Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008764.1 Kokia drynarioides strain JFW-HI SEQ_123447, whole genome shotgun sequence
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: 278447
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:13146 original size:33 final size:33
Alignment explanation
Indices: 13107--13173 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
13097 GAAAGGAAAT
13107 AAGAAATAAGAAGAGCACAACTGACTGGGGAAG
1 AAGAAATAAGAAGAGCACAACTGACTGGGGAAG
13140 AAGAAATAAGAAGAGCACAACTGACTGGGGAAG
1 AAGAAATAAGAAGAGCACAACTGACTGGGGAAG
13173 A
1 A
13174 GATCAAGTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.12, G:0.30, T:0.09
Consensus pattern (33 bp):
AAGAAATAAGAAGAGCACAACTGACTGGGGAAG
Found at i:18228 original size:93 final size:93
Alignment explanation
Indices: 18040--18650 Score: 409
Period size: 93 Copynumber: 6.5 Consensus size: 93
18030 TAAAACAACA
* * * *
18040 AAGCAAATCTTAATGTCCCTAAGGTTATAGTGAAATGGAGTGAAGCACCAGATCCT-TACCCCTA
1 AAGCAGATCTCAATGTCCCTAAGGTTATAGTGGAATGGAGTGAAGCACCAGATCTTATACCCCTA
* * *
18104 GACTATAGTGGGTCGAATTAAAAAAATG
66 GATTACAGTGGGTCGAATTAAAATAATG
* * * * * *
18132 AAGCAGATCTCAATGTCCCTAATGTTATAATGGAATGGAATGAAGCATCAAATTTTATACCCCTA
1 AAGCAGATCTCAATGTCCCTAAGGTTATAGTGGAATGGAGTGAAGCACCAGATCTTATACCCCTA
*
18197 AATTACAGTGGGTC-AGATTAAAATAATG
66 GATTACAGTGGGTCGA-ATTAAAATAATG
* * *
18225 AAGCAGATCTCAATGTCCCTAAGGTTATAGTGGAATAGAGTAAAGCACCAGATCTTATATCCCTG
1 AAGCAGATCTCAATGTCCCTAAGGTTATAGTGGAATGGAGTGAAGCACCAGATCTTATACCCCT-
* * * *
18290 CGGTTGCAGTGGATCGAATTAAAATAA-G
65 AGATTACAGTGGGTCGAATTAAAATAATG
* * *
18318 TAA-CAGATCTCAATGTCCCTGAGGTTATAGTGGAATGGAGTGAAGTTGCAATACCAAATCCTAT
1 -AAGCAGATCTCAATGTCCCTAAGGTTATAGTGGAATGGAGTGAA---GC---ACCAGATCTTAT
* * ** *
18382 A-ACCTTGAGTTGTAGTGGGTC-AGATTAAAACAATG
59 ACCCCTAGA-TTACAGTGGGTCGA-ATTAAAATAATG
* * * * * * * *
18417 AAGTAGATCTCAATGT--TTGAGGTTACAATGGAATAGAGTGAAGCACCAGATCCTATATCCCTA
1 AAGCAGATCTCAATGTCCCTAAGGTTATAGTGGAATGGAGTGAAGCACCAGATCTTATACCCCTA
* ** * *
18480 AAGTTGTAGTGGATC-AGATTAAAATGA-G
66 GA-TTACAGTGGGTCGA-ATTAAAATAATG
* * * * * *
18508 TAA-CAAATCTCAATGTCCCTGAGGTTACAGTGGAATGTAGTGAAGTTGCAGCACCAAATCCTAT
1 -AAGCAGATCTCAATGTCCCTAAGGTTATAGTGGAA--T-G-G-AG-TGAAGCACCAGATCTTAT
* * * * * * *
18572 A-TCCTTGAGTTGCAGTGGGTCGGATCAAAACAACG
59 ACCCCTAGA-TTACAGTGGGTCGAATTAAAATAATG
* * * * *
18607 AAACAAATCTCAATGTCCTTGAGGTTATAATGGAATGGAGTGAA
1 AAGCAGATCTCAATGTCCCTAAGGTTATAGTGGAATGGAGTGAA
18651 ACTTCAATAT
Statistics
Matches: 420, Mismatches: 71, Indels: 55
0.77 0.13 0.10
Matches are distributed among these distances:
91 24 0.06
92 75 0.18
93 142 0.34
94 26 0.06
95 3 0.01
96 3 0.01
97 26 0.06
98 50 0.12
99 71 0.17
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (93 bp):
AAGCAGATCTCAATGTCCCTAAGGTTATAGTGGAATGGAGTGAAGCACCAGATCTTATACCCCTA
GATTACAGTGGGTCGAATTAAAATAATG
Found at i:18350 original size:49 final size:47
Alignment explanation
Indices: 18213--18351 Score: 108
Period size: 49 Copynumber: 3.0 Consensus size: 47
18203 AGTGGGTCAG
*
18213 ATTAAAATAA-TGAAGCAGATCTCAATGTCCCTAAGGTTATAGT-G-GA
1 ATTAAAATAAGT-AA-CAGATCTCAATGTCCCTGAGGTTATAGTGGAGA
* * * * * * * **
18259 A-TAGAGTAAAGCACCAGATCT-TATATCCCTGCGGTTGCAGTGGATCGA
1 ATTAAAAT-AAGTAACAGATCTCAATGTCCCTGAGGTTATAGTGGA--GA
18307 ATTAAAATAAGTAACAGATCTCAATGTCCCTGAGGTTATAGTGGA
1 ATTAAAATAAGTAACAGATCTCAATGTCCCTGAGGTTATAGTGGA
18352 ATGGAGTGAA
Statistics
Matches: 66, Mismatches: 19, Indels: 13
0.67 0.19 0.13
Matches are distributed among these distances:
44 14 0.21
45 12 0.18
46 4 0.06
48 14 0.21
49 22 0.33
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (47 bp):
ATTAAAATAAGTAACAGATCTCAATGTCCCTGAGGTTATAGTGGAGA
Found at i:18493 original size:190 final size:191
Alignment explanation
Indices: 17998--18650 Score: 673
Period size: 190 Copynumber: 3.4 Consensus size: 191
17988 TAAACATCAG
* * ** * * * *
17998 ATCCTATACCCTTGAGTTGCAGTGGGTTC-GTTTAAAACAACAAAGCAAATCTTAATGTCCCTAA
1 ATCCTATAACCTTGAGTTGCAGTGGG-TCAGATTAAAACAATGAAGCAGATCTCAATGT-CTTGA
* * * * * * * *
18062 GGTTATAGTGAAATGGAGTGAAGCACCAGATCCT-TACCCCTAGA-CTATAGTGGGTCGAATTAA
64 GGTTATAATGGAATAGAGTGAAGCACCAGATCCTATATCCCTAAAGTTGTAGTGGATCGAATTAA
* * * * *
18125 AA-AAATGAAGCAGATCTCAATGTCCCTAATGTTATAATGGAATGGAATGAA---GC-AT--CAA
129 AATAAGT-AA-CAGATCTCAATGTCCCTGAGGTTATAGTGGAATGGAGTGAAGTTGCAATACCAA
** * * * * * * * *
18183 ATTTTATACCCCTAAATTACAGTGGGTCAGATTAAAATAATGAAGCAGATCTCAATGTCCCTAAG
1 ATCCTATAACCTTGAGTTGCAGTGGGTCAGATTAAAACAATGAAGCAGATCTCAATGT-CTTGAG
* * * *** *
18248 GTTATAGTGGAATAGAGTAAAGCACCAGATCTTATATCCCTGCGGTTGCAGTGGATCGAATTAAA
65 GTTATAATGGAATAGAGTGAAGCACCAGATCCTATATCCCTAAAGTTGTAGTGGATCGAATTAAA
18313 ATAAGTAACAGATCTCAATGTCCCTGAGGTTATAGTGGAATGGAGTGAAGTTGCAATACCAA
130 ATAAGTAACAGATCTCAATGTCCCTGAGGTTATAGTGGAATGGAGTGAAGTTGCAATACCAA
* *
18375 ATCCTATAACCTTGAGTTGTAGTGGGTCAGATTAAAACAATGAAGTAGATCTCAATGT-TTGAGG
1 ATCCTATAACCTTGAGTTGCAGTGGGTCAGATTAAAACAATGAAGCAGATCTCAATGTCTTGAGG
*
18439 TTACAATGGAATAGAGTGAAGCACCAGATCCTATATCCCTAAAGTTGTAGTGGATC-AGATTAAA
66 TTATAATGGAATAGAGTGAAGCACCAGATCCTATATCCCTAAAGTTGTAGTGGATCGA-ATTAAA
* * * * **
18503 ATGAGTAACAAATCTCAATGTCCCTGAGGTTACAGTGGAATGTAGTGAAGTTGCAGCACCAA
130 ATAAGTAACAGATCTCAATGTCCCTGAGGTTATAGTGGAATGGAGTGAAGTTGCAATACCAA
* * * * * *
18565 ATCCTATATCCTTGAGTTGCAGTGGGTCGGATCAAAACAACGAAACAAATCTCAATGTCCTTGAG
1 ATCCTATAACCTTGAGTTGCAGTGGGTCAGATTAAAACAATGAAGCAGATCTCAATGT-CTTGAG
*
18630 GTTATAATGGAATGGAGTGAA
65 GTTATAATGGAATAGAGTGAA
18651 ACTTCAATAT
Statistics
Matches: 390, Mismatches: 65, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
184 2 0.01
185 79 0.20
186 43 0.11
187 19 0.05
188 3 0.01
189 3 0.01
190 166 0.43
192 75 0.19
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (191 bp):
ATCCTATAACCTTGAGTTGCAGTGGGTCAGATTAAAACAATGAAGCAGATCTCAATGTCTTGAGG
TTATAATGGAATAGAGTGAAGCACCAGATCCTATATCCCTAAAGTTGTAGTGGATCGAATTAAAA
TAAGTAACAGATCTCAATGTCCCTGAGGTTATAGTGGAATGGAGTGAAGTTGCAATACCAA
Found at i:18574 original size:99 final size:99
Alignment explanation
Indices: 18187--18851 Score: 446
Period size: 99 Copynumber: 6.8 Consensus size: 99
18177 CATCAAATTT
* * * *
18187 TATACCCCTAAA-TTACAGTGGGTCAGATTAAAATAA-TGAAGCAGATCTCAATGTCCCTAAGGT
1 TATATCCCTAAAGTTGCAGTGGGTCAGATTAAAACAAGT-AA-CAGATCTCAATGTCCCTGAGGT
* * * *
18250 TATAGTGGAATAGAGT-AA-----AGCACCAGATCT
64 TACAGTGGAATGGAGTGAAGTTGCAGCACCAAATCC
*** * *
18280 TATATCCCTGCGGTTGCAGTGGATC-GAATTAAAATAAGTAACAGATCTCAATGTCCCTGAGGTT
1 TATATCCCTAAAGTTGCAGTGGGTCAG-ATTAAAACAAGTAACAGATCTCAATGTCCCTGAGGTT
* **
18344 ATAGTGGAATGGAGTGAAGTTGCAATACCAAATCC
65 ACAGTGGAATGGAGTGAAGTTGCAGCACCAAATCC
* ** * * *
18379 TATA-ACCTTGAGTTGTAGTGGGTCAGATTAAAACAA-TGAAGTAGATCTCAATGT--TTGAGGT
1 TATATCCCTAAAGTTGCAGTGGGTCAGATTAAAACAAGT-AA-CAGATCTCAATGTCCCTGAGGT
* * *
18440 TACAATGGAAT--A--G-AG-TGAAGCACCAGATCC
64 TACAGTGGAATGGAGTGAAGTTGCAGCACCAAATCC
* * ** *
18470 TATATCCCTAAAGTTGTAGTGGATCAGATTAAAATGAGTAACAAATCTCAATGTCCCTGAGGTTA
1 TATATCCCTAAAGTTGCAGTGGGTCAGATTAAAACAAGTAACAGATCTCAATGTCCCTGAGGTTA
*
18535 CAGTGGAATGTAGTGAAGTTGCAGCACCAAATCC
66 CAGTGGAATGGAGTGAAGTTGCAGCACCAAATCC
** * * * * *
18569 TATAT-CCTTGAGTTGCAGTGGGTCGGATCAAAACAACGAAACAAATCTCAATGTCCTTGAGGTT
1 TATATCCCTAAAGTTGCAGTGGGTCAGATTAAAACAA-GTAACAGATCTCAATGTCCCTGAGGTT
* * * ** ** *
18633 ATAATGGAATGGAGTGAAACTT-CAATATTAAATAC
65 ACAGTGGAATGGAGTG-AAGTTGCAGCACCAAATCC
* * * * * * * * *
18668 TATATTCCTGAAGTTACAGTGAAGT-GGATCAAAACAAGTAATAGATCTCAATATTCCTGAGGTT
1 TATATCCCTAAAGTTGCAGTG-GGTCAGATTAAAACAAGTAACAGATCTCAATGTCCCTGAGGTT
* *
18732 ACAGTGGAATGGAGTTAAGTTAC-GACACCAAATCC
65 ACAGTGGAATGGAGTGAAGTTGCAG-CACCAAATCC
** * *
18767 TATA-CCCTTAAAGTTATAGTGGGTC-GAGTTAAAACAA-CAAAAGCAAGTCTCAATGTCCCTGA
1 TATATCCC-TAAAGTTGCAGTGGGTCAGA-TTAAAACAAGTAACAG--A-TCTCAATGTCCCTGA
* * *
18829 GGTTACACTGGAACGGAGAGAAG
61 GGTTACAGTGGAATGGAGTGAAG
18852 CTTTAACACC
Statistics
Matches: 448, Mismatches: 90, Indels: 60
0.75 0.15 0.10
Matches are distributed among these distances:
91 26 0.06
92 30 0.07
93 63 0.14
94 24 0.05
95 3 0.01
97 17 0.04
98 64 0.14
99 158 0.35
100 29 0.06
101 34 0.08
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (99 bp):
TATATCCCTAAAGTTGCAGTGGGTCAGATTAAAACAAGTAACAGATCTCAATGTCCCTGAGGTTA
CAGTGGAATGGAGTGAAGTTGCAGCACCAAATCC
Found at i:18763 original size:198 final size:190
Alignment explanation
Indices: 18203--18841 Score: 586
Period size: 190 Copynumber: 3.3 Consensus size: 190
18193 CCTAAATTAC
* * * * * * * * *
18203 AGTGGGTCAGATTAAAATAATGAAGCAGATCTCAATGTCCCTAAGGTTATAGTGGAATAGAGTAA
1 AGTGGGTC-GATTAAAACAACGAAACAAATCTCAATGTCCTTGAGGTTACAATGGAATAGAGTGA
* *** * * *
18268 AGCACCAGAT-CTTATATCCCTGCGGTTGCAGTGGATC-GAATTAAAATAAGTAACAGATCTCAA
65 AGCACCAAATAC-TATATCCCTAAAGTTACAGTGAATCAG-ATCAAAATAAGTAACAGATCTCAA
* *
18331 TGTCCCTGAGGTTATAGTGGAATGGAGTGAAGTTGCAATACCAAATCCTATAACCTTGAGTTGT
128 TGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTGC-ACACCAAATCCTATAACCTTGAGTTGT
* ** *
18395 AGTGGGTCAGATTAAAACAATGAAGTAGATCTCAATGT--TTGAGGTTACAATGGAATAGAGTGA
1 AGTGGGTC-GATTAAAACAACGAAACAAATCTCAATGTCCTTGAGGTTACAATGGAATAGAGTGA
* * ** * * * *
18458 AGCACCAGATCCTATATCCCTAAAGTTGTAGTGGATCAGATTAAAATGAGTAACAAATCTCAATG
65 AGCACCAAATACTATATCCCTAAAGTTACAGTGAATCAGATCAAAATAAGTAACAGATCTCAATG
* * *
18523 TCCCTGAGGTTACAGTGGAATGTAGTGAAGTTGCAGCACCAAATCCTATATCCTTGAGTTGC
130 TCCCTGAGGTTACAGTGGAATGGAGTGAAGTTGCA-CACCAAATCCTATAACCTTGAGTTGT
* * *
18585 AGTGGGTCGGATCAAAACAACGAAACAAATCTCAATGTCCTTGAGGTTATAATGGAATGGAGTGA
1 AGTGGGTC-GATTAAAACAACGAAACAAATCTCAATGTCCTTGAGGTTACAATGGAATAGAGTG-
* ** * * * * *
18650 AACTTCAATATTAAATACTATATTCCTGAAGTTACAGTGAAGT-GGATCAAAACAAGTAATAGAT
64 AA--GC---ACCAAATACTATATCCCTAAAGTTACAGTGAA-TCAGATCAAAATAAGTAACAGAT
* * * * * *
18714 CTCAATATTCCTGAGGTTACAGTGGAATGGAGTTAAGTTACGACACCAAATCCTATACCCTTAAA
123 CTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTGC-ACACCAAATCCTATAACCTT-GA
*
18779 GTTAT
186 GTTGT
* * * *
18784 AGTGGGTCGAGTTAAAACAACAAAAGCAAGTCTCAATGTCCCTGAGGTTACACTGGAA
1 AGTGGGTCGA-TTAAAACAACGAAA-CAAATCTCAATGTCCTTGAGGTTACAATGGAA
18842 CGGAGAGAAG
Statistics
Matches: 374, Mismatches: 57, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
189 1 0.00
190 162 0.43
191 2 0.01
192 58 0.16
193 2 0.01
195 1 0.00
198 94 0.25
199 26 0.07
200 28 0.07
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (190 bp):
AGTGGGTCGATTAAAACAACGAAACAAATCTCAATGTCCTTGAGGTTACAATGGAATAGAGTGAA
GCACCAAATACTATATCCCTAAAGTTACAGTGAATCAGATCAAAATAAGTAACAGATCTCAATGT
CCCTGAGGTTACAGTGGAATGGAGTGAAGTTGCACACCAAATCCTATAACCTTGAGTTGT
Found at i:27905 original size:11 final size:11
Alignment explanation
Indices: 27889--27913 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27879 CATTATCCCT
27889 AATGCACCGAC
1 AATGCACCGAC
27900 AATGCACCGAC
1 AATGCACCGAC
27911 AAT
1 AAT
27914 ATTATACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.32, G:0.16, T:0.12
Consensus pattern (11 bp):
AATGCACCGAC
Found at i:28003 original size:18 final size:18
Alignment explanation
Indices: 27962--27995 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27952 ATGTACTAAC
*
27962 AAAT-AAAATGCAATGAA
1 AAATAAAAATACAATGAA
27979 AAATAAAAATACAATGA
1 AAATAAAAATACAATGA
27996 CAACTAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.18
Consensus pattern (18 bp):
AAATAAAAATACAATGAA
Found at i:28457 original size:21 final size:20
Alignment explanation
Indices: 28417--28458 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
28407 ATATCTTTAT
*
28417 TCTTCTTATTTTCTTCCTTC
1 TCTTCTTATTTCCTTCCTTC
28437 TCTTCTTTAATTTCCTT-CTTC
1 TCTTC-TT-ATTTCCTTCCTTC
28458 T
1 T
28459 TCTTAGGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (20 bp):
TCTTCTTATTTCCTTCCTTC
Found at i:33412 original size:14 final size:15
Alignment explanation
Indices: 33393--33426 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
33383 CTGAACCTAC
33393 TGAATTTC-ATTCAT
1 TGAATTTCTATTCAT
33407 TGAA-TTCTATTCAT
1 TGAATTTCTATTCAT
33421 TGAATT
1 TGAATT
33427 CTTCTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 14 0.78
15 1 0.06
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (15 bp):
TGAATTTCTATTCAT
Found at i:33427 original size:14 final size:14
Alignment explanation
Indices: 33401--33428 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33391 ACTGAATTTC
33401 ATTCATTGAATTCT
1 ATTCATTGAATTCT
33415 ATTCATTGAATTCT
1 ATTCATTGAATTCT
33429 TCTATAATAA
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:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
ATTCATTGAATTCT
Found at i:34673 original size:25 final size:24
Alignment explanation
Indices: 34645--34691 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
34635 AGCTAATAAT
34645 AATT-CTCTTTGAGTTTTTCTTTAAG
1 AATTGCTC-TTGAGTTTTT-TTTAAG
34670 AATTGCTCTTGAGTTTTTTTTA
1 AATTGCTCTTGAGTTTTTTTTA
34692 GAAGTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.19
25 14 0.67
26 3 0.14
ACGTcount: A:0.19, C:0.11, G:0.13, T:0.57
Consensus pattern (24 bp):
AATTGCTCTTGAGTTTTTTTTAAG
Found at i:37015 original size:17 final size:15
Alignment explanation
Indices: 36995--37034 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
36985 TGTTTGCAAT
*
36995 TTTAATTTAGTCCTTTA
1 TTTAATTTAG-CC-TCA
37012 TTTAATTTAGCCTCA
1 TTTAATTTAGCCTCA
37027 TTTAATTT
1 TTTAATTT
37035 TTGTTTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.57
Consensus pattern (15 bp):
TTTAATTTAGCCTCA
Found at i:37091 original size:25 final size:24
Alignment explanation
Indices: 37063--37128 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
37053 CCTTACTATC
*
37063 TTATTTTTATTTAATTTAATCCCTT
1 TTATTTTTATTT-ATTTAATCCATT
* *
37088 TTATTTTTTTTGTATTT-ATTCATT
1 TTATTTTTATT-TATTTAATCCATT
*
37112 TAATTTTTATTTATTTA
1 TTATTTTTATTTATTTA
37129 TTTATTTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
23 5 0.15
24 14 0.41
25 14 0.41
26 1 0.03
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.70
Consensus pattern (24 bp):
TTATTTTTATTTATTTAATCCATT
Found at i:37107 original size:4 final size:4
Alignment explanation
Indices: 37087--37135 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
37077 TTTAATCCCT
* *
37087 TTTA TTT- TTT- TTGTA TTTA TTCA TTTA ATT- TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
37133 TTT
1 TTT
37136 TGTTTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 7 0.18
4 29 0.76
5 2 0.05
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:37112 original size:19 final size:18
Alignment explanation
Indices: 37088--37138 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
37078 TTAATCCCTT
*
37088 TTATTTTTTTTGTATTTA
1 TTATTTATTTTGTATTTA
37106 TTCATTTAATTTT-TATTTA
1 TT-ATTT-ATTTTGTATTTA
37125 TTTATTTATTTTGT
1 -TTATTTATTTTGT
37139 TTTGTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.25
19 15 0.54
20 6 0.21
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.75
Consensus pattern (18 bp):
TTATTTATTTTGTATTTA
Found at i:37141 original size:23 final size:23
Alignment explanation
Indices: 37063--37165 Score: 68
Period size: 23 Copynumber: 4.4 Consensus size: 23
37053 CCTTACTATC
***
37063 TTATTTTTATTTAATTTAATCCCTT
1 TTATTTTTATTT-ATTT-ATTTATT
* *
37088 TTATTTTTTTTGTATTTATTCATT
1 TTATTTTTATT-TATTTATTTATT
*
37112 TAATTTTTATTTATTTATTTATT
1 TTATTTTTATTTATTTATTTATT
* *
37135 TTGTTTTGT-TTT-TTT-TTTGTT
1 TTATTTT-TATTTATTTATTTATT
*
37156 TTTTTTTTAT
1 TTATTTTTAT
37166 GTCATTTTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.02
21 12 0.18
22 3 0.05
23 19 0.29
24 15 0.23
25 14 0.22
26 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (23 bp):
TTATTTTTATTTATTTATTTATT
Found at i:37152 original size:11 final size:11
Alignment explanation
Indices: 37133--37163 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
37123 TATTTATTTA
*
37133 TTTTGTTTTGT
1 TTTTTTTTTGT
37144 TTTTTTTTTGT
1 TTTTTTTTTGT
37155 TTTTTTTTT
1 TTTTTTTTT
37164 ATGTCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:37154 original size:16 final size:15
Alignment explanation
Indices: 37133--37163 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
37123 TATTTATTTA
37133 TTTTGTTTTGTTTTTT
1 TTTTGTTTT-TTTTTT
37149 TTTTGTTTTTTTTTT
1 TTTTGTTTTTTTTTT
37164 ATGTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTGTTTTTTTTTT
Found at i:37330 original size:24 final size:23
Alignment explanation
Indices: 37303--37348 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
37293 TCTTTATCAT
* *
37303 TATCATTATTATTATTTTATTTGC
1 TATCACTACTATT-TTTTATTTGC
*
37327 TATCACTACTGTTTTTTATTTG
1 TATCACTACTATTTTTTATTTG
37349 TTTGTGTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.61
Consensus pattern (23 bp):
TATCACTACTATTTTTTATTTGC
Found at i:49980 original size:80 final size:79
Alignment explanation
Indices: 49848--50003 Score: 267
Period size: 80 Copynumber: 2.0 Consensus size: 79
49838 TACAAGCACT
49848 AATTTCATTTTAACTCTTGCAAGGAAGCCAATGAATCATGTCTCTTCATTAGGATTTGATGTAAT
1 AATTTCATTTTAACTCTTGCAAGGAAGCCAATGAATCATGTCTCTTCATTAGGATTTGATGTAAT
49913 TGAAAAGGCATCGC
66 TGAAAAGGCATCGC
* * * *
49927 AATTTCATTTTTAACTCTTGTAGGGAAGCCAATGAGTCATGTCTCTTCATTAGGATTTGATGTAG
1 AATTTCA-TTTTAACTCTTGCAAGGAAGCCAATGAATCATGTCTCTTCATTAGGATTTGATGTAA
49992 TTGAAAAGGCAT
65 TTGAAAAGGCAT
50004 GATATTTCTC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 7 0.10
80 65 0.90
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (79 bp):
AATTTCATTTTAACTCTTGCAAGGAAGCCAATGAATCATGTCTCTTCATTAGGATTTGATGTAAT
TGAAAAGGCATCGC
Found at i:50070 original size:79 final size:78
Alignment explanation
Indices: 49966--50123 Score: 253
Period size: 79 Copynumber: 2.0 Consensus size: 78
49956 CAATGAGTCA
* ** *
49966 TGTCTCTTCATTAGGATTTGATGTAGTTGAAAAGGCATGATATTTCTCCTTAATGAAGACTTATT
1 TGTCTCTTCATTAGGATCTGATGTAGAGGAAAAGGCATGACATTTCTCCTTAATGAAGACTTA-T
*
50031 GTATCCTTAATGTG
65 GTAACCTTAATGTG
*
50045 TGTCTCTTCATTGGGATCTGATGTAGAGGAAAAGGCATGACATTTCTCCTTAATGAAGACTTATG
1 TGTCTCTTCATTAGGATCTGATGTAGAGGAAAAGGCATGACATTTCTCCTTAATGAAGACTTATG
50110 TAACCTTAATGTG
66 TAACCTTAATGTG
50123 T
1 T
50124 TTATTGATTG
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 15 0.21
79 58 0.79
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (78 bp):
TGTCTCTTCATTAGGATCTGATGTAGAGGAAAAGGCATGACATTTCTCCTTAATGAAGACTTATG
TAACCTTAATGTG
Found at i:50386 original size:25 final size:27
Alignment explanation
Indices: 50358--50407 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
50348 TTTAAGCATT
*
50358 AAACAATA-ACTTAA-AACACTCATAA
1 AAACAACATACTTAATAACACTCATAA
*
50383 AAACAACATATTTAATAACACTCAT
1 AAACAACATACTTAATAACACTCAT
50408 GCACACGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (27 bp):
AAACAACATACTTAATAACACTCATAA
Found at i:50597 original size:48 final size:46
Alignment explanation
Indices: 50540--50672 Score: 118
Period size: 39 Copynumber: 2.9 Consensus size: 46
50530 CAAGACATTT
* *
50540 AACATAGATGCATTTAACAAACAAAACATTCAATTATGCAAATTACTA
1 AACAAAGATGCATTTAA-AAACAAAACATT-AATGATGCAAATTACTA
* *
50588 AACAAAGATGCA--T-AAAAC---AC-TTAATGATGCAGATTATTA
1 AACAAAGATGCATTTAAAAACAAAACATTAATGATGCAAATTACTA
* *
50627 AACAAAGATGCATTTAAAAAAAAAAACACTTAATGAAGCATAATTA
1 AACAAAGATGCATTT-AAAAACAAAACA-TTAATGATGCA-AATTA
50673 AACAACTTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 19
0.72 0.07 0.20
Matches are distributed among these distances:
39 26 0.38
40 2 0.03
41 3 0.04
43 4 0.06
44 4 0.06
45 1 0.01
46 3 0.04
48 21 0.31
49 4 0.06
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.25
Consensus pattern (46 bp):
AACAAAGATGCATTTAAAAACAAAACATTAATGATGCAAATTACTA
Found at i:53365 original size:30 final size:29
Alignment explanation
Indices: 53318--53500 Score: 213
Period size: 30 Copynumber: 6.1 Consensus size: 29
53308 ATTTTTTGCT
*
53318 CCCCAAAGTTTTCAAAAATTCAAATTTGAC
1 CCCCAAA-TTTTCAAAAATTCAAATTTAAC
* * *
53348 CCCCGAATTTTCTAAAAATTAAAATTTCAC
1 CCCCAAATTTTC-AAAAATTCAAATTTAAC
* *
53378 CACCAAATTTTCCAAAAATTCAAATTTAAT
1 CCCCAAATTTT-CAAAAATTCAAATTTAAC
53408 CCCCAAAGTTTTCAAAAATTCAAATTTAAC
1 CCCCAAA-TTTTCAAAAATTCAAATTTAAC
**
53438 TCCTTAAATTTTCAAAAATTCAAATTTAAC
1 -CCCCAAATTTTCAAAAATTCAAATTTAAC
* * *
53468 CCCTAAAGTTTTCAAAAATTAAAATCTAAC
1 CCCCAAA-TTTTCAAAAATTCAAATTTAAC
53498 CCC
1 CCC
53501 GTTTTAATAT
Statistics
Matches: 133, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
29 11 0.08
30 112 0.84
31 10 0.08
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (29 bp):
CCCCAAATTTTCAAAAATTCAAATTTAAC
Found at i:53417 original size:90 final size:90
Alignment explanation
Indices: 53317--53500 Score: 241
Period size: 90 Copynumber: 2.1 Consensus size: 90
53307 CATTTTTTGC
* * *
53317 TCCCCAAAGTTTTCAAAAATTCAAATTTGAC-CCCCGAATTTTCTAAAAATTAAAATTTCACCAC
1 TCCCCAAAGTTTTCAAAAATTCAAATTTAACTCCCCAAATTTTC-AAAAATTAAAATTTAACC-C
* *
53381 C-AAA-TTTTCCAAAAATTCAAATTTAA
64 CTAAAGTTTT-CAAAAATTAAAATCTAA
** *
53407 TCCCCAAAGTTTTCAAAAATTCAAATTTAACTCCTTAAATTTTCAAAAATTCAAATTTAACCCCT
1 TCCCCAAAGTTTTCAAAAATTCAAATTTAACTCCCCAAATTTTCAAAAATTAAAATTTAACCCCT
53472 AAAGTTTTCAAAAATTAAAATCTAA
66 AAAGTTTTCAAAAATTAAAATCTAA
53497 -CCCC
1 TCCCC
53501 GTTTTAATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
89 6 0.07
90 64 0.77
91 13 0.16
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.33
Consensus pattern (90 bp):
TCCCCAAAGTTTTCAAAAATTCAAATTTAACTCCCCAAATTTTCAAAAATTAAAATTTAACCCCT
AAAGTTTTCAAAAATTAAAATCTAA
Found at i:65216 original size:50 final size:50
Alignment explanation
Indices: 65152--65267 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 50
65142 ATATTTTACC
* * *
65152 CCTAACGCTATAGAGGAACA-AATTGAAACCGCAAAGGCAAATCTCATACA
1 CCTAAAGCTGTAGAGGAACAGAA-TGAAACAGCAAAGGCAAATCTCATACA
** * * * *
65202 CCTAAAGCTGTAGAGGGGCAGAATGAAGCAGCAATGGCAAATCTCATTCT
1 CCTAAAGCTGTAGAGGAACAGAATGAAACAGCAAAGGCAAATCTCATACA
*
65252 CCTAAAGCAGTAGAGG
1 CCTAAAGCTGTAGAGG
65268 GGCAGATTGA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 53 0.96
51 2 0.04
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (50 bp):
CCTAAAGCTGTAGAGGAACAGAATGAAACAGCAAAGGCAAATCTCATACA
Found at i:65295 original size:50 final size:50
Alignment explanation
Indices: 65182--65279 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
65172 AATTGAAACC
* *
65182 GCAAAGGCAAATCTCATACACCTAAAGCTGTAGAGGGGCAGAATGAAGCA
1 GCAATGGCAAATCTCATACACCTAAAGCAGTAGAGGGGCAGAATGAAGCA
* * *
65232 GCAATGGCAAATCTCATTCTCCTAAAGCAGTAGAGGGGCAGATTGAAG
1 GCAATGGCAAATCTCATACACCTAAAGCAGTAGAGGGGCAGAATGAAG
65280 TCACAAGGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (50 bp):
GCAATGGCAAATCTCATACACCTAAAGCAGTAGAGGGGCAGAATGAAGCA
Found at i:65433 original size:80 final size:80
Alignment explanation
Indices: 65335--65527 Score: 352
Period size: 80 Copynumber: 2.4 Consensus size: 80
65325 TTACAACCTT
* *
65335 CAATCTCTTATCCTAACCAGAGGGCAGATTGAAGTCCATCCAATCTTTTACCCTAATCAGAGGGC
1 CAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGAGGGC
65400 AGATTGAAGACAATC
66 AGATTGAAGACAATC
65415 CAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGAGGGC
1 CAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGAGGGC
65480 AGATTGAAGACAATC
66 AGATTGAAGACAATC
65495 CAATCTCTTACCCTAACCATG-GGGCAGATTGAA
1 CAATCTCTTACCCTAACCA-GAGGGCAGATTGAA
65528 AATAATTGAA
Statistics
Matches: 110, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (80 bp):
CAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCTAATCAGAGGGC
AGATTGAAGACAATC
Found at i:65557 original size:40 final size:40
Alignment explanation
Indices: 65335--65553 Score: 305
Period size: 40 Copynumber: 5.5 Consensus size: 40
65325 TTACAACCTT
* * *
65335 CAATCTCTTATCCTAACCAGAGGGCAGATTGAAGTCCATC
1 CAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAATC
* *
65375 CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAATC
1 CAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAATC
*
65415 CAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACCATC
1 CAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAATC
* *
65455 CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAATC
1 CAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAATC
* * *
65495 CAATCTCTTACCCTAACCATG-GGGCAGATTGAAAATAATT
1 CAATCTCTTACCCTAACCA-GAGGGCAGATTGAAGACAATC
* *
65535 GAATCTCTTACCCTGACCA
1 CAATCTCTTACCCTAACCA
65554 TGGGATGGGT
Statistics
Matches: 160, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 159 0.99
41 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (40 bp):
CAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAATC
Found at i:65590 original size:120 final size:120
Alignment explanation
Indices: 65346--65586 Score: 292
Period size: 120 Copynumber: 2.0 Consensus size: 120
65336 AATCTCTTAT
* * * * *
65346 CCTAACCAGAGGGCAGATTGAAGTCCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGAC
1 CCTAACCAGAGGGCAGATTGAAGACAATCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAAAC
* *
65411 AATCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACCATCCAATCTTTTAC
66 AATCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAATCCAATATTTTAC
*
65466 CCTAATCAGAGGGCAGATTGAAGACAATCCAATCTCTTACCCTAACCATG-GGGCAGATTGAAAA
1 CCTAACCAGAGGGCAGATTGAAGACAATCCAATCTCTTACCCTAACCA-GAGGGCAGATTGAAAA
* ** * * * *
65530 TAATTGAATCTCTTACCCTGACCA-TGGG-ATGGGTTGAA-ACAATTCAATATTTTAC
65 CAATCCAATCTCTTACCCTAACCAGAGGGCA--GATTGAAGACAATCCAATATTTTAC
65585 CC
1 CC
65587 CTAAAGTTAT
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
118 1 0.01
119 19 0.18
120 82 0.80
121 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (120 bp):
CCTAACCAGAGGGCAGATTGAAGACAATCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAAAC
AATCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAATCCAATATTTTAC
Found at i:65659 original size:50 final size:50
Alignment explanation
Indices: 65582--65741 Score: 268
Period size: 50 Copynumber: 3.2 Consensus size: 50
65572 TTCAATATTT
* *
65582 TACCCCTAAAGTTATAGAGGGCCAGATT-AATGCTACAAAAGCAAATCTTA
1 TACCCCTAAAGTTACAGAGGGGCAGATTGAA-GCTACAAAAGCAAATCTTA
*
65632 TACCCCTAAAGTTACAGAGGGGTAGATTGAAGCTACAAAAGCAAATCTTA
1 TACCCCTAAAGTTACAGAGGGGCAGATTGAAGCTACAAAAGCAAATCTTA
65682 TACCCCTAAAGTTACAGAGGGGCAGATTGAAGCTACAAAAGCAAATCTTA
1 TACCCCTAAAGTTACAGAGGGGCAGATTGAAGCTACAAAAGCAAATCTTA
*
65732 TACCCTTAAA
1 TACCCCTAAA
65742 AGTAATAGAG
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
50 102 0.98
51 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (50 bp):
TACCCCTAAAGTTACAGAGGGGCAGATTGAAGCTACAAAAGCAAATCTTA
Found at i:67519 original size:30 final size:30
Alignment explanation
Indices: 67481--67651 Score: 186
Period size: 30 Copynumber: 5.7 Consensus size: 30
67471 CAAAGTTTTT
* *
67481 AAAAATTCAAATTTGACCCCCGAATTTTCT
1 AAAAATTCAAATTTGACCCCCAAATTTTCC
* * * *
67511 AAAGATTCAAATTTCACCACCAAAATTTCC
1 AAAAATTCAAATTTGACCCCCAAATTTTCC
* *
67541 AAAAATTCAAATTTAATCCCCAAAGTTTT-C
1 AAAAATTCAAATTTGACCCCCAAA-TTTTCC
67571 AAAAATTCAAATTTGACCCCCTAAATTTTCC
1 AAAAATTCAAATTTGACCCCC-AAATTTTCC
*
67602 AAAAATTCAAA-TTGATCCCCTAAAGTTTT-C
1 AAAAATTCAAATTTGA-CCCCCAAA-TTTTCC
* *
67632 AAAAATTAAAATTTAACCCC
1 AAAAATTCAAATTTGACCCC
67652 GTTTTAATAT
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
30 90 0.76
31 29 0.24
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.31
Consensus pattern (30 bp):
AAAAATTCAAATTTGACCCCCAAATTTTCC
Found at i:67611 original size:61 final size:60
Alignment explanation
Indices: 67481--67651 Score: 220
Period size: 61 Copynumber: 2.8 Consensus size: 60
67471 CAAAGTTTTT
* * * * *
67481 AAAAATTCAAATTTGACCCCCGAA-TTTTCTAAAGATTCAAATTTCACCACCAAAATTTCC
1 AAAAATTCAAATTTGATCCCCAAAGTTTTC-AAAAATTCAAATTTAACCCCCAAAATTTCC
* * *
67541 AAAAATTCAAATTTAATCCCCAAAGTTTTCAAAAATTCAAATTTGACCCCCTAAATTTTCC
1 AAAAATTCAAATTTGATCCCCAAAGTTTTCAAAAATTCAAATTTAACCCCC-AAAATTTCC
*
67602 AAAAATTCAAA-TTGATCCCCTAAAGTTTTCAAAAATTAAAATTTAACCCC
1 AAAAATTCAAATTTGATCCCC-AAAGTTTTCAAAAATTCAAATTTAACCCC
67652 GTTTTAATAT
Statistics
Matches: 98, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
60 47 0.48
61 51 0.52
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.31
Consensus pattern (60 bp):
AAAAATTCAAATTTGATCCCCAAAGTTTTCAAAAATTCAAATTTAACCCCCAAAATTTCC
Found at i:69160 original size:11 final size:10
Alignment explanation
Indices: 69141--69165 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
69131 TTCTAAAATT
69141 GTTTTAAAAA
1 GTTTTAAAAA
69151 GTTTTAAAAA
1 GTTTTAAAAA
69161 GTTTT
1 GTTTT
69166 GGGGTAAAGA
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:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (10 bp):
GTTTTAAAAA
Found at i:88644 original size:12 final size:12
Alignment explanation
Indices: 88616--88658 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
88606 TTAGTCACTT
* *
88616 GAAAAAAAAAAA
1 GAAAGAAAAGAA
88628 G-AAGAAAAGAA
1 GAAAGAAAAGAA
88639 GAAAGAAAAGAA
1 GAAAGAAAAGAA
88651 -AAAGAAAA
1 GAAAGAAAA
88659 ATAAATTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 17 0.61
12 11 0.39
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
GAAAGAAAAGAA
Found at i:95083 original size:187 final size:187
Alignment explanation
Indices: 94763--95111 Score: 680
Period size: 187 Copynumber: 1.9 Consensus size: 187
94753 AGCCCAAGCA
*
94763 TCAAGGAACAAAACGAGACCATTAACCTGGTCACATTTACTTAATAATGACATTGCAATTTTTGA
1 TCAACGAACAAAACGAGACCATTAACCTGGTCACATTTACTTAATAATGACATTGCAATTTTTGA
94828 TGTTTACTTTTTGTCTTTTGTTTACTTTTAATTAGTTTTCTTTAGTTTTACGCAGAAATAGAATA
66 TGTTTACTTTTTGTCTTTTGTTTACTTTTAATTAGTTTTCTTTAGTTTTACGCAGAAATAGAATA
94893 TCTCCTTTTTGTCGACGCACACAAAAGCATGACTTGTCGATGCATTTCTTTGATGAC
131 TCTCCTTTTTGTCGACGCACACAAAAGCATGACTTGTCGATGCATTTCTTTGATGAC
94950 TCAACGAACAAAACGAGACCATTAACCTGGTCACATTTACTTAATAATGACATTGCAATTTTTGA
1 TCAACGAACAAAACGAGACCATTAACCTGGTCACATTTACTTAATAATGACATTGCAATTTTTGA
95015 TGTTTACTTTTTGTCTTTTGTTTACTTTTAATTAGTTTTCTTTAGTTTTACGCAGAAATAGAATA
66 TGTTTACTTTTTGTCTTTTGTTTACTTTTAATTAGTTTTCTTTAGTTTTACGCAGAAATAGAATA
*
95080 TCTCCTTTTTGTCGATGCACACAAAAGCATGA
131 TCTCCTTTTTGTCGACGCACACAAAAGCATGA
95112 ATTGATTCAC
Statistics
Matches: 160, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
187 160 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (187 bp):
TCAACGAACAAAACGAGACCATTAACCTGGTCACATTTACTTAATAATGACATTGCAATTTTTGA
TGTTTACTTTTTGTCTTTTGTTTACTTTTAATTAGTTTTCTTTAGTTTTACGCAGAAATAGAATA
TCTCCTTTTTGTCGACGCACACAAAAGCATGACTTGTCGATGCATTTCTTTGATGAC
Found at i:102044 original size:2 final size:2
Alignment explanation
Indices: 102037--102062 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
102027 GTGTACTTTG
102037 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
102063 GTTATCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113195 original size:8 final size:8
Alignment explanation
Indices: 113182--113214 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
113172 GGAAAGAACT
*
113182 TGAGAGGA
1 TGAGAGAA
113190 TGAGAGAA
1 TGAGAGAA
113198 TGAGAGAA
1 TGAGAGAA
113206 TGA-AGAA
1 TGAGAGAA
113213 TG
1 TG
113215 TTGAGTGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.45, C:0.00, G:0.39, T:0.15
Consensus pattern (8 bp):
TGAGAGAA
Found at i:121522 original size:21 final size:21
Alignment explanation
Indices: 121488--121531 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
121478 ACATGTTTTC
* *
121488 TTACTCATGATTCTTTTGTTT
1 TTACTCATGATTCTGTTCTTT
**
121509 TTACTCATTTTTCTGTTCTTT
1 TTACTCATGATTCTGTTCTTT
121530 TT
1 TT
121532 GATTTTTCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.07, T:0.66
Consensus pattern (21 bp):
TTACTCATGATTCTGTTCTTT
Found at i:121544 original size:17 final size:18
Alignment explanation
Indices: 121515--121549 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
121505 GTTTTTACTC
121515 ATTTTTCTGTTCTTTTTG
1 ATTTTTCTGTTCTTTTTG
121533 ATTTTTCT-TTCTTTTTG
1 ATTTTTCTGTTCTTTTTG
121550 GCTAAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.06, C:0.11, G:0.09, T:0.74
Consensus pattern (18 bp):
ATTTTTCTGTTCTTTTTG
Found at i:124465 original size:22 final size:22
Alignment explanation
Indices: 124440--124483 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
124430 ATTCTCATAG
124440 TAAGCTCGTTATTGTTCAAGTT
1 TAAGCTCGTTATTGTTCAAGTT
124462 TAAGCTCGTTATTGTTCAAGTT
1 TAAGCTCGTTATTGTTCAAGTT
124484 AATGGTGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (22 bp):
TAAGCTCGTTATTGTTCAAGTT
Found at i:128181 original size:39 final size:39
Alignment explanation
Indices: 128123--128200 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
128113 CATTCCCACT
*
128123 TAAATGACTTTTTGAGGTTGTCAGGCCTAGTGTTTGTTC
1 TAAATGACTTTTAGAGGTTGTCAGGCCTAGTGTTTGTTC
128162 TAAATGACTTTCTAG-GGTTGTCAGGCCTAGTGTTTGTTC
1 TAAATGACTTT-TAGAGGTTGTCAGGCCTAGTGTTTGTTC
128201 GATGCTCTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
39 35 0.95
40 2 0.05
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.42
Consensus pattern (39 bp):
TAAATGACTTTTAGAGGTTGTCAGGCCTAGTGTTTGTTC
Found at i:133070 original size:21 final size:21
Alignment explanation
Indices: 133036--133094 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
133026 ATATTTTTTC
**
133036 TTACTCATGATTCTTTTGTTT
1 TTACTCATTTTTCTTTTGTTT
* *
133057 TTACTCATTTTTCTATTCTTT
1 TTACTCATTTTTCTTTTGTTT
133078 TT--T-ATTTTTC-TTTGTTT
1 TTACTCATTTTTCTTTTGTTT
133095 CTTTCTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 5 0.16
18 7 0.22
19 1 0.03
21 19 0.59
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.69
Consensus pattern (21 bp):
TTACTCATTTTTCTTTTGTTT
Found at i:152370 original size:6 final size:6
Alignment explanation
Indices: 152340--152389 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
152330 TTAGTAACTT
* *
152340 GAAAAA CAAAAA -AAAAA -AAAGA GAAAAA GAAGAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAA-AAA GAAAAA GAAAAA
152387 GAA
1 GAA
152390 TAAATTGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
5 9 0.23
6 24 0.62
7 6 0.15
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:157352 original size:65 final size:65
Alignment explanation
Indices: 157276--157402 Score: 227
Period size: 65 Copynumber: 2.0 Consensus size: 65
157266 TTTATGTTTA
157276 TAGATGCAATTAATTCTTCTTACTTAACTTCTAATTTTTACTAATTTGCTTACTTTCTTGTTTTG
1 TAGATGCAATTAATTCTTCTTACTTAACTTCTAATTTTTACTAATTTGCTTACTTTCTTGTTTTG
* * *
157341 TAGATGCAATTAATTTTTCTTACTTAACTTTTACTTTTTACTAATTTGCTTACTTTCTTGTT
1 TAGATGCAATTAATTCTTCTTACTTAACTTCTAATTTTTACTAATTTGCTTACTTTCTTGTT
157403 GTTAACTTCT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.55
Consensus pattern (65 bp):
TAGATGCAATTAATTCTTCTTACTTAACTTCTAATTTTTACTAATTTGCTTACTTTCTTGTTTTG
Found at i:167781 original size:21 final size:21
Alignment explanation
Indices: 167757--167796 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
167747 CATGTCTTAA
167757 ATTAATAT-TTAAACCTATTTC
1 ATTAATATATTAAA-CTATTTC
*
167778 ATTAATTTATTAAACTATT
1 ATTAATATATTAAACTATT
167797 ACTCGGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAATATATTAAACTATTTC
Found at i:177379 original size:18 final size:17
Alignment explanation
Indices: 177354--177387 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
177344 TATTCTATTT
177354 CTAACTTTTATTGATTA
1 CTAACTTTTATTGATTA
*
177371 CTAATCTTTTGTTGATT
1 CTAA-CTTTTATTGATT
177388 TTCTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTAACTTTTATTGATTA
Found at i:184725 original size:15 final size:15
Alignment explanation
Indices: 184690--184756 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
184680 TGAGGGTGAT
184690 GAAGAAAAAGAGAAAAGA
1 GAAG-AAAAG-GAAAA-A
184708 GAAGACAAAGG-AAAA
1 GAAGA-AAAGGAAAAA
*
184723 GAAGAGAAGGAAAAA
1 GAAGAAAAGGAAAAA
*
184738 GAAGAAGAA-GAAGAA
1 GAAGAA-AAGGAAAAA
184753 GAAG
1 GAAG
184757 TTGTCTCGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 4 0.09
15 24 0.56
16 5 0.12
17 2 0.05
18 8 0.19
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.00
Consensus pattern (15 bp):
GAAGAAAAGGAAAAA
Found at i:188609 original size:23 final size:23
Alignment explanation
Indices: 188577--188625 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
188567 CACAACACTT
* *
188577 TTTATTAAAAGAAAATACCATGA
1 TTTATAAAAAGAAAAGACCATGA
*
188600 TTTATAAAAATAAAAGACCATGA
1 TTTATAAAAAGAAAAGACCATGA
188623 TTT
1 TTT
188626 GTTAGTAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (23 bp):
TTTATAAAAAGAAAAGACCATGA
Found at i:190613 original size:30 final size:29
Alignment explanation
Indices: 190513--190687 Score: 110
Period size: 30 Copynumber: 5.9 Consensus size: 29
190503 TTTGGAGGAC
* **
190513 AAATCTAAATTTTTGGAATGTTTGGGGGTT
1 AAATCTAAATTTTTGGAAAG-TTCAGGGTT
* * * *
190543 AAATTTGAATTTTT-AAGAAGTAT-GGGGATT
1 AAATCTAAATTTTTGGA-AAGT-TCAGGG-TT
* *
190573 AAAT-TCAAATTTTTGGGAAGTTCAAGGGTC
1 AAATCT-AAATTTTTGGAAAGTTC-AGGGTT
*
190603 AAATCTAAATTTTTGGAAAGGTT-GGGGTT
1 AAATCTAAATTTTTGGAAA-GTTCAGGGTT
* *
190632 AAAAC-ATAATTTTTAGAAAGTTCGAGGGTT
1 AAATCTA-AATTTTTGGAAAGTTC-AGGGTT
*
190662 AAATCTAAATTTTTGGATAGTT-AGGG
1 AAATCTAAATTTTTGGAAAGTTCAGGG
190688 GGTCAAAGCA
Statistics
Matches: 114, Mismatches: 18, Indels: 28
0.71 0.11 0.17
Matches are distributed among these distances:
28 8 0.07
29 27 0.24
30 71 0.62
31 8 0.07
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (29 bp):
AAATCTAAATTTTTGGAAAGTTCAGGGTT
Found at i:190653 original size:59 final size:59
Alignment explanation
Indices: 190580--190706 Score: 166
Period size: 59 Copynumber: 2.1 Consensus size: 59
190570 ATTAAATTCA
* * *
190580 AATTTTTGGGAAGTTCAAGGGTCAAATCTAAATTTTTGGAAAGGTT-GGGGTTAAAACAT
1 AATTTTTAGAAAGTTCAAGGGTCAAATCTAAATTTTTGGAAA-GTTAGGGGTCAAAACAT
* * * *
190639 AATTTTTAGAAAGTTCGAGGGTTAAATCTAAATTTTTGGATAGTTAGGGGGTCAAAGCAT
1 AATTTTTAGAAAGTTCAAGGGTCAAATCTAAATTTTTGGAAAGTTA-GGGGTCAAAACAT
190699 AATTTTTA
1 AATTTTTA
190707 AATAAAACAG
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
58 3 0.05
59 37 0.63
60 19 0.32
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (59 bp):
AATTTTTAGAAAGTTCAAGGGTCAAATCTAAATTTTTGGAAAGTTAGGGGTCAAAACAT
Found at i:192599 original size:112 final size:115
Alignment explanation
Indices: 192375--193287 Score: 546
Period size: 124 Copynumber: 7.5 Consensus size: 115
192365 AAAGTTTCAC
** * * * *
192375 TCACATTTGAGCTTTGCTTCATTGTTTTGGTCCACTTCTCTGTATCTTATCAGGAAGATGATCGC
1 TCACATTTGAGCTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGC
* * *
192440 TTTATTGTTTCGATTCACTTCTCTGTATCTCATAAGGAGGA-GAGGGG-T-
66 TTCATTGTTTTGATTCACTTCTCTGTATCTCATAAGGAAGATG-GGGGTTA
* *
192488 TCACA-TTGAGTTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATTAGGAAGATGATCGC
1 TCACATTTGAGCTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGC
* * *
192552 TTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTTA
66 TTCATTGTTTTGATTCACTTCTCTGTATCTCATAAGGAAGAT--GGG---G--G--TTA
** * * *
192611 CTCACATTTGAGCTTCGTTTCATTATTTTGGTTTATTTCTCTTTATCTCATCAGGAAGATGATCG
1 -TCACATTTGAGCTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCG
** * * *
192676 CTTCATCATTTTGATTCACTTCTCTATATCTTATTAGGAAGATGGGGGCTTGAA
65 CTTCATTGTTTTGATTCACTTCTCTGTATCTCATAAGGAAGATGGGGG-TT--A
* * * * *
192730 GTTTCACTCACATTAAGGTTCGCTTCCTTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGAT
1 ---TCA--CA-TTTGAGCTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGAT
* ** ** * *
192795 GATTGCTTCATCATTTTGACCCACTTCTCTATATCTCATCAGGAAGATAGGGGTTTGAAGTTTCA
60 GATCGCTTCATTGTTTTGATTCACTTCTCTGTATCTCATAAGGAAGAT--GGG---G--G-TT-A
* * * * ** * * *
192860 CTCACA-TTGAGCTTCGCTTCATTATTTTGATACACTTCTCTGTATCTTGTTAGAAAGATGACCG
1 -TCACATTTGAGCTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCG
** *
192924 CTTCATCATTTTGATCCACTTCTCTGTATCTCATCAA-GAAGATGGGGTTTAAAGTTTCA
65 CTTCATTGTTTTGATTCACTTCTCTGTATCTCAT-AAGGAAGATGGGG------G-TT-A
* ** * *
192983 CTCACA-TTGAGTTTTGCTTCATTATTTTTGTTCGCTTCTCTATATCTCATCAGGAAGATGATCG
1 -TCACATTTGAGCTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCG
** * *
193047 CTTCATCATTTTGATTCACTTCTCTATATCTCATCAGGAAGATGGGGGCTTGAA
65 CTTCATTGTTTTGATTCACTTCTCTGTATCTCATAAGGAAGATGGGGG-TT--A
* * ** * * * *
193101 GTTTCACTCACATTAAGCTTTGCTTCCTTATTTTGGTTCACTTCTCTGTATGTCATTAGGAAGAT
1 ---TCA--CA-TTTGAGCTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGAT
** * * * * * *
193166 GATCGCTTCATCATATTGATCCACTTCTCTATATCACATTAGGATGATGGGGATTTGAAGTTTCA
60 GATCGCTTCATTGTTTTGATTCACTTCTCTGTATCTCATAAGGAAGAT-GGG----G--G-TT-A
** * *
193231 CTCACA-TTGAGCTTCGTTTCATTATTTTGGTCCACTTCTTTATATCTCATCAGGAAG
1 -TCACATTTGAGCTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAG
193288 GTGACTGCCA
Statistics
Matches: 648, Mismatches: 104, Indels: 85
0.77 0.12 0.10
Matches are distributed among these distances:
112 86 0.13
113 5 0.01
114 2 0.00
115 1 0.00
117 6 0.01
118 2 0.00
119 3 0.00
120 4 0.01
121 3 0.00
122 7 0.01
123 107 0.17
124 308 0.48
125 91 0.14
126 7 0.01
128 6 0.01
129 2 0.00
130 2 0.00
131 6 0.01
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (115 bp):
TCACATTTGAGCTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGC
TTCATTGTTTTGATTCACTTCTCTGTATCTCATAAGGAAGATGGGGGTTA
Found at i:192806 original size:124 final size:124
Alignment explanation
Indices: 192488--193483 Score: 1252
Period size: 124 Copynumber: 8.2 Consensus size: 124
192478 GGAGAGGGGT
* * *
192488 TCACATTGAGTTTCCCTTCATTATTTTGGTTCACTTCTCTATATCTCATTAGGAAGATGATCGCT
1 TCACATTGAGCTTCGCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCT
** * * *
192553 TCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTTAC
66 TCATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCAC
* * * *
192612 TCACATTTGAGCTTCGTTTCATTATTTTGGTTTATTTCTCTTTATCTCATCAGGAAGATGATCGC
1 TCACA-TTGAGCTTCGCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGC
* * * *
192677 TTCATCATTTTGATTCACTTCTCTATATCTTATTAGGAAGATGGGGGCTTGAAGTTTCAC
65 TTCATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCAC
* * * *
192737 TCACATTAAGGTTCGCTTCCTTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATTGCT
1 TCACATTGAGCTTCGCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCT
* *
192802 TCATCATTTTGACCCACTTCTCTATATCTCATCAGGAAGATAGGGGTTTGAAGTTTCAC
66 TCATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCAC
* * * ** * * *
192861 TCACATTGAGCTTCGCTTCATTATTTTGATACACTTCTCTGTATCTTGTTAGAAAGATGACCGCT
1 TCACATTGAGCTTCGCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCT
* * *
192926 TCATCATTTTGATCCACTTCTCTGTATCTCATCAAGAAGAT-GGGGTTTAAAGTTTCAC
66 TCATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCAC
* * * *
192984 TCACATTGAGTTTTGCTTCATTATTTTTGTTCGCTTCTCTATATCTCATCAGGAAGATGATCGCT
1 TCACATTGAGCTTCGCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCT
* *
193049 TCATCATTTTGATTCACTTCTCTATATCTCATCAGGAAGATGGGGGCTTGAAGTTTCAC
66 TCATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCAC
* * * * * *
193108 TCACATTAAGCTTTGCTTCCTTATTTTGGTTCACTTCTCTGTATGTCATTAGGAAGATGATCGCT
1 TCACATTGAGCTTCGCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCT
* * * * *
193173 TCATCATATTGATCCACTTCTCTATATCACATTAGGATGATGGGGATTTGAAGTTTCAC
66 TCATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCAC
* * *
193232 TCACATTGAGCTTCGTTTCATTATTTTGGTCCACTTCTTTATATCTCATCAGGAAG--G-T-G--
1 TCACATTGAGCTTCGCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCT
* *
193291 --A-C----TG--CCATTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCAC
66 TCATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCAC
* * * * *
193341 TCACATTGAGCTTCGCTTCATTATTTTGGTTCACTTCTTTGTATCTCATCAGGAAGATAAACGTT
1 TCACATTGAGCTTCGCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCT
* * * * * *
193406 TCATTATTCTGATCCACTTCTATGTATCTCATTAGGAAGATGGGGGTTTTAAGTTTCAC
66 TCATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCAC
*
193465 TCACGTAT-AGCTTCGCTTC
1 TCACAT-TGAGCTTCGCTTC
193484 CTGTGAAGCG
Statistics
Matches: 750, Mismatches: 104, Indels: 36
0.84 0.12 0.04
Matches are distributed among these distances:
109 93 0.12
111 2 0.00
113 1 0.00
115 1 0.00
116 1 0.00
117 1 0.00
120 1 0.00
121 1 0.00
122 3 0.00
123 107 0.14
124 430 0.57
125 109 0.15
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (124 bp):
TCACATTGAGCTTCGCTTCATTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCT
TCATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCAC
Found at i:192966 original size:48 final size:48
Alignment explanation
Indices: 192874--192967 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
192864 CATTGAGCTT
* ** *
192874 CGCTTCATTATTTTGATACACTTCTCTGTATCTTGTTAGAAAGATGAC
1 CGCTTCATCATTTTGATACACTTCTCTGTATCTCATAAGAAAGATGAC
*
192922 CGCTTCATCATTTTGATCCACTTCTCTGTATCTCATCAAG-AAGATG
1 CGCTTCATCATTTTGATACACTTCTCTGTATCTCAT-AAGAAAGATG
192968 GGGTTTAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 38 0.95
49 2 0.05
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (48 bp):
CGCTTCATCATTTTGATACACTTCTCTGTATCTCATAAGAAAGATGAC
Found at i:193069 original size:48 final size:48
Alignment explanation
Indices: 192998--193090 Score: 152
Period size: 48 Copynumber: 1.9 Consensus size: 48
192988 ATTGAGTTTT
* *
192998 GCTTCATTATTTTTGTTCGCTTCTCTATATCTCATCAGGAAGATGATC
1 GCTTCATCATTTTTGTTCACTTCTCTATATCTCATCAGGAAGATGATC
193046 GCTTCATCA-TTTTGATTCACTTCTCTATATCTCATCAGGAAGATG
1 GCTTCATCATTTTTG-TTCACTTCTCTATATCTCATCAGGAAGATG
193091 GGGGCTTGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 5 0.12
48 37 0.88
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (48 bp):
GCTTCATCATTTTTGTTCACTTCTCTATATCTCATCAGGAAGATGATC
Found at i:193097 original size:371 final size:369
Alignment explanation
Indices: 192322--193485 Score: 1383
Period size: 371 Copynumber: 3.2 Consensus size: 369
192312 TAGCCTTCTG
* * * * * *
192322 TTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGGGAGTTTAAAGTTTCACTCACATTTGAGC
1 TTTTGATTCACTTCTCTATATCTCATCAGGAAGATGGGGGCTTGAAGTTTCACTCACA-TTAAGC
* * * * * * ** *
192387 TTTGCTTCATTGTTTTGGTCCACTTCTCTGTATCTTATCAGGAAGATGATCGCTTTATTGTTTCG
65 TTCGCTTCCTTATTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATCATTTTG
* * * * * *
192452 ATTCACTTCTCTGTATCTCATAAGG-AG-GAGAGG---G--G--T---TCACATTGAGTTTCCCT
130 ATCCACTTCTCTATATCTCATAAGGAAGATAGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCT
* * *
192505 TCATTATTTTGGTTCACTTCTCTATATCTCATTAGGAAGATGATCGCTTCATTGTTTTAATCCAC
195 TCATTATTTTGGTACACTTCTCTATATCTCATTA-GAAGATGA-CGCTTCA-TCTTTTGATCCAC
* *
192570 TTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTTACTCACATTTGAGCTTCGTTTCATT
257 TTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACA-TTGAGCTTCGCTTCATT
* * *
192635 ATTTTGGTTTATTTCTCTTTATCTCATCAGGAAGATGATCGCTTCATCA
321 ATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCTTCATCA
* * *
192684 TTTTGATTCACTTCTCTATATCTTATTAGGAAGATGGGGGCTTGAAGTTTCACTCACATTAAGGT
1 TTTTGATTCACTTCTCTATATCTCATCAGGAAGATGGGGGCTTGAAGTTTCACTCACATTAAGCT
* *
192749 TCGCTTCCTTATTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATTGCTTCATCATTTTGA
66 TCGCTTCCTTATTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATCATTTTGA
* *
192814 CCCACTTCTCTATATCTCATCAGGAAGATAGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTT
131 TCCACTTCTCTATATCTCATAAGGAAGATAGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTT
* * **
192879 CATTATTTTGATACACTTCTCTGTATCTTGTTAGAAAGATGACCGCTTCATCATTTTGATCCACT
196 CATTATTTTGGTACACTTCTCTATATCTCATTAG-AAGATGA-CGCTTCATC-TTTTGATCCACT
* * * *
192944 TCTCTGTATCTCATCAAGAAGAT-GGGGTTTAAAGTTTCACTCACATTGAGTTTTGCTTCATTAT
258 TCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTAT
* *
193008 TTTTGTTCGCTTCTCTATATCTCATCAGGAAGATGATCGCTTCATCA
323 TTTGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCTTCATCA
193055 TTTTGATTCACTTCTCTATATCTCATCAGGAAGATGGGGGCTTGAAGTTTCACTCACATTAAGCT
1 TTTTGATTCACTTCTCTATATCTCATCAGGAAGATGGGGGCTTGAAGTTTCACTCACATTAAGCT
* * * *
193120 TTGCTTCCTTATTTTGGTTCACTTCTCTGTATGTCATTAGGAAGATGATCGCTTCATCATATTGA
66 TCGCTTCCTTATTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATCATTTTGA
* * * *
193185 TCCACTTCTCTATATCACATTAGGATGAT-GGGGATTTGAAGTTTCACTCACATTGAGCTTCGTT
131 TCCACTTCTCTATATCTCATAAGGAAGATAGGGG-TTTGAAGTTTCACTCACATTGAGCTTCGCT
* * * * * *
193249 TCATTATTTTGGTCCACTTCTTTATATCTCATCAG--GA--A-G-GTGA-C---TG--CCATTTC
195 TCATTATTTTGGTACACTTCTCTATATCTCATTAGAAGATGACGCTTCATCTTTTGATCCACTTC
193302 TCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTATTT
260 TCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTATTT
* * * * * *
193367 TGGTTCACTTCTTTGTATCTCATCAGGAAGATAAACGTTTCATTA
325 TGGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCTTCATCA
* * * * * * * *
193412 TTCTGATCCACTTCTATGTATCTCATTAGGAAGATGGGGGTTTTAAGTTTCACTCAC-GTATAGC
1 TTTTGATTCACTTCTCTATATCTCATCAGGAAGATGGGGGCTTGAAGTTTCACTCACATTA-AGC
193476 TTCGCTTCCT
65 TTCGCTTCCT
193486 GTGAAGCGTC
Statistics
Matches: 693, Mismatches: 92, Indels: 39
0.84 0.11 0.05
Matches are distributed among these distances:
356 28 0.04
357 139 0.20
358 2 0.00
361 79 0.11
362 54 0.08
363 6 0.01
364 1 0.00
366 2 0.00
368 3 0.00
370 5 0.01
371 261 0.38
372 22 0.03
373 91 0.13
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.41
Consensus pattern (369 bp):
TTTTGATTCACTTCTCTATATCTCATCAGGAAGATGGGGGCTTGAAGTTTCACTCACATTAAGCT
TCGCTTCCTTATTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATCATTTTGA
TCCACTTCTCTATATCTCATAAGGAAGATAGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTT
CATTATTTTGGTACACTTCTCTATATCTCATTAGAAGATGACGCTTCATCTTTTGATCCACTTCT
CTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTATTTT
GGTTCACTTCTCTATATCTCATCAGGAAGATGATCGCTTCATCA
Found at i:193386 original size:109 final size:109
Alignment explanation
Indices: 193190--193396 Score: 342
Period size: 109 Copynumber: 1.9 Consensus size: 109
193180 ATTGATCCAC
* * *
193190 TTCTCTATATCACATTAGGATGATGGGGATTTGAAGTTTCACTCACATTGAGCTTCGTTTCATTA
1 TTCTCTATATCACATCAGGAAGATGGGGATTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTA
193255 TTTTGGTCCACTTCTTTATATCTCATCAGGAAGGTGACTGCCAT
66 TTTTGGTCCACTTCTTTATATCTCATCAGGAAGGTGACTGCCAT
* * *
193299 TTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTA
1 TTCTCTATATCACATCAGGAAGATGGGGATTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTA
* *
193364 TTTTGGTTCACTTCTTTGTATCTCATCAGGAAG
66 TTTTGGTCCACTTCTTTATATCTCATCAGGAAG
193397 ATAAACGTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
109 90 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (109 bp):
TTCTCTATATCACATCAGGAAGATGGGGATTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTA
TTTTGGTCCACTTCTTTATATCTCATCAGGAAGGTGACTGCCAT
Found at i:196642 original size:21 final size:21
Alignment explanation
Indices: 196612--196654 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
196602 ATGAGCTGAA
*
196612 CTGAGCAAAGTAATTTAATCT
1 CTGAGCAAAGTAAATTAATCT
*
196633 CTGAGTAAAGTAAATTAATCT
1 CTGAGCAAAGTAAATTAATCT
196654 C
1 C
196655 CCTAAGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
CTGAGCAAAGTAAATTAATCT
Found at i:201390 original size:12 final size:12
Alignment explanation
Indices: 201373--201398 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
201363 TCTCACCATT
201373 TGTTCTTGCAAC
1 TGTTCTTGCAAC
201385 TGTTCTTGCAAC
1 TGTTCTTGCAAC
201397 TG
1 TG
201399 AACTTCCATC
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:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (12 bp):
TGTTCTTGCAAC
Found at i:205297 original size:30 final size:30
Alignment explanation
Indices: 205261--205483 Score: 127
Period size: 30 Copynumber: 7.5 Consensus size: 30
205251 GCCAAAACAT
*
205261 AATTTTTAGAAAGTTCGAGGGTTAAATCTA
1 AATTTTTAGAAAGTTCGAGGGTCAAATCTA
* * * *
205291 AATTTTTAGGAAGTACGAGGGTCAAATTTG
1 AATTTTTAGAAAGTTCGAGGGTCAAATCTA
* * * *
205321 GATTTTTGGGAAGTTCAAGGGTCAAATCTA
1 AATTTTTAGAAAGTTCGAGGGTCAAATCTA
**
205351 AATTTTT-GAAAAGTTCGAGGGT-AAAAATA
1 AATTTTTAG-AAAGTTCGAGGGTCAAATCTA
* * * * *
205380 TAATTCTTGGGAAGTT-AATGGGTCAAATCCA
1 -AATTTTTAGAAAGTTCGA-GGGTCAAATCTA
* * * * *
205411 AA-ATTTGGAAAGTT-TAGGGGTTAAA-ATA
1 AATTTTTAGAAAGTTCGA-GGGTCAAATCTA
* * *
205439 TAATTTTTAAAAAGTTTG-GGGTCAGATCTA
1 -AATTTTTAGAAAGTTCGAGGGTCAAATCTA
*
205469 AATTTTTAGATAGTT
1 AATTTTTAGAAAGTT
205484 TAGGGGTCAA
Statistics
Matches: 145, Mismatches: 39, Indels: 19
0.71 0.19 0.09
Matches are distributed among these distances:
28 1 0.01
29 45 0.31
30 94 0.65
31 5 0.03
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.35
Consensus pattern (30 bp):
AATTTTTAGAAAGTTCGAGGGTCAAATCTA
Found at i:205370 original size:60 final size:60
Alignment explanation
Indices: 205254--205478 Score: 167
Period size: 60 Copynumber: 3.8 Consensus size: 60
205244 GATTGGGGCC
* * * * * *
205254 AAAACATAATTTTTAGAAAGTTCGAGGGTTAAATCTAAATTTTTAGGAAGTACGAGGGT-
1 AAAATATAATTTTTGGGAAGTTCAAGGGTCAAATCTAAATTTTTAGAAAGTACGAGGGTA
* * * *
205313 CAAATTTGGATTTTTGGGAAGTTCAAGGGTCAAATCTAAATTTTT-GAAAAGTTCGAGGGTA
1 AAAATAT-AATTTTTGGGAAGTTCAAGGGTCAAATCTAAATTTTTAG-AAAGTACGAGGGTA
* * * * *
205374 AAAATATAATTCTTGGGAAGTT-AATGGGTCAAATCCAAA-ATTTGGAAAGTTTA-G-GGGTT
1 AAAATATAATTTTTGGGAAGTTCAA-GGGTCAAATCTAAATTTTTAGAAAG--TACGAGGGTA
*** ** *
205433 AAAATATAATTTTTAAAAAGTT-TGGGGTCAGATCTAAATTTTTAGA
1 AAAATATAATTTTTGGGAAGTTCAAGGGTCAAATCTAAATTTTTAGA
205479 TAGTTTAGGG
Statistics
Matches: 130, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
58 12 0.09
59 41 0.32
60 71 0.55
61 6 0.05
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (60 bp):
AAAATATAATTTTTGGGAAGTTCAAGGGTCAAATCTAAATTTTTAGAAAGTACGAGGGTA
Found at i:205503 original size:30 final size:30
Alignment explanation
Indices: 205419--205508 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
205409 CAAAATTTGG
* *
205419 AAAGTTTAGGGGTTAAAATATAATTTTTAA
1 AAAGTTTAGGGGTCAAAACATAATTTTTAA
* * *
205449 AAAGTTT-GGGGTCAGATC-TAAATTTTTAG
1 AAAGTTTAGGGGTCAAAACAT-AATTTTTAA
*
205478 ATAGTTTAGGGGTCAAAACATAATTTTTAA
1 AAAGTTTAGGGGTCAAAACATAATTTTTAA
205508 A
1 A
205509 TAAAACAAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 1 0.02
29 21 0.44
30 25 0.52
31 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.38
Consensus pattern (30 bp):
AAAGTTTAGGGGTCAAAACATAATTTTTAA
Found at i:209256 original size:20 final size:21
Alignment explanation
Indices: 209213--209279 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 21
209203 TTTGAAACAA
* * *
209213 TTTAAAATCAAGTTAAAATGAT
1 TTTAAACT-AAGTCAAAATCAT
* *
209235 TTTAAAC-ATGTCAAAATTAT
1 TTTAAACTAAGTCAAAATCAT
*
209255 TTT-TACTAAGTCAAAATCAT
1 TTTAAACTAAGTCAAAATCAT
209275 TTTAA
1 TTTAA
209280 CACTTCAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.06
20 27 0.77
22 6 0.17
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (21 bp):
TTTAAACTAAGTCAAAATCAT
Found at i:213598 original size:25 final size:25
Alignment explanation
Indices: 213561--213635 Score: 143
Period size: 25 Copynumber: 3.0 Consensus size: 25
213551 TAAAATTTAA
213561 ATTTAT-TTTATTTAATATTAATAT
1 ATTTATATTTATTTAATATTAATAT
213585 ATTTATATTTATTTAATATTAATAT
1 ATTTATATTTATTTAATATTAATAT
213610 ATTTATATTTATTTAATATTAATAT
1 ATTTATATTTATTTAATATTAATAT
213635 A
1 A
213636 AATTTTAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 6 0.12
25 44 0.88
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTATATTTATTTAATATTAATAT
Found at i:213635 original size:19 final size:19
Alignment explanation
Indices: 213569--213628 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
213559 AAATTTATTT
* *
213569 TATTTAATATTAATATATTTA
1 TATTT-ATATTAATTTA-ATA
213590 TATTTAT-TTAATATTAATA
1 TATTTATATTAAT-TTAATA
*
213609 TATTTATATTTATTTAATA
1 TATTTATATTAATTTAATA
213628 T
1 T
213629 TAATATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 21 0.62
20 8 0.24
21 5 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTATATTAATTTAATA
Found at i:214451 original size:6 final size:6
Alignment explanation
Indices: 214440--214468 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
214430 GACAAATGCT
214440 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
214469 AAATTTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:217602 original size:20 final size:20
Alignment explanation
Indices: 217577--217650 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
217567 AGTCTTCAAG
*
217577 GTATCGGTAGAACTGAAGTT
1 GTATCGGTAGAAGTGAAGTT
217597 GTATCGGTAGAAGTGAAGTT
1 GTATCGGTAGAAGTGAAGTT
*
217617 CTA-CTGGTAGAAGTGAAGTT
1 GTATC-GGTAGAAGTGAAGTT
*
217637 CTA-CTGGTAGAAGT
1 GTATC-GGTAGAAGT
217651 CCCAGGCCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 1 0.02
20 50 0.98
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (20 bp):
GTATCGGTAGAAGTGAAGTT
Found at i:228276 original size:14 final size:14
Alignment explanation
Indices: 228237--228280 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
228227 ATTAAAAAGA
228237 AAAGATGAAAGGTTGAG
1 AAAGATGAAAGG-T--G
228254 AAAGATGAAAGGTG
1 AAAGATGAAAGGTG
*
228268 AAAGGTGAAAGGT
1 AAAGATGAAAGGT
228281 CAAACATCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.50
16 1 0.04
17 12 0.46
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (14 bp):
AAAGATGAAAGGTG
Found at i:229112 original size:21 final size:21
Alignment explanation
Indices: 229082--229149 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
229072 CTCACAAAGA
*
229082 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTGACTTAGAC
** *
229102 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTGACTTAGAC
229123 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTGACTTAGAC
229147 AAA
1 AAA
229150 TCTTTTTTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.16
21 16 0.43
23 1 0.03
24 14 0.38
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTGACTTAGAC
Found at i:240950 original size:7 final size:7
Alignment explanation
Indices: 240928--240977 Score: 82
Period size: 7 Copynumber: 7.0 Consensus size: 7
240918 TGGTTATATA
240928 TTTAAAT
1 TTTAAAT
*
240935 ATATAAAT
1 -TTTAAAT
240943 TTTAAAT
1 TTTAAAT
240950 TTTAAAT
1 TTTAAAT
240957 TTTAAAT
1 TTTAAAT
240964 TTTAAAT
1 TTTAAAT
240971 TTTAAAT
1 TTTAAAT
240978 AAACTAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 34 0.85
8 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTTAAAT
Found at i:241460 original size:2 final size:2
Alignment explanation
Indices: 241453--241492 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
241443 TAAGTTCAAT
241453 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
241493 ACATCTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:249418 original size:5 final size:5
Alignment explanation
Indices: 249410--249434 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
249400 AGCATTCACG
249410 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
249435 AGAAGCAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:250889 original size:24 final size:24
Alignment explanation
Indices: 250857--250908 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
250847 GTTCAAAGCC
* *
250857 TCCTGCAAAGTCAAGCTTATTACT
1 TCCTACAAAGTCAAGCTTACTACT
250881 TCCTACAAAGTCAAGCTTACTACT
1 TCCTACAAAGTCAAGCTTACTACT
250905 TCCT
1 TCCT
250909 GCGAAGCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (24 bp):
TCCTACAAAGTCAAGCTTACTACT
Found at i:263716 original size:95 final size:95
Alignment explanation
Indices: 263547--263726 Score: 227
Period size: 95 Copynumber: 1.9 Consensus size: 95
263537 TAACAGATAT
* * * *
263547 ACCACGGTATGTGAGCCCAGCTTTAGTTGGATTAACCAACGGTTTGTGCCTAACGCTAGTCGAAT
1 ACCACGATATGTGAGCCCAACTCTAGTTGGATTAACCAACGGTTTGTGCCCAACGCTAGTCGAAT
* *
263612 AAATCGACGATTATGGCACCCAATGCTTAA
66 AAATCGACGAATATGACACCCAATGCTTAA
* * ** * * *
263642 ACCACGATATTTGAGCCCAACTCTAGTTGGATTAACCAATGGTTTGTGCCCAGTGCTTGTTGGAT
1 ACCACGATATGTGAGCCCAACTCTAGTTGGATTAACCAACGGTTTGTGCCCAACGCTAGTCGAAT
263707 AAA-CTGACGAATATGACACC
66 AAATC-GACGAATATGACACC
263727 TAGTGCCTAG
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 1 0.01
95 70 0.99
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (95 bp):
ACCACGATATGTGAGCCCAACTCTAGTTGGATTAACCAACGGTTTGTGCCCAACGCTAGTCGAAT
AAATCGACGAATATGACACCCAATGCTTAA
Found at i:277143 original size:21 final size:21
Alignment explanation
Indices: 277105--277145 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
277095 TTCAAAGGAC
* *
277105 AAGAAGAGAAAGTACAAAGAT
1 AAGAAGAAAAAGCACAAAGAT
*
277126 AAGAAGAAAAAGCGCAAAGA
1 AAGAAGAAAAAGCACAAAGA
277146 AGAAGACGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.24, T:0.05
Consensus pattern (21 bp):
AAGAAGAAAAAGCACAAAGAT
Done.