGTTTAATTTTTAATTCAAAAAA
68886 ATTATTTCATAC
128 ATTATTTCATAC
* ** * *
68898 CTTAATGAAGAACCGAAAAGACAGGAAAAGTGTTGAAGATTTCTATACCCCTACGGATAAACATA
1 CTTAATGAAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTACAGATAAACATA
*
68963 AGAATAATAGAAATAT
66 AGAATATTAGAAATAT
68979 ATAAAAATGA
Statistics
Matches: 179, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
136 2 0.01
137 79 0.44
138 16 0.09
139 80 0.45
140 2 0.01
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (139 bp):
CTTAATGAAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTACAGATAAACATA
AGAATATTAGAAATATGGAAAAATTAAGAAAATAATTTTTGTTTAATTTTTAATTCAAAAAAATT
ATTTCATAC
Found at i:69001 original size:137 final size:139
Alignment explanation
Indices: 68697--68988 Score: 333
Period size: 137 Copynumber: 2.1 Consensus size: 139
68687 GGAATATTAA
* * * * * *
68697 AAATATTGAAAAATTAAGACAATAATTTTTGTTTAATTTTTATTTCAAAAAATTTATTTCATACT
1 AAATATAGAAAAATGAAGAAAATAATTTTTGTTTAATTTTTAATTCAAAAAAATTATTTCATACC
* * * * **
68762 TTAATAGAGAACTGAAAAGATACAAAAAGTTTTGAAAATTTTCATACCCCTATAGATACCCATGA
66 TTAATAGAGAACCGAAAAGACACAAAAAGTGTTGAAAATTTTCATACCCCTACAGATAAACATGA
*
68827 AAATATTAG
131 AAATAATAG
* * *
68836 AAATATGGAGAAATTAAGAAAATAATTTTT-TTTAATTTTTAATT-AAAAAAATTATTTCATACC
1 AAATATAGAAAAATGAAGAAAATAATTTTTGTTTAATTTTTAATTCAAAAAAATTATTTCATACC
** * *
68899 TTAAT-GAAGAACCGAAAAGACAGGAAAAGTGTTGAAGA-TTTCTATACCCCTACGGATAAACAT
66 TTAATAG-AGAACCGAAAAGACACAAAAAGTGTTGAAAATTTTC-ATACCCCTACAGATAAACAT
68962 -AAGAATAATAG
129 GAA-AATAATAG
*
68973 AAATATATAAAAATGA
1 AAATATAGAAAAATGA
68989 TTAATTTTAT
Statistics
Matches: 129, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
136 7 0.05
137 82 0.64
138 13 0.10
139 27 0.21
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (139 bp):
AAATATAGAAAAATGAAGAAAATAATTTTTGTTTAATTTTTAATTCAAAAAAATTATTTCATACC
TTAATAGAGAACCGAAAAGACACAAAAAGTGTTGAAAATTTTCATACCCCTACAGATAAACATGA
AAATAATAG
Found at i:70069 original size:21 final size:20
Alignment explanation
Indices: 70025--70069 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
70015 CCATTTAAAA
*
70025 TTTCATGTCCTTTTGTTTTT
1 TTTCATGTCCTTTTGTTATT
70045 TTTCATGTCATCTTTT-TTATT
1 TTTCATGTC--CTTTTGTTATT
70066 TTTC
1 TTTC
70070 CAAGCAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 8 0.36
22 5 0.23
ACGTcount: A:0.09, C:0.16, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTCATGTCCTTTTGTTATT
Found at i:70249 original size:15 final size:15
Alignment explanation
Indices: 70229--70258 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
70219 CTAGTTGGAA
70229 AAAATAAATAAAATT
1 AAAATAAATAAAATT
70244 AAAATAAATAAAATT
1 AAAATAAATAAAATT
70259 TTCAAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAATAAAATT
Found at i:70884 original size:33 final size:33
Alignment explanation
Indices: 70842--70904 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
70832 TCATTGTTTG
*
70842 TATCGATACATGGT-ACATTGTATCGATACAATA
1 TATCGATACATGATGA-ATTGTATCGATACAATA
70875 TATCGATACATGATGAATTGTATCGATACA
1 TATCGATACATGATGAATTGTATCGATACA
70905 TTGCTTCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (33 bp):
TATCGATACATGATGAATTGTATCGATACAATA
Found at i:77096 original size:13 final size:13
Alignment explanation
Indices: 77078--77104 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77068 ATAATATTCC
77078 TTGTATCGATACA
1 TTGTATCGATACA
77091 TTGTATCGATACA
1 TTGTATCGATACA
77104 T
1 T
77105 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:79477 original size:20 final size:20
Alignment explanation
Indices: 79435--79491 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
79425 CACACCCAGA
*
79435 TGTATCGATACA-TGTTCAT
1 TGTATCGATACATTGTACAT
79454 TGTATCGATACATTG-ACAAT
1 TGTATCGATACATTGTAC-AT
*
79474 TGTATCGACACATTGTAC
1 TGTATCGATACATTGTAC
79492 CGATACATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
20 18 0.55
21 2 0.06
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTGTACAT
Done.