Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 160 of 362
Found at i:52639609 original size:26 final size:26
Alignment explanation
Indices: 52639580--52639687 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
52639570 TGATACAAAT
52639580 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52639606 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52639632 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52639658 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52639684 TGAT
1 TGAT
52639688 GAGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52641378 original size:54 final size:54
Alignment explanation
Indices: 52641279--52641423 Score: 229
Period size: 54 Copynumber: 2.7 Consensus size: 54
52641269 TGGAGGAAGC
*
52641279 GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCT
*
52641334 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATGTCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
52641388 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
52641424 ACTTCATCAG
Statistics
Matches: 85, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
53 6 0.07
54 58 0.68
55 21 0.25
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:52641420 original size:27 final size:27
Alignment explanation
Indices: 52641282--52641423 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 27
52641272 AGGAAGCGTC
* *
52641282 CTGGTGGCTATGCCACAATTTATCT-AAT
1 CTGGTGGCTCTGCCACAA--TATCTGTAT
*
52641310 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
52641337 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
52641364 CTGGTGGCTCTGCCACATATGTCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
52641391 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
52641418 CTGGTG
1 CTGGTG
52641424 ACTTCATCAG
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
26 8 0.08
27 73 0.74
28 17 0.17
29 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:52650088 original size:39 final size:39
Alignment explanation
Indices: 52650052--52650130 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
52650042 ATTATAATCG
52650052 ATTACCACAATCAACCAATCATTTCAAACCTCATAATAA
1 ATTACCACAATCAACCAATCATTTCAAACCTCATAATAA
*
52650091 ATTACCACAATCAATCAATCATTTCAAACCTCATAATAA
1 ATTACCACAATCAACCAATCATTTCAAACCTCATAATAA
52650130 A
1 A
52650131 CATACACATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (39 bp):
ATTACCACAATCAACCAATCATTTCAAACCTCATAATAA
Found at i:52650770 original size:41 final size:41
Alignment explanation
Indices: 52650713--52650794 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
52650703 AAGCTATCAG
52650713 GTATCCACAACACATGCCAGACTACCCAGTCACCGGTAGGA
1 GTATCCACAACACATGCCAGACTACCCAGTCACCGGTAGGA
52650754 GTATCCACAACACATGCCAGACTACCCAGTCACCGGTAGGA
1 GTATCCACAACACATGCCAGACTACCCAGTCACCGGTAGGA
52650795 CGTACATGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.34, G:0.20, T:0.15
Consensus pattern (41 bp):
GTATCCACAACACATGCCAGACTACCCAGTCACCGGTAGGA
Found at i:52653170 original size:39 final size:39
Alignment explanation
Indices: 52653074--52653297 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
52653064 GCTCGCATGA
* *
52653074 GGAGCTTCGCTAATACACAGCTTCATCACTTAAGGTCACGT-GG
1 GGAGCTTCGCTGATACACAGCTT-ATC-CTT-AGCTCA--TAGG
* * *
52653117 GGAGCTTCGCTGATACATAGCTTATCCTTAGCTCAAAGA
1 GGAGCTTCGCTGATACACAGCTTATCCTTAGCTCATAGG
** *
52653156 GGAGCTTTTCTGATACACAGCTTATCCATAAGCTCATAGG
1 GGAGCTTCGCTGATACACAGCTTATCC-TTAGCTCATAGG
* *
52653196 GGAGCTTCGCTGATACACAGCTTGTCCATAGACTCATAGG
1 GGAGCTTCGCTGATACACAGCTTATCCTTAG-CTCATAGG
** * ** *
52653236 GGAGCTTCATTGATGCACAATTTATCCTTAGCTCA-CGG
1 GGAGCTTCGCTGATACACAGCTTATCCTTAGCTCATAGG
* *
52653274 AGGAGCTTCGTTGATACACGGCTT
1 -GGAGCTTCGCTGATACACAGCTT
52653298 GTAAAATCAT
Statistics
Matches: 148, Mismatches: 29, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.33
40 70 0.47
41 3 0.02
42 3 0.02
43 21 0.14
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (39 bp):
GGAGCTTCGCTGATACACAGCTTATCCTTAGCTCATAGG
Found at i:52653269 original size:79 final size:78
Alignment explanation
Indices: 52653115--52653299 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 78
52653105 AAGGTCACGT
* * * * *
52653115 GGGGAGCTTCGCTGATACATAGCTTATCCTTAGCTCAAAGAGGAGCTTTTCTGATACACAGCTTA
1 GGGGAGCTTCGCTGATACACAGCTTGTCCATAGCTCAAAGAGGAGCTTATCTGATACACAACTTA
52653180 TCCATAAGCTCATA
66 TCCATAAGCTCA-A
* * * *
52653194 GGGGAGCTTCGCTGATACACAGCTTGTCCATAGACTCATAGGGGAGCTTCAT-TGATGCACAATT
1 GGGGAGCTTCGCTGATACACAGCTTGTCCATAG-CTCAAAGAGGAGCTT-ATCTGATACACAACT
* *
52653258 TATCC-TTAGCTCAC
64 TATCCATAAGCTCAA
* *
52653272 GGAGGAGCTTCGTTGATACACGGCTTGT
1 GG-GGAGCTTCGCTGATACACAGCTTGT
52653300 AAAATCATTC
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
78 2 0.02
79 60 0.67
80 27 0.30
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (78 bp):
GGGGAGCTTCGCTGATACACAGCTTGTCCATAGCTCAAAGAGGAGCTTATCTGATACACAACTTA
TCCATAAGCTCAA
Found at i:52656783 original size:47 final size:47
Alignment explanation
Indices: 52656724--52656845 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
52656714 GCATTGGCAC
*
52656724 TAAGACAAGGATATCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTTGGAACATGACATTTGG
*
52656771 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTTGGAACATGACATTTGG
*
52656818 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATATCATGTAAGACCATG
52656846 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATATCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:52657006 original size:53 final size:53
Alignment explanation
Indices: 52656827--52657128 Score: 320
Period size: 55 Copynumber: 5.6 Consensus size: 53
52656817 GTAAGATAAG
* * * * *
52656827 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAT
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGCAAA
* * * *
52656881 GAAATCATGTAAGACCATGTCAAGACATGGCATTGAAGAGTTATTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAG-T-TCATAAGGCAAA
* * * *
52656936 GGTCCCATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGA-TGAGTTCATAAGGCAAA
* *
52656989 GTTACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCGAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGGCAAA
* * * * * * *
52657044 GGTTCCATGTAAGACCAT-TGCAAGGCATGACGTTGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGT-CAAGACATGGCATTGATGAGTTCATAAGGCAAA
*
52657097 GATACCACGTAAGACCATGTCAAGACATGGCA
1 GATACCATGTAAGACCATGTCAAGACATGGCA
52657129 ATGGTAAGTT
Statistics
Matches: 206, Mismatches: 34, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
53 79 0.38
54 42 0.20
55 84 0.41
56 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGCAAA
Found at i:52657018 original size:108 final size:107
Alignment explanation
Indices: 52656832--52657128 Score: 425
Period size: 108 Copynumber: 2.7 Consensus size: 107
52656822 ATAAGGATAT
* * * *
52656832 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAATGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTG-TGAGTTC-ATAAGGCAAAGATACCATGTAAGACC
*
52656897 ATGTCAAGACATGGCATTGAAGAGTTATTATAAGGCAAAGGTCC
64 ATGTCAAGACATGGCATTGAAGAGTTACTATAAGGCAAAGGTCC
*
52656941 CATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGGCAAAGTTACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATT-GTGAGTTCATAAGGCAAAGATACCATGTAAGACCA
* * *
52657006 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCGAAGGTTC
65 TGTCAAGACATGGCATTGAAGAGTTACTATAAGGCAAAGGTCC
* * * *
52657049 CATGTAAGACCATTG-CAAGGCATGACGTTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCA-TGCCAAGGCATGGCATT-GTGAGTTCATAAGGCAAAGATACCATGTAAGACC
52657113 ATGTCAAGACATGGCA
64 ATGTCAAGACATGGCA
52657129 ATGGTAAGTT
Statistics
Matches: 171, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
108 133 0.78
109 37 0.22
110 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (107 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGTGAGTTCATAAGGCAAAGATACCATGTAAGACCAT
GTCAAGACATGGCATTGAAGAGTTACTATAAGGCAAAGGTCC
Found at i:52657139 original size:53 final size:53
Alignment explanation
Indices: 52656824--52657140 Score: 300
Period size: 53 Copynumber: 5.9 Consensus size: 53
52656814 TTGGTAAGAT
* * * *
52656824 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTC-ATAAGGC
* * * * *
52656878 AATGAAATCATGTAAGACCATGTCAAGACATGGCATT-GAAGAGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTA-AG-T-TCATAAGGC
* * * * *
52656933 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * *
52656986 AAAGTTACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * * *
52657041 GAAGG-TTCCATGTAAGACCAT-TGCAAGGCATGACGTTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGT-CAAGACATGGCATTGGTAAGTTCATAAGGC
* *
52657094 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCA
52657141 AAAAGGAAAA
Statistics
Matches: 216, Mismatches: 35, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
52 7 0.03
53 84 0.39
54 40 0.19
55 77 0.36
56 8 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:52660799 original size:11 final size:11
Alignment explanation
Indices: 52660783--52660817 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
52660773 TTTACTTTGG
52660783 TTTATTTTTAT
1 TTTATTTTTAT
52660794 TTTATTTTTA-
1 TTTATTTTTAT
52660804 -TTATTTTTAT
1 TTTATTTTTAT
52660814 TTTA
1 TTTA
52660818 ACTTAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.41
11 13 0.59
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:52660809 original size:20 final size:20
Alignment explanation
Indices: 52660784--52660831 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
52660774 TTACTTTGGT
** *
52660784 TTATTTTTATTTTATTTTTA
1 TTATTTTTATTTTAACTTAA
52660804 TTATTTTTATTTTAACTTAA
1 TTATTTTTATTTTAACTTAA
52660824 TTATTTTT
1 TTATTTTT
52660832 CATGATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (20 bp):
TTATTTTTATTTTAACTTAA
Found at i:52661399 original size:36 final size:36
Alignment explanation
Indices: 52661359--52661430 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
52661349 TAATGCATAA
52661359 GAACGATTTAAGGAGTTATTATATAAATGCTCTCAT
1 GAACGATTTAAGGAGTTATTATATAAATGCTCTCAT
52661395 GAACGATTTAAGGAGTTATTATATAAATGCTCTCAT
1 GAACGATTTAAGGAGTTATTATATAAATGCTCTCAT
52661431 CATAAAATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (36 bp):
GAACGATTTAAGGAGTTATTATATAAATGCTCTCAT
Found at i:52665071 original size:44 final size:44
Alignment explanation
Indices: 52665006--52665094 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
52664996 AAGCAATAGG
*
52665006 AGCTGTGTTAGGACAATGAATGAATAGAATTTTCCATCCCATTT
1 AGCTGTGTTAGGACAACGAATGAATAGAATTTTCCATCCCATTT
52665050 AGCTGTGTTAGGACAACGAATGAATAGAATTTTCCATCCCATTT
1 AGCTGTGTTAGGACAACGAATGAATAGAATTTTCCATCCCATTT
52665094 A
1 A
52665095 CTATGCTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (44 bp):
AGCTGTGTTAGGACAACGAATGAATAGAATTTTCCATCCCATTT
Found at i:52669417 original size:31 final size:31
Alignment explanation
Indices: 52669377--52669462 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
52669367 TCAAGCTCAG
52669377 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
52669407 CATATCACTGGGCCAAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
52669438 CATATCGCTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
52669463 TGTAACAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:52669716 original size:25 final size:25
Alignment explanation
Indices: 52669688--52669774 Score: 147
Period size: 25 Copynumber: 3.5 Consensus size: 25
52669678 ATAACTAGGA
*
52669688 CAAAGCCCTTTTTGATAAACTGGGG
1 CAAAGCCCTTTTCGATAAACTGGGG
52669713 CAAAGCCCTTTTCGATAAACTGGGG
1 CAAAGCCCTTTTCGATAAACTGGGG
*
52669738 CAAAGCCCTTTTCGGTAAACTGGGG
1 CAAAGCCCTTTTCGATAAACTGGGG
*
52669763 CATAGCCCTTTT
1 CAAAGCCCTTTT
52669775 GCACTTCCTC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (25 bp):
CAAAGCCCTTTTCGATAAACTGGGG
Found at i:52676914 original size:31 final size:31
Alignment explanation
Indices: 52676867--52676941 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
52676857 AGGTAGGAAT
52676867 CCGAAGCCTTTACATTATTCATATCACTGGG
1 CCGAAGCCTTTACATTATTCATATCACTGGG
* * *
52676898 CCGAAGTCTTTTCATTATTCATATCGCTGGG
1 CCGAAGCCTTTACATTATTCATATCACTGGG
52676929 CCGAAGCCTTTAC
1 CCGAAGCCTTTAC
52676942 TGTAACAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (31 bp):
CCGAAGCCTTTACATTATTCATATCACTGGG
Found at i:52677187 original size:25 final size:25
Alignment explanation
Indices: 52677159--52677253 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
52677149 CTCTTTTAAT
* *
52677159 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGGTA
*
52677184 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGGTA
*
52677209 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGGTA
*
52677234 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
52677254 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGGTA
Found at i:52695029 original size:40 final size:40
Alignment explanation
Indices: 52694980--52695203 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
52694970 CTAACGGGGT
* * * * *
52694980 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTACGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
52695020 TAAGTCCCG-AGGCATTTGTGCGAGTTACTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
52695059 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
52695099 TAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
52695139 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
52695179 TAAGACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
52695204 GGTTATATCC
Statistics
Matches: 167, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 45 0.27
40 122 0.73
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:52695212 original size:39 final size:40
Alignment explanation
Indices: 52694980--52695228 Score: 276
Period size: 40 Copynumber: 6.3 Consensus size: 40
52694970 CTAACGGGGT
* * * *
52694980 TAAGTCCCGAAGACATTTGTGCTAGTGATTA-ATTACGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
* *
52695020 TAAGTCCCG-AGGCATTTGTGCGAGTTACTA-ATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
*
52695059 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
* *
52695099 TAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* *
52695139 TAAGTCCCGAAGGCATTTGTGCTAGTGACCATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * * **
52695179 TAAGACCCGACGGC-CTTGTGCGAGTGGTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
*
52695217 TAAATCCCGAAG
1 TAAGTCCCGAAG
52695229 ATACTTGGGT
Statistics
Matches: 186, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 12 0.06
39 50 0.27
40 123 0.66
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
Found at i:52715749 original size:15 final size:15
Alignment explanation
Indices: 52715725--52715758 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
52715715 TTAGTGTTAG
*
52715725 AAAAATTTTGAAATA
1 AAAAAATTTGAAATA
52715740 AAAAAATTTGAAATA
1 AAAAAATTTGAAATA
52715755 AAAA
1 AAAA
52715759 GAGAGTACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAAAATTTGAAATA
Found at i:52716065 original size:33 final size:33
Alignment explanation
Indices: 52716028--52716095 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
52716018 TGTGTACCTG
52716028 ATACGTAAGAAATTTTGCTATTTGATTTAGGGT
1 ATACGTAAGAAATTTTGCTATTTGATTTAGGGT
52716061 ATACGTAAGAAATTTTGCTATTTGATTTAGGGT
1 ATACGTAAGAAATTTTGCTATTTGATTTAGGGT
52716094 AT
1 AT
52716096 TTGGTACCCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.43
Consensus pattern (33 bp):
ATACGTAAGAAATTTTGCTATTTGATTTAGGGT
Found at i:52718604 original size:30 final size:30
Alignment explanation
Indices: 52718570--52718628 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
52718560 CATAAACTGT
* *
52718570 ACTTTTACAAATTTAC-ATTTTGACCCCTAA
1 ACTTTCACAAATTTACGATTTAG-CCCCTAA
*
52718600 ACTTTCACATATTTACGATTTAGCCCCTA
1 ACTTTCACAAATTTACGATTTAGCCCCTA
52718629 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTACGATTTAGCCCCTAA
Found at i:52722021 original size:18 final size:16
Alignment explanation
Indices: 52721998--52722041 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
52721988 TGTCATTATT
*
52721998 CTTATTTTTTTCTCGTTG
1 CTTATTTTTTTCT--TTA
*
52722016 CTTATTTATTTCTTTA
1 CTTATTTTTTTCTTTA
52722032 CTTATTTTTT
1 CTTATTTTTT
52722042 ATACCTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 11 0.48
18 12 0.52
ACGTcount: A:0.11, C:0.14, G:0.05, T:0.70
Consensus pattern (16 bp):
CTTATTTTTTTCTTTA
Found at i:52722128 original size:21 final size:21
Alignment explanation
Indices: 52722102--52722165 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
52722092 TTTTAATCAT
52722102 TTATTATTACTATTACTTTTA
1 TTATTATTACTATTACTTTTA
* * *
52722123 TTATTATTACTGTTTCTATTA
1 TTATTATTACTATTACTTTTA
* *
52722144 TTGTT-TTTCTATTACTATTTA
1 TTATTATTACTATTACT-TTTA
52722165 T
1 T
52722166 GTTATTGTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 8 0.24
21 26 0.76
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.64
Consensus pattern (21 bp):
TTATTATTACTATTACTTTTA
Found at i:52722709 original size:11 final size:11
Alignment explanation
Indices: 52722664--52722712 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
52722654 AGATAAATAT
*
52722664 TATTTTATTAA
1 TATTTTATTAG
*
52722675 TATTTTAATAAG
1 TATTTT-ATTAG
52722687 ATATTTTATTAG
1 -TATTTTATTAG
52722699 TATTTTATTAG
1 TATTTTATTAG
52722710 TAT
1 TAT
52722713 GTAAAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 20 0.61
12 7 0.21
13 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (11 bp):
TATTTTATTAG
Found at i:52724904 original size:38 final size:38
Alignment explanation
Indices: 52724854--52725018 Score: 132
Period size: 46 Copynumber: 3.9 Consensus size: 38
52724844 TAATATGAAA
* * * *
52724854 TGTGTAAGACCATTGTTTAAAGATACCATGGTAACCTG
1 TGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTG
52724892 TGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 TGTGTAAAACCATGGTTGAAAGATACCATGGCAACC-----TG
*
52724935 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ---TGTGTAAAACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
52724983 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 -TGTGTAAAACCATGGTTGAAAGATACCATGGCAAC
52725019 GTGACATGAA
Statistics
Matches: 112, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
38 32 0.29
43 2 0.02
46 77 0.69
48 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (38 bp):
TGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:52724959 original size:46 final size:46
Alignment explanation
Indices: 52724892--52725108 Score: 301
Period size: 46 Copynumber: 4.7 Consensus size: 46
52724882 TGGTAACCTG
* *
52724892 TGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
52724938 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
52724984 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
52725030 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
52725076 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
52725109 TCACGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 155 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:52725804 original size:3 final size:3
Alignment explanation
Indices: 52725791--52725918 Score: 74
Period size: 3 Copynumber: 43.7 Consensus size: 3
52725781 ACACTATTCT
* *
52725791 TTA TT- TTA TTA TTA TTA TTA TTTA TTA TT- TTA TCA TTCC TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA T-TA
* * * * *
52725836 TTA TTG TTA TTA TTA GTA -TA CTA TTA TTA TTT TTA TTAA CGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA
* *
52725882 TTA TTA TT- TTA -TA CT- TTA TTA TTA -TA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52725919 GCTATCATCA
Statistics
Matches: 98, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
2 14 0.14
3 75 0.77
4 8 0.08
5 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:52726005 original size:3 final size:3
Alignment explanation
Indices: 52725997--52726043 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
52725987 ATTTATTTAC
**
52725997 ATT ATT ATT GCT ATT ACTT -TT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
52726042 AT
1 AT
52726044 CTTAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:52729682 original size:20 final size:19
Alignment explanation
Indices: 52729654--52729691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
52729644 AACAAATAAC
*
52729654 AAATAAAAAATATAAATAT
1 AAATAAAAAAAATAAATAT
52729673 AAATATAAAAAAATAAATA
1 AAATA-AAAAAAATAAATA
52729692 GACGAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAAAAAAAATAAATAT
Found at i:52730103 original size:41 final size:38
Alignment explanation
Indices: 52730047--52730126 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 38
52730037 TTTAAAGTAT
**
52730047 ACTAAAACTTTAATTAGTCTAAAAAAGAAGTAGTTTTAAAC
1 ACTAAAACTCGAATTAGTCT-AAAAA-AA-TAGTTTTAAAC
52730088 ACTAAAACTCGAATTAGTCTAAAAAAATAGTTTTAAAC
1 ACTAAAACTCGAATTAGTCTAAAAAAATAGTTTTAAAC
52730126 A
1 A
52730127 AAACTTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 12 0.32
39 2 0.05
40 5 0.14
41 18 0.49
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (38 bp):
ACTAAAACTCGAATTAGTCTAAAAAAATAGTTTTAAAC
Found at i:52730213 original size:18 final size:18
Alignment explanation
Indices: 52730190--52730225 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52730180 TAAAAAAATT
52730190 ATAATAAAAAATAATAAA
1 ATAATAAAAAATAATAAA
* *
52730208 ATAATAAGAGATAATAAA
1 ATAATAAAAAATAATAAA
52730226 TACAATATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (18 bp):
ATAATAAAAAATAATAAA
Found at i:52734484 original size:23 final size:23
Alignment explanation
Indices: 52734454--52734500 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
52734444 TTTGAATATC
*
52734454 TAAAATCTTAGTGATATTTTCAT
1 TAAAATCTTAATGATATTTTCAT
52734477 TAAAATCTTAATGATATTTTCAT
1 TAAAATCTTAATGATATTTTCAT
52734500 T
1 T
52734501 CAACCCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (23 bp):
TAAAATCTTAATGATATTTTCAT
Found at i:52737999 original size:3 final size:3
Alignment explanation
Indices: 52737991--52738018 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
52737981 AAGATGTTGC
52737991 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
52738019 TGTAAGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:52738789 original size:15 final size:16
Alignment explanation
Indices: 52738769--52738801 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
52738759 GAATATTATC
52738769 TTCTTTTTT-TGTATT
1 TTCTTTTTTCTGTATT
52738784 TTCTTTTTTCTGTATT
1 TTCTTTTTTCTGTATT
52738800 TT
1 TT
52738802 TTATCACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (16 bp):
TTCTTTTTTCTGTATT
Found at i:52739215 original size:37 final size:36
Alignment explanation
Indices: 52739144--52739216 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 36
52739134 ATAAAGAAGT
* * *
52739144 CAAAAACAATAAAAGAAAAAATTTGAGAACAAATAA
1 CAAAAACAATAAAAGAAAAAATATAAAAACAAATAA
*
52739180 CAAATAACAATAAAA-ATAAAAATATAAAAATAAATAA
1 CAAA-AACAATAAAAGA-AAAAATATAAAAACAAATAA
52739217 ATAGACGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 5 0.16
37 26 0.84
ACGTcount: A:0.73, C:0.07, G:0.04, T:0.16
Consensus pattern (36 bp):
CAAAAACAATAAAAGAAAAAATATAAAAACAAATAA
Found at i:52739601 original size:15 final size:15
Alignment explanation
Indices: 52739581--52739611 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
52739571 TAAAGTATGC
52739581 TAAAACTCTAATTAA
1 TAAAACTCTAATTAA
52739596 TAAAACTCTAATTAA
1 TAAAACTCTAATTAA
52739611 T
1 T
52739612 CTAAACAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAACTCTAATTAA
Found at i:52746630 original size:141 final size:135
Alignment explanation
Indices: 52746382--52746654 Score: 438
Period size: 141 Copynumber: 2.0 Consensus size: 135
52746372 AATGTGTTAA
*
52746382 TATTTTGGTTTACTAGTGAAATGATGGTTAATTGTATATATGATTGAGGCTATGTTGGTATGTTA
1 TATTTTGGTTTACTAGTGAAATGATGGTTAATTGTATATATGATTGAGGCTATGTTGGTATATTA
* *
52746447 GCCTAGTCTATAGTTTTCGTATGTGTTTAGCTTAAAATTTGGTAGCCTAAGTAGCTAAATATTAG
66 GCCTAGTCTATAATTTTCGTATGTGTTTAGCTTAAAATTTGGTAGCCTAAATAGCTAAATATTAG
52746512 TTTAG
131 TTTAG
* *
52746517 TATTTTGGTTTGCTAGTGAAATGATGGTTAATTGTATATATGTTTGTGGTTGAGGCTATGTTGGT
1 TATTTTGGTTTACTAGTGAAATGATGGTTAATTGTATATA------TGATTGAGGCTATGTTGGT
*
52746582 ATATTAGCCTAGTCTATAATTTTGGTATGTGTTTAGCTTAAAATTTGGTAGCCTAAATAGCTAAA
60 ATATTAGCCTAGTCTATAATTTTCGTATGTGTTTAGCTTAAAATTTGGTAGCCTAAATAGCTAAA
52746647 TATTAGTT
125 TATTAGTT
52746655 CAATTATGGT
Statistics
Matches: 126, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
135 39 0.31
141 87 0.69
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.44
Consensus pattern (135 bp):
TATTTTGGTTTACTAGTGAAATGATGGTTAATTGTATATATGATTGAGGCTATGTTGGTATATTA
GCCTAGTCTATAATTTTCGTATGTGTTTAGCTTAAAATTTGGTAGCCTAAATAGCTAAATATTAG
TTTAG
Found at i:52764179 original size:53 final size:53
Alignment explanation
Indices: 52764120--52764226 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
52764110 TGCTCTCAAT
** * * *
52764120 TATGTATGTTTATTTCTTGTTTTACTATTTCCAGGATATCAATTCATGTTTAA
1 TATGTATACTTATTTCTTATTTTAATATTTCCAGGATATCAATTCATATTTAA
** *
52764173 TATGTATACTTATTTCTTATTTTAATATTTTGAGGATATTAATTCATATTTAA
1 TATGTATACTTATTTCTTATTTTAATATTTCCAGGATATCAATTCATATTTAA
52764226 T
1 T
52764227 GTGCTTAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.54
Consensus pattern (53 bp):
TATGTATACTTATTTCTTATTTTAATATTTCCAGGATATCAATTCATATTTAA
Found at i:52764893 original size:18 final size:18
Alignment explanation
Indices: 52764872--52764912 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
52764862 AATTTAGAAA
52764872 TTTTATTTTTA-TTATAAT
1 TTTTATTTTTAGTT-TAAT
*
52764890 TTTTGTTTTTAGTTTAAT
1 TTTTATTTTTAGTTTAAT
52764908 TTTTA
1 TTTTA
52764913 CTTTGTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTATTTTTAGTTTAAT
Found at i:52768771 original size:5 final size:5
Alignment explanation
Indices: 52768761--52768877 Score: 50
Period size: 5 Copynumber: 22.8 Consensus size: 5
52768751 TATTATGATT
*
52768761 TTTTA TTTTA --TTA GTTTA TTATT- TTCTTA TTTTA TTTTA TTCTT-
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TT-TTA TTTTA TTTTA TT-TTA
** *
52768805 TTAATT- TTTTA TTCACA TGTTTA -TTTA TTTTA TTTTG TTTATGA TATTTA
1 TT--TTA TTTTA TT-TTA T-TTTA TTTTA TTTTA TTTTA TTT-T-A T-TTTA
*
52768855 -GTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT
52768878 TTGGTCTTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
3 3 0.03
4 9 0.10
5 55 0.63
6 15 0.17
7 3 0.03
8 2 0.02
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:52768780 original size:8 final size:8
Alignment explanation
Indices: 52768753--52768879 Score: 59
Period size: 8 Copynumber: 15.2 Consensus size: 8
52768743 TTTTTTGTTA
*
52768753 TTATGATT
1 TTATTATT
52768761 TT-TTATT
1 TTATTATT
*
52768768 TTATTAGT
1 TTATTATT
52768776 TTATTATT
1 TTATTATT
*
52768784 TTCTTA--
1 TTATTATT
52768790 TT-TTATT
1 TTATTATT
*
52768797 TTATTCTT
1 TTATTATT
52768805 TTAATT-TT
1 TT-ATTATT
52768813 TTATTCACATGT
1 TTATT---AT-T
52768825 TTATTTATT
1 TTA-TTATT
*
52768834 TTATTTTGT
1 TTATTAT-T
*
52768843 TTATGATAT
1 TTATTAT-T
52768852 TTAGTTATT
1 TTA-TTATT
52768861 TTATTTTATT
1 TTA--TTATT
52768871 TTATT-TT
1 TTATTATT
52768878 TT
1 TT
52768880 GGTCTTATTT
Statistics
Matches: 94, Mismatches: 11, Indels: 29
0.70 0.08 0.22
Matches are distributed among these distances:
5 3 0.03
6 2 0.02
7 15 0.16
8 33 0.35
9 21 0.22
10 13 0.14
11 1 0.01
12 4 0.04
13 2 0.02
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (8 bp):
TTATTATT
Found at i:52768795 original size:13 final size:12
Alignment explanation
Indices: 52768740--52768879 Score: 56
Period size: 13 Copynumber: 11.1 Consensus size: 12
52768730 AGTGTTTCCC
*
52768740 TATTTT-TTTGT
1 TATTTTATTTTT
*
52768751 TATTATGATTTTT
1 TATT-TTATTTTT
*
52768764 TATTTTATTAGTT
1 TATTTTATT-TTT
52768777 TA--TTATTTTCT
1 TATTTTATTTT-T
52768788 TATTTTATTTTAT
1 TATTTTATTTT-T
*
52768801 TCTTTTAATTTTT
1 TATTTT-ATTTTT
* *
52768814 TATTCACATGTTTATT
1 TATT---TTATTT-TT
52768830 TATTTTATTTTGTT
1 TATTTTA-TTT-TT
** *
52768844 TATGATATTTAGT
1 TATTTTATTT-TT
52768857 TATTTTA--TTT
1 TATTTTATTTTT
52768867 TATTTTATTTTT
1 TATTTTATTTTT
52768879 T
1 T
52768880 GGTCTTATTT
Statistics
Matches: 95, Mismatches: 20, Indels: 27
0.67 0.14 0.19
Matches are distributed among these distances:
10 9 0.09
11 13 0.14
12 9 0.09
13 39 0.41
14 15 0.16
15 3 0.03
16 7 0.07
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:52768845 original size:18 final size:18
Alignment explanation
Indices: 52768822--52768877 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
52768812 TTTATTCACA
52768822 TGTTTATTTATTTTATTT
1 TGTTTATTTATTTTATTT
* *
52768840 TGTTTA-TGATATTTAGTTA
1 TGTTTATTTAT-TTTA-TTT
52768859 T-TTTATTTTATTTTATTT
1 TGTTTA-TTTATTTTATTT
52768877 T
1 T
52768878 TTGGTCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
17 3 0.10
18 17 0.57
19 7 0.23
20 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (18 bp):
TGTTTATTTATTTTATTT
Found at i:52768852 original size:23 final size:21
Alignment explanation
Indices: 52768787--52768877 Score: 55
Period size: 21 Copynumber: 4.3 Consensus size: 21
52768777 TATTATTTTC
* *
52768787 TTATTTTATTTTATTCTTTTAA
1 TTATTTTATTTTATT-TTATAT
** *
52768809 TT-TTTTATTCACATGTT-TAT
1 TTATTTTATT-TTATTTTATAT
*
52768829 TTATTTTATTTTGTTTATGATAT
1 TTATTTTATTTTATTT-T-ATAT
*
52768852 TTA-GTTATTTTATTTTAT-T
1 TTATTTTATTTTATTTTATAT
52768871 TTATTTT
1 TTATTTT
52768878 TTGGTCTTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
19 4 0.08
20 10 0.19
21 18 0.35
22 14 0.27
23 6 0.12
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.71
Consensus pattern (21 bp):
TTATTTTATTTTATTTTATAT
Found at i:52784876 original size:38 final size:38
Alignment explanation
Indices: 52784834--52784926 Score: 123
Period size: 38 Copynumber: 2.4 Consensus size: 38
52784824 TAAAGACCCT
*
52784834 CAGGCTTCGTGCTGGTAAAATATCCAGGTTAAATCCCA
1 CAGGCTTCGTGCTGGTAAAATATCCAGGATAAATCCCA
** * *
52784872 CAGGCTTCGTGCTGGTATTATATCCAGGATAAATCTCG
1 CAGGCTTCGTGCTGGTAAAATATCCAGGATAAATCCCA
* *
52784910 CAGGCCTAGTGCTGGTA
1 CAGGCTTCGTGCTGGTA
52784927 TTATATTTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTAAAATATCCAGGATAAATCCCA
Found at i:52785000 original size:43 final size:43
Alignment explanation
Indices: 52784930--52785126 Score: 342
Period size: 43 Copynumber: 4.6 Consensus size: 43
52784920 GCTGGTATTA
* *
52784930 TATTTGGGCCTTCATGCCTAG-AGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
52784972 TATTCGGGACTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
52785015 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
52785058 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
52785101 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
52785127 GTAATGCCGG
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
42 18 0.12
43 129 0.88
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:52790287 original size:38 final size:38
Alignment explanation
Indices: 52790202--52790297 Score: 120
Period size: 38 Copynumber: 2.5 Consensus size: 38
52790192 CTCGGGCTTC
** * * *
52790202 GTGCTGGTAAAATATCCGGGTTAAATCCCGCAGGCTTC
1 GTGCTGGTATTATATCCGGGATAAATCCCGCAGGCCTA
* *
52790240 GTGCTGGTATTATATGCGGGATAAATCCGGCAGGCCTA
1 GTGCTGGTATTATATCCGGGATAAATCCCGCAGGCCTA
*
52790278 GTGCTGGTATTATATTCGGG
1 GTGCTGGTATTATATCCGGG
52790298 CTTCCGTGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (38 bp):
GTGCTGGTATTATATCCGGGATAAATCCCGCAGGCCTA
Found at i:52796405 original size:23 final size:23
Alignment explanation
Indices: 52796379--52796422 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
52796369 TAGAAAAGAA
52796379 AAATT-AAACTAAAAGTAAAAAGT
1 AAATTGAAA-TAAAAGTAAAAAGT
*
52796402 AAATTGCAATAAAAGTAAAAA
1 AAATTGAAATAAAAGTAAAAA
52796423 TGGCTAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.20
Consensus pattern (23 bp):
AAATTGAAATAAAAGTAAAAAGT
Found at i:52798073 original size:17 final size:17
Alignment explanation
Indices: 52798053--52798085 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52798043 TTTTTTTAGT
*
52798053 TTTATTTTTATTTTTAC
1 TTTATTTTTATGTTTAC
52798070 TTTATTTTTATGTTTA
1 TTTATTTTTATGTTTA
52798086 TTTTTTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATGTTTAC
Found at i:52798078 original size:23 final size:23
Alignment explanation
Indices: 52798047--52798090 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
52798037 TGTTTATTTT
*
52798047 TTTAGTTTTATTTTTATTTTTAC
1 TTTAGTTTTATGTTTATTTTTAC
*
52798070 TTTATTTTTATGTTTATTTTT
1 TTTAGTTTTATGTTTATTTTT
52798091 TTAGTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTAGTTTTATGTTTATTTTTAC
Found at i:52798105 original size:6 final size:6
Alignment explanation
Indices: 52798045--52798090 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
52798035 TTTGTTTATT
* * *
52798045 TTTTTA GTTTTA TTTTTA TTTTTA -CTTTA TTTTTA TGTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
52798091 TTAGTTCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:52801777 original size:25 final size:25
Alignment explanation
Indices: 52801749--52801804 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
52801739 TATAATAAGT
52801749 GTATGATCGATATTATGGTCAATGA
1 GTATGATCGATATTATGGTCAATGA
52801774 GTATGATCGATATTATGGTCAATGA
1 GTATGATCGATATTATGGTCAATGA
*
52801799 GAATGA
1 GTATGA
52801805 CCTTGTGAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (25 bp):
GTATGATCGATATTATGGTCAATGA
Found at i:52804738 original size:40 final size:40
Alignment explanation
Indices: 52804624--52804718 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
52804614 TATCTCAGTA
* *
52804624 TCGCACACTTAGTGCCTCATATAGCTGAAGCTATTCCAAT
1 TCGCACACTAAGTGCCTTATATAGCTGAAGCTATTCCAAT
52804664 TCGCACACTAAGTGCCTTATATAGCTGAAGCTATTCCAAT
1 TCGCACACTAAGTGCCTTATATAGCTGAAGCTATTCCAAT
52804704 TCGCACACTAAGTGC
1 TCGCACACTAAGTGC
52804719 TATTCATAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (40 bp):
TCGCACACTAAGTGCCTTATATAGCTGAAGCTATTCCAAT
Found at i:52804767 original size:40 final size:40
Alignment explanation
Indices: 52804625--52804767 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 40
52804615 ATCTCAGTAT
* * * *
52804625 CGCACACTTAGTGCC-TCATATAGCTGAAGCTATTCCAATT
1 CGCACACTAAGTGCCAT-ACATAGCCGAAGCTATTCCAATA
* * * *
52804665 CGCACACTAAGTGCCTTATATAGCTGAAGCTATTCCAATT
1 CGCACACTAAGTGCCATACATAGCCGAAGCTATTCCAATA
* * **
52804705 CGCACACTAAGTGCTATTCATAGCCGAAGCTATTTTGAA-A
1 CGCACACTAAGTGCCATACATAGCCGAAGCTA-TTCCAATA
*
52804745 CGCACACTAAGTGCCAAACATAG
1 CGCACACTAAGTGCCATACATAG
52804768 TCGATTTATT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 84 0.94
41 5 0.06
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (40 bp):
CGCACACTAAGTGCCATACATAGCCGAAGCTATTCCAATA
Found at i:52810060 original size:5 final size:6
Alignment explanation
Indices: 52810044--52810068 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52810034 TATATATATG
52810044 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
52810069 CCAACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:52833201 original size:28 final size:30
Alignment explanation
Indices: 52833170--52833229 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
52833160 AAAGTGATTT
*
52833170 TTGACAAAAATGTCAA-TGAGGGA-TTAAA
1 TTGACAAAAATGTAAATTGAGGGAGTTAAA
* *
52833198 TTGAGAAAAGTGTAAATTGAGGGAGTTAAA
1 TTGACAAAAATGTAAATTGAGGGAGTTAAA
52833228 TT
1 TT
52833230 TTGAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 13 0.48
29 7 0.26
30 7 0.26
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.28
Consensus pattern (30 bp):
TTGACAAAAATGTAAATTGAGGGAGTTAAA
Found at i:52833768 original size:43 final size:43
Alignment explanation
Indices: 52833720--52833866 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 43
52833710 ATCGATATGT
52833720 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTGA
* * * *
52833763 GATTACGTGTAAGACCATGTCTAGGACATTGGTATTGTTAATCA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATTG-TATTGA
* * * * * * *
52833807 -ATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT-TGA
* *
52833849 GATAACATATAAGACCAT
1 GATTACATGTAAGACCAT
52833867 ATCTGGGATA
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 77 0.93
44 4 0.05
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTGA
Found at i:52839657 original size:50 final size:44
Alignment explanation
Indices: 52839521--52839680 Score: 128
Period size: 44 Copynumber: 3.5 Consensus size: 44
52839511 GTCACAATAG
**
52839521 CAAATCTTATCTCCCTGAAGTTACAGTGGAGAAAGATGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGAAAGATGAAGCTA
* *** * *
52839565 CAAATCTTATAC-CCTTGAAGTTGTAGTGG-GTTGGAATAAAGCTT
1 CAAATCTTAT-CTCCCTGAAGTTGTAGTGGAGAAAG-ATGAAGCTA
*
52839609 CAATTTTTAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTA
1 C-A-----AATCTTATCTCCCTGAAGTTGTAGTGGAGAAAGATGAAGCTA
*
52839659 CAAAT-TCTATATCCCTGAAGTT
1 CAAATCT-TATCTCCCTGAAGTT
52839681 ACAGTGGAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.03
44 49 0.54
45 2 0.02
49 2 0.02
50 32 0.36
51 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTGGAGAAAGATGAAGCTA
Found at i:52839715 original size:94 final size:94
Alignment explanation
Indices: 52839521--52839739 Score: 219
Period size: 94 Copynumber: 2.3 Consensus size: 94
52839511 GTCACAATAG
52839521 CAAATCTTATCTCCCTGAAGTTACAGTGGAGAAAGATGAAGCTACAAATCTTATACCCTTGAAGT
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGAAAGATGAAGCTACAAATCTTATACCCTTGAAGT
** ** * * ***
52839586 TGTAGTGGGTTGGAATAAAGCTTCAATTT
66 TACAGTGGAATAGAATAAAGCTACAACAA
** ** *
52839615 TTAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAAT-TCTATATCCC-TGAA
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGAAAGATGAAGCTACAAATCT-TATA-CCCTTGAA
*
52839678 GTTACAGTGGAATAGATTGAAA-CTACAACAA
64 GTTACAGTGGAATAGAAT-AAAGCTACAACAA
* * * *
52839709 CAAATCTCATCTACCTAAAGATACAGTGGAG
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAG
52839740 CCAGATAAAG
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
93 1 0.01
94 92 0.93
95 6 0.06
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (94 bp):
CAAATCTTATCTCCCTGAAGTTACAGTGGAGAAAGATGAAGCTACAAATCTTATACCCTTGAAGT
TACAGTGGAATAGAATAAAGCTACAACAA
Found at i:52842648 original size:110 final size:110
Alignment explanation
Indices: 52842453--52842672 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
52842443 TGTGACTATT
52842453 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
52842518 AGAGGAACTAAATCAAATAGGGGAAAGGAGAAAGCAATCGAGTAG
66 AGAGGAACTAAATCAAATAGGGGAAAGGAGAAAGCAATCGAGTAG
52842563 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
* * *
52842628 AGAGGAACTAAATCAGATAGGGGAAAGGCGAAAGCAGTCGAGTAG
66 AGAGGAACTAAATCAAATAGGGGAAAGGAGAAAGCAATCGAGTAG
52842673 CCTATCCACA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.24
Consensus pattern (110 bp):
ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
AGAGGAACTAAATCAAATAGGGGAAAGGAGAAAGCAATCGAGTAG
Found at i:52844676 original size:40 final size:40
Alignment explanation
Indices: 52844618--52844802 Score: 309
Period size: 40 Copynumber: 4.6 Consensus size: 40
52844608 CGGATGATAA
* * *
52844618 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
52844658 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
52844698 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52844738 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
52844778 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52844803 ACCAAGTAGT
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 137 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52844817 original size:80 final size:79
Alignment explanation
Indices: 52844614--52844834 Score: 284
Period size: 80 Copynumber: 2.8 Consensus size: 79
52844604 TATTCGGATG
* * *
52844614 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
52844678 ATTTGTACGAGTTACT
64 ATTTGTACGAGTTACT
* * *
52844694 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGCA
*
52844759 TTTGTGCGAGTTACT
65 TTTGTACGAGTTACT
** * * *
52844774 ATAACCGGGCTAAGTCCCGAAGGCATTTGACCAAGTAGTTATATTC-AGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
52844835 ATGCTTGGGT
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
79 15 0.12
80 109 0.87
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTACGAGTTACT
Found at i:52845102 original size:22 final size:21
Alignment explanation
Indices: 52845061--52845104 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
52845051 GAATGTGCAT
52845061 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
52845083 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
52845105 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:52846371 original size:39 final size:39
Alignment explanation
Indices: 52846317--52846641 Score: 465
Period size: 39 Copynumber: 8.3 Consensus size: 39
52846307 TAATGGAGAA
* *
52846317 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
* *
52846356 TTATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
52846395 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
*
52846434 TTATATCCGGGGTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
*
52846473 TTATATCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
* *
52846512 TTATATCCGGGTTAAGCCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
* * * *
52846551 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGCCCCGAAGGCATTCGTGCTGGTG
* * * * *
52846590 TTATATCCGGGCTGAAGTCCTGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGCCCCGAAGGCATTCGTGCTGGTG
52846629 TTATATCCGGGCT
1 TTATATCCGGGCT
52846642 TAAAGTCCCG
Statistics
Matches: 270, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 259 0.96
40 11 0.04
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
Found at i:52849017 original size:39 final size:39
Alignment explanation
Indices: 52848958--52849099 Score: 178
Period size: 39 Copynumber: 3.6 Consensus size: 39
52848948 TAGTGATGTT
* *
52848958 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
52848997 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * ** *
52849036 TAACCGGACTTAAGGTCTGCAGGCTACATGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
52849075 TGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAAGGT-CCGCAGGCT
52849100 TCGAGCTGGT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
38 5 0.06
39 85 0.94
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:52849108 original size:78 final size:78
Alignment explanation
Indices: 52848963--52849115 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 78
52848953 ATGTTTATCT
* ** * * *
52848963 GGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGC
1 GGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAGC
52849028 TGGAATTATAACC
66 TGGAATTATAACC
* * *
52849041 GGACTTAAGGTCTGCAGGCTACATGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGGCT-TCGA
1 GGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGCTAT-GA
*
52849104 GCTGGTATTATA
64 GCTGGAATTATA
52849116 CTAGGTTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 6 0.10
78 57 0.90
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (78 bp):
GGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAGC
TGGAATTATAACC
Found at i:52851383 original size:45 final size:45
Alignment explanation
Indices: 52851319--52851433 Score: 203
Period size: 45 Copynumber: 2.6 Consensus size: 45
52851309 AGGATCCGTA
52851319 TGTTTTCAAGGGGAGGGTCTAATTGCTGTTTTGGTTCCTTTATCG
1 TGTTTTCAAGGGGAGGGTCTAATTGCTGTTTTGGTTCCTTTATCG
* *
52851364 TGTTTTCAAGGGGAGGGTCTAATAGCTGTTTTGGTTCCTTTATTG
1 TGTTTTCAAGGGGAGGGTCTAATTGCTGTTTTGGTTCCTTTATCG
*
52851409 TGTTTTCAAAGGGAGGGTCTAATTG
1 TGTTTTCAAGGGGAGGGTCTAATTG
52851434 ATGTATTTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.17, C:0.11, G:0.30, T:0.43
Consensus pattern (45 bp):
TGTTTTCAAGGGGAGGGTCTAATTGCTGTTTTGGTTCCTTTATCG
Found at i:52851730 original size:10 final size:10
Alignment explanation
Indices: 52851712--52851742 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
52851702 TATTTTGTCC
*
52851712 TTAAGTATTA
1 TTAATTATTA
52851722 TTAATTATTA
1 TTAATTATTA
52851732 TTAATTATTA
1 TTAATTATTA
52851742 T
1 T
52851743 AGCACTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (10 bp):
TTAATTATTA
Found at i:52861320 original size:27 final size:27
Alignment explanation
Indices: 52861281--52861353 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
52861271 CTCATATCTG
* *
52861281 TAGGCTAGTATTACTGAATTGCCCCTA
1 TAGGATAGAATTACTGAATTGCCCCTA
* * *
52861308 TAGGATAGAATTACTGAAATGCCCTTG
1 TAGGATAGAATTACTGAATTGCCCCTA
* *
52861335 CAGGGTAGAATTACTGAAT
1 TAGGATAGAATTACTGAAT
52861354 ACCCTTGGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (27 bp):
TAGGATAGAATTACTGAATTGCCCCTA
Found at i:52861389 original size:27 final size:27
Alignment explanation
Indices: 52861351--52861678 Score: 126
Period size: 27 Copynumber: 12.1 Consensus size: 27
52861341 AGAATTACTG
* ** *
52861351 AATACCCTTGGTTTACAACATTACCAA
1 AATACCCCTGGTTTGTAAAATTACCAA
52861378 AATACCCCTGGTTTGTAAAATTACCAA
1 AATACCCCTGGTTTGTAAAATTACCAA
* *
52861405 AATACCCCTAGTTTGTAAAATTACCGA
1 AATACCCCTGGTTTGTAAAATTACCAA
**** * * **
52861432 AATA-CCCTCAACCTATAAAATTGCTGA
1 AATACCCCT-GGTTTGTAAAATTACCAA
** **
52861459 AATACCCCTGACTTGTAAAATTACTGA
1 AATACCCCTGGTTTGTAAAATTACCAA
** *
52861486 AATA-CCCTCAATTTGTAAAATTATCAA
1 AATACCCCT-GGTTTGTAAAATTACCAA
* ** * **
52861513 AATAACCCTAATTTGGAAAATTACTGA
1 AATACCCCTGGTTTGTAAAATTACCAA
* ** *
52861540 AATACCCTTAATTTGGAAAATTA-CAGA
1 AATACCCCTGGTTTGTAAAATTACCA-A
* **
52861567 AATACCCCTGATTTACAAAATTA-CAGA
1 AATACCCCTGGTTTGTAAAATTACCA-A
* * * * *
52861594 AATAACCTTGACTTTCTAAGAATTA-TAGA
1 AATACCCCTG-GTTTGTAA-AATTACCA-A
** * ***
52861623 AATACCATTGGTTTGCAAAATTATTGA
1 AATACCCCTGGTTTGTAAAATTACCAA
* * *
52861650 AATACCCTTGGTTTGTAGATTTACCAA
1 AATACCCCTGGTTTGTAAAATTACCAA
52861677 AA
1 AA
52861679 CACCATTGTA
Statistics
Matches: 241, Mismatches: 52, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
26 8 0.03
27 198 0.82
28 19 0.08
29 16 0.07
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATACCCCTGGTTTGTAAAATTACCAA
Found at i:52861428 original size:54 final size:54
Alignment explanation
Indices: 52861389--52861597 Score: 208
Period size: 54 Copynumber: 3.9 Consensus size: 54
52861379 ATACCCCTGG
52861389 TTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCAA
** * * ** * *
52861443 CCTATAAAATTGCTGAAATACCCCT-GACTTGTAAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCGAAATACCCTCAA
* * * * * *
52861497 TTTGTAAAATTATCAAAATAACCCTAATTTGGAAAATTACTGAAATACCCTTAA
1 TTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCAA
* ** *
52861551 TTTGGAAAATTA-CAGAAATACCCCT-GATTTACAAAATTACAGAAATA
1 TTTGTAAAATTACCA-AAATACCCCTAG-TTTGTAAAATTACCGAAATA
52861598 ACCTTGACTT
Statistics
Matches: 125, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
53 3 0.02
54 122 0.98
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCAA
Found at i:52861466 original size:81 final size:80
Alignment explanation
Indices: 52861377--52861597 Score: 214
Period size: 81 Copynumber: 2.7 Consensus size: 80
52861367 AACATTACCA
*
52861377 AAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCA
1 AAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCT-A
* *
52861442 ACCTATAAAATTGCTG
65 ACCTAGAAAATTACTG
* ** * * *
52861458 AAATACCCCTGACTTGTAAAATTACTGAAATA-CCCTCAATTTGTAAAATTATCAAAATAACCCT
1 AAATACCCCTGATTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCGAAAT-ACCCT
** *
52861522 AATTTGGAAAATTACTG
64 AACCTAGAAAATTACTG
* * * ** *
52861539 AAATACCCTTAATTTGGAAAATTA-CAGAAATACCCCT-GATTTACAAAATTACAGAAATA
1 AAATACCCCTGATTTGTAAAATTACCA-AAATACCCCTAG-TTTGTAAAATTACCGAAATA
52861598 ACCTTGACTT
Statistics
Matches: 111, Mismatches: 24, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
80 5 0.05
81 97 0.87
82 9 0.08
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (80 bp):
AAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTAA
CCTAGAAAATTACTG
Found at i:52861642 original size:56 final size:55
Alignment explanation
Indices: 52861448--52861659 Score: 182
Period size: 54 Copynumber: 3.9 Consensus size: 55
52861438 CTCAACCTAT
* * * * * *
52861448 AAAATTGCTGAAATACCCCTGACTTGTAAAATTACTGAAATACCC-TCAATTT-G
1 AAAATTACAGAAATACCACTGATTTGCAAAATTACTGAAATACCCTTGAATTTCG
* * *
52861501 TAAAATTATCA-AAATAACC-CTAATTTGGAAAATTACTGAAATACCCTT-AATTTGG
1 -AAAATTA-CAGAAAT-ACCACTGATTTGCAAAATTACTGAAATACCCTTGAATTTCG
* * * * * *
52861556 AAAATTACAGAAATACCCCTGATTTACAAAATTACAGAAATAACCTTGACTTTCT
1 AAAATTACAGAAATACCACTGATTTGCAAAATTACTGAAATACCCTTGAATTTCG
* * * *
52861611 AAGAATTATAGAAATACCATTGGTTTGCAAAATTATTGAAATACCCTTG
1 AA-AATTACAGAAATACCACTGATTTGCAAAATTACTGAAATACCCTTG
52861660 GTTTGTAGAT
Statistics
Matches: 129, Mismatches: 21, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
53 5 0.04
54 74 0.57
55 12 0.09
56 38 0.29
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (55 bp):
AAAATTACAGAAATACCACTGATTTGCAAAATTACTGAAATACCCTTGAATTTCG
Found at i:52861773 original size:27 final size:27
Alignment explanation
Indices: 52861703--52861780 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
52861693 AAATGACTAA
*
52861703 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-ATAGGGTAAAATGACCGT
* *
52861730 AATGCCCCTATAGGGTAAAGTGACCGT
1 AATACCCCTATAGGGTAAAATGACCGT
* * *
52861757 AATACCTCTGTATGGTAAAATGAC
1 AATACCCCTATAGGGTAAAATGAC
52861781 GATTATGCCC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAATGACCGT
Found at i:52862182 original size:28 final size:28
Alignment explanation
Indices: 52862151--52862233 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 28
52862141 TACTGCATTA
*
52862151 GGCTTAGGCCCACACTACTACTGTATAG
1 GGCTTAGGCCCAAACTACTACTGTATAG
*
52862179 GGCTTAGGCCCAGACTATACTGATACTGTATAG
1 GGCTTAGGCCCAAAC--TAC---TACTGTATAG
52862212 GGCTTAGGCCCAAACTA-TACTG
1 GGCTTAGGCCCAAACTACTACTG
52862234 ATACTGAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
27 5 0.10
28 14 0.29
30 3 0.06
31 2 0.04
33 24 0.50
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (28 bp):
GGCTTAGGCCCAAACTACTACTGTATAG
Found at i:52862207 original size:33 final size:33
Alignment explanation
Indices: 52862169--52862273 Score: 174
Period size: 33 Copynumber: 3.2 Consensus size: 33
52862159 CCCACACTAC
52862169 TACTGTATAGGGCTTAGGCCCAGACTATACTGA
1 TACTGTATAGGGCTTAGGCCCAGACTATACTGA
*
52862202 TACTGTATAGGGCTTAGGCCCAAACTATACTGA
1 TACTGTATAGGGCTTAGGCCCAGACTATACTGA
* * *
52862235 TACTGAATAGGGCTTTGGCCCAGACTGTACTGA
1 TACTGTATAGGGCTTAGGCCCAGACTATACTGA
52862268 TACTGT
1 TACTGT
52862274 GTTATTTACT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (33 bp):
TACTGTATAGGGCTTAGGCCCAGACTATACTGA
Found at i:52870475 original size:48 final size:48
Alignment explanation
Indices: 52870409--52870797 Score: 733
Period size: 48 Copynumber: 8.1 Consensus size: 48
52870399 GCGGAAATTG
52870409 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
52870457 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
52870505 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
52870553 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
52870601 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
52870649 ATGTATGAGATAAGTATAAGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
52870697 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
52870745 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
52870793 ATGTA
1 ATGTA
52870798 GGCGATGTGT
Statistics
Matches: 332, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 332 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:52870994 original size:37 final size:37
Alignment explanation
Indices: 52870944--52871015 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
52870934 GGAAATATAT
*
52870944 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
52870981 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
52871016 CATCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:52872327 original size:40 final size:40
Alignment explanation
Indices: 52872270--52872588 Score: 431
Period size: 40 Copynumber: 8.0 Consensus size: 40
52872260 GAGAGTTATA
* *
52872270 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
52872310 TGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
52872350 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
52872390 TGTATCCAGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
52872430 TATATCCGGGCTAAGTCCCGAAGAGCATTTGCGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * * *
52872470 TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
52872510 TATATCAGCGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
52872550 TATAACCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
52872589 ATGTGTATTC
Statistics
Matches: 243, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 243 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:52872802 original size:25 final size:25
Alignment explanation
Indices: 52872752--52872802 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
52872742 TGTGTAACAA
* *
52872752 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
52872777 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
52872802 C
1 C
52872803 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:52872871 original size:29 final size:28
Alignment explanation
Indices: 52872799--52872889 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
52872789 GGCACTGAGA
* *
52872799 GTGCGAGTTCTTCAACTGAGCACTATGT
1 GTGCGAGTTCTTTAATTGAGCACTATGT
**
52872827 GTGCGAGATT-GGTAATTGAGGCACTATGT
1 GTGCGAG-TTCTTTAATTGA-GCACTATGT
* *
52872856 GTGCGAGTTCTTTAATCGAGCGCTATGT
1 GTGCGAGTTCTTTAATTGAGCACTATGT
52872884 GTGCGA
1 GTGCGA
52872890 AATCAGTCAG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
28 28 0.54
29 24 0.46
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (28 bp):
GTGCGAGTTCTTTAATTGAGCACTATGT
Found at i:52876178 original size:48 final size:48
Alignment explanation
Indices: 52876109--52876593 Score: 835
Period size: 48 Copynumber: 10.1 Consensus size: 48
52876099 GCGGAAATTG
* * *
52876109 ATGTATGCGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
52876157 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
52876205 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
52876253 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGGTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
52876301 ATGTATGAGATAAGTATATGTGATAAAGGCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
52876349 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
52876397 ATGTATGAGATAAGTATAAGTGGTAAGGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
52876445 ATGTATGAGATAAGTATATGTGGTAAGGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
52876493 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
52876541 ATGTATGAGATATGTATATGTGGTAAAACCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
52876589 ATGTA
1 ATGTA
52876594 GGCGATGTGT
Statistics
Matches: 417, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 417 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:52876848 original size:37 final size:37
Alignment explanation
Indices: 52876740--52876848 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
52876730 GGAAATATAT
*
52876740 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
52876777 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
52876814 TCCGAGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
52876849 CATCTGAACT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:52877762 original size:15 final size:17
Alignment explanation
Indices: 52877742--52877773 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
52877732 TGATCACTTG
52877742 GTTGTG-GTTGA-GTTA
1 GTTGTGTGTTGATGTTA
52877757 GTTGTGTGTTGATGTTA
1 GTTGTGTGTTGATGTTA
52877774 TTAAGGGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (17 bp):
GTTGTGTGTTGATGTTA
Found at i:52881707 original size:27 final size:27
Alignment explanation
Indices: 52881669--52881783 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 27
52881659 TAAGTTATAG
*
52881669 AATTACCGAAATACCCCTGTAGGATAA
1 AATTACCGAAATACCCCTGTAGGGTAA
* *
52881696 AATTATCGAAATACCCCTATAGGGTAGA
1 AATTACCGAAATACCCCTGTAGGGTA-A
*
52881724 AA-TACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAA
* * * *
52881750 AATTACCGAGATACTCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAA
52881777 AATTACC
1 AATTACC
52881784 ATTTTTCCCC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
26 2 0.03
27 70 0.93
28 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAA
Found at i:52882545 original size:29 final size:27
Alignment explanation
Indices: 52882522--52882581 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
52882512 CGCCACATAT
52882522 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGGCCTAGCCACA
* * * *
52882548 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGGCCTAGCCACA
52882575 ATATCTG
1 ATATCTG
52882582 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGGCCTAGCCACA
Found at i:52888309 original size:27 final size:27
Alignment explanation
Indices: 52888275--52888429 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
52888265 TGGATAAGTT
52888275 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
52888302 GTAGAATTACCGAAATACCCGTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
52888329 GTAGAATTACCGAAATA-CCCT-TATAG
1 GTAGAATTACCGAAATACCCCTGTA-AG
* * *
52888355 GATAGAATTACCGAAATACCCTTATAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* * *
52888383 GTAGAAATACCAAAATACCACTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * *
52888409 GAAAGAATTACTGAGATACCC
1 G-TAGAATTACCGAAATACCC
52888430 TTGTGGGATA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
25 2 0.02
26 7 0.07
27 89 0.85
28 5 0.05
29 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:52888361 original size:54 final size:54
Alignment explanation
Indices: 52888275--52888447 Score: 201
Period size: 54 Copynumber: 3.2 Consensus size: 54
52888265 TGGATAAGTT
*
52888275 GTAGAATTACCGAAATACCCCTGTA-AGG-TAGAATTACCGAAATACCCGTGTAGG
1 GTAGAATTACCGAAATA-CCCT-TATAGGATAGAATTACCGAAATACCCTTGTAGG
*
52888329 GTAGAATTACCGAAATACCCTTATAGGATAGAATTACCGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCTTATAGGATAGAATTACCGAAATACCCTTGTAGG
* * * * * *
52888383 GTAGAAATACCAAAATACCAC-TGTAGGAAAGAATTACTGAGATACCCTTGT-GG
1 GTAGAATTACCGAAATACC-CTTATAGGATAGAATTACCGAAATACCCTTGTAGG
*
52888436 GATAAAATTACC
1 G-TAGAATTACC
52888448 ATTTTGCCCC
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
52 2 0.02
53 10 0.10
54 91 0.88
55 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCTTATAGGATAGAATTACCGAAATACCCTTGTAGG
Found at i:52888416 original size:81 final size:81
Alignment explanation
Indices: 52888276--52888447 Score: 220
Period size: 81 Copynumber: 2.1 Consensus size: 81
52888266 GGATAAGTTG
* * * **
52888276 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCGTGTAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCCTATAAGGTAGAAATACCAAAATACCCGTGTAGGAAAGAATTACCG
52888341 AAATACCCTTATAGGA
66 AAATACCCTTATAGGA
* * *
52888357 TAGAATTACCGAAATACCCTTATAGGGTAGAAATACCAAAATACCAC-TGTAGGAAAGAATTACT
1 TAGAATTACCGAAATACCCCTATAAGGTAGAAATACCAAAATACC-CGTGTAGGAAAGAATTACC
* * *
52888421 GAGATACCCTTGTGGGA
65 GAAATACCCTTATAGGA
*
52888438 TAAAATTACC
1 TAGAATTACC
52888448 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 77 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCCTATAAGGTAGAAATACCAAAATACCCGTGTAGGAAAGAATTACCG
AAATACCCTTATAGGA
Found at i:52889142 original size:27 final size:26
Alignment explanation
Indices: 52889098--52889148 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
52889088 CTCGCTGTAA
*
52889098 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
52889125 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
52889149 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:52890914 original size:41 final size:44
Alignment explanation
Indices: 52890836--52890933 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 44
52890826 TCTGAAACAT
*
52890836 TGGCATCGATATATGTGATTACGTGTAAGACTATGTCTAGGACA
1 TGGCATCGATATATGTGATTACGTGTAAGACCATGTCTAGGACA
* *
52890880 TCGGCATCG-TAT-T-TGATT-CGTGTAAGACCCTGTCTGGGACA
1 T-GGCATCGATATATGTGATTACGTGTAAGACCATGTCTAGGACA
52890921 GTGGCATCGATAT
1 -TGGCATCGATAT
52890934 GAGATAGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
41 27 0.56
42 9 0.19
43 1 0.02
44 4 0.08
45 7 0.15
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
TGGCATCGATATATGTGATTACGTGTAAGACCATGTCTAGGACA
Found at i:52901772 original size:42 final size:42
Alignment explanation
Indices: 52901661--52901774 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 42
52901651 TACTCCATCA
* *** *
52901661 ATGCCATATCCCATATATGGTCTTACACGGTATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* * *
52901703 ATGCCAATAGCCCAGCTATGGTCTTACACAAAATTTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAAATCTCATATCG
52901746 ATGCCATATCCCAGATATGGTCTTACACA
1 ATGCCATATCCCAGATATGGTCTTACACA
52901775 TAGCGTCGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
Found at i:52908393 original size:47 final size:49
Alignment explanation
Indices: 52908339--52908546 Score: 140
Period size: 49 Copynumber: 4.3 Consensus size: 49
52908329 TCTCAAACAT
* *
52908339 GGTCTTACACTGGCTAGGATAT-T-GAAG-TCGATGCCCTGTCCCAAATA
1 GGTCTTACACTGGCTAGCATATATCGAAGCT-GATGCCATGTCCCAAATA
* ** *
52908386 GGTCTTACACTGACTTTCATATATCGAAGCTGATGCTATGTCCCAAATA
1 GGTCTTACACTGGCTAGCATATATCGAAGCTGATGCCATGTCCCAAATA
** * * * *
52908435 GGTCTTACACTGGCTCTCATCTATC-AATG-TCGATACCATATCCCAGATA
1 GGTCTTACACTGGCTAGCATATATCGAA-GCT-GATGCCATGTCCCAAATA
* * * * ** * * * *
52908484 GGTTTTACACTAGCTTGTATATCCCGAGGCTGAT-TCATGTCCCAGACA
1 GGTCTTACACTGGCTAGCATATATCGAAGCTGATGCCATGTCCCAAATA
*
52908532 TGTCTTACACTGGCT
1 GGTCTTACACTGGCT
52908547 CACATACCAC
Statistics
Matches: 126, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
47 18 0.14
48 27 0.21
49 78 0.62
50 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (49 bp):
GGTCTTACACTGGCTAGCATATATCGAAGCTGATGCCATGTCCCAAATA
Found at i:52913167 original size:30 final size:30
Alignment explanation
Indices: 52913133--52913193 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
52913123 TCCTTAATGC
52913133 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
52913163 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
52913193 A
1 A
52913194 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:52914655 original size:25 final size:25
Alignment explanation
Indices: 52914621--52914687 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
52914611 AACCAAAATG
* * *
52914621 AGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
52914646 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
52914671 AGAATCAAAATTAGAAT
1 AGAATCAGAATCAGAAT
52914688 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:52915071 original size:22 final size:22
Alignment explanation
Indices: 52915043--52915104 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
52915033 GCAAATACGT
52915043 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACA-AGCCATAATGTAGG
52915065 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AGCCATAATGTAGG
*
52915087 TTGGCGCAATGCCATAAT
1 TTGGCACAA-GCCATAAT
52915105 CAGAAGGCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (22 bp):
TTGGCACAAGCCATAATGTAGG
Found at i:52916377 original size:27 final size:27
Alignment explanation
Indices: 52915535--52916370 Score: 1145
Period size: 27 Copynumber: 31.0 Consensus size: 27
52915525 GGGGCAAAGT
* * * *
52915535 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* ** *
52915562 GGTAATTCTATCCTGTAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
52915589 AATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52915616 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
52915643 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52915670 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52915697 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52915724 GGTATTTCTACCCTACAAGGTTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52915751 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
52915778 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52915805 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
52915832 AGTAATTCTACCCGACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52915859 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52915886 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52915913 GGTAATTCTACCCTA-TAGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * *
52915940 GATATTTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52915967 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52915994 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52916021 AGTAATTATACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
52916048 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * * *
52916075 AATAATTCAACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52916102 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
52916129 GGT-ATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52916155 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52916182 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52916209 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52916236 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52916263 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52916290 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52916317 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52916344 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
52916371 AATAATTTTG
Statistics
Matches: 733, Mismatches: 73, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
26 29 0.04
27 701 0.96
28 3 0.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:52916473 original size:27 final size:27
Alignment explanation
Indices: 52916425--52916588 Score: 154
Period size: 27 Copynumber: 6.1 Consensus size: 27
52916415 GGTACTTTGA
* * *
52916425 TAATTTTACAAGTGGAGAGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
52916452 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
* *
52916479 TAATTTTGCAAA-CTGAGGGTATTTCGG
1 TAATTTTACAAATC-GAGGGTATTTCAG
* **
52916506 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTACAAATCGAGGGTATTTCAG
* * * * *
52916533 TAATTTTATAAACCGGGGGAACTTT-GG
1 TAATTTTACAAATCGAGGGTA-TTTCAG
* *
52916560 TAATTTTACAACT-GGGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
52916586 TAA
1 TAA
52916589 ATTGGTAAAC
Statistics
Matches: 115, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.03
26 11 0.10
27 97 0.84
28 4 0.03
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCAG
Found at i:52916536 original size:81 final size:80
Alignment explanation
Indices: 52916425--52916588 Score: 179
Period size: 81 Copynumber: 2.0 Consensus size: 80
52916415 GGTACTTTGA
* * * * *
52916425 TAATTTTACAAGTGGAGAGTATTTCAGTAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTGCA
1 TAATTTTACAAATCGAGAGTATTTCAGTAATTTTACAAACCGAGGGAACTTT-AGTAATTTTAC-
*
52916489 AACTGAGGGTATTTCGG
64 AACTGAGGGTATTTCAG
** * * *
52916506 TAATTTTACAAATCGAG-GATATTTGGGTAATTTTATAAACCGGGGGAACTTTGGTAATTTTACA
1 TAATTTTACAAATCGAGAG-TATTTCAGTAATTTTACAAACCGAGGGAACTTTAGTAATTTTACA
*
52916570 ACTGGGGGTATTTCAG
65 ACTGAGGGTATTTCAG
52916586 TAA
1 TAA
52916589 ATTGGTAAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
80 19 0.28
81 47 0.68
82 3 0.04
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.37
Consensus pattern (80 bp):
TAATTTTACAAATCGAGAGTATTTCAGTAATTTTACAAACCGAGGGAACTTTAGTAATTTTACAA
CTGAGGGTATTTCAG
Found at i:52918791 original size:27 final size:27
Alignment explanation
Indices: 52918729--52918903 Score: 208
Period size: 27 Copynumber: 6.5 Consensus size: 27
52918719 CTGATTGATC
* * *
52918729 AAAATGATTATTTTGCCC-TATGTGGT
1 AAAATGACTGTTTTGCCCTTATATGGT
* *
52918755 AAAATGACTGGTTTGCCCTTACATGGT
1 AAAATGACTGTTTTGCCCTTATATGGT
*
52918782 AAAATAACTGTTTTGCCCTTATATGGT
1 AAAATGACTGTTTTGCCCTTATATGGT
* * *
52918809 AAAATGACTGATTTACCCTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATATGGT
* *
52918836 AAAATGACTGTTTTTCCCTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATATGGT
* * *
52918863 AAAATGACTATTTTGCCCCTATGTGGT
1 AAAATGACTGTTTTGCCCTTATATGGT
*
52918890 AAGATGACTGTTTT
1 AAAATGACTGTTTT
52918904 TCCCAATGTG
Statistics
Matches: 129, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
26 15 0.12
27 114 0.88
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (27 bp):
AAAATGACTGTTTTGCCCTTATATGGT
Found at i:52919256 original size:18 final size:18
Alignment explanation
Indices: 52919230--52919281 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
52919220 AGGACTTGTA
52919230 TACTATTACTGCACTGAT
1 TACTATTACTGCACTGAT
*
52919248 TACTGTTACTGCACTGAT
1 TACTATTACTGCACTGAT
52919266 TACTATTACTGCACTG
1 TACTATTACTGCACTG
52919282 TCTATTGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.38
Consensus pattern (18 bp):
TACTATTACTGCACTGAT
Found at i:52919292 original size:18 final size:18
Alignment explanation
Indices: 52919230--52919296 Score: 91
Period size: 18 Copynumber: 3.7 Consensus size: 18
52919220 AGGACTTGTA
*
52919230 TACTATTACTGCACTGAT
1 TACTGTTACTGCACTGAT
52919248 TACTGTTACTGCACTGAT
1 TACTGTTACTGCACTGAT
*
52919266 TACTATTACTGCACTG-T
1 TACTGTTACTGCACTGAT
*
52919283 CTATTGTTACTGCA
1 -TACTGTTACTGCA
52919297 ATGGACCAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
17 1 0.02
18 43 0.98
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (18 bp):
TACTGTTACTGCACTGAT
Found at i:52921400 original size:40 final size:39
Alignment explanation
Indices: 52921351--52921534 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
52921341 TAACTCATTC
* *
52921351 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTTGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
*** *
52921391 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAAAACTCGCACA
* *
52921431 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
* ** * ** *
52921471 AATACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-AAAC-TCGCACA
*
52921512 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52921535 CAGCATTCAA
Statistics
Matches: 115, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 5 0.04
40 98 0.85
41 12 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:52921494 original size:80 final size:80
Alignment explanation
Indices: 52921354--52921534 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 80
52921344 CTCATTCAAT
* * * *
52921354 GCCTTCGGGACTTAACCCGGATTTTAAAACTTGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
* *
52921418 GGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
**
52921433 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
52921496 ATAGTCACTTAGCACAAA
63 ATAGTCACTTAGCACAAA
*
52921514 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
52921535 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
79 7 0.08
80 69 0.79
81 10 0.11
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:52931401 original size:53 final size:53
Alignment explanation
Indices: 52931319--52931427 Score: 182
Period size: 53 Copynumber: 2.1 Consensus size: 53
52931309 TACTGTATAA
* * *
52931319 TTTAGTTGAGCTCCTGTCAGAGTTCGACTTGCGTAGTAGATGGGATGAAAAAC
1 TTTAGTTGAGCTCCTATCAAAGTTCGACTTGCATAGTAGATGGGATGAAAAAC
*
52931372 TTTAGTTGAGCTCCTATCAAAGTTTGACTTGCATAGTAGATGGGATGAAAAAC
1 TTTAGTTGAGCTCCTATCAAAGTTCGACTTGCATAGTAGATGGGATGAAAAAC
52931425 TTT
1 TTT
52931428 GTTCCTTCGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (53 bp):
TTTAGTTGAGCTCCTATCAAAGTTCGACTTGCATAGTAGATGGGATGAAAAAC
Found at i:52932910 original size:22 final size:22
Alignment explanation
Indices: 52932869--52932911 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
52932859 CACTAAGTCA
* *
52932869 ACAGAACGGCTCAATACCATAG
1 ACAGAACGGCTAAAGACCATAG
*
52932891 ACAGAACGGCTAAAGGCCATA
1 ACAGAACGGCTAAAGACCATA
52932912 AATATCGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
ACAGAACGGCTAAAGACCATAG
Found at i:52943582 original size:28 final size:28
Alignment explanation
Indices: 52943542--52943603 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
52943532 CGTCGGCCAC
52943542 AAGGTAAATAATGGTTATTTTGTTAACT
1 AAGGTAAATAATGGTTATTTTGTTAACT
52943570 AAGGTAAATAATGGTTATTTTGTTAACT
1 AAGGTAAATAATGGTTATTTTGTTAACT
52943598 AAGGTA
1 AAGGTA
52943604 TTGATACGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.40
Consensus pattern (28 bp):
AAGGTAAATAATGGTTATTTTGTTAACT
Found at i:52945090 original size:30 final size:30
Alignment explanation
Indices: 52945056--52945152 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
52945046 TAAACTAAAA
52945056 TGAGCTAAGCTTTAGCTCGTGAGCT-AAGGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTGAA-GT
* * * * *
52945086 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTGAAGT
*
52945116 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTGAAGT
52945145 ATGAGCTA
1 -TGAGCTA
52945153 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
29 3 0.06
30 44 0.85
31 5 0.10
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTGAAGT
Found at i:52946103 original size:12 final size:12
Alignment explanation
Indices: 52946086--52946112 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
52946076 ATAGTCCAAC
52946086 CACAAGCCTAAG
1 CACAAGCCTAAG
52946098 CACAAGCCTAAG
1 CACAAGCCTAAG
52946110 CAC
1 CAC
52946113 CAACTACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.37, G:0.15, T:0.07
Consensus pattern (12 bp):
CACAAGCCTAAG
Found at i:52958071 original size:31 final size:31
Alignment explanation
Indices: 52958036--52958097 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
52958026 AATTACCTAA
52958036 TCATATATGCATATGATTAAAGATTTTTCAT
1 TCATATATGCATATGATTAAAGATTTTTCAT
52958067 TCATATATGCATATGATTAAAGATTTTTCAT
1 TCATATATGCATATGATTAAAGATTTTTCAT
52958098 GAAAAATAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (31 bp):
TCATATATGCATATGATTAAAGATTTTTCAT
Found at i:52964010 original size:25 final size:24
Alignment explanation
Indices: 52963974--52964026 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
52963964 GACAAACACA
52963974 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTGATAT-G
* *
52963999 GCTCTTCT-TGAGCTTTCTGATATG
1 GCTCTT-TATGAGCGTCCTGATATG
52964023 GCTC
1 GCTC
52964027 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 19 0.76
26 1 0.04
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTGATATG
Found at i:52967178 original size:93 final size:93
Alignment explanation
Indices: 52967019--52967188 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
52967009 CCCATAAGCG
* * * *
52967019 AACTCGGACTCAACTCAATGAGCTTAGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
52967084 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
*
52967112 AACTCGGACTCAACTCAACGAG-TTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTT-AGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52967176 CGAGTTTGGATGC
65 CGAGTTCGGATGC
52967189 TCAACCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:52967179 original size:46 final size:46
Alignment explanation
Indices: 52967010--52967181 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
52967000 TGTAACCCGC
* * * * *
52967010 CCATAAGCGAACTCGGACTCAACTCAATGAGCTT-AGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCAGACATTTGCAT
* * * *
52967056 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCAT
*
52967106 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
52967149 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
52967182 TGGATGCTCA
Statistics
Matches: 103, Mismatches: 13, Indels: 20
0.76 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 8 0.08
44 2 0.02
45 3 0.03
46 52 0.50
47 25 0.24
48 1 0.01
49 2 0.02
50 6 0.06
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
Found at i:52969128 original size:15 final size:15
Alignment explanation
Indices: 52969106--52969153 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
52969096 AAGAAACCGA
52969106 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
52969121 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
52969135 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
52969151 ATA
1 ATA
52969154 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52969138 original size:30 final size:28
Alignment explanation
Indices: 52969097--52969153 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
52969087 AAAGATAACA
*
52969097 AGAAACCGAATAAAGAAATCCAAGATAG
1 AGAAACCGAATAAAGAAACCCAAGATAG
52969125 AGAAATCCAGAATAAAGAAACCCAAGATA
1 AGAAA-CC-GAATAAAGAAACCCAAGATA
52969154 CGATACTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 5 0.19
29 2 0.08
30 19 0.73
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (28 bp):
AGAAACCGAATAAAGAAACCCAAGATAG
Found at i:52972231 original size:93 final size:93
Alignment explanation
Indices: 52972072--52972242 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
52972062 GCCCGTAAGT
* * * *
52972072 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCTATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52972137 CGCGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
52972165 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52972230 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52972243 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52972239 original size:46 final size:46
Alignment explanation
Indices: 52972067--52972239 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
52972057 AACCCGCCCG
* * * * *
52972067 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCTA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
52972113 TGAGTGAACTCGGACTCAACTCAACGCGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
52972161 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
52972206 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52972240 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Done.