Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 189 of 325
Found at i:58122213 original size:14 final size:14
Alignment explanation
Indices: 58122190--58122270 Score: 65
Period size: 14 Copynumber: 5.8 Consensus size: 14
58122180 GTTTCAGCAC
58122190 CTAAACCCTAAACT
1 CTAAACCCTAAACT
* * *
58122204 CTAAAGCCTAATCC
1 CTAAACCCTAAACT
*
58122218 CTAAACCTTAACAC-
1 CTAAACCCTAA-ACT
*
58122232 CTAAACCCTAAAAT
1 CTAAACCCTAAACT
* *
58122246 CTAAAGCCTAACCT
1 CTAAACCCTAAACT
* *
58122260 TTAAATCCTAA
1 CTAAACCCTAA
58122271 CCCATGAACT
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
13 1 0.02
14 50 0.96
15 1 0.02
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.23
Consensus pattern (14 bp):
CTAAACCCTAAACT
Found at i:58122219 original size:21 final size:21
Alignment explanation
Indices: 58122189--58122256 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
58122179 AGTTTCAGCA
58122189 CCTAAACCCTAAACTCTAAAG
1 CCTAAACCCTAAACTCTAAAG
*
58122210 CCTAATCCCTAAAC-CTTAACA-
1 CCTAAACCCTAAACTC-TAA-AG
*
58122231 CCTAAACCCTAAAATCTAAAG
1 CCTAAACCCTAAACTCTAAAG
58122252 CCTAA
1 CCTAA
58122257 CCTTTAAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.43, C:0.34, G:0.03, T:0.21
Consensus pattern (21 bp):
CCTAAACCCTAAACTCTAAAG
Found at i:58123939 original size:40 final size:40
Alignment explanation
Indices: 58123879--58124062 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
58123869 TATTCGAATG
*
58123879 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
58123919 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
58123959 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
58123999 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
58124039 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
58124063 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:58124012 original size:80 final size:80
Alignment explanation
Indices: 58123879--58124062 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
58123869 TATTCGAATG
* * *
58123879 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
58123943 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
58123959 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
58124024 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
58124039 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
58124063 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:58131880 original size:40 final size:40
Alignment explanation
Indices: 58131819--58132002 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
58131809 TATTCGAATG
*
58131819 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
58131859 ATATCCGGACTAAGATTCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
58131899 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
58131939 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
58131979 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
58132003 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:58131952 original size:80 final size:80
Alignment explanation
Indices: 58131819--58132002 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
58131809 TATTCGAATG
* * * *
58131819 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-TCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
58131883 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
58131899 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
58131964 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
58131979 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
58132003 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:58134087 original size:148 final size:149
Alignment explanation
Indices: 58133906--58134178 Score: 333
Period size: 148 Copynumber: 1.8 Consensus size: 149
58133896 CACCGCAACC
* * * *
58133906 ATGTGTTAAGTGTTAGTAAAACAGTGTCGTTTTATGCATTAT-T-TTTAGTGAGC-TTTGT-TAA
1 ATGTGTTAAGTGTTAGCAAAACAGCGCCGTTTTAT-CATT-TGTATTTAGTG-GCACTTGTGTAA
* * ** *
58133967 AATGCCATAAATATGTATTAGGAGTTCC-CAAAATGGCACCG-TTTAGCCTTGTTATTAGTGGCG
63 AACGCCACAAATATGTATTACAAG-TCCAC-AAATGACACCGTTTTAGCCTTGTTATTAGTGGCG
58134030 TTTCACCAAAAAATGCCGCAAAAA
126 TTTCACCAAAAAATGCCGCAAAAA
* *
58134054 ATGTGTTAAGTGTTAGCAAAACGGCGCCTTTTTATCATTTGTATTTAGTGGCACTTGTGTAAAAC
1 ATGTGTTAAGTGTTAGCAAAACAGCGCCGTTTTATCATTTGTATTTAGTGGCACTTGTGTAAAAC
* *
58134119 GCCACAAATGTGTATTACAAGTCCATCAAATGACACCGTTTTATCCTTGTTATTAGTGGC
66 GCCACAAATATGTATTACAAGTCCA-CAAATGACACCGTTTTAGCCTTGTTATTAGTGGC
58134179 ATTTTGTCCA
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
146 1 0.01
147 7 0.07
148 44 0.42
149 32 0.30
150 21 0.20
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (149 bp):
ATGTGTTAAGTGTTAGCAAAACAGCGCCGTTTTATCATTTGTATTTAGTGGCACTTGTGTAAAAC
GCCACAAATATGTATTACAAGTCCACAAATGACACCGTTTTAGCCTTGTTATTAGTGGCGTTTCA
CCAAAAAATGCCGCAAAAA
Found at i:58134472 original size:328 final size:333
Alignment explanation
Indices: 58133843--58134644 Score: 1017
Period size: 328 Copynumber: 2.4 Consensus size: 333
58133833 ATAGTGGTGT
* * * * **
58133843 TTTTGTCCAAAAAGCCGCAATAGGCTATGCATTACCGGCGTTTGAGCCAAAAACACCGCAACCAT
1 TTTTGTCCAAAATGCCGCAATAGGCTATGCATTA------TCTGTGCCAAAAACGCCGCAAATAT
* * * *
58133908 GTGTTAAGTGTTAGTAAAACAGTGTCGTTTTATGCATTATTTTTAGT-GAGCTTTGTT-AAAATG
60 GTGTTAGGTGTTAGTAAAACGGTGTCGTTTTATGCATTATTTTTAGTGGCGCTTTGTTAAAAACG
** * * *
58133971 CCATAAATATGTATTAGGAGTTCCCAAAATGGCACCGTTTAGCCTTGTTATTAGTGGCGTTTCAC
125 CCGCAAATATGTATTAGGAGTTCCCAAAATGACACCGTTTAGCCTTGTTATTAGTAGCATTTCAC
* *
58134036 CAAAAAATGCCGCAAAAAATGTGTTAAGTGTTAGCAAAACGGCGCCTTTTTATCATTTGTATTTA
190 CAAAAAACGCCGCAAAAAATGTGTTAAGTGTTAGCAAAACGGCGCCATTTTATCATTTGTATTTA
* * *
58134101 GTGGCACTTGTGTAAAACGCCACAAATGTGTATTACAAGTCCATCAAATGACACCGTTTTATCCT
255 GTGGCACTTCTATAAAACGCCACAAATGTGTATTACAAGTCCATAAAATGACACCGTTTTATCCT
58134166 TGTTATTAGTGGCA
320 TGTTATTAGTGGCA
58134180 TTTTGTCCAAAATGCCGCAATAGGCTATGCATTATCTG-GCCAAAAACGCCGCAAATATGTGTTA
1 TTTTGTCCAAAATGCCGCAATAGGCTATGCATTATCTGTGCCAAAAACGCCGCAAATATGTGTTA
* * *
58134244 GGTGTTAGTAAAACGGCGTCGTTTTATGCTTTATTTTTAGTGGCGCTTTGTTAAAAACGCTGCAA
66 GGTGTTAGTAAAACGGTGTCGTTTTATGCATTATTTTTAGTGGCGCTTTGTTAAAAACGCCGCAA
* * *
58134309 ATATGTATTAGGAGTTCCCGAAATGACACCGTTTAGCTTTGTTATTAGTAGCATTT-TCC-AAAA
131 ATATGTATTAGGAGTTCCCAAAATGACACCGTTTAGCCTTGTTATTAGTAGCATTTCACCAAAAA
* * *
58134372 ACGCCG-TAAATATGTGTTAAGTGTT-GCAAAACGGTGCCATTTTATTC-TTTGTATTTAGTGGC
196 ACGCCGCAAAAAATGTGTTAAGTGTTAGCAAAACGGCGCCATTTTA-TCATTTGTATTTAGTGGC
* * * **
58134434 GCTTCTATAAAACGCCGCAAATGTGTATTACGAGTCCATAAAATGTTACCGTTTTATCCTTGTTA
260 ACTTCTATAAAACGCCACAAATGTGTATTACAAGTCCATAAAATGACACCGTTTTATCCTTGTTA
*
58134499 TTAGTGGCG
325 TTAGTGGCA
* * * * *
58134508 TTTTGTCCAAAATGCCGCAATAGGCTATGCATTACCGATGTTTTAGCTAAAAATGCTGTAAATAT
1 TTTTGTCCAAAATGCCGCAATAGGCTATGCATTATC--TG---T-GCCAAAAACGCCGCAAATAT
* * * * * *
58134573 GTGTTAGGGGTTAGTAAAACGGTGTCGTTTTATGAATTGTATTTAGTGGCGCTTTATTAGAAACG
60 GTGTTAGGTGTTAGTAAAACGGTGTCGTTTTATGCATTATTTTTAGTGGCGCTTTGTTAAAAACG
58134638 CCGCAAA
125 CCGCAAA
58134645 CAGAATTCAG
Statistics
Matches: 407, Mismatches: 48, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
328 132 0.32
329 19 0.05
330 71 0.17
331 14 0.03
332 59 0.14
335 79 0.19
337 33 0.08
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (333 bp):
TTTTGTCCAAAATGCCGCAATAGGCTATGCATTATCTGTGCCAAAAACGCCGCAAATATGTGTTA
GGTGTTAGTAAAACGGTGTCGTTTTATGCATTATTTTTAGTGGCGCTTTGTTAAAAACGCCGCAA
ATATGTATTAGGAGTTCCCAAAATGACACCGTTTAGCCTTGTTATTAGTAGCATTTCACCAAAAA
ACGCCGCAAAAAATGTGTTAAGTGTTAGCAAAACGGCGCCATTTTATCATTTGTATTTAGTGGCA
CTTCTATAAAACGCCACAAATGTGTATTACAAGTCCATAAAATGACACCGTTTTATCCTTGTTAT
TAGTGGCA
Found at i:58134486 original size:145 final size:148
Alignment explanation
Indices: 58134219--58134503 Score: 346
Period size: 146 Copynumber: 1.9 Consensus size: 148
58134209 CATTATCTGG
* * * * *
58134219 CCAAAAACGCCGCAAATATGTGTTAGGTGTTAGTAAAACGGCGTCGTTTTATGCTTTATTTTTAG
1 CCAAAAACGCCGCAAATATGTGTTAAGTGTTAGCAAAACGGCGCCATTTTATGCTTTATATTTAG
* * * * *
58134284 TGGCGCTTTGTTAAAAACGCTGCAAATATGTATTAGGAGTTCCCGAAATGACACCG-TTTAGCTT
66 TGGCGCTTTGATAAAAACGCCGCAAATATGTATTACGAGTTCCCAAAATGACACCGTTTTAGCCT
58134348 TGTTATTAGTAGCATTTT
131 TGTTATTAGTAGCATTTT
* * * *
58134366 CCAAAAACGCCGTAAATATGTGTTAAGTGTT-GCAAAACGGTGCCATTTTATTCTTTGTATTTAG
1 CCAAAAACGCCGCAAATATGTGTTAAGTGTTAGCAAAACGGCGCCATTTTATGCTTTATATTTAG
* * ** *
58134430 TGGCGCTTCT-AT-AAAACGCCGCAAATGTGTATTACGAG-TCCATAAAATGTTACCGTTTTATC
66 TGGCGCTT-TGATAAAAACGCCGCAAATATGTATTACGAGTTCC-CAAAATGACACCGTTTTAGC
58134492 CTTGTTATTAGT
129 CTTGTTATTAGT
58134504 GGCGTTTTGT
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
144 3 0.03
145 32 0.28
146 51 0.44
147 30 0.26
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (148 bp):
CCAAAAACGCCGCAAATATGTGTTAAGTGTTAGCAAAACGGCGCCATTTTATGCTTTATATTTAG
TGGCGCTTTGATAAAAACGCCGCAAATATGTATTACGAGTTCCCAAAATGACACCGTTTTAGCCT
TGTTATTAGTAGCATTTT
Found at i:58136190 original size:24 final size:24
Alignment explanation
Indices: 58136163--58136209 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
58136153 ATTATTATTG
* **
58136163 AAATATTCTCGTCTGTTTTATCAC
1 AAATATTATCGTCCATTTTATCAC
58136187 AAATATTATCGTCCATTTTATCA
1 AAATATTATCGTCCATTTTATCA
58136210 TTTAAGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (24 bp):
AAATATTATCGTCCATTTTATCAC
Found at i:58136833 original size:9 final size:9
Alignment explanation
Indices: 58136821--58136977 Score: 105
Period size: 9 Copynumber: 18.0 Consensus size: 9
58136811 ATATCATATA
58136821 ATAACTTAC
1 ATAACTTAC
58136830 ATAACTTAC
1 ATAACTTAC
*
58136839 AAAACTTAC
1 ATAACTTAC
58136848 ATAA--TAC
1 ATAACTTAC
* *
58136855 ATAA-ATAT
1 ATAACTTAC
* *
58136863 ATATCATATC
1 ATAACTTA-C
58136873 ATAACTTAC
1 ATAACTTAC
*
58136882 AGAACTTAC
1 ATAACTTAC
58136891 ATAA--TAC
1 ATAACTTAC
* *
58136898 ATAA-ATAT
1 ATAACTTAC
* *
58136906 ATATCATATC
1 ATAACTTA-C
58136916 ATAACTTAC
1 ATAACTTAC
58136925 ATAACTTAC
1 ATAACTTAC
*
58136934 AAAACTTAC
1 ATAACTTAC
*
58136943 TTAACTTAC
1 ATAACTTAC
58136952 ATAA--TAC
1 ATAACTTAC
*
58136959 ATAAATATAC
1 ATAACT-TAC
*
58136969 ACAACTTAC
1 ATAACTTAC
58136978 CTAAATTAGT
Statistics
Matches: 119, Mismatches: 20, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
7 21 0.18
8 10 0.08
9 69 0.58
10 19 0.16
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:58136863 original size:52 final size:52
Alignment explanation
Indices: 58136804--58136967 Score: 194
Period size: 52 Copynumber: 3.2 Consensus size: 52
58136794 ATTTTAATGT
* *
58136804 TAAATATATATCATATAATAACTTACATAACTTACAAAACTTACATAATACA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAACTTACATAATACA
* *
58136856 TAAATATATATCATATCATAACTTACAGAACTTACATAA--TACAT-A-A-A
1 TAAATATATATCATATAATAACTTACAAAACTTACATAACTTACATAATACA
* *
58136903 TATATATCATATCATAACTTACATAACTTACAAAACTTACTTAACTTACATAATACA
1 TAAATAT-ATATCAT-A--TA-ATAACTTACAAAACTTACATAACTTACATAATACA
58136960 TAAATATA
1 TAAATATA
58136968 CACAACTTAC
Statistics
Matches: 94, Mismatches: 8, Indels: 16
0.80 0.07 0.14
Matches are distributed among these distances:
47 7 0.07
48 8 0.09
49 2 0.02
50 5 0.05
51 1 0.01
52 56 0.60
54 5 0.05
55 1 0.01
56 2 0.02
57 7 0.07
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.34
Consensus pattern (52 bp):
TAAATATATATCATATAATAACTTACAAAACTTACATAACTTACATAATACA
Found at i:58136962 original size:43 final size:43
Alignment explanation
Indices: 58136829--58136934 Score: 194
Period size: 43 Copynumber: 2.5 Consensus size: 43
58136819 TAATAACTTA
58136829 CATAACTTACAAAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACAAAACTTACATAATACATAAATATATATCATAT
*
58136872 CATAACTTACAGAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACAAAACTTACATAATACATAAATATATATCATAT
*
58136915 CATAACTTACATAACTTACA
1 CATAACTTACAAAACTTACA
58136935 AAACTTACTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (43 bp):
CATAACTTACAAAACTTACATAATACATAAATATATATCATAT
Found at i:58138699 original size:13 final size:13
Alignment explanation
Indices: 58138681--58138708 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58138671 ACATATTATA
58138681 AATATTTTGTGTT
1 AATATTTTGTGTT
58138694 AATATTTTGTGTT
1 AATATTTTGTGTT
58138707 AA
1 AA
58138709 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:58140181 original size:40 final size:40
Alignment explanation
Indices: 58140131--58140334 Score: 340
Period size: 40 Copynumber: 5.1 Consensus size: 40
58140121 ACTAAGATCT
58140131 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
58140171 GAAGGTATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
58140211 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
58140251 GAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
58140291 GAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCC
1 GAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCC
58140330 GAAGG
1 GAAGG
58140335 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.10
40 138 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
Found at i:58147398 original size:14 final size:14
Alignment explanation
Indices: 58147374--58147408 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
58147364 TTAAATATTT
58147374 ATAAT-GTTTAATC
1 ATAATGGTTTAATC
*
58147387 ATAATGGTTTAATT
1 ATAATGGTTTAATC
58147401 ATAATGGT
1 ATAATGGT
58147409 ATATTCATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (14 bp):
ATAATGGTTTAATC
Found at i:58148207 original size:43 final size:43
Alignment explanation
Indices: 58148125--58148327 Score: 248
Period size: 43 Copynumber: 4.7 Consensus size: 43
58148115 GCTTTTTTGA
* *
58148125 GAAAAGCGTCGCTAAAGG-CATGTTCTTTAGCGGCGTTTGTAT
1 GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
* * *
58148167 GAAAAGCGCCGCTAAAGGTCACGTTCTTTAGTAGCGTTTGTGT
1 GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
* * * *
58148210 GAAAAGCGCCACTAAATGTCACGTTCTTTAGCAGCATTTGTA-
1 GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
* * *
58148252 CAGGAAGCGCCGGTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
1 GA-AAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
** *
58148296 GGTAAGCGCCGTTAAAGGTCATGTTCTTTAGC
1 GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
58148328 GGCACTTTCT
Statistics
Matches: 137, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 18 0.13
43 119 0.87
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTAT
Found at i:58154184 original size:44 final size:44
Alignment explanation
Indices: 58154121--58154249 Score: 168
Period size: 44 Copynumber: 2.9 Consensus size: 44
58154111 TATATATATT
*
58154121 TTACAGAGTTTGTTCCAAGTTTGTTCCAATGCATCTAATTTAAA
1 TTACAAAGTTTGTTCCAAGTTTGTTCCAATGCATCTAATTTAAA
* ** *
58154165 TTACAAAGTTTGTTCCAAGTTTGGTGTAATGCATCTCATTTAAA
1 TTACAAAGTTTGTTCCAAGTTTGTTCCAATGCATCTAATTTAAA
* * * * *
58154209 TTATAAAGTTTGTTCCAAATTTCTTTCAATGCATTTAATTT
1 TTACAAAGTTTGTTCCAAGTTTGTTCCAATGCATCTAATTT
58154250 TTGCATGTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 72 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.44
Consensus pattern (44 bp):
TTACAAAGTTTGTTCCAAGTTTGTTCCAATGCATCTAATTTAAA
Found at i:58156568 original size:14 final size:14
Alignment explanation
Indices: 58156549--58156580 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
58156539 ATCAAAACAC
58156549 ATAAATATAATAAA
1 ATAAATATAATAAA
*
58156563 ATAAATATAGTAAA
1 ATAAATATAATAAA
58156577 ATAA
1 ATAA
58156581 TATCATTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
ATAAATATAATAAA
Found at i:58156975 original size:17 final size:17
Alignment explanation
Indices: 58156953--58156989 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
58156943 CATACTGAAC
58156953 AAATCACAAT-AGACACT
1 AAATCACAATAAG-CACT
58156970 AAATCACAATAAGCACT
1 AAATCACAATAAGCACT
58156987 AAA
1 AAA
58156990 CTAAACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.57, C:0.22, G:0.05, T:0.16
Consensus pattern (17 bp):
AAATCACAATAAGCACT
Found at i:58158274 original size:21 final size:19
Alignment explanation
Indices: 58158249--58158287 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
58158239 TAATTATTAT
58158249 TTTTAAAAAATAACTCTCAAA
1 TTTT-AAAAATAA-TCTCAAA
*
58158270 TTTTACAAATAATCTCAA
1 TTTTAAAAATAATCTCAA
58158288 TTTGACTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (19 bp):
TTTTAAAAATAATCTCAAA
Found at i:58158968 original size:25 final size:24
Alignment explanation
Indices: 58158935--58158988 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
58158925 GGGCGGATTT
*
58158935 TTATTTTATTTAATATTATTATAA
1 TTATTTTATTTAATATTAATATAA
58158959 TTATATTTATTTAATATTAATATAA
1 TTAT-TTTATTTAATATTAATATAA
*
58158984 ATATT
1 TTATT
58158989 GATATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTTTATTTAATATTAATATAA
Found at i:58159228 original size:20 final size:20
Alignment explanation
Indices: 58159205--58159246 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
58159195 TTTTGAGTGT
* * *
58159205 TTAAATTAATTTTTTTATAA
1 TTAAATGAATATTTGTATAA
58159225 TTAAATGAATATTTGTATAA
1 TTAAATGAATATTTGTATAA
58159245 TT
1 TT
58159247 TACTCTAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTAAATGAATATTTGTATAA
Found at i:58159969 original size:18 final size:19
Alignment explanation
Indices: 58159946--58159983 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
58159936 TTATATAGAA
58159946 TTTTTAA-TTTTTTTATAT
1 TTTTTAAGTTTTTTTATAT
58159964 TTTTTAAGTTTTTTTTATAT
1 TTTTTAAG-TTTTTTTATAT
58159984 ATTCTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTTAAGTTTTTTTATAT
Found at i:58163985 original size:39 final size:39
Alignment explanation
Indices: 58163924--58164002 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
58163914 TTAAACATGC
* ** *
58163924 TTAAGACACATAATAATGATGTAA-TAAACTAGGACATAA
1 TTAACACACATAATAAACATGTAATTAAAC-AAGACATAA
*
58163963 TTAACACACATATTAAACATGTAATTAAACAAGACATAA
1 TTAACACACATAATAAACATGTAATTAAACAAGACATAA
58164002 T
1 T
58164003 AATTTAAGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 29 0.85
40 5 0.15
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.27
Consensus pattern (39 bp):
TTAACACACATAATAAACATGTAATTAAACAAGACATAA
Found at i:58175131 original size:29 final size:29
Alignment explanation
Indices: 58175099--58175307 Score: 174
Period size: 29 Copynumber: 7.3 Consensus size: 29
58175089 GCTATAACAA
* *
58175099 TTAAAATGATGCCTCTGTGGCTATCTCTG
1 TTAAAAGGATGCCTTTGTGGCTATCTCTG
** * *
58175128 TTAAAAGGATATCTTTATAGCTATCTCTG
1 TTAAAAGGATGCCTTTGTGGCTATCTCTG
* * * *
58175157 TTAAATGAAT-TCTTTGTGGCTATCTCTA
1 TTAAAAGGATGCCTTTGTGGCTATCTCTG
* * * *
58175185 TTATAAGGAGGCCATTGTGGCGATCTCTG
1 TTAAAAGGATGCCTTTGTGGCTATCTCTG
* *
58175214 TTAAAAGGATGCCTTTATGGTTATCTCTG
1 TTAAAAGGATGCCTTTGTGGCTATCTCTG
* * * * *
58175243 TTAAAATGAAGCCTTTTTTGCTATCTTTG
1 TTAAAAGGATGCCTTTGTGGCTATCTCTG
* *
58175272 TTAAAAGGAATG-CTTTATGGCTAT-T-TT
1 TTAAAAGG-ATGCCTTTGTGGCTATCTCTG
58175299 TTAAAAGGA
1 TTAAAAGGA
58175308 CACATTCGTG
Statistics
Matches: 142, Mismatches: 36, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
26 1 0.01
27 9 0.06
28 22 0.15
29 108 0.76
30 2 0.01
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (29 bp):
TTAAAAGGATGCCTTTGTGGCTATCTCTG
Found at i:58175177 original size:86 final size:86
Alignment explanation
Indices: 58175064--58175258 Score: 214
Period size: 86 Copynumber: 2.3 Consensus size: 86
58175054 CTTTGTGGCG
* * * *
58175064 ATCTATGTATAAAT-AAGTCTTTATGGCTATAACAATTAAAATGATGCC-TCTGTGGCTATCTCT
1 ATCTCTGT-TAAATGAAGTCTTTATGGCTATAACAATTAAAAGGAGGCCAT-TGTGGCGATCTCT
*
58175127 GTTAAAAGGATATCTTTATAGCT
64 GTTAAAAGGATACCTTTATAGCT
* * ** * *
58175150 ATCTCTGTTAAATGAATTCTTTGTGGCTATCTCTATTATAAGGAGGCCATTGTGGCGATCTCTGT
1 ATCTCTGTTAAATGAAGTCTTTATGGCTATAACAATTAAAAGGAGGCCATTGTGGCGATCTCTGT
* * *
58175215 TAAAAGGATGCCTTTATGGTT
66 TAAAAGGATACCTTTATAGCT
*
58175236 ATCTCTGTTAAAATGAAGCCTTT
1 ATCTCTGTT-AAATGAAGTCTTT
58175259 TTTGCTATCT
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
85 5 0.06
86 73 0.81
87 12 0.13
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (86 bp):
ATCTCTGTTAAATGAAGTCTTTATGGCTATAACAATTAAAAGGAGGCCATTGTGGCGATCTCTGT
TAAAAGGATACCTTTATAGCT
Found at i:58192508 original size:10 final size:10
Alignment explanation
Indices: 58192493--58192539 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
58192483 TTATATTTTT
58192493 TAAAAAATTA
1 TAAAAAATTA
*
58192503 TAAAAATTTA
1 TAAAAAATTA
*
58192513 -AAAAAATTC
1 TAAAAAATTA
*
58192522 TAAAGAATATA
1 TAAAAAAT-TA
58192533 TAAAAAA
1 TAAAAAA
58192540 GTTAAAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
9 7 0.24
10 15 0.52
11 7 0.24
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:58192512 original size:18 final size:18
Alignment explanation
Indices: 58192451--58192557 Score: 56
Period size: 19 Copynumber: 5.7 Consensus size: 18
58192441 AAAAAAATCT
* *
58192451 AAAATCTAAAATATTTATA
1 AAAATTTAAAA-AATTATA
**
58192470 AAAATAAAAAAAATTAT-
1 AAAATTTAAAAAATTATA
***
58192487 ATTTTTTAAAAAATTATA
1 AAAATTTAAAAAATTATA
*
58192505 AAAATTTAAAAAAATTCTA
1 AAAATTT-AAAAAATTATA
58192524 AAGAATATATAAAAAAGTTA-A
1 AA-AAT-T-TAAAAAA-TTATA
**
58192545 AATTTTTAAAAAA
1 AAAATTTAAAAAA
58192558 AATTCTAAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
17 12 0.18
18 16 0.24
19 22 0.33
20 4 0.06
21 10 0.15
22 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTTAAAAAATTATA
Found at i:58192516 original size:19 final size:19
Alignment explanation
Indices: 58192432--58192558 Score: 66
Period size: 18 Copynumber: 6.8 Consensus size: 19
58192422 CTCTCTCAAC
* * *
58192432 AAAAATTAAAAAAAAATCT
1 AAAAATTTAAAAAAATTAT
* * *
58192451 -AAAATCTAAAATATTTAT
1 AAAAATTTAAAAAAATTAT
*
58192469 AAAAA-TAAAAAAAATTAT
1 AAAAATTTAAAAAAATTAT
** *
58192487 --ATTTTTTAAAAAATTAT
1 AAAAATTTAAAAAAATTAT
*
58192504 AAAAATTTAAAAAAATTCT
1 AAAAATTTAAAAAAATTAT
*
58192523 AAAGAATATATAAAAAAGTTA-
1 AAA-AAT-T-TAAAAAAATTAT
**
58192544 AAATTTTTAAAAAAA
1 AAAAATTTAAAAAAA
58192559 ATTCTAAAAT
Statistics
Matches: 78, Mismatches: 23, Indels: 15
0.67 0.20 0.13
Matches are distributed among these distances:
16 1 0.01
17 11 0.14
18 28 0.36
19 21 0.27
20 4 0.05
21 4 0.05
22 9 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATTTAAAAAAATTAT
Found at i:58193881 original size:22 final size:22
Alignment explanation
Indices: 58193856--58193899 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
58193846 TAGCCATATA
58193856 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
58193878 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
58193900 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:58194005 original size:15 final size:15
Alignment explanation
Indices: 58193985--58194036 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
58193975 ATTGAATATT
58193985 AATATTTTAATAATA
1 AATATTTTAATAATA
*
58194000 AATATTTATTCCAATTATA
1 AATA-TT-TT--AATAATA
*
58194019 AATATATTAATAATA
1 AATATTTTAATAATA
58194034 AAT
1 AAT
58194037 GCTTTGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:58197431 original size:41 final size:41
Alignment explanation
Indices: 58197331--58197517 Score: 224
Period size: 41 Copynumber: 4.7 Consensus size: 41
58197321 AATACTCGAT
*
58197331 ATCTCGCACACTAAGTG---TACATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
*
58197369 A-ATCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* * **
58197409 ATCTCACACACTAAGTGCCATATGTAGCCGAAGCTATCTTG
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* * *
58197450 ATCTAGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTC-A
* *
58197492 A--TCGCACATTAAGTGCCACATATAGC
1 ATCTCGCACACTAAGTGCCATATATAGC
58197518 TGATTTGTCG
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
37 14 0.11
38 1 0.01
40 43 0.34
41 68 0.54
42 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
Found at i:58199944 original size:40 final size:40
Alignment explanation
Indices: 58199760--58199944 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
58199750 CTACTCGTTC
* * * *
58199760 AAACGCCTTCAGGACATAGCCCGGTTATAGCAACTCGCAT
1 AAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAT
* * *
58199800 AAACGCCTTCGGGATTTAACCCGGATTTAGTAACTCGCAT
1 AAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAT
* * * * *
58199840 AAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGTAT
1 AAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAT
* * * * * *
58199880 AAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 AAACGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCAT
58199921 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAACGCCTTCGGGACTTAGCCCGGA
58199945 CATCATTTGA
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.03
40 108 0.90
41 9 0.08
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
AAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAT
Found at i:58202690 original size:40 final size:40
Alignment explanation
Indices: 58202624--58202790 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
58202614 AAATTGAATG
* * *
58202624 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
58202663 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
58202703 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
58202743 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
58202783 ATATCCGG
1 ATATCCGG
58202791 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:58211095 original size:38 final size:39
Alignment explanation
Indices: 58210986--58211110 Score: 182
Period size: 39 Copynumber: 3.2 Consensus size: 39
58210976 TCGTTCAAAC
* * * *
58210986 GCCTTCGGGACATAGCCTGG-TTATAGCAACTCGCATAAAC
1 GCCTTCGGGACTTAACC-GGATT-TAGTAACTCGCATAAAT
58211026 GCCTTCGGGACTTAACCGGATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAACCGGATTTAGTAACTCGCATAAAT
58211065 GCCTTCGGGACTTAACC-GATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAACCGGATTTAGTAACTCGCATAAAT
58211103 GCCTTCGG
1 GCCTTCGG
58211111 ATCCTAGTCC
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
38 29 0.36
39 34 0.43
40 17 0.21
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGACTTAACCGGATTTAGTAACTCGCATAAAT
Found at i:58211163 original size:40 final size:40
Alignment explanation
Indices: 58210948--58211163 Score: 180
Period size: 40 Copynumber: 5.5 Consensus size: 40
58210938 GAATCACGTA
* * *
58210948 CCTTCGGAATTTA-ACCGGATATAGCT-ACTCG-TTCAAACG
1 CCTTCGGGACTTAGACCGGATATAG-TAACTCGCAT-AAACG
* * *
58210987 CCTTCGGGACATAG-CCTGGTTATAGCAACTCGCATAAACG
1 CCTTCGGGACTTAGACC-GGATATAGTAACTCGCATAAACG
* *
58211027 CCTTCGGGACTTA-ACCGGATTTAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGACCGGATATAGTAACTCGCATAAACG
* *
58211066 CCTTCGGGACTTA-ACC-GATTTAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGACCGGATATAGTAACTCGCATAAACG
* * * * *
58211104 CCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAGACCGGATATAGTAAC-TCGCATAAACG
*
58211144 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGACCGGA
58211164 CATCATTTGA
Statistics
Matches: 148, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
37 3 0.02
38 30 0.20
39 49 0.33
40 55 0.37
41 11 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGACCGGATATAGTAACTCGCATAAACG
Found at i:58213376 original size:40 final size:40
Alignment explanation
Indices: 58213320--58213417 Score: 169
Period size: 40 Copynumber: 2.4 Consensus size: 40
58213310 CATGAGCATT
*
58213320 TGAATGATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAAT-ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
58213361 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
*
58213401 TGATTATATCCGGGCTA
1 TGAATATATCCGGGCTA
58213418 GTGATGTATA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 50 0.91
41 5 0.09
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
Found at i:58213419 original size:18 final size:18
Alignment explanation
Indices: 58213396--58213435 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
58213386 AGGCATTTAT
58213396 GCTAGTGAT-TATATCCGG
1 GCTAGTGATGTATAT-CGG
58213414 GCTAGTGATGTATATCGG
1 GCTAGTGATGTATATCGG
58213432 GCTA
1 GCTA
58213436 AGACCGAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (18 bp):
GCTAGTGATGTATATCGG
Found at i:58213468 original size:57 final size:58
Alignment explanation
Indices: 58213356--58213474 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 58
58213346 AGGCATTTAT
* * * *
58213356 GCTAGTGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGG
1 GCTAGTGAATATATCCGGGCTAAGTACCGAAGGCATTCATGCGAGTGATCATATCCGG
* *
58213414 GCTAGTGATGTATAT-CGGGCTAAG-ACCGAAGGCATTCGTGCGAGTTG-TCATATCCGG
1 GCTAGTGA-ATATATCCGGGCTAAGTACCGAAGGCATTCATGCGAG-TGATCATATCCGG
58213471 GCTA
1 GCTA
58213475 AGACCCGAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
57 29 0.55
58 19 0.36
59 5 0.09
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (58 bp):
GCTAGTGAATATATCCGGGCTAAGTACCGAAGGCATTCATGCGAGTGATCATATCCGG
Found at i:58213509 original size:40 final size:40
Alignment explanation
Indices: 58213429--58213534 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 40
58213419 TGATGTATAT
* * * ** *
58213429 CGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTGTCATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCAAGATACCAAATC
58213468 CGGGCTAAGACCCGAAGGCATTTGTGCAAGATACCAAATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCAAGATACCAAATC
* *
58213508 CGGGTTAAGACCCGAAGGCAATTGTGC
1 CGGGCTAAGACCCGAAGGCATTTGTGC
58213535 TTGTGGTTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 10 0.17
40 48 0.83
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCAAGATACCAAATC
Found at i:58221610 original size:40 final size:40
Alignment explanation
Indices: 58221503--58221611 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 40
58221493 TAGTGATTAT
* * ** *
58221503 ATCCAGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTCAT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGATACCAA
*
58221543 ATCCGGGCTAA-ACCCGAAGGCATTTGTGCAAGATACCAA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGATACCAA
*
58221582 ATCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
58221612 TTGTGGTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 30 0.51
40 29 0.49
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGATACCAA
Found at i:58221624 original size:79 final size:79
Alignment explanation
Indices: 58221425--58221632 Score: 206
Period size: 79 Copynumber: 2.6 Consensus size: 79
58221415 TGAATGATAC
* * * ** * *
58221425 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCTGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAA-ACCCGAAGGCATTTA
* ** *
58221490 TGCTAGTGATTATAT
65 TGCAAGTGACCAAAT
* * * * *
58221505 CCAGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTCATATCCGGGCTAAACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATATCCGGGCTAAACCCGAAGGCATTTA
58221569 TGCAAGAT-ACCAAAT
65 TGCAAG-TGACCAAAT
* *
58221584 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAA
58221633 TTCCGAAGAA
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
78 7 0.07
79 56 0.54
80 40 0.39
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAACCCGAAGGCATTTAT
GCAAGTGACCAAAT
Found at i:58221626 original size:40 final size:40
Alignment explanation
Indices: 58221425--58221631 Score: 206
Period size: 40 Copynumber: 5.2 Consensus size: 40
58221415 TGAATGATAC
* * *
58221425 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
58221465 CTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
58221505 CCAGGCTAAGACCCGAAGGCATTCGTGCAAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* ** *
58221545 CCGGGCTAA-ACCCGAAGGCATTTGTGCAAGAT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * *
58221584 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
58221624 CC-GGCTAA
1 CCGGGCTAA
58221632 ATTCCGAAGA
Statistics
Matches: 140, Mismatches: 23, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
39 39 0.28
40 99 0.71
41 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:58223464 original size:46 final size:46
Alignment explanation
Indices: 58223282--58223595 Score: 270
Period size: 46 Copynumber: 6.7 Consensus size: 46
58223272 AGGGTATAAT
*
58223282 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-C-TCGAG
* * * *
58223329 GTCGATGCCAAGTACCAGACATGGTCTTACACTAGCT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC----TCGAG
* *
58223378 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCG-AG
58223424 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCTCGAG
* * * * *
58223470 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTTGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC--ATCTCGAG
* * * *
58223516 GCCGATGCCATGTCCCAGGCATGGTCTTAGACTGGCTCTTATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC--AT-CTCGAG
* *
58223564 GCTGAAG-CATGTCCCAGACAT-GTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
58223596 ACGCACGAAT
Statistics
Matches: 222, Mismatches: 31, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
44 13 0.06
45 17 0.08
46 72 0.32
47 60 0.27
48 24 0.11
49 33 0.15
50 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCGAG
Found at i:58223567 original size:94 final size:93
Alignment explanation
Indices: 58223285--58223595 Score: 293
Period size: 94 Copynumber: 3.3 Consensus size: 93
58223275 GTATAATGCC
* * * *
58223285 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GTCGATGCCAAGTACCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCTC-TTC-TCAATGCCGATGCCATGTCCCAGAC
* * * *
58223349 ATGGTCTTACACTAGCTATCGAAATCGAGGCC
63 ATGGTCTTACACTGGCTCT-TAAATCGAGGCT
* * *
58223381 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTC-GTAGCCGATG-CATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTG-CTCTTCTCAAT-GCCGATGCCATGTCCCAGACA
*
58223444 T-GTCTTACACTGG--CTTACATCTCGAGGCT
64 TGGTCTTACACTGGCTCTTA-A-ATCGAGGCT
*
58223473 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTTGTCTCAATGCCGATGCCATGTCCCAGGC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCTC-T-TCTCAATGCCGATGCCATGTCCCAGAC
* *
58223536 ATGGTCTTAGACTGGCTCTTATAAT-GTGGCT
63 ATGGTCTTACACTGGCTCTTA-AATCGAGGCT
*
58223567 GAAG-CATGTCCCAGACAT-GTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
58223596 ACGCACGAAT
Statistics
Matches: 181, Mismatches: 21, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
90 13 0.07
91 17 0.09
92 22 0.12
93 26 0.14
94 57 0.31
95 9 0.05
96 37 0.20
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGCTCTTCTCAATGCCGATGCCATGTCCCAGACATG
GTCTTACACTGGCTCTTAAATCGAGGCT
Found at i:58223574 original size:140 final size:140
Alignment explanation
Indices: 58223290--58223595 Score: 345
Period size: 140 Copynumber: 2.2 Consensus size: 140
58223280 ATGCCGATGC
*
58223290 CATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCAAGTACCAGACATGGTC
1 CATGTCCCAGACAT-GTCTTACACTGGCTCATCCATCAAGGCGATGCCAAGTACCAGACATGGTC
* *
58223355 TTACACTAGCTATCGAAATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCT
65 TTACACTAGCTATCGAAATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATAT
*
58223420 CGTAGCCGATG
130 CGTAGCCGAAG
* * *
58223431 CATGTCCCAGACATGTCTTACACTGGCTTACAT-C-TCGAGGCTGATG-CATGTCCCAGACAT-G
1 CATGTCCCAGACATGTCTTACACTGGC-T-CATCCATCAAGGC-GATGCCAAGTACCAGACATGG
* * ** * * * * *
58223492 TCTTACACTAGCTCTTG-TCTCAATGCCGATGCCATGTCCCAGGCATGGTCTTAGACTGGCTCTT
63 TCTTACACTAGCTATCGAAATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGACAC--
* *
58223556 ATAAT-GTGGCTGAAG
126 AT-ATCGTAGCCGAAG
58223571 CATGTCCCAGACATGTCTTACACTG
1 CATGTCCCAGACATGTCTTACACTG
58223596 ACGCACGAAT
Statistics
Matches: 141, Mismatches: 18, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
138 37 0.26
139 16 0.11
140 64 0.45
141 21 0.15
142 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (140 bp):
CATGTCCCAGACATGTCTTACACTGGCTCATCCATCAAGGCGATGCCAAGTACCAGACATGGTCT
TACACTAGCTATCGAAATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATC
GTAGCCGAAG
Found at i:58231600 original size:21 final size:18
Alignment explanation
Indices: 58231562--58231616 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
58231552 GGAAGAATAA
58231562 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
58231580 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
58231601 A-AAA-GAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
58231617 TGTTCATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 7 0.21
19 6 0.18
20 7 0.21
21 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.05
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:58232807 original size:29 final size:28
Alignment explanation
Indices: 58232774--58232865 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 28
58232764 TGACGAGATT
*
58232774 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAA-ATAA
*
58232803 GGCACTAAGTGTGCATGCTGGAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAATAA
* * * *
58232831 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAATAA
58232860 GGCACT
1 GGCACT
58232866 GGGTGTGCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (28 bp):
GGCACTAAGTGTGCATGCTGGAAAATAA
Found at i:58232845 original size:28 final size:28
Alignment explanation
Indices: 58232776--58232855 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
58232766 ACGAGATTGG
* *
58232776 CACTAAGTGTGCGTGCTGGAAATATAAGG
1 CACTAAGTGTGCATGCTGGAAA-ATAAGA
*
58232805 CACTAAGTGTGCATGCTGGAAAATATGA
1 CACTAAGTGTGCATGCTGGAAAATAAGA
* *
58232833 CACTATGTGTGCAAGCTGGAAAA
1 CACTAAGTGTGCATGCTGGAAAA
58232856 ATACGGCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 25 0.54
29 21 0.46
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (28 bp):
CACTAAGTGTGCATGCTGGAAAATAAGA
Found at i:58232878 original size:29 final size:29
Alignment explanation
Indices: 58232774--58232878 Score: 106
Period size: 29 Copynumber: 3.7 Consensus size: 29
58232764 TGACGAGATT
* *
58232774 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
58232803 GGCACTAAGTGTGC-ATGCTGG-AAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
58232831 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
58232860 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
58232879 CGAGGGTATG
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
28 22 0.35
29 41 0.65
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:58239511 original size:21 final size:18
Alignment explanation
Indices: 58239473--58239525 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
58239463 GGAAGAATAA
58239473 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
58239491 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
58239512 A-AAA-GAAAAAAAAA
1 AGAAATGAAAAAAAAA
58239526 GTGTTCATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 7 0.22
19 6 0.19
20 7 0.22
21 5 0.16
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:58240717 original size:29 final size:29
Alignment explanation
Indices: 58240684--58240776 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
58240674 TGACGAGATT
* *
58240684 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
58240713 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
58240742 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
58240771 GGCACT
1 GGCACT
58240777 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:58240789 original size:29 final size:29
Alignment explanation
Indices: 58240684--58240789 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
58240674 TGACGAGATT
* *
58240684 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
58240713 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
58240742 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
58240771 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
58240790 CGGAGGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:58243641 original size:28 final size:27
Alignment explanation
Indices: 58243578--58243647 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58243568 ATAGTGAGTC
58243578 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
58243605 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
58243633 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58243648 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:58251637 original size:28 final size:27
Alignment explanation
Indices: 58251574--58251643 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58251564 ATAGTGAGTC
58251574 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
58251601 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
58251629 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58251644 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:58257608 original size:15 final size:15
Alignment explanation
Indices: 58257585--58257618 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
58257575 CATCTTTAAA
58257585 GCATAAGTTACATAC
1 GCATAAGTTACATAC
*
58257600 GCATGAGTTACATAC
1 GCATAAGTTACATAC
58257615 GCAT
1 GCAT
58257619 TGTCAGTGAC
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:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (15 bp):
GCATAAGTTACATAC
Found at i:58260653 original size:19 final size:20
Alignment explanation
Indices: 58260629--58260668 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
58260619 AAACTTGTTG
58260629 AATTTTTATATTTAG-GTCA
1 AATTTTTATATTTAGAGTCA
58260648 AATTTTTATATTTAGAGTCA
1 AATTTTTATATTTAGAGTCA
58260668 A
1 A
58260669 GTTAATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
AATTTTTATATTTAGAGTCA
Found at i:58299118 original size:45 final size:45
Alignment explanation
Indices: 58299068--58299155 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
58299058 CCAAAACATG
*
58299068 TGTCACATACATCATGAACTTAGACCACAACTCAATGAGTTCAAA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
*
58299113 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCA
58299156 GATTACATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
Found at i:58302908 original size:18 final size:19
Alignment explanation
Indices: 58302885--58302923 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
58302875 TTCACATATA
58302885 TTCTCTCTTCTCT-CCATT
1 TTCTCTCTTCTCTGCCATT
*
58302903 TTCTCTCTTCTTTGCCATT
1 TTCTCTCTTCTCTGCCATT
58302922 TT
1 TT
58302924 AAATTCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.05, C:0.33, G:0.03, T:0.59
Consensus pattern (19 bp):
TTCTCTCTTCTCTGCCATT
Found at i:58311964 original size:47 final size:47
Alignment explanation
Indices: 58311865--58311956 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 47
58311855 TTAGGATTTT
** * *
58311865 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAAGCCGAATGGCCA
* * * *
58311912 ATGTGATGATTGTGAACATGCATATATGTGGTAAAGTCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGAGATAAAGCCGAATGGC
58311957 TAGTGTGAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAAGCCGAATGGCCA
Found at i:58312171 original size:37 final size:37
Alignment explanation
Indices: 58312119--58312226 Score: 198
Period size: 37 Copynumber: 2.9 Consensus size: 37
58312109 GGAAATATAT
*
58312119 TCCGGGTAAGGCCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
58312156 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
58312193 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
58312227 TCGTCTGAGC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:58313193 original size:25 final size:24
Alignment explanation
Indices: 58313165--58313216 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
58313155 AATTTTAATT
*
58313165 TTATTCAATTATCTAATTTTTCAAA
1 TTATTCAATTAT-TAATATTTCAAA
* *
58313190 TTATTGAATTATTAATATTTCATA
1 TTATTCAATTATTAATATTTCAAA
58313214 TTA
1 TTA
58313217 ATTAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (24 bp):
TTATTCAATTATTAATATTTCAAA
Found at i:58313224 original size:25 final size:25
Alignment explanation
Indices: 58313165--58313224 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
58313155 AATTTTAATT
* *
58313165 TTATTCAATTATCTAATTTTTCAAA
1 TTATTAAATTATCTAATATTTCAAA
* *
58313190 TTATTGAATTAT-TAATATTTCATA
1 TTATTAAATTATCTAATATTTCAAA
58313214 TTAATTAAATT
1 TT-ATTAAATT
58313225 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (25 bp):
TTATTAAATTATCTAATATTTCAAA
Found at i:58318408 original size:20 final size:20
Alignment explanation
Indices: 58318380--58318471 Score: 139
Period size: 20 Copynumber: 4.6 Consensus size: 20
58318370 ATTGCTACGA
* *
58318380 TATTTATGGCTTTGTGCCGC
1 TATTGATGGCTTTGTGCCAC
58318400 TATTGATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
58318420 TATTGATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
* *
58318440 TATTGATGGCTTTGTGTCGC
1 TATTGATGGCTTTGTGCCAC
*
58318460 TACTGATGGCTT
1 TATTGATGGCTT
58318472 CAAGTCGCTA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.42
Consensus pattern (20 bp):
TATTGATGGCTTTGTGCCAC
Found at i:58318429 original size:40 final size:40
Alignment explanation
Indices: 58318380--58318507 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 40
58318370 ATTGCTACGA
*
58318380 TATTTATGGCTTTGTGCCGCTATTGATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCGCTATTGATGGCTTTGTGCCAC
* * *
58318420 TATTGATGGCTTTGTGCCACTATTGATGGCTTTGTGTCGC
1 TATTGATGGCTTTGTGCCGCTATTGATGGCTTTGTGCCAC
* *** * * * *
58318460 TACTGATGGCTTCAAGTCGCTACTCATGGCTTTGTGCCATA
1 TATTGATGGCTTTGTGCCGCTATTGATGGCTTTGTGCCA-C
58318501 TATTGAT
1 TATTGAT
58318508 ACTGGCAGCT
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
40 65 0.92
41 6 0.08
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.41
Consensus pattern (40 bp):
TATTGATGGCTTTGTGCCGCTATTGATGGCTTTGTGCCAC
Found at i:58318489 original size:60 final size:61
Alignment explanation
Indices: 58318379--58318507 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 61
58318369 CATTGCTACG
* * *** * *
58318379 ATATTTATGGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTATTGATGGCTTTGTGCCA-
1 ATATTGATGGCTTTGTGCCGCTACTGATGGCTTCAAGCCACTACTCATGGCTTTGTGCCAT
* * * *
58318439 CTATTGATGGCTTTGTGTCGCTACTGATGGCTTCAAGTCGCTACTCATGGCTTTGTGCCAT
1 ATATTGATGGCTTTGTGCCGCTACTGATGGCTTCAAGCCACTACTCATGGCTTTGTGCCAT
58318500 ATATTGAT
1 ATATTGAT
58318508 ACTGGCAGCT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
60 49 0.88
61 7 0.12
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.40
Consensus pattern (61 bp):
ATATTGATGGCTTTGTGCCGCTACTGATGGCTTCAAGCCACTACTCATGGCTTTGTGCCAT
Found at i:58321279 original size:29 final size:29
Alignment explanation
Indices: 58321200--58321311 Score: 93
Period size: 29 Copynumber: 3.9 Consensus size: 29
58321190 ACCCCTGCAT
* * *
58321200 ACATGCATATAGCCCACTAGGCCGAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
** * *
58321228 TTATTCAAATGGCCCATCT-GGCCCAGTTC
1 ACATTCATATGGCCCA-CTAGGCCCAATTC
* * *
58321257 ATATTCTTATGGCCCACTAGGCCTAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* *
58321286 ACCTTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCACTAGGCCCAA
58321312 ATCATGTTAT
Statistics
Matches: 64, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
28 18 0.28
29 46 0.72
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:58321436 original size:19 final size:19
Alignment explanation
Indices: 58321399--58321446 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
58321389 AACAGCCCAA
*
58321399 TAGCCCA-TCAGGCCCATT
1 TAGCCCATTCTGGCCCATT
*
58321417 TAGCCCATTCTGGCCTATT
1 TAGCCCATTCTGGCCCATT
* *
58321436 TGGCCAATTCT
1 TAGCCCATTCT
58321447 CAACCCAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.19, C:0.33, G:0.17, T:0.31
Consensus pattern (19 bp):
TAGCCCATTCTGGCCCATT
Found at i:58321592 original size:24 final size:23
Alignment explanation
Indices: 58321541--58321617 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 23
58321531 CCGTAGCCCA
* *
58321541 ACTTTTGACTTTTCGGCATTT-T
1 ACTTTTAACTTTTCGGCATTTCG
58321563 AGCTTTTCAACTTTTCGGCATTTCG
1 A-CTTTT-AACTTTTCGGCATTTCG
* *
58321588 ACTTTATAGCTTTTCGACATTTCG
1 ACTTT-TAACTTTTCGGCATTTCG
*
58321612 GCTTTT
1 ACTTTT
58321618 GTCGATTCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 1 0.02
23 6 0.13
24 37 0.80
25 2 0.04
ACGTcount: A:0.16, C:0.21, G:0.14, T:0.49
Consensus pattern (23 bp):
ACTTTTAACTTTTCGGCATTTCG
Found at i:58321615 original size:16 final size:16
Alignment explanation
Indices: 58321549--58321617 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 16
58321539 CAACTTTTGA
* *
58321549 CTTTTCGGCATTTTAG
1 CTTTTCGACATTTCAG
* * *
58321565 CTTTTCAACTTTTCGG
1 CTTTTCGACATTTCAG
* *
58321581 CATTTCGAC-TTTATAG
1 CTTTTCGACATTT-CAG
*
58321597 CTTTTCGACATTTCGG
1 CTTTTCGACATTTCAG
58321613 CTTTT
1 CTTTT
58321618 GTCGATTCAT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
15 3 0.08
16 33 0.85
17 3 0.08
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.49
Consensus pattern (16 bp):
CTTTTCGACATTTCAG
Found at i:58323807 original size:71 final size:71
Alignment explanation
Indices: 58323719--58323882 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
58323709 GAGATGTATC
58323719 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58323784 AGGACA
66 AGGACA
*
58323790 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
58323855 CGGACA
66 AGGACA
58323861 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58323883 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58331396 original size:70 final size:71
Alignment explanation
Indices: 58331245--58331407 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
58331235 GAGATGTATC
58331245 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58331310 AGGACA
66 AGGACA
58331316 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
58331380 CGGACA
66 AGGACA
58331386 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58331408 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58333112 original size:17 final size:16
Alignment explanation
Indices: 58333090--58333128 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
58333080 ACAAAAAAAG
58333090 TTTGGGATTCCGAGATT
1 TTTGGG-TTCCGAGATT
* *
58333107 TTTGGGTTTCGGGATT
1 TTTGGGTTCCGAGATT
58333123 TTTGGG
1 TTTGGG
58333129 GCATTACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.10, C:0.08, G:0.36, T:0.46
Consensus pattern (16 bp):
TTTGGGTTCCGAGATT
Found at i:58338800 original size:32 final size:32
Alignment explanation
Indices: 58338759--58338822 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
58338749 CTCATATGCC
58338759 AAAGCCATACTTAACGAAACAAAACACATTGT
1 AAAGCCATACTTAACGAAACAAAACACATTGT
*
58338791 AAAGCCATACTTAATGAAACAAAACACATTGT
1 AAAGCCATACTTAACGAAACAAAACACATTGT
58338823 TTAATCAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.20
Consensus pattern (32 bp):
AAAGCCATACTTAACGAAACAAAACACATTGT
Found at i:58345051 original size:23 final size:24
Alignment explanation
Indices: 58344991--58345144 Score: 269
Period size: 23 Copynumber: 6.5 Consensus size: 24
58344981 GTCGCACACT
58344991 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58345015 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58345039 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58345062 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
58345085 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58345109 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
58345132 ATAGTGAATCGCA
1 ATAGTAAATCGCA
58345145 TATAGTAATC
Statistics
Matches: 128, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
23 69 0.54
24 59 0.46
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:58345061 original size:47 final size:47
Alignment explanation
Indices: 58344991--58345144 Score: 283
Period size: 47 Copynumber: 3.3 Consensus size: 47
58344981 GTCGCACACT
*
58344991 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCC
1 ATAGTGAATCGCACACATAGTGCCATAGT-AATCGCACACATAGTGCC
58345039 ATAGT-AATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCC
1 ATAGTGAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCC
58345085 ATAGTGAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCC
1 ATAGTGAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCC
58345132 ATAGTGAATCGCA
1 ATAGTGAATCGCA
58345145 TATAGTAATC
Statistics
Matches: 105, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
46 23 0.22
47 77 0.73
48 5 0.05
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (47 bp):
ATAGTGAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCC
Found at i:58345077 original size:70 final size:71
Alignment explanation
Indices: 58344991--58345144 Score: 283
Period size: 70 Copynumber: 2.2 Consensus size: 71
58344981 GTCGCACACT
58344991 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACAT
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACAT
58345056 AGTGCC
66 AGTGCC
*
58345062 ATAGT-AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAATCGCACACAT
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACAT
58345126 AGTGCC
66 AGTGCC
*
58345132 ATAGTGAATCGCA
1 ATAGTAAATCGCA
58345145 TATAGTAATC
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
70 69 0.85
71 12 0.15
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (71 bp):
ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACAT
AGTGCC
Found at i:58345576 original size:2 final size:2
Alignment explanation
Indices: 58345569--58345594 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58345559 ATGGGCATAC
58345569 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
58345595 CATACCCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58352676 original size:24 final size:24
Alignment explanation
Indices: 58352649--58352854 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
58352639 CTTATTATGT
* * **
58352649 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTGAA
* *
58352673 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTGAA
*
58352697 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTGAA
58352721 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTGAA
58352744 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTGAA
58352768 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTGAA
58352792 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTGAA
58352816 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTGAA
58352840 TCGCACACATAGTGC
1 TCGCACACATAGTGC
58352855 ATTTGAGATA
Statistics
Matches: 178, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
23 23 0.13
24 155 0.87
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTGAA
Found at i:58352794 original size:95 final size:96
Alignment explanation
Indices: 58352649--58352854 Score: 342
Period size: 95 Copynumber: 2.2 Consensus size: 96
58352639 CTTATTATGT
* * *
58352649 TCGCACACATAGAGCTATAGCAAATCGCACACATAGTGCTATAGTAAATCGCACACATAGTGCCA
1 TCGCACACATAGTGCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
58352714 TAGTAAATCGCACACATAGTGCCATAGT-AA
66 TAGTAAATCGCACACATAGTGCCATAGTGAA
** *
58352744 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCA
1 TCGCACACATAGTGCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
*
58352809 TAGTGAATCGCACACATAGTGCCATAGTGAA
66 TAGTAAATCGCACACATAGTGCCATAGTGAA
58352840 TCGCACACATAGTGC
1 TCGCACACATAGTGC
58352855 ATTTGAGATA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
95 86 0.83
96 17 0.17
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (96 bp):
TCGCACACATAGTGCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
TAGTAAATCGCACACATAGTGCCATAGTGAA
Found at i:58360365 original size:24 final size:24
Alignment explanation
Indices: 58360338--58360585 Score: 354
Period size: 24 Copynumber: 10.7 Consensus size: 24
58360328 CTTATTATGT
* * *
58360338 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
58360362 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
58360386 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
58360410 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
58360434 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
58360458 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTAAA
*
58360481 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
58360505 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTAAA
*
58360528 TCGCACACATAGTG-CAT--TGAA
1 TCGCACACATAGTGCCATAGTAAA
58360549 TCGCACACATA-TGCC-T--T-AA
1 TCGCACACATAGTGCCATAGTAAA
58360568 TCGGCACACATAGTGCCA
1 TC-GCACACATAGTGCCA
58360586 CATAGTCTTT
Statistics
Matches: 214, Mismatches: 4, Indels: 14
0.92 0.02 0.06
Matches are distributed among these distances:
19 4 0.02
20 14 0.07
21 18 0.08
22 3 0.01
23 39 0.18
24 136 0.64
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:58360986 original size:2 final size:2
Alignment explanation
Indices: 58360979--58361009 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58360969 ATGAATGGGC
58360979 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58361010 CATACCCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58368091 original size:24 final size:24
Alignment explanation
Indices: 58368064--58368274 Score: 314
Period size: 24 Copynumber: 8.8 Consensus size: 24
58368054 CTTATTATGT
* * *
58368064 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
58368088 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
58368112 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
58368136 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
58368160 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
58368184 TCGCACACATAGTGCCATAGTAAG
1 TCGCACACATAGTGCCATAGTAAA
*
58368208 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
58368232 TCGCACACATAGTGCCATAGTAAG
1 TCGCACACATAGTGCCATAGTAAA
*
58368256 TTGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
58368275 TAGTCTTTGC
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 173 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:58368678 original size:2 final size:2
Alignment explanation
Indices: 58368671--58368700 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
58368661 ATGGGCATAC
58368671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58368701 CATACCCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58374710 original size:32 final size:32
Alignment explanation
Indices: 58374669--58374732 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
58374659 CTCATATGCC
58374669 AAAGCCATACTTAACGAAACAAAACACATTGT
1 AAAGCCATACTTAACGAAACAAAACACATTGT
58374701 AAAGCCATACTTAACGAAACAAAACACATTGT
1 AAAGCCATACTTAACGAAACAAAACACATTGT
58374733 TTAATCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.19
Consensus pattern (32 bp):
AAAGCCATACTTAACGAAACAAAACACATTGT
Found at i:58378924 original size:16 final size:15
Alignment explanation
Indices: 58378897--58378959 Score: 72
Period size: 16 Copynumber: 4.0 Consensus size: 15
58378887 CCGGAGCCCA
*
58378897 ACTTTCAGCTTTTCG
1 ACTTTTAGCTTTTCG
*
58378912 ACATTTTAGCTTTTCA
1 AC-TTTTAGCTTTTCG
*
58378928 ACTTTTCAGCATTTCG
1 ACTTTT-AGCTTTTCG
58378944 ACTTTATAGCTTTTCG
1 ACTTT-TAGCTTTTCG
58378960 GCATTTCGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 6 0.15
16 33 0.82
17 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.48
Consensus pattern (15 bp):
ACTTTTAGCTTTTCG
Found at i:58378937 original size:32 final size:31
Alignment explanation
Indices: 58378895--58378958 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 31
58378885 TACCGGAGCC
*
58378895 CAACTTTCAGCTTTTCGACATTT-TAGCTTTT
1 CAACTTTCAGCATTTCGAC-TTTATAGCTTTT
58378926 CAACTTTTCAGCATTTCGACTTTATAGCTTTT
1 CAAC-TTTCAGCATTTCGACTTTATAGCTTTT
58378958 C
1 C
58378959 GGCATTTCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 7 0.23
32 23 0.77
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.47
Consensus pattern (31 bp):
CAACTTTCAGCATTTCGACTTTATAGCTTTT
Found at i:58378948 original size:24 final size:23
Alignment explanation
Indices: 58378921--58378973 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
58378911 GACATTTTAG
58378921 CTTTTCAACTTTTCAGCATTTCGA
1 CTTTT-AACTTTTCAGCATTTCGA
* * *
58378945 CTTTATAGCTTTTCGGCATTTCGG
1 CTTT-TAACTTTTCAGCATTTCGA
58378969 CTTTT
1 CTTTT
58378974 GTCGATTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 23 0.92
25 1 0.04
ACGTcount: A:0.15, C:0.23, G:0.13, T:0.49
Consensus pattern (23 bp):
CTTTTAACTTTTCAGCATTTCGA
Found at i:58393145 original size:21 final size:21
Alignment explanation
Indices: 58393119--58393168 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
58393109 TTATAGAGGT
58393119 TTGTTTAGTTTAAAACTCAAG
1 TTGTTTAGTTTAAAACTCAAG
58393140 TTGTTTAGTTTAAAACTCAAG
1 TTGTTTAGTTTAAAACTCAAG
*
58393161 TCGTTTAG
1 TTGTTTAG
58393169 CAAAATGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (21 bp):
TTGTTTAGTTTAAAACTCAAG
Found at i:58394130 original size:27 final size:27
Alignment explanation
Indices: 58394058--58394137 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
58394048 ATAAATACCT
* * * *
58394058 CACATAAGGGAAAATGAGTCATCTCAC
1 CACATAAGGGTAAATTAGTCATTTTAC
*
58394085 CACATAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGTAAATTAGTCATTTTAC
* *
58394112 CATATAAGGGTAAATTAGTTATTTTA
1 CACATAAGGGTAAATTAGTCATTTTA
58394138 TCAATTTGAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (27 bp):
CACATAAGGGTAAATTAGTCATTTTAC
Found at i:58402716 original size:40 final size:40
Alignment explanation
Indices: 58402634--58402891 Score: 337
Period size: 40 Copynumber: 6.5 Consensus size: 40
58402624 AAGCCAAGTA
* * *
58402634 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
58402672 CCTTCGGGACATAGCCCGGATATAGTAACTAGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58402712 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58402752 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58402792 CCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
58402832 CCTTCGGGACTTATCCCGGA-ACTAGTCACTAGCGCA-AAATT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
58402873 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58402892 TTATCATCCA
Statistics
Matches: 198, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 144 0.73
41 22 0.11
42 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58404284 original size:24 final size:24
Alignment explanation
Indices: 58404252--58404300 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
58404242 GGCCAAAAAA
58404252 TGTAAAAGGATGGACACTTTTTTT
1 TGTAAAAGGATGGACACTTTTTTT
58404276 TGTAAAAGGATGGACACTTTTTTT
1 TGTAAAAGGATGGACACTTTTTTT
58404300 T
1 T
58404301 TTCTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (24 bp):
TGTAAAAGGATGGACACTTTTTTT
Found at i:58406258 original size:27 final size:28
Alignment explanation
Indices: 58406220--58406289 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
58406210 ATAGTGAGTC
*
58406220 CGCACACTTAGTGCT-CTTTAATC-AACT
1 CGCACACTTAGTGCTAC-ATAATCAAACT
*
58406247 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
58406275 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58406290 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 19 0.49
28 20 0.51
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:58413064 original size:30 final size:29
Alignment explanation
Indices: 58412970--58413071 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
58412960 TATAGTGAAT
* * *
58412970 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
58412999 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
58413027 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
58413057 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
58413072 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:58413963 original size:30 final size:30
Alignment explanation
Indices: 58413927--58414027 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
58413917 GACAAGATTG
* * *
58413927 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
58413957 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
58413985 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
58414014 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58414028 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:58414039 original size:29 final size:28
Alignment explanation
Indices: 58413956--58414031 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
58413946 AAAATTGTAC
* *
58413956 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
58413984 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
58414013 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
58414032 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:58419053 original size:39 final size:39
Alignment explanation
Indices: 58418999--58419161 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
58418989 TGTGAATGAA
58418999 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
58419038 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** * *
58419077 TGTGCGAGCTATGATATCTGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
58419116 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
58419156 TGTGCG
1 TGTGCG
58419162 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:58419177 original size:40 final size:39
Alignment explanation
Indices: 58418999--58419191 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
58418989 TGTGAATGAA
* *
58418999 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
58419038 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
58419077 TGTGCGAGCTATGATATCTGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
58419116 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
58419156 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
58419192 TGTTTTGAAC
Statistics
Matches: 137, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:58426203 original size:24 final size:24
Alignment explanation
Indices: 58426173--58426463 Score: 528
Period size: 24 Copynumber: 12.1 Consensus size: 24
58426163 GAATGTGACT
* *
58426173 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
58426197 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58426221 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58426245 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
58426269 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
58426293 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58426317 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
58426341 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58426365 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58426389 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58426413 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58426437 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
58426461 ATA
1 ATA
58426464 TGGTCTTTGC
Statistics
Matches: 261, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 261 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:58430178 original size:43 final size:43
Alignment explanation
Indices: 58430117--58430422 Score: 542
Period size: 43 Copynumber: 7.1 Consensus size: 43
58430107 CCTTGCTCGA
** * *
58430117 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
58430160 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
58430203 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
58430246 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
58430289 ATCA-CGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
58430331 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
58430374 ATCACTGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
58430417 ATCACC
1 ATCACC
58430423 AGCATGACTG
Statistics
Matches: 254, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
42 42 0.17
43 212 0.83
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:58430346 original size:128 final size:128
Alignment explanation
Indices: 58430117--58430421 Score: 538
Period size: 128 Copynumber: 2.4 Consensus size: 128
58430107 CCTTGCTCGA
** * *
58430117 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACATATCACCGGCACAAAGCCTGCTA
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCA-CGGCACAAAGCCTGCTA
* *
58430182 GGCTCGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
65 GGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
58430246 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACGGCACAAAGCCTGCTAG
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACGGCACAAAGCCTGCTAG
58430311 GCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
66 GCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
58430374 ATCACTGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCAC
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCAC
58430422 CAGCATGACT
Statistics
Matches: 169, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
128 126 0.75
129 43 0.25
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.13
Consensus pattern (128 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACGGCACAAAGCCTGCTAG
GCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:58430596 original size:42 final size:42
Alignment explanation
Indices: 58430405--58430616 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
58430395 AGGCACGAAG
* * * * * * *
58430405 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
58430447 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
58430487 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
58430527 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
58430567 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
58430609 GCCCGGAT
1 GCCCGGAT
58430617 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:58432621 original size:47 final size:47
Alignment explanation
Indices: 58432543--58432946 Score: 533
Period size: 47 Copynumber: 8.7 Consensus size: 47
58432533 CCCTTCGGGA
* * * * * *
58432543 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
58432590 CCTGTCACATATATACACCTTCACATTCATCACATT--CTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
58432635 CTTATCACATATATACA--TTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
*
58432680 CTTATCACATATATATACACTTCACATTCATCACA-TGGCCATTAGGC
1 CTTATCACATATATACAC-CTTCACATTCATCACATTGGCCATTAGGC
58432727 CTTATCACATATATACACACTTTCACATTCATCACATT-GCCATTAGGC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGC
* *
58432775 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
58432822 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
58432871 CTTATCACATATATACACCTTCACA--CATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
58432916 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
58432947 GCGTAAAATC
Statistics
Matches: 320, Mismatches: 20, Indels: 34
0.86 0.05 0.09
Matches are distributed among these distances:
43 16 0.05
44 3 0.01
45 83 0.26
46 17 0.05
47 97 0.30
48 59 0.18
49 44 0.14
50 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:58439414 original size:26 final size:25
Alignment explanation
Indices: 58439353--58439419 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
58439343 CCTATACATA
58439353 TATGCTCACACGAGCTATGAATAAG
1 TATGCTCACACGAGCTATGAATAAG
*
58439378 TATGCTTACACGAG-TATGAA-AATGGG
1 TATGCTCACACGAGCTATGAATAA---G
*
58439404 TCTGCTCACACGAGCT
1 TATGCTCACACGAGCT
58439420 GTGGGTTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 2 0.06
24 6 0.17
25 13 0.37
26 13 0.37
27 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (25 bp):
TATGCTCACACGAGCTATGAATAAG
Found at i:58441228 original size:21 final size:21
Alignment explanation
Indices: 58441202--58441246 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
58441192 AACATAAAGA
*
58441202 AAACACAAAAATTCATGAAGG
1 AAACACAAAAACTCATGAAGG
*
58441223 AAACACAAAAACTCCTGAAGG
1 AAACACAAAAACTCATGAAGG
58441244 AAA
1 AAA
58441247 TTGAGGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.18, G:0.13, T:0.11
Consensus pattern (21 bp):
AAACACAAAAACTCATGAAGG
Found at i:58445057 original size:2 final size:2
Alignment explanation
Indices: 58445050--58445085 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
58445040 CCACCAGAAC
58445050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58445086 GTGCCGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58445167 original size:27 final size:26
Alignment explanation
Indices: 58445118--58445169 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
58445108 GCGAGGATGC
58445118 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
* * *
58445144 CAGATATATGTGGCGAGGTTACCAGA
1 CAGATAT-TGTGACGAAGTCACCAGA
58445170 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:58445852 original size:27 final size:27
Alignment explanation
Indices: 58445822--58445939 Score: 146
Period size: 27 Copynumber: 4.4 Consensus size: 27
58445812 GGGCAAAATG
* * *
58445822 GTAATTTTACCCCACAGGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
58445849 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
58445876 GTATTTCTACCTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
58445903 GTAATTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
58445930 GTAATTCTAC
1 GTAATTCTAC
58445940 AACTTATCCA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:58447117 original size:6 final size:6
Alignment explanation
Indices: 58447106--58447184 Score: 81
Period size: 6 Copynumber: 12.8 Consensus size: 6
58447096 TACCATAACT
*
58447106 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
58447155 AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
58447185 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
5 3 0.05
6 50 0.82
7 6 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:58447142 original size:31 final size:31
Alignment explanation
Indices: 58447101--58447184 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
58447091 AACATTACCA
58447101 TAACTAGAATCAGAATCAGAATCAGAATCAGG
1 TAAC-AGAATCAGAATCAGAATCAGAATCAGG
* *
58447133 TGACAGAATCAGAATCAGAATCAGTATCAGG
1 TAACAGAATCAGAATCAGAATCAGAATCAGG
*
58447164 TAACAGAATCAAAATCAGAAT
1 TAACAGAATCAGAATCAGAAT
58447185 GTGAATGCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
31 45 0.94
32 3 0.06
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
TAACAGAATCAGAATCAGAATCAGAATCAGG
Found at i:58447174 original size:25 final size:24
Alignment explanation
Indices: 58447111--58447157 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
58447101 TAACTAGAAT
58447111 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCA-GTGA
58447136 CAGAATCAGAATCAGAATCAGT
1 CAGAATCAGAATCAGAATCAGT
58447158 ATCAGGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (24 bp):
CAGAATCAGAATCAGAATCAGTGA
Found at i:58447678 original size:81 final size:81
Alignment explanation
Indices: 58447581--58447748 Score: 246
Period size: 81 Copynumber: 2.1 Consensus size: 81
58447571 GGCAAAATGG
* *
58447581 TAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATATTTCTACCT
1 TAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
58447646 TACAAGGGTATTTCGA
66 TACAAGGGTATTTCGA
* * * *
58447662 TAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGTGTATTTCGGTAATTCTACCC
1 TAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
* * * *
58447727 TATAGGGGTATTTTGG
66 TACAAGGGTATTTCGA
58447743 TAATTT
1 TAATTT
58447749 CACAAATCAG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (81 bp):
TAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
TACAAGGGTATTTCGA
Found at i:58447744 original size:27 final size:27
Alignment explanation
Indices: 58447579--58447747 Score: 212
Period size: 27 Copynumber: 6.3 Consensus size: 27
58447569 AGGGCAAAAT
* * *
58447579 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58447606 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
58447633 GATATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58447660 GATAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58447687 AGTAATTCTACCCTACAAGTGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
58447714 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
58447741 GGTAATT
1 GGTAATT
58447748 TCACAAATCA
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:58447787 original size:26 final size:27
Alignment explanation
Indices: 58447730--58447855 Score: 105
Period size: 27 Copynumber: 4.7 Consensus size: 27
58447720 TCTACCCTAT
* *
58447730 AGGGGTATTTTGGTAATTTCACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
58447757 A-GGGTATTTT-GTAATTTTACAAGCC
1 AGGGGTATTTTGGTAATTTTACAAACC
*** *
58447782 AGGGGTATTTTGGTAATTTTATTGATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* **
58447809 -GAGGGTATTTTGTTAATTTTGTAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACC
* **
58447836 AAGGGTATTTCAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
58447856 GTAAATCGAG
Statistics
Matches: 78, Mismatches: 17, Indels: 8
0.76 0.17 0.08
Matches are distributed among these distances:
25 13 0.17
26 19 0.24
27 46 0.59
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:58447814 original size:27 final size:25
Alignment explanation
Indices: 58447732--58447869 Score: 89
Period size: 27 Copynumber: 5.2 Consensus size: 25
58447722 TACCCTATAG
*
58447732 GGGTATTTTGGTAATTTCACAAATCA
1 GGGTATTTTGGTAATTTTA-AAATCA
**
58447758 GGGTATTTT-GTAATTTTACAAGCCA
1 GGGTATTTTGGTAATTTTA-AAATCA
**
58447783 GGGGTATTTTGGTAATTTTATTGATCGA
1 -GGGTATTTTGGTAATTTTA-AAATC-A
* * *
58447811 GGGTATTTTGTTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTT-AAAATC-A
** *
58447838 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTT-AAAATC-A
58447865 GGGTA
1 GGGTA
58447870 AAATGGTAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
25 13 0.15
26 18 0.20
27 57 0.64
28 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (25 bp):
GGGTATTTTGGTAATTTTAAAATCA
Found at i:58447852 original size:54 final size:53
Alignment explanation
Indices: 58447732--58447869 Score: 143
Period size: 54 Copynumber: 2.6 Consensus size: 53
58447722 TACCCTATAG
** * * * *
58447732 GGGTATTTTGGTAATTTCACAAATC-AGGGTATTTTGTAATTTTACAAGCCAG
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGTAATTTTACAAACCAA
** ** **
58447784 GGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGTTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTG-TAATTTTACAAACCAA
*
58447838 GGGTATTTCAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTA
58447870 AAATGGTAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
52 21 0.30
53 11 0.15
54 39 0.55
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (53 bp):
GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGTAATTTTACAAACCAA
Found at i:58447878 original size:27 final size:27
Alignment explanation
Indices: 58447848--58447986 Score: 215
Period size: 27 Copynumber: 5.1 Consensus size: 27
58447838 GGGTATTTCA
*
58447848 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
58447875 GTAATTCTGTAAATCAAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
58447902 GTAATTCTGTAAATCGAGGGTAAGACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
58447929 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
58447956 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
58447983 GTAA
1 GTAA
58447987 ATCGAGGGTA
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:58447878 original size:81 final size:81
Alignment explanation
Indices: 58447822--58448078 Score: 278
Period size: 81 Copynumber: 3.3 Consensus size: 81
58447812 GGTATTTTGT
* *** * *
58447822 TAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAA
1 TAATTCTGTAAACCAAGGGTAAGACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAA
* *
58447887 ATCAAAGGTAAAATGG
66 ATCGAGGGTAAAATGG
* * *
58447903 TAATTCTGTAAATCGAGGGTAAGACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAA
1 TAATTCTGTAAACCAAGGGTAAGACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAA
*
58447968 ATCGAGGGTAAAACGG
66 ATCGAGGGTAAAATGG
* **
58447984 TAAATC-G-------AGGGTAAGATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAA
1 TAATTCTGTAAACCAAGGGTAAGACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAA
* *
58448041 ATTGAGGGTAAAACGG
66 ATCGAGGGTAAAATGG
* * *
58448057 TAATTCTATAAATCGAGGGTAA
1 TAATTCTGTAAACCAAGGGTAA
58448079 AATGGTAATT
Statistics
Matches: 151, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
73 69 0.46
80 1 0.01
81 81 0.54
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (81 bp):
TAATTCTGTAAACCAAGGGTAAGACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAA
ATCGAGGGTAAAATGG
Found at i:58447880 original size:54 final size:54
Alignment explanation
Indices: 58447848--58448090 Score: 295
Period size: 54 Copynumber: 4.6 Consensus size: 54
58447838 GGGTATTTCA
* * *
58447848 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
* *
58447902 GTAATTCTGTAAATCGAGGGTAAGACGGTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
* * *
58447956 GTAATTCTATAAATCGAGGGTAAAAC-G-------GTAAATCGAGGGTAAGATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
* * ** *
58448002 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
* *
58448056 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCT
58448091 ATCTTACAGG
Statistics
Matches: 166, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
46 42 0.25
47 1 0.01
53 1 0.01
54 122 0.73
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
Done.