Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold186
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: 1043505
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.30
Warning! 56388 characters in sequence are not A, C, G, or T
File 2 of 6
Found at i:109847 original size:22 final size:23
Alignment explanation
Indices: 109817--109868 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
109807 ATTAAAATTC
109817 AATACAATTATATTTATATTAAA-
1 AATA-AATTATATTTATATTAAAT
*
109840 AATAAATTATATTTTTATTAAAT
1 AATAAATTATATTTATATTAAAT
109863 AATAAA
1 AATAAA
109869 ATAATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AATAAATTATATTTATATTAAAT
Found at i:114051 original size:157 final size:155
Alignment explanation
Indices: 113568--114329 Score: 712
Period size: 156 Copynumber: 4.9 Consensus size: 155
113558 AAAGGACTTA
** * * * **
113568 AAAAGATTATAGATGGGATAAACCTATCCTAGATACCCACATTCGGCATAAAAGCA-GACCTGGT
1 AAAAGATTATAGAAAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAG-AGGACCCAGT
* * * * * *
113632 GATAACCTAGGACTCGATGT-T-GAAAACTTACAAAAATACCCCTATTA-GTATACCGTCGACAT
65 GACAACCTAGGACTCGGT-TCTAAAAAAATTACAAAAAT--GCC-ATTAGGTATACCTTCGACAT
* *
113694 GAAAGTATCTTGGTAACCTTAGTGGACACT
126 GAAAGTATCTCGGTAACCCTAGTGGACACT
* * * * * * *
113724 AAAAGATTATAAAAAGAATGAACTTATCCTAAATACCCACCTTTGGCATAAAA-ATAGA-TCTGA
1 AAAAGATTATAGAAAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGA-GGACCCAG-
* * * * * * * * *
113787 TGATAACCTAAGACTCGATGCT-AAAAAATTACGAAAATACCCTTATGGGTATACCTTCGACGTA
64 TGACAACCTAGGACTCGGTTCTAAAAAAATTACAAAAATGCCATTA--GGTATACCTTCGACATG
* * *
113851 AAAGTATCTCGGCAACCCTAATGGAAACT
127 AAAGTATCTCGGTAACCCTAGTGGACACT
* *
113880 AAAAGATTAAAGAAAGGATGAATCTATCCTAAATACCCACCTTCGGCATAAAAGAGGACCCAGTG
1 AAAAGATTATAGAAAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGAGGACCCAGTG
* * * * *
113945 ACAACCTAGGACTTGGTTTTAAAAAAAATTACGAAAATGCCATTGAGGTATATCTTCGACCTGAA
66 ACAACCTAGGACTCGGTTCT-AAAAAAATTACAAAAATGCCATT-AGGTATACCTTCGACATGAA
114010 AGTATCTCGGTAACCCTAGTGGACACT
129 AGTATCTCGGTAACCCTAGTGGACACT
* * * * * * * *
114037 ACAAGATTATAGAAAGGACGAACCTATCCTAAATATCCACCATCGACATAAAAAGCGGATCTAGT
1 AAAAGATTATAGAAAGGATGAACCTATCCTAAATACCCACCTTCGGCAT-AAAAGAGGACCCAGT
* * * * *
114102 GACAACCTAGGACTTGGTTCTAAAAAAAATTACAAAAATGCCTTTAGGCATATCTTCGACTTGAA
65 GACAACCTAGGACTCGGTTCT-AAAAAAATTACAAAAATGCCATTAGGTATACCTTCGACATGAA
*
114167 AGTATCCCGGTAACCCTAGTGGACACT
129 AGTATCTCGGTAACCCTAGTGGACACT
* * ** * * * * * *
114194 AAAAGATTATAGAATGAACAAACCTATCCTAAACACCCACCTCCAGCATAAAAGAGGACTCACTA
1 AAAAGATTATAGAAAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGAGGACCCAGTG
* * * *
114259 ACAACCTAGGACTCAGTTCTAAGAAAATTACAAAAATGCCCTTAAGGGATACCTTCGACAT-AGA
66 ACAACCTAGGACTCGGTTCTAAAAAAATTACAAAAATGCCATT-AGGTATACCTTCGACATGA-A
114323 AGTATCT
129 AGTATCT
114330 GGCACCCCTA
Statistics
Matches: 501, Mismatches: 90, Indels: 30
0.81 0.14 0.05
Matches are distributed among these distances:
153 3 0.01
154 3 0.01
155 23 0.05
156 229 0.46
157 168 0.34
158 74 0.15
159 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (155 bp):
AAAAGATTATAGAAAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGAGGACCCAGTG
ACAACCTAGGACTCGGTTCTAAAAAAATTACAAAAATGCCATTAGGTATACCTTCGACATGAAAG
TATCTCGGTAACCCTAGTGGACACT
Found at i:114234 original size:314 final size:312
Alignment explanation
Indices: 113681--114329 Score: 748
Period size: 314 Copynumber: 2.1 Consensus size: 312
113671 CCCTATTAGT
* * * *
113681 ATACCGTCGACATGAAAGTATCTTGGTAACCTTAGTGGACACTAAAAGATTATAAAAAGAATGAA
1 ATACCTTCGACATGAAAGTATCTCGGTAACCCTAGTGGACACTAAAAGATTATAAAAAGAACGAA
* * * * * *
113746 CTTATCCTAAATACCCACCTTTGGCATAAAAATAGATCTGATGATAACCTAAGACTCGATGCTAA
66 CCTATCCTAAATACCCACCATCGACATAAAAACAGATCTGATGACAACCTAAGACTCGATGCTAA
* * * *
113811 AAAATTACGAAAATACCCTTATGGGTATACCTTCGACGTAAAAGTATCTCGGCAACCCTAATGGA
131 AAAATTACAAAAATACCCTTATAGGCATACCTTCGACGTAAAAGTATCCCGGCAACCCTAATGGA
* ** * * * *
113876 AACTAAAAGATTAAAGAAAGGATGAATCTATCCTAAATACCCACCTTCGGCATAAAAGAGGACCC
196 AACTAAAAGATTAAAGAAAGAACAAACCTATCCTAAACACCCACCTCCAGCATAAAAGAGGACCC
* * ** * * * *
113941 AGTGACAACCTAGGACTTGGTTTTAAAAAAAATTACGAAAATGCCATTGAGGT
261 ACTAACAACCTAGGACTCAGTTCT-AAAAAAATTACAAAAATGCCATTAAGGG
* * * * *
113994 ATATCTTCGACCTGAAAGTATCTCGGTAACCCTAGTGGACACTACAAGATTATAGAAAGGACGAA
1 ATACCTTCGACATGAAAGTATCTCGGTAACCCTAGTGGACACTAAAAGATTATAAAAAGAACGAA
* * * * * *
114059 CCTATCCTAAATATCCACCATCGACATAAAAAGCGGATCT-AGTGACAACCTAGGACTTGGTTCT
66 CCTATCCTAAATACCCACCATCGACATAAAAA-CAGATCTGA-TGACAACCTAAGACTCGATGCT
* * * * * *
114123 AAAAAAAATTACAAAAAT-GCCTT-TAGGCATATCTTCGACTTGAAAGTATCCCGGTAACCCTAG
129 --AAAAAATTACAAAAATACCCTTATAGGCATACCTTCGACGTAAAAGTATCCCGGCAACCCTAA
* * *
114186 TGGACACTAAAAGATTATAGAATGAACAAACCTATCCTAAACACCCACCTCCAGCATAAAAGAGG
192 TGGAAACTAAAAGATTAAAGAAAGAACAAACCTATCCTAAACACCCACCTCCAGCATAAAAGAGG
* * *
114251 ACTCACTAACAACCTAGGACTCAGTTCTAAGAAAATTACAAAAATGCCCTTAAGGG
257 ACCCACTAACAACCTAGGACTCAGTTCTAAAAAAATTACAAAAATGCCATTAAGGG
114307 ATACCTTCGACAT-AGAAGTATCT
1 ATACCTTCGACATGA-AAGTATCT
114330 GGCACCCCTA
Statistics
Matches: 277, Mismatches: 54, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
312 1 0.00
313 126 0.45
314 131 0.47
315 4 0.01
316 15 0.05
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (312 bp):
ATACCTTCGACATGAAAGTATCTCGGTAACCCTAGTGGACACTAAAAGATTATAAAAAGAACGAA
CCTATCCTAAATACCCACCATCGACATAAAAACAGATCTGATGACAACCTAAGACTCGATGCTAA
AAAATTACAAAAATACCCTTATAGGCATACCTTCGACGTAAAAGTATCCCGGCAACCCTAATGGA
AACTAAAAGATTAAAGAAAGAACAAACCTATCCTAAACACCCACCTCCAGCATAAAAGAGGACCC
ACTAACAACCTAGGACTCAGTTCTAAAAAAATTACAAAAATGCCATTAAGGG
Found at i:114358 original size:156 final size:157
Alignment explanation
Indices: 113681--114340 Score: 617
Period size: 157 Copynumber: 4.2 Consensus size: 157
113671 CCCTATTAGT
* * * * * * * *
113681 ATACCGTCGAC-ATGAAAGTATCTTGGTAACCTTAGTGGACACTAAAAGATTATAAAAAGAATGA
1 ATACCTTCGACTA-GAAAGTATCTCGGCAACCCTAATGGACACTAAAAGATTATAGAAAGGACGA
* *** * * * * * * *
113745 ACTTATCCTAAATACCCACCTTTGGCATAAAA-ATAGA-TCTGATGATAACCTAAGACTCGATGC
65 ACCTATCCTAAATACCCACCTCCAGCATAAAAGA-GGACTCAG-TGACAACCTAGGACTTGGTTC
* * *
113808 T--AAAAAATTACGAAAATACCCTTATGGG
128 TAAAAAAAATTACAAAAATGCCCTTAAGGG
* * *
113836 TATACCTTCGACGTA-AAAGTATCTCGGCAACCCTAATGGAAACTAAAAGATTAAAGAAAGGATG
1 -ATACCTTCGAC-TAGAAAGTATCTCGGCAACCCTAATGGACACTAAAAGATTATAGAAAGGACG
* * * * *
113900 AATCTATCCTAAATACCCACCTTCGGCATAAAAGAGGACCCAGTGACAACCTAGGACTTGGTTTT
64 AACCTATCCTAAATACCCACCTCCAGCATAAAAGAGGACTCAGTGACAACCTAGGACTTGGTTCT
* * * *
113965 AAAAAAAATTACGAAAATGCCATTGAGGT
129 AAAAAAAATTACAAAAATGCCCTTAAGGG
* * * *
113994 ATATCTTCGACCT-GAAAGTATCTCGGTAACCCTAGTGGACACTACAAGATTATAGAAAGGACGA
1 ATACCTTCGA-CTAGAAAGTATCTCGGCAACCCTAATGGACACTAAAAGATTATAGAAAGGACGA
* * *
114058 ACCTATCCTAAATATCCACCATCGA-CATAAAAAGCGGA-TCTAGTGACAACCTAGGACTTGGTT
65 ACCTATCCTAAATACCCACC-TCCAGCAT-AAAAGAGGACTC-AGTGACAACCTAGGACTTGGTT
* *
114121 CTAAAAAAAATTACAAAAATG-CCTTTAGGC
127 CTAAAAAAAATTACAAAAATGCCCTTAAGGG
* * * * * * * *
114151 ATATCTTCGACTTGAAAGTATCCCGGTAACCCTAGTGGACACTAAAAGATTATAGAATGAACAAA
1 ATACCTTCGACTAGAAAGTATCTCGGCAACCCTAATGGACACTAAAAGATTATAGAAAGGACGAA
* * * **
114216 CCTATCCTAAACACCCACCTCCAGCATAAAAGAGGACTCACTAACAACCTAGGACTCAGTTCT-A
66 CCTATCCTAAATACCCACCTCCAGCATAAAAGAGGACTCAGTGACAACCTAGGACTTGGTTCTAA
*
114280 AGAAAATTACAAAAATGCCCTTAAGGG
131 AAAAAATTACAAAAATGCCCTTAAGGG
*
114307 ATACCTTCGACATAG-AAGTATCT-GGCACCCCTAA
1 ATACCTTCGAC-TAGAAAGTATCTCGGCAACCCTAA
114341 AAGGCTCGAA
Statistics
Matches: 421, Mismatches: 67, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
155 25 0.06
156 156 0.37
157 166 0.39
158 74 0.18
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (157 bp):
ATACCTTCGACTAGAAAGTATCTCGGCAACCCTAATGGACACTAAAAGATTATAGAAAGGACGAA
CCTATCCTAAATACCCACCTCCAGCATAAAAGAGGACTCAGTGACAACCTAGGACTTGGTTCTAA
AAAAAATTACAAAAATGCCCTTAAGGG
Found at i:116379 original size:165 final size:165
Alignment explanation
Indices: 116195--116568 Score: 438
Period size: 165 Copynumber: 2.3 Consensus size: 165
116185 ATGGGAGTCT
* * ** *
116195 AATAATAATATTAGATGAATTTAAAAAATTTTAAGTCAAGAAAAGTCC-CCCAAAAATATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATTTTAAACCAAGAAAA-TCCTCCCAAAAACATTTACG
* * * *
116259 TAGTAAAAAAC-TCGAT-TTTTCGAGAATATTGG-CATTTCAAAG-AAAAAATGAAAAACTC-AT
65 GAGTAAAAAACTTC-ATATTTTAGA-AACA-TGGTAATTT-AAAGAAAAAAATGAAAAA-TCAAT
* * * *
116319 GAAAATGAATG-AATTTTTCAAAATTGATTTAATATGAATTA
125 G-AAATAAAAGAAATTTTTCAAAAATGATTTAATATAAATTA
* * * **
116360 AATGATGATATTTGATGAATTTTAAAAATTATAAACCAAGAAAATCCTCTTAAAAACATTTACGG
1 AATAATAATATTTGATGAATTTTAAAAATTTTAAACCAAGAAAATCCTCCCAAAAACATTTACGG
* *
116425 AGTAGAAAACTTCATATTTTAGAAACATGGTAATTTTAAGAAAAAAATGAAAAATCAATGAAATA
66 AGTAAAAAACTTCATATTTTAGAAACATGGTAATTTAAAGAAAAAAATGAAAAATCAATGAAATA
*
116490 AAAGAAATTTTTTAAAAATGATTTAATATAAATTA
131 AAAGAAATTTTTCAAAAATGATTTAATATAAATTA
*
116525 AATAATAATATTTGATGAATTTTAAAAATTTTAAACTAAGAAAA
1 AATAATAATATTTGATGAATTTTAAAAATTTTAAACCAAGAAAA
116569 ATCTCTGTCA
Statistics
Matches: 177, Mismatches: 25, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
164 18 0.10
165 151 0.85
166 8 0.05
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.32
Consensus pattern (165 bp):
AATAATAATATTTGATGAATTTTAAAAATTTTAAACCAAGAAAATCCTCCCAAAAACATTTACGG
AGTAAAAAACTTCATATTTTAGAAACATGGTAATTTAAAGAAAAAAATGAAAAATCAATGAAATA
AAAGAAATTTTTCAAAAATGATTTAATATAAATTA
Found at i:116693 original size:167 final size:164
Alignment explanation
Indices: 116301--116726 Score: 438
Period size: 167 Copynumber: 2.6 Consensus size: 164
116291 CATTTCAAAG
* * * *
116301 AAAAAATGAAAAACTCATGAAAATGAATG-AATTTTTCAAAATTGATTTAATATGAATTAAATGA
1 AAAAAATG-AAAACTCATG-AAATAAAAGAAATTTTTAAAAATTGATTTAATATAAATTAAATGA
* *
116365 TGATATTTGATGAATTTTAAAAATTATAAACCAAGAAAATCCTCTTAAAAACATTTACGGAGTAG
64 TGATATTTGATGAATTTTAAAAATTATAAACCAAGAAAATCCTCTTAAAAACACTTACGGAGAAG
* **
116430 AAAACTTCATATTTTAGAAACATGGTAATTTTAAGA
129 AAAACTTCATATTTTAGAAACATGGTAACTCCAAGA
* *
116466 AAAAAATGAAAAATCAATGAAATAAAAGAAATTTTTTAAAAA-TGATTTAATATAAATTAAATAA
1 AAAAAATGAAAACTC-ATGAAATAAAAGAAA-TTTTTAAAAATTGATTTAATATAAATTAAATGA
* * * *
116530 TAATATTTGATGAATTTTAAAAATTTTAAACTAAGAAAAAT-CTCTGTCAAAAATACTTACGGAG
64 TGATATTTGATGAATTTTAAAAATTATAAACCAAG-AAAATCCTCT-T-AAAAACACTTACGGAG
* **
116594 AAGGAAACTTTGTATTTT-GAAA-ATAAGAG-AGACTCCAA-A
126 AAGAAAACTTCATATTTTAGAAACAT--G-GTA-ACTCCAAGA
* * ** *
116633 AGAAAATCAATAACTCATGAAATAAAAGAAATTTTTAAAAATTGATTGCATGGT-AATTAAATGA
1 AAAAAATGAA-AACTCATGAAATAAAAGAAATTTTTAAAAATTGATTTAAT-ATAAATTAAATGA
* * *
116697 TGATATTTAAAGAATTTT-AAAATTAAAAAC
64 TGATATTTGATGAATTTTAAAAATTATAAAC
116727 TTGAAAAAAT
Statistics
Matches: 218, Mismatches: 30, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
164 13 0.06
165 71 0.33
166 39 0.18
167 85 0.39
168 10 0.05
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (164 bp):
AAAAAATGAAAACTCATGAAATAAAAGAAATTTTTAAAAATTGATTTAATATAAATTAAATGATG
ATATTTGATGAATTTTAAAAATTATAAACCAAGAAAATCCTCTTAAAAACACTTACGGAGAAGAA
AACTTCATATTTTAGAAACATGGTAACTCCAAGA
Found at i:126451 original size:33 final size:33
Alignment explanation
Indices: 126414--126488 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
126404 AGAGTTGATC
* *
126414 ACTTCACTTTTGCAGTGCATGGATGAGCACTTT
1 ACTTCACTTTCGCAGCGCATGGATGAGCACTTT
126447 ACTTCACTTTCGCAGCGCATGGATGAGCACTTT
1 ACTTCACTTTCGCAGCGCATGGATGAGCACTTT
*
126480 AGTTCACTT
1 ACTTCACTT
126489 AACCGATGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (33 bp):
ACTTCACTTTCGCAGCGCATGGATGAGCACTTT
Found at i:126870 original size:24 final size:25
Alignment explanation
Indices: 126824--126870 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
126814 AGGGAGAAAT
* *
126824 AAAATTTTTTTAAACAATAAGGGAG
1 AAAAATTTTTGAAACAATAAGGGAG
*
126849 AAAAATTTTTGAAA-AATGAGGG
1 AAAAATTTTTGAAACAATAAGGG
126871 CCTTAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.49, C:0.02, G:0.19, T:0.30
Consensus pattern (25 bp):
AAAAATTTTTGAAACAATAAGGGAG
Found at i:127063 original size:20 final size:21
Alignment explanation
Indices: 127016--127068 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
127006 GCCAATGACC
**
127016 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
127037 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
127057 TGTATCGATACA
1 TGTATCGATACA
127069 AGGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:127076 original size:13 final size:13
Alignment explanation
Indices: 127058--127082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127048 ATTTGGTCAT
127058 GTATCGATACAAG
1 GTATCGATACAAG
127071 GTATCGATACAA
1 GTATCGATACAA
127083 TGCAATCTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (13 bp):
GTATCGATACAAG
Found at i:127096 original size:20 final size:20
Alignment explanation
Indices: 127071--127120 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
127061 TCGATACAAG
*
127071 GTATCGATACAATGCAATCT
1 GTATCGATACAATGAAATCT
* * *
127091 GTATCGATACATTTAAATGT
1 GTATCGATACAATGAAATCT
127111 GTATCGATAC
1 GTATCGATAC
127121 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
GTATCGATACAATGAAATCT
Found at i:128821 original size:48 final size:48
Alignment explanation
Indices: 128766--128861 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
128756 AAATTTTACG
128766 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
128814 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
128862 TTATCTCCCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.38
Consensus pattern (48 bp):
AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
Found at i:130711 original size:13 final size:13
Alignment explanation
Indices: 130693--130731 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
130683 ATAATCACCC
*
130693 TGTATCGATACAG
1 TGTATCGATACAA
130706 TGTATCGATACAA
1 TGTATCGATACAA
130719 TGTATCGATACAA
1 TGTATCGATACAA
130732 GGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:132828 original size:15 final size:15
Alignment explanation
Indices: 132808--132838 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
132798 ATTTCGTTTG
*
132808 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
132823 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
132838 G
1 G
132839 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:136918 original size:13 final size:13
Alignment explanation
Indices: 136900--136924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136890 CAATTTTTTG
136900 TGTATCGATACAT
1 TGTATCGATACAT
136913 TGTATCGATACA
1 TGTATCGATACA
136925 AGTTTGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:136991 original size:20 final size:20
Alignment explanation
Indices: 136966--137038 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
136956 CATCCTTTTT
136966 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
136986 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
137007 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
137027 ATGTATCGATAC
1 ATGTATCGATAC
137039 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:137011 original size:21 final size:21
Alignment explanation
Indices: 136945--137021 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
136935 CTGCCAAGAA
*
136945 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
136966 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
136986 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
137007 ATGTATCGATACATT
1 ATGTATCGATACATT
137022 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:137011 original size:41 final size:41
Alignment explanation
Indices: 136945--137038 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
136935 CTGCCAAGAA
136945 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
136986 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
137027 ATGTATCGATAC
1 ATGTATCGATAC
137039 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:138400 original size:20 final size:21
Alignment explanation
Indices: 138371--138411 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
138361 TGTGTTTGTT
138371 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
138390 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
138412 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:144769 original size:13 final size:13
Alignment explanation
Indices: 144751--144775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144741 CATTTTGTGG
144751 TGTATCGATACAA
1 TGTATCGATACAA
144764 TGTATCGATACA
1 TGTATCGATACA
144776 TATTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:144794 original size:32 final size:33
Alignment explanation
Indices: 144728--144795 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
144718 CGTTACAAGC
* *
144728 CAATGTATCGATACATTTTGTGGTGTATCGATA
1 CAATGTATCGATACATATTGTGGTGTATCAATA
144761 CAATGTATCGATACATATTGT-GTGTATCAATA
1 CAATGTATCGATACATATTGTGGTGTATCAATA
144793 CAA
1 CAA
144796 ATTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATATTGTGGTGTATCAATA
Found at i:144907 original size:20 final size:20
Alignment explanation
Indices: 144882--144931 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
144872 TCGATATAAG
*
144882 GTATCGATACAATGCAATCT
1 GTATCGATACAATGAAATCT
* * *
144902 GTATCGATACATTTAAATGT
1 GTATCGATACAATGAAATCT
144922 GTATCGATAC
1 GTATCGATAC
144932 TTTTTAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
GTATCGATACAATGAAATCT
Found at i:150868 original size:21 final size:21
Alignment explanation
Indices: 150844--150892 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
150834 ATCAAATCTT
* * *
150844 CTTCAAATTTCTTATTTTTCA
1 CTTCAAAATACTTAATTTTCA
150865 CTTCAAAATACTTAATTTTCA
1 CTTCAAAATACTTAATTTTCA
150886 --TCAAAAT
1 CTTCAAAAT
150893 CATCAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.28
21 18 0.72
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (21 bp):
CTTCAAAATACTTAATTTTCA
Found at i:153230 original size:19 final size:18
Alignment explanation
Indices: 153202--153259 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
153192 TTGTATTGAT
*
153202 ACATTATATCGATACATG
1 ACATTGTATCGATACATG
*
153220 TTCATTGTATCGATACATAG
1 -ACATTGTATCGATACAT-G
153240 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
153259 A
1 A
153260 AACTGGCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:153351 original size:33 final size:33
Alignment explanation
Indices: 153290--153352 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
153280 CCACTGTTTG
* *
153290 TATCGATACATGGTACATTATATTGATACAATA
1 TATCGATACATGATACATTATATCGATACAATA
*
153323 TATCGATACATGATGA-ATTGTATCGATACA
1 TATCGATACATGAT-ACATTATATCGATACA
153353 TTGCTTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (33 bp):
TATCGATACATGATACATTATATCGATACAATA
Found at i:154299 original size:20 final size:20
Alignment explanation
Indices: 154274--154325 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
154264 ATACTTCAAA
154274 GTATTGATACATAGGTATTT
1 GTATTGATACATAGGTATTT
154294 GTATTGATACATAGGTATTT
1 GTATTGATACATAGGTATTT
154314 GTATTGATACAT
1 GTATTGATACAT
154326 TATGGTTGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (20 bp):
GTATTGATACATAGGTATTT
Found at i:154421 original size:13 final size:13
Alignment explanation
Indices: 154403--154429 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
154393 ACATTAAGCT
154403 TTGTATCGATACA
1 TTGTATCGATACA
154416 TTGTATCGATACA
1 TTGTATCGATACA
154429 T
1 T
154430 GTTCATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:154441 original size:19 final size:19
Alignment explanation
Indices: 154414--154468 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
154404 TGTATCGATA
* *
154414 CATTGTATCGATACATGTT
1 CATTATATCGATACATGGT
154433 CATTATATCGATACATGGT
1 CATTATATCGATACATGGT
154452 CATTATATCGATACATG
1 CATTATATCGATACATG
154469 AAACTGGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (19 bp):
CATTATATCGATACATGGT
Found at i:154541 original size:20 final size:21
Alignment explanation
Indices: 154497--154548 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
154487 CTACCACTGT
*
154497 TTGTATCGATACGTGGCACAA
1 TTGTATCGATACGTGGAACAA
*
154518 -TGTATCGATACGT-GAAGAA
1 TTGTATCGATACGTGGAACAA
154537 TTGTATCGATAC
1 TTGTATCGATAC
154549 ATTGCCTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACGTGGAACAA
Found at i:155371 original size:27 final size:27
Alignment explanation
Indices: 155340--155397 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
155330 ATATCTTGAG
*
155340 TGTTATATCAAAACCAATATTAATACT
1 TGTTATATCAAAACCAATATTAAAACT
* *
155367 TGTTATATTAAGACCAATATTAAAACT
1 TGTTATATCAAAACCAATATTAAAACT
155394 TGTT
1 TGTT
155398 TAACAATCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (27 bp):
TGTTATATCAAAACCAATATTAAAACT
Found at i:157515 original size:48 final size:49
Alignment explanation
Indices: 157443--157550 Score: 121
Period size: 48 Copynumber: 2.2 Consensus size: 49
157433 ACATTAGTAT
* *
157443 TGTATCGACACAAATTGCATTGTATCAATACAATT-TGG-AAAACCCAGA
1 TGTATCGATACAAATTACATTGTATCAATAC-ATTCTGGAAAAACCCAGA
* * * ***
157491 TGTATCGATACAAGTTACTTTGTATCGATACATTCTGGAAAAATTTAGA
1 TGTATCGATACAAATTACATTGTATCAATACATTCTGGAAAAACCCAGA
157540 TGTATCGATAC
1 TGTATCGATAC
157551 TTTGAACAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
47 3 0.06
48 29 0.58
49 18 0.36
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (49 bp):
TGTATCGATACAAATTACATTGTATCAATACATTCTGGAAAAACCCAGA
Found at i:160788 original size:19 final size:20
Alignment explanation
Indices: 160744--160797 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
160734 CTGCCAATTT
**
160744 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
160764 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
160783 CATGTATCGATACAA
1 CATGTATCGATACAA
160798 AGCAAGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:161381 original size:14 final size:15
Alignment explanation
Indices: 161353--161389 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
161343 TTAAGTAAGG
161353 AATTTCTCAAAAAAA
1 AATTTCTCAAAAAAA
161368 AATTTCTC-AAAAAA
1 AATTTCTCAAAAAAA
161382 AATTTCTC
1 AATTTCTC
161390 CCCCTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (15 bp):
AATTTCTCAAAAAAA
Found at i:161445 original size:21 final size:21
Alignment explanation
Indices: 161384--161446 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
161374 TCAAAAAAAA
161384 TTTCTCCCCC-TTA-AACG-AT
1 TTTCTCCCCCTTTATAA-GAAT
* *
161403 TATCTCCCCCTATATGAA-AAT
1 TTTCTCCCCCTTTAT-AAGAAT
161424 TTTCTCCCCCTTTATAAGAAT
1 TTTCTCCCCCTTTATAAGAAT
161445 TT
1 TT
161447 AGTTTCACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 9 0.26
20 4 0.11
21 20 0.57
22 2 0.06
ACGTcount: A:0.25, C:0.30, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTCTCCCCCTTTATAAGAAT
Found at i:161619 original size:17 final size:17
Alignment explanation
Indices: 161597--161632 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
161587 AAAAATGAAT
*
161597 AAGTACGACTAATTCTA
1 AAGTACGACTAATCCTA
161614 AAGTACGACTAATCCTA
1 AAGTACGACTAATCCTA
161631 AA
1 AA
161633 AACGAAGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (17 bp):
AAGTACGACTAATCCTA
Found at i:169344 original size:20 final size:19
Alignment explanation
Indices: 169315--169379 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
169305 ATTACAAGCT
169315 ATGT-TCGATACATTTTATC
1 ATGTATCGATACA-TTTATC
169334 ATGTATCGATAC----A--
1 ATGTATCGATACATTTATC
169347 ATGTATCGATACATTTCATC
1 ATGTATCGATACATTT-ATC
169367 ATGTATCGATACA
1 ATGTATCGATACA
169380 ATGTATCTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
13 12 0.32
15 1 0.03
18 1 0.03
19 4 0.11
20 20 0.53
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATTTATC
Found at i:169352 original size:13 final size:13
Alignment explanation
Indices: 169334--169397 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
169324 ACATTTTATC
169334 ATGTATCGATACA
1 ATGTATCGATACA
169347 ATGTATCGATAC-
1 ATGTATCGATACA
169359 AT-T-TC-AT-C-
1 ATGTATCGATACA
169367 ATGTATCGATACA
1 ATGTATCGATACA
*
169380 ATGTATCTATACA
1 ATGTATCGATACA
*
169393 TTGTA
1 ATGTA
169398 CCAGGTATTG
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 3 0.07
9 3 0.07
10 4 0.09
11 3 0.07
12 3 0.07
13 28 0.64
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:169356 original size:33 final size:33
Alignment explanation
Indices: 169315--169413 Score: 137
Period size: 33 Copynumber: 3.0 Consensus size: 33
169305 ATTACAAGCT
169315 ATGT-TCGATACATTTTATCATGTATCGATACA
1 ATGTATCGATACATTTTATCATGTATCGATACA
*
169347 ATGTATCGATACATTTCATCATGTATCGATACA
1 ATGTATCGATACATTTTATCATGTATCGATACA
* * * * *
169380 ATGTATCTATACATTGTACCAGGTATTGATACA
1 ATGTATCGATACATTTTATCATGTATCGATACA
169413 A
1 A
169414 ATAGTGACAG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
32 4 0.07
33 55 0.93
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACATTTTATCATGTATCGATACA
Found at i:174277 original size:43 final size:43
Alignment explanation
Indices: 174169--174395 Score: 135
Period size: 43 Copynumber: 5.3 Consensus size: 43
174159 GGGCTACCCA
* * * *
174169 GGACTAAGCCGACAGGTAACCAAAGGATACAAAAG-TTGA-TCG
1 GGACTAAGCTGACAGGTAAACAAAGGATA-AAAGGATTTACTCG
* * * * *
174211 AGATTAAAACTGACAAGTTAACAAAGGATAAAAGGATTTACTCG
1 GGACT-AAGCTGACAGGTAAACAAAGGATAAAAGGATTTACTCG
* * * *
174255 GGACTAAGCTGATAGGTAAACAAAAGATAAAGAGG-TTGAC-CA
1 GGACTAAGCTGACAGGTAAACAAAGGATAAA-AGGATTTACTCG
* * * * ** * * *
174297 AGATTAAACCGACAAATCAACAAAGGATAAGAGGATTTACTTG
1 GGACTAAGCTGACAGGTAAACAAAGGATAAAAGGATTTACTCG
*
174340 GGACTAAGCCT-ACAGGTAAACAAAGGATAAAGAGG-TTGACT-G
1 GGACTAAG-CTGACAGGTAAACAAAGGATAAA-AGGATTTACTCG
* *
174382 GGATTAAACTGACA
1 GGACTAAGCTGACA
174396 AGTTAATAAG
Statistics
Matches: 134, Mismatches: 42, Indels: 18
0.69 0.22 0.09
Matches are distributed among these distances:
41 5 0.04
42 43 0.32
43 73 0.54
44 13 0.10
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (43 bp):
GGACTAAGCTGACAGGTAAACAAAGGATAAAAGGATTTACTCG
Found at i:174387 original size:85 final size:85
Alignment explanation
Indices: 174169--174396 Score: 282
Period size: 85 Copynumber: 2.7 Consensus size: 85
174159 GGGCTACCCA
* * * * *
174169 GGACTAAGCCGACAGGTAACCAAAGGATACAA-AAGTTGA-TCGAGATTAAAACTGACAAGTTAA
1 GGACTAAGCCTACAGGTAAACAAAGGATA-AAGAGGTTGACT-GAGATT-AAACTGACAAATCAA
174232 CAAAGGATAAAAGGATTTACTCG
63 CAAAGGATAAAAGGATTTACTCG
* * ** *
174255 GGACTAAG-CTGATAGGTAAACAAAAGATAAAGAGGTTGACCAAGATTAAACCGACAAATCAACA
1 GGACTAAGCCT-ACAGGTAAACAAAGGATAAAGAGGTTGACTGAGATTAAACTGACAAATCAACA
* *
174319 AAGGATAAGAGGATTTACTTG
65 AAGGATAAAAGGATTTACTCG
*
174340 GGACTAAGCCTACAGGTAAACAAAGGATAAAGAGGTTGACTGGGATTAAACTGACAA
1 GGACTAAGCCTACAGGTAAACAAAGGATAAAGAGGTTGACTGAGATTAAACTGACAA
174397 GTTAATAAGA
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
85 84 0.70
86 36 0.30
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.18
Consensus pattern (85 bp):
GGACTAAGCCTACAGGTAAACAAAGGATAAAGAGGTTGACTGAGATTAAACTGACAAATCAACAA
AGGATAAAAGGATTTACTCG
Found at i:174669 original size:55 final size:55
Alignment explanation
Indices: 174583--174697 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 55
174573 TAGTCAAATA
* *
174583 ATGATAGAAAGAACTTGACCAGATACGGTCAAACAATGATGAAAAGGGGTTGACT
1 ATGATAGAAAGAACTTGACCAGATACAGTCAAACAATGATGAAAAGAGGTTGACT
* ** * * *
174638 ATGATAGAGAGAGTTTGCCCAGATACAGTCAAATAATGATGAAAAGAGTTTGACT
1 ATGATAGAAAGAACTTGACCAGATACAGTCAAACAATGATGAAAAGAGGTTGACT
174693 A-GATA
1 ATGATA
174698 CAGCTAAATG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
54 4 0.08
55 48 0.92
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (55 bp):
ATGATAGAAAGAACTTGACCAGATACAGTCAAACAATGATGAAAAGAGGTTGACT
Found at i:174686 original size:35 final size:35
Alignment explanation
Indices: 174647--174997 Score: 300
Period size: 35 Copynumber: 10.0 Consensus size: 35
174637 TATGATAGAG
* *
174647 AGAGTTTGCCCAGATACAGTCAAATAATGATGAAA
1 AGAGTTTGACCAGATACAGTCAAATGATGATGAAA
*
174682 AGAGTTTGACTAGATACAG-CTAAATGATGATGAAA
1 AGAGTTTGACCAGATACAGTC-AAATGATGATGAAA
* * *
174717 AGGGTTTGACCAGATACAATCAAATGATAATGAAA
1 AGAGTTTGACCAGATACAGTCAAATGATGATGAAA
* * * *
174752 AGAGTTTGACAAGATATAGTTAAATGATGATGGAA
1 AGAGTTTGACCAGATACAGTCAAATGATGATGAAA
* * *
174787 AGAGTTTTGACCAAATATAGCCAAATGATGATGAAA
1 AGAG-TTTGACCAGATACAGTCAAATGATGATGAAA
* * * *
174823 AAAGTTTGACTAGATATAG-CTAAACGATGATGAAA
1 AGAGTTTGACCAGATACAGTC-AAATGATGATGAAA
* * ** * *
174858 A-ACGTTTGACCAGCTATAACCAAACGGTGATGGAAA
1 AGA-GTTTGACCAGATACAGTCAAATGATGAT-GAAA
* * ** *
174894 A-AGTTTGACTAGATATAACCAAACGATGATGAAA
1 AGAGTTTGACCAGATACAGTCAAATGATGATGAAA
* * * * *
174928 AGAGTTTGACTAGATTCA-TCCAAACGTTGATTAAA
1 AGAGTTTGACCAGATACAGT-CAAATGATGATGAAA
*
174963 AGAGTTTGACTAGATACAGTCAAATGATGA-GAAA
1 AGAGTTTGACCAGATACAGTCAAATGATGATGAAA
174997 A
1 A
174998 TTTGATTGAG
Statistics
Matches: 267, Mismatches: 39, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
34 12 0.04
35 217 0.81
36 38 0.14
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (35 bp):
AGAGTTTGACCAGATACAGTCAAATGATGATGAAA
Found at i:174719 original size:90 final size:90
Alignment explanation
Indices: 174561--174726 Score: 219
Period size: 90 Copynumber: 1.8 Consensus size: 90
174551 ACGAAAAAAA
* *
174561 TTTGACCAGATATAGTCAAATAATGATAGAAAGAACTTGACCAGATACGGTCAAACAATGATGAA
1 TTTGACCAGATACAGTCAAATAATGATAGAAAGAACTTGACCAGATACGCTCAAACAATGATGAA
174626 AAGGGGTTGACTATGATAGAGAGAG
66 AAGGGGTTGACTATGATAGAGAGAG
* ** * **
174651 TTTGCCCAGATACAGTCAAATAATGAT-GAAAAGAGTTTGACTAGATACAGCT-AAATGATGATG
1 TTTGACCAGATACAGTCAAATAATGATAG-AAAGAACTTGACCAGATAC-GCTCAAACAATGATG
*
174714 AAAAGGGTTTGAC
64 AAAAGGGGTTGAC
174727 CAGATACAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 1 0.02
90 62 0.95
91 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.24
Consensus pattern (90 bp):
TTTGACCAGATACAGTCAAATAATGATAGAAAGAACTTGACCAGATACGCTCAAACAATGATGAA
AAGGGGTTGACTATGATAGAGAGAG
Found at i:174750 original size:70 final size:70
Alignment explanation
Indices: 174650--174997 Score: 344
Period size: 70 Copynumber: 5.0 Consensus size: 70
174640 GATAGAGAGA
* * * *
174650 GTTTGCCCAGATACAGTCAAATAATGATGAAAAGAGTTTGACTAGATACAGCTAAATGATGATGA
1 GTTTGACCAGATACAATCAAATGATGATGAAAAGAGTTTGACTAGATATAGCTAAATGATGATGA
174715 AAAGG
66 AAAGG
* * * *
174720 GTTTGACCAGATACAATCAAATGATAATGAAAAGAGTTTGACAAGATATAGTTAAATGATGATGG
1 GTTTGACCAGATACAATCAAATGATGATGAAAAGAGTTTGACTAGATATAGCTAAATGATGATGA
174785 AAAGAG
66 AAAG-G
* * * ** * *
174791 TTTTGACCAAATATAGCCAAATGATGATGAAAAAAGTTTGACTAGATATAGCTAAACGATGATGA
1 GTTTGACCAGATACAATCAAATGATGATGAAAAGAGTTTGACTAGATATAGCTAAATGATGATGA
**
174856 AAAAC
66 AAAGG
* * * * * * * *
174861 GTTTGACCAGCTATAACCAAACGGTGATGGAAAA-AGTTTGACTAGATATAACCAAACGATGATG
1 GTTTGACCAGATACAATCAAATGATGAT-GAAAAGAGTTTGACTAGATATAGCTAAATGATGATG
*
174925 AAAAGA
65 AAAAGG
* * * * * *
174931 GTTTGACTAGATTC-ATCCAAACGTTGATTAAAAGAGTTTGACTAGATACAG-TCAAATGATGA-
1 GTTTGACCAGATACAAT-CAAATGATGATGAAAAGAGTTTGACTAGATATAGCT-AAATGATGAT
174993 GAAAA
64 GAAAA
174998 TTTGATTGAG
Statistics
Matches: 231, Mismatches: 42, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
69 10 0.04
70 158 0.68
71 63 0.27
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (70 bp):
GTTTGACCAGATACAATCAAATGATGATGAAAAGAGTTTGACTAGATATAGCTAAATGATGATGA
AAAGG
Found at i:174922 original size:141 final size:140
Alignment explanation
Indices: 174647--174997 Score: 377
Period size: 141 Copynumber: 2.5 Consensus size: 140
174637 TATGATAGAG
* * * * * *
174647 AGAGTTTGCCCAGATACAGTCAAATAATGATGAAAAGAGTTTGACTAGATACAGCTAAATGATGA
1 AGAGTTTGACCAAATTCAGCCAAATGATGATGAAAAGAGTTTGACTAGATACAGCTAAACGATGA
** * * *** *
174712 TGAAAAGGGTTTGACCAGATACAATCAAATGATAATGAAAAGAGTTTGACAAGATATAGTTAAAT
66 TGAAAAACGTTTGACCAGATACAACCAAACGATAATGAAAAGAGTTTGACAAGATATAACCAAAC
*
174777 GATGATGGAA
131 GATGATGAAA
* *
174787 AGAGTTTTGACCAAATAT-AGCCAAATGATGATGAAAAAAGTTTGACTAGATATAGCTAAACGAT
1 AGAG-TTTGACCAAAT-TCAGCCAAATGATGATGAAAAGAGTTTGACTAGATACAGCTAAACGAT
* * * * *
174851 GATGAAAAACGTTTGACCAGCTATAACCAAACGGTGATGGAAAA-AGTTTGACTAGATATAACCA
64 GATGAAAAACGTTTGACCAGATACAACCAAACGATAAT-GAAAAGAGTTTGACAAGATATAACCA
174915 AACGATGATGAAA
128 AACGATGATGAAA
* * * * * * *
174928 AGAGTTTGACTAGATTCATCCAAACGTTGATTAAAAGAGTTTGACTAGATACAG-TCAAATGATG
1 AGAGTTTGACCAAATTCAGCCAAATGATGATGAAAAGAGTTTGACTAGATACAGCT-AAACGATG
174992 A-GAAAA
65 ATGAAAA
174998 TTTGATTGAG
Statistics
Matches: 175, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
139 7 0.04
140 52 0.30
141 111 0.63
142 5 0.03
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (140 bp):
AGAGTTTGACCAAATTCAGCCAAATGATGATGAAAAGAGTTTGACTAGATACAGCTAAACGATGA
TGAAAAACGTTTGACCAGATACAACCAAACGATAATGAAAAGAGTTTGACAAGATATAACCAAAC
GATGATGAAA
Found at i:175056 original size:30 final size:29
Alignment explanation
Indices: 174961--175071 Score: 75
Period size: 30 Copynumber: 3.7 Consensus size: 29
174951 ACGTTGATTA
*
174961 AAAGAGTTTGACT-AGATACAGTCAAATGATGAG
1 AAAGA-TTTGACTGA-ATATAGTC-AATGA-G-G
* * *
174994 AAA-ATTTGATTGAGTA-AGTCCAATGATG
1 AAAGATTTGACTGAATATAGT-CAATGAGG
175022 AAAGATTTGACTGAATATAGTCAAGTGAGG
1 AAAGATTTGACTGAATATAGTCAA-TGAGG
* * *
175052 AAAGACTTGACCGAGTATAG
1 AAAGATTTGACTGAATATAG
175072 CTGAGCAGAG
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
28 4 0.06
29 14 0.22
30 32 0.50
31 9 0.14
32 2 0.03
33 3 0.05
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (29 bp):
AAAGATTTGACTGAATATAGTCAATGAGG
Found at i:177647 original size:21 final size:21
Alignment explanation
Indices: 177599--177647 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
177589 GAGATGTTGG
*
177599 ACATA-CTAAAAATGCATAAA
1 ACATAGCTCAAAATGCATAAA
*
177619 ACCTAGCTCAAAATGCAT-AA
1 ACATAGCTCAAAATGCATAAA
177639 ACATGAGCT
1 ACAT-AGCT
177648 GTTTAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.20
Consensus pattern (21 bp):
ACATAGCTCAAAATGCATAAA
Found at i:179469 original size:20 final size:20
Alignment explanation
Indices: 179425--179469 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
179415 GTTAACAGCC
179425 CATG-TTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
179444 CTATGTTTCATGCATTTAT-AG
1 C-ATGTTTCATGCATTT-TGAG
179465 CATGT
1 CATGT
179470 CCAGTAGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 7 0.30
21 14 0.61
22 1 0.04
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:182192 original size:21 final size:21
Alignment explanation
Indices: 182142--182193 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
182132 AATCGAGAAC
182142 GTATCGATAC-AATGAATAAT
1 GTATCGATACAAATGAATAAT
** *
182162 GTATTAATACAAAT-AGTAAAT
1 GTATCGATACAAATGAAT-AAT
182183 GTATCGATACA
1 GTATCGATACA
182194 TTTATTTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (21 bp):
GTATCGATACAAATGAATAAT
Found at i:182206 original size:20 final size:20
Alignment explanation
Indices: 182181--182249 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
182171 CAAATAGTAA
182181 ATGTATCGATACATTTATTT
1 ATGTATCGATACATTTATTT
***
182201 ATGTATCGATACATTTTAGGC
1 ATGTATCGATACA-TTTATTT
** *
182222 ATGTATTTATACATTCATTT
1 ATGTATCGATACATTTATTT
182242 ATGTATCG
1 ATGTATCG
182250 GTGCATTTAC
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (20 bp):
ATGTATCGATACATTTATTT
Found at i:182225 original size:21 final size:21
Alignment explanation
Indices: 182181--182236 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
182171 CAAATAGTAA
***
182181 ATGTATCGATACA-TTTATTT
1 ATGTATCGATACATTTTAGGC
182201 ATGTATCGATACATTTTAGGC
1 ATGTATCGATACATTTTAGGC
**
182222 ATGTATTTATACATT
1 ATGTATCGATACATT
182237 CATTTATGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.46
Consensus pattern (21 bp):
ATGTATCGATACATTTTAGGC
Found at i:183027 original size:61 final size:60
Alignment explanation
Indices: 182930--183350 Score: 227
Period size: 61 Copynumber: 7.2 Consensus size: 60
182920 TGCAACAATA
* * * * * *
182930 GACTTAAAGATGATAAGGATAAGAAGAGTGCCAATATGCTGATTCAAGG-TCAGTGACATTG
1 GACTTAAAGATGA-AAGAATGATAAAAGTGCTAATATGCTGATTCAAGGCT-AGCGACATTG
* * * * * * *
182991 GACTTAAGGATGCAAAGAATGATAAAAGTGCTAATATGTTGATTCACGACTAGCAATATCG
1 GACTTAAAGATG-AAAGAATGATAAAAGTGCTAATATGCTGATTCAAGGCTAGCGACATTG
* * * * * * * * *
183052 GGCTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATAATA
1 GACTTAAAGATGA-AAGAATGATAAAAGTGCTAATATGCTGATTCAAGGCTAGCGACATTG
* * *
183113 GTCTTAAAGATG--ACAA--AT----GTGCTAATGTGCTGATTCAAGGCTAGCGACATTG
1 GACTTAAAGATGAAAGAATGATAAAAGTGCTAATATGCTGATTCAAGGCTAGCGACATTG
* * * * *
183165 GACTTAAAGATGAGAAGAATGATAAAGGTATCT-ATATGCTAATTCAAGGCTAGAGATATTG
1 GACTTAAAGATGA-AAGAATGATAAAAGT-GCTAATATGCTGATTCAAGGCTAGCGACATTG
* * * * **
183226 GACTTAAAGATGACA-AA-G------GTGCTAATGA-GTTTATTCAAGGCCAATGACATTG
1 GACTTAAAGATGAAAGAATGATAAAAGTGCTAAT-ATGCTGATTCAAGGCTAGCGACATTG
* * * * * * *
183278 GACTTAAAGATGAGAAGAATGATAAAGGTG-TCGATATGATGATTCAAGGC-AACAATATTA
1 GACTTAAAGATGA-AAGAATGATAAAAGTGCT-AATATGCTGATTCAAGGCTAGCGACATTG
183338 GACTTAAAGATGA
1 GACTTAAAGATGA
183351 CAAAAGCATC
Statistics
Matches: 274, Mismatches: 60, Indels: 53
0.71 0.16 0.14
Matches are distributed among these distances:
51 2 0.01
52 73 0.27
53 2 0.01
54 2 0.01
55 4 0.01
56 2 0.01
57 2 0.01
58 4 0.01
59 2 0.01
60 23 0.08
61 154 0.56
62 4 0.01
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.26
Consensus pattern (60 bp):
GACTTAAAGATGAAAGAATGATAAAAGTGCTAATATGCTGATTCAAGGCTAGCGACATTG
Found at i:183171 original size:52 final size:52
Alignment explanation
Indices: 183070--183830 Score: 303
Period size: 52 Copynumber: 14.0 Consensus size: 52
183060 GATGAGAAGA
* * * * * * *
183070 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATAATAGTCTTAAAG
1 ATGACAAATGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * *
183122 ATGACAAATGTGCTAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAG
1 ATGACAAATGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * *
183174 ATGAGAAGAATGATAAAGGTATCTATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAG
1 ATGA-CA-AATG-T---GCTA---ATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * ** *
183235 ATGACAAAGGTGCTAATGA-GTTTATTCAAGGCCAATGACATTGGACTTAAAG
1 ATGACAAATGTGCTAAT-ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * * * *
183287 ATGAGAAGAATGATAAAGGTGTCGATATGATGATTCAAGG-CAACAATATTAGACTTAAAG
1 ATGA-CA-AATG-T----G-CT-AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * *
183347 ATGACAAA--AGC----AT-C-AATTCAAGGCCAGTGACATTGGACTTAAAG
1 ATGACAAATGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * *
183391 ATGAAAAGAATGATAAAGGTGTTGATATGCTGATTCAAGGCTAGCTATATTGGA-TTAAAG
1 ATG---ACAA--AT----GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * *
183451 ATGACAAAAGTGCCAATATGCTAATTCAAGGCCAGCGACATTAGACTTAAAG
1 ATGACAAATGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* ** * *
183503 ATGAAAAGAAAGATAAAGGTGCCGATATGCTAATTCAAGGCTAGCGATATTGGACTTAAAG
1 ATG---A-CAA-AT----GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * *
183564 ATGACAAA-GATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
1 ATGACAAATG-TGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * *
183616 ATGAAAAGAATGATAAAAGTGTCGATATGCTGATTCAAGGCCA-CAATATTGGACTTAAAG
1 ATG-ACA-AATG-T----G-CT-AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * * *
183676 ATGACAAAAGTGCCAATATGCTGATTTAATGCCAACGAAATTGGACTT-AAG
1 ATGACAAATGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * *
183727 AAAGA-AAAAGATGCTAATATGCTAATTCAAGGCCAACGGTATTGGACTT-AAG
1 -ATGACAAATG-TGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * * * *
183779 AAAGAAAAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGACTTAAA
1 -ATGACAAATGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
183831 AAGAGATGGT
Statistics
Matches: 539, Mismatches: 107, Indels: 125
0.70 0.14 0.16
Matches are distributed among these distances:
43 8 0.01
44 18 0.03
45 2 0.00
47 3 0.01
49 1 0.00
51 55 0.10
52 212 0.39
53 12 0.02
54 9 0.02
55 11 0.02
56 3 0.01
57 7 0.01
58 10 0.02
59 10 0.02
60 51 0.09
61 127 0.24
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (52 bp):
ATGACAAATGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
Found at i:183179 original size:113 final size:113
Alignment explanation
Indices: 183004--183830 Score: 831
Period size: 113 Copynumber: 7.5 Consensus size: 113
182994 TTAAGGATGC
* * * * * * * * * * * *
183004 AAAGAATGATAAAAGTGCTAATATGTTGATTCACGACTAGCAATATCGGGCTTGAAGATGAGAAG
1 AAAG-ATGACAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAG
* * * * * *
183069 AATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATAATAGTCTT
65 AATGATAAAGGTGTCGATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * *
183118 AAAGATGACAAATGTGCTAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAGAAGA
1 AAAGATGACAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGA
* * * * *
183183 ATGATAAAGGTATCTATATGCTAATTCAAGGCTAGAGATATTGGACTT
66 ATGATAAAGGTGTCGATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * ** *
183231 AAAGATGACAAAGGTGCTAATGA-GTTTATTCAAGGCCAATGACATTGGACTTAAAGATGAGAAG
1 AAAGATGACAAAAGTGCCAAT-ATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAG
* * * *
183295 AATGATAAAGGTGTCGATATGATGATTCAAGG-CAACAATATTAGACTT
65 AATGATAAAGGTGTCGATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
183343 AAAGATGACAAAA--G-C---AT-C-AATTCAAGGCCAGTGACATTGGACTTAAAGATGAAAAGA
1 AAAGATGACAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGA
* * *
183400 ATGATAAAGGTGTTGATATGCTGATTCAAGGCTAGCTATATTGGA-TT
66 ATGATAAAGGTGTCGATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
183447 AAAGATGACAAAAGTGCCAATATGCTAATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAGA
1 AAAGATGACAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGA
* * * *
183512 AAGATAAAGGTGCCGATATGCTAATTCAAGGCTAGCGATATTGGACTT
66 ATGATAAAGGTGTCGATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
183560 AAAGATGAC-AAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAG
1 AAAGATGACAAAAG-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAG
* *
183624 AATGATAAAAGTGTCGATATGCTGATTCAAGGCCA-CAATATTGGACTT
65 AATGATAAAGGTGTCGATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
183672 AAAGATGACAAAAGTGCCAATATGCTGATTTAATGCCAACGAAATTGGACTT--A-A-G-AAAG-
1 AAAGATGACAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGA
* * * * *
183731 A--A-AAAGATG-CTAATATGCTAATTCAAGGCCAACGGTATTGGACTT
66 ATGATAAAGGTGTC-GATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
183776 -AAGAAAGA-AAAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGACTTAAA
1 AAAG-ATGACAAAA-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
183831 AAGAGATGGT
Statistics
Matches: 612, Mismatches: 81, Indels: 48
0.83 0.11 0.06
Matches are distributed among these distances:
102 1 0.00
103 30 0.05
104 129 0.21
105 10 0.02
106 3 0.00
107 5 0.01
108 1 0.00
109 1 0.00
110 4 0.01
111 1 0.00
112 159 0.26
113 264 0.43
114 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.25
Consensus pattern (113 bp):
AAAGATGACAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGA
ATGATAAAGGTGTCGATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:183444 original size:61 final size:60
Alignment explanation
Indices: 183362--183679 Score: 294
Period size: 61 Copynumber: 5.5 Consensus size: 60
183352 AAAAGCATCA
* * **
183362 ATTCAAGGCCAGTGACATTGGACTTAAAGATGAAAAGAATGATAAAGGTGTTGATATGCTG
1 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAAGAATGATAAA-GTGCCGATATGCTG
* * * * *
183423 ATTCAAGGCTAGCTATATTGGA-TTAAAGAT-----G-A-CA-AAAGTGCCAATATGCTA
1 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAAGAATGATAAAGTGCCGATATGCTG
* * * *
183474 ATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAGAAAGATAAAGGTGCCGATATGCTA
1 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAAGAATGATAAA-GTGCCGATATGCTG
* * * *
183535 ATTCAAGGCTAGCGATATTGGACTTAAAGATG-ACA-AA-G----A-TGCCAATGTGCTG
1 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAAGAATGATAAAGTGCCGATATGCTG
* * *
183587 ATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAAGTGTCGATATGCTG
1 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAAGAATGAT-AAAGTGCCGATATGCTG
*
183648 ATTCAAGGCCA-CAATATTGGACTTAAAGATGA
1 ATTCAAGGCCAGCGATATTGGACTTAAAGATGA
183680 CAAAAGTGCC
Statistics
Matches: 207, Mismatches: 31, Indels: 39
0.75 0.11 0.14
Matches are distributed among these distances:
51 28 0.14
52 50 0.24
53 3 0.01
54 4 0.02
55 2 0.01
57 1 0.00
58 2 0.01
59 3 0.01
60 33 0.16
61 81 0.39
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (60 bp):
ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAAGAATGATAAAGTGCCGATATGCTG
Found at i:183509 original size:112 final size:113
Alignment explanation
Indices: 183361--183725 Score: 538
Period size: 112 Copynumber: 3.2 Consensus size: 113
183351 CAAAAGCATC
** *
183361 AATTCAAGGCCAGTGACATTGGACTTAAAGATGAAAAGAATGATAAAGGTGTTGATATGCTGATT
1 AATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAGGTGTCGATATGCTGATT
*
183426 CAAGGCTAGCTATATTGGA-TTAAAGATGACAAAAGTGCCAATATGCT
66 CAAGGCTAGCAATATTGGACTTAAAGATGACAAAAGTGCCAATATGCT
* * * * *
183473 AATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAGAAAGATAAAGGTGCCGATATGCTAATT
1 AATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAGGTGTCGATATGCTGATT
* *
183538 CAAGGCTAGCGATATTGGACTTAAAGATGAC-AAAGATGCCAATGTGCT
66 CAAGGCTAGCAATATTGGACTTAAAGATGACAAAAG-TGCCAATATGCT
* *
183586 GATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAAGTGTCGATATGCTGATT
1 AATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAGGTGTCGATATGCTGATT
*
183651 CAAGGCCA-CAATATTGGACTTAAAGATGACAAAAGTGCCAATATGCT
66 CAAGGCTAGCAATATTGGACTTAAAGATGACAAAAGTGCCAATATGCT
* * * *
183698 GATTTAATGCCAACGAAATTGGACTTAA
1 AATTCAAGGCCAACGACATTGGACTTAA
183726 GAAAGAAAAA
Statistics
Matches: 229, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
112 138 0.60
113 91 0.40
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (113 bp):
AATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAGGTGTCGATATGCTGATT
CAAGGCTAGCAATATTGGACTTAAAGATGACAAAAGTGCCAATATGCT
Found at i:183664 original size:329 final size:330
Alignment explanation
Indices: 183058--183685 Score: 954
Period size: 329 Copynumber: 1.9 Consensus size: 330
183048 ATCGGGCTTG
* **
183058 AAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATAATAGTCTTAAAGA
1 AAGATGAAAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATAATAGGATTAAAGA
* * * * * * * *
183123 TGACAAATGTGCTAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAGAAGAATGAT
66 TGACAAAAGTGCCAATATGCTAATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAGAAAGAT
* * * *
183188 AAAGGTATCTATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAGATGACAAAGGTGCTAATG
131 AAAGGTACCGATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAGATGACAAAGATGCCAATG
* * * * *
183253 AGTTTATTCAAGGCCAATGACATTGGACTTAAAGATGAGAAGAATGATAAAGGTGTCGATATGAT
196 AGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAAGTGTCGATATGAT
183318 GATTCAAGGCAACAATATTAGACTTAAAGATGACAAAAGCATCAATTCAAGGCCAGTGACATTGG
261 GATTCAAGGCAACAATATTAGACTTAAAGATGACAAAAGCATCAATTCAAGGCCAGTGACATTGG
183383 ACTTA
326 ACTTA
*** * *
183388 AAGATGAAAAGAATGATAAAGGTGTTGATATGCTGATTCAAGGCTAGCT-AT-ATTGGATTAAAG
1 AAGATGAAAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG-TGATAATAGGATTAAAG
183451 ATGACAAAAGTGCCAATATGCTAATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAGAAAGA
65 ATGACAAAAGTGCCAATATGCTAATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAGAAAGA
* *
183516 TAAAGGTGCCGATATGCTAATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAAGATGCCAAT
130 TAAAGGTACCGATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAGATGACAAAGATGCCAAT
* *
183581 GTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAAGTGTCGATATGC
195 GAGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAAGTGTCGATATGA
* *
183646 TGATTCAAGGCCACAATATTGGACTTAAAGATGACAAAAG
260 TGATTCAAGGCAACAATATTAGACTTAAAGATGACAAAAG
183686 TGCCAATATG
Statistics
Matches: 266, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
329 221 0.83
330 44 0.17
331 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.25
Consensus pattern (330 bp):
AAGATGAAAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATAATAGGATTAAAGA
TGACAAAAGTGCCAATATGCTAATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAGAAAGAT
AAAGGTACCGATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAGATGACAAAGATGCCAATG
AGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAAGTGTCGATATGAT
GATTCAAGGCAACAATATTAGACTTAAAGATGACAAAAGCATCAATTCAAGGCCAGTGACATTGG
ACTTA
Found at i:183795 original size:329 final size:327
Alignment explanation
Indices: 183058--183830 Score: 907
Period size: 329 Copynumber: 2.3 Consensus size: 327
183048 ATCGGGCTTG
* * * * ** * **
183058 AAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATAATAGTCTTAAAGA
1 AAGATGAAAAGAA-GATAAAGATGCTAATATGCTAATTCAAGGCCAACGAT-ATTGGATTAAAGA
* * * * * *
183123 TGACAAATGTGCTAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAGAAGAATGAT
64 AGACAAAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGAAAGAT
* * * *
183188 AAAGGTATCTATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAGATGACAAAGGTGCTAATG
129 AAAGGTACCGATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAGATGACAAAGATGCCAATG
* * * * *
183253 AGTTTATTCAAGGCCAATGACATTGGACTTAAAGATGAGAAGAATGATAAAGGTGTCGATATGAT
194 AGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAAGTGTCGATATGAT
** *
183318 GATTCAAGGCAACAATATTAGACTTAAAGATGACAAAAGCATCAATTCAAGGCCAGTGACATTGG
259 GATTCAAGGCAACAATATTAGACTTAAAGATGACAAAAGCATCAATTCAAGGCCAACGAAATTGG
183383 ACTT
324 ACTT
* * * * * * *
183387 AAAGATGAAAAGAATGATAAAGGTGTTGATATGCTGATTCAAGGCTAGCTATATTGGATTAAAGA
1 -AAGATGAAAAGAA-GATAAAGATGCTAATATGCTAATTCAAGGCCAACGATATTGGATTAAAGA
* * * *
183452 TGACAAAAGTGCCAATATGCTAATTCAAGGCCAGCGACATTAGACTTAAAGATGAAAAGAAAGAT
64 AGACAAAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGAAAGAT
* *
183517 AAAGGTGCCGATATGCTAATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAAGATGCCAATG
129 AAAGGTACCGATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAGATGACAAAGATGCCAATG
* *
183582 TGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAAGTGTCGATATGCT
194 AGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAAGTGTCGATATGAT
* * * * *
183647 GATTCAAGGCCACAATATTGGACTTAAAGATGACAAAAGTGCCAATATGCTGATTTAATGCCAAC
259 GATTCAAGGCAACAATATTAGACTTAAAGATGACAAAA--G-C---AT-C-AATTCAAGGCCAAC
183712 GAAATTGGACTT
316 GAAATTGGACTT
*
183724 -A-A-G-AAAG-A-A-AAAGATGCTAATATGCTAATTCAAGGCCAACGGTATTGGACTT-AAGAA
1 AAGATGAAAAGAAGATAAAGATGCTAATATGCTAATTCAAGGCCAACGATATTGGA-TTAAAG-A
*
183781 AGA-AAAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGACTTAAA
64 AGACAAAA-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
183831 AAGAGATGGT
Statistics
Matches: 380, Mismatches: 52, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
328 39 0.10
329 264 0.69
330 44 0.12
331 2 0.01
332 5 0.01
333 1 0.00
334 1 0.00
335 3 0.01
336 1 0.00
337 20 0.05
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (327 bp):
AAGATGAAAAGAAGATAAAGATGCTAATATGCTAATTCAAGGCCAACGATATTGGATTAAAGAAG
ACAAAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGAAAGATAA
AGGTACCGATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAGATGACAAAGATGCCAATGAG
CTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAAGAATGATAAAAGTGTCGATATGATGA
TTCAAGGCAACAATATTAGACTTAAAGATGACAAAAGCATCAATTCAAGGCCAACGAAATTGGAC
TT
Found at i:183932 original size:32 final size:31
Alignment explanation
Indices: 183896--184793 Score: 764
Period size: 32 Copynumber: 28.2 Consensus size: 31
183886 TAGACGAAGA
* *
183896 TGCCACCAATTTGTGTAGGCTTTTGAGAGGGT
1 TGCCACCAACTTGTGTGGGC-TTTGAGAGGGT
*
183928 TGCCACCGACTTGTGTGGGCTTT-AGAAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-A-GGGT
**
183960 TGCCACCAACTTGTGTGGGCTTTAGAGAAGTCT
1 TGCCACCAACTTGTGTGGGCTTT-GAG-AGGGT
* *
183993 TGCCATCGACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
* * *
184025 TGCCATCGACTTGTGTGGGCTTT-AGAATAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-A-GGGT
** ** *
184057 TTTCACCTATTTTTATGTGGGCTTT-AGAAGGGT
1 TGCCACC-A-ACTTGTGTGGGCTTTGAG-AGGGT
* * * * * *
184090 TTCCATCAACTTGTGTTGGCTTTAAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTT-GAGAGGGT
* *
184122 TGCCACCGACTTGTATGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
** *
184154 TGCCACCAACTTGTGTAAGCTTTG-GAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAGGGT
* *
184184 TGCAACTAACTTGTGTGGGCTTT-AGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
* * * *
184215 TGCCACTAACTTGTGTAGGTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAGGGT
* * *
184246 TGCCACCAATTTGTGTGGGCTTTAAGAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
*
184278 TGCCACTAACTTGTGTGGGCTTTAGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTT-GAG-AGGGT
* *
184311 TGCCCCCGACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
** * *
184343 TGCCACTGACTTGTGTGAGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
* *
184375 TACCACCAACTTGTGTGGGCTTTAGAAGGGGGT
1 TGCCACCAACTTGTGTGGGCTTT-G-AGAGGGT
* * * *
184408 TACCACCTACTTGTCTAGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
* *
184440 TGCCACTAACTTGCGTGGGCTTT-AGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
* * *
184471 TGCCATCAACTTGTGTGGGCTTTAGAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTT-GAGAGGGT
** ** *
184503 TATCACCTCCTTGTGTGGGCTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAGGGT
*
184534 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
* *
184566 TGCCACCGACTTGTGTGGGCTTTGAGAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
*** * *
184598 TTTGACTAACTTGTGTGGGCTTTAGAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTT-GAGAGGGT
* * * * *
184630 TTCCATCGACTTGTGTAGGCTTTGAGAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
* *
184662 TGCCACCAATTTATGTGGGCTTTGAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAGGGT
*
184693 TGCCACCAACTTGTGTGGGCTTTGAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTG-AGAGGGT
* ** *
184725 TACCACTGACTTGTGTGGGCTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAGGGT
*
184756 TGCCACCAATTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAG-AGGGT
*
184788 TACCAC
1 TGCCAC
184794 TGAGTCATAG
Statistics
Matches: 711, Mismatches: 130, Indels: 50
0.80 0.15 0.06
Matches are distributed among these distances:
30 26 0.04
31 185 0.26
32 391 0.55
33 87 0.12
34 22 0.03
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTGAGAGGGT
Found at i:184521 original size:63 final size:64
Alignment explanation
Indices: 183896--184793 Score: 878
Period size: 63 Copynumber: 14.1 Consensus size: 64
183886 TAGACGAAGA
* * * * *
183896 TGCCACCAATTTGTGTAGGCTTTTGAGAGGGTTGCCACCGACTTGTGTGGGCTTT-AGAAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAA-GGGT
** * *
183960 TGCCACCAACTTGTGTGGGCTTTAGAGAAGTCTTGCCATCGACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGA-AAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAAGGGT
* * ** * *
184025 TGCCATCGACTTGTGTGGGCTTTAGAATA-GGTTTTCACCTATTTTTATGTGGGCTTT-AGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAGAA-AGGGTTGCCACCTA--CTTGTGTGGGCTTTGAGAAGG
184088 GT
63 GT
* * * * * * *
184090 TTCCATCAACTTGTGTTGGCTTTAAAAAAGGTTGCCACCGACTTGTATGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAAGGGT
** * *
184154 TGCCACCAACTTGTGTAAGCTTT-GGAA-GGTTG-CAACTAACTTGTGTGGGCTTT-AGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCT-ACTTGTGTGGGCTTTGAGAAGGGT
* * * * * * *
184215 TGCCACTAACTTGTGTAGG-TTTTGAAAGGGTTGCCACCAATTTGTGTGGGCTTTAAGAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAAGGGT
* * *
184278 TGCCACTAACTTGTGTGGGCTTTAGAGAAGGGTTGCCCCCGACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGA-AAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAAGGGT
** * * *
184343 TGCCACTGACTTGTGTGAGCTTTA-AGAAGGGTTACCACCAACTTGTGTGGGCTTT-AGAAGGGG
1 TGCCACCAACTTGTGTGGGCTTTAGA-AAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAA--GG
184406 GT
63 GT
* * * * *
184408 TACCACCTACTTGTCTAGGCTTT-GAGAAGGGTTGCCA-CTAACTTGCGTGGGCTTT-AGAAGGG
1 TGCCACCAACTTGTGTGGGCTTTAGA-AAGGGTTGCCACCT-ACTTGTGTGGGCTTTGAGAAGGG
184470 T
64 T
* * ** *
184471 TGCCATCAACTTGTGTGGGCTTTAGAAAAGGTTATCACCTCCTTGTGTGGGCTTTGA-AAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAAGGGT
* * *
184534 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGA-AAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAAGGGT
*** * * * * * *
184598 TTTGACTAACTTGTGTGGGCTTTAGAGAA-GGTTTCCATCGACTTGTGTAGGCTTTGAGAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGA-AAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAAGGGT
* * * * *
184662 TGCCACCAATTTATGTGGGCTTT-GAGAGGGTTGCCACCAACTTGTGTGGGCTTTGAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAAGGGT
* ** * *
184725 TACCACTGACTTGTGTGGGCTTT-GAAAGGGTTGCCACCAATTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAAGGGT
*
184788 TACCAC
1 TGCCAC
184794 TGAGTCATAG
Statistics
Matches: 698, Mismatches: 111, Indels: 51
0.81 0.13 0.06
Matches are distributed among these distances:
60 3 0.00
61 31 0.04
62 41 0.06
63 233 0.33
64 169 0.24
65 205 0.29
66 16 0.02
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (64 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCTACTTGTGTGGGCTTTGAGAAGGGT
Found at i:184548 original size:350 final size:352
Alignment explanation
Indices: 183896--184794 Score: 1029
Period size: 350 Copynumber: 2.6 Consensus size: 352
183886 TAGACGAAGA
* * * * *
183896 TGCCACCAATTTGTGTAGGCTTTTGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGA-AGGGGT
1 TGCCACCAATTTGTGTGGGCTTTAGAGAAGGTTGCCACTGACTTGTGTGGGCTTTAGAGAAGGGT
** *
183960 TGCCACCAACTTGTGTGGGCTTTAGAGAAGTCTTGCCA-TCGACTTGTGTGGGCTTTGAGAAGGG
66 TGCCACCAACTTGTGTGGGCTTT-GAGAAGGGTTGCCACT-GACTTGTGTGGGCTTTAAGAAGGG
* * ** *
184024 TTGCCATCGACTTGTGTGGGCTTTAGAATA-GGTTTTCACCTATTTTTATGTGGGCTTT-AGAAG
129 TTACCACCGACTTGTGTGGGCTTTAGAA-AGGGTTACCACCTA--TTTGTGTGGGCTTTGAGAAG
* * * * *
184087 GGTTTCCA-TCAACTTGTGTTGGCTTTAAAAAAGGTTGCCACCGACTTGTATGGGCTTTGAGAAG
191 GGTTACCACTCAACTTGCGTGGGCTTTAAAAAAGGTTGCCACCAACTTGTATGGGCTTTGAGAAA
* * *
184151 GGTTGCCACCAACTTGTGTAAGCTTTGGAAGGTTGCAACTAACTTGTGTGGGCTTT-AGAAGGGT
256 GGTTACCACCAACTTGTGTAAGCTTTGAAAGGTTGCAACCAACTTGTGTGGGCTTTGAGAAGGGT
* * *
184215 TGCCACTAACTTGTGTAGGTTTTGA-AAGGGT
321 TGCCACCAACTTGTGTAGGCTTTGAGAAAGGT
*
184246 TGCCACCAATTTGTGTGGGCTTTA-AGAAAGGTTGCCACTAACTTGTGTGGGCTTTAGAGAAGGG
1 TGCCACCAATTTGTGTGGGCTTTAGAG-AAGGTTGCCACTGACTTGTGTGGGCTTTAGAGAAGGG
* * *
184310 TTGCCCCCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACTGACTTGTGTGAGCTTTAAGAAGGGT
65 TTGCCACCAACTTGTGTGGGCTTTGAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAAGAAGGGT
* * * * *
184375 TACCACCAACTTGTGTGGGCTTTAGAAGGGGGTTACCACCTACTTGTCTAGGCTTTGAGAAGGGT
130 TACCACCGACTTGTGTGGGCTTTAGAA-AGGGTTACCACCTATTTGTGTGGGCTTTGAGAAGGGT
* * * * *
184440 TGCCACT-AACTTGCGTGGGCTTT-AGAAGGGTTGCCATCAACTTGTGTGGGCTTT-AGAAAAGG
194 TACCACTCAACTTGCGTGGGCTTTAAAAAAGGTTGCCACCAACTTGTATGGGCTTTGAG-AAAGG
* ** ** * *
184502 TTATCACCTCCTTGTGTGGGCTTTGAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTT
258 TTACCACCAACTTGTGTAAGCTTTGAAA-GGTTGCAACCAACTTGTGTGGGCTTTGAGAAGGGTT
* *
184567 GCCACCGACTTGTGTGGGCTTTGAGAAAGGT
322 GCCACCAACTTGTGTAGGCTTTGAGAAAGGT
*** * * * * *
184598 TTTGACTAACTTGTGTGGGCTTTAGAGAAGGTTTCCA-TCGACTTGTGTAGGCTTT-GAGAAAGG
1 TGCCACCAATTTGTGTGGGCTTTAGAGAAGGTTGCCACT-GACTTGTGTGGGCTTTAGAGAAGGG
* * **
184661 TTGCCACCAATTTATGTGGGCTTTGAG-AGGGTTGCCACCAACTTGTGTGGGCTTTGAA-AAGGG
65 TTGCCACCAACTTGTGTGGGCTTTGAGAAGGGTTGCCACTGACTTGTGTGGGCTTT-AAGAAGGG
* * *
184724 TTACCACTGACTTGTGTGGGCTTT-GAAAGGGTTGCCACCAATTTGTGTGGGCTTTGAGAAGGGT
129 TTACCACCGACTTGTGTGGGCTTTAGAAAGGGTTACCACCTATTTGTGTGGGCTTTGAGAAGGGT
184788 TACCACT
194 TACCACT
184795 GAGTCATAGG
Statistics
Matches: 464, Mismatches: 72, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
348 39 0.08
349 66 0.14
350 210 0.45
351 100 0.22
352 47 0.10
353 2 0.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (352 bp):
TGCCACCAATTTGTGTGGGCTTTAGAGAAGGTTGCCACTGACTTGTGTGGGCTTTAGAGAAGGGT
TGCCACCAACTTGTGTGGGCTTTGAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAAGAAGGGTT
ACCACCGACTTGTGTGGGCTTTAGAAAGGGTTACCACCTATTTGTGTGGGCTTTGAGAAGGGTTA
CCACTCAACTTGCGTGGGCTTTAAAAAAGGTTGCCACCAACTTGTATGGGCTTTGAGAAAGGTTA
CCACCAACTTGTGTAAGCTTTGAAAGGTTGCAACCAACTTGTGTGGGCTTTGAGAAGGGTTGCCA
CCAACTTGTGTAGGCTTTGAGAAAGGT
Found at i:195550 original size:167 final size:167
Alignment explanation
Indices: 195336--195723 Score: 444
Period size: 167 Copynumber: 2.3 Consensus size: 167
195326 TAAATTGAGT
* * * * *
195336 AAAATCCTCCCAAAAATATTTACGGAGTAGAAAAC-TCGATTTTTTAGAAATATAGGCATTTTAA
1 AAAATCCCCCCAAAAATATTTACGGAGTAGAAAACTTTG-TATTTTAGAAATATAGGAATTTCAA
* * * *
195400 GGAAAAA-AATGAAAAACT-CGTGAAAATAAATGA-ATTTTTCAAAACTGATTTAATATAAATTA
65 -GAAAAAGAATAAAAAAATCCATG-AAATAAA-GAGAATTTTCAAAACTGATTTAATATAAATTA
* *
195462 AATGATGATATTTGATAAATTTTAAAAATTATAAACCAAAA
127 AATAATAATATTTGATAAATTTTAAAAATTATAAACCAAAA
* * * *
195503 AAAATCCCCCCAAAAACATTTATC-GAGTAGAAAACTTTGTATTTTAGAAACAAATGAATTTCAA
1 AAAATCCCCCCAAAAATATTTA-CGGAGTAGAAAACTTTGTATTTTAGAAATATAGGAATTTCAA
* * * *
195567 GAAAAAGAATAAAAAAATCCATGAAATAAAGAGAATTTTCAAAAGTTATTTAATGTGAATTAAAT
65 GAAAAAGAATAAAAAAATCCATGAAATAAAGAGAATTTTCAAAACTGATTTAATATAAATTAAAT
* * *
195632 AATAATATTTGATGAATTTTAAAAATTTTAAACCAAGA
130 AATAATATTTGATAAATTTTAAAAATTATAAACCAAAA
** * * *
195670 AAAATCTCCTACGAAAATATTTACGGAGAAGAAAACTTTGTATTTTGGAAATAT
1 AAAATC-CCCCCAAAAATATTTACGGAGTAGAAAACTTTGTATTTTAGAAATAT
195724 GGGGGACTCC
Statistics
Matches: 184, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
166 8 0.04
167 133 0.72
168 43 0.23
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.31
Consensus pattern (167 bp):
AAAATCCCCCCAAAAATATTTACGGAGTAGAAAACTTTGTATTTTAGAAATATAGGAATTTCAAG
AAAAAGAATAAAAAAATCCATGAAATAAAGAGAATTTTCAAAACTGATTTAATATAAATTAAATA
ATAATATTTGATAAATTTTAAAAATTATAAACCAAAA
Found at i:200033 original size:52 final size:52
Alignment explanation
Indices: 199887--200012 Score: 234
Period size: 52 Copynumber: 2.4 Consensus size: 52
199877 AATATGAAAT
* *
199887 TTTGCCTACATGTATCGATACATTTCATAGTGTATCGATATATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
199939 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
199991 TTTGCCTGCATGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
200013 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
Found at i:200078 original size:21 final size:21
Alignment explanation
Indices: 200022--200079 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
200012 AAAGATCAGT
** *
200022 GTATCGATACATTTGAGTAAT
1 GTATCGATACATTTTCGTAAC
200043 GTATCGATACATTTTCGTAAC
1 GTATCGATACATTTTCGTAAC
200064 GTATCGATACATTTTC
1 GTATCGATACATTTTC
200080 TTAGCAGTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (21 bp):
GTATCGATACATTTTCGTAAC
Found at i:200121 original size:19 final size:18
Alignment explanation
Indices: 200097--200194 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
200087 TAGCTTACAT
200097 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
200116 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
200129 TGTATTGATACAACACTTA
1 TGTATCGATACAA-ACTTA
200148 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
200161 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
200181 TGTATCGATACAAA
1 TGTATCGATACAAA
200195 TTGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:200133 original size:32 final size:32
Alignment explanation
Indices: 200092--200192 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
200082 AGCAGTAGCT
*
200092 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
200124 TACATTGTATTGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
200156 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
200189 TACA
1 TACA
200193 AATTGTTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 50 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:200138 original size:13 final size:13
Alignment explanation
Indices: 200116--200172 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
200106 ACAAAACTTA
200116 TGTATCGATACAT
1 TGTATCGATACAT
*
200129 TGTATTGATACAACACTT
1 TGTATCGAT---ACA--T
200147 ATGTATCGATACAT
1 -TGTATCGATACAT
200161 TGTATCGATACA
1 TGTATCGATACA
200173 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:201025 original size:49 final size:49
Alignment explanation
Indices: 200964--201139 Score: 208
Period size: 49 Copynumber: 3.6 Consensus size: 49
200954 CAAAAAATGA
* * *
200964 CAATGTGCTGATTCATGGCCAGCGACGTTGATCTTAAAGATGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGC
* * ** * * * *
201013 CAATATGCTGATTCAAAGCCAGCGATACCGAACTTAAAAATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGC
* * *
201062 CAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGC
* *
201111 CACTATGCTGATTCAAGGCCAACGACATT
1 CAATATGCTGATTCAAGGCCAGCGACATT
201140 AGACTTAGAA
Statistics
Matches: 103, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 103 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGC
Found at i:201146 original size:98 final size:96
Alignment explanation
Indices: 200964--201159 Score: 259
Period size: 98 Copynumber: 2.0 Consensus size: 96
200954 CAAAAAATGA
* *
200964 CAATGTGCTGATTCATGGCCAGCGACGTTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAA
* * *
201029 AGCCAGCGATACCGAACTTAAAAATGAAGATGC
66 AGCCAACGACACAGAACTT-AAAA-GAAGATGC
* * *
201062 CAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGACGGTGCCACTATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAA
* * *
201127 GGCCAACGACATTAG-ACTTAGAAGAAGATGC
66 AGCCAACGACA-CAGAACTTAAAAGAAGATGC
201158 CA
1 CA
201160 CCAACTTGTG
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
96 10 0.12
97 3 0.03
98 72 0.84
99 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (96 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAA
AGCCAACGACACAGAACTTAAAAGAAGATGC
Found at i:201189 original size:30 final size:29
Alignment explanation
Indices: 201168--202000 Score: 987
Period size: 30 Copynumber: 28.7 Consensus size: 29
201158 CACCAACTTG
* *
201168 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
* * *
201196 TGTAGGCTTTGG-AAGGTTGCCACTGATT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
* *
201224 TGTGGGCTTTGAAAAGGGTGCCATTGACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
*
201253 TGTGGGCTTTGGAAAATGGTGCCACTGACT
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACT
* *
201283 TGTGGGCTTTGG-AAGGTTGCCACTGATT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
*
201311 TGTGGGCTTTGGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
* * *
201340 TGTGGGCTTTTG-AAGGTTGTCACTGACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
*
201368 TGTGGGCTTTGGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACT
*
201398 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
1 TGTGGGC-TTTGGAAAGGGTGCCACTGACT
*
201428 TGTGGGCTTTGGAAAAGGGTGCCATTGACT
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACT
*
201458 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
1 TGTGGGC-TTTGGAAAGGGTGCCACTGACT
201488 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACT
*
201518 TGTGGGCTTTGG-AAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
*
201546 TGTGGGCTTTGGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACT
*
201576 TGTGGGCTTTGGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTT-GG-AAAGGGTGCCACTGACT
*
201607 TGTGGGCTTTGGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTT-GG-AAAGGGTGCCACTGACT
*
201638 TGTGGGCTTT-G-AAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
* *
201665 TGTGGGCTTTGG-AAGGTTGCCACTGATT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
201693 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACT
* * *
201723 TGTGGGCTTTTG-AAGGTTGCCACTAACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
* * *
201751 TGTGGGCTTTGAAAAATGGTGCCATTGACT
1 TGTGGGCTTTG-GAAAGGGTGCCACTGACT
*
201781 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
1 TGTGGGC-TTTGGAAAGGGTGCCACTGACT
* **
201811 TGTGGGCTTT-TAAAGATTGCCACTGACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
*
201839 TCTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACT
*
201869 TGT-GGCTTTGGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTT-GG-AAAGGGTGCCACTGACT
* * *
201899 TGTAGGCTTT-G-AAGGTTGCCACTGATT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
*
201926 TGTGGGCTTT-G-AAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
* * * *
201953 TGTGGGCTTTGAAAAAGATGCCACTAACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACT
*
201982 TGTGGGCTTTTG-AAGGGTG
1 TGTGGGCTTTGGAAAGGGTG
202001 AGGAATATCT
Statistics
Matches: 708, Mismatches: 73, Indels: 48
0.85 0.09 0.06
Matches are distributed among these distances:
27 74 0.10
28 192 0.27
29 90 0.13
30 275 0.39
31 77 0.11
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.32
Consensus pattern (29 bp):
TGTGGGCTTTGGAAAGGGTGCCACTGACT
Found at i:201325 original size:58 final size:58
Alignment explanation
Indices: 201168--201997 Score: 1006
Period size: 58 Copynumber: 14.3 Consensus size: 58
201158 CACCAACTTG
* * * *
201168 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTAGGCTTTGG--AAGGTTGCCACTGATT
1 TGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* * * *
201224 TGTGGGCTTTGAAAAGGGTGCCATTGACTTGTGGGCTTTGGAAAATGGTGCCACTGACT
1 TGTGGGCTTTG-GAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* *
201283 TGTGGGCTTTGGAAGGTTGCCACTGATTTGTGGGCTTTGG-AAAGGGTGCCATTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* * *
201340 TGTGGGCTTTTGAAGGTTGTCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* * *
201398 TGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCATTGACT
1 TGTGGGC-TTTG-GAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* *
201458 TGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGC-TTTG-GAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
*
201518 TGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* * *
201576 TGTGGGCTTTGGGAAAAGGGTGCCACTGATTTGTGGGCTTTGGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTT-GG--AAGGTTGCCACTGACTTGTGGGCTTT-GGAAAAGGGTGCCACTGACT
* *
201638 TGTGGGCTTT-GAAGGTTGCCACTGACTTGTGGGCTTTGG--AAGGTTGCCACTGATT
1 TGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* * * *
201693 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG--AAGGTTGCCACTAACT
1 TGTGGGCTTTGG--AAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* * *
201751 TGTGGGCTTTGAAAAATGG-TGCCATTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG--GAA-GGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
** * *
201811 TGTGGGCTTTTAAAGATTGCCACTGACTTCTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* * * * *
201869 TGT-GGCTTTGGGAAAAGGGTGCCACTGATTTGTAGGCTTT-G--AAGGTTGCCACTGATT
1 TGTGGGCTTT-GG--AAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* * *
201926 TGTGGGCTTT-GAAGGTTGCCACTGACTTGTGGGCTTT-GAAAAAGATGCCACTAACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
*
201982 TGTGGGCTTTTGAAGG
1 TGTGGGCTTTGGAAGG
201998 GTGAGGAATA
Statistics
Matches: 683, Mismatches: 65, Indels: 51
0.85 0.08 0.06
Matches are distributed among these distances:
54 24 0.04
55 25 0.04
56 34 0.05
57 108 0.16
58 250 0.37
59 36 0.05
60 154 0.23
61 24 0.04
62 28 0.04
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.32
Consensus pattern (58 bp):
TGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
Found at i:201436 original size:88 final size:86
Alignment explanation
Indices: 201168--201997 Score: 1030
Period size: 88 Copynumber: 9.5 Consensus size: 86
201158 CACCAACTTG
* * * *
201168 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTAGGCTTTGGAAGGTTGCCACTGATTTGTGGGCT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCT
*
201232 TTGAAAAGGGTGCCATTGACT
66 TTGAAAAGGGTGCCACTGACT
* *
201253 TGTGGGCTTTGGAAAATGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGATTTGTGGGC
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGC
* *
201318 TTTGGAAAGGGTGCCATTGACT
65 TTTGAAAAGGGTGCCACTGACT
* * * * *
201340 TGTGGGCTTTTG-AAGGTTGTCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTAACTTGTGGG
1 TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGG--AAGGTTGCCACTGACTTGTGGG
201404 CTTTTGAAAAGGGTGCCACTGACT
64 C-TTTGAAAAGGGTGCCACTGACT
* * *
201428 TGTGGGCTTTGGAAAAGGGTGCCATTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGG
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACTTGTGGGC-TTTG-GAAGGTTGCCACTGACTTGTGG
201493 GCTTTGGAAAAGGGTGCCACTGACT
63 GCTTT-GAAAAGGGTGCCACTGACT
* * *
201518 TGTGGGCTTTGG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTAACTTGTGGG
1 TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGG--AAGGTTGCCACTGACTTGTGGG
*
201582 CTTTGGGAAAAGGGTGCCACTGATT
64 CTTT--GAAAAGGGTGCCACTGACT
*
201607 TGTGGGCTTTGGGAAAAGGGTGCCACTGATTTGTGGGCTTT-GAAGGTTGCCACTGACTTGTGGG
1 TGTGGGCTTT-GG-AAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGG
* * *
201671 CTTTG-GAAGGTTGCCACTGATT
64 CTTTGAAAAGGGTGCCACTGACT
* *
201693 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGC
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGC
* *
201758 TTTGAAAAATGGTGCCATTGACT
65 TTTG-AAAAGGGTGCCACTGACT
* ** * *
201781 TGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTAAAGATTGCCACTGACTTCTGGGC
1 TGTGGGC-TTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGC
201846 TTTGGAAAAGGGTGCCACTGACT
65 TTT-GAAAAGGGTGCCACTGACT
* * *
201869 TGT-GGCTTTGGGAAAAGGGTGCCACTGATTTGTAGGCTTT-GAAGGTTGCCACTGATTTGTGGG
1 TGTGGGCTTT-GG-AAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGG
*
201932 CTTTG--AAGGTTGCCACTGACT
64 CTTTGAAAAGGGTGCCACTGACT
* * * * *
201953 TGTGGGCTTTGAAAAAGATGCCACTAACTTGTGGGCTTTTGAAGG
1 TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGG
201998 GTGAGGAATA
Statistics
Matches: 661, Mismatches: 59, Indels: 51
0.86 0.08 0.07
Matches are distributed among these distances:
83 22 0.03
84 24 0.04
85 71 0.11
86 56 0.08
87 132 0.20
88 191 0.29
89 61 0.09
90 75 0.11
91 5 0.01
92 24 0.04
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.32
Consensus pattern (86 bp):
TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCT
TTGAAAAGGGTGCCACTGACT
Found at i:203459 original size:10 final size:10
Alignment explanation
Indices: 203442--203492 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
203432 TTTTTGTTGA
203442 TGTTGTTTTTT
1 TGTT-TTTTTT
*
203453 T-TTGTTTTT
1 TGTTTTTTTT
203462 TGTTTTTTTT
1 TGTTTTTTTT
203472 TGTTTTTTTCT
1 TGTTTTTTT-T
*
203483 TCTTTTTTTT
1 TGTTTTTTTT
203493 GTGGAGGACG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 6 0.17
10 19 0.54
11 10 0.29
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (10 bp):
TGTTTTTTTT
Found at i:203464 original size:17 final size:17
Alignment explanation
Indices: 203444--203479 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
203434 TTTGTTGATG
203444 TTGTTTTTTTTTGTTTT
1 TTGTTTTTTTTTGTTTT
203461 TTGTTTTTTTTTGTTTT
1 TTGTTTTTTTTTGTTTT
203478 TT
1 TT
203480 TCTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (17 bp):
TTGTTTTTTTTTGTTTT
Found at i:203488 original size:17 final size:17
Alignment explanation
Indices: 203444--203489 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
203434 TTTGTTGATG
*
203444 TTGTTTTTTTTTGTTTT
1 TTGTTTCTTTTTGTTTT
*
203461 TTGTTTTTTTTTGTTTT
1 TTGTTTCTTTTTGTTTT
203478 TT-TCTTCTTTTT
1 TTGT-TTCTTTTT
203490 TTTGTGGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (17 bp):
TTGTTTCTTTTTGTTTT
Found at i:210268 original size:77 final size:78
Alignment explanation
Indices: 210038--210413 Score: 422
Period size: 78 Copynumber: 4.8 Consensus size: 78
210028 TTTCCTTCCA
* * * *
210038 AAAATTATTAAATTTTTC-T-TAG-GGATACTCCAATCCTGTTATTTTCAAGAGGATGCTCCAAC
1 AAAA-TATTAAATTTTTCATCTCGAGGATACTCCAACCCTGTTATTTTCGAGAGGATACTCCAA-
*
210100 CCCATTTTTATTTCC
64 CCCATTTTTATTTTC
* * * * *
210115 AAATTATTAAATTTTTCATCTC-AGGGATACTCAAACCCAGCTATTTTCGAGGGGATACTCCAAC
1 AAAATATTAAATTTTTCATCTCGA-GGATACTCCAACCCTGTTATTTTCGAGAGGATACTCCAAC
*
210179 CCATTTTTATTTTT
65 CCATTTTTATTTTC
* * * * *
210193 GAAATATTAAATTTTTCATCTCGAGGATACTTCAA-CCTGTTATTTTTGAGGGGATGCTCCAACC
1 AAAATATTAAATTTTTCATCTCGAGGATACTCCAACCCTGTTATTTTCGAGAGGATACTCCAACC
* *
210257 TATTTTTATTTTT
66 CATTTTTATTTTC
* * * **
210270 AAAATATTAAAATTTTCATCTCAAGGATACTCCAATCCTAATA-TTTCTGAGAGGATACTCCAAC
1 AAAATATTAAATTTTTCATCTCGAGGATACTCCAACCCTGTTATTTTC-GAGAGGATACTCCAAC
*
210334 CCATTTTTATCTTC
65 CCATTTTTATTTTC
* * * *
210348 AAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTATTATTTTCAAGAGGATACTCCAACC
1 AAAATATTAAATTTTTCATCTCGAGGATACTCCAACCCTGTTATTTTCGAGAGGATACTCCAACC
210413 C
66 C
210414 TCTTTTTTTG
Statistics
Matches: 254, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
76 13 0.05
77 75 0.30
78 129 0.51
79 37 0.15
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (78 bp):
AAAATATTAAATTTTTCATCTCGAGGATACTCCAACCCTGTTATTTTCGAGAGGATACTCCAACC
CATTTTTATTTTC
Found at i:210355 original size:155 final size:155
Alignment explanation
Indices: 210038--210413 Score: 465
Period size: 155 Copynumber: 2.4 Consensus size: 155
210028 TTTCCTTCCA
* *
210038 AAAATTATTAAATTTTTC-T-TAGGGATACTCCAATCCTGTTATTTTCAAGAGGATGCTCCAACC
1 AAAA-TATTAAATTTTTCATCTCGGGATACTCCAACCCTGTTATTTTCAAGAGGATGCTCCAA-C
* * * *
210101 CCATTTTTATTTCCAAATTATTAAATTTTTCATCTCAGGGATACTCAAACCCAGCTATTTTCGAG
64 CCATTTTTATTTCCAAAATATTAAAATTTTCATCTCAAGGATACTCAAACCCAGATATTTTCGAG
* * *
210166 GGGATACTCCAACCCATTTTTATTTTT
129 AGGATACTCCAACCCATTTTTATCTTC
* * ** *
210193 GAAATATTAAATTTTTCATCTCGAGGATACTTCAA-CCTGTTATTTTTGAGGGGATGCTCCAACC
1 AAAATATTAAATTTTTCATCTCG-GGATACTCCAACCCTGTTATTTTCAAGAGGATGCTCCAACC
* ** * *
210257 TATTTTTATTTTTAAAATATTAAAATTTTCATCTCAAGGATACTCCAATCCTA-ATA-TTTCTGA
65 CATTTTTATTTCCAAAATATTAAAATTTTCATCTCAAGGATACT-CAAACCCAGATATTTTC-GA
210320 GAGGATACTCCAACCCATTTTTATCTTC
128 GAGGATACTCCAACCCATTTTTATCTTC
* * *
210348 AAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTATTATTTTCAAGAGGATACTCCAACC
1 AAAATATTAAATTTTTCATCTC-GGGATACTCCAACCCTGTTATTTTCAAGAGGATGCTCCAACC
210413 C
65 C
210414 TCTTTTTTTG
Statistics
Matches: 187, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
154 17 0.09
155 103 0.55
156 57 0.30
157 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (155 bp):
AAAATATTAAATTTTTCATCTCGGGATACTCCAACCCTGTTATTTTCAAGAGGATGCTCCAACCC
ATTTTTATTTCCAAAATATTAAAATTTTCATCTCAAGGATACTCAAACCCAGATATTTTCGAGAG
GATACTCCAACCCATTTTTATCTTC
Found at i:210431 original size:27 final size:28
Alignment explanation
Indices: 210372--210439 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
210362 TTCATCTCGG
210372 GGATACTCCAACCCTATTATTTTCAAGA
1 GGATACTCCAACCCTATTATTTTCAAGA
* * *
210400 GGATACTCCAACCCTCTTTTTTTGACA-A
1 GGATACTCCAACCCTATTATTTTCA-AGA
210428 -GATACTCCAACC
1 GGATACTCCAACC
210440 TCGCTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.33
28 23 0.64
29 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (28 bp):
GGATACTCCAACCCTATTATTTTCAAGA
Found at i:210465 original size:106 final size:105
Alignment explanation
Indices: 210323--210519 Score: 277
Period size: 106 Copynumber: 1.9 Consensus size: 105
210313 TTTCTGAGAG
* * *
210323 GATACTCCAACCCATTTTTATCTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTA
1 GATACTCCAACCCACTTTTATCTTCAAAATATTAAAATTTTCATCTCAGGGATACTCCAACCCCA
210388 TTATTTTCAAGAGGATACTCCAACCCTCTTTTTTTGACAA
66 TTATTTTCAAGAGGATACTCCAACCCTCTTTTTTTGACAA
* * **
210428 GATACTCCAACCTCGCTTTTATTTTTGAAATATTAAAATTTTCATCTCAGGGATACTCCAACCCC
1 GATACTCCAACC-CACTTTTATCTTCAAAATATTAAAATTTTCATCTCAGGGATACTCCAACCCC
* ** * *
210493 GTTATTTTTTAGGGGATACTCTAACCC
65 ATTATTTTCAAGAGGATACTCCAACCC
210520 CACTTTTATT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
105 12 0.15
106 67 0.85
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (105 bp):
GATACTCCAACCCACTTTTATCTTCAAAATATTAAAATTTTCATCTCAGGGATACTCCAACCCCA
TTATTTTCAAGAGGATACTCCAACCCTCTTTTTTTGACAA
Found at i:210482 original size:78 final size:79
Alignment explanation
Indices: 210400--210570 Score: 188
Period size: 79 Copynumber: 2.2 Consensus size: 79
210390 ATTTTCAAGA
* * *
210400 GGATACTCCAACCCTC-TT-TTTTTGACAAGATACTCCAACCTCGCTTTTATTTTTGA-AATATT
1 GGATACTCCAACCC-CGTTATTTTTGACAAGATACTCCAACCCCACTTTTA--TTTCACAATATT
210462 AAAATTTTCATC-TCAG
63 AAAATTTTCATCATCAG
* *** *
210478 GGATACTCCAACCCCGTTATTTTTTAGGGGATACTCTAACCCCACTTTTATTTCACAATATTAAA
1 GGATACTCCAACCCCGTTATTTTTGACAAGATACTCCAACCCCACTTTTATTTCACAATATTAAA
*
210543 TTTTTCATCATCAG
66 ATTTTCATCATCAG
* *
210557 GGGTACTCTAACCC
1 GGATACTCCAACCC
210571 GTATTTAGAG
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
77 5 0.06
78 33 0.42
79 40 0.51
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTTTGACAAGATACTCCAACCCCACTTTTATTTCACAATATTAAA
ATTTTCATCATCAG
Found at i:213617 original size:155 final size:155
Alignment explanation
Indices: 213270--213641 Score: 351
Period size: 155 Copynumber: 2.4 Consensus size: 155
213260 AAATTCAAGA
* * * * ** * * * *
213270 AAAATTACGAAAATACCCTTAGAGGATACCTTCGATGTAAAACTG-CCCAATACCTCTAAAGGAC
1 AAAATTACCAAAATACCCCTAGAAGATACTTTCGACATAAAA-GGACGCGATACCCCTAAAGGAC
* * *
213334 TTAACAAAGATTTTAAAAGAGATGAAACTATCCTAAATACCCACCTTCGGCATGAGAGCATACCT
65 CTAACAAAGATTTTAAAAGAGATGAAACTATCCTAAATACCCACCTTCGGCATGAAAGCAGACCT
*
213399 GCTGACAACCTAGGACTCGATTCTAT
130 GCTGACAACCTAGAACTCGATTCTAT
** * * *
213425 AAAATTACCAAAATACCCCTAGGGGATACTTTTGACATATAAGGACGCTATACCCCTAAAGGACC
1 AAAATTACCAAAATACCCCTAGAAGATACTTTCGACATAAAAGGACGCGATACCCCTAAAGGACC
* *
213490 TAA-AAAGGATTTTAAAAGGGAT-AAACCTATCCTAAATACCTACCTTCGGCATGAAAGGC-GAC
66 TAACAAA-GATTTTAAAAGAGATGAAA-CTATCCTAAATACCCACCTTCGGCATGAAA-GCAGAC
* *
213552 CTAG-TGACAACTTATAACTCGATTCT-T
128 CT-GCTGACAACCTAGAACTCGATTCTAT
* * * * ** * * * *
213579 AAAAATTACGAAAATGCCCTTTGAATCTGCTTTCGACATAAAAGTACTCGATACCCCAAAAGG
1 -AAAATTACCAAAATACCCCTAGAAGATACTTTCGACATAAAAGGACGCGATACCCCTAAAGG
213642 GCTTGAAATT
Statistics
Matches: 176, Mismatches: 35, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
154 8 0.05
155 165 0.94
156 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (155 bp):
AAAATTACCAAAATACCCCTAGAAGATACTTTCGACATAAAAGGACGCGATACCCCTAAAGGACC
TAACAAAGATTTTAAAAGAGATGAAACTATCCTAAATACCCACCTTCGGCATGAAAGCAGACCTG
CTGACAACCTAGAACTCGATTCTAT
Found at i:213780 original size:11 final size:11
Alignment explanation
Indices: 213764--213788 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
213754 TTTAATCAAA
213764 TTTGAAATGAT
1 TTTGAAATGAT
213775 TTTGAAATGAT
1 TTTGAAATGAT
213786 TTT
1 TTT
213789 TAATCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTGAAATGAT
Found at i:216389 original size:218 final size:218
Alignment explanation
Indices: 216009--216447 Score: 860
Period size: 218 Copynumber: 2.0 Consensus size: 218
215999 GTATTAAAAG
216009 TTTGTTATTTTGAGAGTAACTAGCCATCTTCCTAACAAACATCTTAATGTGCGCTTAAGGAGAGG
1 TTTGTTATTTTGAGAGTAACTAGCCATCTTCCTAACAAACATCTTAATGTGCGCTTAAGGAGAGG
216074 TGATTCCTTTATACTTCTTGAACTCTAGCATTTTGAACTTCAGTGGGAGAACCAGATCAGGGACC
66 TGATTCCTTTATACTTCTTGAACTCTAGCATTTTGAACTTCAGTGGGAGAACCAGATCAGGGACC
*
216139 AGGCTGAGGTCTTCGACATCCACACTACTATACAATTTAGCCCCTTCTATGGCCTTTAGCCTCCT
131 AGGCTGAGGTCTTCGACATCCACACGACTATACAATTTAGCCCCTTCTATGGCCTTTAGCCTCCT
216204 TTCGAGGAGCTGTAATTTTGCCT
196 TTCGAGGAGCTGTAATTTTGCCT
*
216227 TTTGTTATTTTGAGAGTAACTAGCCATCTTCCTAACAAACATCTTAATGTGTGCTTAAGGAGAGG
1 TTTGTTATTTTGAGAGTAACTAGCCATCTTCCTAACAAACATCTTAATGTGCGCTTAAGGAGAGG
216292 TGATTCCTTTATACTTCTTGAACTCTAGCATTTTGAACTTCAGTGGGAGAACCAGATCAGGGACC
66 TGATTCCTTTATACTTCTTGAACTCTAGCATTTTGAACTTCAGTGGGAGAACCAGATCAGGGACC
216357 AGGCTGAGGTCTTCGACATCCACACGACTATACAATTTAGCCCCTTCTATGGCCTTTAGCCTCCT
131 AGGCTGAGGTCTTCGACATCCACACGACTATACAATTTAGCCCCTTCTATGGCCTTTAGCCTCCT
216422 TTCGAGGAGCTGTAATTTTGCCT
196 TTCGAGGAGCTGTAATTTTGCCT
216445 TTT
1 TTT
216448 CCTATTCTTT
Statistics
Matches: 219, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 219 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (218 bp):
TTTGTTATTTTGAGAGTAACTAGCCATCTTCCTAACAAACATCTTAATGTGCGCTTAAGGAGAGG
TGATTCCTTTATACTTCTTGAACTCTAGCATTTTGAACTTCAGTGGGAGAACCAGATCAGGGACC
AGGCTGAGGTCTTCGACATCCACACGACTATACAATTTAGCCCCTTCTATGGCCTTTAGCCTCCT
TTCGAGGAGCTGTAATTTTGCCT
Found at i:219225 original size:155 final size:155
Alignment explanation
Indices: 218935--219281 Score: 425
Period size: 155 Copynumber: 2.2 Consensus size: 155
218925 ACCCCTAGAT
* *
218935 GATACTTTCGACATAAAACTACTCGATACCCCTAAAGGACCTAAAAAGGATTTTAAAAAAGAAGA
1 GATACTTTCGACATAAAACTACTCAATACCCCTAAAAGACCTAAAAAGGATTTTAAAAAAGAAGA
* * * * *
219000 ACCTATCCTAAATACCCACCTTCGACATTAAAGCAGACCCAGTGACAAACTAGGACTTGGTTCTA
66 ACCTATCCTAAATACCCACCCTCGACATGAAAGCAGACCCAGTGACAAACTAAGACTCGATTCTA
219065 GAAAATTACTAAAATGCTTCTAGGA
131 GAAAATTACTAAAATGCTTCTAGGA
* * * * * *
219090 GATACTTTTGACATAGAAGTACTTAATACCCCTAAAAGACCTAAAAAGGATTTTAAAAGAGATGA
1 GATACTTTCGACATAAAACTACTCAATACCCCTAAAAGACCTAAAAAGGATTTTAAAAAAGAAGA
* * *
219155 ACCTATCCTAAATACCTACCCTCGACATGAAAGCGGACCC-GATGACAACCTAAGACTCGATTCT
66 ACCTATCCTAAATACCCACCCTCGACATGAAAGCAGACCCAG-TGACAAACTAAGACTCGATTC-
* * *
219219 TA-AAAATTA-TGAAAATAC-CCTTAGGG
129 TAGAAAATTACT-AAAATGCTTC-TAGGA
* * *
219245 GATACCTTCGACATAAAAGTACTCGATACCCC-AAAAG
1 GATACTTTCGACATAAAACTACTCAATACCCCTAAAAG
219282 GGCTTGAAAA
Statistics
Matches: 164, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
154 8 0.05
155 154 0.94
156 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.23
Consensus pattern (155 bp):
GATACTTTCGACATAAAACTACTCAATACCCCTAAAAGACCTAAAAAGGATTTTAAAAAAGAAGA
ACCTATCCTAAATACCCACCCTCGACATGAAAGCAGACCCAGTGACAAACTAAGACTCGATTCTA
GAAAATTACTAAAATGCTTCTAGGA
Found at i:227046 original size:13 final size:13
Alignment explanation
Indices: 227028--227063 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
227018 CTATTCTTTG
227028 TATCGATACATTA
1 TATCGATACATTA
*
227041 TATCGATACATTG
1 TATCGATACATTA
*
227054 TATCTATACA
1 TATCGATACA
227064 AGGGTTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:232972 original size:16 final size:13
Alignment explanation
Indices: 232939--232967 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
232929 AAATGAATGA
232939 AATGCAAGATACT
1 AATGCAAGATACT
232952 AATGCAAGATACT
1 AATGCAAGATACT
232965 AAT
1 AAT
232968 AATGCCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (13 bp):
AATGCAAGATACT
Found at i:247558 original size:20 final size:19
Alignment explanation
Indices: 247533--247616 Score: 81
Period size: 19 Copynumber: 4.7 Consensus size: 19
247523 TTTCAACGAT
247533 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
*
247553 TTGTATCGATTCATAAGTG
1 TTGTATCGATACATAAGTG
*
247572 TTGTATTGATAC--AA---
1 TTGTATCGATACATAAGTG
* *
247586 -TGTATCGATAGATAAGTT
1 TTGTATCGATACATAAGTG
247604 TTGTATCGATACA
1 TTGTATCGATACA
247617 ATGTAAGCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
13 9 0.17
15 2 0.04
17 2 0.04
19 26 0.50
20 13 0.25
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:247590 original size:32 final size:32
Alignment explanation
Indices: 247554--247621 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
247544 CATAAAGTGT
* *
247554 TGTATCGATTCATAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
247586 TGTATCGATAGATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
247618 TGTA
1 TGTA
247622 AGCTACTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:247677 original size:13 final size:13
Alignment explanation
Indices: 247659--247683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
247649 ATTACTCAAA
247659 TGTATCGATACAT
1 TGTATCGATACAT
247672 TGTATCGATACA
1 TGTATCGATACA
247684 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:247819 original size:52 final size:52
Alignment explanation
Indices: 247692--247820 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
247682 CACTGATCTT
* *
247692 TGTATCGATACATGCAGGCAAGTGTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
247744 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
247796 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
247821 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:252217 original size:32 final size:31
Alignment explanation
Indices: 252181--252250 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
252171 TCCGTAATCG
252181 TTAAA-ATAGAATTATTTTAT-ATTAATTAAATT
1 TTAAATATA-AATTA-TTTATGATTAATT-AATT
*
252213 TTAAATTATAAATTATTTATGATTAATTGATT
1 TTAAA-TATAAATTATTTATGATTAATTAATT
252245 TTAAAT
1 TTAAAT
252251 TTAATGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
31 1 0.03
32 18 0.53
33 12 0.35
34 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (31 bp):
TTAAATATAAATTATTTATGATTAATTAATT
Found at i:252251 original size:32 final size:33
Alignment explanation
Indices: 252190--252251 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
252180 GTTAAAATAG
252190 AATTATTTTATATTAATTAAATTTTAAATTATA
1 AATTATTTTATATTAATTAAATTTTAAATTATA
*
252223 AATTA-TTTATGATTAATT-GATTTTAAATT
1 AATTATTTTAT-ATTAATTAAATTTTAAATT
252252 TAATGTTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (33 bp):
AATTATTTTATATTAATTAAATTTTAAATTATA
Found at i:255918 original size:22 final size:23
Alignment explanation
Indices: 255872--255918 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
255862 AATTTTTATT
*
255872 ATTTTATGAATTTTCAAACATATA
1 ATTTTAT-AATTTTCAAACAAATA
*
255896 ATTTTAT-ATTTTCAAATAAATA
1 ATTTTATAATTTTCAAACAAATA
255918 A
1 A
255919 AATTAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
24 7 0.33
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTTTATAATTTTCAAACAAATA
Found at i:258754 original size:15 final size:15
Alignment explanation
Indices: 258730--258763 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
258720 CTTCTCTTCT
258730 AAAAAAAACAAA-AA
1 AAAAAAAACAAAGAA
258744 AAAACAAAACAAAGAA
1 AAAA-AAAACAAAGAA
258760 AAAA
1 AAAA
258764 GAGAGAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAAGAA
Found at i:259837 original size:62 final size:61
Alignment explanation
Indices: 259730--259891 Score: 218
Period size: 62 Copynumber: 2.6 Consensus size: 61
259720 CTTCTCCTTC
* * * * *
259730 CACTTCCCAATCCTCAAAGAGTAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
259791 CACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CAC-TTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
259853 CACTTCCTAGTCCTTAAAAAGCAGGACG-CTCTCTCCTTT
1 CACTTCCTAGTCCTCAAAGAGCAGGACGCCT-TCTCCTTT
259892 CGCCTTTTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
60 2 0.02
61 32 0.36
62 54 0.61
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (61 bp):
CACTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:260051 original size:61 final size:59
Alignment explanation
Indices: 259902--260510 Score: 645
Period size: 61 Copynumber: 10.3 Consensus size: 59
259892 CGCCTTTTTA
* * *
259902 TCCTCAAAGAGCAGGATG----CCTTTTAAAGCCCACACAAGCTGGTGGCAC-CTTCAG
1 TCCTCAAAGAGCAGGATGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* *
259956 TCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAG
1 TCCTCAAAGAGCAGGATGC-TT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * *
260017 TCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACGAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGATGCTTTC-CTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * **
260078 TCCTCAAAGAGCAGGA--C--GCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAGGATGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * *
260133 TCCTCAAAAAGTAGGATG----CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAA
1 TCCTCAAAGAGCAGGATGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAG
* * *
260188 TCCTTAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGCAGGATGCTTTC-CTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * **
260249 TCCTTAAAGAGTAGGGTGCCTCGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAG
1 TCCTCAAAGAGCAGGATG-CTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAG
* * *
260309 TCCTCAAAGAGCAGGATGCTTTCTCTCTACAAAGCCCACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGCAGGATGCTTTC-CT-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * *
260370 TTCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGCAGGATG-CTTTCCTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * ** *
260431 TCCTCAAAAAGCAAGACGCCTTTCCGTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAG
1 TCCTCAAAGAGCAGGATG-CTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
260492 TCCTCAAAGAGCAGGATGC
1 TCCTCAAAGAGCAGGATGC
260511 ACCTTATTTT
Statistics
Matches: 471, Mismatches: 57, Indels: 48
0.82 0.10 0.08
Matches are distributed among these distances:
54 19 0.04
55 84 0.18
56 3 0.01
57 1 0.00
59 9 0.02
60 84 0.18
61 256 0.54
62 15 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (59 bp):
TCCTCAAAGAGCAGGATGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
Found at i:260072 original size:121 final size:118
Alignment explanation
Indices: 259902--260515 Score: 689
Period size: 121 Copynumber: 5.2 Consensus size: 118
259892 CGCCTTTTTA
* *
259902 TCCTCAAAGAGCAGGATG--CCTTTTAAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAA
1 TCCTCAAAGAGCAGGATGCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* *
259964 GAGCAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAG
66 GAGCAGGACGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAG
* * *
260017 TCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACGAGTTGGTGGCACCTTTCAGTCCT
1 TCCTCAAAGAGCAGGATGC--TC-CTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCT
* *
260082 CAAAGAGCAGGACGC---CT--TTT-AAAGCCCACATAAGTTGGTGGCACTTCCCAG
62 CAAAGAGCAGGACGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAG
* * ** * *
260133 TCCTCAAAAAGTAGGATG--CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTTAAA
1 TCCTCAAAGAGCAGGATGCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* *
260196 GAGCAGGATGCTTTCT-CTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAG
66 GAGCAGGACGCTTTCTCCTTT-CAAAGCCCACACAAGTTGGTGGCACTTTCCAG
* * * **
260249 TCCTTAAAGAGTAGGGTGCCTCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TCCTCAAAGAGCAGGATG-CT--CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
* * *
260314 AAAGAGCAGGATGCTTTCT-CTCTACAAAGCCCACACAAGTTGGTGGCACCTTCCAG
63 AAAGAGCAGGACGCTTTCTCCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTCCAG
* *
260370 TTCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCT
1 TCCTCAAAGAGCAGGATG-C--TCCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCT
* * * ** **
260435 CAAAAAGCAAGACGCCTTTC-CGTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAG
62 CAAAGAGCAGGACG-CTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAG
*
260492 TCCTCAAAGAGCAGGATGCACCTT
1 TCCTCAAAGAGCAGGATGCTCCTT
260516 ATTTTCCTCT
Statistics
Matches: 429, Mismatches: 46, Indels: 44
0.83 0.09 0.08
Matches are distributed among these distances:
110 44 0.10
111 3 0.01
112 1 0.00
113 2 0.00
114 3 0.01
115 18 0.04
116 87 0.20
117 3 0.01
119 7 0.02
120 3 0.01
121 139 0.32
122 112 0.26
123 7 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (118 bp):
TCCTCAAAGAGCAGGATGCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
GAGCAGGACGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAG
Found at i:264504 original size:33 final size:33
Alignment explanation
Indices: 264462--264528 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
264452 TGAGAGTTAA
* *
264462 TCACTTCACTTTCGCAGTACATGAATGAGCACT
1 TCACTTCACTCTCGCAGCACATGAATGAGCACT
* * *
264495 TCACTTCACTCTCGTAGCGCATGGATGAGCACT
1 TCACTTCACTCTCGCAGCACATGAATGAGCACT
264528 T
1 T
264529 TAGCTCTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (33 bp):
TCACTTCACTCTCGCAGCACATGAATGAGCACT
Found at i:267895 original size:166 final size:165
Alignment explanation
Indices: 267311--267922 Score: 644
Period size: 166 Copynumber: 3.7 Consensus size: 165
267301 AATTCAAATG
* * * * * * * *
267311 AAATAAATTAAATTTTTCAAAACTGAATTAATAGGAGTTCAATGATAATATTAGATGAATTCTAA
1 AAATGAATT-AATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAA
* *** *** * * * * *
267376 AAACTT-TAAATTGAGAAACCCCCCT-GAAAACT-TTTGTGGAATAGAAAACTCAATTTTTCAAA
65 AAA-TTAAAAACCAAGAAAAATCCTTCGAAAA-TATTTATGGAGTAGAAAACTCCATATTTCAAA
*
267438 AAAAATGGAACTTT-AA-GAAACAAATTCAAAAACTCACGA
128 AAAAA-GGAA-TTTCAAGGAAA-AAATTCAAAAACTCATGA
* * * *
267477 AGATTAATTAATTTTTCAAAACTGATTTAATATGAAATAAATTATAATATTTGATTAATTTTAAA
1 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAA
* *
267542 AATTAAAAACCAAGAAAAATCCCTTCGAAAATATTTACGAAGTAGAAAACTCCATATTTCAAAAA
66 AATTAAAAACCAAGAAAAAT-CCTTCGAAAATATTTATGGAGTAGAAAACTCCATATTTCAAAAA
* *
267607 AAAAGAATTTCAAGGAAAAAATTCAAAAACTTATGA
130 AAAGGAATTTCAAGGAAAAAATTCAAAAACTCATGA
*
267643 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGGTGAATTTTAAA
1 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAA
* * **
267708 AATTAAAAACCAAGAAAAATCCTTCGAAAACATTTATGGAGTGGAAAACTTTATATTTCAAAACA
66 AATTAAAAACCAAGAAAAATCCTTCGAAAATATTTATGGAGTAGAAAACTCCATATTTCAAAA-A
* * *
267773 AAGGGAATTTCAAGGAAAAAATTTAAGAACTCATGA
130 AAAGGAATTTCAAGGAAAAAATTCAAAAACTCATGA
* * * * *
267809 AAATGAATTAATTTTGCAAAACTAATTTCATATGAATTAAATAATAATATTTGATGAATTTTTCA
1 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAA-TTTTAA
* * ** * *
267874 AATTTTAAATGCATG-AAAATCCTCCCGAAAATATTTATGGA-TAAGAAAA
65 AAATTAAAAACCAAGAAAAATCCT-TCGAAAATATTTATGGAGT-AGAAAA
267923 GCCCGTAATT
Statistics
Matches: 378, Mismatches: 58, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
164 2 0.01
165 97 0.26
166 206 0.54
167 73 0.19
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (165 bp):
AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAA
AATTAAAAACCAAGAAAAATCCTTCGAAAATATTTATGGAGTAGAAAACTCCATATTTCAAAAAA
AAGGAATTTCAAGGAAAAAATTCAAAAACTCATGA
Found at i:274377 original size:51 final size:52
Alignment explanation
Indices: 274241--274378 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 52
274231 AATTGCCTAC
* * * *
274241 ATGTAT-GATACATTGAAGAATATATCGATTCATTTAGGTCAAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGA
* * * * * *
274292 ATGTATCGATACAATGAATAATGCATTGACACATTTGGGT-TAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGA
274343 ATGTATCGATACAATGAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
274379 TCTTTCTAGA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 48 0.66
52 25 0.34
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGA
Found at i:275179 original size:52 final size:52
Alignment explanation
Indices: 275105--275289 Score: 237
Period size: 52 Copynumber: 3.6 Consensus size: 52
275095 CTTAATGATA
* *
275105 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATAAT
1 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAT
* * * * *
275157 AAAGGTGCCACTGTGCTGATTCATGGCCAGCGACATTGGA-TATAAAGATAAC
1 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACT-TAAAGATAAT
* * * * *
275209 AAAGGTGCTAATATGCTAATTCAAAGCCAACGACATTGGGCTTAAAGATGAT
1 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAT
*
275261 AAAGGTGCCAATATGCTGATTCAAGGCCA
1 AAAGGTGCCAATATGCTAATTCAAGGCCA
275290 CCAATATCAG
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
51 1 0.01
52 111 0.98
53 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAT
Found at i:275895 original size:28 final size:30
Alignment explanation
Indices: 275838--275900 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 30
275828 GAATACAAAA
* *
275838 TTGTGGACTTAAAAAAGGGGTGCCACAGAG
1 TTGTGAACTTAAAAAAGGGGTACCACAGAG
*
275868 TTGTGAACTT-AAAAA-GGGTACCATAGAG
1 TTGTGAACTTAAAAAAGGGGTACCACAGAG
275896 TTGTG
1 TTGTG
275901 GCCTTTGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 16 0.53
29 5 0.17
30 9 0.30
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.25
Consensus pattern (30 bp):
TTGTGAACTTAAAAAAGGGGTACCACAGAG
Found at i:277366 original size:31 final size:32
Alignment explanation
Indices: 277328--277389 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
277318 AGCCAAACTT
**
277328 GTATCGATACACCAAGTA-TGTATCGATACAA
1 GTATCGATACACCAAAAATTGTATCGATACAA
277359 GTATCGATACACCAAAAATTGTATCGATACA
1 GTATCGATACACCAAAAATTGTATCGATACA
277390 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (32 bp):
GTATCGATACACCAAAAATTGTATCGATACAA
Found at i:281454 original size:15 final size:15
Alignment explanation
Indices: 281434--281464 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
281424 TAAAAATGTC
*
281434 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
281449 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
281464 C
1 C
281465 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:283561 original size:13 final size:13
Alignment explanation
Indices: 283543--283581 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
283533 ACATTTTTCT
283543 TTGTATCGATACA
1 TTGTATCGATACA
283556 TTGTATCGATACA
1 TTGTATCGATACA
*
283569 TTGTATGGATACA
1 TTGTATCGATACA
283582 AGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:283745 original size:20 final size:20
Alignment explanation
Indices: 283702--283747 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
283692 AAATCTTTTG
283702 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
283723 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
283743 CAAAA
1 CAAAA
283748 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:286144 original size:13 final size:13
Alignment explanation
Indices: 286126--286151 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
286116 TACACCAAGT
286126 ATGTATCGATACA
1 ATGTATCGATACA
286139 ATGTATCGATACA
1 ATGTATCGATACA
286152 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:286149 original size:32 final size:33
Alignment explanation
Indices: 286108--286171 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
286098 TAGCCAAACT
**
286108 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
286140 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
286172 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:293221 original size:61 final size:59
Alignment explanation
Indices: 293072--293740 Score: 740
Period size: 61 Copynumber: 11.3 Consensus size: 59
293062 CGCCTTTTTA
* *
293072 TCCTCAAAGAGCAGGATGC---CTTTT-AAAGCCCACACAAGCTGGTGGCAC-CTTCAG
1 TCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* *
293126 TCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAG
1 TCCTCAAAGAGCAGGATGCTTTCT--TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* *
293187 TCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACGAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGATGCTTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * **
293248 TCCTCAAAGAGCAGGACGC---CTTTT-AAAGCCCACATAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
*
293303 TCCTCAAAGAGTAGGATGC---C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAG
1 TCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAG
* * *
293358 TCCTTAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGCAGGATGCTTTCT-TTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * ** *
293419 TCCTTAAAGAGTAGGGTGCCTCGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAG
1 TCCTCAAAGAGCAGGATG-CTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAG
* **
293479 TCCTCAAAGAGCAGGGTGCCTCGCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAG
1 TCCTCAAAGAGCAGGATG-CTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAG
* * *
293539 TCCTCAAAGAGCAGGATGCTTTCTCTCTACAAAGCCCACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGCAGGATGCTTTCT-T-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * * *
293600 TTCTCAAAGAGCAGGACGTCTTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGCAGGATG-CTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * ** *
293661 TCCTCAAAAAGCAGGACGCCTTTCCGTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAG
1 TCCTCAAAGAGCAGGATG-CTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
293722 TCCTCAAAGAGCAGGATGC
1 TCCTCAAAGAGCAGGATGC
293741 ACCTTATTTT
Statistics
Matches: 537, Mismatches: 53, Indels: 44
0.85 0.08 0.07
Matches are distributed among these distances:
54 23 0.04
55 86 0.16
57 6 0.01
58 2 0.00
59 9 0.02
60 132 0.25
61 264 0.49
62 13 0.02
63 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (59 bp):
TCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
Found at i:297734 original size:33 final size:33
Alignment explanation
Indices: 297692--297758 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
297682 TGAGAGTTAA
* *
297692 TCACTTCACTTTCGCAGTACATGAATGAGCACT
1 TCACTTCACTCTCGCAGCACATGAATGAGCACT
* * *
297725 TCACTTCACTCTCGTAGCGCATGGATGAGCACT
1 TCACTTCACTCTCGCAGCACATGAATGAGCACT
297758 T
1 T
297759 TAGCTCTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (33 bp):
TCACTTCACTCTCGCAGCACATGAATGAGCACT
Found at i:300885 original size:166 final size:164
Alignment explanation
Indices: 300543--301100 Score: 622
Period size: 166 Copynumber: 3.4 Consensus size: 164
300533 AATTCAAATG
* * * * * * * *
300543 AAATAAATTAAATTTTTCAAAACTGAATTAATAGGAGTTCAATGATAATATTAGATGAATTCTAA
1 AAATGAATT-AATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAA
* *** *** * ** *
300608 AAACTT-TAAATTGAGAAACCCCCT-GAAAACTTTTGTGGAA-TAGAAAACTCAATTTTTCAAAA
65 AAA-TTAAAAACCAAGAAAAATCCTCGAAAACATTT-ACGAAGTAGAAAACTCAATATTTCAAAA
*
300670 AAAATGGAACTTT-AA-GAAACAAATTCAAAAACTCACGA
128 AAAA-GGAA-TTTCAAGGAAA-AAATTCAAAAACTCATGA
* * * *
300708 AGATTAATTAATTTTTCAAAACTGATTTAATATGAAATAAATTATAATATTTGATTAATTTTAAA
1 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAA
* * *
300773 AATTAAAAACTAAGAAAAATCCCTTCGAAAATATTTACGAAGTAGAAAACTCCATATTTCAAAAA
66 AATTAAAAACCAAGAAAAAT-CC-TCGAAAACATTTACGAAGTAGAAAACTCAATATTTCAAAAA
* *
300838 AAAAGAATTTCAAGGAAAAAATTCAAAAACTTATGA
129 AAAGGAATTTCAAGGAAAAAATTCAAAAACTCATGA
*
300874 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGGTGAATTTTAAA
1 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAA
* * * **
300939 AATTAAAAACCAAGAAAAATCCTCGAAAACATTTATGGAGTGGAAAACTTTATATTTCAAAACAA
66 AATTAAAAACCAAGAAAAATCCTCGAAAACATTTACGAAGTAGAAAACTCAATATTTCAAAA-AA
* * *
301004 AGGGAATTTCAAGGAAAAAATTTAAGAACTCATGA
130 AAGGAATTTCAAGGAAAAAATTCAAAAACTCATGA
* * * *
301039 AAATGAATTAATTTTGCAAAACTAATTTCATATGAATTAAATAATAATATTTGATGAATTTT
1 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTT
301101 TCAAATTTTA
Statistics
Matches: 337, Mismatches: 48, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
163 2 0.01
164 92 0.27
165 103 0.31
166 104 0.31
167 36 0.11
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (164 bp):
AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAA
AATTAAAAACCAAGAAAAATCCTCGAAAACATTTACGAAGTAGAAAACTCAATATTTCAAAAAAA
AGGAATTTCAAGGAAAAAATTCAAAAACTCATGA
Found at i:301075 original size:165 final size:166
Alignment explanation
Indices: 300648--301100 Score: 626
Period size: 166 Copynumber: 2.7 Consensus size: 166
300638 TTTTGTGGAA
* * * *
300648 TAGAAAACTCAATTTTTCAAAAAAAATGGAACTTT-AA-GAAACAAATTCAAAAACTCACGAAGA
1 TAGAAAACTCCATATTTCAAAAAAAA-GGAA-TTTCAAGGAAA-AAATTCAAAAACTCATGAAAA
* * *
300711 TTAATTAATTTTTCAAAACTGATTTAATATGAAATAAATTATAATATTTGATTAATTTTAAAAAT
63 TGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAAAAT
* *
300776 TAAAAACTAAGAAAAATCCCTTCGAAAATATTTACGAAG
128 TAAAAACCAAGAAAAATCCCTTCGAAAACATTTACGAAG
* *
300815 TAGAAAACTCCATATTTCAAAAAAAAAGAATTTCAAGGAAAAAATTCAAAAACTTATGAAAATGA
1 TAGAAAACTCCATATTTCAAAAAAAAGGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGA
*
300880 ATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGGTGAATTTTAAAAATTAA
66 ATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAAAATTAA
* *
300945 AAACCAAGAAAAAT-CC-TCGAAAACATTTATGGAG
131 AAACCAAGAAAAATCCCTTCGAAAACATTTACGAAG
* ** * * *
300979 TGGAAAACTTTATATTTCAAAACAAAGGGAATTTCAAGGAAAAAATTTAAGAACTCATGAAAATG
1 TAGAAAACTCCATATTTCAAAA-AAAAGGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATG
* * * *
301044 AATTAATTTTGCAAAACTAATTTCATATGAATTAAATAATAATATTTGATGAATTTT
65 AATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTT
301101 TCAAATTTTA
Statistics
Matches: 256, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
164 34 0.13
165 94 0.37
166 100 0.39
167 28 0.11
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.32
Consensus pattern (166 bp):
TAGAAAACTCCATATTTCAAAAAAAAGGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGA
ATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAAAATTAA
AAACCAAGAAAAATCCCTTCGAAAACATTTACGAAG
Found at i:301125 original size:165 final size:163
Alignment explanation
Indices: 300543--301183 Score: 614
Period size: 166 Copynumber: 3.9 Consensus size: 163
300533 AATTCAAATG
* * * * * * * *
300543 AAATAAATTAAATTTTTCAAAACTGAATTAATAGGAGTTCAATGATAATATTAGATGAATTCTAA
1 AAATGAATT-AATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATT-TTA
*** *** * * * *
300608 AAACTTT-AAATTGAGAAACCCCCT-GAAAACT-TTTGTGGAATAGAAAACTCAATTTTTCAAAA
64 AAA-TTTAAAAACAAGAAAAATCCTCGAAAA-TATTTATGGAGTAGAAAACTCCATATTTCAAAA
*
300670 AAAATGGAACTTT-AA-GAAACAAATTCAAAAACTCACGA
127 AAAA-GGAA-TTTCAAGGAAA-AAATTCAAAAACTCATGA
* * * *
300708 AGATTAATTAATTTTTCAAAACTGATTTAATATGAAATAAATTATAATATTTGATTAATTTTAAA
1 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAA
* * *
300773 AATTAAAAACTAAGAAAAATCCCTTCGAAAATATTTACGAAGTAGAAAACTCCATATTTCAAAAA
66 ATTTAAAAAC-AAGAAAAAT-CC-TCGAAAATATTTATGGAGTAGAAAACTCCATATTTCAAAAA
* *
300838 AAAAGAATTTCAAGGAAAAAATTCAAAAACTTATGA
128 AAAGGAATTTCAAGGAAAAAATTCAAAAACTCATGA
*
300874 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGGTGAATTTTAAA
1 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAA
* * * **
300939 AATTAAAAACCAAGAAAAATCCTCGAAAACATTTATGGAGTGGAAAACTTTATATTTCAAAACAA
66 ATTTAAAAA-CAAGAAAAATCCTCGAAAATATTTATGGAGTAGAAAACTCCATATTTCAAAA-AA
* * *
301004 AGGGAATTTCAAGGAAAAAATTTAAGAACTCATGA
129 AAGGAATTTCAAGGAAAAAATTCAAAAACTCATGA
* * * *
301039 AAATGAATTAATTTTGCAAAACTAATTTCATATGAATTAAATAATAATATTTGATGAATTTTTCA
1 AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAA-TTTT-A
* ** * * *
301104 AATTTTAAATGCATG-AAAATCCTCCCGAAAATATTTATGGA-TAAGAAAAGC-CCGTAATTTGA
64 AAATTTAAAAACAAGAAAAATCCT--CGAAAATATTTATGGAGT-AGAAAA-CTCCAT-ATTTCA
*
301166 AAATAAGAGGAATTTCAA
124 AAA-AAAAGGAATTTCAA
301184 AAGAAAATCA
Statistics
Matches: 397, Mismatches: 62, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
162 2 0.01
163 8 0.02
164 82 0.21
165 107 0.27
166 109 0.27
167 68 0.17
168 21 0.05
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.32
Consensus pattern (163 bp):
AAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAA
ATTTAAAAACAAGAAAAATCCTCGAAAATATTTATGGAGTAGAAAACTCCATATTTCAAAAAAAA
GGAATTTCAAGGAAAAAATTCAAAAACTCATGA
Found at i:307606 original size:51 final size:52
Alignment explanation
Indices: 307470--307607 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 52
307460 AATTGCCTAC
* * * *
307470 ATGTAT-GATACATTGAAGAATATATCGATTCATTTAGGTCAAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGA
* * * * * *
307521 ATGTATCGATACAATGAATAATGCATTGACACATTTGGGT-TAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGA
307572 ATGTATCGATACAATGAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
307608 TCTTTCTAGA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 48 0.66
52 25 0.34
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGA
Found at i:308397 original size:52 final size:52
Alignment explanation
Indices: 308318--308498 Score: 222
Period size: 52 Copynumber: 3.5 Consensus size: 52
308308 CTTAATGATA
* *
308318 AAAGGTGCC-ATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATAAT
1 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAT
* * * * *
308369 AAAGGTGCCACTGTGCTGATTCATGGCCAGCGACATTGGA-TATAAAGATAAC
1 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACT-TAAAGATAAT
* * * * *
308421 AAAGGTGCTAATATGCTAATTCAAAGCCAACGACATTGGGCTTAAAGATGAT
1 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAT
*
308473 AAAGGTGCCAATATGCTGATTCAAGG
1 AAAGGTGCCAATATGCTAATTCAAGG
308499 GCCACCAATA
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
51 10 0.09
52 98 0.90
53 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAT
Found at i:314670 original size:15 final size:15
Alignment explanation
Indices: 314650--314680 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
314640 TAAAAATGTC
*
314650 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
314665 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
314680 C
1 C
314681 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:316767 original size:13 final size:13
Alignment explanation
Indices: 316749--316774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
316739 ACATTTTTCT
316749 TTGTATCGATACA
1 TTGTATCGATACA
316762 TTGTATCGATACA
1 TTGTATCGATACA
316775 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:316936 original size:20 final size:20
Alignment explanation
Indices: 316893--316938 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
316883 AAATCTTTTG
316893 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
316914 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
316934 CAAAA
1 CAAAA
316939 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:326397 original size:61 final size:59
Alignment explanation
Indices: 326248--326916 Score: 722
Period size: 61 Copynumber: 11.3 Consensus size: 59
326238 CGCCTTTTTA
* *
326248 TCCTCAAAGAGCAGGATGC---CTTTT-AAAGCCCACACAAGCTGGTGGCAC-CTTCAG
1 TCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* *
326302 TCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAG
1 TCCTCAAAGAGCAGGATGCTTTCT--TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* *
326363 TCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACGAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGATGCTTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * **
326424 TCCTCAAAGAGCAGGACGC---CTTTT-AAAGCCCACATAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
*
326479 TCCTCAAAGAGTAGGATGC---C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAG
1 TCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAG
* * * *
326534 TCCTTAAAGAGCACGATGCTTTCTCTTTACAAAGCCCACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGCAGGATGCTTTCT-TTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * ** *
326595 TCCTTAAAGAGTAGGGTGCCTCGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAG
1 TCCTCAAAGAGCAGGATG-CTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAG
* **
326655 TCCTCAAAGAGCAGGGTGCCTCGCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAG
1 TCCTCAAAGAGCAGGATG-CTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAG
* * *
326715 TCCTCAAAGAGCAGGATGCTTTCTCTCTACAAAGCCCACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGCAGGATGCTTTCT-T-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * * * *
326776 TTCTCAAAGAGCAGGACGTCTTTCCTTTGCGAAGCCCACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGCAGGATG-CTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * ** *
326837 TCCTCAAAAAGCAGGACGCCTTTCCGTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAG
1 TCCTCAAAGAGCAGGATG-CTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
326898 TCCTCAAAGAGCAGGATGC
1 TCCTCAAAGAGCAGGATGC
326917 ACCTTATTTT
Statistics
Matches: 533, Mismatches: 57, Indels: 44
0.84 0.09 0.07
Matches are distributed among these distances:
54 23 0.04
55 85 0.16
57 6 0.01
58 2 0.00
59 9 0.02
60 132 0.25
61 261 0.49
62 13 0.02
63 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (59 bp):
TCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
Found at i:330905 original size:33 final size:33
Alignment explanation
Indices: 330868--330934 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
330858 TGAGAGTTAA
* *
330868 TCACTTCACTTTCGCAGTACATGAATGAGCACT
1 TCACTTCACTCTCGCAGCACATGAATGAGCACT
* * *
330901 TCACTTCACTCTCGTAGCGCATGGATGAGCACT
1 TCACTTCACTCTCGCAGCACATGAATGAGCACT
330934 T
1 T
330935 TAGCTCTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (33 bp):
TCACTTCACTCTCGCAGCACATGAATGAGCACT
Done.