Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 332 of 345
Found at i:111034958 original size:35 final size:34
Alignment explanation
Indices: 111034871--111034958 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 34
111034861 TATTCTAGAT
* *
111034871 TTTATTATTAATGTATTATTATTATTCATTTTTTA
1 TTTATTATTTAT-TATTATCATTATTCATTTTTTA
*
111034906 TTTATTATTTTCCATTATTATCATTGTT-ATTTTTTA
1 TTTATTA-TTT--ATTATTATCATTATTCATTTTTTA
111034942 CTATTATTATTTATTAT
1 -T-TTATTATTTATTAT
111034959 CAATATTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
35 12 0.27
36 10 0.22
37 15 0.33
38 8 0.18
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (34 bp):
TTTATTATTTATTATTATCATTATTCATTTTTTA
Found at i:111035039 original size:40 final size:42
Alignment explanation
Indices: 111034962--111035054 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 42
111034952 TTATTATCAA
** *
111034962 TATTATTATTATCATTGCTATTTTTTATTTCTATTACT-A-T
1 TATTATTATTATCATTAATATTTTATATTTCTATTACTCACT
111035002 TATTATTATTA-CATTAATATTTTAT-TTTCTTATTTACTCACGT
1 TATTATTATTATCATTAATATTTTATATTTC-TA-TTACTCAC-T
111035045 TATTATTATT
1 TATTATTATT
111035055 TATTACCTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
38 4 0.09
39 13 0.29
40 16 0.36
41 1 0.02
43 11 0.24
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (42 bp):
TATTATTATTATCATTAATATTTTATATTTCTATTACTCACT
Found at i:111035076 original size:17 final size:17
Alignment explanation
Indices: 111035047--111035091 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
111035037 ACTCACGTTA
*
111035047 TTATTATTTATTACCTTT
1 TTATTA-TTATTACCCTT
111035065 TTATTATTATTACCCTT
1 TTATTATTATTACCCTT
111035082 TTATT-TTATT
1 TTATTATTATT
111035092 TTATTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTATTACCCTT
Found at i:111040799 original size:53 final size:53
Alignment explanation
Indices: 111040689--111040792 Score: 145
Period size: 53 Copynumber: 2.0 Consensus size: 53
111040679 CTCAATCAAA
* *
111040689 TTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTAAT
1 TTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCAAGCTAAT
** * * *
111040742 TTCCTTCTTATTGTATTTGTTATTTTTGATTAATTTATTCATTTCAAGCTA
1 TTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCAAGCTA
111040793 TGTTCCTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.56
Consensus pattern (53 bp):
TTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCAAGCTAAT
Found at i:111041730 original size:44 final size:44
Alignment explanation
Indices: 111041667--111042664 Score: 362
Period size: 44 Copynumber: 21.6 Consensus size: 44
111041657 TCATGGCGAA
*
111041667 TCTTATCTCCTTGAAGTTGCA-TGGGAGCAGATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCCACAAG
* * * *
111041711 TCTTATCTTCCTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCAC-AAG
* * * ** *
111041756 TCTTATTTCCCTGACGTTTCAGTGGAATAGATTGAAGCTACAAATTATGGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C--A-CA----AG
* * * *
111041809 ATCTTATCTCCCTAAAGTTGTAGTCGAGCAGATTGAAGCCATAAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
*
111041854 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * * * *
111041898 TCTTATCTCCCTGAAGTTACAGCGGAGCAGATTGAAGACAGAGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA-AG
* * * *
111041943 TTTTATTTCCCT-AACGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGTGG
1 TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGC--CACA--A-----G
* * * * * * * *
111041996 ATCTTATTTTCTTAAAATTGCAGTGAAGTAGATTGAAGCCACCAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * * ** *
111042041 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAG
* * * * * * * * *
111042086 TATAATTTCCCTAAAGTGGTAGTAGAACAGATTGAAGCTACAAATTATGGCGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--CACA--A-----G
* * * * *
111042139 ATCTCATCTTCCTCAAGTTGCAGTGGAGCAGATTAAAGCCGCCAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC-ACAAG
* * * ** *
111042184 ACTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAGATAGTGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA--CAAG
* * * * * *
111042229 TCTTATTTCCCTGACGTTGCAGTGAAACAGATTAAAGCTGCAAATTATGGTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--CACA--A----G
* *
111042281 AATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAA-
1 --TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAG
* * * * * **
111042327 CCTTATCTCCCTAAAGTTGCAGTAGAGTAGACTGAAGATAACGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCAC-AAG
* *
111042372 TCTTATTTCCCT-AACGTTGCAGTGGAGCAGATTGAAGCCACCAG
1 TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGCCACAAG
* * * * *
111042416 CCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * * ** *
111042460 TCATCTTTATCTCCTTGAAGTTACAGTGGAGCAGGA--AAATACACAAA
1 ---TC-TTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGCCACAAG
* * * ** *** *
111042507 CCTTATCTTCCTGAAGTTGCAGTGGAGTAGGCTGAAATTAGCAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAG
* * * * * * * *
111042552 TCTTATCTCCTTTAAGTTCCAGCGGAGTAGATCGAAGCTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * * * * * *
111042596 TCTCT-TCTCCCTGAAATTACATTGGAGTAAATCGAAGCTACAAG
1 TCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* *
111042640 TCTCATCTCCCTGAAGATGCAGTGG
1 TCTTATCTCCCTGAAGTTGCAGTGG
111042665 GATGGAATGA
Statistics
Matches: 699, Mismatches: 188, Indels: 134
0.68 0.18 0.13
Matches are distributed among these distances:
42 1 0.00
43 24 0.03
44 302 0.43
45 192 0.27
46 3 0.00
47 13 0.02
48 28 0.04
49 4 0.01
50 2 0.00
51 2 0.00
52 7 0.01
53 2 0.00
54 117 0.17
55 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
Found at i:111041982 original size:187 final size:187
Alignment explanation
Indices: 111041667--111042077 Score: 576
Period size: 187 Copynumber: 2.2 Consensus size: 187
111041657 TCATGGCGAA
* * *
111041667 TCTTATCTCCTTGAAGTTGCA-TGGGAGCAGATTGAAGCCACAAGTCTTATCTTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTAC
* * *
111041731 AGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTGACGTTTCAGTGGAATAGATTGAAGCTA
65 AGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGCTA
* * *
111041796 CAAATTATGGCAGATCTTATCTCCCTAAAGTTGTAGTCG-AGCAGATTGAAGCCATAAG
130 CAAATTATGGCAGATCTTATCTCCCTAAAATTGCAGT-GAAGCAGATTGAAGCCACAAG
*
111041854 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTACA
* *
111041919 GCGGAGCAGATTGAAGACAGA-GAATTTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGCTA
66 GCGGAGCAGACTGAAGACA-ACGAATCTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGCTA
** * * * * *
111041983 CAAATTATGGTGGATCTTATTTTCTTAAAATTGCAGTGAAGTAGATTGAAGCCACCAG
130 CAAATTATGGCAGATCTTATCTCCCTAAAATTGCAGTGAAGCAGATTGAAGCCACAAG
* * *
111042041 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
111042078 ATAGCAAATA
Statistics
Matches: 198, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
186 1 0.01
187 195 0.98
188 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (187 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTACA
GCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGCTAC
AAATTATGGCAGATCTTATCTCCCTAAAATTGCAGTGAAGCAGATTGAAGCCACAAG
Found at i:111042001 original size:143 final size:142
Alignment explanation
Indices: 111041854--111042409 Score: 675
Period size: 143 Copynumber: 3.9 Consensus size: 142
111041844 AAGCCATAAG
* *
111041854 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTACA
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAA-CCTTATCTCCCTGAAGTTACA
* * * *
111041919 GCGGAGCAGATTGAAGACAGAGAATTTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGCTAC
65 GTGGAGCAGACTGAAGATAGAGAATCTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGCTAC
111041984 AAATTATGGTGGA
130 AAATTATGGTGGA
* * * * * * *
111041997 TCTTATTTTCTTAAAATTGCAGTGAAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCA
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CAACCTTATCTCCCTGAAGTTACA
* * * * * * *
111042062 GTGGAGTAGACTGAAGATAGCA-AATATAATTTCCCTAAAGTGGTAGTAGAACAGATTGAAGCTA
65 GTGGAGCAGACTGAAGATAG-AGAATCTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGCTA
*
111042126 CAAATTATGGCGGA
129 CAAATTATGGTGGA
* * * * *
111042140 TCTCATCTTCCTCAAGTTGCAGTGGAGCAGATTAAAGCCGCCAAACTTATCTCCCTGAAGTTACA
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCC-ACAACCTTATCTCCCTGAAGTTACA
* * * * * * *
111042205 ATGGAGCAGATTGAAGATAGTGAATCTTATTTCCCTGACGTTGCAGTGAAACAGATTAAAGCTGC
65 GTGGAGCAGACTGAAGATAGAGAATCTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGCTAC
*
111042270 AAATTATGGTGAA
130 AAATTATGGTGGA
* * * *
111042283 TCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCA
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CAACCTTATCTCCCTGAAGTTACA
* * *
111042348 GTAGAGTAGACTGAAGATA-ACGAATCTTATTTCCCTAACGTTGCAGTGGAGCAGATTGAAGC
65 GTGGAGCAGACTGAAGATAGA-GAATCTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGC
111042410 CACCAGCCTT
Statistics
Matches: 342, Mismatches: 65, Indels: 12
0.82 0.16 0.03
Matches are distributed among these distances:
143 339 0.99
144 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (142 bp):
TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAACCTTATCTCCCTGAAGTTACAG
TGGAGCAGACTGAAGATAGAGAATCTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGCTACA
AATTATGGTGGA
Found at i:111042213 original size:286 final size:286
Alignment explanation
Indices: 111041858--111042409 Score: 782
Period size: 286 Copynumber: 1.9 Consensus size: 286
111041848 CATAAGTCTT
* * *
111041858 ATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTACAGCGG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAGACTTATCTCCCTGAAGTTACAACGG
* * *
111041923 AGCAGATTGAAGACAGAGAATTTTATTTCCCTAACGTTGCAGTGGAACAGATTGAAGCTACAAAT
66 AGCAGATTGAAGACAGAGAATCTTATTTCCCTAACGTTGCAGTGAAACAGATTAAAGCTACAAAT
* * * * *
111041988 TATGGTGGATCTTATTTTCTTAAAATTGCAGTGAAGTAGATTGAAGCCACCAGCCTTATCTCCCT
131 TATGGTGAATCTTATCTTCCTAAAATTGCAGTGAAGCAGATTGAAGCCACCAACCTTATCTCCCT
* * * *
111042053 GAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATATAATTTCCCTAAAGTGGTAGTAGAACAGAT
196 AAAGTTGCAGTAGAGTAGACTGAAGATAACAAATATAATTTCCCTAAAGTGGCAGTAGAACAGAT
111042118 TGAAGCTACAAATTATGGCGGATCTC
261 TGAAGCTACAAATTATGGCGGATCTC
* * * *
111042144 ATCTTCCTCAAGTTGCAGTGGAGCAGATTAAAGCCGCCAA-ACTTATCTCCCTGAAGTTACAATG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCC-ACAAGACTTATCTCCCTGAAGTTACAACG
* * * *
111042208 GAGCAGATTGAAGATAGTGAATCTTATTTCCCTGACGTTGCAGTGAAACAGATTAAAGCTGCAAA
65 GAGCAGATTGAAGACAGAGAATCTTATTTCCCTAACGTTGCAGTGAAACAGATTAAAGCTACAAA
* * * *
111042273 TTATGGTGAATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCC
130 TTATGGTGAATCTTATCTTCCTAAAATTGCAGTGAAGCAGATTGAAGCCACCAACCTTATCTCCC
* * * * * * *
111042338 TAAAGTTGCAGTAGAGTAGACTGAAGATAACGAATCTTATTTCCCTAACGTTGCAGTGGAGCAGA
195 TAAAGTTGCAGTAGAGTAGACTGAAGATAACAAATATAATTTCCCTAAAGTGGCAGTAGAACAGA
111042403 TTGAAGC
260 TTGAAGC
111042410 CACCAGCCTT
Statistics
Matches: 231, Mismatches: 34, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
286 228 0.99
287 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (286 bp):
ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAGACTTATCTCCCTGAAGTTACAACGG
AGCAGATTGAAGACAGAGAATCTTATTTCCCTAACGTTGCAGTGAAACAGATTAAAGCTACAAAT
TATGGTGAATCTTATCTTCCTAAAATTGCAGTGAAGCAGATTGAAGCCACCAACCTTATCTCCCT
AAAGTTGCAGTAGAGTAGACTGAAGATAACAAATATAATTTCCCTAAAGTGGCAGTAGAACAGAT
TGAAGCTACAAATTATGGCGGATCTC
Found at i:111042452 original size:89 final size:89
Alignment explanation
Indices: 111042280--111042493 Score: 236
Period size: 89 Copynumber: 2.4 Consensus size: 89
111042270 AAATTATGGT
*
111042280 GAATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTT
1 GAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTT
**
111042345 GCAGTAGAGTAGACTGAAGATAAC
66 GCAGTAGAACAGACTGAAGATAAC
* * * *
111042369 GAATCTTAT-TTCCCT-AACGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTTCTTGAAG
1 GAATCTTATCTT-CCTGAA-GTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAG
* * * *
111042432 TTGCAGTGGAACAGATTGAAGCTACAA
64 TTGCAGTAGAACAGACTGAAGATA-AC
* *
111042459 GTCATCTTTATC-TCCTTGAAGTTACAGTGGAGCAG
1 G-AATC-TTATCTTCC-TGAAGTTGCAGTGGAGCAG
111042494 GAAAATACAC
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
88 4 0.04
89 71 0.68
90 2 0.02
91 5 0.05
92 20 0.19
93 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (89 bp):
GAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTT
GCAGTAGAACAGACTGAAGATAAC
Found at i:111043982 original size:3 final size:3
Alignment explanation
Indices: 111043970--111044060 Score: 51
Period size: 3 Copynumber: 29.3 Consensus size: 3
111043960 GTTATTTTGC
* * *
111043970 TAT T-T TAT TAT TAA AAT TAAT TAAT TCAT TAT TAC TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT T-AT T-AT T-AT TAT TAT TAT TAT TAT TAT
* * ** *
111044016 TTT TCAC TAT TGC TAT TAT TTT CTAT TAT TAT TAT TAT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T
111044061 GTAGCGACGA
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
2 4 0.06
3 50 0.75
4 13 0.19
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:111044012 original size:24 final size:24
Alignment explanation
Indices: 111043985--111044035 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
111043975 TATTATTAAA
*
111043985 ATTAATTAATTCATTATTACTATT
1 ATTAATTAATTCACTATTACTATT
* ** *
111044009 ATTATTTTTTTCACTATTGCTATT
1 ATTAATTAATTCACTATTACTATT
111044033 ATT
1 ATT
111044036 TTCTATTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (24 bp):
ATTAATTAATTCACTATTACTATT
Found at i:111045141 original size:11 final size:11
Alignment explanation
Indices: 111045114--111045156 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
111045104 ATGGCATTAA
*
111045114 AAAATATATAC
1 AAAATATATAT
*
111045125 ATAATATATAT
1 AAAATATATAT
*
111045136 AAAATACATAT
1 AAAATATATAT
*
111045147 AATATATATA
1 AAAATATATA
111045157 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:111045918 original size:17 final size:17
Alignment explanation
Indices: 111045898--111045936 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
111045888 AAATAAAATA
*
111045898 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
111045915 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
111045932 AAAAT
1 AAAAT
111045937 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:111046260 original size:18 final size:18
Alignment explanation
Indices: 111046237--111046282 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
111046227 AGGGTTTCTT
111046237 GGTTTTTTTTGGGGGTTA
1 GGTTTTTTTTGGGGGTTA
***
111046255 GGTTTTTTTTTTTGGTTA
1 GGTTTTTTTTGGGGGTTA
111046273 GGTTTTTTTT
1 GGTTTTTTTT
111046283 TTGGAGAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.04, C:0.00, G:0.28, T:0.67
Consensus pattern (18 bp):
GGTTTTTTTTGGGGGTTA
Found at i:111046286 original size:17 final size:18
Alignment explanation
Indices: 111046250--111046284 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
111046240 TTTTTTTGGG
111046250 GGTTAGGTTTTTTTTTTT
1 GGTTAGGTTTTTTTTTTT
111046268 GGTTAGGTTTTTTTTTT
1 GGTTAGGTTTTTTTTTT
111046285 GGAGAGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.23, T:0.71
Consensus pattern (18 bp):
GGTTAGGTTTTTTTTTTT
Found at i:111046449 original size:3 final size:3
Alignment explanation
Indices: 111046441--111046651 Score: 123
Period size: 3 Copynumber: 70.3 Consensus size: 3
111046431 GGCTTCTACA
* *
111046441 ATT ATT ATT ACT ATT ATT -TT -TT A-T ATT ATT ATT -TAT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * *
111046483 GTT GTT ATT ATT ATT ATT CCTG A-T ATT ATT ATT AATGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT -AT-T ATT ATT ATT
* * * *
111046530 ATT CTT CATT -TT TTT ATTT ATT ATT TTCT ATT ATT ATT ATT GTT ATT
1 ATT ATT -ATT ATT ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * * * **
111046577 TTT ACT ATT ATT ATTT ATT ATC AAT ATT ATT ATT ATC ATT GCT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
111046623 -TT -TT ATT TTT ATT ACT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
111046652 CATTAAACAT
Statistics
Matches: 160, Mismatches: 34, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
2 14 0.09
3 129 0.81
4 16 0.10
5 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:111046547 original size:32 final size:31
Alignment explanation
Indices: 111046487--111046564 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 31
111046477 ATTTTTGTTG
*
111046487 TTATTATTATTATTCCTGATATTATTATTAA
1 TTATTATTATTATTCCTCATATTATTATTAA
* * * *
111046518 TGTATTATTATTATTCTTCATTTTTTTATTTA
1 T-TATTATTATTATTCCTCATATTATTATTAA
*
111046550 TTATTTTCTATTATT
1 TTATTAT-TATTATT
111046565 ATTATTGTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
31 6 0.15
32 33 0.85
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (31 bp):
TTATTATTATTATTCCTCATATTATTATTAA
Found at i:111046588 original size:37 final size:36
Alignment explanation
Indices: 111046442--111046650 Score: 143
Period size: 37 Copynumber: 5.5 Consensus size: 36
111046432 GCTTCTACAA
* *
111046442 TTATTATTACTATTATTTTT-TATATTATTATTTATATTT
1 TTATTATTATTATTATTTTTCTAT-TTATTA-TT-T-TTA
* * * *
111046481 TTGTTGTTATTATTATTATTCCTGATATTATTATTAATGTA
1 TTATTATTATTATTATT-TTTCT-AT-TTATTATT--TTTA
* *
111046522 TTATTATTATTCTTCATTTTTTTATTTATTATTTTCTA
1 TTATTATTATTATT-ATTTTTCTATTTATTATTTT-TA
*
111046560 TTATTATTATTGTTATTTTTACTA-TTATTATTTATTA
1 TTATTATTATTATTATTTTT-CTATTTATTATTT-TTA
* * * * *
111046597 TCAATATTATTATTATCATTGCTATTTTTTATTTTTA
1 TTATTATTATTATTAT-TTTTCTATTTATTATTTTTA
*
111046634 TTACTATTATTATTATT
1 TTATTATTATTATTATT
111046651 ACATTAAACA
Statistics
Matches: 137, Mismatches: 23, Indels: 23
0.75 0.13 0.13
Matches are distributed among these distances:
37 51 0.37
38 28 0.20
39 22 0.16
40 4 0.03
41 18 0.13
42 14 0.10
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (36 bp):
TTATTATTATTATTATTTTTCTATTTATTATTTTTA
Found at i:111046713 original size:17 final size:17
Alignment explanation
Indices: 111046684--111046728 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
111046674 TTTACTCACA
*
111046684 TTATTATTTATTACCTTT
1 TTATTA-TTATTACCCTT
111046702 TTATTATTATTACCCTT
1 TTATTATTATTACCCTT
111046719 TTATT-TTATT
1 TTATTATTATT
111046729 TTATTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTATTACCCTT
Found at i:111051315 original size:3 final size:3
Alignment explanation
Indices: 111051307--111051341 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
111051297 ATTCAAACAC
*
111051307 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
111051342 CCACCATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:111051580 original size:3 final size:3
Alignment explanation
Indices: 111051574--111051758 Score: 106
Period size: 3 Copynumber: 60.3 Consensus size: 3
111051564 TTGTTGTGTC
* * *
111051574 ATT ATT ATT ATT ATT ATT ATA ATT ATT -TT TTT CATGT ATAT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T AT-T ATT ATT
* ** * *
111051621 ATT -TAT ATT ATT GTT ATT ATT ACC ATT ATT AAT ATT CTT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
111051666 AGT AGT GTT TTT ATT CTT -TT ATT ATTT ATT ATT ATCC ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT AT-T AT-T ATT ATT
* * * ***
111051713 ATT ACT ATC GTT GCC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
111051759 CCATCTTATT
Statistics
Matches: 139, Mismatches: 35, Indels: 16
0.73 0.18 0.08
Matches are distributed among these distances:
2 5 0.04
3 119 0.86
4 14 0.10
5 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:111051815 original size:22 final size:22
Alignment explanation
Indices: 111051727--111051833 Score: 67
Period size: 25 Copynumber: 4.6 Consensus size: 22
111051717 CTATCGTTGC
*
111051727 CATTATTATTATTATTATTA-TT
1 CATTACTATTATTATT-TTATTT
* ** *
111051749 -ATTATTATTACCATCTTATTT
1 CATTACTATTATTATTTTATTT
111051770 CATTACTATTATTATTTTAAATTT
1 CATTACTATTATTATTTT--ATTT
*
111051794 CTGTTACTATTATT-TTTTATTT
1 C-ATTACTATTATTATTTTATTT
111051816 AACATATTACTATTATTA
1 --C--ATTACTATTATTA
111051834 CTAAATTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
20 3 0.04
21 14 0.21
22 17 0.25
24 10 0.15
25 23 0.34
ACGTcount: A:0.31, C:0.09, G:0.01, T:0.59
Consensus pattern (22 bp):
CATTACTATTATTATTTTATTT
Found at i:111051932 original size:17 final size:17
Alignment explanation
Indices: 111051896--111051934 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
111051886 TTTATTTTCT
* **
111051896 TATTACTTATCTATTTA
1 TATTTCTTATCTATCCA
111051913 TATTTCTTATCTATCCA
1 TATTTCTTATCTATCCA
111051930 TATTT
1 TATTT
111051935 TCGTTATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTCTTATCTATCCA
Found at i:111056165 original size:25 final size:25
Alignment explanation
Indices: 111056137--111056187 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
111056127 TAGGATATGC
111056137 AATCTTAGATATGATATGCAATCTT
1 AATCTTAGATATGATATGCAATCTT
111056162 AATCTTAGATATGATATGCAATCTT
1 AATCTTAGATATGATATGCAATCTT
111056187 A
1 A
111056188 GAAGATATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (25 bp):
AATCTTAGATATGATATGCAATCTT
Found at i:111056189 original size:19 final size:19
Alignment explanation
Indices: 111056109--111056162 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
111056099 ATAATCTTTA
*
111056109 AGGATAAGCAATCTTAGAT
1 AGGATATGCAATCTTAGAT
111056128 AGGATATGCAATCTTAGAT
1 AGGATATGCAATCTTAGAT
*
111056147 ATGATATGCAATCTTA
1 AGGATATGCAATCTTA
111056163 ATCTTAGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (19 bp):
AGGATATGCAATCTTAGAT
Found at i:111063567 original size:41 final size:41
Alignment explanation
Indices: 111063517--111063650 Score: 121
Period size: 41 Copynumber: 3.2 Consensus size: 41
111063507 CTTATCTCTT
*
111063517 TAAGCAGTAGTGGAGCAGATCGAAGATGCGCCTTAACCCCC
1 TAAGCAGTAGTGGAGCAAATCGAAGATGCGCCTTAACCCCC
* * * * * * * *
111063558 TAAGGAGTAG-GTA--ACATGCTAAAATTGCAGATCTTATCTCCC
1 TAAGCAGTAGTGGAGCAAAT-CGAAGA-TGC-G-CCTTAACCCCC
*
111063600 TAAGCAATAGTGGAGCAAATCGAAGATGCGCCTTAACCCCC
1 TAAGCAGTAGTGGAGCAAATCGAAGATGCGCCTTAACCCCC
111063641 TAAGCAGTAG
1 TAAGCAGTAG
111063651 GGTAACAGGC
Statistics
Matches: 68, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
38 3 0.04
39 4 0.06
40 5 0.07
41 27 0.40
42 17 0.25
43 5 0.07
44 4 0.06
45 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (41 bp):
TAAGCAGTAGTGGAGCAAATCGAAGATGCGCCTTAACCCCC
Found at i:111063698 original size:84 final size:84
Alignment explanation
Indices: 111063457--111063848 Score: 518
Period size: 84 Copynumber: 4.6 Consensus size: 84
111063447 AATGAAGATT
* * * * * **
111063457 GATGTGCCTTAATCCCCTAAGAAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCTTTAAGC
1 GATGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGC
111063522 AGTAGTGGAGCAGATCGAA
66 AGTAGTGGAGCAGATCGAA
* * *
111063541 GATGCGCCTTAACCCCCTAAGGAGTA-GGTAACATGCTAAAATTGCAGATCTTATCTCCCTAAGC
1 GATGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGC
* *
111063605 AATAGTGGAGCAAATCGAA
66 AGTAGTGGAGCAGATCGAA
*
111063624 GATGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGT
1 GATGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGC
111063689 AGTAGTGGAGCAGATCGAAGA
66 AGTAGTGGAGCAGATCG-A-A
* * *
111063710 CGATGCGCTTTAACCCCCTAAGCAGTAGGGTAATAGGCTAAAATTACAAATCTTATCTCCCTAAG
1 -GATGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAG
** *
111063775 CAGTAGTGGAGTGGATTGAA
65 CAGTAGTGGAGCAGATCGAA
* * *
111063795 GACT-CGCCTTAACTCCCTAAGCAGTAGGGTAATAGGCTAAGATATAGCAGATCT
1 GA-TGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAT-TA-CAGATCT
111063849 GACCTTTAGA
Statistics
Matches: 275, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
83 76 0.28
84 111 0.40
85 5 0.02
86 8 0.03
87 75 0.27
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (84 bp):
GATGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAA
Found at i:111063819 original size:171 final size:167
Alignment explanation
Indices: 111063457--111063848 Score: 509
Period size: 171 Copynumber: 2.3 Consensus size: 167
111063447 AATGAAGATT
* * * * **
111063457 GATGTGCCTTAA-TCCCCTAAGAAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCTTTAAG
1 GATGCGCCTTAACT-CCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAG
* * *
111063521 CAGTAGTGGAGCAGATCGAAGATGCGCCTTAACCCCCTAAGGAGTAGGTAACATGCTAAAATTGC
65 CAGTAGTGGAGCAGATCGAAGATGCGCCTTAACCCCCTAAGCAGTAGGTAACAGGCTAAAATTAC
*
111063586 AGATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGAA
130 AAATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGAA
* *
111063624 GATGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGT
1 GATGCGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGC
* *
111063689 AGTAGTGGAGCAGATCGAAGACGATGCGCTTTAACCCCCTAAGCAGTAGGGTAATAGGCTAAAAT
66 AGTAGTGGAGCAGATCG-A-A-GATGCGCCTTAACCCCCTAAGCAGTA-GGTAACAGGCTAAAAT
* *** *
111063754 TACAAATCTTATCTCCCTAAGCAGTAGTGGAGTGGATTGAA
127 TACAAATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGAA
* *
111063795 GACT-CGCCTTAACTCCCTAAGCAGTAGGGTAATAGGCTAAGATATAGCAGATCT
1 GA-TGCGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAAT-TA-CAGATCT
111063849 GACCTTTAGA
Statistics
Matches: 195, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
167 73 0.37
168 1 0.01
169 1 0.01
170 24 0.12
171 86 0.44
172 3 0.02
173 7 0.04
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (167 bp):
GATGCGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGATGCGCCTTAACCCCCTAAGCAGTAGGTAACAGGCTAAAATTACA
AATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGAA
Found at i:111064043 original size:44 final size:44
Alignment explanation
Indices: 111063980--111064076 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
111063970 CTAAGATGAT
* * *
111063980 AGATTTGGCGTCTCTGTATTGTCAGGGAGCAGATAGAAGACAGC
1 AGATTTGGCGCCTCTGTATTGTCAGAGAGCAGATAGAAGACAAC
* * *
111064024 AGATTTGGCGCCTCTGTATTGTCAGAGAGTAGATCGAAGATAAC
1 AGATTTGGCGCCTCTGTATTGTCAGAGAGCAGATAGAAGACAAC
111064068 AGATTTGGC
1 AGATTTGGC
111064077 ATCTTCATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (44 bp):
AGATTTGGCGCCTCTGTATTGTCAGAGAGCAGATAGAAGACAAC
Found at i:111064242 original size:87 final size:87
Alignment explanation
Indices: 111064143--111064331 Score: 326
Period size: 87 Copynumber: 2.2 Consensus size: 87
111064133 TTTTACATCA
* * *
111064143 AAGTAGATCCAAGATGATTTGGCATCTTTGCGTTTACAAGGAG-CAGATTGAAGACATAGCTGGT
1 AAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCCA-ATCGAAGACATAGCTGAT
111064207 TTGGCTTTCACGTGTTCACGCCG
65 TTGGCTTTCACGTGTTCACGCCG
111064230 AAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCCAATCGAAGACATAGCTGATT
1 AAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCCAATCGAAGACATAGCTGATT
*
111064295 TGGCTTTCACGTGTTCACGCTG
66 TGGCTTTCACGTGTTCACGCCG
111064317 AAGTAGATCCAAGAT
1 AAGTAGATCCAAGAT
111064332 TTGGCGTCTC
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
87 95 0.98
88 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (87 bp):
AAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCCAATCGAAGACATAGCTGATT
TGGCTTTCACGTGTTCACGCCG
Found at i:111064782 original size:17 final size:19
Alignment explanation
Indices: 111064760--111064874 Score: 84
Period size: 19 Copynumber: 5.9 Consensus size: 19
111064750 ATGGAAATAT
111064760 AATCTTTA-AT-GATATGC
1 AATCTTTAGATAGATATGC
111064777 AATC-TTAGATAGGATATGC
1 AATCTTTAGATA-GATATGC
111064796 AATC-TTAGATATGATATG-
1 AATCTTTAGATA-GATATGC
111064814 AATTCTTAATCTTAGATATGATATGC
1 AA-TC----T-TTAGATA-GATATGC
111064840 AATC-TTAGATATGATATGC
1 AATCTTTAGATA-GATATGC
111064859 AATC-TTAGA-AGATATG
1 AATCTTTAGATAGATATG
111064875 ATTTTGGTAT
Statistics
Matches: 86, Mismatches: 1, Indels: 22
0.79 0.01 0.20
Matches are distributed among these distances:
16 3 0.03
17 12 0.14
18 3 0.03
19 50 0.58
25 16 0.19
26 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
AATCTTTAGATAGATATGC
Found at i:111064794 original size:19 final size:19
Alignment explanation
Indices: 111064768--111064867 Score: 137
Period size: 19 Copynumber: 4.9 Consensus size: 19
111064758 ATAATCTTTA
111064768 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
111064787 AGGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
111064806 ATGATATGAATTCTTAATCTTAGAT
1 ATGATATG----C--AATCTTAGAT
111064831 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
111064850 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
111064868 AGATATGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
19 53 0.73
21 1 0.01
23 1 0.01
25 18 0.25
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:111064824 original size:25 final size:25
Alignment explanation
Indices: 111064796--111064846 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
111064786 TAGGATATGC
111064796 AATCTTAGATATGATATG-AATTCTT
1 AATCTTAGATATGATATGCAA-TCTT
111064821 AATCTTAGATATGATATGCAATCTT
1 AATCTTAGATATGATATGCAATCTT
111064846 A
1 A
111064847 GATATGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (25 bp):
AATCTTAGATATGATATGCAATCTT
Found at i:111064827 original size:44 final size:44
Alignment explanation
Indices: 111064777--111064865 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
111064767 AATGATATGC
111064777 AATCTTAGATAGGATATGCAATCTTAGATATGATATG-AATTCTT
1 AATCTTAGATAGGATATGCAATCTTAGATATGATATGCAA-TCTT
*
111064821 AATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTT
1 AATCTTAGATAGGATATGCAATCTTAGATATGATATGCAATCTT
111064865 A
1 A
111064866 GAAGATATGA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 41 0.95
45 2 0.05
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (44 bp):
AATCTTAGATAGGATATGCAATCTTAGATATGATATGCAATCTT
Found at i:111066963 original size:29 final size:30
Alignment explanation
Indices: 111066904--111066969 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
111066894 AAATATACTT
*
111066904 TTTAGTCCCTATATTTTTATATATTTGAAA
1 TTTAGTCCCTATATTTTTATATATTAGAAA
* *
111066934 TTTAGTCTCTTTATTTTTAT-T-TCTAGAAA
1 TTTAGTCCCTATATTTTTATATAT-TAGAAA
111066963 TTTAGTC
1 TTTAGTC
111066970 ATACTTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 13 0.41
30 18 0.56
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.56
Consensus pattern (30 bp):
TTTAGTCCCTATATTTTTATATATTAGAAA
Found at i:111067298 original size:24 final size:24
Alignment explanation
Indices: 111067270--111067321 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
111067260 TTTCTAGAAG
* *
111067270 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
111067294 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
111067318 ATTT
1 ATTT
111067322 CCCTTAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:111067483 original size:12 final size:12
Alignment explanation
Indices: 111067466--111067491 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
111067456 TTGTGTGTTC
111067466 TTTATTTTATTT
1 TTTATTTTATTT
111067478 TTTATTTTATTT
1 TTTATTTTATTT
111067490 TT
1 TT
111067492 CATAAATTGG
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:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:111071737 original size:24 final size:24
Alignment explanation
Indices: 111071674--111071725 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
111071664 TTTCTAGAAG
* * *
111071674 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
111071698 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
111071722 ATTT
1 ATTT
111071726 GGTTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:111071890 original size:11 final size:11
Alignment explanation
Indices: 111071874--111071898 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
111071864 TTGTGTGTTC
111071874 TTTATTTTATT
1 TTTATTTTATT
111071885 TTTATTTTATT
1 TTTATTTTATT
111071896 TTT
1 TTT
111071899 CACAAGAATA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:111076548 original size:19 final size:17
Alignment explanation
Indices: 111076515--111076549 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
111076505 TTACTTTTGG
111076515 AAAAGAAAAAAAGAAAT
1 AAAAGAAAAAAAGAAAT
111076532 AAAATGAAAACAAAGAAA
1 AAAA-GAAAA-AAAGAAA
111076550 CTTTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAAAGAAAT
Found at i:111077313 original size:44 final size:44
Alignment explanation
Indices: 111077261--111077779 Score: 204
Period size: 44 Copynumber: 11.6 Consensus size: 44
111077251 ATCTTCAGTA
* * *
111077261 TGCTCCACTGCAATTTCAGGGAGACAAGACTTG-TAACTTCAACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGATAACTTCAACC
* ** *
111077305 TGCCCCACTGCAACTTCATGGG-GATAAGATTGATGGCTTCGACC
1 TGCTCCACTGCAACTTCA-GGGAGATAAGATTGATAACTTCAACC
* * * ** * *
111077349 TGCTCCACTGTAACTTCAAGAAGATAAGATTCGCCATCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT-GATAACTTCAACC
*
111077394 TGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TACCTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGATAACTTCAACC
* * * ** **
111077438 TACTCTACTGCAACTTCAGGGAGATAAGGTTTG-T---TTTGATT
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATTGATAACTTCAACC
* * * * *
111077479 TGCTCTACTGCAACTTCAGAGAGATAAGATCCGTAATTTAGCTTTAATCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT---TGA--TAACTTCAA-CC
* * **
111077529 AT--TCCACTGCAACTTCAGGG-GAATAAGATATGCTATCTTCAGTC
1 -TGCTCCACTGCAACTTCAGGGAG-ATAAGAT-TGATAACTTCAACC
* * * * * *
111077573 TGCTCTACTGTAATTTCAAGGAGATAAGACTTG-TGACTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGATAACTTCAACC
* * * * * * ** *
111077617 TACTCCGCTGAAACTTCAAGGAGATCTAGTTTG-T---TTTGATC
1 TGCTCCACTGCAACTTCAGGGAGAT-AAGATTGATAACTTCAACC
* * * * * *
111077658 TGCTCTACTGCAACTTCAGAGAGATAAGATCCGTAATTTAGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT---TGA--TAACTTCAACC
* * * ***
111077707 TGTTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAGTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGATAACTTCAACC
*
111077752 TGCTCCACTGCAACTTCAGTGAGATAAG
1 TGCTCCACTGCAACTTCAGGGAGATAAG
111077780 TCTTGTGACT
Statistics
Matches: 359, Mismatches: 83, Indels: 65
0.71 0.16 0.13
Matches are distributed among these distances:
40 5 0.01
41 52 0.14
43 7 0.02
44 124 0.35
45 101 0.28
46 6 0.02
47 2 0.01
48 1 0.00
49 59 0.16
50 1 0.00
51 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTGATAACTTCAACC
Found at i:111077503 original size:85 final size:89
Alignment explanation
Indices: 111077263--111077785 Score: 351
Period size: 89 Copynumber: 5.9 Consensus size: 89
111077253 CTTCAGTATG
* * * * * * *
111077263 CTCCACTGCAATTTCAGGGAGACAAGACTTG-TAACTTCA-ACTTGCCCCACTGCAACTTCATG-
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTC-TGCTCTACTGCAACTTCA-GA
* * * *
111077325 GGGATAAGA-TTGATGGCTTCGACCTG
64 GAGATAAGACTTG-TAGCTTCAACCTA
* * * * * * * *
111077351 CTCCACTGTAACTTCAAGAAGATAAGATTCGCCATCTTCAATCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGAGA
*
111077416 GATAAGACTTGTACCTTCAACCTA
66 GATAAGACTTGTAGCTTCAACCTA
* * * *
111077440 CTCTACTGCAACTTCAGGGAGATAAGGTTTG-T-T-TTGA-TTTGCTCTACTGCAACTTCAGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGAGA
* *
111077501 GATAAGATCCGTAATTTAGCTTTAATCC-A
66 GATAAGA--C-T--TGTAGCTTCAA-CCTA
* * * *
111077530 TTCCACTGCAACTTCAGGG-GAATAAGATATGCTATCTTCAGTCTGCTCTACTGTAATTTCA-AG
1 CTCCACTGCAACTTCAGGGAG-ATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGA-
*
111077593 GAGATAAGACTTGT-GACTTCAATCTA
64 GAGATAAGACTTGTAG-CTTCAACCTA
* * * * *
111077619 CTCCGCTGAAACTTCAAGGAGATCTAG-TTTG-T-T-TTGA-TCTGCTCTACTGCAACTTCAGAG
1 CTCCACTGCAACTTCAGGGAGAT-AAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGAG
* * * *
111077679 AGATAAGATCCGTAATTTAGCTTTAATCTG
65 AGATAAGA--C-T--TGTAGCTTCAACCTA
* * * * *
111077709 TTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAGTTTGCTCCACTGCAACTTCAGTGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGAGA
*
111077774 GATAAGTCTTGT
66 GATAAGACTTGT
111077786 GACTTCGATT
Statistics
Matches: 339, Mismatches: 64, Indels: 63
0.73 0.14 0.14
Matches are distributed among these distances:
85 55 0.16
86 7 0.02
87 4 0.01
88 30 0.09
89 98 0.29
90 74 0.22
91 7 0.02
92 4 0.01
93 7 0.02
94 53 0.16
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (89 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGAGA
GATAAGACTTGTAGCTTCAACCTA
Found at i:111077822 original size:179 final size:179
Alignment explanation
Indices: 111077352--111077822 Score: 635
Period size: 179 Copynumber: 2.6 Consensus size: 179
111077342 TTCGACCTGC
* * * * * *
111077352 TCCACTGTAACTTCAAGAAGATAAGATTCGCCATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCA-GGAG
* ** * * * *
111077417 ATAAGACTTGT-ACCTTCAACCTACTCTACTGCAACTTCAGGGAGAT-AAGGTTTGTTTTGATTT
65 ATAAGACTTGTGA-CTTCAATCTACTCCGCTGAAACTTCAAGGAGATCTAGGTTTGTTTTGATCT
111077480 GCTCTACTGCAACTTCAGAGAGATAAGATCCGTAATTTAGCTTTAATCCAT
129 GCTCTACTGCAACTTCAGAGAGATAAGATCCGTAATTTAGCTTTAATCCAT
* * * *
111077531 TCCACTGCAACTTCAGGG-GAATAAGATATGCTATCTTCAGTCTGCTCTACTGTAATTTCAAGGA
1 TCCACTGCAACTTCAGGGAG-ATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTC-AGGA
111077595 GATAAGACTTGTGACTTCAATCTACTCCGCTGAAACTTCAAGGAGATCTA-GTTTGTTTTGATCT
64 GATAAGACTTGTGACTTCAATCTACTCCGCTGAAACTTCAAGGAGATCTAGGTTTGTTTTGATCT
**
111077659 GCTCTACTGCAACTTCAGAGAGATAAGATCCGTAATTTAGCTTTAATCTGT
129 GCTCTACTGCAACTTCAGAGAGATAAGATCCGTAATTTAGCTTTAATCCAT
* *
111077710 TCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAGTTTGCTCCACTGCAACTTCAGTGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAG-GAG
* * * * *
111077775 ATAAGTCTTGTGACTTCGATTTACTCCGTTGAAACTTCAACGAGATCT
65 ATAAGACTTGTGACTTCAATCTACTCCGCTGAAACTTCAAGGAGATCT
111077823 GCTGTGGCTT
Statistics
Matches: 256, Mismatches: 30, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
178 3 0.01
179 249 0.97
180 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (179 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAGA
TAAGACTTGTGACTTCAATCTACTCCGCTGAAACTTCAAGGAGATCTAGGTTTGTTTTGATCTGC
TCTACTGCAACTTCAGAGAGATAAGATCCGTAATTTAGCTTTAATCCAT
Found at i:111077988 original size:43 final size:43
Alignment explanation
Indices: 111077925--111078163 Score: 155
Period size: 43 Copynumber: 5.5 Consensus size: 43
111077915 TCATCTTCGA
* *
111077925 TCTGTTTCCTTACTGCTTAGGGTGATGAGATCTGTAAATTCAG
1 TCTGTTACCCTACTGCTTAGGGTGATGAGATCTGTAAATTCAG
* * * ** **
111077968 TCTGTTACCCTACTGGTTAGGG-GTTTAGGGCCCT-TCACCTTC-G
1 TCTGTTACCCTACTGCTTAGGGTG-AT-GAGATCTGT-AAATTCAG
* * *
111078011 ATCTGTTTCCCTACTGCTTAGGGTGATGAGATTTGTAAATTCAA
1 -TCTGTTACCCTACTGCTTAGGGTGATGAGATCTGTAAATTCAG
* * * ** * **
111078055 CCTGTTACCCTACTGCTTAGGG-GTTTAAGGCCCTTTACCTT-AG
1 TCTGTTACCCTACTGCTTAGGGTG-ATGA-GATCTGTAAATTCAG
* * * *
111078098 ATCTATTTCCCTACTACTTAGAGTGATGAGATCTGTAAATTCAG
1 -TCTGTTACCCTACTGCTTAGGGTGATGAGATCTGTAAATTCAG
*
111078142 CCTGTTACCCTACTGCTTAGGG
1 TCTGTTACCCTACTGCTTAGGG
111078164 GTTTACGGCC
Statistics
Matches: 137, Mismatches: 47, Indels: 24
0.66 0.23 0.12
Matches are distributed among these distances:
42 2 0.01
43 76 0.55
44 57 0.42
45 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (43 bp):
TCTGTTACCCTACTGCTTAGGGTGATGAGATCTGTAAATTCAG
Found at i:111078240 original size:43 final size:42
Alignment explanation
Indices: 111078187--111078329 Score: 108
Period size: 43 Copynumber: 3.3 Consensus size: 42
111078177 CGCCTTTGAT
*
111078187 CTGTTTCCCTACTAATTAAGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACT-ATTAAGGGGTTAAGATCTGTAAATTCAGC
* * * ** *** *
111078230 CTGTTACCCTACTGCTTAAGGGTTTAAGACCCATCGCCTTC-GAT
1 CTGTTACCCTACT-ATTAAGGGGTTAAGATCTGT-AAATTCAG-C
* ** *
111078274 CTGTTTCCCTACTGCTAAGGGGGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTATTAA-GGGGTTAAGATCTGTAAATTCAGC
111078317 CTGTTACCCTACT
1 CTGTTACCCTACT
111078330 GCTTAGGGGC
Statistics
Matches: 72, Mismatches: 24, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
43 45 0.62
44 27 0.38
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (42 bp):
CTGTTACCCTACTATTAAGGGGTTAAGATCTGTAAATTCAGC
Found at i:111078287 original size:44 final size:44
Alignment explanation
Indices: 111078143--111078294 Score: 130
Period size: 44 Copynumber: 3.5 Consensus size: 44
111078133 TAAATTCAGC
* * * *
111078143 CTGTTACCCTACTGCTTAGGGGTTTACGGCCCATCGCCTTTGAT
1 CTGTTACCCTACTGCTTAAGGGTTTAAGACCCATCGCCTTCGAT
* ** * * ** *** *
111078187 CTGTTTCCCTACTAATTAAGGGGTTAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAAGGGTTTAAGACCCATCGCCTTCGA-T
111078230 CTGTTACCCTACTGCTTAAGGGTTTAAGACCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAAGGGTTTAAGACCCATCGCCTTCGAT
*
111078274 CTGTTTCCCTACTGC-TAAGGG
1 CTGTTACCCTACTGCTTAAGGG
111078295 GGTTAAGATC
Statistics
Matches: 78, Mismatches: 27, Indels: 7
0.70 0.24 0.06
Matches are distributed among these distances:
42 1 0.01
43 35 0.45
44 41 0.53
45 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAAGGGTTTAAGACCCATCGCCTTCGAT
Found at i:111078330 original size:43 final size:43
Alignment explanation
Indices: 111078206--111078345 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 43
111078196 TACTAATTAA
*
111078206 GGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAA-
1 GGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGC-TAAG
* * ** **** * * *
111078249 GGGTTTAAGACCCATCGCCTTCGATCTGTTTCCCTACTGCTAAG
1 GGGGTTAAGATCTGTAAATTTAG-CCTGTTACCCTACTGCTAAG
*
111078293 GGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAG
1 GGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTAAG
*
111078336 GGGCTTAAGA
1 GGGGTTAAGA
111078346 CTTGTGAATT
Statistics
Matches: 70, Mismatches: 25, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
43 42 0.60
44 28 0.40
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (43 bp):
GGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTAAG
Found at i:111078346 original size:87 final size:87
Alignment explanation
Indices: 111077853--111078344 Score: 644
Period size: 87 Copynumber: 5.6 Consensus size: 87
111077843 AAACGCCATT
* * * * *
111077853 TTAGGGAGAAGAGATTTGTAATTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCA
1 TTAGGGTGATGAGATCTGTAAATT-CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCA
* *
111077918 TCTTCGATCTGTTTCCTTACTGC
65 CCTTCGATCTGTTTCCCTACTGC
* * * *
111077941 TTAGGGTGATGAGATCTGTAAATTCAGTCTGTTACCCTACTGGTTAGGGGTTTAGGGCCCTTCAC
1 TTAGGGTGATGAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAC
111078006 CTTCGATCTGTTTCCCTACTGC
66 CTTCGATCTGTTTCCCTACTGC
* * * *
111078028 TTAGGGTGATGAGATTTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTTAC
1 TTAGGGTGATGAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAC
* * *
111078093 CTTAGATCTATTTCCCTACTAC
66 CTTCGATCTGTTTCCCTACTGC
* * *
111078115 TTAGAGTGATGAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTACGGCCCATCGC
1 TTAGGGTGATGAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAC
* **
111078180 CTTTGATCTGTTTCCCTACTAA
66 CTTCGATCTGTTTCCCTACTGC
* * * * *
111078202 TTAAGGG-GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGACCCATCG
1 TT-AGGGTGATGAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCA
111078266 CCTTCGATCTGTTTCCCTACTGC
65 CCTTCGATCTGTTTCCCTACTGC
* * * * * *
111078289 TAAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGCTTAAG
1 TTAGGGTGATGAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
111078345 ACTTGTGAAT
Statistics
Matches: 359, Mismatches: 43, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
86 4 0.01
87 332 0.92
88 23 0.06
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (87 bp):
TTAGGGTGATGAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAC
CTTCGATCTGTTTCCCTACTGC
Found at i:111081305 original size:35 final size:35
Alignment explanation
Indices: 111081259--111081326 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
111081249 CCAAGTATGC
111081259 AAAGGTTTGGAAACTTTTATTCCCCGATTTCTTGT
1 AAAGGTTTGGAAACTTTTATTCCCCGATTTCTTGT
111081294 AAAGGTTTGGAAACTTTTATTCCCCGATTTCTT
1 AAAGGTTTGGAAACTTTTATTCCCCGATTTCTT
111081327 ATTCGGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (35 bp):
AAAGGTTTGGAAACTTTTATTCCCCGATTTCTTGT
Found at i:111084198 original size:19 final size:19
Alignment explanation
Indices: 111084174--111084220 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
111084164 AAGAAGTTAA
111084174 AAGGAGATCTTCAATCTTG
1 AAGGAGATCTTCAATCTTG
*
111084193 AAGGAGATTTTCAATCTTG
1 AAGGAGATCTTCAATCTTG
111084212 AAGGAGATC
1 AAGGAGATC
111084221 CGCTTCAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (19 bp):
AAGGAGATCTTCAATCTTG
Found at i:111085350 original size:27 final size:27
Alignment explanation
Indices: 111085310--111085365 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
111085300 TGAAGAATGG
111085310 GAAAGAAAAGTACTTGGAAAGCAATTA
1 GAAAGAAAAGTACTTGGAAAGCAATTA
*
111085337 GAAAGAAAATTACTTGGAAAGCAATTA
1 GAAAGAAAAGTACTTGGAAAGCAATTA
111085364 GA
1 GA
111085366 CCAATTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.20
Consensus pattern (27 bp):
GAAAGAAAAGTACTTGGAAAGCAATTA
Found at i:111087451 original size:25 final size:25
Alignment explanation
Indices: 111087417--111087475 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 25
111087407 ATATATACAA
111087417 TATAAAAAATATATAAAAGAATTAG
1 TATAAAAAATATATAAAAGAATTAG
*
111087442 TAT-AAAAA-ATATAAAAGAATTTG
1 TATAAAAAATATATAAAAGAATTAG
*
111087465 TATAAATAATA
1 TATAAAAAATA
111087476 AAATGAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 17 0.57
24 9 0.30
25 4 0.13
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.31
Consensus pattern (25 bp):
TATAAAAAATATATAAAAGAATTAG
Found at i:111087453 original size:23 final size:23
Alignment explanation
Indices: 111087421--111087492 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
111087411 ATACAATATA
111087421 AAAAATATATAAAAGAATTAGTAT
1 AAAAA-ATATAAAAGAATTAGTAT
*
111087445 AAAAAATATAAAAGAATTTGTAT
1 AAAAAATATAAAAGAATTAGTAT
* * *
111087468 AAATAATA-AAATGAA-TAATAT
1 AAAAAATATAAAAGAATTAGTAT
111087489 AAAA
1 AAAA
111087493 CATAAATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 7 0.17
22 6 0.14
23 24 0.57
24 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (23 bp):
AAAAAATATAAAAGAATTAGTAT
Found at i:111087500 original size:16 final size:15
Alignment explanation
Indices: 111087475--111087596 Score: 62
Period size: 16 Copynumber: 8.1 Consensus size: 15
111087465 TATAAATAAT
*
111087475 AAAATGAATAATATA
1 AAAATAAATAATATA
111087490 AAACATAAATAATATA
1 AAA-ATAAATAATATA
* *
111087506 ATAGATAATATACTATA
1 A-AAATAA-ATAATATA
* *
111087523 TACAT-AAT-ATATA
1 AAAATAAATAATATA
111087536 ATAAA-AAATAATATA
1 A-AAATAAATAATATA
*
111087551 ATAAGT-AATATATATAA
1 A-AAATAAATA-ATAT-A
111087568 AAAATATAATAA-AT-
1 AAAATA-AATAATATA
111087582 AAAAT-AAT-ATATA
1 AAAATAAATAATATA
111087595 AA
1 AA
111087597 TATATATAGG
Statistics
Matches: 84, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
11 1 0.01
12 5 0.06
13 6 0.07
14 12 0.14
15 17 0.20
16 28 0.33
17 11 0.13
18 4 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AAAATAAATAATATA
Found at i:111087513 original size:12 final size:12
Alignment explanation
Indices: 111087466--111087600 Score: 96
Period size: 12 Copynumber: 11.0 Consensus size: 12
111087456 AAGAATTTGT
*
111087466 ATAAATAATAAA
1 ATAAATAATATA
*
111087478 ATGAATAATATAAAA
1 ATAAATAATAT---A
111087493 CATAAATAATATA
1 -ATAAATAATATA
*
111087506 ATAGATAATATA
1 ATAAATAATATA
* * *
111087518 CTATAT-ACATA
1 ATAAATAATATA
*
111087529 ATATATAATA-A
1 ATAAATAATATA
111087540 A-AAATAATATA
1 ATAAATAATATA
*
111087551 ATAAGTAATATA
1 ATAAATAATATA
*
111087563 TATAAAAAATATA
1 -ATAAATAATATA
*
111087576 ATAAATAAAATA
1 ATAAATAATATA
*
111087588 ATATATAAATATA
1 ATAAAT-AATATA
111087601 TATAGGAAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
10 7 0.07
11 13 0.13
12 50 0.52
13 16 0.16
15 1 0.01
16 10 0.10
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (12 bp):
ATAAATAATATA
Found at i:111087550 original size:28 final size:28
Alignment explanation
Indices: 111087470--111087604 Score: 86
Period size: 28 Copynumber: 4.7 Consensus size: 28
111087460 ATTTGTATAA
*
111087470 ATAATAAAATGAATAATATAAAACATAAATAAT
1 ATAATAAAA--AATAATAT-ATACAT-AAT-AT
* *
111087503 ATAATAGATAATATACTATATACATAATAT
1 ATAATA-A-AAAATAATATATACATAATAT
111087533 ATAATAAAAAATAATATAATA-AGTAATAT
1 ATAATAAAAAATAATAT-ATACA-TAATAT
*
111087562 AT-ATAAAAAAT-ATA-ATAAATAA-A-
1 ATAATAAAAAATAATATATACATAATAT
*
111087585 ATAATATATAAAT-ATATATA
1 ATAATA-AAAAATAATATATA
111087605 GGAAAATAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 23
0.75 0.05 0.20
Matches are distributed among these distances:
23 2 0.02
24 4 0.05
25 14 0.16
26 4 0.05
27 3 0.03
28 18 0.20
29 12 0.14
30 8 0.09
31 3 0.03
32 5 0.06
33 12 0.14
34 1 0.01
35 2 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
ATAATAAAAAATAATATATACATAATAT
Found at i:111087566 original size:42 final size:42
Alignment explanation
Indices: 111087484--111087628 Score: 124
Period size: 45 Copynumber: 3.4 Consensus size: 42
111087474 TAAAATGAAT
111087484 AATATAA-AACAT-AAATAATATAAT-AGATAATATACTATATACATA
1 AATATAATAA-ATAAAATAATATAATAAG-TAATATA-TATA-A-A-A
111087529 ATATATAAT-AA-AAAATAATATAATAAGTAATATATATAAAA
1 A-ATATAATAAATAAAATAATATAATAAGTAATATATATAAAA
* *
111087570 AATATAATAAATAAAATAATAT-ATAAAT-ATATATAGGAAAA
1 AATATAATAAATAAAATAATATAATAAGTAATATATA-TAAAA
111087611 TAATATATGATAAATAAA
1 -AATATA--ATAAATAAA
111087629 CATTTTATAT
Statistics
Matches: 88, Mismatches: 2, Indels: 21
0.79 0.02 0.19
Matches are distributed among these distances:
40 14 0.16
41 13 0.15
42 17 0.19
43 1 0.01
44 13 0.15
45 21 0.24
46 9 0.10
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (42 bp):
AATATAATAAATAAAATAATATAATAAGTAATATATATAAAA
Found at i:111087603 original size:12 final size:13
Alignment explanation
Indices: 111087500--111087618 Score: 61
Period size: 12 Copynumber: 8.9 Consensus size: 13
111087490 AAACATAAAT
*
111087500 AATATAATAGATA
1 AATATAATATATA
*
111087513 ATATACTATATACATA
1 A-ATA-TA-ATATATA
111087529 ATATATAATA-A-A
1 A-ATATAATATATA
111087541 AA-ATAATATAATA
1 AATATAATAT-ATA
* *
111087554 AGTAATATATATAAAA
1 AAT-ATA-ATAT-ATA
*
111087570 AATATAATAAATA
1 AATATAATATATA
111087583 AA-ATAATATATA
1 AATATAATATATA
*
111087595 AATAT-ATATAGGA
1 AATATAATATA-TA
111087608 AA-ATAATATAT
1 AATATAATATAT
111087619 GATAAATAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
10 6 0.07
11 1 0.01
12 21 0.25
13 18 0.21
14 9 0.11
15 10 0.12
16 20 0.24
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (13 bp):
AATATAATATATA
Found at i:111087624 original size:40 final size:41
Alignment explanation
Indices: 111087481--111087624 Score: 123
Period size: 42 Copynumber: 3.4 Consensus size: 41
111087471 TAATAAAATG
* * * *
111087481 AATAATATAAAACATAAATAATATAATAGATAATATACTATATA
1 AATAATATATAATA-AAATAATATAATAAATAATATA-TAGA-A
* * *
111087525 CATAATATATAATAAAAAATAATATAATAAGTAATATATATAA
1 AATAATATATAAT--AAAATAATATAATAAATAATATATAGAA
111087568 AA-AATATAATAAATAAAATAATAT-ATAAAT-ATATATAGGAA
1 AATAATAT-AT-AATAAAATAATATAATAAATAATATATA-GAA
*
111087609 AATAATATATGATAAA
1 AATAATATATAATAAA
111087625 TAAACATTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
40 12 0.14
41 11 0.13
42 20 0.24
43 4 0.05
44 17 0.20
45 20 0.24
46 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (41 bp):
AATAATATATAATAAAATAATATAATAAATAATATATAGAA
Found at i:111089112 original size:41 final size:41
Alignment explanation
Indices: 111089067--111089202 Score: 109
Period size: 41 Copynumber: 3.2 Consensus size: 41
111089057 CATAGAGATA
111089067 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAATG
1 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAATG
* * *
111089108 CCAAATCAGCTATGTCTTCGATCTGCTCTC--CGTCGAATACA-GAG-ATG
1 CCAAAT---C-A--TCTTAGATTTGCT-TCAACGT--AA-ACACGTGAATG
*
111089155 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAATG
*
111089196 TCAAATC
1 CCAAATC
111089203 TGCTACATCT
Statistics
Matches: 73, Mismatches: 8, Indels: 28
0.67 0.07 0.26
Matches are distributed among these distances:
39 3 0.04
40 6 0.08
41 25 0.34
42 3 0.04
43 1 0.01
44 2 0.03
45 1 0.01
46 3 0.04
47 20 0.27
48 6 0.08
49 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (41 bp):
CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAATG
Found at i:111089183 original size:88 final size:88
Alignment explanation
Indices: 111089033--111089238 Score: 313
Period size: 88 Copynumber: 2.3 Consensus size: 88
111089023 TCATGTCGAT
* * * *
111089033 ATCTTCGATCGGCTCTCAGTCGAACATAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAA
1 ATCTTCGATCTGCTCTCCGTCGAATACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAA
* *
111089098 CACGTGAATGCCAAATCAGCTAT
66 CACGTGAAAGCCAAATCAGCTAC
* *
111089121 GTCTTCGATCTGCTCTCCGTCGAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAA
1 ATCTTCGATCTGCTCTCCGTCGAATACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAA
* *
111089186 CACGTGAAAGTCAAATCTGCTAC
66 CACGTGAAAGCCAAATCAGCTAC
*
111089209 ATCTTCGATCTGCTCCCCGTCGAATACAGA
1 ATCTTCGATCTGCTCTCCGTCGAATACAGA
111089239 AAGATAAGAT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 106 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (88 bp):
ATCTTCGATCTGCTCTCCGTCGAATACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAA
CACGTGAAAGCCAAATCAGCTAC
Found at i:111089264 original size:45 final size:45
Alignment explanation
Indices: 111089208--111089573 Score: 387
Period size: 45 Copynumber: 8.3 Consensus size: 45
111089198 AAATCTGCTA
* * * *
111089208 CATCTTCGATCTGCTCCCCGTCGAATACAGAAAGATAAGATCTGT
1 CATCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCTGT
* *
111089253 CATCTTGGATCTACTCCCCGTCTATTACGGAGAGATAAGATCTGT
1 CATCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCTGT
* * *
111089298 CATCTTGGATCTACTCCCCGTCCATTACGGAGAGATAAGATCTGT
1 CATCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCTGT
* * *
111089343 CATATTTGATCTGCTCCCCGCCTATTACAGAGAGATAAGATCTGT
1 CATCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCTGT
* *
111089388 CATCTTGGATCTGCTCCCCGCCTATTACAGGGAGATAAGATCTGT
1 CATCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCTGT
* * *
111089433 CATCTTGGATCTG---CCC-T-GA-T---GA-AGGTCAGATCTG-
1 CATCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCTGT
* * *
111089467 CTATGTCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGT
1 C-A--TCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCTGT
* * * **
111089515 CATCTTGAATCTACTCCCCGCCTATTACAGAGAGATAAGATC-CA
1 CATCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCTGT
111089559 CTATCTTGGATCTGC
1 C-ATCTTGGATCTGC
111089574 CCCGATGAAG
Statistics
Matches: 272, Mismatches: 34, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
34 1 0.00
35 11 0.04
36 1 0.00
37 10 0.04
39 1 0.00
40 4 0.01
41 1 0.00
42 5 0.02
43 1 0.00
44 1 0.00
45 222 0.82
46 2 0.01
47 11 0.04
48 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (45 bp):
CATCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCTGT
Found at i:111089534 original size:127 final size:127
Alignment explanation
Indices: 111089190--111089638 Score: 542
Period size: 127 Copynumber: 3.5 Consensus size: 127
111089180 CGTAAACACG
* * ** * *
111089190 TGAAAGTCAAATCTGCTACATCTTCGATCTGCTCCCCGTCGAATACAGAAAGATAAGATCTGTCA
1 TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCA
* *
111089255 TCTTGGATCTACTCCCCGTCTATTAC-GGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGT
66 TCTTGGATCTACTCCCCGCCTATTACAGG-GAGATAAGATCTGTCATCTTGGA--T-CTGCCC-T
*
111089319 CCA
126 -GA
* * ** ** * * * * *
111089322 TTACGGAGAGATAAGATCTGTCATATTTGATCTGCTCCCCGCCTATTACAGAGAGATAAGATCTG
1 TGAAGGTCAGATCTGCTATGTC---TTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTG
*
111089387 TCATCTTGGATCTGCTCCCCGCCTATTACAGGGAGATAAGATCTGTCATCTTGGATCTGCCCTGA
63 TCATCTTGGATCTACTCCCCGCCTATTACAGGGAGATAAGATCTGTCATCTTGGATCTGCCCTGA
111089452 TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCA
1 TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCA
* * ** *
111089517 TCTTGAATCTACTCCCCGCCTATTACAGAGAGATAAGATC-CACTATCTTGGATCTGCCCCGA
66 TCTTGGATCTACTCCCCGCCTATTACAGGGAGATAAGATCTGTC-ATCTTGGATCTGCCCTGA
* *
111089579 TGAAGGTCAGATCTACTATGTCTTTGATCTGCTCTCCGTCGAATACAGAGAGATAAGATC
1 TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATC
111089639 CACTGTCTTG
Statistics
Matches: 272, Mismatches: 40, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
126 1 0.00
127 152 0.56
130 15 0.06
131 1 0.00
132 15 0.06
133 1 0.00
135 85 0.31
136 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (127 bp):
TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCA
TCTTGGATCTACTCCCCGCCTATTACAGGGAGATAAGATCTGTCATCTTGGATCTGCCCTGA
Found at i:111089692 original size:209 final size:209
Alignment explanation
Indices: 111089435--111089847 Score: 682
Period size: 209 Copynumber: 2.0 Consensus size: 209
111089425 AGATCTGTCA
* *
111089435 TCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCGAATACAG
1 TCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTACGTCTTTGATCTGCTCCCCGTCGAATACAG
*
111089500 AGAGATAAGATCTGTCATCTTGAATCTACTCCCCGCCTATTACAGAGAGATAAGATCCACTATCT
66 AGAGATAAGATCTGTCATCTTGAATCTACTCCCCGCCTATTACAGAGAGATAAGATCCACCATCT
* * * * *
111089565 TGGATCTGCCCCGATGAAGGTCAGATCTACTATGTCTTTGATCTGCTCTCCGTCGAATACAGAGA
131 TAGATCTACCCCGATGAAGGTCAGATCTACTACGTCTTTGATCTCCTCCCCGTCGAATACAGAGA
111089630 GATAAGATCCACTG
196 GATAAGATCCACTG
* * *
111089644 TCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTACGTTTTTGATCTGCTCCTCGTCGAATATAG
1 TCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTACGTCTTTGATCTGCTCCCCGTCGAATACAG
* *
111089709 AGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCTATTACAGAGAGATAAGATCCACCATCT
66 AGAGATAAGATCTGTCATCTTGAATCTACTCCCCGCCTATTACAGAGAGATAAGATCCACCATCT
* * *
111089774 TAGATCTACCCTGATGAAGGTCAGATCTGCTACGTCTTTGATCTCCTCCCCGTCGAATATAGAGA
131 TAGATCTACCCCGATGAAGGTCAGATCTACTACGTCTTTGATCTCCTCCCCGTCGAATACAGAGA
111089839 GATAAGATC
196 GATAAGATC
111089848 TGTCATCTTC
Statistics
Matches: 188, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
209 188 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (209 bp):
TCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTACGTCTTTGATCTGCTCCCCGTCGAATACAG
AGAGATAAGATCTGTCATCTTGAATCTACTCCCCGCCTATTACAGAGAGATAAGATCCACCATCT
TAGATCTACCCCGATGAAGGTCAGATCTACTACGTCTTTGATCTCCTCCCCGTCGAATACAGAGA
GATAAGATCCACTG
Found at i:111089735 original size:82 final size:82
Alignment explanation
Indices: 111089540--111089720 Score: 301
Period size: 82 Copynumber: 2.2 Consensus size: 82
111089530 CCCCGCCTAT
*
111089540 TACAGAGAGATAAGATCCACTATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTATGTCTTTG
1 TACAGAGAGATAAGATCCACTATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTACGTCTTTG
111089605 ATCTGCTCTCCGTCGAA
66 ATCTGCTCTCCGTCGAA
* * *
111089622 TACAGAGAGATAAGATCCACTGTCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTACGTTTTTG
1 TACAGAGAGATAAGATCCACTATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTACGTCTTTG
111089687 ATCTGCTC-CTCGTCGAA
66 ATCTGCTCTC-CGTCGAA
*
111089704 TATAGAGAGATAAGATC
1 TACAGAGAGATAAGATC
111089721 TGTCATCTTG
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
81 1 0.01
82 92 0.99
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (82 bp):
TACAGAGAGATAAGATCCACTATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTACGTCTTTG
ATCTGCTCTCCGTCGAA
Found at i:111089735 original size:127 final size:127
Alignment explanation
Indices: 111089599--111089856 Score: 399
Period size: 127 Copynumber: 2.0 Consensus size: 127
111089589 ATCTACTATG
* * * ** * *
111089599 TCTTTGATCTGCTCTCCGTCGAATACAGAGAGATAAGATCCACTGTCTTGGATCTGCCCCGATGA
1 TCTTGGATCTACTCCCCGTCGAATACAGAGAGATAAGATCCACCATCTTAGATCTACCCCGATGA
* * *
111089664 AGGTCAGATCTGCTACGTTTTTGATCTGCTCCTCGTCGAATATAGAGAGATAAGATCTGTCA
66 AGGTCAGATCTGCTACGTCTTTGATCTCCTCCCCGTCGAATATAGAGAGATAAGATCTGTCA
* * *
111089726 TCTTGGATCTACTCCCCGTCTATTACAGAGAGATAAGATCCACCATCTTAGATCTACCCTGATGA
1 TCTTGGATCTACTCCCCGTCGAATACAGAGAGATAAGATCCACCATCTTAGATCTACCCCGATGA
111089791 AGGTCAGATCTGCTACGTCTTTGATCTCCTCCCCGTCGAATATAGAGAGATAAGATCTGTCA
66 AGGTCAGATCTGCTACGTCTTTGATCTCCTCCCCGTCGAATATAGAGAGATAAGATCTGTCA
111089853 TCTT
1 TCTT
111089857 CAACTTGTTC
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
127 118 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (127 bp):
TCTTGGATCTACTCCCCGTCGAATACAGAGAGATAAGATCCACCATCTTAGATCTACCCCGATGA
AGGTCAGATCTGCTACGTCTTTGATCTCCTCCCCGTCGAATATAGAGAGATAAGATCTGTCA
Found at i:111096973 original size:21 final size:22
Alignment explanation
Indices: 111096942--111097104 Score: 62
Period size: 21 Copynumber: 7.4 Consensus size: 22
111096932 ACAATATAAA
*
111096942 AAATATATAAAA-GAATTAGTAT
1 AAATATATAAAATGAA-TAATAT
111096964 AAATA-ATAAAATGAATAATAT
1 AAATATATAAAATGAATAATAT
* * *
111096985 AAA-ACAT-AAATAATATAATAG
1 AAATATATAAAATGA-ATAATAT
*
111097006 ATAATATACT-ATAT-ACATAATAT
1 A-AATATA-TAAAATGA-ATAATAT
*
111097029 ATAATATATAATAA-AAATAATAT
1 A-AATATATAA-AATGAATAATAT
*
111097052 -AATA-AGTAATAT-ATATAATAAAT
1 AAATATA-TAAAATGA-ATAAT--AT
*
111097075 ATAATAAATAAAAT-AA-AATAT
1 A-AATATATAAAATGAATAATAT
111097096 AAATATATA
1 AAATATATA
111097105 TAGGAAAATA
Statistics
Matches: 113, Mismatches: 11, Indels: 36
0.71 0.07 0.22
Matches are distributed among these distances:
20 16 0.14
21 38 0.34
22 11 0.10
23 30 0.27
24 7 0.06
25 10 0.09
26 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (22 bp):
AAATATATAAAATGAATAATAT
Found at i:111096981 original size:16 final size:17
Alignment explanation
Indices: 111096962--111097106 Score: 81
Period size: 16 Copynumber: 8.5 Consensus size: 17
111096952 AAGAATTAGT
*
111096962 ATAA-ATAATAAAATGA
1 ATAATATAATAAAATAA
*
111096978 ATAATATAA-AACATAA
1 ATAATATAATAAAATAA
*
111096994 ATAATATAAT-AGATAA
1 ATAATATAATAAAATAA
* *
111097010 TATACTAT-ATACATAATAT
1 -ATAATATAATA-A-AATAA
111097029 ATAATAT-ATAATAA-AA
1 ATAATATAATAA-AATAA
111097045 ATAATATAATAAGTAATATA
1 ATAATATAATAA--AATA-A
*
111097065 TATAATA-AATATAATAA
1 -ATAATATAATAAAATAA
* *
111097082 ATAAAATAA-AATATAA
1 ATAATATAATAAAATAA
111097098 ATATATATA
1 ATA-ATATA
111097107 GGAAAATAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
16 46 0.45
17 25 0.24
18 17 0.17
19 4 0.04
20 5 0.05
21 6 0.06
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
ATAATATAATAAAATAA
Found at i:111097009 original size:7 final size:7
Alignment explanation
Indices: 111096978--111097104 Score: 88
Period size: 7 Copynumber: 18.4 Consensus size: 7
111096968 AATAAAATGA
111096978 ATAATAT
1 ATAATAT
* *
111096985 AAAACAT
1 ATAATAT
111096992 A-AATAAT
1 ATAAT-AT
*
111096999 ATAATAG
1 ATAATAT
111097006 ATAATAT
1 ATAATAT
*
111097013 ACTATATAC
1 A-TA-ATAT
111097022 ATAATAT
1 ATAATAT
111097029 ATAATAT
1 ATAATAT
111097036 ATAATA-
1 ATAATAT
*
111097042 AAAATAAT
1 ATAAT-AT
111097050 ATAATA-
1 ATAATAT
111097056 AGTAATAT
1 A-TAATAT
111097064 AT-ATA-
1 ATAATAT
111097069 ATAA-AT
1 ATAATAT
*
111097075 ATAATAA
1 ATAATAT
*
111097082 ATAAAAT
1 ATAATAT
*
111097089 AAAATAT
1 ATAATAT
111097096 A-AATAT
1 ATAATAT
111097102 ATA
1 ATA
111097105 TAGGAAAATA
Statistics
Matches: 94, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
5 3 0.03
6 21 0.22
7 54 0.57
8 12 0.13
9 4 0.04
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (7 bp):
ATAATAT
Found at i:111097037 original size:9 final size:9
Alignment explanation
Indices: 111096994--111097106 Score: 58
Period size: 9 Copynumber: 12.3 Consensus size: 9
111096984 TAAAACATAA
111096994 ATAATATA-
1 ATAATATAT
111097002 ATAGATA-AT
1 ATA-ATATAT
*
111097011 ATACTATAT
1 ATAATATAT
*
111097020 A-CATAATAT
1 ATAAT-ATAT
111097029 ATAATATAT
1 ATAATATAT
111097038 AATAA-A-A-
1 -ATAATATAT
111097045 ATAATATAAT
1 ATAATAT-AT
111097055 AAGTAATATAT
1 -A-TAATATAT
*
111097066 ATAATAAAT
1 ATAATATAT
*
111097075 ATAATAAAT
1 ATAATATAT
* *
111097084 AAAATAAAAT
1 ATAAT-ATAT
111097094 ATAAATATAT
1 AT-AATATAT
111097104 ATA
1 ATA
111097107 GGAAAATAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 27
0.70 0.07 0.23
Matches are distributed among these distances:
6 4 0.05
7 1 0.01
8 8 0.10
9 41 0.49
10 17 0.20
11 6 0.07
12 6 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
ATAATATAT
Found at i:111097054 original size:44 final size:43
Alignment explanation
Indices: 111096990--111097130 Score: 110
Period size: 44 Copynumber: 3.2 Consensus size: 43
111096980 AATATAAAAC
* * * *
111096990 ATAAATAATATAATAGATAATATACTATATACATAATATATA-A
1 ATAAATAAAATAAAATATAATATA-TATATACATAATAAATATA
* *
111097033 TATATAATAAAA-ATAATATAATA-AGTAATATATATAATAAATATA
1 -ATA-AATAAAATAAAATATAATATA-T-ATATACATAATAAATATA
* * *
111097078 ATAAATAAAATAAAATATAA-ATATATATAGGAAAATAATATATG
1 ATAAATAAAATAAAATATAATATATATATA-CATAATAA-ATATA
111097122 ATAAATAAA
1 ATAAATAAA
111097131 CATTTTATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
42 5 0.06
43 17 0.22
44 50 0.63
45 7 0.09
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (43 bp):
ATAAATAAAATAAAATATAATATATATATACATAATAAATATA
Found at i:111097293 original size:23 final size:23
Alignment explanation
Indices: 111097267--111097313 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
111097257 AAATGAAACT
* *
111097267 ATAAGGCTAATTTAAAAAATGAA
1 ATAAAGCTAATTTAAAAAAAGAA
**
111097290 ATAAATTTAATTTAAAAAAAGAA
1 ATAAAGCTAATTTAAAAAAAGAA
111097313 A
1 A
111097314 AAAACTGGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.28
Consensus pattern (23 bp):
ATAAAGCTAATTTAAAAAAAGAA
Found at i:111101790 original size:19 final size:19
Alignment explanation
Indices: 111101742--111101853 Score: 147
Period size: 19 Copynumber: 5.8 Consensus size: 19
111101732 AAATTAAATC
* *
111101742 TCTAAGATTACAATGTCATA
1 TCTAAGATTGC-ATATCATA
111101762 TCTTCAAGATTGCATATCATA
1 TC-T-AAGATTGCATATCATA
* *
111101783 TCCAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
111101802 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
111101819 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111101838 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
111101854 CTTAAAGATT
Statistics
Matches: 82, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
17 17 0.21
19 46 0.56
20 2 0.02
21 10 0.12
22 7 0.09
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:111101819 original size:36 final size:37
Alignment explanation
Indices: 111101745--111101853 Score: 139
Period size: 36 Copynumber: 2.8 Consensus size: 37
111101735 TTAAATCTCT
*
111101745 AAGATTACAATGTCATATCTTCAAGATTGCATATCATATCC
1 AAGATTAC-ATATCATATC-T-AAGATTG-ATATCATATCC
*
111101786 AAGATTACATATCATATCTAAGATTG-TATCATATCT
1 AAGATTACATATCATATCTAAGATTGATATCATATCC
*
111101822 AAGATTGCATATCATATCTAAGATTGCATATC
1 AAGATTACATATCATATCTAAGATTG-ATATC
111101854 CTTAAAGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
36 34 0.54
38 11 0.17
39 1 0.02
40 9 0.14
41 8 0.13
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (37 bp):
AAGATTACATATCATATCTAAGATTGATATCATATCC
Found at i:111102689 original size:177 final size:176
Alignment explanation
Indices: 111102291--111102749 Score: 774
Period size: 177 Copynumber: 2.6 Consensus size: 176
111102281 ATAAACACGT
* * *
111102291 GAAAGCCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
*
111102356 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCTCTCCGTCGAATATGGA
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAATATGGA
* **
111102421 GACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATTT
131 GACGCCAGATCTGTTATCTTGGATCTACTTTGATGTGAAAACATCC
*
111102467 GAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
111102532 ATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTTTGAATATGG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCG-TCGAATATGG
* *
111102597 AGATGCCAGATCTGTTATCTTGGATCTACTTTGATGTGAGAACATCC
130 AGACGCCAGATCTGTTATCTTGGATCTACTTTGATGTGAAAACATCC
*
111102644 GAAAGTCAGATCTGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
111102709 ATCTGCTTCAATATAAACATCTGAAGGTTAGATCTGCTATG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATG
111102750 CTTTAGCCTG
Statistics
Matches: 265, Mismatches: 17, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
176 113 0.43
177 152 0.57
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (176 bp):
GAAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAATATGGA
GACGCCAGATCTGTTATCTTGGATCTACTTTGATGTGAAAACATCC
Found at i:111102893 original size:41 final size:40
Alignment explanation
Indices: 111102847--111102985 Score: 122
Period size: 41 Copynumber: 3.4 Consensus size: 40
111102837 ACCTGTTACC
111102847 CTACTGCTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCA
1 CTACTGCTT-AGGGATTAAGGCGAGTCTTCGATCTGCTCCA
* * * * * *
111102888 CTACTGCTTAGGGAGATAAGATCTGCAAAT-TT-AACCTGTTACC-
1 CTACTGCTTAGGGA-TTAAG----GCGAGTCTTCGATCTGCT-CCA
*
111102931 CTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCA
1 CTACTGCTTA-GGGATTAAGGCGAGTCTTCGATCTGCTCCA
111102972 CTACTGCTTAGGGA
1 CTACTGCTTAGGGA
111102986 GATAAGATCT
Statistics
Matches: 74, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
39 4 0.05
40 13 0.18
41 27 0.36
43 18 0.24
44 8 0.11
45 4 0.05
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (40 bp):
CTACTGCTTAGGGATTAAGGCGAGTCTTCGATCTGCTCCA
Found at i:111102958 original size:84 final size:84
Alignment explanation
Indices: 111102751--111103037 Score: 440
Period size: 84 Copynumber: 3.4 Consensus size: 84
111102741 TCTGCTATGC
* * * * *
111102751 TTTAGCCTGTTATCCTACTGCTTAGGGGATTAAGGCGGGTCTTCGTCGATCTGCTCCGCTATTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
111102816 TTAGGGAGATAAGATCTGC--A
63 TTAGGGAGATAAGATCTGCAAA
*
111102836 ---AACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
111102898 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAA
*
111102917 TTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
111102982 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAA
*
111103001 TTTAACCTGTTACCCTTCTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
111103038 CTGAATTTTG
Statistics
Matches: 187, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
79 37 0.20
81 2 0.01
82 34 0.18
84 114 0.61
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAAA
Found at i:111103998 original size:12 final size:12
Alignment explanation
Indices: 111103981--111104016 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
111103971 TGGCCTCTCC
111103981 ATTTTTTCTTTT
1 ATTTTTTCTTTT
111103993 ATTTTTT-TTTCT
1 ATTTTTTCTTT-T
111104005 ATTTTTTCTTTT
1 ATTTTTTCTTTT
111104017 TCTTTTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.14
12 16 0.73
13 3 0.14
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (12 bp):
ATTTTTTCTTTT
Found at i:111104002 original size:15 final size:14
Alignment explanation
Indices: 111103982--111104022 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
111103972 GGCCTCTCCA
111103982 TTTTTTCTTTTATTT
1 TTTTTTCTTTT-TTT
111103997 TTTTTTCTATTTTTT
1 TTTTTTCT-TTTTTT
*
111104012 CTTTTTCTTTT
1 TTTTTTCTTTT
111104023 GAAATAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:111109687 original size:19 final size:19
Alignment explanation
Indices: 111109639--111109749 Score: 111
Period size: 19 Copynumber: 5.8 Consensus size: 19
111109629 AAATTAAATC
* *
111109639 TCCAAGATTACAAGATCATA
1 TCCAAGATTGC-ATATCATA
111109659 TCTTCAAGATTGCATATCATA
1 TC--CAAGATTGCATATCATA
111109680 TCCAAGATTGCATAT-ATA
1 TCCAAGATTGCATATCATA
*
111109698 TCTAAGATTG--TATCATA
1 TCCAAGATTGCATATCATA
* *
111109715 TCTAAGACTGCATATCATA
1 TCCAAGATTGCATATCATA
* *
111109734 TCTAAGATTGCTTATC
1 TCCAAGATTGCATATC
111109750 CTTGAAGATT
Statistics
Matches: 80, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
16 3 0.04
17 12 0.15
18 12 0.15
19 34 0.43
20 2 0.03
21 9 0.11
22 8 0.10
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:111109694 original size:35 final size:36
Alignment explanation
Indices: 111109655--111109745 Score: 116
Period size: 35 Copynumber: 2.6 Consensus size: 36
111109645 ATTACAAGAT
*
111109655 CATATCT-TC-AAGATTGCATATCATATCCAAGATTG
1 CATATCTATCTAAGATTGC-TATCATATCCAAGACTG
* *
111109690 CATATATATCTAAGATTG-TATCATATCTAAGACTG
1 CATATCTATCTAAGATTGCTATCATATCCAAGACTG
111109725 CATATCATATCTAAGATTGCT
1 CATATC-TATCTAAGATTGCT
111109746 TATCCTTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
35 26 0.54
36 14 0.29
37 8 0.17
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (36 bp):
CATATCTATCTAAGATTGCTATCATATCCAAGACTG
Found at i:111110293 original size:31 final size:31
Alignment explanation
Indices: 111110255--111110316 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
111110245 TTAGTCACTA
*
111110255 ACATTTTAGATAATTACTATTTTGGTCATTC
1 ACATTTTAGATAATTACTAATTTGGTCATTC
* **
111110286 ACATTTTAGATAGTTTTTAATTTGGTCATTC
1 ACATTTTAGATAATTACTAATTTGGTCATTC
111110317 TCTATTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.50
Consensus pattern (31 bp):
ACATTTTAGATAATTACTAATTTGGTCATTC
Found at i:111114927 original size:17 final size:17
Alignment explanation
Indices: 111114907--111114939 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
111114897 TAATGTGGAC
111114907 TTGTTAGATGAAGATTT
1 TTGTTAGATGAAGATTT
111114924 TTGTTAGATGAAGATT
1 TTGTTAGATGAAGATT
111114940 ATTATGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (17 bp):
TTGTTAGATGAAGATTT
Found at i:111117961 original size:3 final size:3
Alignment explanation
Indices: 111117947--111118007 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
111117937 TAATTTAAAA
* * * *
111117947 AAT AAT ACT AAT AAT AAT GAT GAT AAT AAT AAT AAT AAC AAT AAT ACA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
111117995 AAT AAT AAAT AAT
1 AAT AAT -AAT AAT
111118008 CTAAAGTTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 44 0.90
4 4 0.08
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:111118184 original size:3 final size:3
Alignment explanation
Indices: 111118178--111118307 Score: 122
Period size: 3 Copynumber: 42.7 Consensus size: 3
111118168 GAAAAATATG
* * *
111118178 ATA ATA ATA ATA GTA ATA ATA ACA ATA ATA ATA ACA ATA AT- ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
*
111118223 ATA ATA ATA TATA TATGA ATA ATA ATA ATA ATA ATA ATA ACAA ATA ATA
1 ATA ATA ATA -ATA -AT-A ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* * * *
111118272 GTA ATG ATA ATA AT- ATA A-A TTA ATA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
111118308 TAATTTGAAA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
2 5 0.05
3 86 0.83
4 12 0.12
5 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:111120056 original size:45 final size:45
Alignment explanation
Indices: 111120000--111120247 Score: 128
Period size: 45 Copynumber: 5.6 Consensus size: 45
111119990 TTTAATATGT
* *
111120000 TCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
* * * ** ** *
111120045 TCCACTGCAACTTCAGAGAGATAAGATT-GGTGGCTAAAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
* ** * * *
111120089 TTCGTTGTAACTTCA-GGAAGATAAGATTCGCCATAT-TTGA-TCTAC
1 TCCACTGCAACTTCAGGGAA-ATAAGATTCG-C-TATCTTCAGTCTGC
* * * ** * * *
111120134 TCCACTGCAAATTCAAGGAGATAAGA-TCTTTAACTTCAATTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
* * * * * *
111120178 TCCACTGCTACTTTAGGGAGATGAGATTTGCTGTCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
* * * *
111120223 TTCGCTGCAACCTCAAGGAAATAAG
1 TCCACTGCAACTTCAGGGAAATAAG
111120248 GCTAGTGGCT
Statistics
Matches: 142, Mismatches: 53, Indels: 16
0.67 0.25 0.08
Matches are distributed among these distances:
42 2 0.01
43 5 0.04
44 55 0.39
45 74 0.52
46 5 0.04
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
Found at i:111120576 original size:44 final size:43
Alignment explanation
Indices: 111120408--111120857 Score: 281
Period size: 44 Copynumber: 10.3 Consensus size: 43
111120398 GTTCCACCAT
* * * * * *
111120408 TGCTTAGGGAGATAAGATCTACAATCTTTAGCCTGCTCTACTGC
1 TGCTTAGGGAGACAAGATCTAC-ATCTTCAGTCTACTCCACTAC
* * * * *
111120452 TGCTCAGGGAGACAAGA-CTA-ATGGCTTAAATCTGCTCC-CTTGC
1 TGCTTAGGGAGACAAGATCTACAT--CTTCAGTCTACTCCAC-TAC
* * *
111120495 TACCTTAAGGAGATAAGATTCGT-CATCTTC-GATCTACTCCACTAC
1 T-GCTTAGGGAGACAAGA-TC-TACATCTTCAG-TCTACTCCACTAC
* * * * *
111120540 TTCTTAGGGAAACAAGATCTACAGTCTTCAGCCTACTCTATTAC
1 TGCTTAGGGAGACAAGATCTACA-TCTTCAGTCTACTCCACTAC
* * * ** * * **
111120584 TGCTTAGGGAGATAGGATGGT--GGCTTAAATCTGTTCCACTAC
1 TGCTTAGGGAGACAAGAT-CTACATCTTCAGTCTACTCCACTAC
** * *
111120626 TGCTTAGGGAGACAAGATTCGCCATCTTC-GATCTGCTCCACCAC
1 TGCTTAGGGAGACAAGA-TCTACATCTTCAG-TCTACTCCACTAC
* * *
111120670 TGCTTAGGGAGACAAGATTTACAATCTTCAGCCTAGTCCACTAC
1 TGCTTAGGGAGACAAGATCTAC-ATCTTCAGTCTACTCCACTAC
** * * *
111120714 TGCTTAGGGAGACAAGACTCGCCATTTTTTA-TCTGCTCCACTAC
1 TGCTTAGGGAGACAAGA-TCTACA-TCTTCAGTCTACTCCACTAC
**
111120758 TGCTTAGGGAGACAAGATTCGCCATCTTC-GATCTACTCCACTAC
1 TGCTTAGGGAGACAAGA-TCTACATCTTCAG-TCTACTCCACTAC
*
111120802 TGCTTAGGGAGACAAGATCTACCATCTTCAGCCTACTCCACTAC
1 TGCTTAGGGAGACAAGATCTA-CATCTTCAGTCTACTCCACTAC
111120846 TGCTTAGGGAGA
1 TGCTTAGGGAGA
111120858 TAGGATCTGT
Statistics
Matches: 313, Mismatches: 67, Indels: 52
0.72 0.16 0.12
Matches are distributed among these distances:
41 2 0.01
42 29 0.09
43 29 0.09
44 225 0.72
45 23 0.07
46 2 0.01
47 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
TGCTTAGGGAGACAAGATCTACATCTTCAGTCTACTCCACTAC
Found at i:111120595 original size:88 final size:88
Alignment explanation
Indices: 111120498--111120859 Score: 328
Period size: 88 Copynumber: 4.1 Consensus size: 88
111120488 CCCTTGCTAC
* * * *
111120498 CTTAAGGAGATAAGATTCGTCATCTTCGATCTACTCCACTACTTCTTAGGGAAACAAGA-TCTAC
1 CTTAGGGAGATAAGATTCGTCATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGACTCGAC
* *
111120562 AGTCTTCAGCCTACTCTATTACTG
66 A-TCTTCAGCCTACTCCACTACTG
* * ** ** ** * *
111120586 CTTAGGGAGATAGGA-TGGT-GGCTTAAATCTGTTCCACTACTGCTTAGGGAGACAAGATTCGCC
1 CTTAGGGAGATAAGATTCGTCATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGACTCGAC
* * *
111120649 ATCTTC-GATCTGCTCCACCACTG
66 ATCTTCAG-CCTACTCCACTACTG
* * *
111120672 CTTAGGGAGACAAGATT--TACAATCTTC-AGCCTAGTCCACTACTGCTTAGGGAGACAAGACTC
1 CTTAGGGAGATAAGATTCGT-C-ATCTTCGA-TCTACTCCACTACTGCTTAGGGAGACAAGACTC
* * * * *
111120734 GCCATTTTTTA-TCTGCTCCACTACTG
63 GACA-TCTTCAGCCTACTCCACTACTG
* * *
111120760 CTTAGGGAGACAAGATTCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGA-TCTAC
1 CTTAGGGAGATAAGATTCGTCATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGACTCGA-
111120824 CATCTTCAGCCTACTCCACTACTG
65 CATCTTCAGCCTACTCCACTACTG
111120848 CTTAGGGAGATA
1 CTTAGGGAGATA
111120860 GGATCTGTGA
Statistics
Matches: 220, Mismatches: 40, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
85 2 0.01
86 58 0.26
87 15 0.07
88 140 0.64
89 5 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (88 bp):
CTTAGGGAGATAAGATTCGTCATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGACTCGAC
ATCTTCAGCCTACTCCACTACTG
Found at i:111120695 original size:262 final size:260
Alignment explanation
Indices: 111120388--111120863 Score: 663
Period size: 262 Copynumber: 1.8 Consensus size: 260
111120378 AAATTCATTG
* * * * * *
111120388 TCTTCGATCTGTTCCACCATTGCTTAGGGAGATAAGATCTACAATCTTTAGCCT-GCTCTACTGC
1 TCTTCGATCTGCTCCACCACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTAG-TCCACTAC
* *
111120452 TGCTCAGGGAGACAAGACT-AATGGCTTAAATCTGCTCC-CTTGCTACCTTAAGGAGATAAGATT
65 TGCTCAGGGAGACAAGACTCAAT--CTTAAATCTGCTCCAC-TACT-CCTTAAGGAGACAAGATT
* * *
111120515 CGTCATCTTCGATCTACTCCACTACTTCTTAGGGAAACAAGATCTA-CAGTCTTCAGCCTACTCT
126 CGCCATCTTCGATCTACTCCACTACTGCTTAGGGAAACAAGATCTACCA-TCTTCAGCCTACTCC
*
111120579 ATTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGTTCCACTACTGCTTAGGGAGACAAGAT
190 ACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGTTCCACTACTGCTTAGGGAGACAAGAT
111120644 TCGCCA
255 TCGCCA
*
111120650 TCTTCGATCTGCTCCACCACTGCTTAGGGAGACAAGATTTACAATCTTCAGCCTAGTCCACTACT
1 TCTTCGATCTGCTCCACCACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTAGTCCACTACT
* * * ** * *
111120715 GCTTAGGGAGACAAGACTCGCCATTTTTTATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGC
66 GCTCAGGGAGACAAGACT--CAATCTTAAATCTGCTCCACTACTCCTTAAGGAGACAAGATTCGC
*
111120780 CATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACCATCTTCAGCCTACTCCACTA
129 CATCTTCGATCTACTCCACTACTGCTTAGGGAAACAAGATCTACCATCTTCAGCCTACTCCACTA
111120845 CTGCTTAGGGAGATAGGAT
194 CTGCTTAGGGAGATAGGAT
111120864 CTGTGAATTT
Statistics
Matches: 187, Mismatches: 21, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
262 167 0.89
263 17 0.09
264 1 0.01
265 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (260 bp):
TCTTCGATCTGCTCCACCACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTAGTCCACTACT
GCTCAGGGAGACAAGACTCAATCTTAAATCTGCTCCACTACTCCTTAAGGAGACAAGATTCGCCA
TCTTCGATCTACTCCACTACTGCTTAGGGAAACAAGATCTACCATCTTCAGCCTACTCCACTACT
GCTTAGGGAGATAGGATGGTGGCTTAAATCTGTTCCACTACTGCTTAGGGAGACAAGATTCGCCA
Found at i:111120791 original size:132 final size:130
Alignment explanation
Indices: 111120388--111120857 Score: 543
Period size: 132 Copynumber: 3.6 Consensus size: 130
111120378 AAATTCATTG
** * * * * * *
111120388 TCTTCGATCTGTTCCACCATTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTGCTCTACTGCT
1 TCTTCGATCTACTCCACCACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACT
* * * * *
111120453 GCTCAGGGAGACAAGACT-AATGGCTTAAATCTGCTCC-CTTGCTACCTTAAGGAGATAAGATTC
66 GCTTAGGGAGACAAGACTGAAT--CTTAAATCTGCTCCAC-TACT-GCTTAGGGAGACAAGATTC
*
111120516 GTCA
127 GCCA
* * * * * *
111120520 TCTTCGATCTACTCCACTACTTCTTAGGGAAACAAGATCTACAGTCTTCAGCCTACTCTATTACT
1 TCTTCGATCTACTCCACCACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACT
* * * *
111120585 GCTTAGGGAGATAGGA-TG-GTGGCTTAAATCTGTTCCACTACTGCTTAGGGAGACAAGATTCGC
66 GCTTAGGGAGACAAGACTGAAT--CTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGC
111120648 CA
129 CA
* * *
111120650 TCTTCGATCTGCTCCACCACTGCTTAGGGAGACAAGATTTACAATCTTCAGCCTAGTCCACTACT
1 TCTTCGATCTACTCCACCACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACT
* * **
111120715 GCTTAGGGAGACAAGACTCGCCATTTTTTATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGC
66 GCTTAGGGAGACAAGACT-G-AATCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGC
111120780 CA
129 CA
* *
111120782 TCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACCATCTTCAGCCTACTCCACTACT
1 TCTTCGATCTACTCCACCACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACT
111120847 GCTTAGGGAGA
66 GCTTAGGGAGA
111120858 TAGGATCTGT
Statistics
Matches: 289, Mismatches: 43, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
130 89 0.31
131 21 0.07
132 178 0.62
134 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (130 bp):
TCTTCGATCTACTCCACCACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACT
GCTTAGGGAGACAAGACTGAATCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGCCA
Found at i:111121442 original size:24 final size:22
Alignment explanation
Indices: 111121393--111121437 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
111121383 AGAGTATCAT
*
111121393 TTTTCTTTTTTGAGAAATATCC
1 TTTTCTTTTTTGAGAAAGATCC
111121415 TTTTCTTTTTTGAGAAAGATCC
1 TTTTCTTTTTTGAGAAAGATCC
111121437 T
1 T
111121438 CTTTTACACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.53
Consensus pattern (22 bp):
TTTTCTTTTTTGAGAAAGATCC
Found at i:111127233 original size:40 final size:40
Alignment explanation
Indices: 111127189--111127265 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
111127179 TTATAGTACC
111127189 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCAT
1 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCAT
*
111127229 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCC
1 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCC
111127266 GACATGGTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.13, C:0.17, G:0.35, T:0.35
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCAT
Found at i:111129265 original size:29 final size:30
Alignment explanation
Indices: 111129206--111129268 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
111129196 AAATATACTT
111129206 TTTAGTCCCTATATTTTTATATATTTGAAA
1 TTTAGTCCCTATATTTTTATATATTTGAAA
* *
111129236 TTTAGTCTCTTTATTTTTAT-T-TTTAGAAA
1 TTTAGTCCCTATATTTTTATATATTT-GAAA
111129265 TTTA
1 TTTA
111129269 TTCATACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 3 0.10
29 9 0.30
30 18 0.60
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (30 bp):
TTTAGTCCCTATATTTTTATATATTTGAAA
Found at i:111129490 original size:29 final size:31
Alignment explanation
Indices: 111129440--111129497 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
111129430 ACTTACATTT
* *
111129440 TTAAATATAAAAAATAATGAGATTAAATTCC
1 TTAAATATAAAAAATAAAGAGAATAAATTCC
*
111129471 TTAAA-AT-AAAAGTAAAGAGAATAAATT
1 TTAAATATAAAAAATAAAGAGAATAAATT
111129498 TCAAATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.71
30 2 0.08
31 5 0.21
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (31 bp):
TTAAATATAAAAAATAAAGAGAATAAATTCC
Found at i:111130954 original size:20 final size:20
Alignment explanation
Indices: 111130929--111130969 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
111130919 ATTTAATAGT
111130929 TATAATGACTTATTTGGTCC
1 TATAATGACTTATTTGGTCC
111130949 TATAATGACTTATTTGGTCC
1 TATAATGACTTATTTGGTCC
111130969 T
1 T
111130970 CAAATTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
TATAATGACTTATTTGGTCC
Found at i:111131176 original size:30 final size:30
Alignment explanation
Indices: 111131142--111131213 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 30
111131132 TTTAAAAGTA
111131142 AAATATTATTAAAATATTTTTTT-ACTTTTT
1 AAATATT-TTAAAATATTTTTTTAACTTTTT
*
111131172 AAATAATTTT--AATATTTTTTTGAATTTTTT
1 AAAT-ATTTTAAAATATTTTTTT-AACTTTTT
111131202 AAA-ATTTTAAAA
1 AAATATTTTAAAA
111131214 ATTAATTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
28 16 0.44
30 17 0.47
31 3 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (30 bp):
AAATATTTTAAAATATTTTTTTAACTTTTT
Found at i:111131185 original size:28 final size:28
Alignment explanation
Indices: 111131154--111131211 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
111131144 ATATTATTAA
*
111131154 AATATTTTTTT-ACTTTTTAAATAATTTT
1 AATATTTTTTTGAATTTTTAAA-AATTTT
*
111131182 AATATTTTTTTGAATTTTTTAAAATTTT
1 AATATTTTTTTGAATTTTTAAAAATTTT
111131210 AA
1 AA
111131212 AAATTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
AATATTTTTTTGAATTTTTAAAAATTTT
Found at i:111140859 original size:31 final size:31
Alignment explanation
Indices: 111140821--111140882 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
111140811 AAATGATGCT
111140821 ATTACTATTTTGGTCATTCACATTTTAGATA
1 ATTACTATTTTGGTCATTCACATTTTAGATA
111140852 ATTACTATTTTGGTCATTCACATTTTAGATA
1 ATTACTATTTTGGTCATTCACATTTTAGATA
111140883 GTTTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (31 bp):
ATTACTATTTTGGTCATTCACATTTTAGATA
Found at i:111140895 original size:31 final size:31
Alignment explanation
Indices: 111140821--111140898 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
111140811 AAATGATGCT
*
111140821 ATTACTATTTTGGTCATTCACATTTTAGATA
1 ATTACTAATTTGGTCATTCACATTTTAGATA
*
111140852 ATTACTATTTTGGTCATTCACATTTTAGATA
1 ATTACTAATTTGGTCATTCACATTTTAGATA
* **
111140883 GTTTTTAATTTGGTCA
1 ATTACTAATTTGGTCA
111140899 CTCTCTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.50
Consensus pattern (31 bp):
ATTACTAATTTGGTCATTCACATTTTAGATA
Found at i:111166700 original size:177 final size:176
Alignment explanation
Indices: 111166428--111167175 Score: 1056
Period size: 177 Copynumber: 4.2 Consensus size: 176
111166418 AGTGGCAGTG
* * * * *
111166428 GAGCAGGTTCAAAATGTGGTCTTATCTTCCTCAGGTAGAAATGAAGCAGACTGAAGATTGAAGAT
1 GAGCAGGTTGAAGATGTGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
111166493 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATCGGCAA
66 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATCGGCAA
* * * *
111166558 GGGAGTAAATTTTAGCCACC-AGCCTTATCTCTCTGAGGTAGCAAGA
131 TGGAGCAGATTTAAGCC-CCAAGCCTTATCTCTCTGAGGTAGCAAGA
* * *
111166604 GAGCAGGTTGAAGATGGTGGTCTTATCTTCTTGAGGTAGTAAGGAAGCAGACTGAAAATTGAAGA
1 GAGCAGGTTGAAGAT-GTGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGA
* *
111166669 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGTGAATCTTATCTCCATGTATCTGCA
65 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATCGGCA
* * *
111166734 ATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGA
130 ATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGA
* * *
111166781 GAGCAAGTTGAAGATAGTGGTCTTATCTTCCTGAGGTAGCAATGAAGCAGACTGATGATTGAAGA
1 GAGCAGGTTGAAGAT-GTGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGA
* * * * * *
111166846 TCTTATCTTCCTAAGCATTAGTGGAACAGATTGGAAGAGG-TAGATCTTATCTCCATGTA-CTGG
65 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGA-ATCTTATCTCCATGTATC-GG
* *
111166909 CAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTTTGAGGTAGTAAGA
128 CAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGA
* *
111166958 GAACAGGTTGAAGAT-TGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGA
1 GAGCAGGTTGAAGATGTG-GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGA
* * * * *
111167022 TCTTATCTCCCTAAGTAGTAGTGGAGCAAATCGGAAGAGGCGGATCTTATCTCCATGTATCAGCA
65 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATCGGCA
* *
111167087 ATGGAGCTGATTTAAGCCCCAAGCCTTATCTCTCTAAGGTAGCAAGA
130 ATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGA
*
111167134 GAGCTGGTTGAAGAT-TGAGTCTTATCTTCCTGAGGTAGCAAG
1 GAGCAGGTTGAAGATGTG-GTCTTATCTTCCTGAGGTAGCAAG
111167176 ATCGAAAATG
Statistics
Matches: 512, Mismatches: 53, Indels: 14
0.88 0.09 0.02
Matches are distributed among these distances:
175 2 0.00
176 194 0.38
177 316 0.62
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (176 bp):
GAGCAGGTTGAAGATGTGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGAATCTTATCTCCATGTATCGGCAA
TGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGA
Found at i:111167146 original size:133 final size:125
Alignment explanation
Indices: 111166978--111167261 Score: 299
Period size: 125 Copynumber: 2.2 Consensus size: 125
111166968 AAGATTGAGT
111166978 CTTATCT-TCCTAAGGTAGCAAG-GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGT
1 CTTATCTCT-CTAAGGTAGCAAGAG-AGCAGACTGAAGATTG-AG-TCTTATCTCCCT--G-AG-
* * *
111167041 AGTGGAGCAA-ATCGGAAGA-GGCGGATCTTATCTCCATGTATCAGCAATGGAGCTGATTTAAGC
58 -GT--AGCAAGATC-GAAAATGGCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGC
111167104 C-CCAAGC
119 CACC-AGC
* ** *
111167111 CTTATCTCTCTAAGGTAGCAAGAGAGCTGGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAG
1 CTTATCTCTCTAAGGTAGCAAGAGAGCAGACTGAAGATTGAGTCTTATCTCCCTGAGGTAGCAAG
* * * *
111167176 ATCGAAAATGGTGAATCTTATCTCTATGTATCGGTAATGGAGCAGATTTAAGCCACCAGC
66 ATCGAAAATGGCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACCAGC
* *
111167236 GTTATCTCTCTAAAGTAGCAAGAGAG
1 CTTATCTCTCTAAGGTAGCAAGAGAG
111167262 TAGGTTTTCG
Statistics
Matches: 133, Mismatches: 13, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
124 9 0.07
125 69 0.52
126 4 0.03
128 2 0.02
129 1 0.01
131 11 0.08
132 2 0.02
133 33 0.25
134 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (125 bp):
CTTATCTCTCTAAGGTAGCAAGAGAGCAGACTGAAGATTGAGTCTTATCTCCCTGAGGTAGCAAG
ATCGAAAATGGCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACCAGC
Found at i:111167224 original size:125 final size:126
Alignment explanation
Indices: 111167065--111167301 Score: 345
Period size: 125 Copynumber: 1.9 Consensus size: 126
111167055 GAAGAGGCGG
* *
111167065 ATCTTATCTCCATGTATCAGCAATGGAGCTGATTTAAGCC-CCAAGCCTTATCTCTCTAAGGTAG
1 ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACC-AGCCTTATCTCTCTAAAGTAG
*
111167129 CAAGAGAGCT-GGTTGAAGATTG-AGTCTTATCTTCCTGAGGTAGCAAGATCGAAAATGGTGA
65 CAAGAGAG-TAGGTTGAAGATTGTAGTCTTATCTTCCTGAAGTAGCAAGATCGAAAATGGTGA
* * * *
111167190 ATCTTATCTCTATGTATCGGTAATGGAGCAGATTTAAGCCACCAGCGTTATCTCTCTAAAGTAGC
1 ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAAGTAGC
***
111167255 AAGAGAGTAGGTTTTCGATTGTAGTCTTATCTTCCTGAAGTAGCAAG
66 AAGAGAGTAGGTTGAAGATTGTAGTCTTATCTTCCTGAAGTAGCAAG
111167302 GAAGCAGATT
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
124 1 0.01
125 72 0.73
126 26 0.26
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (126 bp):
ATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAAGTAGC
AAGAGAGTAGGTTGAAGATTGTAGTCTTATCTTCCTGAAGTAGCAAGATCGAAAATGGTGA
Found at i:111167500 original size:51 final size:51
Alignment explanation
Indices: 111167445--111167543 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
111167435 AAGAAGTCAG
111167445 GATTCAGTAAGACTGGGCAAAATGGTCCTTTTGAAGTCTTTGCTCTATCAA
1 GATTCAGTAAGACTGGGCAAAATGGTCCTTTTGAAGTCTTTGCTCTATCAA
111167496 GATTCAGTAAGACTGGGCAAAATGGTCCTTTTGAAGTCTTTGCTCTAT
1 GATTCAGTAAGACTGGGCAAAATGGTCCTTTTGAAGTCTTTGCTCTAT
111167544 TCTCGCTACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (51 bp):
GATTCAGTAAGACTGGGCAAAATGGTCCTTTTGAAGTCTTTGCTCTATCAA
Found at i:111178072 original size:24 final size:24
Alignment explanation
Indices: 111178009--111178060 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
111177999 TTTCTAGAAG
* * *
111178009 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
111178033 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
111178057 ATTT
1 ATTT
111178061 TACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:111181541 original size:50 final size:50
Alignment explanation
Indices: 111181487--111181588 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
111181477 ATTGGTTTAA
111181487 CAAATGCTTACCCTTAATTCAAAGCCAATTTAATATTAACTTTACTAAAT
1 CAAATGCTTACCCTTAATTCAAAGCCAATTTAATATTAACTTTACTAAAT
111181537 CAAATGCTTACCCTTAATTCAAAGCCAATTTAATATTAACTTTACTAAAT
1 CAAATGCTTACCCTTAATTCAAAGCCAATTTAATATTAACTTTACTAAAT
111181587 CA
1 CA
111181589 TGAGTTCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (50 bp):
CAAATGCTTACCCTTAATTCAAAGCCAATTTAATATTAACTTTACTAAAT
Found at i:111183696 original size:241 final size:240
Alignment explanation
Indices: 111183244--111184335 Score: 1508
Period size: 241 Copynumber: 4.5 Consensus size: 240
111183234 AACTCTAACA
** * * * *
111183244 ATTAATTCAACTCTCAATTAAGGATCAAGATTTATTAGATAAACAAATTAGATTGATTGAAATTG
1 ATTAATTTGACTCTCAATTAAGGATCAACATTTATTAGATAAACAAACTAGATCGATTGAAATCG
* * *
111183309 ACTATGACCAATCTATAAATTAGTACCCATTTATCTAGTTTTAACACATATAAGATGCTTTCCAA
66 ACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACACATATAAGATGCTTTCCAA
* * * *
111183374 TGCTCATAGCTTAATAATGTCAACTTTGCTAGATTATGAGCCTAATTTTTATTTCTTCATCATCG
131 TGCTCGTAGCTTTATAATGTCAACTTTGCTAGATTATGAGCCTAATTTTCATTTCTTCATCATCA
* * *
111183439 CATGCAAATGAAAGGAAAGTTAGACTCATAATTCAGCAAAGTCGAC
196 CATGCAAAT-AAAAGAAAATTAGACTCATAATTCAACAAAGTCGAC
* * * *
111183485 ACTATTTTGGCTCTCAATTAAGGATCAACATTTATTAGATGAACAAACTAGATCGATTGAAATCG
1 ATTAATTTGACTCTCAATTAAGGATCAACATTTATTAGATAAACAAACTAGATCGATTGAAATCG
*
111183550 ACCATGATCAGTCTATTAATTAGTACCCATTTATCTAGTTTTAACACATATAAGATGCTTTCCAA
66 ACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACACATATAAGATGCTTTCCAA
* * *
111183615 TGCTCGTAGCTTTATAATGTCAACTTTGCTGGATTATGACCCTAATTTTCATTTCTTCTTCATCA
131 TGCTCGTAGCTTTATAATGTCAACTTTGCTAGATTATGAGCCTAATTTTCATTTCTTCATCATCA
* * *
111183680 CACGAAAATAAAAGGAAAGTTAGACTCATAATTCAACAAAGTCGAC
196 CATGCAAATAAAA-GAAAATTAGACTCATAATTCAACAAAGTCGAC
* * * *
111183726 ATTAATTTGACTCTCAATTAAGGATCAACATTAATTAGAGAAACAAACTAGATCGATTGAAACCA
1 ATTAATTTGACTCTCAATTAAGGATCAACATTTATTAGATAAACAAACTAGATCGATTGAAATCG
*
111183791 ACCATGATCAATCTATTAGTTAGTACCCATTTATCTAGTTTTAACACATATAAGATGCTTTCCAA
66 ACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACACATATAAGATGCTTTCCAA
* * *
111183856 TACTCGTAGCTTTATAATGTCAACTTTGCTAGATTATGAGCCTAATTTTCATTTCATCATCATCG
131 TGCTCGTAGCTTTATAATGTCAACTTTGCTAGATTATGAGCCTAATTTTCATTTCTTCATCATCA
* *
111183921 CATGCAAATGAAAGAAAATTAGACTCATAATTCAGCAAAGTCGAC
196 CATGCAAATAAAAGAAAATTAGACTCATAATTCAACAAAGTCGAC
* * *
111183966 ATTAATTTGACTCTCAATTAAGGATCAACATTTATTAAATAAACAAACTCGATCGATTGAAATTG
1 ATTAATTTGACTCTCAATTAAGGATCAACATTTATTAGATAAACAAACTAGATCGATTGAAATCG
* * * * *
111184031 ACCATGATCGATCTATTAATTAGTACCTACTTATCTAGTTTTAACAAATATAAGATGCTTTCTAA
66 ACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACACATATAAGATGCTTTCCAA
* * * *
111184096 TGCTCGTAGAC-TTATAATGTCAATTTTGTTGGATTATGAAG-GTAATTTTTCATTTCTTCATCA
131 TGCTCGTAG-CTTTATAATGTCAACTTTGCTAGATTATG-AGCCTAA-TTTTCATTTCTTCATC-
* * * *
111184159 ATTACATGCAAATGAAAAGAAAACTAAACTCATAATTCAACAAAGTCAAC
192 ATCACATGCAAAT-AAAAGAAAATTAGACTCATAATTCAACAAAGTCGAC
* * * * * *
111184209 ATTAATTTGGCTCTCAATTAAGGATGAAC-TTTATTAGATAAACAAATTAAATCAATTGAGAGT-
1 ATTAATTTGACTCTCAATTAAGGATCAACATTTATTAGATAAACAAACTAGATCGATTGA-AATC
* * * * *
111184272 GACCATGATCCATTTATTAATTAGTACCCATTAATCTAGTTTTAACAAATATAAGATGTTTTCC
65 GACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACACATATAAGATGCTTTCC
111184336 TAGATTATGA
Statistics
Matches: 757, Mismatches: 87, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
240 185 0.24
241 419 0.55
242 93 0.12
243 60 0.08
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (240 bp):
ATTAATTTGACTCTCAATTAAGGATCAACATTTATTAGATAAACAAACTAGATCGATTGAAATCG
ACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACACATATAAGATGCTTTCCAA
TGCTCGTAGCTTTATAATGTCAACTTTGCTAGATTATGAGCCTAATTTTCATTTCTTCATCATCA
CATGCAAATAAAAGAAAATTAGACTCATAATTCAACAAAGTCGAC
Found at i:111192077 original size:27 final size:27
Alignment explanation
Indices: 111192022--111192073 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
111192012 TTGAATTAAC
* *
111192022 TATGTCACATTATTTTATTTAAATTAA
1 TATGTCACATTAGTTTATTTAAATAAA
111192049 TATGTCACATT-GTTTA-TTAAATAAA
1 TATGTCACATTAGTTTATTTAAATAAA
111192074 AATAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 8 0.35
26 4 0.17
27 11 0.48
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (27 bp):
TATGTCACATTAGTTTATTTAAATAAA
Found at i:111192613 original size:29 final size:29
Alignment explanation
Indices: 111192521--111192615 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
111192511 TATAAATTTC
* *
111192521 TAAAATAAAGATCAAATTGACATAATGTG
1 TAAAATTAGGATCAAATTGACATAATGTG
* * * * *
111192550 TAAACATTGTAGG-TTAAATTTA-TTGAATTTT
1 TAAA-A-T-TAGGATCAAATTGACAT-AATGTG
111192581 TAAAATTAGGATCAAATTGACATAATGTG
1 TAAAATTAGGATCAAATTGACATAATGTG
111192610 TAAAAT
1 TAAAAT
111192616 ATCAAAGATT
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
28 4 0.08
29 22 0.46
30 4 0.08
31 16 0.33
32 2 0.04
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (29 bp):
TAAAATTAGGATCAAATTGACATAATGTG
Found at i:111193906 original size:7 final size:7
Alignment explanation
Indices: 111193894--111193919 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
111193884 ATAATATAAT
111193894 AATATAC
1 AATATAC
111193901 AATATAC
1 AATATAC
111193908 AATATAC
1 AATATAC
111193915 AATAT
1 AATAT
111193920 TATCATTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (7 bp):
AATATAC
Found at i:111194888 original size:8 final size:10
Alignment explanation
Indices: 111194861--111194887 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
111194851 GAATGTACTT
111194861 TTATATATAG
1 TTATATATAG
111194871 TTATATATAG
1 TTATATATAG
111194881 TTATATA
1 TTATATA
111194888 GAAAACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TTATATATAG
Found at i:111198538 original size:6 final size:7
Alignment explanation
Indices: 111198518--111198545 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
111198508 AATCAAATGG
111198518 TTATTTT
1 TTATTTT
111198525 TTATTTT
1 TTATTTT
111198532 TTATTTT
1 TTATTTT
111198539 TTATTTT
1 TTATTTT
111198546 CTTTTCCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTATTTT
Found at i:111200573 original size:57 final size:57
Alignment explanation
Indices: 111200511--111200625 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
111200501 TAAGCATAAA
*
111200511 ATATCTATTAATAAACACTGGAAATGATGCATAAATTTTATAATGTAGATAAAACTG
1 ATATCTATTAATAAACACTGGAAATGATGCATAAATTTTATAATGTAGACAAAACTG
111200568 ATATCTATTAATAAACACTGGAAATGATGCATAAATTTTATAATGTAGACAAAACTG
1 ATATCTATTAATAAACACTGGAAATGATGCATAAATTTTATAATGTAGACAAAACTG
111200625 A
1 A
111200626 AAATACGATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (57 bp):
ATATCTATTAATAAACACTGGAAATGATGCATAAATTTTATAATGTAGACAAAACTG
Found at i:111208012 original size:16 final size:17
Alignment explanation
Indices: 111207991--111208024 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
111207981 ATTCTATTAT
111207991 ATATAATTTAAT-TTTA
1 ATATAATTTAATATTTA
111208007 ATATAATTTAATATTTA
1 ATATAATTTAATATTTA
111208024 A
1 A
111208025 ACTTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATAATTTAATATTTA
Found at i:111208086 original size:18 final size:19
Alignment explanation
Indices: 111208046--111208087 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
111208036 ATCATTAGTT
*
111208046 AATTTAAATACTTCATTTT
1 AATTTAAATACTTCATTTG
* *
111208065 AATTTAAAT-GTTTATTTG
1 AATTTAAATACTTCATTTG
111208083 AATTT
1 AATTT
111208088 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
AATTTAAATACTTCATTTG
Found at i:111213246 original size:42 final size:43
Alignment explanation
Indices: 111213162--111213246 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
111213152 CTTAAATGAA
111213162 TAATTGATTCTCACACTGTAGCTATTTTTTTTTCCCTTTGGTT
1 TAATTGATTCTCACACTGTAGCTATTTTTTTTTCCCTTTGGTT
*
111213205 TAATTGATTCTCACACTGTAGCTATTTTTTTTT-TCTTTGGTT
1 TAATTGATTCTCACACTGTAGCTATTTTTTTTTCCCTTTGGTT
111213247 CTTTGTCCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 8 0.20
43 33 0.80
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.55
Consensus pattern (43 bp):
TAATTGATTCTCACACTGTAGCTATTTTTTTTTCCCTTTGGTT
Found at i:111219862 original size:15 final size:17
Alignment explanation
Indices: 111219829--111219875 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 17
111219819 AAAAAAACAT
111219829 TTTTTTATTGTATAATA
1 TTTTTTATTGTATAATA
*
111219846 TTTTTTATT-TA-ATTA
1 TTTTTTATTGTATAATA
*
111219861 TTTTTTATTATATAA
1 TTTTTTATTGTATAA
111219876 AATTATGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 12 0.46
16 4 0.15
17 10 0.38
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTTTATTGTATAATA
Found at i:111225226 original size:10 final size:10
Alignment explanation
Indices: 111225208--111225261 Score: 78
Period size: 9 Copynumber: 5.7 Consensus size: 10
111225198 ACCGAGTTCG
*
111225208 ATTATAAATT
1 ATTAAAAATT
111225218 ATTAAAAATT
1 ATTAAAAATT
111225228 -TTAAAAATT
1 ATTAAAAATT
111225237 ATTAAAAA-T
1 ATTAAAAATT
111225246 ATTAAAAATT
1 ATTAAAAATT
111225256 A-TAAAA
1 ATTAAAA
111225262 TTTGATTCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
9 23 0.56
10 18 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:111225237 original size:19 final size:19
Alignment explanation
Indices: 111225208--111225261 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
111225198 ACCGAGTTCG
*
111225208 ATTATAAATTATTAAAAAT
1 ATTAAAAATTATTAAAAAT
*
111225227 TTTAAAAATTATTAAAAAT
1 ATTAAAAATTATTAAAAAT
111225246 ATTAAAAATTA-TAAAA
1 ATTAAAAATTATTAAAA
111225262 TTTGATTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 5 0.16
19 27 0.84
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTAAAAATTATTAAAAAT
Found at i:111225273 original size:18 final size:18
Alignment explanation
Indices: 111225252--111225286 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
111225242 AAATATTAAA
*
111225252 AATTATAAAATTTGATTC
1 AATTATAAAATTAGATTC
111225270 AATTATAAAATTAGATT
1 AATTATAAAATTAGATT
111225287 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (18 bp):
AATTATAAAATTAGATTC
Found at i:111227812 original size:42 final size:42
Alignment explanation
Indices: 111227765--111227847 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
111227755 CTTTGAAATA
*
111227765 TCAATAATAATTAAGCATCACCATCATAATAATAACACATAT
1 TCAATAATAATTAAGCATCACCATCATAATAACAACACATAT
*
111227807 TCAATAATGATTAAGCATCACCATCATAATAACAACACATA
1 TCAATAATAATTAAGCATCACCATCATAATAACAACACATA
111227848 AATATGCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (42 bp):
TCAATAATAATTAAGCATCACCATCATAATAACAACACATAT
Done.