Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 74 of 199
Found at i:27268434 original size:18 final size:18
Alignment explanation
Indices: 27268406--27268466 Score: 90
Period size: 17 Copynumber: 3.4 Consensus size: 18
27268396 GAGGCAACAA
27268406 AAAACAAAAAACAAAAAAC
1 AAAA-AAAAAACAAAAAAC
27268425 AAAAAAAAAACAAAAAAC
1 AAAAAAAAAACAAAAAAC
*
27268443 -AAAAATAAA-AAAAAAC
1 AAAAAAAAAACAAAAAAC
27268459 AAAAAAAA
1 AAAAAAAA
27268467 CTCTACCGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.18
17 14 0.36
18 14 0.36
19 4 0.10
ACGTcount: A:0.89, C:0.10, G:0.00, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAACAAAAAAC
Found at i:27268434 original size:25 final size:23
Alignment explanation
Indices: 27268405--27268464 Score: 93
Period size: 23 Copynumber: 2.5 Consensus size: 23
27268395 GGAGGCAACA
27268405 AAAAACAAAAAACAAAAAACAAAAA
1 AAAAACAAAAAAC-AAAAA-AAAAA
*
27268430 AAAAACAAAAAACAAAAATAAAA
1 AAAAACAAAAAACAAAAAAAAAA
27268453 AAAAACAAAAAA
1 AAAAACAAAAAA
27268465 AACTCTACCG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 16 0.47
24 5 0.15
25 13 0.38
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (23 bp):
AAAAACAAAAAACAAAAAAAAAA
Found at i:27268437 original size:32 final size:34
Alignment explanation
Indices: 27268401--27268466 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
27268391 CAGTGGAGGC
*
27268401 AACAAAAAAC-AAAA-AACAAAAAACAAAAAAAA
1 AACAAAAAACAAAAATAAAAAAAAACAAAAAAAA
27268433 AACAAAAAACAAAAATAAAAAAAAACAAAAAAAA
1 AACAAAAAACAAAAATAAAAAAAAACAAAAAAAA
27268467 CTCTACCGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 10 0.32
33 4 0.13
34 17 0.55
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.02
Consensus pattern (34 bp):
AACAAAAAACAAAAATAAAAAAAAACAAAAAAAA
Found at i:27268465 original size:25 final size:25
Alignment explanation
Indices: 27268404--27268467 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
27268394 TGGAGGCAAC
*
27268404 AAAAAACAAAAAACA-AAAAACAAA
1 AAAAAACAAAAAAAACAAAAACAAA
* *
27268428 AAAAAA-ACAAAAAACAAAAATAAA
1 AAAAAACAAAAAAAACAAAAACAAA
27268452 AAAAAACAAAAAAAAC
1 AAAAAACAAAAAAAAC
27268468 TCTACCGGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.18
24 20 0.59
25 8 0.24
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.02
Consensus pattern (25 bp):
AAAAAACAAAAAAAACAAAAACAAA
Found at i:27269905 original size:44 final size:44
Alignment explanation
Indices: 27269856--27270321 Score: 242
Period size: 44 Copynumber: 10.7 Consensus size: 44
27269846 ATATCAAGTA
* * * * *
27269856 TTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATTGCAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACTGCAGATC
* * * * **
27269900 TTATCTCCCTAAGTAGTAATGGAGTAGATCGAGGAC-GGGGAATC
1 TTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACTGCAG-ATC
* * * * * ** *
27269944 TTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAGGCCACCAG-CC
1 TTATCTCCCTAAGCAGTAGT-GG-AGTAGATTGAAGACTGCAGATC
* ** * *
27269987 TTATCTCCCTGAGCAACAGTGGAGTA-AGTTGAAGATTGAAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGTAGA-TTGAAGACTGCAGATC
*
27270031 TTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTG-A-ATC
1 TTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGAC--TGCAGATC
* * * * * **
27270075 TTATCTTCCTGAG-A-TAGTAGGAAGCAGATTTAAGCCACCAG-TC
1 TTATCTCCCTAAGCAGTAGT-GG-AGTAGATTGAAGACTGCAGATC
* * * *
27270118 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACTGCAGATC
* * *
27270162 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGC-GAATC
1 TTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACTGCAG-ATC
* * * ** **
27270206 TTATCTTCCC-GAG-A-TAGTAGGAAGCAGATTTAAG-CCACCTATC
1 TTATC-TCCCTAAGCAGTAGT-GG-AGTAGATTGAAGACTGCAGATC
* * * * * *
27270249 CTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGCAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACTGCAGATC
*
27270293 TTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TTATCTCCCTAAGCAGTAGTGGAGTAGAT
27270322 CAAAGATGGC
Statistics
Matches: 308, Mismatches: 87, Indels: 54
0.69 0.19 0.12
Matches are distributed among these distances:
42 17 0.06
43 78 0.25
44 195 0.63
45 16 0.05
46 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
TTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACTGCAGATC
Found at i:27270093 original size:131 final size:131
Alignment explanation
Indices: 27269856--27270427 Score: 824
Period size: 131 Copynumber: 4.4 Consensus size: 131
27269846 ATATCAAGTA
* * *
27269856 TTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGTAGTAATG
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* * * * * *
27269921 GAGTAGATCGAGGACGGGGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAGGCCACCAGC
66 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAGATTTAAGCCACCAGC
27269986 C
131 C
* * *
27269987 TTATCTCCCTGAGCAACAGTGGAGTAAGTTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTG
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* * **
27270052 GAGTAGATCGAAGACGGTGAATCTTATCTTCCTGAGATAGTAGGAAGCAGATTTAAGCCACCAGT
66 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAGATTTAAGCCACCAG-
27270117 CC
130 CC
* * *
27270119 -TATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* *
27270183 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCACCTAT
66 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAGATTTAAGCCACC-AG
27270248 CC
130 CC
*
27270250 -TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* * * * * **
27270314 GAGCAGATCAAAGATGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAACCATTAG
66 GAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTA-GGAAGCAGATTTAAGCCACCAG
27270379 CC
130 CC
* *
27270381 TTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTA
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTA
27270428 CCTTCCTGTA
Statistics
Matches: 400, Mismatches: 37, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
131 338 0.85
132 62 0.16
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (131 bp):
TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAGATTTAAGCCACCAGC
C
Found at i:27270319 original size:87 final size:87
Alignment explanation
Indices: 27269941--27270321 Score: 212
Period size: 87 Copynumber: 4.4 Consensus size: 87
27269931 AGGACGGGGA
* * * *
27269941 ATCTTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAGGCCACC-AGCCTTATCTCCCTGAGCAA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTTAAGCCACCTATCC-TATCTCCCTGAGCAG
* * *
27270003 CAGTGGAGTA-AGTTGAAGATTGAAG
63 CAGTGGAGCAGA-TTGAAGACTGCAG
* ** * * *
27270028 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAG--ACGGTGAATCTTATCTTCCTGAG-A-
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCAC-CT--ATCCTATCTCCCTGAGCAG
* * * **
27270089 TAGTAGGAAGCAGATTTAAGCCACCAG
63 CAGT-GG-AGCAGATTGAAGACTGCAG
* * * * *** ** * * *
27270116 -TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATCTTATCTCCCTAAGCAGTA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCACCTATCCTATCTCCCTGAGCAGCA
* *
27270180 GTGGAGCAGATCGAAGACGGC-G
65 GTGGAGCAGATTGAAGACTGCAG
*
27270202 AATCTTATCTTCCC-GAG-A-TAGTAGGAAGCAGATTTAAGCCACCTATCCTATCTCCCTGAGCA
1 -ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTTAAGCCACCTATCCTATCTCCCTGAGCA
* * * *
27270264 GCAGCGGAGTAGGTTGAAGATTGCAG
62 GCAGTGGAGCAGATTGAAGACTGCAG
27270290 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
27270322 CAAAGATGGC
Statistics
Matches: 220, Mismatches: 51, Indels: 46
0.69 0.16 0.15
Matches are distributed among these distances:
85 2 0.01
86 12 0.05
87 138 0.63
88 47 0.21
89 20 0.09
90 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (87 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCTATCCTATCTCCCTGAGCAGCAG
TGGAGCAGATTGAAGACTGCAG
Found at i:27270828 original size:220 final size:220
Alignment explanation
Indices: 27270250--27270830 Score: 874
Period size: 220 Copynumber: 2.6 Consensus size: 220
27270240 CCACCTATCC
*
27270250 TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
27270315 AGCAGATCAAAGATGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAACCATTAGC
66 AGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGC
* * ** *
27270380 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTACCTTCCTGTACTAGCAG
131 CTTATCTCTCTGAGAAAAAGTGGAGTAGGTCGAAGATTGTAAATCTTACCTTCCTGTACTAGCAG
*
27270445 TAAAACAGATCGAAAGCGCCAGCCT
196 TAAAACAGATCGAAAGCACCAGCCT
* * * *
27270470 TATCTCCCTGAACAGCGGTGGAGTAGGTTGAAGATTGCAGATCCTATATCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
* * *
27270535 AGTAGATCGAAGACGGCGAATCTTATTTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGC
66 AGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGC
* ** * *
27270600 CTTATCTCTCTGAGAAAAAGTGGAGTAGGTCGAAGATTTTAAATCTTGTCTTCTTGTACTGGCAG
131 CTTATCTCTCTGAGAAAAAGTGGAGTAGGTCGAAGATTGTAAATCTTACCTTCCTGTACTAGCAG
* *
27270665 TGAAGCAGATCGAAAGCACCAGCCT
196 TAAAACAGATCGAAAGCACCAGCCT
* *
27270690 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTGTCTCCCTAAGCAATAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
** * * *
27270755 AGCAGATCAAAGACGATGAATCTTATCTTCCCAAGGTAGTCGGGAAGCAGATTTAAGCCACAAGT
66 AGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGC
27270820 CTTATCTCTCT
131 CTTATCTCTCT
27270831 AATGTTGTAG
Statistics
Matches: 322, Mismatches: 39, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
220 322 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (220 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGC
CTTATCTCTCTGAGAAAAAGTGGAGTAGGTCGAAGATTGTAAATCTTACCTTCCTGTACTAGCAG
TAAAACAGATCGAAAGCACCAGCCT
Found at i:27273172 original size:27 final size:27
Alignment explanation
Indices: 27273142--27273297 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
27273132 TGCTATTCAC
* *
27273142 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
27273169 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
27273196 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
27273224 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
27273251 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
27273278 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
27273298 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:27273213 original size:55 final size:55
Alignment explanation
Indices: 27273147--27273298 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
27273137 TTCACTCAAC
* *
27273147 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
27273202 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
27273256 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
27273299 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:27281228 original size:27 final size:27
Alignment explanation
Indices: 27281198--27281352 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
27281188 TGCTATTCAC
* *
27281198 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * *
27281225 TCAAATCGCAC-CTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
27281251 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
27281279 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
* *
27281306 TCATTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
27281333 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
27281353 TGTACAATTT
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
26 15 0.14
27 75 0.71
28 16 0.15
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:27281261 original size:54 final size:55
Alignment explanation
Indices: 27281177--27281353 Score: 186
Period size: 54 Copynumber: 3.3 Consensus size: 55
27281167 ATATTGAACC
* * * *
27281177 CGCACACTCAGTGCTAT--TCACTCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTATCAT-ATTCAATTCGCACACTTAGTGCCACATAATCAAAT
* ** *
27281231 CGCAC-CTTAGTGCTA-CATAGTT-AGATTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ATTCGCACACTTAGTGCCACATAATCAAAT
* * *
27281285 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAATCGAAT
1 CGCACACTTAGTGCTATCATATTCAATTCGCACACTTAGTGCCACATAATCAAAT
27281339 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27281354 GTACAATTTA
Statistics
Matches: 100, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
53 11 0.11
54 76 0.76
55 13 0.13
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAATTCGCACACTTAGTGCCACATAATCAAAT
Found at i:27281315 original size:81 final size:81
Alignment explanation
Indices: 27281198--27281352 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
27281188 TGCTATTCAC
* * * *
27281198 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCAC-CTTAGTGCTACATAGTTAGATTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATA-ATAGAATCGCA
27281262 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
27281279 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAATCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAATAGAATCGCA
27281343 CACTTAGTGC
65 CACTTAGTGC
27281353 TGTACAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 2 0.03
81 48 0.76
82 13 0.21
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAATAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27284058 original size:40 final size:40
Alignment explanation
Indices: 27283974--27284157 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
27283964 TTGAATGCTG
* * * *
27283974 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
27284013 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * **
27284054 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACCAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
27284094 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
27284134 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27284158 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 110 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:27284178 original size:39 final size:39
Alignment explanation
Indices: 27284054--27284204 Score: 117
Period size: 40 Copynumber: 3.8 Consensus size: 39
27284044 AGTTATTAAT
* ** * * *
27284054 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATAC-CAAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
27284094 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
27284134 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
27284174 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
27284205 GAGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 29 0.31
40 64 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:27291943 original size:40 final size:40
Alignment explanation
Indices: 27291859--27292042 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
27291849 TTGAATGCTG
* * * *
27291859 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
27291898 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
27291939 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
27291979 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
27292019 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27292043 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:27291996 original size:80 final size:81
Alignment explanation
Indices: 27291859--27292039 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
27291849 TTGAATGCTG
* * *
27291859 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
27291923 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
27291939 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
27292000 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
27292019 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
27292040 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:27292063 original size:39 final size:38
Alignment explanation
Indices: 27291940--27292089 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
27291930 GTTATTAATT
* ** * *
27291940 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
27291980 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
27292019 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
27292059 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
27292090 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:27293676 original size:130 final size:130
Alignment explanation
Indices: 27293443--27293763 Score: 561
Period size: 130 Copynumber: 2.5 Consensus size: 130
27293433 GTGGAGTCTT
* * *
27293443 ATCTCCCTGAAGTTGCAGTGTAGCGAATTAAAATGATGGATCTTATCTATCTGAAGTTCCAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATGATGGATCTTATCTATCTGAAGTTGCAGTAA
27293508 AGCAGATCGCATCAGACTTTATTTTCTTAAAGACGCAGTAAATCAAGTTGAAGCTACCAAGTCCC
66 AGCAGATCGCATCAGACTTTATTTTCTTAAAGACGCAGTAAATCAAGTTGAAGCTACCAAGTCCC
* *
27293573 ATCTCCCTGAAATTGCAGTGGAGCGAATTAAAATGATGGATATTATCTATCTGAAGTTGCAGTAA
1 ATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATGATGGATCTTATCTATCTGAAGTTGCAGTAA
*
27293638 AGCAGATCGCATCAGACTTTATTTTCTTAAAGACGCAGTAGATCAAGTTGAAGCTACCAAGTCCC
66 AGCAGATCGCATCAGACTTTATTTTCTTAAAGACGCAGTAAATCAAGTTGAAGCTACCAAGTCCC
* * *
27293703 ATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATGATGGATCTTATCTATCTCAAGTTGCA
1 ATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATGATGGATCTTATCTATCTGAAGTTGCA
27293764 TTAGGTCGGA
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 180 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (130 bp):
ATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATGATGGATCTTATCTATCTGAAGTTGCAGTAA
AGCAGATCGCATCAGACTTTATTTTCTTAAAGACGCAGTAAATCAAGTTGAAGCTACCAAGTCCC
Found at i:27295382 original size:3 final size:3
Alignment explanation
Indices: 27295350--27295415 Score: 60
Period size: 3 Copynumber: 21.0 Consensus size: 3
27295340 TGCTATTTTT
* * *
27295350 TTA TTAA TTA ATA TTA ATA TTA TTA CTA TTA TTA TCGTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA
* *
27295398 GTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA
27295416 CTGCTATTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
3 44 0.88
4 3 0.06
5 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:27295392 original size:20 final size:20
Alignment explanation
Indices: 27295367--27295404 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27295357 TTAATATTAA
*
27295367 TATTATTACTATTATTATCG
1 TATTATTACTAGTATTATCG
*
27295387 TATTATTATTAGTATTAT
1 TATTATTACTAGTATTAT
27295405 TATTAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TATTATTACTAGTATTATCG
Found at i:27297207 original size:51 final size:51
Alignment explanation
Indices: 27297131--27297329 Score: 196
Period size: 51 Copynumber: 4.0 Consensus size: 51
27297121 GTAATAAGAT
* * * *
27297131 TTGTAGCCTCTATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAAC
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
*
27297182 TTGTAGCTTCAATCTGTTGCACTGCAACTTCAGGGAGATAAGATTTGTAAC
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
* * * * * * *
27297233 TTTTAGCTTCAATATTTTCCACTGAAACTTCA--GTG--AA-ATTAG--AT
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
* * * * *
27297277 TTGTAGCTTTAATTTGTTCTACTGCAACTTCAGGGAGATGAGATTTATAAC
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
27297328 TT
1 TT
27297330 TAATATACTC
Statistics
Matches: 117, Mismatches: 24, Indels: 14
0.75 0.15 0.09
Matches are distributed among these distances:
44 27 0.23
46 6 0.05
47 2 0.02
48 1 0.01
49 5 0.04
51 76 0.65
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (51 bp):
TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
Found at i:27297307 original size:44 final size:43
Alignment explanation
Indices: 27297236--27297353 Score: 110
Period size: 44 Copynumber: 2.7 Consensus size: 43
27297226 TTGTAACTTT
* * * * *
27297236 TAGCTTCAATATTTTCCACTGAAACTTCAGTGAAATTAGATTTG
1 TAGCTTTAAT-TTTTCTACTGAAACTTCAGGGAAATGAGATTTA
* *
27297280 TAGCTTTAATTTGTTCTACTGCAACTTCAGGGAGATGAGATTTA
1 TAGCTTTAATTT-TTCTACTGAAACTTCAGGGAAATGAGATTTA
* ** *
27297324 TAACTTTAATATACTCTACTGTAACTTCAG
1 TAGCTTTAAT-TTTTCTACTGAAACTTCAG
27297354 AGAGATAAGA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
43 2 0.03
44 58 0.95
45 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (43 bp):
TAGCTTTAATTTTTCTACTGAAACTTCAGGGAAATGAGATTTA
Found at i:27297359 original size:44 final size:43
Alignment explanation
Indices: 27297253--27297762 Score: 248
Period size: 44 Copynumber: 11.6 Consensus size: 43
27297243 AATATTTTCC
* * * * * * **
27297253 ACTGAAACTTCAGTGAAATTAGATTTGTAGCTTTAATTTGTTCT
1 ACTGCAACTTCAG-GAGATAAGATTTATAACTTTAATCTACTCT
* *
27297297 ACTGCAACTTCAGGGAGATGAGATTTATAACTTTAATATACTCT
1 ACTGCAACTTCA-GGAGATAAGATTTATAACTTTAATCTACTCT
* * ** *
27297341 ACTGTAACTTCAGAGAGATAAGATTCACTATTTTTAATCTACTCC
1 ACTGCAACTTCAG-GAGATAAGATTTA-TAACTTTAATCTACTCT
* * **
27297386 ACTGCAACTTCAGGAAGATAAGATTTGTAACTTCAATCTACTAG
1 ACTGCAACTTCAGG-AGATAAGATTTATAACTTTAATCTACTCT
* * * * * *
27297430 ATTGCGACTTCAGAGAGATAATA-TTAGTATA-TTCAAACTACTCC
1 ACTGCAACTTCAG-GAGATAAGATTTA-TA-ACTTTAATCTACTCT
* * *
27297474 ACTGCAACTTCAGAGAGATAAGA-TTAGTATA-TTCAAACTACTCC
1 ACTGCAACTTCAG-GAGATAAGATTTA-TA-ACTTTAATCTACTCT
* * ** *
27297518 ACTGCAACTTTAGGGAGATAAGATTTGT-GTTTTCAATCTACTCC
1 ACTGCAACTTCA-GGAGATAAGATTTATAACTTT-AATCTACTCT
* * * *
27297562 ACTACAACTTCAAGGAGATAAGA-TTAGTATA-TTCAATCTATTCC
1 ACTGCAACTTC-AGGAGATAAGATTTA-TA-ACTTTAATCTACTCT
* * * ** *
27297606 ACTGCAACTTTAGGGAGATAGGATTTGT-GTTTTCAATCTACTCC
1 ACTGCAACTTCA-GGAGATAAGATTTATAACTTT-AATCTACTCT
* * * * * *
27297650 ACTACAACTTTAAGGAGATAAGATTAATATA-TTCAATCTATTCC
1 ACTGCAAC-TTCAGGAGATAAGATTTATA-ACTTTAATCTACTCT
* * ** **
27297694 ACTGCAACTTTAGGGAGATAAGATTTGTGGCTTTAATCTGTTCCT
1 ACTGCAACTTCA-GGAGATAAGATTTATAACTTTAATCTACT-CT
27297739 -CTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCA-GGAGATAAGATT
27297763 CACCATAATG
Statistics
Matches: 372, Mismatches: 69, Indels: 50
0.76 0.14 0.10
Matches are distributed among these distances:
43 13 0.03
44 307 0.83
45 52 0.14
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (43 bp):
ACTGCAACTTCAGGAGATAAGATTTATAACTTTAATCTACTCT
Found at i:27297495 original size:88 final size:88
Alignment explanation
Indices: 27297297--27297762 Score: 442
Period size: 88 Copynumber: 5.3 Consensus size: 88
27297287 AATTTGTTCT
* * * * * *
27297297 ACTGCAACTTCAGGGAGATGAGATT--TATAACTTTAATATACTCTACTGTAACTTCAGAGAGAT
1 ACTGCAACTTCAGAGAGATAAGATTAGTAT-A-TTCAATCTACTCCACTGCAACTTCAGAGAGAT
* *
27297360 AAGATTCACTATTTTTAATCTACTCC
64 AAGATT-AGTATTTTCAATCTACTCC
* ** * *
27297386 ACTGCAACTTCAG-GAAGATAAGATTTGTA-ACTTCAATCTACTAGATTGCGACTTCAGAGAGAT
1 ACTGCAACTTCAGAG-AGATAAGATTAGTATA-TTCAATCTACTCCACTGCAACTTCAGAGAGAT
* * *
27297449 AATATTAGTATATTCAAACTACTCC
64 AAGATTAGTATTTTCAATCTACTCC
* * *
27297474 ACTGCAACTTCAGAGAGATAAGATTAGTATATTCAAACTACTCCACTGCAACTTTAGGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGATTAGTATATTCAATCTACTCCACTGCAACTTCAGAGAGATAA
* *
27297539 GATTTGTGTTTTCAATCTACTCC
66 GATTAGTATTTTCAATCTACTCC
* * * *
27297562 ACTACAACTTCA-AGGAGATAAGATTAGTATATTCAATCTATTCCACTGCAACTTTAGGGAGATA
1 ACTGCAACTTCAGA-GAGATAAGATTAGTATATTCAATCTACTCCACTGCAACTTCAGAGAGATA
* * *
27297626 GGATTTGTGTTTTCAATCTACTCC
65 AGATTAGTATTTTCAATCTACTCC
* * * * * *
27297650 ACTACAACTTTA-AGGAGATAAGATTAATATATTCAATCTATTCCACTGCAACTTTAGGGAGATA
1 ACTGCAACTTCAGA-GAGATAAGATTAGTATATTCAATCTACTCCACTGCAACTTCAGAGAGATA
* ** **
27297714 AGATTTGTGGCTTT-AATCTGTTCC
65 AGATTAGT-ATTTTCAATCTACTCC
* *
27297738 TCTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGAGAGATAAGATT
27297763 CACCATAATG
Statistics
Matches: 329, Mismatches: 40, Indels: 17
0.85 0.10 0.04
Matches are distributed among these distances:
87 1 0.00
88 266 0.81
89 60 0.18
91 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (88 bp):
ACTGCAACTTCAGAGAGATAAGATTAGTATATTCAATCTACTCCACTGCAACTTCAGAGAGATAA
GATTAGTATTTTCAATCTACTCC
Found at i:27297555 original size:132 final size:132
Alignment explanation
Indices: 27297335--27297718 Score: 430
Period size: 132 Copynumber: 2.9 Consensus size: 132
27297325 AACTTTAATA
* * * * *
27297335 TACTCTACTGTAACTTCAGAGAGATAAGATTCACTATTTTTAATCTACTCCACTGCAACTTCAGG
1 TACTCCACTGCAACTTCAGAGAGATAAGATT-AGTATTTTCAATCTACTCCACTGCAACTTTAGG
* * * * * *
27297400 AAGATAAGATTTGTAACTTCAATCTACTAGATTGCGACTTC-AGAGAGATAATATTAGTATATTC
65 GAGATAAGATTTGTAACTTCAATCTACTACACTACAACTTCAAG-GAGATAAGATTAGTATATTC
27297464 AAAC
129 AAAC
* *
27297468 TACTCCACTGCAACTTCAGAGAGATAAGATTAGTATATTCAAACTACTCCACTGCAACTTTAGGG
1 TACTCCACTGCAACTTCAGAGAGATAAGATTAGTATTTTCAATCTACTCCACTGCAACTTTAGGG
*** *
27297533 AGATAAGATTTGTGTTTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTAGTATATTCAA
66 AGATAAGATTTGTAACTTCAATCTACTACACTACAACTTCAAGGAGATAAGATTAGTATATTCAA
*
27297598 TC
131 AC
* * * * * * * *
27297600 TATTCCACTGCAACTTTAGGGAGATAGGATTTGTGTTTTCAATCTACTCCACTACAACTTTAAGG
1 TACTCCACTGCAACTTCAGAGAGATAAGATTAGTATTTTCAATCTACTCCACTGCAACTTTAGGG
** * * * * *
27297665 AGATAAGATTAATATA-TTCAATCTATTCCACTGCAACTTTAGGGAGATAAGATT
66 AGATAAGATTTGTA-ACTTCAATCTACTACACTACAACTTCAAGGAGATAAGATT
27297719 TGTGGCTTTA
Statistics
Matches: 213, Mismatches: 36, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
132 182 0.85
133 31 0.15
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (132 bp):
TACTCCACTGCAACTTCAGAGAGATAAGATTAGTATTTTCAATCTACTCCACTGCAACTTTAGGG
AGATAAGATTTGTAACTTCAATCTACTACACTACAACTTCAAGGAGATAAGATTAGTATATTCAA
AC
Found at i:27297732 original size:132 final size:132
Alignment explanation
Indices: 27297341--27297762 Score: 400
Period size: 132 Copynumber: 3.2 Consensus size: 132
27297331 AATATACTCT
* * * * * * * *
27297341 ACTGTAACTTCAGAGAGATAAGATTCACTATTTTTAATCTACTCCACTGCAAC-TTCAGGAAGAT
1 ACTGCAACTTCAGGGAGATAAGATT-AGTATATTCAAACTACTCCACTACAACTTTAAGG-AGAT
** ** * * * * * *
27297405 AAGATTTGTA-ACTTCAATCTACTAGATTGCGACTTC-AGAGAGATAATATTAGTATATTCAAAC
64 AAGATTAATATA-TTCAATCTACTCCACTACAACTTCAAG-GAGATAAGATTAGTAGATTCAATC
*
27297468 TACTCC
127 TATTCC
* * *
27297474 ACTGCAACTTCAGAGAGATAAGATTAGTATATTCAAACTACTCCACTGCAACTTTAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTAGTATATTCAAACTACTCCACTACAACTTTAAGGAGATAA
** * * *
27297539 GATTTGTGTTTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTAGTATATTCAATCTATT
66 GATTAATATATTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTAGTAGATTCAATCTATT
27297604 CC
131 CC
* * * * * *
27297606 ACTGCAACTTTAGGGAGATAGGATTTGTGTTTTCAATCTACTCCACTACAACTTTAAGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTAGTATATTCAAACTACTCCACTACAACTTTAAGGAGATAA
* * * * * * * * *
27297671 GATTAATATATTCAATCTATTCCACTGCAACTTTAGGGAGATAAGATTTGTGGCTTTAATCTGTT
66 GATTAATATATTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTAGTAGATTCAATCTATT
27297736 CC
131 CC
*
27297738 TCTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
27297763 CACCATAATG
Statistics
Matches: 243, Mismatches: 43, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
132 213 0.88
133 30 0.12
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (132 bp):
ACTGCAACTTCAGGGAGATAAGATTAGTATATTCAAACTACTCCACTACAACTTTAAGGAGATAA
GATTAATATATTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTAGTAGATTCAATCTATT
CC
Found at i:27298891 original size:3 final size:3
Alignment explanation
Indices: 27298883--27298917 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
27298873 CCTATCCTTT
27298883 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
27298918 TTACATGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:27304502 original size:15 final size:17
Alignment explanation
Indices: 27304472--27304509 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
27304462 ACTAATATGC
27304472 ATAATAGAACAATGATA
1 ATAATAGAACAATGATA
27304489 ATAAT-GAA-AATGATA
1 ATAATAGAACAATGATA
27304504 ATAATA
1 ATAATA
27304510 ATAATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 12 0.60
16 3 0.15
17 5 0.25
ACGTcount: A:0.61, C:0.03, G:0.11, T:0.26
Consensus pattern (17 bp):
ATAATAGAACAATGATA
Found at i:27304627 original size:20 final size:20
Alignment explanation
Indices: 27304598--27304651 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
27304588 ATGGAGTAAT
27304598 AATAACAATAATAA-AATATAA
1 AATAA-AATAA-AACAATATAA
*
27304619 AATAAAATAAAACTATATAA
1 AATAAAATAAAACAATATAA
*
27304639 ATATAAAAGAAAA
1 A-ATAAAATAAAA
27304652 TAAAAATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 12 0.41
21 15 0.52
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (20 bp):
AATAAAATAAAACAATATAA
Found at i:27304664 original size:26 final size:25
Alignment explanation
Indices: 27304598--27304665 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
27304588 ATGGAGTAAT
* *
27304598 AATAACAATAATAAAATATAAAATAA
1 AATAAAAATAAT-AAATATAAAAGAA
*
27304624 AATAAAACTATATAAATATAAAAGAA
1 AATAAAAATA-ATAAATATAAAAGAA
27304650 AATAAAAATGAATAAA
1 AATAAAAAT-AATAAA
27304666 AAGAATGCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 33 0.92
27 3 0.08
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (25 bp):
AATAAAAATAATAAATATAAAAGAA
Found at i:27304820 original size:17 final size:18
Alignment explanation
Indices: 27304793--27304827 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27304783 GAAAATAAAT
27304793 AAATAAATAAATCAAACA
1 AAATAAATAAATCAAACA
*
27304811 AAAT-AATAAATGAAACA
1 AAATAAATAAATCAAACA
27304828 GTTTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATAAATAAATCAAACA
Found at i:27308219 original size:14 final size:14
Alignment explanation
Indices: 27308196--27308227 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
27308186 CAGCATTTAT
27308196 TTATGATTAATTAA
1 TTATGATTAATTAA
*
27308210 TTATGTTTAATTAA
1 TTATGATTAATTAA
27308224 TTAT
1 TTAT
27308228 CTCATTTACT
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:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
TTATGATTAATTAA
Found at i:27311300 original size:14 final size:14
Alignment explanation
Indices: 27311283--27311328 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
27311273 TAAAAAAATG
*
27311283 TTATTAAATTATTA
1 TTATTAAATTAGTA
27311297 TTATTAAATTAGTA
1 TTATTAAATTAGTA
27311311 TTATTAAATTAGTA
1 TTATTAAATTAGTA
27311325 TTAT
1 TTAT
27311329 ATTATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (14 bp):
TTATTAAATTAGTA
Found at i:27311465 original size:3 final size:3
Alignment explanation
Indices: 27311459--27311493 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
27311449 TATTAAAATA
*
27311459 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
27311494 ACTAGGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:27311843 original size:16 final size:16
Alignment explanation
Indices: 27311819--27311857 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
27311809 TTGATAAAAG
*
27311819 GATTAAATATGAGGGT
1 GATTGAATATGAGGGT
27311835 GATTGAATATGAGGGT
1 GATTGAATATGAGGGT
27311851 GATTGAA
1 GATTGAA
27311858 ATTGTTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (16 bp):
GATTGAATATGAGGGT
Found at i:27315200 original size:19 final size:20
Alignment explanation
Indices: 27315172--27315210 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
27315162 ATATCTAAAT
27315172 TACCACACACACATA-TATA
1 TACCACACACACATACTATA
*
27315191 TACCATACACACATACTATA
1 TACCACACACACATACTATA
27315211 AAACTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (20 bp):
TACCACACACACATACTATA
Found at i:27319950 original size:18 final size:17
Alignment explanation
Indices: 27319917--27319955 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
27319907 TTTTATAAAT
27319917 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
27319935 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
27319952 TGTG
1 TGTG
27319956 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:27320194 original size:23 final size:23
Alignment explanation
Indices: 27320167--27320219 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
27320157 AGTGTTATTG
27320167 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
27320190 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
27320213 ATCAGTG
1 ATCAGTG
27320220 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:27324854 original size:4 final size:4
Alignment explanation
Indices: 27324845--27324869 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27324835 GATTTGAAAA
27324845 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
27324870 GCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:27332473 original size:20 final size:22
Alignment explanation
Indices: 27332426--27332474 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
27332416 AGATATATAT
*
27332426 ATATATATAGATATGTAAACAA
1 ATATATATAAATATGTAAACAA
*
27332448 AT-TATA-AAATATGTATA-AA
1 ATATATATAAATATGTAAACAA
27332467 ATATATAT
1 ATATATAT
27332475 GAGTACGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 4 0.17
20 13 0.57
21 4 0.17
22 2 0.09
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (22 bp):
ATATATATAAATATGTAAACAA
Found at i:27332526 original size:38 final size:36
Alignment explanation
Indices: 27332482--27332613 Score: 160
Period size: 38 Copynumber: 3.5 Consensus size: 36
27332472 TATGAGTACG
27332482 TATATGTACATATATA-AGTTATAAAAAATATGTATGTA
1 TATATGT--ATATATAGA-TTATAAAAAATATGTATGTA
* *
27332520 TCTATGTATATATAGATTAT-AAAAATGCACGTATGTA
1 TATATGTATATATAGATTATAAAAAAT--ATGTATGTA
27332557 TATATGTATATATAGATTATAAAAAATATACGTATGTA
1 TATATGTATATATAGATTATAAAAAATAT--GTATGTA
*
27332595 TATATGTATATATAAATTA
1 TATATGTATATATAGATTA
27332614 CAATGTATAA
Statistics
Matches: 83, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
35 6 0.07
36 12 0.14
37 28 0.34
38 37 0.45
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (36 bp):
TATATGTATATATAGATTATAAAAAATATGTATGTA
Found at i:27335685 original size:18 final size:19
Alignment explanation
Indices: 27335650--27335686 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
27335640 TTGAGGTGAA
*
27335650 GAAATTGCCTTGATGCTCT
1 GAAAATGCCTTGATGCTCT
27335669 GAAAATGCCTT-ATGCTCT
1 GAAAATGCCTTGATGCTCT
27335687 AATGAGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (19 bp):
GAAAATGCCTTGATGCTCT
Found at i:27343128 original size:25 final size:25
Alignment explanation
Indices: 27343083--27343131 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27343073 CTTGAATATT
*
27343083 TTCAATTACCTGTTCCTTGTTAAAG
1 TTCAATTAACTGTTCCTTGTTAAAG
*
27343108 TTCAATTAATTGTGTCC-TGTTAAA
1 TTCAATTAACTGT-TCCTTGTTAAA
27343132 AATTGTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (25 bp):
TTCAATTAACTGTTCCTTGTTAAAG
Found at i:27354593 original size:25 final size:25
Alignment explanation
Indices: 27354547--27354594 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
27354537 TGAATTTTTT
**
27354547 ATATTAATTTTTTTGTTTAAATAAA
1 ATATTAATTTTTTTGTAAAAATAAA
27354572 ATATTAATTTTTTAT-TAAAAATA
1 ATATTAATTTTTT-TGTAAAAATA
27354595 TTTAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATATTAATTTTTTTGTAAAAATAAA
Found at i:27354637 original size:19 final size:19
Alignment explanation
Indices: 27354613--27354649 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
27354603 TAAATATAAG
27354613 TAAAAATAC-GGTCAACGGA
1 TAAAAA-ACGGGTCAACGGA
27354632 TAAAAAACGGGTCAACGG
1 TAAAAAACGGGTCAACGG
27354650 GTTGCGCCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (19 bp):
TAAAAAACGGGTCAACGGA
Found at i:27354744 original size:20 final size:20
Alignment explanation
Indices: 27354719--27354768 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
27354709 GCTGCTGCCT
*
27354719 TTGTCCCTTCCACCATGG-TG
1 TTGTCCCTTCCACCA-GGCTA
*
27354739 TTGTCCATTCCACCAGGCTA
1 TTGTCCCTTCCACCAGGCTA
27354759 TTGTCCCTTC
1 TTGTCCCTTC
27354769 AATGGGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.12, C:0.36, G:0.16, T:0.36
Consensus pattern (20 bp):
TTGTCCCTTCCACCAGGCTA
Found at i:27355595 original size:15 final size:15
Alignment explanation
Indices: 27355575--27355613 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
27355565 AACTCATTTA
*
27355575 AATTTTATATAATGT
1 AATTTTATATAATAT
27355590 AATTTTTATATAATAT
1 AA-TTTTATATAATAT
27355606 AATTTTAT
1 AATTTTAT
27355614 TTGATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
AATTTTATATAATAT
Found at i:27355598 original size:16 final size:16
Alignment explanation
Indices: 27355577--27355611 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
27355567 CTCATTTAAA
*
27355577 TTTTATATAATGTAAT
1 TTTTATATAATATAAT
27355593 TTTTATATAATATAAT
1 TTTTATATAATATAAT
27355609 TTT
1 TTT
27355612 ATTTGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTTATATAATATAAT
Found at i:27362376 original size:32 final size:34
Alignment explanation
Indices: 27362335--27362397 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
27362325 TTATTTTTTA
27362335 TCGAAAACT-AA-TTTTTGCTTTTT-AAAAAAGGG
1 TCGAAAACTAAATTTTTTG-TTTTTCAAAAAAGGG
*
27362367 TCGACAACTAAATTTTTTGTTTTTCAAAAAA
1 TCGAAAACTAAATTTTTTGTTTTTCAAAAAA
27362398 ATGGTTTCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 8 0.30
33 7 0.26
34 12 0.44
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (34 bp):
TCGAAAACTAAATTTTTTGTTTTTCAAAAAAGGG
Found at i:27366340 original size:6 final size:6
Alignment explanation
Indices: 27366329--27366366 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
27366319 AAATAATAAC
*
27366329 AAAGAA AAAGAA AAA-AA AAACAA CAAAGAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA -AAAGAA AAAGAA AA
27366367 GAAGAGGCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 5 0.17
6 19 0.66
7 5 0.17
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:27367898 original size:123 final size:122
Alignment explanation
Indices: 27367728--27368035 Score: 418
Period size: 132 Copynumber: 2.4 Consensus size: 122
27367718 TTGACAACGA
* *
27367728 AGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTATAGGGGAGTACATTAATTCTACTTCC
1 AGCAGATCGAAGATGGCG-ATTTTACCTCACTGTGGTTATAGTGGAGTACATTAATTCTACTTCC
*
27367793 CTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
65 CTGGACAACAGAGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
* * *
27367851 AGCAGATCGAGGATGGCAGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGC-GATTTTACCTCACTGTGGTTATAGTGGAGTACA-T--------TAAT
* *
27367916 TCTACTTCCCTGGGCAACAGAGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGT
56 TCTACTTCCCTGGACAACAGAGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
27367981 GG
121 GG
* *
27367983 AGTAGATCGAAGATGGTGGATTTTACCTCACTGTGGTTATAGTGGAGTACATT
1 AGCAGATCGAAGATGG-CGATTTTACCTCACTGTGGTTATAGTGGAGTACATT
27368036 GAAGCTAGTA
Statistics
Matches: 162, Mismatches: 12, Indels: 22
0.83 0.06 0.11
Matches are distributed among these distances:
123 46 0.28
124 2 0.01
131 1 0.01
132 113 0.70
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (122 bp):
AGCAGATCGAAGATGGCGATTTTACCTCACTGTGGTTATAGTGGAGTACATTAATTCTACTTCCC
TGGACAACAGAGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
Found at i:27368017 original size:132 final size:132
Alignment explanation
Indices: 27367780--27368127 Score: 466
Period size: 132 Copynumber: 2.6 Consensus size: 132
27367770 GGGAGTACAT
*
27367780 TAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
1 TAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAG
* * *
27367845 TAGTGGAGCAGATCGAGGATGGCAGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCACTGTGGTTACAGTGGAGTACATTGAAGCC
27367910 AA
131 AA
* *
27367912 TAATTCTACTTCCCTGGGCAACAGAGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAG
1 TAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAG
** * *
27367977 TAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCACTGTGGTTATAGTGGAGTACATTGAAGCT
66 TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCACTGTGGTTACAGTGGAGTACATTGAAGCC
*
27368042 AG
131 AA
** * * * * *
27368044 TAAACCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCTGCAG
1 TAATTCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT-AAG
* * *
27368107 TTGCAGTGGAGTGGATCGAAG
63 TAGTAGTGGAGTAGATCGAAG
27368128 CACTAGTTCC
Statistics
Matches: 191, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
131 1 0.01
132 167 0.87
133 23 0.12
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (132 bp):
TAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAG
TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCACTGTGGTTACAGTGGAGTACATTGAAGCC
AA
Found at i:27369725 original size:37 final size:38
Alignment explanation
Indices: 27369639--27369731 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 38
27369629 TTTTTTCATA
*
27369639 TTTATATATATACATATATTTTTTTAATGTAGATATTAT
1 TTTATAT-TATATATATATTTTTTTAATGTAGATATTAT
* * * *
27369678 TTTACA-TATATACATATTTTTTTAATG-A-ATGTTCT
1 TTTATATTATATATATATTTTTTTAATGTAGATATTAT
27369713 TTTATATTTATATATATAT
1 TTTATA-TTATATATATAT
27369732 ACGTATGTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
35 10 0.22
36 1 0.02
37 29 0.64
39 5 0.11
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (38 bp):
TTTATATTATATATATATTTTTTTAATGTAGATATTAT
Found at i:27371345 original size:58 final size:55
Alignment explanation
Indices: 27371258--27371381 Score: 167
Period size: 58 Copynumber: 2.2 Consensus size: 55
27371248 ATAATATTTT
* * **
27371258 ATTAAAAGAAAAAAATTAATATAAAAAATTTATTGGCGCCTGTCAAATAGGCGTG
1 ATTAAAAAAAAAAAATTAATATAAAAAATTCATTGGCGCCTGTCAAATAGGCGCC
* *
27371313 ATTAAAAAAAAGAAAATTTTAATATAAAAAATTCATTGGCGCCTGTCAGATATGCGCC
1 ATTAAAAAAAA-AAAA--TTAATATAAAAAATTCATTGGCGCCTGTCAAATAGGCGCC
27371371 ATTAAAAAAAA
1 ATTAAAAAAAA
27371382 CATACCATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
55 10 0.17
56 4 0.07
58 46 0.77
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (55 bp):
ATTAAAAAAAAAAAATTAATATAAAAAATTCATTGGCGCCTGTCAAATAGGCGCC
Found at i:27372505 original size:16 final size:18
Alignment explanation
Indices: 27372466--27372499 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27372456 TAAATTTATA
27372466 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
27372483 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
27372500 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:27372613 original size:26 final size:27
Alignment explanation
Indices: 27372584--27372643 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
27372574 TAAGATGACT
*
27372584 ATATAAAAATT-TTCAATAAATAAAA-A
1 ATATAAAAATTATTAAAT-AATAAAATA
*
27372610 ATATATAAAATTATTAAATATTAAAATA
1 ATATA-AAAATTATTAAATAATAAAATA
27372638 ATATAA
1 ATATAA
27372644 TATAGATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 5 0.17
27 13 0.45
28 11 0.38
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
ATATAAAAATTATTAAATAATAAAATA
Found at i:27372629 original size:28 final size:28
Alignment explanation
Indices: 27372583--27372642 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
27372573 TTAAGATGAC
*
27372583 TATATAAAAATTTTCAATAAATAAAA-AA
1 TATATAAAAATTTTAAAT-AATAAAATAA
*
27372611 TATAT-AAAATTATTAAATATTAAAATAA
1 TATATAAAAATT-TTAAATAATAAAATAA
27372639 TATA
1 TATA
27372643 ATATAGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
TATATAAAAATTTTAAATAATAAAATAA
Found at i:27375070 original size:10 final size:10
Alignment explanation
Indices: 27375055--27375084 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
27375045 TGACAATAGG
27375055 TTTAAAAATT
1 TTTAAAAATT
*
27375065 TTTAAAAATA
1 TTTAAAAATT
27375075 TTTAAAAATT
1 TTTAAAAATT
27375085 AAATATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTAAAAATT
Found at i:27378545 original size:33 final size:32
Alignment explanation
Indices: 27378473--27378549 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
27378463 TAAATACATG
* * **
27378473 TGTAAGACCATAGTTGGGCTATGACATTCTGA
1 TGTAAGACCATAATTGGGCTATGACATACAAA
* *
27378505 TGATAAGACCATAATTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAATTGGGCTATGACA-TACAAA
27378539 TGTAAGACCAT
1 TGTAAGACCAT
27378550 GGCAATGCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (32 bp):
TGTAAGACCATAATTGGGCTATGACATACAAA
Found at i:27385871 original size:105 final size:105
Alignment explanation
Indices: 27385676--27385872 Score: 243
Period size: 105 Copynumber: 1.9 Consensus size: 105
27385666 AATGTTTAAA
* * * * *
27385676 TGTAAGACTATAGCTGGGCTATGACATTTTAATGAAAATACTATAACTGGGTTATGACACCTTAA
1 TGTAAGACCATAGCTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGACACCTCAA
* *
27385741 ACGTAAAACCATGGTTGGACGATGGCAGTATAAATACATG
66 ACGTAAAACCATGGTAGGACCATGGCAGTATAAATACATG
* * ** *
27385781 TGTAAGACCATAGGTGGGCTATGACATTCTGATGGTAAGACCATAACTGGGTTATGGCA-CTACA
1 TGTAAGACCATAGCTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGACACCT-CA
* * *
27385845 AATGTAAGACCATGGTAGGGCCATGGCA
65 AACGTAAAACCATGGTAGGACCATGGCA
27385873 ATGCATGTGT
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
104 2 0.03
105 74 0.97
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGACACCTCAA
ACGTAAAACCATGGTAGGACCATGGCAGTATAAATACATG
Found at i:27392227 original size:20 final size:21
Alignment explanation
Indices: 27392194--27392232 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
27392184 ATTTTACATG
*
27392194 AAAATGATTAAAAATTTATCA
1 AAAATGATTAAAAAGTTATCA
*
27392215 AAAAT-ATTTAAAAGTTAT
1 AAAATGATTAAAAAGTTAT
27392233 AGTTATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAATGATTAAAAAGTTATCA
Found at i:27409251 original size:17 final size:17
Alignment explanation
Indices: 27409229--27409263 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
27409219 GCAATCAACA
27409229 CATTATCAGAAATTAAT
1 CATTATCAGAAATTAAT
27409246 CATTATCAGAAATTAAT
1 CATTATCAGAAATTAAT
27409263 C
1 C
27409264 TTCCCGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (17 bp):
CATTATCAGAAATTAAT
Found at i:27414414 original size:50 final size:50
Alignment explanation
Indices: 27414360--27414488 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 50
27414350 TAAAGCCTAT
*
27414360 GGGCTTAGCACTTGGTGCCTAGGTATGTTTTTAGAGGGATGTTAG-CTTAC
1 GGGCTTAGCACTTGGTGCCTAGGCATGTTTTTAGAGGGATGTTAGTC-TAC
* *
27414410 GGGCTTGGCACTTGGTGCCTAGGCGTGTTTTTAGAGGGATGTTAGTCTAC
1 GGGCTTAGCACTTGGTGCCTAGGCATGTTTTTAGAGGGATGTTAGTCTAC
* * * *
27414460 AGGCTAAGCACTTGGTGCCCAAGCATGTT
1 GGGCTTAGCACTTGGTGCCTAGGCATGTT
27414489 CTTGGTTAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 68 0.99
51 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.33
Consensus pattern (50 bp):
GGGCTTAGCACTTGGTGCCTAGGCATGTTTTTAGAGGGATGTTAGTCTAC
Found at i:27419598 original size:89 final size:88
Alignment explanation
Indices: 27419493--27419661 Score: 216
Period size: 89 Copynumber: 1.9 Consensus size: 88
27419483 AAAAACTGTC
* * *
27419493 TTTTTTTTTCACTCAATTGAATATTTGAA-TTTTCAAAATACATACAAAAAG-TCCTTAGACTTC
1 TTTTTTTTTCACTCAATTGAATACTTGAACTTTT-AAAATACATA-AAAAAGATCCTCA-AATTC
27419556 TTAAAAAAAACAATTAAGTTACTGCT
63 TTAAAAAAAACAATTAAGTTACTGCT
* * * * * *
27419582 TTTTTTTTTCATTCAATTGGATACTTGAACTTTTAAAATGCATAAAATAGATCCTCAAATTTTTC
1 TTTTTTTTTCACTCAATTGAATACTTGAACTTTTAAAATACATAAAAAAGATCCTCAAATTCTTA
27419647 AAAAAAACAATTAAG
66 AAAAAAACAATTAAG
27419662 CCCCTGCTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
88 25 0.36
89 40 0.58
90 4 0.06
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (88 bp):
TTTTTTTTTCACTCAATTGAATACTTGAACTTTTAAAATACATAAAAAAGATCCTCAAATTCTTA
AAAAAAACAATTAAGTTACTGCT
Found at i:27420057 original size:23 final size:22
Alignment explanation
Indices: 27420020--27420074 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
27420010 GCTTTATAAA
27420020 ATTTTTATATTTCTATGTATTTT-AT
1 ATTTTT-T-TTTCTA-GT-TTTTAAT
27420045 ATTTTTTTTTCTAGTTTTTAAT
1 ATTTTTTTTTCTAGTTTTTAAT
*
27420067 AATTTTTT
1 ATTTTTTT
27420075 AATATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.14
22 11 0.39
23 6 0.21
24 1 0.04
25 6 0.21
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (22 bp):
ATTTTTTTTTCTAGTTTTTAAT
Found at i:27420530 original size:11 final size:11
Alignment explanation
Indices: 27420516--27420545 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
27420506 GTTTTTTTTT
27420516 TATTTTTAAAA
1 TATTTTTAAAA
27420527 TATTTTTAAAA
1 TATTTTTAAAA
27420538 TACTTTTT
1 TA-TTTTT
27420546 TATATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:27420581 original size:26 final size:27
Alignment explanation
Indices: 27420527--27420583 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
27420517 ATTTTTAAAA
** *
27420527 TATTTTTAAAATACTTTTTTATATTTT
1 TATTTTTAAAATAAATTTTTATATGTT
*
27420554 TATTTTTAAAATAAATTTTTA-GTGTT
1 TATTTTTAAAATAAATTTTTATATGTT
27420580 TATT
1 TATT
27420584 AAAAAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (27 bp):
TATTTTTAAAATAAATTTTTATATGTT
Found at i:27431204 original size:320 final size:320
Alignment explanation
Indices: 27430622--27431253 Score: 1255
Period size: 320 Copynumber: 2.0 Consensus size: 320
27430612 CTGCAGTATG
*
27430622 ATATTGTTGTTGTAAGGTTATATTGTTGCTCTGGCTCATTATATTATCACCTTTATAAAACTAGA
1 ATATTGTTGTTGTAAGGTTATATTGTTGCTCTGGCTCATTATATTATCACATTTATAAAACTAGA
27430687 GCATTTGTTTTTCGCAATAAATTAACTAATTTTGCTTCTCATGTTCCCAGTGGCTAATATTCTCT
66 GCATTTGTTTTTCGCAATAAATTAACTAATTTTGCTTCTCATGTTCCCAGTGGCTAATATTCTCT
27430752 TGTGGAAGCAGTGAAGTGTTTCTTTTGGCATTATCATCATTGCTACTATTGATTGGCTCATATTT
131 TGTGGAAGCAGTGAAGTGTTTCTTTTGGCATTATCATCATTGCTACTATTGATTGGCTCATATTT
27430817 GAGAAATCTGGATTACTATTGTTACCTATTTGTTCAGATGTTTTGCTGGTATTAATTGTGCTATT
196 GAGAAATCTGGATTACTATTGTTACCTATTTGTTCAGATGTTTTGCTGGTATTAATTGTGCTATT
27430882 GTTCATTTATGCCAACTATGCTGCTTATGGAAATAGGTATGACTAATATTGCTTCTCATT
261 GTTCATTTATGCCAACTATGCTGCTTATGGAAATAGGTATGACTAATATTGCTTCTCATT
27430942 ATATTGTTGTTGTAAGGTTATATTGTTGCTCTGGCTCATTATATTATCACATTTATAAAACTAGA
1 ATATTGTTGTTGTAAGGTTATATTGTTGCTCTGGCTCATTATATTATCACATTTATAAAACTAGA
27431007 GCATTTGTTTTTCGCAATAAATTAACTAATTTTGCTTCTCATGTTCCCAGTGGCTAATATTCTCT
66 GCATTTGTTTTTCGCAATAAATTAACTAATTTTGCTTCTCATGTTCCCAGTGGCTAATATTCTCT
27431072 TGTGGAAGCAGTGAAGTGTTTCTTTTGGCATTATCATCATTGCTACTATTGATTGGCTCATATTT
131 TGTGGAAGCAGTGAAGTGTTTCTTTTGGCATTATCATCATTGCTACTATTGATTGGCTCATATTT
27431137 GAGAAATCTGGATTACTATTGTTACCTATTTGTTCAGATGTTTTGCTGGTATTAATTGTGCTATT
196 GAGAAATCTGGATTACTATTGTTACCTATTTGTTCAGATGTTTTGCTGGTATTAATTGTGCTATT
27431202 GTTCATTTATGCCAACTATGCTGCTTATGGAAATAGGTATGACTAATATTGC
261 GTTCATTTATGCCAACTATGCTGCTTATGGAAATAGGTATGACTAATATTGC
27431254 CTCTTTATGT
Statistics
Matches: 311, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
320 311 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (320 bp):
ATATTGTTGTTGTAAGGTTATATTGTTGCTCTGGCTCATTATATTATCACATTTATAAAACTAGA
GCATTTGTTTTTCGCAATAAATTAACTAATTTTGCTTCTCATGTTCCCAGTGGCTAATATTCTCT
TGTGGAAGCAGTGAAGTGTTTCTTTTGGCATTATCATCATTGCTACTATTGATTGGCTCATATTT
GAGAAATCTGGATTACTATTGTTACCTATTTGTTCAGATGTTTTGCTGGTATTAATTGTGCTATT
GTTCATTTATGCCAACTATGCTGCTTATGGAAATAGGTATGACTAATATTGCTTCTCATT
Found at i:27431940 original size:8 final size:9
Alignment explanation
Indices: 27431921--27431964 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 9
27431911 CGTACAAATT
27431921 AGAAAGAA-
1 AGAAAGAAG
27431929 AGAAA-AAG
1 AGAAAGAAG
27431937 AGAAAGAA-
1 AGAAAGAAG
*
27431945 AGAAAG-GG
1 AGAAAGAAG
27431953 AGAAAGAAG
1 AGAAAGAAG
27431962 AGA
1 AGA
27431965 CGCACGACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
7 2 0.07
8 22 0.73
9 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (9 bp):
AGAAAGAAG
Found at i:27431942 original size:16 final size:16
Alignment explanation
Indices: 27431921--27431960 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
27431911 CGTACAAATT
27431921 AGAAAGAAAGAAAAAG
1 AGAAAGAAAGAAAAAG
**
27431937 AGAAAGAAAGAAAGGG
1 AGAAAGAAAGAAAAAG
27431953 AGAAAGAA
1 AGAAAGAA
27431961 GAGACGCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAGAAAAAG
Found at i:27448312 original size:27 final size:24
Alignment explanation
Indices: 27448274--27448406 Score: 96
Period size: 27 Copynumber: 5.4 Consensus size: 24
27448264 GAGATGAAAG
27448274 CTTGATTGAAAACTTAATGATTAAAAA
1 CTTGA-TGAAAACTTAATGA--AAAAA
* *
27448301 CTTGATGGAAAACTTTATGAAAAGA
1 CTTGAT-GAAAACTTAATGAAAAAA
*
27448326 CTTGATGAAAAGCTTAA--AAAGAA
1 CTTGATGAAAA-CTTAATGAAAAAA
*
27448349 CTTGATGCAAACTT-A--AAAAAA
1 CTTGATGAAAACTTAATGAAAAAA
* *
27448370 CTTGATAAAAGAACTTGATGAAAAACA
1 CTTGAT-GAA-AACTTAATGAAAAA-A
*
27448397 CTTGAAGAAA
1 CTTGATGAAA
27448407 GAAAACACTT
Statistics
Matches: 87, Mismatches: 11, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
21 12 0.14
22 4 0.05
23 19 0.22
24 6 0.07
25 15 0.17
26 8 0.09
27 23 0.26
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.26
Consensus pattern (24 bp):
CTTGATGAAAACTTAATGAAAAAA
Found at i:27448363 original size:22 final size:23
Alignment explanation
Indices: 27448320--27448380 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
27448310 AAACTTTATG
27448320 AAAAG-ACTTGATGAAAAGCTTA
1 AAAAGAACTTGATGAAAAGCTTA
*
27448342 AAAAGAACTTGATGCAAA-CTTA
1 AAAAGAACTTGATGAAAAGCTTA
27448364 AAAA-AACTTGAT-AAAAG
1 AAAAGAACTTGATGAAAAG
27448381 AACTTGATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 3 0.09
21 8 0.23
22 13 0.37
23 11 0.31
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (23 bp):
AAAAGAACTTGATGAAAAGCTTA
Found at i:27448399 original size:14 final size:13
Alignment explanation
Indices: 27448282--27448406 Score: 65
Period size: 12 Copynumber: 10.1 Consensus size: 13
27448272 AGCTTGATTG
*
27448282 AAAACTTAATGATTA
1 AAAACTTGATGA--A
*
27448297 AAAACTTGATG-G
1 AAAACTTGATGAA
*
27448309 AAAACTTTATGAA
1 AAAACTTGATGAA
*
27448322 AAGACTTGATG-A
1 AAAACTTGATGAA
*
27448334 AAAGCTT-A--AA
1 AAAACTTGATGAA
27448344 AAGAACTTGATG--
1 AA-AACTTGATGAA
*
27448356 CAAACTT-A--AA
1 AAAACTTGATGAA
27448366 AAAACTTGAT-AA
1 AAAACTTGATGAA
27448378 AAGAACTTGATGAA
1 AA-AACTTGATGAA
*
27448392 AAACACTTGAAGAA
1 AAA-ACTTGATGAA
27448406 A
1 A
27448407 GAAAACACTT
Statistics
Matches: 85, Mismatches: 12, Indels: 27
0.69 0.10 0.22
Matches are distributed among these distances:
10 10 0.12
11 11 0.13
12 22 0.26
13 18 0.21
14 14 0.16
15 10 0.12
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (13 bp):
AAAACTTGATGAA
Found at i:27448859 original size:21 final size:20
Alignment explanation
Indices: 27448804--27448859 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
27448794 AAGAATTCAC
*
27448804 ATCAATCTTTAATTAGTTTA
1 ATCAATCATTAATTAGTTTA
*
27448824 ATCAAGTTATT-ATTA-TACTTA
1 ATCAA-TCATTAATTAGT--TTA
27448845 ATCAATCATTAATTA
1 ATCAATCATTAATTA
27448860 AACAAAAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 1 0.03
20 13 0.45
21 15 0.52
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (20 bp):
ATCAATCATTAATTAGTTTA
Found at i:27455203 original size:17 final size:17
Alignment explanation
Indices: 27455183--27455241 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
27455173 TCAATATGGC
*
27455183 TAAACAATTTAATAATA
1 TAAATAATTTAATAATA
*
27455200 TAAATAATTTAA-AATG
1 TAAATAATTTAATAATA
27455216 TGAAATTTAATTTAATAATA
1 T-AAA--TAATTTAATAATA
27455236 TAAATA
1 TAAATA
27455242 GTAGATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.11
17 16 0.46
19 11 0.31
20 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (17 bp):
TAAATAATTTAATAATA
Found at i:27456058 original size:9 final size:9
Alignment explanation
Indices: 27456044--27456098 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
27456034 TATAGTTTGA
27456044 TATTCGAAT
1 TATTCGAAT
27456053 TATTCGAAT
1 TATTCGAAT
*
27456062 TATTCGAGT
1 TATTCGAAT
27456071 TATTCGAAT
1 TATTCGAAT
*
27456080 TATTCGAGT
1 TATTCGAAT
27456089 TATTCGAAT
1 TATTCGAAT
27456098 T
1 T
27456099 CGAAAACTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27456808 original size:15 final size:16
Alignment explanation
Indices: 27456788--27456817 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27456778 TAGTGTATTA
27456788 TATTTTTAAA-AAAAT
1 TATTTTTAAATAAAAT
27456803 TATTTTTAAATAAAA
1 TATTTTTAAATAAAA
27456818 ACTAATCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTTTAAATAAAAT
Found at i:27460503 original size:26 final size:23
Alignment explanation
Indices: 27460454--27460503 Score: 55
Period size: 23 Copynumber: 2.0 Consensus size: 23
27460444 CTCCAAAAAA
* *
27460454 AAAAAAAGAATCTGAATTCCATG
1 AAAAAAAGAATCTGAAATCAATG
27460477 AAAAAAAGAATCTAGAACATCTAATG
1 AAAAAAAGAATCT-GAA-ATC-AATG
27460503 A
1 A
27460504 CCTAGCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 13 0.59
24 3 0.14
25 2 0.09
26 4 0.18
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (23 bp):
AAAAAAAGAATCTGAAATCAATG
Found at i:27472997 original size:4 final size:4
Alignment explanation
Indices: 27472988--27473152 Score: 85
Period size: 4 Copynumber: 41.0 Consensus size: 4
27472978 GAAGGAGAGG
* *
27472988 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAAG
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GAAA
* * * * * * *
27473037 GAAG GAAG GAAG GAGAG GAGAG GAAA GAAGA AAAA GAAG GAAA GAAAA
1 GAAA GAAA GAAA GA-AA GA-AA GAAA GAA-A GAAA GAAA GAAA G-AAA
* *
27473085 GGAAA G-GA GAAGA GAAA -AAA -AAA AAAA G-AA G-AA GAAGA GGAAA
1 -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAA-A -GAAA
*
27473128 G-AA GAAA GAAA -AAA -AAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
27473153 AGGAAAGGAG
Statistics
Matches: 137, Mismatches: 11, Indels: 26
0.79 0.06 0.15
Matches are distributed among these distances:
3 22 0.16
4 84 0.61
5 27 0.20
6 4 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:27473103 original size:32 final size:33
Alignment explanation
Indices: 27473052--27473175 Score: 139
Period size: 32 Copynumber: 3.7 Consensus size: 33
27473042 AAGGAAGGAG
* *
27473052 AGGAGAGGA-AAGAAGAAAAAGAAGGAAAGAAA
1 AGGAAAGGAGAAGAAGAAAAAAAAGGAAAGAAA
**
27473084 AGGAAAGGAGAAG-AGAAAAAAAAAAAAAGAAGA
1 AGGAAAGGAGAAGAAGAAAAAAAAGGAAAGAA-A
27473117 A-GAAGAGGAAAGAAGAAAGAAAAAAAAGGAAAGAAA
1 AGGAA-AGG--AGAAG-AAGAAAAAAAAGGAAAGAAA
27473153 AGGAAAGGAGAAG-AGAAAAAAAA
1 AGGAAAGGAGAAGAAGAAAAAAAA
27473176 AAGAAGAAGA
Statistics
Matches: 78, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
32 36 0.46
33 8 0.10
34 5 0.06
35 5 0.06
36 5 0.06
37 19 0.24
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (33 bp):
AGGAAAGGAGAAGAAGAAAAAAAAGGAAAGAAA
Found at i:27473129 original size:7 final size:7
Alignment explanation
Indices: 27472988--27473194 Score: 71
Period size: 8 Copynumber: 29.3 Consensus size: 7
27472978 GAAGGAGAGG
27472988 GAAAGAAA
1 GAAAG-AA
27472996 GAAAGAAA
1 GAAAG-AA
27473004 GAAAGAAA
1 GAAAG-AA
27473012 GAAAGAAA
1 GAAAG-AA
27473020 GAAAGAAA
1 GAAAG-AA
*
27473028 GGAAGGAA
1 -GAAAGAA
*
27473036 GGAAGGAA
1 -GAAAGAA
* *
27473044 GGAAGGA
1 GAAAGAA
* *
27473051 GAGGAGAG
1 GA-AAGAA
27473059 GAAAGAA
1 GAAAGAA
27473066 GAAA-AA
1 GAAAGAA
*
27473072 GAAGGAAA
1 GAAAG-AA
*
27473080 GAAA-AG
1 GAAAGAA
*
27473086 GAAAGGA
1 GAAAGAA
27473093 GAAGAGAA
1 GAA-AGAA
27473101 -AAA-AA
1 GAAAGAA
*
27473106 -AAAAAA
1 GAAAGAA
27473112 G-AAGAA
1 GAAAGAA
*
27473118 G-AAGAG
1 GAAAGAA
27473124 GAAAGAA
1 GAAAGAA
27473131 GAAAGAA
1 GAAAGAA
*
27473138 -AAAAAA
1 GAAAGAA
27473144 GGAAAGAAAA
1 -GAAAG--AA
*
27473154 GGAAAGGA
1 -GAAAGAA
27473162 GAAGAGAA
1 GAA-AGAA
27473170 -AAA-AA
1 GAAAGAA
27473175 -AAAGAA
1 GAAAGAA
27473181 G-AAGAA
1 GAAAGAA
27473187 G-AAGAA
1 GAAAGAA
27473193 GA
1 GA
27473195 GGGAAGGAAG
Statistics
Matches: 159, Mismatches: 23, Indels: 35
0.73 0.11 0.16
Matches are distributed among these distances:
5 10 0.06
6 43 0.27
7 33 0.21
8 61 0.38
9 4 0.03
10 8 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (7 bp):
GAAAGAA
Found at i:27473222 original size:69 final size:68
Alignment explanation
Indices: 27473064--27473194 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 68
27473054 GAGAGGAAAG
* *
27473064 AAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAAGAAGAAGAAGAGGAAAG
1 AAGAAAAA-AAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAAGAAGAAGAAGAAGAAAG
27473129 AAGA
65 AAGA
*
27473133 AAGAAAAAAAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAGAAGAAGAAGAAGAAGA
1 AAGAAAAAAAA-GAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAAGAAGAAGAAGAAGA
27473195 GGGAAGGAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
68 2 0.03
69 56 0.97
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (68 bp):
AAGAAAAAAAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAAAAGAAGAAGAAGAAGAAAGA
AGA
Found at i:27475155 original size:3 final size:3
Alignment explanation
Indices: 27475147--27475180 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
27475137 ATAGGCGTAT
* *
27475147 ATA ATA ATA ATA ATA ATA TTA ATA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27475181 ATAGGATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27476827 original size:9 final size:9
Alignment explanation
Indices: 27476813--27476843 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27476803 GTTAAACGAA
27476813 TCGAGTTAT
1 TCGAGTTAT
*
27476822 TCGAGTTAA
1 TCGAGTTAT
27476831 TCGAGTTAT
1 TCGAGTTAT
27476840 TCGA
1 TCGA
27476844 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:27481779 original size:27 final size:27
Alignment explanation
Indices: 27481707--27481782 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
27481697 CCAATCAGTA
*
27481707 TGGCACCATTGGTGCCACCAATGGCTT
1 TGGCACCATTGGTGCCGCCAATGGCTT
27481734 TGGCACCATTGGTGCCGCCAATGGCTT
1 TGGCACCATTGGTGCCGCCAATGGCTT
* *
27481761 TGGCACCTTTGGTGACGCCAAT
1 TGGCACCATTGGTGCCGCCAAT
27481783 CACCTTGGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.17, C:0.29, G:0.28, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGGCTT
Found at i:27481790 original size:27 final size:27
Alignment explanation
Indices: 27481707--27481791 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
27481697 CCAATCAGTA
* * ** *
27481707 TGGCACCATTGGTGCCACCAATGGCTT
1 TGGCACCATTGGTGACGCCAATCACCT
* ** *
27481734 TGGCACCATTGGTGCCGCCAATGGCTT
1 TGGCACCATTGGTGACGCCAATCACCT
*
27481761 TGGCACCTTTGGTGACGCCAATCACCT
1 TGGCACCATTGGTGACGCCAATCACCT
27481788 TGGC
1 TGGC
27481792 TTGACTAGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGACGCCAATCACCT
Found at i:27481848 original size:13 final size:13
Alignment explanation
Indices: 27481832--27481861 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
27481822 CTTTTTGCAG
27481832 TTTTTTTTTGTTT
1 TTTTTTTTTGTTT
27481845 TTTTTTTTTGTTT
1 TTTTTTTTTGTTT
27481858 TTTT
1 TTTT
27481862 GGTAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Found at i:27481894 original size:26 final size:28
Alignment explanation
Indices: 27481858--27481919 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
27481848 TTTTTTGTTT
*
27481858 TTTTGGTAAAT-AAAAAAATTATAAT-A
1 TTTTGTTAAATAAAAAAAATTATAATAA
27481884 TTTTGTTAAATAAAAAAAATTATAATAA
1 TTTTGTTAAATAAAAAAAATTATAATAA
*
27481912 TTTAGTTA
1 TTTTGTTA
27481920 TTTTTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 10 0.31
27 14 0.44
28 8 0.25
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (28 bp):
TTTTGTTAAATAAAAAAAATTATAATAA
Found at i:27485633 original size:44 final size:45
Alignment explanation
Indices: 27485544--27485633 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 45
27485534 GATGTAATTG
*
27485544 AATAGAGCTGTAATAAGTAATTTAATTGTTTGATTGAATGGAATGA
1 AATAGAGCTGTAATAAGTAATTT-ATTGTTTGATTGAATGAAATGA
*
27485590 AATAGAGCTGTAATAA-T-ATTCT-TGTGTTTGGTTGAATGAAATGA
1 AATAGAGCTGTAATAAGTAATT-TAT-TGTTTGATTGAATGAAATGA
27485634 TGTTGTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
43 1 0.03
44 21 0.52
45 2 0.05
46 16 0.40
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (45 bp):
AATAGAGCTGTAATAAGTAATTTATTGTTTGATTGAATGAAATGA
Found at i:27506846 original size:10 final size:10
Alignment explanation
Indices: 27506831--27506864 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
27506821 TTATAACTAT
27506831 TTAAATAATA
1 TTAAATAATA
*
27506841 TTAAATTTATA
1 TTAAA-TAATA
27506852 TTAAATAATA
1 TTAAATAATA
27506862 TTA
1 TTA
27506865 TTTAAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTAAATAATA
Found at i:27513728 original size:20 final size:20
Alignment explanation
Indices: 27513703--27513740 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27513693 TTTCAATATT
27513703 GAACACCAAAACTAAATTGG
1 GAACACCAAAACTAAATTGG
*
27513723 GAACACCAAAATTAAATT
1 GAACACCAAAACTAAATT
27513741 AAAACTACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (20 bp):
GAACACCAAAACTAAATTGG
Found at i:27513964 original size:17 final size:19
Alignment explanation
Indices: 27513936--27513972 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
27513926 TTTAATTTTC
27513936 AAAATTTCAAAAAA-AAAA
1 AAAATTTCAAAAAATAAAA
27513954 AAAATTT-AAAAAATAAAA
1 AAAATTTCAAAAAATAAAA
27513972 A
1 A
27513973 TTGCATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATTTCAAAAAATAAAA
Found at i:27514010 original size:30 final size:30
Alignment explanation
Indices: 27513970--27514071 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
27513960 TAAAAAATAA
* * *
27513970 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCTTAAAC-TTTCATT
*
27514000 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCTTAAACTTTCATT
* *
27514030 AAATTTCACTTAGACCCTTAAACTTTCATT
1 AAATTTCATTTTGACCCTTAAACTTTCATT
27514060 AAATTTCATTTT
1 AAATTTCATTTT
27514072 AATCCTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 4 0.06
30 59 0.94
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCTTAAACTTTCATT
Found at i:27514523 original size:14 final size:15
Alignment explanation
Indices: 27514497--27514536 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
27514487 ATCAAATAAA
27514497 GAAAAGAGAAGAGAG
1 GAAAAGAGAAGAGAG
*
27514512 GAAAAG-GAAGAGTG
1 GAAAAGAGAAGAGAG
27514526 G--AAGAGAAGAG
1 GAAAAGAGAAGAG
27514537 CCCGTCCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 3 0.13
13 6 0.26
14 8 0.35
15 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.03
Consensus pattern (15 bp):
GAAAAGAGAAGAGAG
Found at i:27514637 original size:12 final size:11
Alignment explanation
Indices: 27514622--27514714 Score: 84
Period size: 12 Copynumber: 8.3 Consensus size: 11
27514612 GAAGAGGAAG
27514622 AAAAAGAAAGGA
1 AAAAAGAAA-GA
27514634 AAAAAGAGAAGA
1 AAAAAGA-AAGA
*
27514646 AAAGAGAGAAGA
1 AAAAAGA-AAGA
27514658 AAAAGAGAAAG-
1 AAAA-AGAAAGA
27514669 AAAAAGAAAGA
1 AAAAAGAAAGA
*
27514680 AAAAAGGAGAGA
1 AAAAA-GAAAGA
*
27514692 AAAAA-ATAG-
1 AAAAAGAAAGA
*
27514701 AAAAGGAAAGA
1 AAAAAGAAAGA
27514712 AAA
1 AAA
27514715 GAAAATAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
9 4 0.06
10 12 0.17
11 12 0.17
12 36 0.52
13 5 0.07
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:27514645 original size:23 final size:22
Alignment explanation
Indices: 27514613--27514704 Score: 100
Period size: 23 Copynumber: 4.0 Consensus size: 22
27514603 CGGCCCGAAG
27514613 AAGAGGAAGAAAAAGAAAGGAAAA
1 AAGA-GAAGAAAAAGAAA-GAAAA
27514637 AAGAGAAGAAAAGAGAGAAG-AAA
1 AAGAGAAGAAAA-AGA-AAGAAAA
27514660 AAGAGAAAGAAAAAGAAAGAAAA
1 AAGAG-AAGAAAAAGAAAGAAAA
27514683 AAG-GAGAGAAAAA-AATAGAAAA
1 AAGAGA-AGAAAAAGAA-AGAAAA
27514705 GGAAAGAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 14
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.05
22 17 0.27
23 25 0.40
24 15 0.24
25 2 0.03
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (22 bp):
AAGAGAAGAAAAAGAAAGAAAA
Found at i:27514648 original size:10 final size:12
Alignment explanation
Indices: 27514613--27514683 Score: 71
Period size: 11 Copynumber: 6.2 Consensus size: 12
27514603 CGGCCCGAAG
*
27514613 AAGAGGAAGAAA
1 AAGAGAAAGAAA
*
27514625 AAGA-AAGGAAA
1 AAGAGAAAGAAA
27514636 AA-AGAGAAG-AA
1 AAGAGA-AAGAAA
27514647 AAGAGAGAAGAAA
1 AAGAGA-AAGAAA
27514660 AAGAGAAAG-AA
1 AAGAGAAAGAAA
27514671 AA-AGAAAGAAA
1 AAGAGAAAGAAA
27514682 AA
1 AA
27514684 AGGAGAGAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
10 7 0.14
11 20 0.39
12 16 0.31
13 8 0.16
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AAGAGAAAGAAA
Found at i:27514670 original size:15 final size:12
Alignment explanation
Indices: 27514613--27514719 Score: 75
Period size: 12 Copynumber: 9.2 Consensus size: 12
27514603 CGGCCCGAAG
27514613 AAGAG-GAAGAA
1 AAGAGAGAAGAA
27514624 AA-AGA-AAGGAA
1 AAGAGAGAA-GAA
*
27514635 AAAAGAGAAGAA
1 AAGAGAGAAGAA
27514647 AAGAGAGAAGAA
1 AAGAGAGAAGAA
27514659 AA-AGAGAAAGAAA
1 AAGAGAG-AAG-AA
*
27514672 AAGAAAGAA-AA
1 AAGAGAGAAGAA
*
27514683 AAGGAGAGAAAAA
1 AA-GAGAGAAGAA
* * *
27514696 AATAGAAAAGGA
1 AAGAGAGAAGAA
27514708 AAGA-A-AAGAA
1 AAGAGAGAAGAA
27514718 AA
1 AA
27514720 TAAAAAAATA
Statistics
Matches: 78, Mismatches: 9, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
10 10 0.13
11 16 0.21
12 37 0.47
13 12 0.15
14 3 0.04
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (12 bp):
AAGAGAGAAGAA
Found at i:27514716 original size:37 final size:35
Alignment explanation
Indices: 27514622--27514719 Score: 110
Period size: 37 Copynumber: 2.7 Consensus size: 35
27514612 GAAGAGGAAG
*
27514622 AAAA-AGAAAGGAAAAAAGAGAAGAAAAGAGAGAAGA
1 AAAAGAGAAAGGAAAAAA-AGAA-AAAAGAGAGAAAA
*
27514658 AAAAGAGAAAGAAAAAGAAAGAAAAAAGGAGAGAAAA
1 AAAAGAGAAAGGAAAA-AAAGAAAAAA-GAGAGAAAA
27514695 AAATAGA-AAAGGAAAGAAAAGAAAA
1 AAA-AGAGAAAGGAAA-AAAAGAAAA
27514720 TAAAAAAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
36 8 0.15
37 40 0.74
38 6 0.11
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.01
Consensus pattern (35 bp):
AAAAGAGAAAGGAAAAAAAGAAAAAAGAGAGAAAA
Found at i:27514716 original size:47 final size:47
Alignment explanation
Indices: 27514613--27514719 Score: 128
Period size: 47 Copynumber: 2.3 Consensus size: 47
27514603 CGGCCCGAAG
* * * *
27514613 AAGAGGAAGAAAAAGAAAGGAAAAAAGAGAAGAAAAGAGAGAAGAAA
1 AAGAGAAAGAAAAAGAAAGAAAAAAAGAGAAAAAAAGAGAAAAGAAA
* *
27514660 AAGAGAAAGAAAAAGAAAGAAAAAAGGAGAGAAAAAAATAGAAAAG-GA
1 AAGAGAAAGAAAAAGAAAGAAAAAA--AGAGAAAAAAAGAGAAAAGAAA
27514708 AAGA-AAAGAAAA
1 AAGAGAAAGAAAA
27514720 TAAAAAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 31 0.60
48 5 0.10
49 16 0.31
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (47 bp):
AAGAGAAAGAAAAAGAAAGAAAAAAAGAGAAAAAAAGAGAAAAGAAA
Found at i:27514724 original size:20 final size:21
Alignment explanation
Indices: 27514623--27514718 Score: 88
Period size: 20 Copynumber: 4.4 Consensus size: 21
27514613 AAGAGGAAGA
27514623 AAAAGAAAGGAAAAAA-GAGAAG
1 AAAAGAAA-GAAAAAAGGA-AAG
*
27514645 AAAAGAGAGAAGAAAAAGAGAAAG
1 AAAAGAAAG-A-AAAAAG-GAAAG
*
27514669 AAAAAGAAAGAAAAAAGGAGAG
1 -AAAAGAAAGAAAAAAGGAAAG
* *
27514691 AAAA-AAATAGAAAAGGAAAG
1 AAAAGAAAGAAAAAAGGAAAG
27514711 AAAAGAAA
1 AAAAGAAA
27514719 ATAAAAAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
20 17 0.27
21 8 0.13
22 12 0.19
23 11 0.18
24 4 0.06
25 10 0.16
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (21 bp):
AAAAGAAAGAAAAAAGGAAAG
Found at i:27514847 original size:13 final size:13
Alignment explanation
Indices: 27514828--27514867 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
27514818 GCCAGCCCAA
*
27514828 AAAAAAAACAAAGC
1 AAAAAAAA-GAAGC
27514842 AAAAAAAAGAAGC
1 AAAAAAAAGAAGC
27514855 AGAAAAAAAGAAG
1 A-AAAAAAAGAAG
27514868 AAGAAAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAGC
Found at i:27514864 original size:14 final size:14
Alignment explanation
Indices: 27514838--27514873 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
27514828 AAAAAAAACA
27514838 AAGCA-AAAAAAAG
1 AAGCAGAAAAAAAG
27514851 AAGCAGAAAAAAAG
1 AAGCAGAAAAAAAG
*
27514865 AAGAAGAAA
1 AAGCAGAAA
27514874 GAAGCAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.75, C:0.06, G:0.19, T:0.00
Consensus pattern (14 bp):
AAGCAGAAAAAAAG
Found at i:27515038 original size:12 final size:13
Alignment explanation
Indices: 27515021--27515052 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
27515011 TCCAGCAAAA
27515021 AAAAAAAGAAA-G
1 AAAAAAAGAAAGG
27515033 AAAAAAA-AAAGG
1 AAAAAAAGAAAGG
27515045 AAAAAAAG
1 AAAAAAAG
27515053 GCCCATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 15 0.83
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAGG
Found at i:27515038 original size:16 final size:15
Alignment explanation
Indices: 27515017--27515051 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
27515007 AACATCCAGC
27515017 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
*
27515032 GAAAAAAAAAAGGAAA
1 -AAAAAAAAAAAGAAA
27515048 AAAA
1 AAAA
27515052 GGCCCATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:27515600 original size:17 final size:17
Alignment explanation
Indices: 27515580--27515905 Score: 91
Period size: 17 Copynumber: 18.8 Consensus size: 17
27515570 AAAAAAAAAT
27515580 TCGTGTTTCAAAAATTC
1 TCGTGTTTCAAAAATTC
**
27515597 TCGTGAAT-ATAAAA---
1 TCGTGTTTCA-AAAATTC
27515611 TCGTGTTTTCAAAAATTC
1 TCGTG-TTTCAAAAATTC
* * **
27515629 CCGTGTTTTAAAAA-AA
1 TCGTGTTTCAAAAATTC
*
27515645 TCGTGTTTTAAAAAATTTC
1 TCGTG-TTTCAAAAA-TTC
*
27515664 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTC
* *
27515681 TCGTGTTTTCAAAATTTT
1 TCGTG-TTTCAAAAATTC
***
27515699 TCGTGTCAAAAAAATTC
1 TCGTGTTTCAAAAATTC
* * *
27515716 TCCTGTATCGAAAATT-
1 TCGTGTTTCAAAAATTC
* * * *
27515732 TCCTTATTTTCAAAATTTT
1 T-CGT-GTTTCAAAAATTC
* *
27515751 TCGTGTTTTCAAAAAAATA
1 TCGTG-TTTC-AAAAATTC
* *
27515770 TTGTGTTTCGAAAA-TC
1 TCGTGTTTCAAAAATTC
* * *
27515786 TTTGTGTTTTTAAAAATTT
1 -TCGTG-TTTCAAAAATTC
*
27515805 TGGTGTTTCAAAAATT-
1 TCGTGTTTCAAAAATTC
*
27515821 TCCGCGTTTCTAAAAATTC
1 T-CGTGTTTC-AAAAATTC
* *
27515840 -AGATGATTT-AAAAAATC
1 TCG-TG-TTTCAAAAATTC
*
27515857 TTCGTGCTTTCAAAAACT-
1 -TCGTG-TTTCAAAAATTC
* *
27515875 TCGATGTTTC-TAAATTT
1 TCG-TGTTTCAAAAATTC
*
27515892 TCATGTTTCAAAAA
1 TCGTGTTTCAAAAA
27515906 AAAATCCTCG
Statistics
Matches: 225, Mismatches: 55, Indels: 58
0.67 0.16 0.17
Matches are distributed among these distances:
14 5 0.02
15 5 0.02
16 19 0.08
17 98 0.44
18 72 0.32
19 26 0.12
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTC
Found at i:27515621 original size:32 final size:34
Alignment explanation
Indices: 27515572--27515712 Score: 112
Period size: 34 Copynumber: 4.2 Consensus size: 34
27515562 TTCTTTTAAA
27515572 AAAAAAATTCGTG-TTTCAAAAATTCTCGTG-AAT
1 AAAAAAA-TCGTGTTTTCAAAAATTCTCGTGTAAT
* * **
27515605 -ATAAAATCGTGTTTTCAAAAATTCCCGTGTTTT
1 AAAAAAATCGTGTTTTCAAAAATTCTCGTGTAAT
* *
27515638 AAAAAAATCGTGTTTTAAAAAATTTCTCGTGT-TT
1 AAAAAAATCGTGTTTTCAAAAA-TTCTCGTGTAAT
** * * *
27515672 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTGTCA-
1 -AAAAA-AATCGTGTTTTCAAAAATTCTCGTGTAAT
27515707 AAAAAA
1 AAAAAA
27515713 TTCTCCTGTA
Statistics
Matches: 87, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
31 5 0.06
32 21 0.24
33 1 0.01
34 26 0.30
35 21 0.24
36 13 0.15
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (34 bp):
AAAAAAATCGTGTTTTCAAAAATTCTCGTGTAAT
Found at i:27515635 original size:18 final size:18
Alignment explanation
Indices: 27515611--27515765 Score: 97
Period size: 18 Copynumber: 8.8 Consensus size: 18
27515601 GAATATAAAA
27515611 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
* **
27515629 CCGTGTTTT-AAAAA-AA
1 TCGTGTTTTCAAAAATTC
*
27515645 TCGTGTTTTAAAAAATTTC
1 TCGTGTTTTCAAAAA-TTC
*
27515664 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
* *
27515681 TCGTGTTTTCAAAATTTT
1 TCGTGTTTTCAAAAATTC
***
27515699 TCGTG-TCAAAAAAATTC
1 TCGTGTTTTCAAAAATTC
* * *
27515716 TCCTG-TATCGAAAATT-
1 TCGTGTTTTCAAAAATTC
* * * *
27515732 TCCTTATTTTCAAAATTTT
1 T-CGTGTTTTCAAAAATTC
27515751 TCGTGTTTTCAAAAA
1 TCGTGTTTTCAAAAA
27515766 AATATTGTGT
Statistics
Matches: 103, Mismatches: 27, Indels: 14
0.72 0.19 0.10
Matches are distributed among these distances:
16 9 0.09
17 37 0.36
18 51 0.50
19 6 0.06
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTC
Found at i:27515649 original size:16 final size:16
Alignment explanation
Indices: 27515607--27515659 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
27515597 TCGTGAATAT
*
27515607 AAAATCGTGTTTTCAA
1 AAAATCGTGTTTTAAA
*
27515623 AAATTCCCGTGTTTTAAA
1 AAAAT--CGTGTTTTAAA
27515641 AAAATCGTGTTTTAAA
1 AAAATCGTGTTTTAAA
27515657 AAA
1 AAA
27515660 TTTCTCGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 18 0.56
18 14 0.44
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (16 bp):
AAAATCGTGTTTTAAA
Found at i:27515677 original size:35 final size:34
Alignment explanation
Indices: 27515572--27515713 Score: 116
Period size: 35 Copynumber: 4.2 Consensus size: 34
27515562 TTCTTTTAAA
* **
27515572 AAAAAAATTCGTGTTTCAAAAA-TTCTCGTGAAT-
1 AAAAAAA-TCGTGTTTTAAAAATTTCTCGTGTTTC
* * *
27515605 -ATAAAATCGTGTTTTCAAAAA-TTCCCGTGTTTT
1 AAAAAAATCGTGTTTT-AAAAATTTCTCGTGTTTC
27515638 AAAAAAATCGTGTTTTAAAAAATTTCTCGTGTTTC
1 AAAAAAATCGTGTTTT-AAAAATTTCTCGTGTTTC
** * *
27515673 AAAAATTTTCGTGTTTTCAAAATTTTTCGTG--TC
1 AAAAA-AATCGTGTTTTAAAAATTTCTCGTGTTTC
27515706 AAAAAAAT
1 AAAAAAAT
27515714 TCTCCTGTAT
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
31 8 0.09
32 19 0.21
33 7 0.08
34 19 0.21
35 27 0.30
36 9 0.10
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.39
Consensus pattern (34 bp):
AAAAAAATCGTGTTTTAAAAATTTCTCGTGTTTC
Found at i:27515871 original size:18 final size:17
Alignment explanation
Indices: 27515645--27515905 Score: 79
Period size: 18 Copynumber: 14.8 Consensus size: 17
27515635 TTTAAAAAAA
* *
27515645 TCGTGTTTTAAAAAATTT
1 TCGTG-TTTCAAAAATCT
*
27515663 CTCGTGTTTCAAAAATTT
1 -TCGTGTTTCAAAAATCT
* *
27515681 TCGTGTTTTCAAAATTTT
1 TCGTG-TTTCAAAAATCT
***
27515699 TCGTGTCAAAAAAAT-T
1 TCGTGTTTCAAAAATCT
* * *
27515715 CTCCTGTATCGAAAAT-T
1 -TCGTGTTTCAAAAATCT
* * * *
27515732 TCCTTATTTTCAAAATTTT
1 T-CGT-GTTTCAAAAATCT
*
27515751 TCGTGTTTTCAAAAAAATAT
1 TCGTG-TTTC--AAAAATCT
*
27515771 T-GTGTTTCGAAAATCT
1 TCGTGTTTCAAAAATCT
* * *
27515787 TTGTGTTTTTAAAAATTT
1 TCGTG-TTTCAAAAATCT
*
27515805 TGGTGTTTCAAAAAT-T
1 TCGTGTTTCAAAAATCT
*
27515821 TCCGCGTTTCTAAAAA--T
1 T-CGTGTTTC-AAAAATCT
*
27515838 TCAGATGATTTAAAAAATCT
1 TC-G-TG-TTTCAAAAATCT
27515858 TCGTGCTTTCAAAAA-CT
1 TCGTG-TTTCAAAAATCT
* *
27515875 TCGATGTTTC-TAAATTT
1 TCG-TGTTTCAAAAATCT
*
27515892 TCATGTTTCAAAAA
1 TCGTGTTTCAAAAA
27515906 AAAATCCTCG
Statistics
Matches: 185, Mismatches: 37, Indels: 42
0.70 0.14 0.16
Matches are distributed among these distances:
16 21 0.11
17 60 0.32
18 80 0.43
19 14 0.08
20 10 0.05
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (17 bp):
TCGTGTTTCAAAAATCT
Found at i:27515976 original size:16 final size:17
Alignment explanation
Indices: 27515955--27515990 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27515945 TTTCAAAAAC
*
27515955 AAATTTTC-TGTTTTAA
1 AAATTTTCGTGTTTCAA
27515971 AAATTTTCGTGTTTCAA
1 AAATTTTCGTGTTTCAA
27515988 AAA
1 AAA
27515991 GAAGATTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (17 bp):
AAATTTTCGTGTTTCAA
Found at i:27516081 original size:17 final size:16
Alignment explanation
Indices: 27516061--27516114 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
27516051 TTTAAAAAAA
27516061 AAAATTTTTGTGTTTCT
1 AAAATTTTTGTGTTT-T
* *
27516078 AAAATTCTTGTATTTT
1 AAAATTTTTGTGTTTT
*
27516094 AAAATTTTCGTGTTTT
1 AAAATTTTTGTGTTTT
27516110 CAAAA
1 -AAAA
27516115 AAAGAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.52
Consensus pattern (16 bp):
AAAATTTTTGTGTTTT
Found at i:27516109 original size:16 final size:15
Alignment explanation
Indices: 27516061--27516114 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
27516051 TTTAAAAAAA
27516061 AAAATTTTTGTGTTTCT
1 AAAA-TTTTGTGTTT-T
*
27516078 AAAATTCTTGTATTTT
1 AAAATT-TTGTGTTTT
27516094 AAAATTTTCGTGTTTT
1 AAAATTTT-GTGTTTT
27516110 CAAAA
1 -AAAA
27516115 AAAGAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 2 0.06
16 15 0.47
17 15 0.47
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.52
Consensus pattern (15 bp):
AAAATTTTGTGTTTT
Found at i:27528122 original size:72 final size:72
Alignment explanation
Indices: 27527870--27528615 Score: 1105
Period size: 72 Copynumber: 10.4 Consensus size: 72
27527860 AAGGGAAATA
* * *
27527870 AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGT-TGTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT-TCTGTTTT
27527934 CAAAA-TC
65 CAAAATTC
* * ** * * * *
27527941 AACTCATATTGCGAGAAGTGAGTTGAGCATCGGGGCATGCTGAGGT-A-TT---TTTGTGTTTT-
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
*
27528000 -AATTTC
66 AAAATTC
* * *
27528006 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
27528071 AAAATTC
66 AAAATTC
*
27528078 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
27528143 AAAATTC
66 AAAATTC
27528150 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
27528215 AAAATTC
66 AAAATTC
* * *
27528222 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTTTGCTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTT
27528287 CAAAATTC
65 CAAAATTC
* * *
27528295 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
27528360 AAAATTC
66 AAAATTC
* * * *
27528367 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGATGTATTTTCAATTTTTGCTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTT
27528432 CAAAATTC
65 CAAAATTC
27528440 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
*
27528505 AAAATTT
66 AAAATTC
*
27528512 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG--TTT
*
27528577 TCAAAAATC
64 TCAAAATTC
**
27528586 AACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AACTCATATTGCGAGAAATGAGTTGAGCCT
27528616 TTTAATTTCT
Statistics
Matches: 615, Mismatches: 47, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
64 2 0.00
65 45 0.07
66 9 0.01
67 2 0.00
69 2 0.00
70 9 0.01
71 38 0.06
72 336 0.55
73 134 0.22
74 38 0.06
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (72 bp):
AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
AAAATTC
Found at i:27528341 original size:217 final size:216
Alignment explanation
Indices: 27527870--27528615 Score: 1103
Period size: 217 Copynumber: 3.5 Consensus size: 216
27527860 AAGGGAAATA
* * * *
27527870 AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTC
* * ** * * * *
27527935 AAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCATCGGGGCATGCTGAGGT-A-TT---TTTG
66 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
* * * *
27527994 TGTTTT--AATTTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATTT
131 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
27528057 CAATTTCTGTTTTCAAAATTC
196 CAATTTCTGTTTTCAAAATTC
27528078 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTC
27528143 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
66 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
* *
27528208 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTT
131 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
*
27528273 CAATTTTTGCTTTTCAAAATTC
196 CAATTTCTG-TTTTCAAAATTC
* * * *
27528295 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTC
* * * *
27528360 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGATGTATTTTCAATTTT
66 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
27528425 TGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATT
131 TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATT
*
27528490 TCAATTTCTGTTTTCAAAATTT
195 TCAATTTCTGTTTTCAAAATTC
* *
27528512 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT-T-TGTTT
* **
27528577 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64 TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
27528616 TTTAATTTCT
Statistics
Matches: 486, Mismatches: 40, Indels: 13
0.90 0.07 0.02
Matches are distributed among these distances:
208 65 0.13
209 41 0.08
210 1 0.00
211 2 0.00
214 9 0.02
216 59 0.12
217 200 0.41
218 69 0.14
219 40 0.08
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (216 bp):
AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTC
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
CAATTTCTGTTTTCAAAATTC
Found at i:27528380 original size:145 final size:144
Alignment explanation
Indices: 27527870--27528615 Score: 1141
Period size: 145 Copynumber: 5.2 Consensus size: 144
27527860 AAGGGAAATA
* * *
27527870 AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGT-TGTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT-TCTGTTTT
* * ** * * *
27527934 CAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCATCGGGGCATGCTGAGGTA--TT---TTT
65 CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
* *
27527993 GTGTTTT--AATTTC
130 TTGTTTTCAAAATTC
* * *
27528006 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
*
27528071 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTT
66 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
27528136 TGTTTTCAAAATTC
131 TGTTTTCAAAATTC
27528150 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
*
27528215 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTT
66 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
27528280 TGCTTTTCAAAATTC
131 TG-TTTTCAAAATTC
* * *
27528295 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
* *
27528360 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGATGTATTTTCAATTTT
66 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
27528425 TGCTTTTCAAAATTC
131 TG-TTTTCAAAATTC
27528440 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
*
27528505 AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
66 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT-
* *
27528570 TGTTTTTTCAAAAATC
130 T-TGTTTTCAAAATTC
**
27528586 AACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AACTCATATTGCGAGAAATGAGTTGAGCCT
27528616 TTTAATTTCT
Statistics
Matches: 564, Mismatches: 34, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
135 1 0.00
136 61 0.11
137 42 0.07
139 2 0.00
142 9 0.02
144 132 0.23
145 276 0.49
146 40 0.07
147 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (144 bp):
AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
TGTTTTCAAAATTC
Found at i:27528639 original size:54 final size:55
Alignment explanation
Indices: 27528559--27528781 Score: 353
Period size: 54 Copynumber: 4.0 Consensus size: 55
27528549 CGTTGAGGTA
27528559 TTTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
27528615 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
27528669 TTTT-AATTTCTATTTTTCAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
27528725 TTTTGCAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTT-CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
27528780 TT
1 TT
27528782 GGTTCACGTG
Statistics
Matches: 157, Mismatches: 6, Indels: 9
0.91 0.03 0.05
Matches are distributed among these distances:
54 59 0.38
55 44 0.28
56 43 0.27
57 5 0.03
58 6 0.04
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (55 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:27528766 original size:111 final size:110
Alignment explanation
Indices: 27528579--27528781 Score: 354
Period size: 111 Copynumber: 1.8 Consensus size: 110
27528569 CTGTTTTTTC
* *
27528579 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACT
1 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTGTTTTTCAAAAATCAACT
*
27528644 CATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
66 CATATTGCGAGAAGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
27528689 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCTG-TTTTCAAAAATCAA
1 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AAATTCTGTTTTTCAAAAATCAA
27528753 CTCATATTGCGAGAAGTGAGTTGAGCCTT
64 CTCATATTGCGAGAAGTGAGTTGAGCCTT
27528782 GGTTCACGTG
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
110 39 0.44
111 42 0.48
112 7 0.08
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (110 bp):
AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTGTTTTTCAAAAATCAACT
CATATTGCGAGAAGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
Done.