Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 100 of 185
Found at i:31717485 original size:43 final size:43
Alignment explanation
Indices: 31717314--31717652 Score: 417
Period size: 43 Copynumber: 8.0 Consensus size: 43
31717304 TACAATGCCC
*
31717314 CTATAGACCATGGTCTTTAGCGGCGCTTAA--ATAAAAACGCCA
1 CTATAGACGATGGTCTTTAGCGGCGCTTAACCA-AAAAACGCCA
*
31717356 CTATAGACTATGGTCTTTAGCGGCGCTTAA--AATAAAACGCCA
1 CTATAGACGATGGTCTTTAGCGGCGCTTAACCAA-AAAACGCCA
* * *
31717398 TTATAGACCG-T-GTGTTTAGTGGCGCTT-ACCAAAAAACGCCA
1 CTATAGA-CGATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCA
31717439 CTATAGACGATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCA
1 CTATAGACGATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCA
*
31717482 CTATAGACCG-TGGTCTTTAGCGGCGCTTAACCAAAAAACACCA
1 CTATAGA-CGATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCA
** *
31717525 CTATAGACCG-TGGTCTTTAGCGGCGCTTAGGCTAAAAACGCCA
1 CTATAGA-CGATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCA
* ** *
31717568 CTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAAAACGCCA
1 CTATAGACGATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCA
* * **
31717611 CTATAGACCATGGTCTTTAGTGGCGCTTATGCAAAAAACGCC
1 CTATAGACGATGGTCTTTAGCGGCGCTTAACCAAAAAACGCC
31717653 GCTAATTTTG
Statistics
Matches: 270, Mismatches: 18, Indels: 17
0.89 0.06 0.06
Matches are distributed among these distances:
40 3 0.01
41 31 0.11
42 63 0.23
43 171 0.63
44 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (43 bp):
CTATAGACGATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCA
Found at i:31717596 original size:129 final size:125
Alignment explanation
Indices: 31717314--31717649 Score: 469
Period size: 129 Copynumber: 2.6 Consensus size: 125
31717304 TACAATGCCC
*
31717314 CTATAGACCATGGTCTTTAGCGGCGCTTAA-ATAAAAACGCCACTATAGACTATGGTCTTTAGCG
1 CTATAGACCATGGTCTTTAGCGGCGCTTAACA-AAAAACGCCACTATAGACCATGGTCTTTAGCG
* * * *
31717378 GCGCTTAA-AATAAAACGCCATTATAGACCGTGTGTTTAGTGGCGCTTACCAAAAAACGCCA
65 GCGCTTAACAA-AAAACACCACTATAGACCGTGTCTTTAGCGGCGCTTACCAAAAAACGCCA
* *
31717439 CTATAGACGATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCACTATAGACCGTGGTCTTTAGCG
1 CTATAGACCATGGTCTTTAGCGGCGCTTAA-CAAAAAACGCCACTATAGACCATGGTCTTTAGCG
* *
31717504 GCGCTTAACCAAAAAACACCACTATAGACCGTGGTCTTTAGCGGCGCTTAGGCTAAAAACGCCA
65 GCGCTTAA-CAAAAAACACCACTATAGACCGT-GTCTTTAGCGGCGCTTA-CCAAAAAACGCCA
* * *
31717568 CTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAAAACGCCACTATAGACCATGGTCTTTAGTG
1 CTATAGACCATGGTCTTTAGCGGCGCTTA-ACAAAAAACGCCACTATAGACCATGGTCTTTAGCG
*
31717633 GCGCTTATGCAAAAAAC
65 GCGCTTA-ACAAAAAAC
31717650 GCCGCTAATT
Statistics
Matches: 188, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
125 29 0.15
126 38 0.20
127 19 0.10
128 17 0.09
129 85 0.45
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (125 bp):
CTATAGACCATGGTCTTTAGCGGCGCTTAACAAAAAACGCCACTATAGACCATGGTCTTTAGCGG
CGCTTAACAAAAAACACCACTATAGACCGTGTCTTTAGCGGCGCTTACCAAAAAACGCCA
Found at i:31717987 original size:21 final size:21
Alignment explanation
Indices: 31717961--31718015 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
31717951 AGCTGTTCTG
31717961 CTTCCCTCGCTGCAGCCTCTA
1 CTTCCCTCGCTGCAGCCTCTA
** *
31717982 CTTCCCTCGCTTTAGCCTCTG
1 CTTCCCTCGCTGCAGCCTCTA
* *
31718003 CTTCTCTCACTGC
1 CTTCCCTCGCTGC
31718016 CGCATCTGCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.07, C:0.45, G:0.13, T:0.35
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTCTA
Found at i:31718103 original size:87 final size:87
Alignment explanation
Indices: 31717976--31718179 Score: 259
Period size: 87 Copynumber: 2.3 Consensus size: 87
31717966 CTCGCTGCAG
* * **
31717976 CCTCTACTTCCCTCGCT-TTAGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGTTG
1 CCTCAACTTCTCTCGCTGTT-GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCCG
31718040 GAGTTCTTCATA-CTTTCGTTGAA
65 GAGTTCTTCATATCTTT-GTTGAA
* * * * *
31718063 CCTCAGCTTCTCTCGCTGTTGCCTCTGCTTCTCTCGCTGCCGTATCTGCTTTAAGTTGTTGCCGG
1 CCTCAACTTCTCTCGCTGTTGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCCGG
*
31718128 AGTTCTTCATATCTTTTTTGAA
66 AGTTCTTCATATCTTTGTTGAA
* * *
31718150 CCTCAACTTCTCTCGATGTTACCTCCGCTT
1 CCTCAACTTCTCTCGCTGTTGCCTCTGCTT
31718180 TAAGTTGTGT
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
87 95 0.94
88 6 0.06
ACGTcount: A:0.12, C:0.32, G:0.16, T:0.40
Consensus pattern (87 bp):
CCTCAACTTCTCTCGCTGTTGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCCGG
AGTTCTTCATATCTTTGTTGAA
Found at i:31718110 original size:21 final size:21
Alignment explanation
Indices: 31718068--31718113 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
31718058 TTGAACCTCA
** *
31718068 GCTTCTCTCGCTGTTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
*
31718089 GCTTCTCTCGCTGCCGTATCT
1 GCTTCTCTCGCTGCCGCATCT
31718110 GCTT
1 GCTT
31718114 TAAGTTGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.37, G:0.20, T:0.41
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Found at i:31719721 original size:83 final size:85
Alignment explanation
Indices: 31719586--31719845 Score: 323
Period size: 83 Copynumber: 3.1 Consensus size: 85
31719576 TTTTTTATAT
* * ** *
31719586 AACGCCGCTATAGACCATGGTCTGTAGTGGCGCTTA--AATAAAAACGCCACTATAGACCATGGT
1 AACGCCACTATAGACCATGGTCTCTAGCAGCGCTTAGCCA-AAAAACGCCACTATAGACCATGGT
31719649 CTTTAGCGGCGCTTAA-AACAA
65 CTTTAGCGGCGCTTAACAA-AA
* * *
31719670 AACGCTACTATAGACCGT-GTCTCTAGCAGCGCTTA-CCAAAAAACGCCACTATAGACGATGGTC
1 AACGCCACTATAGACCATGGTCTCTAGCAGCGCTTAGCCAAAAAACGCCACTATAGACCATGGTC
31719733 TTTAGCGGCGCTTAACCAAAA
66 TTTAGCGGCGCTTAA-CAAAA
* * * *
31719754 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAAAACGCCACTATAGACCATGGTC
1 AACGCCACTATAGACCATGGTCTCTAGCAGCGCTTAGCCAAAAAACGCCACTATAGACCATGGTC
* *
31719819 TTTAGTGGCGCTTATGCAAAA
66 TTTAGCGGCGCTTA-ACAAAA
31719840 AACGCC
1 AACGCC
31719846 GCTAATTTTG
Statistics
Matches: 153, Mismatches: 17, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
83 53 0.35
84 34 0.22
85 17 0.11
86 49 0.32
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (85 bp):
AACGCCACTATAGACCATGGTCTCTAGCAGCGCTTAGCCAAAAAACGCCACTATAGACCATGGTC
TTTAGCGGCGCTTAACAAAA
Found at i:31719758 original size:43 final size:42
Alignment explanation
Indices: 31719586--31719845 Score: 337
Period size: 43 Copynumber: 6.1 Consensus size: 42
31719576 TTTTTTATAT
* * *
31719586 AACGCCGCTATAGACCATGGTCTGTAGTGGCGCTTAA-ATAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAACA-AAA
31719628 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAA-AACAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAACAA-AA
* * * * *
31719670 AACGCTACTATAGACCGT-GTCTCTAGCAGCGCTTACCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAACAAAA
*
31719711 AACGCCACTATAGACGATGGTCTTTAGCGGCGCTTAACCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAA-CAAAA
* *
31719754 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTA-ACAAAA
* *
31719797 AACGCCACTATAGACCATGGTCTTTAGTGGCGCTTATGCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTA-ACAAAA
31719840 AACGCC
1 AACGCC
31719846 GCTAATTTTG
Statistics
Matches: 193, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
41 33 0.17
42 70 0.36
43 90 0.47
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (42 bp):
AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAACAAAA
Found at i:31725349 original size:94 final size:93
Alignment explanation
Indices: 31725243--31725417 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 93
31725233 ATCATATGAT
31725243 ATATATTAATAAGTTATGTCGTATT-ATATAAATTATGT-ATTAAAAATGTAAAAGTATTAA-TA
1 ATATATTAATAAGTTATGTCGTATTAATATAAATTATGTAATT---AATGTAAAA-TATTAAGTA
31725305 AGTTATGTAAGTTATGTATCATTTATCCATAA
62 AGTTATGTAAGTTATGTATCATTTATCCATAA
* * * *
31725337 ATATATTAATAAGTTATGTCGTATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGT
1 ATATATTAATAAGTTATGTCGTATTAATATAAATTATGTAATTAATGTAAAATATTAA-GTAAGT
*
31725402 TATGTAATTTATGTAT
65 TATGTAAGTTATGTAT
31725418 AATATTAATG
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
92 6 0.08
93 7 0.10
94 45 0.62
95 11 0.15
96 3 0.04
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (93 bp):
ATATATTAATAAGTTATGTCGTATTAATATAAATTATGTAATTAATGTAAAATATTAAGTAAGTT
ATGTAAGTTATGTATCATTTATCCATAA
Found at i:31725475 original size:103 final size:103
Alignment explanation
Indices: 31725359--31725847 Score: 883
Period size: 103 Copynumber: 4.7 Consensus size: 103
31725349 GTTATGTCGT
* * *
31725359 ATTAATGTAAGTTATGTAATTTATG-TATAATATTAATGTAAGTTATGTAATTTATGTATAATAT
1 ATTAAT-TAAGTTATGTAATTTAAGTTAT-GTATTAATGTAAGTTATGTAATTTATGTGTAATAT
31725423 TAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
64 TAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
* *
31725463 ATTAATTAAGTTATGTAATTTATG-TATAATATTAATGTAAGTTATGTAATTTATGTGTAATATT
1 ATTAATTAAGTTATGTAATTTAAGTTAT-GTATTAATGTAAGTTATGTAATTTATGTGTAATATT
31725527 AATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
65 AATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
31725566 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
1 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
*
31725631 ATGTAAATTATGTAAGTTGTAAGTTATGTATAATATTA
66 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
31725669 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
1 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
31725734 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
66 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
31725772 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
1 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
31725837 ATGTAAGTTAT
66 ATGTAAGTTAT
31725848 CTATAATATT
Statistics
Matches: 379, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
103 370 0.98
104 9 0.02
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (103 bp):
ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
Found at i:31725601 original size:206 final size:206
Alignment explanation
Indices: 31725359--31726102 Score: 1254
Period size: 206 Copynumber: 3.7 Consensus size: 206
31725349 GTTATGTCGT
* * *
31725359 ATTAATGTAAGTTATGTAATTTATG-TATAATATTAATGTAAGTTATGTAATTTATGTATAATAT
1 ATTAAT-TAAGTTATGTAATTTAAGTTAT-GTATTAATGTAAGTTATGTAATTTATGTGTAATAT
31725423 TAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGT
64 TAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGT
31725488 ATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTT
129 ATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTT
31725553 ATGTATAATATTA
194 ATGTATAATATTA
31725566 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
1 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
* *
31725631 ATGTAAATTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGT-T
66 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
*
31725695 ATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTA
131 A-ATATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTA
31725760 TGTATAATATTA
195 TGTATAATATTA
31725772 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTA--TG--------
1 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
*
31725827 -TGTAA--TAT-TAA--TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
66 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
*
31725886 AATATTAATGTAAGTCATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTAT
131 AATATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTAT
31725951 GTATAATATTA
196 GTATAATATTA
*
31725962 CTTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
1 ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
31726027 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
66 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
31726092 AATATTAATGT
131 AATATTAATGT
31726103 GGCTTCTACG
Statistics
Matches: 506, Mismatches: 12, Indels: 39
0.91 0.02 0.07
Matches are distributed among these distances:
190 169 0.33
191 2 0.00
192 5 0.01
193 3 0.01
195 5 0.01
201 5 0.01
203 3 0.01
204 5 0.01
205 2 0.00
206 298 0.59
207 9 0.02
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (206 bp):
ATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTA
ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
AATATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTAT
GTATAATATTA
Found at i:31725855 original size:190 final size:190
Alignment explanation
Indices: 31725442--31726040 Score: 993
Period size: 190 Copynumber: 3.1 Consensus size: 190
31725432 TTATGTAAGT
31725442 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTA
31725507 TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAAT
66 TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAAT
31725572 TAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
131 TAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTA--TG---------TGT-A
31725637 ATTATGTAA
184 A-TAT-TAA
* *
31725646 GTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGT-TATGTATTAATGTAAG
1 --TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATA-ATATTAATGTAAG
31725710 TTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATT
63 TTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATT
31725775 AATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAA
128 AATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAA
* *
31725838 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTCA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTA
*
31725903 TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTACTTAAT
66 TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAAT
31725968 TAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAA
131 TAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAA
31726028 TGTAAGTTATGTA
1 TGTAAGTTATGTA
31726041 AGTTGTAAGT
Statistics
Matches: 383, Mismatches: 8, Indels: 20
0.93 0.02 0.05
Matches are distributed among these distances:
190 194 0.51
191 2 0.01
192 3 0.01
193 3 0.01
194 2 0.01
195 3 0.01
204 2 0.01
205 2 0.01
206 172 0.45
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.48
Consensus pattern (190 bp):
TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTA
TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAAT
TAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAA
Found at i:31725856 original size:87 final size:87
Alignment explanation
Indices: 31725751--31725934 Score: 316
Period size: 87 Copynumber: 2.1 Consensus size: 87
31725741 TTATGTAAGT
* * *
31725751 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGT-TATGTATTAATGTAAGTT
1 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTAAGTATA-ATATTAATGTAAGTC
31725815 ATGTAATTTATGTGTAATATTAA
65 ATGTAATTTATGTGTAATATTAA
*
31725838 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTCA
1 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTAAGTATAATATTAATGTAAGTCA
31725903 TGTAATTTATGTGTAATATTAA
66 TGTAATTTATGTGTAATATTAA
31725925 TGTAAGTTAT
1 TGTAAGTTAT
31725935 GTAAGTTGTA
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
87 90 0.98
88 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (87 bp):
TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTAAGTATAATATTAATGTAAGTCA
TGTAATTTATGTGTAATATTAA
Found at i:31726102 original size:103 final size:103
Alignment explanation
Indices: 31725838--31726086 Score: 437
Period size: 103 Copynumber: 2.4 Consensus size: 103
31725828 GTAATATTAA
* * * *
31725838 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTATG-TATAATATTAATGTAAGTC
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTTAT-GTATTAATGTAAGTT
31725902 ATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGT
65 ATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGT
*
31725941 TGTAAGTTATGTATAATATTACTTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTA
31726006 TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGT
66 TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGT
31726044 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTA
31726087 TGTATAATAT
Statistics
Matches: 139, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
103 136 0.98
104 3 0.02
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.47
Consensus pattern (103 bp):
TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTA
TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGT
Found at i:31726633 original size:47 final size:47
Alignment explanation
Indices: 31726579--31726672 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
31726569 AACGCTAGAC
*
31726579 CACCTCCACATGCATTAATCAAATCCTAAATTATATTTTAGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
* * * *
31726626 CACCTCCATATGCATTAATCAAGCCCTAAATTATCTTTTGGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
31726673 AATCGAAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (47 bp):
CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
Found at i:31728885 original size:14 final size:14
Alignment explanation
Indices: 31728857--31728911 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
31728847 CCAAACTATA
*
31728857 TAAACTCT-TACCC
1 TAAACTCTAAACCC
31728870 TAAACTCTAAACCC
1 TAAACTCTAAACCC
* *
31728884 TAAA-TCGTAAAACT
1 TAAACTC-TAAACCC
*
31728898 TAAACCCTAAACCC
1 TAAACTCTAAACCC
31728912 GCCAGTTAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.30
14 22 0.67
15 1 0.03
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:31730443 original size:21 final size:22
Alignment explanation
Indices: 31730401--31730449 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
31730391 TTTAAAAAAT
31730401 AAATAACATATAAAACAATTTA
1 AAATAACATATAAAACAATTTA
* * *
31730423 AAATAATATGTAAAA-AGTTTA
1 AAATAACATATAAAACAATTTA
31730444 AAATAA
1 AAATAA
31730450 ATTATATGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (22 bp):
AAATAACATATAAAACAATTTA
Found at i:31730682 original size:25 final size:21
Alignment explanation
Indices: 31730650--31730711 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 21
31730640 ATGAAAAAAC
31730650 TTAAAATAAATAATAATAGAACGAT
1 TTAAAATAAATAAT-ATA-AA-G-T
31730675 TTAAAAT-AA-AATATAAAGT
1 TTAAAATAAATAATATAAAGT
31730694 TTAAAATAAATAA-ATAAA
1 TTAAAATAAATAATATAAA
31730712 TTGCAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.23
20 8 0.23
21 4 0.11
22 3 0.09
23 3 0.09
24 2 0.06
25 7 0.20
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (21 bp):
TTAAAATAAATAATATAAAGT
Found at i:31733130 original size:16 final size:15
Alignment explanation
Indices: 31733111--31733150 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
31733101 AATATTGTGT
31733111 AAATAAAAGGAAAAG
1 AAATAAAAGGAAAAG
**
31733126 AAAATAAAAATAAAAG
1 -AAATAAAAGGAAAAG
31733142 AAATAAAAG
1 AAATAAAAG
31733151 ATGAAGAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (15 bp):
AAATAAAAGGAAAAG
Found at i:31735067 original size:4 final size:4
Alignment explanation
Indices: 31735058--31735090 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
31735048 TGATAACCTA
31735058 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
31735091 TATATGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:31735640 original size:16 final size:16
Alignment explanation
Indices: 31735606--31735658 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
31735596 ATGGCATCAG
31735606 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
31735622 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* * *
31735638 TCATACCATACTCTAT
1 TCATGCAATACTCAAT
31735654 TCATG
1 TCATG
31735659 AGTATATAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 5 0.17
16 20 0.69
17 4 0.14
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.36
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:31735970 original size:41 final size:40
Alignment explanation
Indices: 31735848--31735983 Score: 125
Period size: 41 Copynumber: 3.5 Consensus size: 40
31735838 ACTAGTTTGG
* * * * * *
31735848 CACCCAGTGCCTTATCGGATAATTCAAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAGTAAATTGA
* * * * *
31735888 CACCCATTGTCTCATCGACTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAGTAAATTGA
31735925 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCGAAGTAGTAAATTGA
* *
31735966 CACCCAATGTCTCATCGA
1 CACCCAGTGCCTCATCGA
31735984 CTCGAAGTCG
Statistics
Matches: 74, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 23 0.31
38 6 0.08
39 2 0.03
40 18 0.24
41 25 0.34
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGTAGTAAATTGA
Found at i:31736175 original size:24 final size:24
Alignment explanation
Indices: 31736130--31736176 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
31736120 TATATATACC
31736130 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
31736154 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
31736177 CCATTTCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:31736863 original size:4 final size:4
Alignment explanation
Indices: 31736854--31736893 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
31736844 AAGGCCGTGG
31736854 CTTT CTTT C-TT CTTT CTCTT -TTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CT-TT CTTT CTTT CTTT CTTT CTTT C
31736894 CTGTTTCGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 5 0.15
4 26 0.79
5 2 0.06
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:31742507 original size:20 final size:20
Alignment explanation
Indices: 31742483--31742636 Score: 96
Period size: 20 Copynumber: 7.7 Consensus size: 20
31742473 AAAGCATATA
*
31742483 AAAAAATTATGAGGGAGTACC
1 AAAAAA-TATGAGGGAATACC
** *
31742504 AAAATTTATGAGAGAATACC
1 AAAAAATATGAGGGAATACC
* ** * *
31742524 AAAAAACACAAGGGAGTACA
1 AAAAAATATGAGGGAATACC
* * *
31742544 AAAAAACATAAGAGAATACC
1 AAAAAATATGAGGGAATACC
* * *
31742564 AAAAATTATGAGGAAATA-A
1 AAAAAATATGAGGGAATACC
* *
31742583 AAAAAATTATGAGGGATTACT
1 AAAAAA-TATGAGGGAATACC
* *
31742604 AAAAAACATGATGGG-GTACC
1 AAAAAATATGA-GGGAATACC
31742624 AAAAAATATGAGG
1 AAAAAATATGAGG
31742637 AATTATAAAA
Statistics
Matches: 100, Mismatches: 30, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
19 7 0.07
20 80 0.80
21 13 0.13
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.18
Consensus pattern (20 bp):
AAAAAATATGAGGGAATACC
Found at i:31742598 original size:60 final size:61
Alignment explanation
Indices: 31742534--31742649 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 61
31742524 AAAAAACACA
*
31742534 AGGGAGTACAAAAAAACAT-AAGAGAATACCAAAAATTATGAGGAAATA-AAAAAAATTATG
1 AGGGAGTACAAAAAAACATGAAG-GAATACCAAAAAATATGAGGAAATATAAAAAAATTATG
* * * ** *
31742594 AGGGATTACTAAAAAACATGATGGGGTACCAAAAAATATGAGGAATTATAAAAAAA
1 AGGGAGTACAAAAAAACATGAAGGAATACCAAAAAATATGAGGAAATATAAAAAAA
31742650 GAGAGAGGAG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
60 38 0.81
61 9 0.19
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (61 bp):
AGGGAGTACAAAAAAACATGAAGGAATACCAAAAAATATGAGGAAATATAAAAAAATTATG
Found at i:31742647 original size:20 final size:20
Alignment explanation
Indices: 31742564--31742649 Score: 54
Period size: 20 Copynumber: 4.3 Consensus size: 20
31742554 AGAGAATACC
* *
31742564 AAAAATTATGAGGAAATA-A
1 AAAAAATATGAGGAATTATA
*
31742583 AAAAAATTATGAGGGATTACTA
1 AAAAAA-TATGAGGAATTA-TA
* **
31742605 AAAAACATGATG-GG--GTACC
1 AAAAA-AT-ATGAGGAATTATA
31742624 AAAAAATATGAGGAATTATA
1 AAAAAATATGAGGAATTATA
31742644 AAAAAA
1 AAAAAA
31742650 GAGAGAGGAG
Statistics
Matches: 50, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
17 3 0.06
18 4 0.08
19 10 0.20
20 20 0.40
22 9 0.18
23 4 0.08
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAAAATATGAGGAATTATA
Found at i:31744478 original size:105 final size:101
Alignment explanation
Indices: 31744263--31744479 Score: 238
Period size: 105 Copynumber: 2.1 Consensus size: 101
31744253 AATTGACGGA
*** * *
31744263 TAAGACCATGGTTGGACCATGACAATGTTTAAATGTAAGACCATAGCTGGGTTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGACAATAAATAAATGTAAGACCATAGCTGGGTTATGACATTCTAA
* **
31744328 TGAAAAGATCATAACTGGGTTATGAAACCTTGAACG
66 TGAAAAGACCATAACTGGGTTATGAAACCTCAAACG
* * * *
31744364 CAAGGCCATGGTTGGACCATGACAGTATAAATACATGTGCAAGACCATAGTTGGGTTATGACATT
1 TAAGACCATGGTTGGACCATGACA--ATAAATAAATGT--AAGACCATAGCTGGGTTATGACATT
* * * *
31744429 CTGATGATAAGACCATAACTGGGTTATGGAA-CTACAAATG
62 CTAATGAAAAGACCATAACTGGGTTATGAAACCT-CAAACG
31744469 TAAGACCATGG
1 TAAGACCATGG
31744480 AAGGGTCATG
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
101 22 0.24
103 8 0.09
104 2 0.02
105 61 0.66
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAATAAATAAATGTAAGACCATAGCTGGGTTATGACATTCTAA
TGAAAAGACCATAACTGGGTTATGAAACCTCAAACG
Found at i:31749184 original size:8 final size:8
Alignment explanation
Indices: 31749163--31749194 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
31749153 AATTTAAAGT
31749163 TATTATATA
1 TATTATA-A
31749172 TATTATAA
1 TATTATAA
31749180 TATTATAA
1 TATTATAA
31749188 TATTATA
1 TATTATA
31749195 TCTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TATTATAA
Found at i:31749255 original size:13 final size:13
Alignment explanation
Indices: 31749237--31749278 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
31749227 TATATTATAT
31749237 AATAAAAGAAAGA
1 AATAAAAGAAAGA
31749250 AATAAAAGAAAAGGA
1 AATAAAAG-AAA-GA
31749265 AAT-AAAGAAAGA
1 AATAAAAGAAAGA
31749277 AA
1 AA
31749279 CAAAGAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
14 7 0.26
15 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (13 bp):
AATAAAAGAAAGA
Found at i:31751842 original size:18 final size:19
Alignment explanation
Indices: 31751819--31751866 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
31751809 GTATAAAAAA
*
31751819 ATATATTTTATTCCAAAT-
1 ATATATTTTATGCCAAATC
31751837 ATATATTTCTTATGCCAAATC
1 ATATA-TT-TTATGCCAAATC
31751858 ATA-ATTTTA
1 ATATATTTTA
31751867 AAACTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.31
19 4 0.15
20 11 0.42
21 3 0.12
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (19 bp):
ATATATTTTATGCCAAATC
Found at i:31752412 original size:20 final size:18
Alignment explanation
Indices: 31752379--31752454 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 18
31752369 CACAAGGGAG
*
31752379 TATCAAATAATATGATGAAT
1 TATCAAA-AATATGA-GAAA
31752399 TATCAAAAATTATGAAGAAA
1 TATCAAAAA-TATG-AGAAA
*
31752419 TACCAAAAGATATGAGAAAA
1 TATCAAAA-ATATGAG-AAA
31752439 TATCAAAAATTATGAG
1 TATCAAAAA-TATGAG
31752455 TGGTTACCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.10
20 41 0.85
21 2 0.04
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (18 bp):
TATCAAAAATATGAGAAA
Found at i:31752662 original size:21 final size:21
Alignment explanation
Indices: 31752638--31752694 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
31752628 CTGAATATAA
31752638 TAAATATATATTTTTTAA-TTT
1 TAAA-ATATATTTTTTAATTTT
*
31752659 TAAAATACTTTTTTTTAATTTT
1 TAAAATA-TATTTTTTAATTTT
*
31752681 TAAAATAAATTTTT
1 TAAAATATATTTTT
31752695 AGTGTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 18 0.58
22 10 0.32
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TAAAATATATTTTTTAATTTT
Found at i:31752665 original size:22 final size:23
Alignment explanation
Indices: 31752639--31752694 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
31752629 TGAATATAAT
31752639 AAATATATATTTTTTAA-TTTTA
1 AAATATATATTTTTTAATTTTTA
31752661 AAATACT-T-TTTTTTAATTTTTA
1 AAATA-TATATTTTTTAATTTTTA
31752683 AAATA-A-ATTTTT
1 AAATATATATTTTT
31752695 AGTGTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
21 13 0.43
22 16 0.53
23 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
AAATATATATTTTTTAATTTTTA
Found at i:31754639 original size:42 final size:42
Alignment explanation
Indices: 31754593--31754698 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 42
31754583 GTTTTCGTTC
* *
31754593 AGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGTTTCTATTT
1 AGCTCTTATGAGCTTCTGTTTAACCCTTACGGGTTTCTATTT
* * *
31754635 AGCTCTTATGAGCTTCCT-TTCAACCCTTACGGGTTTTTGTTT
1 AGCTCTTATGAGCTT-CTGTTTAACCCTTACGGGTTTCTATTT
*
31754677 AG-TACTTATGTGCTTCTGTTTA
1 AGCT-CTTATGAGCTTCTGTTTA
31754699 GCCTTCGGGC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 3 0.06
42 49 0.91
43 2 0.04
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCTGTTTAACCCTTACGGGTTTCTATTT
Found at i:31760983 original size:18 final size:18
Alignment explanation
Indices: 31760953--31761000 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
31760943 TTGAAGAAGG
31760953 AAGGAAGGGAAAAAGAGAA
1 AAGGAAGGGAAAAAGA-AA
31760972 AAGGAA-GGAAAAAGAAA
1 AAGGAAGGGAAAAAGAAA
**
31760989 AAAAAAGGGAAA
1 AAGGAAGGGAAA
31761001 GGAGATGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 6 0.23
18 14 0.54
19 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AAGGAAGGGAAAAAGAAA
Found at i:31767746 original size:24 final size:24
Alignment explanation
Indices: 31767687--31767746 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
31767677 CATCTTACCG
* *
31767687 CCTTATCTCTCATTCTACCACCTT
1 CCTTATCTCTCCTTCTACCACATT
31767711 CCTTATCTCTCCTTCT-CTCACATT
1 CCTTATCTCTCCTTCTAC-CACATT
31767735 CCTTATCTCTCC
1 CCTTATCTCTCC
31767747 AACAATGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.13, C:0.43, G:0.00, T:0.43
Consensus pattern (24 bp):
CCTTATCTCTCCTTCTACCACATT
Found at i:31771736 original size:51 final size:51
Alignment explanation
Indices: 31771605--31771791 Score: 202
Period size: 51 Copynumber: 3.7 Consensus size: 51
31771595 AGTGAAAGTG
* *
31771605 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * *
31771654 ATAGGTCGCATGTGTAGTACTATGTACAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * * *
31771705 TTCGATCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCGAATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
*
31771757 ATGGTCACATGTGTAGTCAC-ATGTGTAGGCTACTA
1 ATGGTCACATGTGTAGT-ACTATGTGCAGGCTACTA
31771792 TGTGAACTGA
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 70 0.61
52 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:31771736 original size:101 final size:102
Alignment explanation
Indices: 31771609--31771793 Score: 268
Period size: 101 Copynumber: 1.8 Consensus size: 102
31771599 AAAGTGATGG
* *
31771609 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
31771672 -ACTATGTACAGGCTACTATGCGTACCGGATAGTTTCGA
65 CAC-ATGTACAGGCTACTATGCGTACCGGATAGTTTCGA
* * *
31771710 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCGAATGGTAATGGTCACATGTGTAGTC
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTC
**
31771775 ACATGTGTAGGCTACTATG
66 ACATGTACAGGCTACTATG
31771794 TGAACTGAAC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 6 0.08
101 37 0.50
102 29 0.39
103 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTC
ACATGTACAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:31771777 original size:12 final size:12
Alignment explanation
Indices: 31771760--31771784 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31771750 AATGGTAATG
31771760 GTCACATGTGTA
1 GTCACATGTGTA
31771772 GTCACATGTGTA
1 GTCACATGTGTA
31771784 G
1 G
31771785 GCTACTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (12 bp):
GTCACATGTGTA
Found at i:31781151 original size:18 final size:18
Alignment explanation
Indices: 31781117--31781151 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31781107 ATATATGTTA
**
31781117 AAATAATAAAAGTAAAAC
1 AAATAATAAAACAAAAAC
31781135 AAATAATAAAACAAAAA
1 AAATAATAAAACAAAAA
31781152 GACAACCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (18 bp):
AAATAATAAAACAAAAAC
Found at i:31781561 original size:45 final size:45
Alignment explanation
Indices: 31781512--31781726 Score: 184
Period size: 45 Copynumber: 4.8 Consensus size: 45
31781502 TTCTGGAAAT
* *
31781512 GAGTAAGACCACAGCTGAAAAACGCTATGGCATCATGATTCAAAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
*** * * **
31781557 GAGTAAGATTGTAGCTTAAAGAAGCTATGGCATCACAATTCAAAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
*** * **
31781602 GAGTAAGATTGTAGCTTAAAGACGCTATGGCATCACAATTC-AAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
* * ** * *
31781646 GTGTAAGACCATAGTTGAAAGACATTATGGCAACATGA-TCGAAAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTC-AAAC
* * *
31781691 GAATAAGACCATAGTTGAAAGACAC-ATGGCATCATG
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATG
31781727 TCGGAAATAA
Statistics
Matches: 142, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.01
44 40 0.28
45 100 0.70
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
Found at i:31781793 original size:45 final size:44
Alignment explanation
Indices: 31781649--31781773 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
31781639 ATTCAACGTG
*
31781649 TAAGACCATAGTTGAAAGACATTATGGCAACATGATCGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAT-ATCGAAATGAA
* * *
31781694 TAAGACCATAGTTGAAAGACAC-ATGGCATCATGTCGGAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACATATC-GAAATGAA
* * * *
31781738 TAAAATCATAGTTGAAAGGCACTATGGCACCATATC
1 TAAGACCATAGTTGAAAGACACTATGGCAACATATC
31781774 AAAAGTGTGT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.03
44 35 0.51
45 32 0.46
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.22
Consensus pattern (44 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACATATCGAAATGAA
Found at i:31782105 original size:13 final size:13
Alignment explanation
Indices: 31782076--31782137 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
31782066 GAAATGGTTA
* *
31782076 TATATAAAAAGAA
1 TATATAAAATGAT
31782089 TATATAAAATGAT
1 TATATAAAATGAT
* *
31782102 TATAT-GAATCAGT
1 TATATAAAATGA-T
*
31782115 TATATGAAAATAAT
1 TATAT-AAAATGAT
31782129 TATATAAAA
1 TATATAAAA
31782138 ATTTTATACG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
12 4 0.10
13 26 0.65
14 6 0.15
15 4 0.10
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (13 bp):
TATATAAAATGAT
Found at i:31782198 original size:13 final size:13
Alignment explanation
Indices: 31782180--31782214 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
31782170 AATGGGACAT
31782180 TTGAAATGAACGC
1 TTGAAATGAACGC
31782193 TTGAAATGAACGC
1 TTGAAATGAACGC
31782206 TTGAAATGA
1 TTGAAATGA
31782215 GAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (13 bp):
TTGAAATGAACGC
Found at i:31782334 original size:73 final size:73
Alignment explanation
Indices: 31782223--31782359 Score: 202
Period size: 73 Copynumber: 1.9 Consensus size: 73
31782213 GAGAAATATT
* * *
31782223 AAATGAAAAGATGTTGAATGAGTGATATATCTAATGTGTTTACTTGTATACGTTTTATAACATGT
1 AAATGAAAAGATGTTGAATAAATGACATATCTAATGTGTTTACTTGTATACGTTTTATAACATGT
31782288 GAAATGTG
66 GAAATGTG
* * * * *
31782296 AAATGAATAGATGTTGAATAAATGGCATATCTATTGTGTTTCCTTGTATATGTTTTATAACATG
1 AAATGAAAAGATGTTGAATAAATGACATATCTAATGTGTTTACTTGTATACGTTTTATAACATG
31782360 AAAAGGTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 56 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (73 bp):
AAATGAAAAGATGTTGAATAAATGACATATCTAATGTGTTTACTTGTATACGTTTTATAACATGT
GAAATGTG
Found at i:31784806 original size:3 final size:3
Alignment explanation
Indices: 31784800--31784846 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
31784790 AGAGAGAAGA
31784800 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
31784847 GTCATCTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31785775 original size:23 final size:23
Alignment explanation
Indices: 31785745--31785824 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 23
31785735 TGATTAAACA
* *
31785745 TGCAAGTGATAGTGGCACTATGG
1 TGCAAGTGATAATGACACTATGG
* *
31785768 TGCAAGTGA-AATAGACAGTACGG
1 TGCAAGTGATAAT-GACACTATGG
* * *
31785791 TGCAAGTG-TATTGTCACTTTGG
1 TGCAAGTGATAATGACACTATGG
31785813 TGCAAAGTGATA
1 TGC-AAGTGATA
31785825 TTCGCACGCC
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
22 11 0.25
23 31 0.70
24 2 0.05
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (23 bp):
TGCAAGTGATAATGACACTATGG
Found at i:31788557 original size:22 final size:23
Alignment explanation
Indices: 31788532--31788574 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
31788522 ATATAGTATG
31788532 TAAATAT-TAAAAAATGTTAAGA
1 TAAATATATAAAAAATGTTAAGA
* *
31788554 TAAATATATAGAAAATTTTAA
1 TAAATATATAAAAAATGTTAA
31788575 TAAATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (23 bp):
TAAATATATAAAAAATGTTAAGA
Found at i:31789469 original size:27 final size:28
Alignment explanation
Indices: 31789431--31789490 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
31789421 AGCTGCCAAT
*
31789431 ACAG-AATATGTGGCAAAGCCACCAGTA
1 ACAGTAATATGTGGCAAAGCCACCAGAA
*
31789458 ACAGTAAT-TGTGGCAGAGCCACCAGAA
1 ACAGTAATATGTGGCAAAGCCACCAGAA
31789485 ACAGTA
1 ACAGTA
31789491 CTTCCTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (28 bp):
ACAGTAATATGTGGCAAAGCCACCAGAA
Found at i:31789704 original size:26 final size:26
Alignment explanation
Indices: 31789675--31789758 Score: 116
Period size: 26 Copynumber: 3.2 Consensus size: 26
31789665 GCTCTACGGG
31789675 GTATTTTGGTAATTTACCCATCGAGA
1 GTATTTTGGTAATTTACCCATCGAGA
***
31789701 GTATTTCAATAATTTACCCATC-AGA
1 GTATTTTGGTAATTTACCCATCGAGA
*
31789726 GGTATTTTGGTAATTTACCCATCGAGG
1 -GTATTTTGGTAATTTACCCATCGAGA
31789753 GTATTT
1 GTATTT
31789759 CGATAATCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
25 3 0.06
26 44 0.90
27 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (26 bp):
GTATTTTGGTAATTTACCCATCGAGA
Found at i:31796552 original size:17 final size:18
Alignment explanation
Indices: 31796512--31796556 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
31796502 TATTATTATT
*
31796512 TTATTTATTTCCCTCTAC
1 TTATTTATTTCCATCTAC
*
31796530 TTATTTATTTCCATTTA-
1 TTATTTATTTCCATCTAC
31796547 TTATTTATTT
1 TTATTTATTT
31796557 ATTATTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTTATTTCCATCTAC
Found at i:31803436 original size:45 final size:45
Alignment explanation
Indices: 31803385--31803735 Score: 567
Period size: 45 Copynumber: 7.8 Consensus size: 45
31803375 ATAGTATATA
*
31803385 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
31803430 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
31803475 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
31803520 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
* *
31803565 TTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAGTAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
* * *
31803610 TTGTCTTCATGTATTGGCAGTGAAGTAGATCGAAGATAGCGGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
* * * **
31803655 TTGTCTTCCTGTATTGGAAGCAAAATAGATCGAAGATAGTGGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
* * * *
31803700 TTGTCTTCCTGTATTGACAGTGAAGTAAATCAAAGA
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
31803736 CACTAGCCTT
Statistics
Matches: 285, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 285 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
Found at i:31803912 original size:51 final size:51
Alignment explanation
Indices: 31803831--31803998 Score: 228
Period size: 51 Copynumber: 3.3 Consensus size: 51
31803821 AAGACACCAG
* **
31803831 TCTTATTTCCCTGGCGTTATAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
1 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * * *
31803882 TCTTGTTTCCTTGGCGTTGCAGTGAAACAGATTAAAGCTAAAGATAGCGGA
1 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * * *
31803933 TCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTATCGAA
1 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
*
31803984 TCTTGTTTCCTTGGC
1 TCTTGTTTCCCTGGC
31803999 ATTACAGCGG
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 100 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (51 bp):
TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
Found at i:31804015 original size:51 final size:51
Alignment explanation
Indices: 31803831--31804022 Score: 215
Period size: 51 Copynumber: 3.8 Consensus size: 51
31803821 AAGACACCAG
* * ** * *
31803831 TCTTATTTCCCTGGCGTTATAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
1 TCTTGTTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTAGCGAA
* * *
31803882 TCTTGTTTCCTTGGCGTTGCAGTGAAACAGATTAAAGCT-AAAGATAGCGGA
1 TCTTGTTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTAAAAG-TAGCGAA
* * *
31803933 TCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTATCGAA
1 TCTTGTTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTAGCGAA
* * * * *
31803984 TCTTGTTTCCTTGGCATTACAGCGGAGTAGATTAGAGCT
1 TCTTGTTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCT
31804023 GAAGTAGAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
50 3 0.03
51 112 0.94
52 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (51 bp):
TCTTGTTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTAGCGAA
Found at i:31804016 original size:102 final size:103
Alignment explanation
Indices: 31803831--31804036 Score: 261
Period size: 102 Copynumber: 2.0 Consensus size: 103
31803821 AAGACACCAG
* * *
31803831 TCTTATTTCCCTGGCGTTATAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTTGG
1 TCTTATTTCCCTAGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTGTTTCCTTGG
* * * *
31803896 CGTTGCAGTGAAACAGATTAAAGCTAAAG-ATAGCGGA
66 CATTACAGCGAAACAGATTAAAGCTAAAGTAGAGCGGA
* * * *
31803933 TCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTATCGAATCTTGTTTCCTTGG
1 TCTTATTTCCCTAGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTGTTTCCTTGG
* ** * *
31803998 CATTACAGCGGAGTAGATTAGAGCTGAAGTAGAGCGGA
66 CATTACAGCGAAACAGATTAAAGCTAAAGTAGAGCGGA
31804036 T
1 T
31804037 TAAAGCTGAG
Statistics
Matches: 87, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
102 79 0.91
103 8 0.09
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (103 bp):
TCTTATTTCCCTAGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTGTTTCCTTGG
CATTACAGCGAAACAGATTAAAGCTAAAGTAGAGCGGA
Found at i:31805513 original size:14 final size:14
Alignment explanation
Indices: 31805445--31805517 Score: 62
Period size: 18 Copynumber: 4.9 Consensus size: 14
31805435 AATCCAAGGC
31805445 ATTTATTATTA-TT
1 ATTTATTATTATTT
31805458 A-TTATT-TTATTT
1 ATTTATTATTATTT
31805470 ATTTACCTCTACTTATTT
1 ATTTA--T-TA-TTATTT
31805488 ATTTCCATTTATTATTT
1 ATTT--A-TTATTATTT
31805505 ATTTATTATTATT
1 ATTTATTATTATT
31805518 CTTTCAATCT
Statistics
Matches: 50, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
11 3 0.06
12 8 0.16
13 4 0.08
14 8 0.16
15 2 0.04
16 1 0.02
17 10 0.20
18 12 0.24
19 1 0.02
20 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTATTATTATTT
Found at i:31806817 original size:32 final size:32
Alignment explanation
Indices: 31806746--31806817 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
31806736 ATAAATTTTG
** * *
31806746 AAAAGTTAGAAATGTGAAGAGACTTGAATATG
1 AAAAGTTAGAAATGTGAAGAGACAAGAAGATA
* *
31806778 AAGAGTTAGTAATGTGAAGAGACAAGAAGATA
1 AAAAGTTAGAAATGTGAAGAGACAAGAAGATA
31806810 AAAAGTTA
1 AAAAGTTA
31806818 CACACATGCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.50, C:0.03, G:0.25, T:0.22
Consensus pattern (32 bp):
AAAAGTTAGAAATGTGAAGAGACAAGAAGATA
Found at i:31806914 original size:38 final size:39
Alignment explanation
Indices: 31806827--31806915 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 39
31806817 ACACACATGC
* *
31806827 ATGAATAGTCACAACTTCTATAGCATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
* *
31806866 ATGAACAGTCACAACTCCTATAGCATTT-AGTGATGTAG
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
31806904 ATGAATAGTCAC
1 ATGAATAGTCAC
31806916 TTACAACTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 19 0.42
39 26 0.58
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
Found at i:31811304 original size:32 final size:32
Alignment explanation
Indices: 31811233--31811304 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
31811223 ATAAATTTTG
* * *
31811233 AAAAGTTAGAAATGTGAAGAGACTTGGATATG
1 AAAAGTTAGAAATGTGAAGAGACTTGAAGATA
* *
31811265 AAGAGTTAGTAATGTGAAGAGACTTGAAGATA
1 AAAAGTTAGAAATGTGAAGAGACTTGAAGATA
31811297 AAAAGTTA
1 AAAAGTTA
31811305 CACACATGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.03, G:0.26, T:0.25
Consensus pattern (32 bp):
AAAAGTTAGAAATGTGAAGAGACTTGAAGATA
Found at i:31811358 original size:39 final size:39
Alignment explanation
Indices: 31811314--31811597 Score: 543
Period size: 39 Copynumber: 7.3 Consensus size: 39
31811304 ACACACATGC
31811314 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
31811353 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
31811392 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
31811431 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
31811470 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
31811509 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
* *
31811548 ATGAATAGTCACAACTCCTATAGCATTTAA-TGATGTAG
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
31811586 ATGAATAGTCAC
1 ATGAATAGTCAC
31811598 TTATAACTCC
Statistics
Matches: 243, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
38 18 0.07
39 225 0.93
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
Found at i:31811812 original size:18 final size:20
Alignment explanation
Indices: 31811789--31811826 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31811779 GCTAACCTTG
31811789 ATGTCCCT-C-CATATATTT
1 ATGTCCCTGCGCATATATTT
31811807 ATGTCCCTGCGCATATATTT
1 ATGTCCCTGCGCATATATTT
31811827 GAGTCTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTCCCTGCGCATATATTT
Found at i:31813500 original size:64 final size:64
Alignment explanation
Indices: 31813398--31813518 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
31813388 AAGAATCCAC
31813398 CAAAACTTTACACATGTCGAACATGTAACATTAACGTTAGCACCT-ATCACTCCATTAAGACCCT
1 CAAAACTTTACACATGTCGAACATGTAACATTAACGTTAGCACCTGA-CACTCCATTAAGACCCT
* ** * *
31813462 CAAAACTTTACATATGTCGAACATGTGGCATTATCGTTAGGACCTGACACTCCATTA
1 CAAAACTTTACACATGTCGAACATGTAACATTAACGTTAGCACCTGACACTCCATTA
31813519 CACCGCCACC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 50 0.98
65 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (64 bp):
CAAAACTTTACACATGTCGAACATGTAACATTAACGTTAGCACCTGACACTCCATTAAGACCCT
Found at i:31814764 original size:44 final size:44
Alignment explanation
Indices: 31814716--31814882 Score: 198
Period size: 43 Copynumber: 3.9 Consensus size: 44
31814706 ATAGACCCTG
31814716 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTA
* * * *
31814760 ATCTTTAGCGGCGCTTT-CCCCCAAAACGCCGCTAAAG-ACCATG
1 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACC-TA
* ** * * *
31814803 ATCTTTAGTGGCGCTTTTTCCAC-AAACGCCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTA
*
31814846 ATCTTTAGCGGCACTTTGACCA-AAAACGCCACTAAAG
1 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAG
31814883 GCCAACACCT
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
42 3 0.03
43 80 0.76
44 22 0.21
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (44 bp):
ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTA
Found at i:31814874 original size:86 final size:87
Alignment explanation
Indices: 31814708--31814924 Score: 249
Period size: 86 Copynumber: 2.5 Consensus size: 87
31814698 ACGTCGCAAT
* * ** *
31814708 AGACCCTGATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCG
1 AGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCA
* * *
31814773 CTTTCCCCCAAAACGCCGCTAA
66 CTTTCACCAAAAACGCCACTAA
* * *
31814795 AGACCATGATCTTTAGTGGCGCTTTTTCCAC-AAACGCCGCTAAAGACCCTTATCTTTAGCGGCA
1 AGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCA
*
31814859 CTTTGACCAAAAACGCCACTAA
66 CTTTCACCAAAAACGCCACTAA
* ** * * **
31814881 AGGCCAACACCTTTAGTGGCGTTTTTTTTA-AAAACGCCACTAAA
1 AGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAA
31814925 TTTGGTAAAT
Statistics
Matches: 109, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
86 82 0.75
87 27 0.25
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (87 bp):
AGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCA
CTTTCACCAAAAACGCCACTAA
Found at i:31814895 original size:43 final size:42
Alignment explanation
Indices: 31814716--31814924 Score: 175
Period size: 43 Copynumber: 4.9 Consensus size: 42
31814706 ATAGACCCTG
*
31814716 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAAAG-ACCAA
** * * *
31814760 ATCTTTAGCGGCGCTTTCCCCCAAAACGCCGCTAAAGACCATG
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCA-A
* ** * * **
31814803 ATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGA-CCAA
* *
31814846 ATCTTTAGCGGCACTTTGACCAAAAACGCCACTAAAGGCCAA
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
* * * ****
31814888 CACCTTTAGTGGCGTTTTTTTTAAAAACGCCACTAAA
1 -ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
31814925 TTTGGTAAAT
Statistics
Matches: 132, Mismatches: 30, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
42 5 0.04
43 106 0.80
44 21 0.16
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (42 bp):
ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
Found at i:31815253 original size:21 final size:21
Alignment explanation
Indices: 31815227--31815328 Score: 98
Period size: 21 Copynumber: 4.9 Consensus size: 21
31815217 TTTGACGCTG
* *
31815227 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCTCTAGCTGCAGC
* **
31815248 CTCTGCTTCCCTCA-CTTTAGC
1 CTCTGCTTCTCT-AGCTGCAGC
*
31815269 CTCTGCTTCTCTAACTGCAGC
1 CTCTGCTTCTCTAGCTGCAGC
* * *
31815290 CTATACTTCTCTAGCTGCCGC
1 CTCTGCTTCTCTAGCTGCAGC
*
31815311 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCTCTAGCTGC
31815329 CTCATCTACT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
20 1 0.02
21 65 0.98
ACGTcount: A:0.09, C:0.41, G:0.15, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCTCTAGCTGCAGC
Found at i:31820837 original size:9 final size:9
Alignment explanation
Indices: 31820820--31821021 Score: 96
Period size: 9 Copynumber: 24.2 Consensus size: 9
31820810 TAAGTATAAT
*
31820820 TAAGCTATG
1 TAAGTTATG
31820829 TAAGTTATG
1 TAAGTTATG
31820838 T-A-TTATG
1 TAAGTTATG
31820845 TAAGTTAT-
1 TAAGTTATG
*
31820853 TTA-TTATG
1 TAAGTTATG
* **
31820861 AAAACTATG
1 TAAGTTATG
*
31820870 TAAGTTGTG
1 TAAGTTATG
31820879 T-A-TTATG
1 TAAGTTATG
*
31820886 -AA--AAT-
1 TAAGTTATG
* *
31820891 TATGCTATG
1 TAAGTTATG
*
31820900 TAAGTTATA
1 TAAGTTATG
* *
31820909 TAAGTCATA
1 TAAGTTATG
31820918 TAAGTTATG
1 TAAGTTATG
31820927 T-A-TTATG
1 TAAGTTATG
31820934 TAAGTTATG
1 TAAGTTATG
31820943 TAAGTTAT-
1 TAAGTTATG
*
31820951 TTA-TTATG
1 TAAGTTATG
* * *
31820959 CAAATTAAG
1 TAAGTTATG
31820968 TAAGTTATG
1 TAAGTTATG
31820977 TAAGTTATG
1 TAAGTTATG
*
31820986 TATA-ATAT-
1 TA-AGTTATG
**
31820994 TAA-TTAAC
1 TAAGTTATG
31821002 TAAGTTATG
1 TAAGTTATG
*
31821011 TAATTTATG
1 TAAGTTATG
31821020 TA
1 TA
31821022 TAATATCACA
Statistics
Matches: 145, Mismatches: 32, Indels: 32
0.69 0.15 0.15
Matches are distributed among these distances:
6 3 0.02
7 28 0.19
8 18 0.12
9 95 0.66
10 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:31820846 original size:16 final size:16
Alignment explanation
Indices: 31820825--31820944 Score: 78
Period size: 16 Copynumber: 7.9 Consensus size: 16
31820815 ATAATTAAGC
31820825 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
31820841 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
*
31820857 TATG-AA---A---AC
1 TATGTAAGTTATGTAT
*
31820866 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
31820882 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
*
31820896 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
31820914 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
31820930 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
31820945 AGTTATTTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
12 1 0.01
14 10 0.13
15 2 0.03
16 44 0.58
17 1 0.01
18 11 0.14
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:31820869 original size:25 final size:25
Alignment explanation
Indices: 31820839--31820975 Score: 118
Period size: 25 Copynumber: 5.6 Consensus size: 25
31820829 TAAGTTATGT
31820839 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* * *
31820864 ACTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* * *
31820889 ATTATGCTATGTAAGTTA-TAT--AA
1 ATTATG-TAAGTTATTTATTATGAAA
* * * * *
31820912 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
31820937 GTTATGTAAGTTATTTATTATGCAA
1 ATTATGTAAGTTATTTATTATGAAA
*
31820962 ATTAAGTAAGTTAT
1 ATTATGTAAGTTAT
31820976 GTAAGTTATG
Statistics
Matches: 86, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
22 7 0.08
23 8 0.09
25 65 0.76
26 6 0.07
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:31820971 original size:34 final size:34
Alignment explanation
Indices: 31820928--31821026 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 34
31820918 TAAGTTATGT
* * * *
31820928 ATTATGTAAGTTATGTAAGTTATTTATTATGCAA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATACAA
**
31820962 ATTAAGTAAGTTATGTAAGTTATGTATAATATTA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATACAA
* *
31820996 ATTAACTAAGTTATGTAATTTATGTATAATA
1 ATTAAGTAAGTTATGTAAGTTATGTATAATA
31821027 TCACATCACC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.45
Consensus pattern (34 bp):
ATTAAGTAAGTTATGTAAGTTATGTATAATACAA
Found at i:31821110 original size:13 final size:15
Alignment explanation
Indices: 31821091--31821131 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
31821081 CATATAAGGT
31821091 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
31821105 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
31821119 TTATGTAAGTTAT
1 -TATGTAAGTTAT
31821132 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:31821126 original size:16 final size:16
Alignment explanation
Indices: 31821090--31821168 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
31821080 ACATATAAGG
31821090 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
31821105 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
31821119 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
31821137 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
31821153 TTATATAAGTCATGTA
1 TTATGTAAGTTATGTA
31821169 GGCTATGTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
16 26 0.50
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:31822971 original size:17 final size:17
Alignment explanation
Indices: 31822937--31822971 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
31822927 TTACCTTTGC
**
31822937 CTTGCCTTGTTCTTGTT
1 CTTGCCTTGTTCCAGTT
31822954 CTTGCCTTGTTCCAGTT
1 CTTGCCTTGTTCCAGTT
31822971 C
1 C
31822972 AAACAAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.29, G:0.17, T:0.51
Consensus pattern (17 bp):
CTTGCCTTGTTCCAGTT
Found at i:31824899 original size:14 final size:14
Alignment explanation
Indices: 31824880--31824947 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
31824870 ATGACCGTTG
31824880 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
31824894 AAACCCCTAAACCTCC
1 AAA-CCCTAAATCT-C
*
31824910 AACCCCTAAAT-T-
1 AAACCCTAAATCTC
* *
31824922 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
31824935 AAACCTTAAATCT
1 AAACCCTAAATCT
31824948 ATACCCAGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 16 0.38
16 3 0.07
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:31824903 original size:15 final size:15
Alignment explanation
Indices: 31824883--31824920 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
31824873 ACCGTTGAAA
31824883 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
31824898 CCCTAAACCTCCAAC
1 CCCTAAATCTCAAAC
31824913 CCCTAAAT
1 CCCTAAAT
31824921 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:31825548 original size:41 final size:41
Alignment explanation
Indices: 31825437--31825755 Score: 217
Period size: 41 Copynumber: 7.8 Consensus size: 41
31825427 TTTTGTTACT
* * *
31825437 ATTAGCGGCGCTTCGGA-AAAAACGCCGCTAAAGG---TAGC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGGACAGAGA
* * * * *
31825475 ATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGCCAGGGT
1 ATTAGCGGCGCTCAGATA-AAAACGCCGCTAAAGGACAGAGA
* * *
31825517 ATTAGTGGCGCTCAGATAAAAACGCCACTAAA-AACACGA-A
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACA-GAGA
* * * * * *
31825557 CTTTAGCGGCACTTAGAAAAAAATGCCGCTAAAGAACAGAGA
1 -ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGAGA
* * * * * * *
31825599 ATTAGTGGCGCTCAGACAATAACGCCACT-AATGATACGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACA-GAGA
* * *
31825640 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGA-A
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGAGA
* * *
31825680 CATTAGTGGCGCTCAGATAAAAACGCCGCTAAA-GATCGGATA
1 -ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGA-CAGAGA
*
31825722 ATTAGCGGCGCT-AAAGTAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTCAGA-TAAAAACGCCGCTAAAGG
31825756 TTTAAAAATC
Statistics
Matches: 217, Mismatches: 48, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
37 2 0.01
38 12 0.06
39 16 0.07
40 9 0.04
41 151 0.70
42 27 0.12
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGAGA
Found at i:31825608 original size:82 final size:82
Alignment explanation
Indices: 31825474--31825755 Score: 304
Period size: 82 Copynumber: 3.4 Consensus size: 82
31825464 CTAAAGGTAG
* * * *
31825474 CATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGCCAGGGTATTAGTGGCGCTCAGATAAAAA
1 CATTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAA
31825539 CGCCACTAAAAACACGAA
65 CGCCACTAAAAACACGAA
* * * ** * *
31825557 CTTTAGCGGCACTTAGAAAAAAATGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGACAATAAC
1 CATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAAC
** * *
31825622 GCCACTAATGATACGAG
66 GCCACTAAAAACACGAA
*
31825639 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGA-ACATTAGTGGCGCTCAGATAAAAA
1 CATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGAGA-ATTAGTGGCGCTCAGATAAAAA
* * *
31825703 CGCCGCTAAAGATC-GGATA
65 CGCCACTAAA-AACACGA-A
31825722 -ATTAGCGGCGC-TA-AAGTAAAAACGCCGCTAAAGG
1 CATTAGCGGCGCTTAGAA--AAAAACGCCGCTAAAGG
31825756 TTTAAAAATC
Statistics
Matches: 163, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 3 0.02
82 145 0.89
83 14 0.09
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (82 bp):
CATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAAC
GCCACTAAAAACACGAA
Found at i:31826579 original size:18 final size:17
Alignment explanation
Indices: 31826545--31826603 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
31826535 CTGGAAACAT
31826545 ATTATGATTTAAAATTTTA
1 ATTAT-ATTT-AAATTTTA
31826564 ATTATATTATAAA-TTTA
1 ATTATATT-TAAATTTTA
*
31826581 GATTATATTTAAGATTTTG
1 -ATTATATTTAA-ATTTTA
31826600 ATTA
1 ATTA
31826604 AATTGGTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 7 0.20
18 19 0.54
19 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
ATTATATTTAAATTTTA
Found at i:31828827 original size:15 final size:15
Alignment explanation
Indices: 31828774--31828827 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
31828764 ATTTTTAAAA
*
31828774 TTTTTAT-TTTCAAG
1 TTTTTATATTTCAAT
31828788 TTTTTA-ATGTTCACAT
1 TTTTTATAT-TTCA-AT
31828804 ATTTTTATATTTCAAT
1 -TTTTTATATTTCAAT
31828820 TTTTTATA
1 TTTTTATA
31828828 ATAAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
14 7 0.21
15 12 0.35
16 3 0.09
17 10 0.29
18 2 0.06
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (15 bp):
TTTTTATATTTCAAT
Found at i:31830447 original size:18 final size:18
Alignment explanation
Indices: 31830424--31830458 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31830414 GTCAAAAATT
31830424 TTAAATAATAATTATAAA
1 TTAAATAATAATTATAAA
*
31830442 TTAAATTATAATTATAA
1 TTAAATAATAATTATAA
31830459 TTATCACATT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAATAATAATTATAAA
Found at i:31830450 original size:12 final size:13
Alignment explanation
Indices: 31830420--31830462 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
31830410 TTACGTCAAA
* *
31830420 AATTTTAAATAAT
1 AATTATAAATTAT
31830433 AATTATAAATTA-
1 AATTATAAATTAT
31830445 AATTAT-AATTAT
1 AATTATAAATTAT
31830457 AATTAT
1 AATTAT
31830463 CACATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 5 0.19
12 12 0.44
13 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTATAAATTAT
Found at i:31831642 original size:43 final size:43
Alignment explanation
Indices: 31831585--31831670 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
31831575 CCACCACTGC
31831585 TTTGCAGATAAAAACTACCACTGGGTTGTGGATGCATAACATA
1 TTTGCAGATAAAAACTACCACTGGGTTGTGGATGCATAACATA
*
31831628 TTTGTAGATAAAAACTACCACTGGGTTGTGGATGCATAACATA
1 TTTGCAGATAAAAACTACCACTGGGTTGTGGATGCATAACATA
31831671 CATATCATCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (43 bp):
TTTGCAGATAAAAACTACCACTGGGTTGTGGATGCATAACATA
Found at i:31831762 original size:38 final size:38
Alignment explanation
Indices: 31831720--31831793 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
31831710 TGTAATAGAA
*
31831720 CAATTCAACACTAGCAGTAGACATGCTTAACATGTATT
1 CAATTCAACACTAGCAATAGACATGCTTAACATGTATT
*
31831758 CAATTCAACACTAGCAATAGACATGCTTATCATGTA
1 CAATTCAACACTAGCAATAGACATGCTTAACATGTA
31831794 CTCTGTAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (38 bp):
CAATTCAACACTAGCAATAGACATGCTTAACATGTATT
Found at i:31837594 original size:43 final size:43
Alignment explanation
Indices: 31837537--31837634 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
31837527 CCACCACCAC
**
31837537 TTTACAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
1 TTTACAGATAAAAACTACCACTGGACTGTGGATGCACAACATA
* *
31837580 TTTATAGATAAAAACTGCCACTGGACTGTGGATGCACAACATA
1 TTTACAGATAAAAACTACCACTGGACTGTGGATGCACAACATA
*
31837623 TTTACAAATAAA
1 TTTACAGATAAA
31837635 CTGCCACTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (43 bp):
TTTACAGATAAAAACTACCACTGGACTGTGGATGCACAACATA
Found at i:31841115 original size:31 final size:30
Alignment explanation
Indices: 31841062--31841120 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
31841052 TTACAGAATG
*
31841062 AAAATACAAGGATAAAATTGATAACAAAAAT
1 AAAATACAAGGATAAAACTGATAA-AAAAAT
* * *
31841093 AAAATACATGGGTCAAACTGATAAAAAA
1 AAAATACAAGGATAAAACTGATAAAAAA
31841121 TTATACAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.61, C:0.08, G:0.12, T:0.19
Consensus pattern (30 bp):
AAAATACAAGGATAAAACTGATAAAAAAAT
Found at i:31842317 original size:6 final size:6
Alignment explanation
Indices: 31842305--31842346 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
31842295 TTCATACTTT
* *
31842305 TTAAAA ATAAAA ATAAAA TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
31842347 ATGGAACAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
TTAAAA
Found at i:31846235 original size:11 final size:11
Alignment explanation
Indices: 31846221--31846250 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
31846211 ACCTTTAATA
31846221 TATTTAAAATG
1 TATTTAAAATG
31846232 TATTTAAAATG
1 TATTTAAAATG
31846243 TATTTAAA
1 TATTTAAA
31846251 TATCTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (11 bp):
TATTTAAAATG
Found at i:31849409 original size:91 final size:91
Alignment explanation
Indices: 31849262--31849469 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
31849252 TTGATTTTAG
* * *
31849262 TAAATTAATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
31849327 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
31849354 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
31849419 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
31849445 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
31849470 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 93 0.86
92 15 0.14
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:31849438 original size:26 final size:28
Alignment explanation
Indices: 31849384--31849444 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
31849374 TATTATCAAG
* *
31849384 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
31849412 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
31849438 AATTATA
1 AATTATA
31849445 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:31849444 original size:44 final size:43
Alignment explanation
Indices: 31849302--31849444 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
31849292 GAATTTTATG
* *
31849302 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
31849346 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
31849393 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
31849437 AAATTATA
1 AAATTATA
31849445 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:31849562 original size:59 final size:57
Alignment explanation
Indices: 31849496--31849804 Score: 202
Period size: 66 Copynumber: 5.2 Consensus size: 57
31849486 ATTTTATTAA
31849496 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
31849555 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* *
31849616 ATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
* * ** * *
31849675 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
31849736 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
31849795 ATCATATATT
1 ATCATATATT
31849805 ATGATTTGAG
Statistics
Matches: 189, Mismatches: 33, Indels: 56
0.68 0.12 0.20
Matches are distributed among these distances:
54 29 0.15
55 14 0.07
56 10 0.05
57 7 0.04
59 30 0.16
60 16 0.08
61 20 0.11
63 8 0.04
64 10 0.05
65 13 0.07
66 32 0.17
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:31849609 original size:120 final size:120
Alignment explanation
Indices: 31849485--31849902 Score: 748
Period size: 120 Copynumber: 3.5 Consensus size: 120
31849475 AATTATTTTA
* *
31849485 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
31849549 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
31849605 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
31849670 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
31849725 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
31849790 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
31849845 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
31849903 ATGATTAAAT
Statistics
Matches: 289, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
120 282 0.98
121 7 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:31849634 original size:18 final size:17
Alignment explanation
Indices: 31849606--31849640 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31849596 ATTATTAAGA
*
31849606 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
31849623 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
31849641 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:31849765 original size:15 final size:15
Alignment explanation
Indices: 31849730--31849781 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
31849720 TTAAGAATTT
*
31849730 TATTAAATTAT-ATA
1 TATTTAATTATAATA
31849744 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
31849758 TATTTAATAATAAT-
1 TATTTAATTATAATA
31849772 TATGTTAATT
1 TAT-TTAATT
31849782 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:31849880 original size:16 final size:16
Alignment explanation
Indices: 31849859--31849900 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
31849849 TTATTAAATT
*
31849859 ATATATTTTAATTATA
1 ATATATTTTAATAATA
31849875 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
31849890 AT-TATGTTTAA
1 ATATAT-TTTAA
31849901 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:31849885 original size:15 final size:15
Alignment explanation
Indices: 31849850--31849891 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
31849840 TTAAGAATTT
*
31849850 TATTAAATTAT-ATA
1 TATTTAATTATAATA
31849864 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
31849878 TATTTAATAATAAT
1 TATTTAATTATAAT
31849892 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:31850139 original size:16 final size:16
Alignment explanation
Indices: 31850114--31850151 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
31850104 TTGATTTGCT
31850114 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
31850130 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
31850146 ATTACA
1 ATTACA
31850152 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:31852805 original size:3 final size:3
Alignment explanation
Indices: 31852797--31852834 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
31852787 TCAACATCTG
*
31852797 CTT CTT CTT CTT CTT CTT CTT CTT CAT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
31852835 GCTCATTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:31854136 original size:22 final size:21
Alignment explanation
Indices: 31854102--31854144 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
31854092 AATTTTTAAA
*
31854102 AAAAATTCAAATAGTCAAAAAT
1 AAAAATTCAAATA-CCAAAAAT
31854124 AAAAATT-ATAATACCAAAAAT
1 AAAAATTCA-AATACCAAAAAT
31854145 TATGAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAATTCAAATACCAAAAAT
Found at i:31857012 original size:45 final size:45
Alignment explanation
Indices: 31856962--31857062 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
31856952 TATGGTGCGA
* * * *
31856962 ATAAACCACTAACCGGTGCAGATAAAATCTGTTAGTACGGTGTGG
1 ATAAACCACTAACCGATGCAGATAAAATATATTAATACGGTGTGG
***
31857007 ATAAACCACTATTTGATGCAGATAAAATATATTAATACGGTGTGG
1 ATAAACCACTAACCGATGCAGATAAAATATATTAATACGGTGTGG
31857052 ATAAACCACTA
1 ATAAACCACTA
31857063 TTCAATGTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (45 bp):
ATAAACCACTAACCGATGCAGATAAAATATATTAATACGGTGTGG
Found at i:31857063 original size:45 final size:45
Alignment explanation
Indices: 31856978--31857078 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
31856968 CACTAACCGG
* * * **
31856978 TGCAGATAAAATCTGTTAGTACGGTGTGGATAAACCACTATTTGA
1 TGCAGATAAAATATATTAATACGGTGTGGATAAACCACTATTCAA
31857023 TGCAGATAAAATATATTAATACGGTGTGGATAAACCACTATTCAA
1 TGCAGATAAAATATATTAATACGGTGTGGATAAACCACTATTCAA
*
31857068 TGTAGATAAAA
1 TGCAGATAAAA
31857079 GCTGCTAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (45 bp):
TGCAGATAAAATATATTAATACGGTGTGGATAAACCACTATTCAA
Found at i:31862600 original size:25 final size:25
Alignment explanation
Indices: 31862546--31862600 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
31862536 CTCAATAATA
*
31862546 TATTTATTAAGTCTTATATTTTTTG
1 TATTTATTAAGTCTAATATTTTTTG
* * *
31862571 GATTTATTTATTCTAAT-TTTTTTAG
1 TATTTATTAAGTCTAATATTTTTT-G
31862596 TATTT
1 TATTT
31862601 TAGGTTAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (25 bp):
TATTTATTAAGTCTAATATTTTTTG
Found at i:31863226 original size:333 final size:333
Alignment explanation
Indices: 31862620--31863286 Score: 1325
Period size: 333 Copynumber: 2.0 Consensus size: 333
31862610 AAGAGTGTGA
31862620 CTAGGTCTAAGAAGGTCTATGTTACTTGCTCTGCAAGATAGTTTACTAGATTCAGGTAAGACTTA
1 CTAGGTCTAAGAAGGTCTATGTTACTTGCTCTGCAAGATAGTTTACTAGATTCAGGTAAGACTTA
31862685 GACATGGTTATAAATACTTAGGAACAGGCACGGATAGCCACCACCATGATGCACTTTTGATTATT
66 GACATGGTTATAAATACTTAGGAACAGGCACGGATAGCCACCACCATGATGCACTTTTGATTATT
31862750 TTGATTAATAAAATCGCTCCAAGGGAGCTTTTTTTCCTTCCATGACTCAAGACTAGTTTCTTGTT
131 TTGATTAATAAAATCGCTCCAAGGGAGCTTTTTTTCCTTCCATGACTCAAGACTAGTTTCTTGTT
31862815 TCTTTCTCGATAGAACTTTTATTTCAGTTCTTCAATATCATCTAATTCAAGTCAATAAGAAGGGT
196 TCTTTCTCGATAGAACTTTTATTTCAGTTCTTCAATATCATCTAATTCAAGTCAATAAGAAGGGT
*
31862880 TAAATAAAAGCAACTATAGTTCTTCGTTGGTAAAAATTCACTAAAAAAGGCTAGGCTATCTATCC
261 TAAATAAAAGCAACTATAGTTCTTCGTTGGTAAAAATTCACTAAAAAAGGCTAGACTATCTATCC
31862945 AACTACTT
326 AACTACTT
31862953 CTAGGTCTAAGAAGGTCTATGTTACTTGCTCTGCAAGATAGTTTACTAGATTCAGGTAAGACTTA
1 CTAGGTCTAAGAAGGTCTATGTTACTTGCTCTGCAAGATAGTTTACTAGATTCAGGTAAGACTTA
31863018 GACATGGTTATAAATACTTAGGAACAGGCACGGATAGCCACCACCATGATGCACTTTTGATTATT
66 GACATGGTTATAAATACTTAGGAACAGGCACGGATAGCCACCACCATGATGCACTTTTGATTATT
31863083 TTGATTAATAAAATCGCTCCAAGGGAGCTTTTTTTCCTTCCATGACTCAAGACTAGTTTCTTGTT
131 TTGATTAATAAAATCGCTCCAAGGGAGCTTTTTTTCCTTCCATGACTCAAGACTAGTTTCTTGTT
31863148 TCTTTCTCGATAGAACTTTTATTTCAGTTCTTCAATATCATCTAATTCAAGTCAATAAGAAGGGT
196 TCTTTCTCGATAGAACTTTTATTTCAGTTCTTCAATATCATCTAATTCAAGTCAATAAGAAGGGT
31863213 TAAATAAAAGCAACTATAGTTCTTCGTTGGTAAAAATTCACTAAAAAAGGCTAGACTATCTATCC
261 TAAATAAAAGCAACTATAGTTCTTCGTTGGTAAAAATTCACTAAAAAAGGCTAGACTATCTATCC
31863278 AACTACTT
326 AACTACTT
31863286 C
1 C
31863287 ACCACCAGCA
Statistics
Matches: 333, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
333 333 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (333 bp):
CTAGGTCTAAGAAGGTCTATGTTACTTGCTCTGCAAGATAGTTTACTAGATTCAGGTAAGACTTA
GACATGGTTATAAATACTTAGGAACAGGCACGGATAGCCACCACCATGATGCACTTTTGATTATT
TTGATTAATAAAATCGCTCCAAGGGAGCTTTTTTTCCTTCCATGACTCAAGACTAGTTTCTTGTT
TCTTTCTCGATAGAACTTTTATTTCAGTTCTTCAATATCATCTAATTCAAGTCAATAAGAAGGGT
TAAATAAAAGCAACTATAGTTCTTCGTTGGTAAAAATTCACTAAAAAAGGCTAGACTATCTATCC
AACTACTT
Found at i:31868475 original size:22 final size:23
Alignment explanation
Indices: 31868440--31868484 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
31868430 TGGCTAAATG
* **
31868440 TTTTCATTTAGTGATTAAATAGA
1 TTTTCATTAAGTGAAAAAATAGA
31868463 TTTTC-TTAAGTGAAAAAATAGA
1 TTTTCATTAAGTGAAAAAATAGA
31868485 GGTTGGGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (23 bp):
TTTTCATTAAGTGAAAAAATAGA
Found at i:31868992 original size:30 final size:31
Alignment explanation
Indices: 31868933--31868992 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
31868923 AGAACAATCT
* * **
31868933 AGTGATTTAAATGAAAAATTTTGAATAGTTC
1 AGTGACTTAAATGAAAAACTTCAAATAGTTC
31868964 AGTGACTTAAATG-AAAACTTCAAATAGTT
1 AGTGACTTAAATGAAAAACTTCAAATAGTT
31868993 TAGCGACCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATGAAAAACTTCAAATAGTTC
Found at i:31875216 original size:5 final size:5
Alignment explanation
Indices: 31875208--31875237 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
31875198 TTCTTTTTAG
31875208 AATTT AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT
31875238 TACTTTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:31878157 original size:3 final size:3
Alignment explanation
Indices: 31878149--31878185 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
31878139 TGTTTACTCA
31878149 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
31878186 CGGGCCGAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31878343 original size:17 final size:17
Alignment explanation
Indices: 31878317--31878357 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
31878307 TTATTGTAAG
31878317 TAACAAAAATAAGAAAA
1 TAACAAAAATAAGAAAA
* *
31878334 TAACAGAAATAATAAAA
1 TAACAAAAATAAGAAAA
*
31878351 TTACAAA
1 TAACAAA
31878358 CAAGCATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (17 bp):
TAACAAAAATAAGAAAA
Found at i:31881620 original size:63 final size:63
Alignment explanation
Indices: 31881547--31881669 Score: 228
Period size: 63 Copynumber: 2.0 Consensus size: 63
31881537 CATGCTATTT
*
31881547 TTGAATTTTGAATTTATTTGAATATTTTTATAATTTTAAATACTTTGTTGTTGAGGATTAAAA
1 TTGAAATTTGAATTTATTTGAATATTTTTATAATTTTAAATACTTTGTTGTTGAGGATTAAAA
*
31881610 TTGAAATTTGAATTTATTTGAATATTTTTGTAATTTTAAATACTTTGTTGTTGAGGATTA
1 TTGAAATTTGAATTTATTTGAATATTTTTATAATTTTAAATACTTTGTTGTTGAGGATTA
31881670 CCATGCGGTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.53
Consensus pattern (63 bp):
TTGAAATTTGAATTTATTTGAATATTTTTATAATTTTAAATACTTTGTTGTTGAGGATTAAAA
Found at i:31885916 original size:78 final size:78
Alignment explanation
Indices: 31885786--31885940 Score: 292
Period size: 78 Copynumber: 2.0 Consensus size: 78
31885776 ATCACCAAGG
31885786 ATAAAGGCTAAAAGAATAAGGATAATCCTTAATCGATAAGGCATGTCGATCTTAATCTTCCTCAA
1 ATAAAGGCTAAAAGAATAAGGATAATCCTTAATCGATAAGGCATGTCGATCTTAATCTTCCTCAA
31885851 ATAGTCAAACACA
66 ATAGTCAAACACA
* *
31885864 ATAAAGGCTAAAAGAATAAGGATAATCCTTAATTGATAAGGCATGTCTATCTTAATCTTCCTCAA
1 ATAAAGGCTAAAAGAATAAGGATAATCCTTAATCGATAAGGCATGTCGATCTTAATCTTCCTCAA
31885929 ATAGTCAAACAC
66 ATAGTCAAACAC
31885941 GACCACCATG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (78 bp):
ATAAAGGCTAAAAGAATAAGGATAATCCTTAATCGATAAGGCATGTCGATCTTAATCTTCCTCAA
ATAGTCAAACACA
Found at i:31887812 original size:10 final size:10
Alignment explanation
Indices: 31887797--31887824 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
31887787 CCTTAAACAC
31887797 AAAATCATCA
1 AAAATCATCA
31887807 AAAATCATCA
1 AAAATCATCA
31887817 AAAATCAT
1 AAAATCAT
31887825 TTATTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAATCATCA
Found at i:31892560 original size:66 final size:67
Alignment explanation
Indices: 31892439--31892569 Score: 165
Period size: 67 Copynumber: 2.0 Consensus size: 67
31892429 CCATTTTCTA
* * *
31892439 ATAATTGACAATTACCAGTCACGCAGAGTATACTCTTAAGAACTTCACACAGAATATGCTCAGAC
1 ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTTAAGAACTTCACACAGAATACGCTCAGAC
31892504 GC
66 GC
* * * * * * *
31892506 ATAATTGAAAATTACCGGTCAAGCGGAGTGTATTC-TAAGAACTTCATACTGAATACGTTCAGAC
1 ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTTAAGAACTTCACACAGAATACGCTCAGAC
31892570 TTCAGACAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
66 25 0.46
67 29 0.54
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (67 bp):
ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTTAAGAACTTCACACAGAATACGCTCAGAC
GC
Found at i:31898220 original size:14 final size:15
Alignment explanation
Indices: 31898201--31898229 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31898191 ACAATATGCC
31898201 AAAATTGCT-GAAAG
1 AAAATTGCTGGAAAG
31898215 AAAATTGCTGGAAAG
1 AAAATTGCTGGAAAG
31898230 CCATCATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.07, G:0.24, T:0.21
Consensus pattern (15 bp):
AAAATTGCTGGAAAG
Found at i:31900851 original size:17 final size:14
Alignment explanation
Indices: 31900820--31900863 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
31900810 ATAAGAGAGT
*
31900820 GAAAAAAAATGAAA
1 GAAAAAAAATAAAA
31900834 GTTAAAAAAACATAAAA
1 G--AAAAAAA-ATAAAA
31900851 GAAAAAAAATAAA
1 GAAAAAAAATAAA
31900864 TTGCTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.23
15 7 0.27
16 7 0.27
17 6 0.23
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.11
Consensus pattern (14 bp):
GAAAAAAAATAAAA
Found at i:31909968 original size:29 final size:29
Alignment explanation
Indices: 31909936--31909999 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
31909926 ATAAAAGAAC
* *
31909936 CATTAGAAGAATCACAAGAAAAACTGATT
1 CATTAAAAGAATCAAAAGAAAAACTGATT
*
31909965 CATTAAAAGAATCAAAAGAAAACCTGATT
1 CATTAAAAGAATCAAAAGAAAAACTGATT
*
31909994 CGTTAA
1 CATTAA
31910000 CCAAAGGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.22
Consensus pattern (29 bp):
CATTAAAAGAATCAAAAGAAAAACTGATT
Found at i:31912693 original size:14 final size:15
Alignment explanation
Indices: 31912654--31912695 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
31912644 TTTTAACATA
*
31912654 ATTATTATTAAATAT
1 ATTATAATTAAATAT
31912669 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
31912683 A-TATAATTTAATA
1 ATTATAATTAAATA
31912696 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:31912804 original size:16 final size:16
Alignment explanation
Indices: 31912760--31912806 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
31912750 TACTATAAAA
*
31912760 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
31912776 TATTATT-AAATATAT
1 TATAATTAAAATATAT
31912791 TATAATTAAAATATAT
1 TATAATTAAAATATAT
31912807 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:31913069 original size:120 final size:120
Alignment explanation
Indices: 31912645--31913060 Score: 744
Period size: 120 Copynumber: 3.5 Consensus size: 120
31912635 TTAATCATAT
31912645 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
31912710 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
31912765 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
31912830 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
* *
31912885 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
31912950 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
* * * *
31913005 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATACATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
31913061 TAAAATAATT
Statistics
Matches: 286, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 284 0.99
121 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
Found at i:31915187 original size:41 final size:41
Alignment explanation
Indices: 31914987--31915189 Score: 212
Period size: 41 Copynumber: 5.0 Consensus size: 41
31914977 TGCAAATAAG
* * * * * * *
31914987 ATGTTTCAGACTTTACGTCTAGGAGGCTTGATGCTGATGAA
1 ATGTATCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAA
* * *
31915028 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG-A
1 ATGTATCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAA
* *
31915068 AT-TACTTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
1 ATGTA--TCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAA
* * *
31915110 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTGAA
1 ATGTATCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAA
* * *
31915151 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTATCAGACTTTATGCCTAGCAGGCTTTATGCCGGTG
31915190 TTTTATACAA
Statistics
Matches: 146, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 137 0.94
42 3 0.02
43 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (41 bp):
ATGTATCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAA
Found at i:31920368 original size:304 final size:304
Alignment explanation
Indices: 31919819--31920427 Score: 1164
Period size: 304 Copynumber: 2.0 Consensus size: 304
31919809 TACTTACCTT
31919819 TGATTGAATTTGCTTATAATAATAGCTTTCAATCTAGTATCAAAATGGCACCTTACGAGGCTTTG
1 TGATTGAATTTGCTTATAATAATAGCTTTCAATCTAGTATCAAAATGGCACCTTACGAGGCTTTG
31919884 TACGGTCGTAAATGTCGTACACCATTGTATTGGACCGAGCTCCGTGAAAACGAGATACACGGGGT
66 TACGGTCGTAAATGTCGTACACCATTGTATTGGACCGAGCTCCGTGAAAACGAGATACACGGGGT
31919949 TGATTTGATTAAAGAGACTGAACAGAAAGTGAAAGTGATTCGGGATAGTCTGAAATCAGCATCGG
131 TGATTTGATTAAAGAGACTGAACAGAAAGTGAAAGTGATTCGGGATAGTCTGAAATCAGCATCGG
31920014 ACCATCAGAAATCTTAAGCGGATTTGAAAAGAAAGGATATAGAATTTCAGATCGGGGACAAAGTG
196 ACCATCAGAAATCTTAAGCGGATTTGAAAAGAAAGGATATAGAATTTCAGATCGGGGACAAAGTG
*
31920079 TTTTTGAAAGTCTCACCGTGGAAGAAAATACTCAGATTCGGTCG
261 TTTTTGAAAGTCTCACCATGGAAGAAAATACTCAGATTCGGTCG
31920123 TGATTGAATTTGCTTATAATAATAGCTTTCAATCTAGTATCAAAATGGCACCTTACGAGGCTTTG
1 TGATTGAATTTGCTTATAATAATAGCTTTCAATCTAGTATCAAAATGGCACCTTACGAGGCTTTG
31920188 TACGGTCGTAAATGTCGTACACCATTGTATTGGACCGAGCTCCGTGAAAACGAGATACACGGGGT
66 TACGGTCGTAAATGTCGTACACCATTGTATTGGACCGAGCTCCGTGAAAACGAGATACACGGGGT
31920253 TGATTTGATTAAAGAGACTGAACAGAAAGTGAAAGTGATTCGGGATAGTCTGAAATCAGCATCGG
131 TGATTTGATTAAAGAGACTGAACAGAAAGTGAAAGTGATTCGGGATAGTCTGAAATCAGCATCGG
*** * *
31920318 ATTGTCAGAAATCTTATGCGGATTTGAAAAGAAAGGATATAGAATTTCAGATCGGGGATAAAGTG
196 ACCATCAGAAATCTTAAGCGGATTTGAAAAGAAAGGATATAGAATTTCAGATCGGGGACAAAGTG
31920383 TTTTTGAAAGTCTCACCATGGAAGAAAATACTCAGATTCGGTCG
261 TTTTTGAAAGTCTCACCATGGAAGAAAATACTCAGATTCGGTCG
31920427 T
1 T
31920428 AAAGGCAAAT
Statistics
Matches: 299, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
304 299 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (304 bp):
TGATTGAATTTGCTTATAATAATAGCTTTCAATCTAGTATCAAAATGGCACCTTACGAGGCTTTG
TACGGTCGTAAATGTCGTACACCATTGTATTGGACCGAGCTCCGTGAAAACGAGATACACGGGGT
TGATTTGATTAAAGAGACTGAACAGAAAGTGAAAGTGATTCGGGATAGTCTGAAATCAGCATCGG
ACCATCAGAAATCTTAAGCGGATTTGAAAAGAAAGGATATAGAATTTCAGATCGGGGACAAAGTG
TTTTTGAAAGTCTCACCATGGAAGAAAATACTCAGATTCGGTCG
Done.