Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 54 of 325
Found at i:16380793 original size:16 final size:16
Alignment explanation
Indices: 16380755--16380793 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16380745 ATCTCCAAAA
*
16380755 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
16380771 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
16380787 AATAACT
1 AAAAACT
16380794 CTTCTCCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:16381824 original size:83 final size:83
Alignment explanation
Indices: 16381714--16382267 Score: 487
Period size: 83 Copynumber: 6.8 Consensus size: 83
16381704 TAGCTCAGCA
* * *
16381714 CGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTT-AAAACA-AAATTGTAAA
1 CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAA
* *
16381776 ACAATTTGAAATACCTCGG
66 AAAAATTGAAATACCTC-G
* * * *
16381795 TATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG-CAACATAAATTAAA
1 --CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATT--G
16381858 AAAAAAATCAATTGAAAATACCTCG
62 AAAAAAA--AATTG-AAATACCTCG
*
16381883 CGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACATAAATTG-AA
1 CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACATAAATTGAAA
*
16381946 AAAGAATTGAAATACCTCAG
65 AAAAAATTGAAATACCTC-G
** *
16381966 CGTG--TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA-AATTTGAA
1 CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACATAAATTGAA
*
16382028 AAAAGAATTGAAAATACCTCAG
64 AAAAAAATTG-AAATACCTC-G
* ** * * *
16382050 TGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAAACA-AAATT-AAA
1 CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACATAAATTGAAA
* *
16382113 ACAGAAA-TGAAAAACCTCAG
65 A-AAAAATTGAAATACCTC-G
**
16382133 CGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAC----A--G----
1 CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAA
*
16382186 --AAATTGAAATACCTCAA
66 AAAAATTGAAATACCTC-G
* ** *
16382203 CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAAA
1 CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAA
16382268 TACCTCAGCG
Statistics
Matches: 405, Mismatches: 34, Indels: 65
0.80 0.07 0.13
Matches are distributed among these distances:
69 3 0.01
70 14 0.03
72 48 0.12
76 1 0.00
77 1 0.00
78 1 0.00
80 12 0.03
81 31 0.08
82 48 0.12
83 91 0.22
84 26 0.06
85 52 0.13
86 53 0.13
88 15 0.04
89 9 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (83 bp):
CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAA
AAAAATTGAAATACCTCG
Found at i:16382224 original size:72 final size:73
Alignment explanation
Indices: 16382110--16383058 Score: 1292
Period size: 72 Copynumber: 13.2 Consensus size: 73
16382100 AAACAAAATT
*
16382110 AAAACAGAAA-TGAAAA-ACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
16382171 ATTTTTTG
66 ATTTTTTG
16382179 AAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
16382243 ATTTTTTG
66 ATTTTTTG
* *
16382251 AAAACAAAAATTGAAAATACCTC-A-GCGTC-TGAGGCTCAACTCA-CTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
16382312 ATTTTTTTG
66 A-TTTTTTG
*
16382321 AAAACAGAAATTGAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGA--TG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
16382383 ATTTTTTTT
66 A-TTTTTTG
*
16382392 AAAACAG-AATTGAAAATACCTC-A-GCG--TTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
16382452 ATTTTTTG
66 ATTTTTTG
* * * *
16382460 AAAA-AAAAATTG-AAATACCTC-A-GCGTC-TGAGGTTCAACTCACCTCTCGCAATATGAGCTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
16382520 ATTTTTTTG
66 A-TTTTTTG
16382529 AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
16382594 GA-TTTTTG
65 GATTTTTTG
* * * * *
16382602 ACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
16382665 GATTTTTTTG
65 GA-TTTTTTG
*
16382675 AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
16382740 GATTTTTTTT
65 GA-TTTTTTG
16382750 AAAGACAGAAATTGAAAATACCTCAA-GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
16382814 GA-TTTTTG
65 GATTTTTTG
* * * *
16382822 ACAAACAAAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
16382886 GATTTTTTTG
65 GA-TTTTTTG
* *
16382896 AAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
16382961 A-GTTTTG
66 ATTTTTTG
* * * *
16382968 ACAAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
16383032 GATTTTTTT
65 GATTTTTTG
* *
16383041 AGAAACATAAATTAAAAA
1 A-AAACAGAAATTGAAAA
16383059 AAGAAAATTG
Statistics
Matches: 792, Mismatches: 51, Indels: 69
0.87 0.06 0.08
Matches are distributed among these distances:
67 43 0.05
68 49 0.06
69 45 0.06
70 66 0.08
71 76 0.10
72 200 0.25
73 101 0.13
74 113 0.14
75 99 0.12
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:16382669 original size:146 final size:145
Alignment explanation
Indices: 16382110--16383058 Score: 1261
Period size: 146 Copynumber: 6.6 Consensus size: 145
16382100 AAACAAAATT
*
16382110 AAAACAGAAA-TGAAAA-ACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
16382171 ATTTTTTGAAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
66 ATTTTTTGAAAACAAAAATTGAAAATACCTCAA-GCGTCTTGAGGCTCAACTCACCTCTCGCAAT
16382235 ATGAGTTGATTTTTTG
130 ATGAGTTGATTTTTTG
* *
16382251 AAAACAAAAATTGAAAATACCTC-A-GCGTC-TGAGGCTCAACTCA-CTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
16382312 ATTTTTTTGAAAACAGAAATTGAAAATACCTC-AGCGTGTCTGAGGCTCAACTCACCTCTCGCAA
66 A-TTTTTTGAAAACAAAAATTGAAAATACCTCAAGCGTCT-TGAGGCTCAACTCACCTCTCGCAA
*
16382376 TATGA--TGATTTTTTTT
129 TATGAGTTGA-TTTTTTG
*
16382392 AAAACAG-AATTGAAAATACCTC-A-GCG--TTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
16382452 ATTTTTTGAAAA-AAAAATTG-AAATACCTC-AGCGTC-TGAGGTTCAACTCACCTCTCGCAATA
66 ATTTTTTGAAAACAAAAATTGAAAATACCTCAAGCGTCTTGAGGCTCAACTCACCTCTCGCAATA
*
16382513 TGAGCTGATTTTTTTG
131 TGAGTTGA-TTTTTTG
16382529 AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
16382594 GA-TTTTTGACAAACAAAAATTGAAATTACCTC-AGCGTCTTGAGGTTCAACTCACCTATCGCAA
65 GATTTTTTGA-AAACAAAAATTGAAAATACCTCAAGCGTCTTGAGGCTCAACTCACCTCTCGCAA
16382657 TATGAGTTGATTTTTTTG
129 TATGAGTTGA-TTTTTTG
*
16382675 AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
16382740 GATTTTTTTTAAAGACAGAAATTGAAAATACCTCAAGTGTCTTGAGGCTCAACTCACCTCTCGCA
65 GA-TTTTTTGAAA-ACAAAAATTGAAAATACCTCAAGCGTCTTGAGGCTCAACTCACCTCTCGCA
16382805 ATATGAGTTGA-TTTTTG
128 ATATGAGTTGATTTTTTG
* * * *
16382822 ACAAACAAAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
16382886 GATTTTTTTGAAAA-AAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGC
65 GA-TTTTTTGAAAACAA-AAATTGAAAATACCTCAA-GCGTCTTGAGGCTCAACTCACCTCTCGC
*
16382950 AATATGAGTTGA-GTTTTG
127 AATATGAGTTGATTTTTTG
* * * *
16382968 ACAAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
16383032 GATTTTTTTAGAAACATAAATTAAAAA
65 GATTTTTTGA-AAACAAAAATTGAAAA
16383059 AAGAAAATTG
Statistics
Matches: 742, Mismatches: 35, Indels: 57
0.89 0.04 0.07
Matches are distributed among these distances:
135 28 0.04
137 27 0.04
138 11 0.01
139 40 0.05
140 42 0.06
141 46 0.06
142 77 0.10
143 58 0.08
144 9 0.01
145 46 0.06
146 273 0.37
147 23 0.03
148 24 0.03
149 38 0.05
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (145 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGAAAACAAAAATTGAAAATACCTCAAGCGTCTTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTG
Found at i:16382940 original size:220 final size:216
Alignment explanation
Indices: 16382110--16383124 Score: 1340
Period size: 220 Copynumber: 4.7 Consensus size: 216
16382100 AAACAAAATT
*
16382110 AAAACAGAAA-TGAAAA-ACCTC-AGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAAACAGAAATTGAAAATACCTCAAGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * *
16382172 TTTTTTGA-AAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
66 TTTTTTGACAAACAAAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
16382236 TGAGTTGA-TTTTTTGAAAACAAAAATTGAAAATACCTCAGCGTCTGAGGCTCAACTCA-CTCTC
131 TGAGTTGATTTTTTTGAAAA-AAAAATTGAAAATACCTCAGCGTCTGAGGCTCAACTCACCTCTC
16382299 GCAATATGAGTTGATTTTTTTG
195 GCAATATGAGTTGATTTTTTTG
*
16382321 AAAACAGAAATTGAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGA--TG
1 AAAACAGAAATTGAAAATACCTCA-AGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
16382383 ATTTTTTTTA-AAAC-AGAATTGAAAATACCTCAGC--GT--TGAGGCTCAACTCACCTCTCGCA
65 A-TTTTTTGACAAACAAAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
*
16382442 ATATGAGTTGA-TTTTTTGAAAAAAAAATTG-AAATACCTCAGCGTCTGAGGTTCAACTCACCTC
128 ATATGAGTTGATTTTTTTGAAAAAAAAATTGAAAATACCTCAGCGTCTGAGGCTCAACTCACCTC
*
16382505 TCGCAATATGAGCTGATTTTTTTG
193 TCGCAATATGAGTTGATTTTTTTG
16382529 AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAA-GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
16382594 GA-TTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGTTCAACTCACCTATCGCA
64 GATTTTTTGACAAACAAAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
16382656 ATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTC
128 ATATGAGTTGATTTTTTTGAAAAA-A-AAATTGAAAATACCTC-A-GCGTC-TGAGGCTCAACTC
*
16382721 ACCTCTCGCAATATGAGTTGATTTTTTTT
188 ACCTCTCGCAATATGAGTTGATTTTTTTG
16382750 AAAGACAGAAATTGAAAATACCTCAAGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAA-ACAGAAATTGAAAATACCTCAAGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
16382815 A-TTTTTGACAAACAAAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAAT
65 ATTTTTTGACAAACAAAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
*
16382879 ATGAGTTGATTTTTTTGAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
130 ATGAGTTGATTTTTTTGAAAAAA-AAATTGAAAATACCTC-A-GCGTC-TGAGGCTCAACTCACC
* *
16382944 TCTTGCAATATGAGTTGA--GTTTTG
191 TCTCGCAATATGAGTTGATTTTTTTG
* * * *
16382968 ACAAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCA-AGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
16383032 GATTTTTTTAGAAACATAAATTAAAAAAAGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
64 GA-TTTTTT-G--AC---------AAACA-AAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCA
16383097 ACTCACCTCTCGCAATATGAGTTGATTT
114 ACTCACCTCTCGCAATATGAGTTGATTT
16383125 GAAAAGCAGA
Statistics
Matches: 732, Mismatches: 28, Indels: 65
0.89 0.03 0.08
Matches are distributed among these distances:
207 28 0.04
208 37 0.05
209 71 0.10
210 35 0.05
211 19 0.03
212 34 0.05
213 27 0.04
214 61 0.08
215 16 0.02
216 1 0.00
217 22 0.03
218 55 0.08
219 12 0.02
220 131 0.18
221 116 0.16
223 2 0.00
232 4 0.01
233 7 0.01
234 54 0.07
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (216 bp):
AAAACAGAAATTGAAAATACCTCAAGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTGACAAACAAAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTGAAAAAAAAATTGAAAATACCTCAGCGTCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTTG
Found at i:16383218 original size:98 final size:95
Alignment explanation
Indices: 16382965--16383410 Score: 466
Period size: 88 Copynumber: 4.8 Consensus size: 95
16382955 GAGTTGAGTT
* * * *
16382965 TTGACAAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
*** * *
16383029 GTTGATTTT-TTTAG-A-AA---CA-TAAA
66 GTTGATTTTGAAAAGCAGAATTTAAGAAAA
* *
16383052 TT-AAAAAAAGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
16383116 AGTTGA-TTTGAAAAGCAGAATTTGTAAGGAAAAA
65 AGTTGATTTTGAAAAGCAGAA-TT-TAA-G-AAAA
16383150 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
16383215 GTTGATTTTTGAAAAACAGAAATTAAAAGCAGAAA
66 GTTGA-TTTTGAAAAGCAG-AATT-TAAG-A-AAA
* * *
16383250 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCC-GAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
16383314 GTTGATTTTTGAAAAGC---A--T----AAA
66 GTTGA-TTTTGAAAAGCAGAATTTAAGAAAA
* *
16383336 TTGAAAAA-AGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
16383400 GAGTTGATTTT
64 GAGTTGATTTT
16383411 TTTGAAAGAT
Statistics
Matches: 313, Mismatches: 25, Indels: 42
0.82 0.07 0.11
Matches are distributed among these distances:
85 19 0.06
86 16 0.05
87 14 0.04
88 90 0.29
89 1 0.00
90 2 0.01
95 2 0.01
98 63 0.20
99 52 0.17
100 52 0.17
101 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (95 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTGAAAAGCAGAATTTAAGAAAA
Found at i:16383261 original size:14 final size:13
Alignment explanation
Indices: 16383226--16383270 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
16383216 TTGATTTTTG
16383226 AAAAACAGAAATT
1 AAAAACAGAAATT
*
16383239 AAAAGCAGAAATT
1 AAAAACAGAAATT
16383252 GAAAAACAGAAATT
1 -AAAAACAGAAATT
16383266 AAAAA
1 AAAAA
16383271 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:16383282 original size:100 final size:100
Alignment explanation
Indices: 16383049--16383355 Score: 446
Period size: 99 Copynumber: 3.1 Consensus size: 100
16383039 TTAGAAACAT
* *
16383049 AAATT-AAAAAAAGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTGAAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAAT
* * *
16383113 ATGAGTTGA--TTTGAAAAGCAGAATTTGTAAGGAA-
65 ATGAGTTGATTTTTGAAAAGCAGAAATT-AAAAGAAG
16383147 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
* *
16383212 TGAGTTGATTTTTGAAAAACAGAAATTAAAAGCAG
66 TGAGTTGATTTTTGAAAAGCAGAAATTAAAAGAAG
* * *
16383247 AAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCC-GAGGCTCAGCTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
*
16383311 TGAGTTGATTTTTGAAAAGCATAAATTGAAAA-AAG
66 TGAGTTGATTTTTGAAAAGCAGAAATT-AAAAGAAG
16383346 AAATTGAAAA
1 AAATTGAAAA
16383356 TACCTCAGCG
Statistics
Matches: 191, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
98 63 0.33
99 72 0.38
100 56 0.29
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (100 bp):
AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAGCAGAAATTAAAAGAAG
Found at i:16391601 original size:18 final size:18
Alignment explanation
Indices: 16391557--16391593 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16391547 ATTCCTTCTG
16391557 GACTCTTTCCATCCTTTC
1 GACTCTTTCCATCCTTTC
16391575 GACTCTTTCCATCCTTTC
1 GACTCTTTCCATCCTTTC
16391593 G
1 G
16391594 TTTCTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.38, G:0.08, T:0.43
Consensus pattern (18 bp):
GACTCTTTCCATCCTTTC
Found at i:16395628 original size:25 final size:25
Alignment explanation
Indices: 16395600--16395731 Score: 91
Period size: 25 Copynumber: 5.6 Consensus size: 25
16395590 GAAAAAATAT
*
16395600 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
16395625 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
16395650 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* * *
16395674 A-ATATACCTAACATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
16395696 A-ATATATATAATATAATATTAAA-
1 ATATATACATAATATAGTATTAAAG
*
16395719 AAATATA-ATAATA
1 ATATATACATAATA
16395732 AAAAAAAGAG
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.01
22 14 0.17
23 20 0.24
24 14 0.17
25 34 0.40
26 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:16395628 original size:29 final size:27
Alignment explanation
Indices: 16395545--16395637 Score: 98
Period size: 29 Copynumber: 3.3 Consensus size: 27
16395535 AGTGTAAAAA
*
16395545 ATACATACATAATATG-ATTAAAATAT
1 ATACATAAATAATATGTATTAAAATAT
* **
16395571 ATACATAAGATAACATGTAGAAAAAATAT
1 ATACATAA-ATAATATGTA-TTAAAATAT
*
16395600 ATATATAAATAATATAGTATTAAAGATAT
1 ATACATAAATAATAT-GTATTAAA-ATAT
16395629 ATACATAAA
1 ATACATAAA
16395638 ATAGTATAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.13
27 7 0.13
28 10 0.19
29 29 0.55
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.31
Consensus pattern (27 bp):
ATACATAAATAATATGTATTAAAATAT
Found at i:16395640 original size:27 final size:27
Alignment explanation
Indices: 16395528--16395640 Score: 78
Period size: 29 Copynumber: 4.2 Consensus size: 27
16395518 AAATATGTAC
*
16395528 ATAATATAGT-GTAAAA-A-ATACATA
1 ATAATATAGTATTAAAATATATACATA
16395552 CATAATAT-G-ATTAAAATATATACATAA
1 -ATAATATAGTATTAAAATATATACAT-A
* ** *
16395579 GATAACAT-GTAGAAAAAATATATATATAA
1 -ATAATATAGTA-TTAAAATATATACAT-A
16395608 ATAATATAGTATTAAAGATATATACATA
1 ATAATATAGTATTAAA-ATATATACATA
16395636 A-AATA
1 ATAATA
16395641 GTATAATATA
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
24 6 0.09
25 8 0.11
26 6 0.09
27 12 0.17
28 12 0.17
29 26 0.37
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (27 bp):
ATAATATAGTATTAAAATATATACATA
Found at i:16395651 original size:50 final size:48
Alignment explanation
Indices: 16395593--16395714 Score: 127
Period size: 50 Copynumber: 2.5 Consensus size: 48
16395583 ACATGTAGAA
*
16395593 AAAATATATATATAAATAATATAGTATTAAAGATATATACATAAAATAGT
1 AAAATATATATATAAATAATATAGAATT-AAGA-ATATACATAAAATAGT
* ** * * * *
16395643 ATAATATATATATACGTAATATAGAATTTAGAATATACCTAACATATT
1 AAAATATATATATAAATAATATAGAATTAAGAATATACATAAAATAGT
*
16395691 AAAAGAATATATATAATATAATAT
1 AAAA-TATATATATAA-ATAATAT
16395715 TAAAAAATAT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
48 16 0.28
49 12 0.21
50 30 0.52
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (48 bp):
AAAATATATATATAAATAATATAGAATTAAGAATATACATAAAATAGT
Found at i:16395723 original size:15 final size:15
Alignment explanation
Indices: 16395705--16395736 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16395695 GAATATATAT
*
16395705 AATATAATATTAAAA
1 AATATAATAATAAAA
16395720 AATATAATAATAAAA
1 AATATAATAATAAAA
16395735 AA
1 AA
16395737 AAGAGAGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAATAATAAAA
Found at i:16396049 original size:16 final size:16
Alignment explanation
Indices: 16396011--16396049 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16396001 ATCTCCAAAA
*
16396011 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
16396027 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
16396043 AATAACT
1 AAAAACT
16396050 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:16396248 original size:30 final size:30
Alignment explanation
Indices: 16396207--16396305 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
16396197 TAGGTACAAA
16396207 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
16396237 AGGTAGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
16396267 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
16396297 TGGTGGTGG
1 TGGTGGTGG
16396306 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.06, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:16399737 original size:16 final size:16
Alignment explanation
Indices: 16399713--16399743 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16399703 TTAACAGATG
16399713 ACTACCAGACTAACCA
1 ACTACCAGACTAACCA
*
16399729 ACTATCAGACTAACC
1 ACTACCAGACTAACC
16399744 GATACTTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.35, G:0.06, T:0.16
Consensus pattern (16 bp):
ACTACCAGACTAACCA
Found at i:16401748 original size:39 final size:39
Alignment explanation
Indices: 16401694--16401772 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
16401684 TGTGCATCAA
*
16401694 GAAAGGAAAAAAAAGACTAGATGGCTATAAAAGTAGACT
1 GAAAGGAAAAAAAAGACTAGATGGCAATAAAAGTAGACT
*
16401733 GAAAGGAAAGAAAAGACTAGATGGCAATAAAAGTAGACT
1 GAAAGGAAAAAAAAGACTAGATGGCAATAAAAGTAGACT
16401772 G
1 G
16401773 GAAAAGGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.53, C:0.08, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAAGGAAAAAAAAGACTAGATGGCAATAAAAGTAGACT
Found at i:16410497 original size:45 final size:46
Alignment explanation
Indices: 16410339--16410565 Score: 192
Period size: 47 Copynumber: 4.9 Consensus size: 46
16410329 TGGGTTAAGC
* * * * *
16410339 GCCGATGCAATGTCCCAGACATGGTCTTACATTGGCTCATAGCTCAA
1 GCCGATGC-ATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAA
* * * *
16410386 GTCGATGCCATGTCCCAGCCATGGTCTTACACTAAC-TATCATCTCTTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTTA-CATCTC-AA
*
16410434 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCGA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAA
* * * *
16410479 GGCGATGCATGTCCCAGACAT-GTCTTACACTAGCCCT-CGTATCAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCAA
* * ** *
16410524 TCCCAATGCCATGTCCTGGACATGGTCTTACACTGGCTTACA
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTTACA
16410566 CGAGTGACCC
Statistics
Matches: 145, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
45 38 0.26
46 25 0.17
47 62 0.43
48 20 0.14
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAA
Found at i:16416116 original size:19 final size:19
Alignment explanation
Indices: 16416092--16416128 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16416082 GTGGGTGATA
16416092 GAACTCTCGTTAAATTCTG
1 GAACTCTCGTTAAATTCTG
16416111 GAACTCTCGTTAAATTCT
1 GAACTCTCGTTAAATTCT
16416129 AGAAAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (19 bp):
GAACTCTCGTTAAATTCTG
Found at i:16420751 original size:23 final size:22
Alignment explanation
Indices: 16420718--16420772 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
16420708 ATAAAAAACA
*
16420718 TTTATTATATTTATTTTTAGTATT
1 TTTA-TATATTTATATTT-GTATT
*
16420742 TTTATATATTTATATTTGTGTT
1 TTTATATATTTATATTTGTATT
16420764 TTTAATATA
1 TTT-ATATA
16420773 AATATCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 17 0.61
24 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTATATATTTATATTTGTATT
Found at i:16421804 original size:13 final size:13
Alignment explanation
Indices: 16421786--16421812 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16421776 TCAATGTGAC
16421786 ATCATTTATTCGT
1 ATCATTTATTCGT
16421799 ATCATTTATTCGT
1 ATCATTTATTCGT
16421812 A
1 A
16421813 CTAATCATCA
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:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (13 bp):
ATCATTTATTCGT
Found at i:16422092 original size:30 final size:31
Alignment explanation
Indices: 16422056--16422115 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
16422046 AACAACCCAA
16422056 TGGCTTAAA-AAAAACTTTCGAATAGTTCAT
1 TGGCTTAAATAAAAACTTTCGAATAGTTCAT
*
16422086 TGGCTTAAATGAAAACTTTCGAATAGTTCA
1 TGGCTTAAATAAAAACTTTCGAATAGTTCA
16422116 ATGGACCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (31 bp):
TGGCTTAAATAAAAACTTTCGAATAGTTCAT
Found at i:16428875 original size:17 final size:17
Alignment explanation
Indices: 16428802--16428875 Score: 55
Period size: 17 Copynumber: 4.2 Consensus size: 17
16428792 TTGCATTATA
*
16428802 TATATTATTTATTTTGT
1 TATATTATTTATTTTGC
*
16428819 TATATT-TGTATTTTTGC
1 TATATTATTTA-TTTTGC
16428836 TATATGTTATATGTATTTT--
1 TATA--TTAT-T-TATTTTGC
*
16428855 TATATTATTTATTTTAC
1 TATATTATTTATTTTGC
16428872 TATA
1 TATA
16428876 CATTTTTAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
15 6 0.13
16 4 0.09
17 23 0.50
19 6 0.13
20 1 0.02
21 4 0.09
22 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.07, T:0.65
Consensus pattern (17 bp):
TATATTATTTATTTTGC
Found at i:16428979 original size:22 final size:22
Alignment explanation
Indices: 16428954--16428999 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
16428944 ATTTTTATTT
*
16428954 ATATCATTAATTATA-TTATAAA
1 ATATAATT-ATTATATTTATAAA
*
16428976 ATATAATTATTTTATTTATAAA
1 ATATAATTATTATATTTATAAA
16428998 AT
1 AT
16429000 TAGTAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATAATTATTATATTTATAAA
Found at i:16432553 original size:18 final size:18
Alignment explanation
Indices: 16432526--16432566 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
16432516 ATAGATGGGC
16432526 AAAA-TTGTAAATTTTGG
1 AAAAGTTGTAAATTTTGG
16432543 AAAAGTTGTAAATTTTGG
1 AAAAGTTGTAAATTTTGG
*
16432561 CAAAGT
1 AAAAGT
16432567 GTGTCAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (18 bp):
AAAAGTTGTAAATTTTGG
Found at i:16440153 original size:14 final size:15
Alignment explanation
Indices: 16440119--16440161 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 15
16440109 TAAAATAAAA
16440119 ATTTTATATAGATATTTT
1 ATTTTATATA-A-A-TTT
16440137 ATTTTA-ATAAATTT
1 ATTTTATATAAATTT
16440151 ATTTTATATAA
1 ATTTTATATAA
16440162 CATATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.38
15 5 0.21
16 1 0.04
17 3 0.12
18 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTTTATATAAATTT
Found at i:16448521 original size:18 final size:18
Alignment explanation
Indices: 16448500--16448552 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
16448490 GTCGTCGTCG
*
16448500 TCGTCCTCATCATCATCA
1 TCGTCATCATCATCATCA
* *
16448518 TCGTCTTGATCATCATCA
1 TCGTCATCATCATCATCA
**
16448536 GAGTCATCATCATCATC
1 TCGTCATCATCATCATC
16448553 TTTACCCTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (18 bp):
TCGTCATCATCATCATCA
Found at i:16452980 original size:16 final size:15
Alignment explanation
Indices: 16452949--16452978 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16452939 TAAATTTTAA
16452949 AAAAAAAATTATTTT
1 AAAAAAAATTATTTT
16452964 AAAAAAAATTATTTT
1 AAAAAAAATTATTTT
16452979 TACTTTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAAAAAATTATTTT
Found at i:16461124 original size:20 final size:20
Alignment explanation
Indices: 16461078--16461130 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
16461068 ATGTATTTAC
*
16461078 TTAATATTTAAGAAATAATAA
1 TTAATAATTAA-AAATAATAA
16461099 TT-ATAATTAAAAAT-ATAA
1 TTAATAATTAAAAATAATAA
16461117 TATAATAATATAAA
1 T-TAATAAT-TAAA
16461131 GTAAGGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.18
19 5 0.18
20 12 0.43
21 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAATAATTAAAAATAATAA
Found at i:16461128 original size:13 final size:13
Alignment explanation
Indices: 16461092--16461129 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
16461082 TATTTAAGAA
16461092 ATAATAATTATAAT
1 ATAATAA-TATAAT
*
16461106 -TAAAAATATAAT
1 ATAATAATATAAT
16461118 ATAATAATATAA
1 ATAATAATATAA
16461130 AGTAAGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:16461211 original size:21 final size:22
Alignment explanation
Indices: 16461185--16461226 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
16461175 AAACAGAACA
*
16461185 GGGAAAGAAAGAAA-GAAAAAG
1 GGGAAAAAAAGAAAGGAAAAAG
16461206 GGGAAAAAAAGAAAGGAAAAA
1 GGGAAAAAAAGAAAGGAAAAA
16461227 TAGGGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (22 bp):
GGGAAAAAAAGAAAGGAAAAAG
Found at i:16463940 original size:48 final size:48
Alignment explanation
Indices: 16463884--16464048 Score: 201
Period size: 48 Copynumber: 3.5 Consensus size: 48
16463874 AAGCTGACGC
* * *
16463884 CATGTCCCAAATAGGTCTTACACTAACTTGTATATCTCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* ** * *
16463932 CATGTCCCAAACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* *
16463978 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGTCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* *
16464026 CATGT-CCAGACATGTTTTACACT
1 CATGTCCCAAACATGTCTTACACT
16464049 GACTCTCGTA
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
46 38 0.38
47 21 0.21
48 40 0.40
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:16463992 original size:46 final size:46
Alignment explanation
Indices: 16463925--16464097 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 46
16463915 ATATCTCGAG
*
16463925 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
* ** * *
16463971 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAAT
* *
16464019 GTCGATGCATGT-CCAGACATGTTTTACACT-GACTCTCG--T-AATGT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG-CTCTCGTCTCAA--T
* * *
16464063 GGCCGATGCATGTCCTAGACATGTCCTACTCTAGC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC
16464098 ACACATATCA
Statistics
Matches: 101, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
45 11 0.11
46 51 0.50
47 21 0.21
48 16 0.16
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:16464083 original size:93 final size:93
Alignment explanation
Indices: 16463884--16464097 Score: 265
Period size: 93 Copynumber: 2.3 Consensus size: 93
16463874 AAGCTGACGC
* * * *
16463884 CATGTCCCAAATAGGTCTTACACTAACTTGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
16463949 TTACACTAGCTCTCGTCTCAATGCCGATG
66 TTACACTAGCTCTCG-CTCAATGCCGATG
* * *
16463978 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGTCGATGCATGT-CCAGACATGTT
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
16464042 TTACACT-GACTCTCG-T-AATGTGGCCGATG
66 TTACACTAG-CTCTCGCTCAA--T-GCCGATG
* * *
16464071 CATGTCCTAGACATGTCCTACTCTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
16464098 ACACATATCA
Statistics
Matches: 106, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
90 2 0.02
91 1 0.01
92 2 0.02
93 53 0.50
94 48 0.45
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
TTACACTAGCTCTCGCTCAATGCCGATG
Found at i:16464457 original size:29 final size:30
Alignment explanation
Indices: 16464425--16464486 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
16464415 CAATAATTTA
* *
16464425 TAAA-TTGGAAAAAATGACCATTTTGCCCC
1 TAAATTTGCAAAAAATGACCATTTTACCCC
* *
16464454 TAAATTTTCACAAAATGACCATTTTACCCC
1 TAAATTTGCAAAAAATGACCATTTTACCCC
16464484 TAA
1 TAA
16464487 GCCTGGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.31
Consensus pattern (30 bp):
TAAATTTGCAAAAAATGACCATTTTACCCC
Found at i:16470650 original size:20 final size:21
Alignment explanation
Indices: 16470618--16470697 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 21
16470608 AGCTATGCTG
*
16470618 ACTTG-TTTAAAAACAATTTA
1 ACTTGATTTGAAAACAATTTA
*
16470638 ACTT-ATTTGAAAAAAAAGTTCTA
1 ACTTGATTTG-AAAACAA-TT-TA
* *
16470661 ACTTGA-TTGAAATCATTTTA
1 ACTTGATTTGAAAACAATTTA
16470681 ACTTGATTT-AAAA-AATT
1 ACTTGATTTGAAAACAATT
16470698 AATTTAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
19 3 0.06
20 18 0.38
21 10 0.21
22 6 0.13
23 9 0.19
24 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (21 bp):
ACTTGATTTGAAAACAATTTA
Found at i:16474187 original size:29 final size:29
Alignment explanation
Indices: 16474154--16474211 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
16474144 AAATCCTATA
*
16474154 TATTTTTCAGTTTACAGTTCCATGCAATC
1 TATTTTTCAATTTACAGTTCCATGCAATC
* * *
16474183 TATTTTTTAATTTATAGTTGCATGCAATC
1 TATTTTTCAATTTACAGTTCCATGCAATC
16474212 CTAGAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.16, G:0.10, T:0.48
Consensus pattern (29 bp):
TATTTTTCAATTTACAGTTCCATGCAATC
Found at i:16475801 original size:20 final size:20
Alignment explanation
Indices: 16475733--16475803 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
16475723 AAAACCTAAT
* * *
16475733 AAGTATCGATATTTTTAGACG
1 AAGTATCGATAATTTTATA-A
*
16475754 AA-TATCAATAATTTTATAA
1 AAGTATCGATAATTTTATAA
*
16475773 AAGTGTCGATAATTTTA-AA
1 AAGTATCGATAATTTTATAA
*
16475792 ATGGTATCGATA
1 A-AGTATCGATA
16475804 CCAAATTGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
19 5 0.12
20 33 0.82
21 2 0.05
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
AAGTATCGATAATTTTATAA
Found at i:16479895 original size:20 final size:20
Alignment explanation
Indices: 16479870--16479919 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
16479860 TTTACCCCGA
*
16479870 GTATCGATACTCGAGCAAAG
1 GTATCGATACTCGAGCAAAC
16479890 GTATCGATACTCGAGCAAAC
1 GTATCGATACTCGAGCAAAC
*
16479910 ATATCGATAC
1 GTATCGATAC
16479920 GAAATCTCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
GTATCGATACTCGAGCAAAC
Found at i:16493933 original size:48 final size:48
Alignment explanation
Indices: 16493865--16494327 Score: 567
Period size: 48 Copynumber: 9.6 Consensus size: 48
16493855 GGTGAATTAT
* * *
16493865 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATAGC
* * * * *
16493913 CGATTCCATGTCCCAGACATGGTCTTCCACTAGCGCACATATCAATA-C
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATAGC
*
16493961 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TACATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CATAGC
* * * *
16494009 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATAGC
* * * *
16494057 CGATGCCATGTCCCAGACATGGTCTTCCACTAGCGCACATATCAATA-C
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATAGC
*
16494105 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TACATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CATAGC
* * * *
16494153 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATAGC
* * * * *
16494201 CGATGCCATGTCTCAAACATGGTCTTACACTAGCACACATATCA-ATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATA-GC
* * *
16494249 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATAGC
*
16494297 CGATGCCATGTCTCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
16494328 AGCACACATA
Statistics
Matches: 351, Mismatches: 54, Indels: 20
0.83 0.13 0.05
Matches are distributed among these distances:
47 7 0.02
48 338 0.96
49 6 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATAGC
Found at i:16494126 original size:144 final size:144
Alignment explanation
Indices: 16493866--16494327 Score: 793
Period size: 144 Copynumber: 3.2 Consensus size: 144
16493856 GTGAATTATC
*
16493866 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATTCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
16493931 ATGGTCTTCCACTAGCGCACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
66 ATGGTCTTCCACTAGCGCACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
16493996 CTCATTACATTGCT
131 CTCATTACATTGCT
16494010 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
16494075 ATGGTCTTCCACTAGCGCACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
66 ATGGTCTTCCACTAGCGCACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
16494140 CTCATTACATTGCT
131 CTCATTACATTGCT
* *
16494154 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCTCAAAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
* * * *
16494219 ATGGTCTTACACTAGCACACATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCT
66 ATGGTCTTCCACTAGCGCACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
* * *
16494284 CTCA-TATCGTGGCC
131 CTCATTA-CATTGCT
*
16494298 GATGCCATG-TCTCAGACATGGTCTTACACT
1 GATGCCATGTTC-CAAACATGGTCTTACACT
16494328 AGCACACATA
Statistics
Matches: 305, Mismatches: 11, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
143 4 0.01
144 301 0.99
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (144 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
ATGGTCTTCCACTAGCGCACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
CTCATTACATTGCT
Found at i:16503346 original size:144 final size:144
Alignment explanation
Indices: 16503086--16503394 Score: 519
Period size: 144 Copynumber: 2.1 Consensus size: 144
16503076 CTTACACTGG
* *
16503086 CTTACACTAGCGCACATATCAATACCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCAT
1 CTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
** *
16503151 TACATTGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTTGCCAATGCCAT
66 TACATTACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCAT
16503216 GTCCCAGAAATGGT
131 GTCCCAGAAATGGT
* **
16503230 CTTACACTAGCACACATATTAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 CTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
* *
16503295 TACATTACCGATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCAT
66 TACATTACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCAT
*
16503360 GTCCCAGACATGGT
131 GTCCCAGAAATGGT
16503374 CTTACACTAGCACACATATCA
1 CTTACACTAGCACACATATCA
16503395 CCCAATTGTC
Statistics
Matches: 153, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
144 153 1.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (144 bp):
CTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
TACATTACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCAT
GTCCCAGAAATGGT
Found at i:16503393 original size:48 final size:48
Alignment explanation
Indices: 16503086--16503381 Score: 344
Period size: 48 Copynumber: 6.2 Consensus size: 48
16503076 CTTACACTGG
* * * * * *
16503086 CTTACACTAGCGCACATATCAATACCGATGCCATGTCCCAGATATGGT
1 CTTACACTGGCTCTCATATCATTGCCGATGCCATGTCCCAGACATGGT
* * *
16503134 CTTACACTGGCTCTCAT-TACATTGTCGATGCCATGTTCCAAACATGGT
1 CTTACACTGGCTCTCATAT-CATTGCCGATGCCATGTCCCAGACATGGT
* * *
16503182 CTTACACTGGCTCTCATATCGTTGCCAATGCCATGTCCCAGAAATGGT
1 CTTACACTGGCTCTCATATCATTGCCGATGCCATGTCCCAGACATGGT
* * * * * *
16503230 CTTACACTAGCACACATATTAATGTCGATGCCATGTCCCAGACATGGT
1 CTTACACTGGCTCTCATATCATTGCCGATGCCATGTCCCAGACATGGT
* * * *
16503278 CTTACACTGGCTCTCAT-TACATTACCGATGTCATGTTCCAAACATGGT
1 CTTACACTGGCTCTCATAT-CATTGCCGATGCCATGTCCCAGACATGGT
* *
16503326 CTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACATGGT
1 CTTACACTGGCTCTCATATCATTGCCGATGCCATGTCCCAGACATGGT
16503374 CTTACACT
1 CTTACACT
16503382 AGCACACATA
Statistics
Matches: 204, Mismatches: 40, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
47 2 0.01
48 200 0.98
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
CTTACACTGGCTCTCATATCATTGCCGATGCCATGTCCCAGACATGGT
Found at i:16508391 original size:40 final size:40
Alignment explanation
Indices: 16508341--16508524 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
16508331 GCTACTAGCT
* *
16508341 CAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
16508381 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
16508421 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* ** * * *
16508461 CAAATGCCTTCGGGACTT-GCCCGAAACTAGTCACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
16508500 CAGATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
16508525 TTATCATCCA
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 31 0.25
40 93 0.74
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:16517216 original size:20 final size:20
Alignment explanation
Indices: 16517187--16517236 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
16517177 TTTACCCCGA
* *
16517187 GTATCAATACTCGAGCAAAG
1 GTATCGATACTCGAGAAAAG
*
16517207 GTATCGATACTCGAGAAAAT
1 GTATCGATACTCGAGAAAAG
16517227 GTATCGATAC
1 GTATCGATAC
16517237 AAAATCTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (20 bp):
GTATCGATACTCGAGAAAAG
Found at i:16517544 original size:28 final size:28
Alignment explanation
Indices: 16517510--16517677 Score: 122
Period size: 28 Copynumber: 6.0 Consensus size: 28
16517500 TAAATCATAG
*
16517510 AGATAGTCATGATGGACTTCCACATATA
1 AGATAGTCATGATGAACTTCCACATATA
* ** *
16517538 ATATAGTTTTGATGAACTTTCACATATA
1 AGATAGTCATGATGAACTTCCACATATA
* * *
16517566 AGATAGTCCTAACGAACTTCCACATATA
1 AGATAGTCATGATGAACTTCCACATATA
* * * * **
16517594 AGACAATTC-TAATAAACTTTTACATATA
1 AGA-TAGTCATGATGAACTTCCACATATA
* * * *
16517622 AGATAATCTTGGTGGACTTCCACATATA
1 AGATAGTCATGATGAACTTCCACATATA
* * * *
16517650 AGATAGTCCTTACGAACTTCTACATATA
1 AGATAGTCATGATGAACTTCCACATATA
16517678 TTTCATAACT
Statistics
Matches: 106, Mismatches: 32, Indels: 4
0.75 0.23 0.03
Matches are distributed among these distances:
27 3 0.03
28 100 0.94
29 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (28 bp):
AGATAGTCATGATGAACTTCCACATATA
Found at i:16517668 original size:56 final size:55
Alignment explanation
Indices: 16517521--16517677 Score: 152
Period size: 56 Copynumber: 2.8 Consensus size: 55
16517511 GATAGTCATG
* * * *
16517521 ATGGACTTCCACATATAATATAGTTTTGATGAACTTTCACATATAAGATAGTCCTA
1 ATGGACTTCCACATATAAGATAGTCTT-ATGAACTTTTACATATAAGATAATCCTA
* * * * * * * *
16517577 ACGAACTTCCACATATAAGACAATTCTAATAAACTTTTACATATAAGATAATCTTG
1 ATGGACTTCCACATATAAGA-TAGTCTTATGAACTTTTACATATAAGATAATCCTA
* * *
16517633 GTGGACTTCCACATATAAGATAGTCCTTACGAACTTCTACATATA
1 ATGGACTTCCACATATAAGATAGT-CTTATGAACTTTTACATATA
16517678 TTTCATAACT
Statistics
Matches: 78, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
55 2 0.03
56 73 0.94
57 3 0.04
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (55 bp):
ATGGACTTCCACATATAAGATAGTCTTATGAACTTTTACATATAAGATAATCCTA
Found at i:16524245 original size:46 final size:48
Alignment explanation
Indices: 16524184--16524280 Score: 130
Period size: 46 Copynumber: 2.1 Consensus size: 48
16524174 ATAAAGAGCA
*
16524184 AAATCATATCTGAATAAT-GAATAATGAAAAATAAAA-AATAAAAAAACC
1 AAATCATATCTGAATAATGGAA-AATAAAAAATAAAATAA-AAAAAAACC
*
16524232 AAAT-ATAT-TGAATAATGGAAACTAAAAAATAAAATAAAAAAAAACC
1 AAATCATATCTGAATAATGGAAAATAAAAAATAAAATAAAAAAAAACC
16524278 AAA
1 AAA
16524281 GGATAGAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
46 32 0.71
47 9 0.20
48 4 0.09
ACGTcount: A:0.67, C:0.07, G:0.06, T:0.20
Consensus pattern (48 bp):
AAATCATATCTGAATAATGGAAAATAAAAAATAAAATAAAAAAAAACC
Found at i:16525997 original size:2 final size:2
Alignment explanation
Indices: 16525985--16526017 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
16525975 ACATTCTCCC
*
16525985 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
16526018 ACTCACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:16528355 original size:16 final size:16
Alignment explanation
Indices: 16528334--16528365 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16528324 TTTATAACTG
*
16528334 CTATGTATTTATATAT
1 CTATGTATGTATATAT
16528350 CTATGTATGTATATAT
1 CTATGTATGTATATAT
16528366 TTGAAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (16 bp):
CTATGTATGTATATAT
Found at i:16530026 original size:3 final size:3
Alignment explanation
Indices: 16530018--16530085 Score: 75
Period size: 3 Copynumber: 22.7 Consensus size: 3
16530008 ACAGGGTAAA
*
16530018 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA- GTCT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G-AT GAT GAT GAT
* * * *
16530063 CAA GAC GAG GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GA
16530086 CAGTGAGGAC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.96
4 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.34, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:16530093 original size:21 final size:21
Alignment explanation
Indices: 16530018--16530094 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
16530008 ACAGGGTAAA
* *
16530018 GATGATGATGATGATGATGAT
1 GATGAAGATGAGGATGATGAT
* **
16530039 GATGATGATGAGTCTGATGAT
1 GATGAAGATGAGGATGATGAT
* *
16530060 GATCAAGACGAGGATGATGAT
1 GATGAAGATGAGGATGATGAT
16530081 GATGACAG-TGAGGA
1 GATGA-AGATGAGGA
16530095 CTAAATCACT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
21 43 0.96
22 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.35, T:0.26
Consensus pattern (21 bp):
GATGAAGATGAGGATGATGAT
Found at i:16531644 original size:5 final size:5
Alignment explanation
Indices: 16531634--16531662 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
16531624 TAATTTGTGA
16531634 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
16531663 AGAACACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:16536074 original size:5 final size:5
Alignment explanation
Indices: 16536064--16536092 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
16536054 CAATTTGTGA
16536064 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
16536093 ACATAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:16544219 original size:41 final size:42
Alignment explanation
Indices: 16544170--16544302 Score: 127
Period size: 41 Copynumber: 3.3 Consensus size: 42
16544160 CGTTTGCAAT
* *
16544170 AAAACGCCGCAAAAAACTGAGCAATAGCTGCGCTTTTGA-TC
1 AAAACGCCGCTAAAAACTGAGCAATAGCTGCGCTTTTGAGTA
* * *
16544211 CAAACGCCGCTAAAAA-TAGAGTAATAG-TG-GCGTTTTCAGTA
1 AAAACGCCGCTAAAAACT-GAGCAATAGCTGCGC-TTTTGAGTA
* * *
16544252 AAAACGCCGCTAAAAACTAAACAATAGCGGCGCTTTT--G-A
1 AAAACGCCGCTAAAAACTGAGCAATAGCTGCGCTTTTGAGTA
16544291 AAAACGCCGCTA
1 AAAACGCCGCTA
16544303 TAGGTCGAGC
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
39 15 0.20
40 9 0.12
41 44 0.58
42 6 0.08
43 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (42 bp):
AAAACGCCGCTAAAAACTGAGCAATAGCTGCGCTTTTGAGTA
Found at i:16544344 original size:41 final size:41
Alignment explanation
Indices: 16544276--16544463 Score: 245
Period size: 41 Copynumber: 4.6 Consensus size: 41
16544266 AACTAAACAA
* *
16544276 TAGCGGCGCTTTT-GAAAAACGCCGCTATAGGTCGAGCTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
** * * * *
16544316 TAGCGGCGCTTTTTTAAAAACGACGCTATTGCTC-AGTTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* * *
16544356 TAGCAGTGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
16544397 TAGCGGCGCTTTTGGGAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
16544438 TAGCGGCGCTTTTGAAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
16544464 AAAAAATTAA
Statistics
Matches: 126, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 44 0.35
41 82 0.65
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
Found at i:16544392 original size:81 final size:82
Alignment explanation
Indices: 16544276--16544461 Score: 232
Period size: 81 Copynumber: 2.3 Consensus size: 82
16544266 AACTAAACAA
* * * **
16544276 TAGCGGCGCTTTT-GAAAAACGCCGCTATAGGTCGAGCTTTTAGCGGCGCTTTTTTAAAAACGAC
1 TAGCAGCGCTTTTGGAAAAACGCCACTATAGATCGAGCTTTTAGCGGCGCTTTTGGAAAAACGAC
* * *
16544340 GCTATTGCTC-AGTTTT
66 GCTATAGATCGAGGTTT
* * * *
16544356 TAGCAGTGCTTTTGGAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGGAAAACGCC
1 TAGCAGCGCTTTTGGAAAAACGCCACTATAGATCGAGCTTTTAGCGGCGCTTTTGGAAAAACGAC
16544421 GCTATAGATCGAGGTTT
66 GCTATAGATCGAGGTTT
* *
16544438 TAGCGGCGCTTTTGAAAAAACGCC
1 TAGCAGCGCTTTTGGAAAAACGCC
16544462 GCAAAAAATT
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 11 0.12
81 52 0.58
82 26 0.29
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (82 bp):
TAGCAGCGCTTTTGGAAAAACGCCACTATAGATCGAGCTTTTAGCGGCGCTTTTGGAAAAACGAC
GCTATAGATCGAGGTTT
Found at i:16544923 original size:22 final size:22
Alignment explanation
Indices: 16544898--16544940 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16544888 ATTTTAAGCT
*
16544898 TTATAGATTATGGGTTTAGGGA
1 TTATAGATTATGGGTTAAGGGA
* *
16544920 TTATGGTTTATGGGTTAAGGG
1 TTATAGATTATGGGTTAAGGG
16544941 TTAGGGTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (22 bp):
TTATAGATTATGGGTTAAGGGA
Found at i:16544970 original size:23 final size:23
Alignment explanation
Indices: 16544938--16544981 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16544928 TATGGGTTAA
*
16544938 GGGTTAGGGTTTAAGTTTTAGAG
1 GGGTTAGGGTTTAAGGTTTAGAG
*
16544961 GGGTTGGGGTTTAAGGTTTAG
1 GGGTTAGGGTTTAAGGTTTAG
16544982 GGGTTAAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (23 bp):
GGGTTAGGGTTTAAGGTTTAGAG
Found at i:16544985 original size:21 final size:21
Alignment explanation
Indices: 16544910--16545028 Score: 78
Period size: 21 Copynumber: 5.5 Consensus size: 21
16544900 ATAGATTATG
* * *
16544910 GGTTTAGGGATTATGGTTTAT
1 GGTTTAGGGGTTAGGGTTTAA
* *
16544931 GGGTTAAGGGTTAGGGTTTAA
1 GGTTTAGGGGTTAGGGTTTAA
* *
16544952 GTTTTAGAGGGGTTGGGGTTTAA
1 GGTTT--AGGGGTTAGGGTTTAA
*
16544975 GGTTTAGGGGTTAAGAG-TTAA
1 GGTTTAGGGGTT-AGGGTTTAA
* ** * *
16544996 GGGTTTATGTTTTATGATTTAA
1 -GGTTTAGGGGTTAGGGTTTAA
16545018 GGTTTAGGGGT
1 GGTTTAGGGGT
16545029 CAGAGGTCAG
Statistics
Matches: 72, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
21 39 0.54
22 15 0.21
23 18 0.25
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (21 bp):
GGTTTAGGGGTTAGGGTTTAA
Found at i:16547173 original size:23 final size:23
Alignment explanation
Indices: 16547147--16547190 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
16547137 ACTAGAGAAC
16547147 ATCTGTTAAACCGGATTAGGTAG
1 ATCTGTTAAACCGGATTAGGTAG
*
16547170 ATCTGTTAAATCGGATTAGGT
1 ATCTGTTAAACCGGATTAGGT
16547191 GGCATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (23 bp):
ATCTGTTAAACCGGATTAGGTAG
Found at i:16550278 original size:18 final size:17
Alignment explanation
Indices: 16550242--16550284 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
16550232 TCAAATTTCA
*
16550242 AAAATTAAACATAATAT
1 AAAATTAAACATAAAAT
*
16550259 AAAATTTAACATAAAAAT
1 AAAATTAAACAT-AAAAT
16550277 AAATATTA
1 AAA-ATTA
16550285 TTTAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 11 0.52
18 7 0.33
19 3 0.14
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTAAACATAAAAT
Found at i:16550371 original size:43 final size:43
Alignment explanation
Indices: 16550317--16550502 Score: 232
Period size: 43 Copynumber: 4.4 Consensus size: 43
16550307 TTTTAAAGTA
* * *
16550317 CATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCTGCTAAAGGT
1 CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
* * **
16550360 TATGATCTTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGT
1 CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
* * *
16550403 TATGGTCTTTAGCGGCG-TT-TGAAAAAAGCGTCGCTAAAGGT
1 CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
* * * *
16550444 CATGGTCTTTAGTGGCGTTTGTAAAAAAAGCGCCGCTAAAAGT
1 CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
16550487 CATGATCTTTAGCGGC
1 CATGATCTTTAGCGGC
16550503 ATTTTTTGAA
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
41 33 0.27
42 4 0.03
43 87 0.70
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
Found at i:16550453 original size:84 final size:86
Alignment explanation
Indices: 16550311--16550502 Score: 237
Period size: 84 Copynumber: 2.2 Consensus size: 86
16550301 TAATTTTTTT
* * *
16550311 AAAGTACATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCTGCTAAAGGTTATGATCTTTAGCGGC
1 AAAGT-CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCTGCTAAAGGTCATGATCTTTAGCGGC
***
16550376 GTTTGCGGGAAAAGCGCCGCTA
65 GTTTGCAAAAAAAGCGCCGCTA
* * * * *
16550398 AAGGTTATGGTCTTTAGCGGCG-TT-TGAAAAAAGCG-TCGCTAAAGGTCATGGTCTTTAGTGGC
1 AAAGTCATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCT-GCTAAAGGTCATGATCTTTAGCGGC
*
16550460 GTTTGTAAAAAAAGCGCCGCTA
65 GTTTGCAAAAAAAGCGCCGCTA
16550482 AAAGTCATGATCTTTAGCGGC
1 AAAGTCATGATCTTTAGCGGC
16550503 ATTTTTTGAA
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
83 1 0.01
84 68 0.76
85 2 0.02
86 14 0.16
87 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (86 bp):
AAAGTCATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCTGCTAAAGGTCATGATCTTTAGCGGCG
TTTGCAAAAAAAGCGCCGCTA
Found at i:16552928 original size:21 final size:21
Alignment explanation
Indices: 16552902--16552941 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16552892 ATTAAATGAT
16552902 TAAAAT-TACTAAAATAAAAGC
1 TAAAATAT-CTAAAATAAAAGC
*
16552923 TAAAATATTTAAAATAAAA
1 TAAAATATCTAAAATAAAA
16552942 ACAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAAATATCTAAAATAAAAGC
Found at i:16554254 original size:5 final size:5
Alignment explanation
Indices: 16554244--16554268 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16554234 CTAGGTAACT
16554244 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
16554269 GTTACAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:16555011 original size:46 final size:46
Alignment explanation
Indices: 16554953--16555620 Score: 997
Period size: 46 Copynumber: 14.6 Consensus size: 46
16554943 CCATAGTGTA
* * * *
16554953 TTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATC
*** *
16554999 TTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
* *
16555045 TTTCAACCATGGTCTTAGACATTTCATATCAGGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
* *
16555091 TTTCAACCATGGTCTTGCACAATTCATATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
** * *
16555137 TTTCAACCATGGTCTTATTC-TTTCATGTCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
*
16555182 TTTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
* *
16555228 GTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
* ** * **
16555274 TTTCAACCATGGCCTTATTC-TTTCATGTCACATTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
16555319 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
16555365 TTTCAACCATGGTCTTACACATTTC-TAATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCAT-ATCATGTTGCCATGGTATC
16555411 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
** * *
16555457 TTTCAACCATGGTCTTA-TTATTTCATTTCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
*
16555502 TTTCAACCATGGTCTTACACATTTCATATCATGCTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
16555548 TTTCAACCATGGTCTTACACATTTC-TAATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCAT-ATCATGTTGCCATGGTATC
16555594 TTTCAACCATGGTCTTACACATTTCAT
1 TTTCAACCATGGTCTTACACATTTCAT
16555621 TTCAGAAAGC
Statistics
Matches: 565, Mismatches: 49, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
45 127 0.22
46 436 0.77
47 2 0.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
Found at i:16555193 original size:183 final size:182
Alignment explanation
Indices: 16554953--16555625 Score: 1014
Period size: 183 Copynumber: 3.7 Consensus size: 182
16554943 CCATAGTGTA
* * * * **
16554953 TTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGT
1 TTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
* * *
16555017 TCATTTC-ATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAGACATTTCATATCAGGTTG
65 ACATTTCTA-ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
* *
16555081 CCATGGTATCTTTCAACCATGGTCTTGCACAATTCATATCATGTTGCCATGGTATC
129 CCATGGTATCTTTCAACCATGGTCTT--ACATTTCATATCACGTTGCCATGGTATC
** * * *
16555137 TTTCAACCATGGTCTTATTC-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATA
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
*
16555201 CATTTC-ATATCATGTTGCCATGGTATCGTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
66 CATTTCTA-ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
* * *
16555265 CATGGTATCTTTCAACCATGGCCTTATTC-TTTCATGTCACATTGCCATGGTATC
130 CATGGTATCTTTCAACCATGGTCTTA--CATTTCATATCACGTTGCCATGGTATC
16555319 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
*
16555384 CATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCC
66 CATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
* *
16555449 ATGGTATCTTTCAACCATGGTCTTATTATTTCATTTCACGTTGCCATGGTATC
131 ATGGTATCTTTCAACCATGGTCTTA-CATTTCATATCACGTTGCCATGGTATC
*
16555502 TTTCAACCATGGTCTTACACATTTCATATCATGCTGCCATGGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
*
16555567 CATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
66 CATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
16555626 AAAGCACACT
Statistics
Matches: 455, Mismatches: 28, Indels: 13
0.92 0.06 0.03
Matches are distributed among these distances:
181 1 0.00
182 44 0.10
183 392 0.86
184 18 0.04
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (182 bp):
TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
CATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
ATGGTATCTTTCAACCATGGTCTTACATTTCATATCACGTTGCCATGGTATC
Found at i:16555210 original size:137 final size:138
Alignment explanation
Indices: 16554953--16555625 Score: 1016
Period size: 137 Copynumber: 4.9 Consensus size: 138
16554943 CCATAGTGTA
* * * * *
16554953 TTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGT
1 TTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAT
*
16555017 TCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAGACATTTCATATCAGGTTGC
65 TCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
16555082 CATGGTATC
130 CATGGTATC
* *
16555091 TTTCAACCATGGTCTTGCACAATTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
* * *
16555156 C-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCC
66 CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
16555220 ATGGTATC
131 ATGGTATC
* * *
16555228 GTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTATT
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
* * *
16555293 C-TTTCATGTCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCC
66 CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
16555357 ATGGTATC
131 ATGGTATC
*
16555365 TTTCAACCATGGTCTTACACATTTC-TAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 TTTCAACCATGGTCTTACACATTTCAT-ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAT
* * ** * *
16555429 ACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TTATTTCATTTCACGTTGC
65 TCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
16555493 CATGGTATC
130 CATGGTATC
* **
16555502 TTTCAACCATGGTCTTACACATTTCATATCATGCTGCCATGGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
* *
16555567 CATTTC-TAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
66 CATTTCAT-ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
16555626 AAAGCACACT
Statistics
Matches: 496, Mismatches: 33, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
136 2 0.00
137 388 0.78
138 106 0.21
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (138 bp):
TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
ATGGTATC
Found at i:16555725 original size:54 final size:54
Alignment explanation
Indices: 16555660--16555767 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
16555650 CCTTACAGCG
16555660 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
*
16555714 GGATTACCAGTCCAGGCTATATCCCCTGTAATATAAACTCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
16555768 ACGACAATTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
Found at i:16557792 original size:3 final size:3
Alignment explanation
Indices: 16557778--16557826 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
16557768 TTTTATACTA
*
16557778 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16557821 AA- AAT A
1 AAT AAT A
16557827 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:16557800 original size:11 final size:11
Alignment explanation
Indices: 16557784--16557822 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
16557774 ACTAAATAAT
16557784 TAATAATAAAA
1 TAATAATAAAA
*
16557795 TAATAATGAAA
1 TAATAATAAAA
16557806 TAATAATAAAA
1 TAATAATAAAA
16557817 TAATAA
1 TAATAA
16557823 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:16557809 original size:19 final size:19
Alignment explanation
Indices: 16557785--16557826 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
16557775 CTAAATAATT
*
16557785 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
16557804 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
16557823 AATA
1 AATA
16557827 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:16557849 original size:20 final size:21
Alignment explanation
Indices: 16557796--16557871 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
16557786 ATAATAAAAT
* *
16557796 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
16557815 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
16557836 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
16557857 TAATCATAAAATATC
1 -AATAATAAAATATC
16557872 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:16557941 original size:18 final size:18
Alignment explanation
Indices: 16557918--16557959 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16557908 TCCAATTGAC
16557918 CATTTTACCATTTATTAT
1 CATTTTACCATTTATTAT
* *
16557936 CATTTTTCCCTTTATTAT
1 CATTTTACCATTTATTAT
16557954 C-TTTTA
1 CATTTTA
16557960 AAATTCCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (18 bp):
CATTTTACCATTTATTAT
Found at i:16558713 original size:19 final size:19
Alignment explanation
Indices: 16558689--16558726 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16558679 TGGCCTATTT
16558689 TCAATTAAATCACTAATTA
1 TCAATTAAATCACTAATTA
* *
16558708 TCAATTAAGTCGCTAATTA
1 TCAATTAAATCACTAATTA
16558727 CCCTCAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (19 bp):
TCAATTAAATCACTAATTA
Found at i:16560057 original size:21 final size:22
Alignment explanation
Indices: 16560031--16560086 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
16560021 TAATTTTATG
16560031 TTTTCAATCTTCAAATCTT-AA
1 TTTTCAATCTTCAAATCTTCAA
* * *
16560052 TTTTCACT-TTCCAATTTTCAA
1 TTTTCAATCTTCAAATCTTCAA
*
16560073 TTTTCAATCCTCAA
1 TTTTCAATCTTCAA
16560087 TTATTTTCTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 8 0.30
21 16 0.59
22 3 0.11
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTCAATCTTCAAATCTTCAA
Found at i:16560125 original size:15 final size:15
Alignment explanation
Indices: 16560103--16560138 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
16560093 TCTAAAATTC
16560103 TTTTTTAT-TTCAAA
1 TTTTTTATCTTCAAA
16560117 TTTTATTATCTTCAAA
1 TTTT-TTATCTTCAAA
16560133 TTTTTT
1 TTTTTT
16560139 CTTTTCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 6 0.30
16 10 0.50
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTTATCTTCAAA
Found at i:16562495 original size:12 final size:12
Alignment explanation
Indices: 16562465--16562507 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
16562455 CATTTGTTAA
* *
16562465 TTAAAAAAAGTT
1 TTAAAATAATTT
*
16562477 TCAAAATAATTT
1 TTAAAATAATTT
*
16562489 TTGAAATAATTT
1 TTAAAATAATTT
16562501 TTAAAAT
1 TTAAAAT
16562508 TCAAAATATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (12 bp):
TTAAAATAATTT
Found at i:16565080 original size:18 final size:17
Alignment explanation
Indices: 16565057--16565101 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
16565047 CGTTTTTTTT
16565057 TATATAAAAATAATTATA
1 TATATAAAAAT-ATTATA
16565075 TATATAAATAATATTATA
1 TATATAAA-AATATTATA
*
16565093 TAGATAAAA
1 TATATAAAA
16565102 GAAGTTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TATATAAAAATATTATA
Found at i:16565092 original size:14 final size:16
Alignment explanation
Indices: 16565057--16565099 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
16565047 CGTTTTTTTT
*
16565057 TATATAAAAATAATTA
1 TATATATAAATAATTA
16565073 TATATATAAATAA-TA
1 TATATATAAATAATTA
*
16565088 T-TATATAGATAA
1 TATATATAAATAA
16565100 AAGAAGTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
TATATATAAATAATTA
Found at i:16570821 original size:47 final size:46
Alignment explanation
Indices: 16570615--16570974 Score: 247
Period size: 47 Copynumber: 7.7 Consensus size: 46
16570605 GATATATTGT
* * * *
16570615 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TGTGC
* * *
16570665 TGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GC
*** * *
16570709 CGATGTGCGTCCCAGACACGTATTACACTGG--CT-ATCTCTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT----GC
16570756 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
* * *
16570802 CGATGCCATGTCCCAGACATGGTCTTATACTAGCTA-TCA-CAGTATG-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATC--TCTGTGC
* * * * * * *
16570850 TGATGCATGTCCCAGACATGCCTTACACTAGCCCTCGTCT-GGATAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG-TGC
* **
16570896 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGTGTC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTGTG-C
*
16570944 CGAAGCATGTCCCAGACATGTCTTACACTGG
1 CGATGCATGTCCCAGACATGTCTTACACTGG
16570975 TACACAAATC
Statistics
Matches: 247, Mismatches: 40, Indels: 50
0.73 0.12 0.15
Matches are distributed among these distances:
43 6 0.02
44 27 0.11
45 2 0.01
46 40 0.16
47 87 0.35
48 53 0.21
49 20 0.08
50 12 0.05
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
Found at i:16570868 original size:94 final size:94
Alignment explanation
Indices: 16570615--16570972 Score: 356
Period size: 94 Copynumber: 3.8 Consensus size: 94
16570605 GATATATTGT
* * * *
16570615 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTACTGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACAGTATG-G--CCGATGCATGTCCCA
*
16570679 GACATGTCTTACACTAGCA--CAACTCT-TAGC
63 GACATGTCTTACACTAGCACTCATCTCTGT-GC
* * * * *
16570709 CGATGTGC--GTCCCAGACA-CGTATTACACTGGCTATCTCTGTCGA-GGCCGATGCATGTCCCA
1 CGATG-CCATGTCCCAGACATGGTCTTACACTGGCTATCACAGT--ATGGCCGATGCATGTCCCA
*
16570770 GACATGTCTTACACTGGCACTCATCTCTGTGC
63 GACATGTCTTACACTAGCACTCATCTCTGTGC
* * *
16570802 CGATGCCATGTCCCAGACATGGTCTTATACTAGCTATCACAGTATGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACAGTATGGCCGATGCATGTCCCAGAC
* * * * *
16570867 ATGCCTTACACTAGCCCTCGTCT-GGATAC
66 ATGTCTTACACTAGCACTCATCTCTG-TGC
* * * * * *
16570896 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGTCCGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACAGTATGGCCGATGCATGTCCCAGAC
16570961 ATGTCTTACACT
66 ATGTCTTACACT
16570973 GGTACACAAA
Statistics
Matches: 218, Mismatches: 34, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
91 32 0.15
92 16 0.07
93 27 0.12
94 124 0.57
95 19 0.09
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACAGTATGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCATCTCTGTGC
Found at i:16571356 original size:30 final size:30
Alignment explanation
Indices: 16571315--16571372 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
16571305 AAATTTACAT
* *
16571315 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
16571345 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
16571373 TGCCTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:16578696 original size:5 final size:5
Alignment explanation
Indices: 16578686--16578721 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
16578676 AATAATTAAG
16578686 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
16578722 ATAAAAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:16580411 original size:46 final size:48
Alignment explanation
Indices: 16580315--16580479 Score: 300
Period size: 46 Copynumber: 3.5 Consensus size: 48
16580305 TAGTCCGAGC
16580315 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTG-AAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
*
16580362 TTTGTTAATAGAGTAAATAATTGAAATG-AA-TTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
16580408 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
16580456 TTTGTTAATAGGGTAAATAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
16580480 TGTTTGTAAT
Statistics
Matches: 113, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
45 4 0.04
46 40 0.35
47 29 0.26
48 40 0.35
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
Found at i:16586272 original size:5 final size:5
Alignment explanation
Indices: 16586262--16586297 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
16586252 AATAATTAAG
16586262 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
16586298 ATAAAAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:16587947 original size:48 final size:48
Alignment explanation
Indices: 16587891--16588058 Score: 318
Period size: 48 Copynumber: 3.5 Consensus size: 48
16587881 TAGTCCGAGC
16587891 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
*
16587939 TTTGTTAATAGAGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
16587987 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
*
16588035 TTTGTTAATAGGGTAAACAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
16588059 TGTTTGTAAT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.43, C:0.01, G:0.18, T:0.38
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
Found at i:16589274 original size:17 final size:17
Alignment explanation
Indices: 16589252--16589287 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16589242 AGACATCAGG
16589252 TGACCTTGGAGGAGAGT
1 TGACCTTGGAGGAGAGT
16589269 TGACCTTGGAGGAGAGT
1 TGACCTTGGAGGAGAGT
16589286 TG
1 TG
16589288 CGATGACAAA
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:0.22, C:0.11, G:0.42, T:0.25
Consensus pattern (17 bp):
TGACCTTGGAGGAGAGT
Found at i:16596166 original size:2 final size:2
Alignment explanation
Indices: 16596159--16596191 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16596149 TTCGATTTTA
16596159 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16596192 GAAGATTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16599883 original size:26 final size:26
Alignment explanation
Indices: 16599837--16599888 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
16599827 ATTTTAATCC
*
16599837 TTTACTTTATTTTATTGTTTAATTTA
1 TTTACTTTATTTGATTGTTTAATTTA
* *
16599863 TTTATTTTATTATGATT-TTTACTTTA
1 TTTACTTTATT-TGATTGTTTAATTTA
16599889 AATTTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTACTTTATTTGATTGTTTAATTTA
Found at i:16600161 original size:4 final size:4
Alignment explanation
Indices: 16600140--16600176 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
16600130 TTTTCCTCAA
* *
16600140 TATT AATT TATG TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
16600177 TCTTTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:16600241 original size:17 final size:17
Alignment explanation
Indices: 16600219--16600257 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16600209 TTCATGTGCA
*
16600219 TATTTTGTCATTATTAT
1 TATTTTGTCATCATTAT
* *
16600236 TATTTTTTTATCATTAT
1 TATTTTGTCATCATTAT
16600253 TATTT
1 TATTT
16600258 ACTTTATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (17 bp):
TATTTTGTCATCATTAT
Found at i:16609877 original size:3 final size:3
Alignment explanation
Indices: 16609862--16609929 Score: 84
Period size: 3 Copynumber: 23.0 Consensus size: 3
16609852 TTACAACATC
* * * *
16609862 GAA GAA TAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA TAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
16609910 AAA GAA GAA GAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA
16609930 TGATCACCCT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:16611988 original size:44 final size:44
Alignment explanation
Indices: 16611925--16612508 Score: 189
Period size: 44 Copynumber: 12.9 Consensus size: 44
16611915 TATAATGGTG
**
16611925 AATCTTATCT-CTCTGAAGTTTTAGTGGAGCAGATTGAAGCCACT
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* *** *
16611969 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT-GAAGCCACT
* * * *
16612014 AATCTTATCT-CTCTAAAGTTGCAGTAGAGCAGATTAAAGCTA-T
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * * * * *
16612057 AAACTTTATTTCCCTGAAGTTGTAGTGAAGCAGGTTGAAGTCAC-
1 AATC-TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * ** *
16612101 AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATTACA
1 AA-TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG-CCACT
* * *** * *
16612147 AATCTTCTTTCCCAAAAGTTGCAATGGAACAGATT-AAGCCAACAAATT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCC-AC----T
* * * * * **
16612195 ACAAATCTGATCTCCCTGAAGTTGCAATGGAGTAAATTGAAGTTAC-
1 ---AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * * ** ** *
16612241 AGATCTTATCCCCCTGAAGTTACAGTGGAGTAGACCGAAGATAGCA
1 A-ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
* * * * *
16612287 AATCTTATCTCCCTAAAGTTGTAGTGGAGC-GATTAAAACCAC-
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * * ** *
16612329 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAGATAGCG
1 AA-TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
* * * * * *
16612375 AATCTTATTTCCCTAAAGCTGCAGTGGAACAGATT-AAGGCTACAAATTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAA-GC--C-----ACT
* * * * * * * *
16612426 AATTTTATTTCCCTAAAGTTACAGTGGA-AAAATTGAAGCTACT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* *
16612469 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGC
16612509 GGCGATTCCT
Statistics
Matches: 401, Mismatches: 104, Indels: 70
0.70 0.18 0.12
Matches are distributed among these distances:
42 2 0.00
43 56 0.14
44 152 0.38
45 119 0.30
46 5 0.01
50 6 0.01
51 57 0.14
52 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
Found at i:16612044 original size:89 final size:88
Alignment explanation
Indices: 16611925--16612539 Score: 333
Period size: 89 Copynumber: 6.8 Consensus size: 88
16611915 TATAATGGTG
* ** * *
16611925 AATCTTATCTCTCTGAAGTTTTAGTGGAGCAGATTGAAGCCACTAATCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-AATCTTATCTCCCTGAAGTTG
16611990 CAGTGGAGCAGATTAAAAATAACA
65 CAGTGGAGCAGATTAAAAATAACA
* * * * * * *
16612014 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACTTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAATC-TTATCTCCCTGAAGTTG
* * * * * *
16612079 TAGTGAAGCAGGTT-GAAGTCACA
65 CAGTGGAGCAGATTAAAAATAACA
* * * * * * **
16612102 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATTACAAATCTTCTTTCCCAAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CTAC-AATCTTATCTCCCTGAAGTT
* * *
16612167 GCAATGGAACAGATTAAGCCAACAAATTACA
64 GCAGTGGAGCAGATT-----AA-AAATAACA
* * * * * * *
16612198 AATCTGATCTCCCTGAAGTTGCAATGGAGTAAATTGAAGTTACAGATCTTATCCCCCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA-ATCTTATCTCCCTGAAGTTG
* *** * *
16612263 CAGTGGAGTAGACCGAAGATAGCA
65 CAGTGGAGCAGATTAAAAATAACA
* * * * *
16612287 AATCTTATCTCCCTAAAGTTGTAGTGGAGC-GATTAAAACCACAAGTCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA-TCTTATCTCCCTGAAGTTG
* * * * * * *
16612351 CAGTAGAGCAAACTGAAGATAGCG
65 CAGTGGAGCAGATTAAAAATAACA
* * * * *
16612375 AATCTTATTTCCCTAAAGCTGCAGTGGAACAGATT-AAGGCTACAAATTACAAATTTTATTTCCC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GCTAC-AA-T-C-----TTATCTCCC
* * * * * ** *
16612439 TAAAGTTACAGTGGA-AAAATTGAAGCT-ACT
57 TGAAGTTGCAGTGGAGCAGATTAAAAATAACA
* ** * *
16612469 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCGGCGATTCCTATAC-CCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-AATCTTAT-CTCCCTGAAGTT
16612533 GCAGTGG
64 GCAGTGG
16612540 GTTAGAATGG
Statistics
Matches: 398, Mismatches: 105, Indels: 48
0.72 0.19 0.09
Matches are distributed among these distances:
87 19 0.05
88 113 0.28
89 124 0.31
90 7 0.02
91 1 0.00
92 1 0.00
93 1 0.00
94 36 0.09
95 38 0.10
96 58 0.15
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTAAAAATAACA
Found at i:16612180 original size:133 final size:133
Alignment explanation
Indices: 16611937--16612183 Score: 325
Period size: 133 Copynumber: 1.9 Consensus size: 133
16611927 TCTTATCTCT
* * * *
16611937 CTGAAGTTTTAGTGGAGCAGATTGAAGCCACTAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGA
1 CTGAAGTTGTAGTGAAGCAGATTGAAGCCACTAATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
* * * * *
16612002 TTAAAAATAACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACTTTATT
66 CTAAAAATAACAAATCTTATCTCCCAAAAGTTGCAATAGAACAGATTAAAGCTATAAACTTTATT
16612067 TCC
131 TCC
* *
16612070 CTGAAGTTGTAGTGAAGCAGGTTGAAGTCAC-AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAG
1 CTGAAGTTGTAGTGAAGCAGATTGAAGCCACTAA-TCTTATCTCCCTGAAGTTACAGTGGAGCAG
* * * * * *
16612134 ACTGAAGATTACAAATCTTCTTTCCCAAAAGTTGCAATGGAACAGATTAA
65 ACTAAAAATAACAAATCTTATCTCCCAAAAGTTGCAATAGAACAGATTAA
16612184 GCCAACAAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
132 2 0.02
133 94 0.98
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (133 bp):
CTGAAGTTGTAGTGAAGCAGATTGAAGCCACTAATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
CTAAAAATAACAAATCTTATCTCCCAAAAGTTGCAATAGAACAGATTAAAGCTATAAACTTTATT
TCC
Found at i:16612401 original size:88 final size:89
Alignment explanation
Indices: 16612244--16612411 Score: 230
Period size: 88 Copynumber: 1.9 Consensus size: 89
16612234 AAGTTACAGA
* * * * *
16612244 TCTTATCCCCCTGAAGTTACAGTGGAGTAGACCGAAGATAGCAAATCTTATCTCCCTAAAGTTGT
1 TCTTATCCCCCTGAAGTTACAGTAGAGCAAACCGAAGATAGCAAATCTTATCTCCCTAAAGCTGC
*
16612309 AGTGGAGC-GATTAAAACCACAAG
66 AGTGGAACAGATTAAAACCACAAG
* * * * *
16612332 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAGATAGCGAATCTTATTTCCCTAAAGCTGC
1 TCTTATCCCCCTGAAGTTACAGTAGAGCAAACCGAAGATAGCAAATCTTATCTCCCTAAAGCTGC
16612397 AGTGGAACAGATTAA
66 AGTGGAACAGATTAA
16612412 GGCTACAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
88 62 0.91
89 6 0.09
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (89 bp):
TCTTATCCCCCTGAAGTTACAGTAGAGCAAACCGAAGATAGCAAATCTTATCTCCCTAAAGCTGC
AGTGGAACAGATTAAAACCACAAG
Found at i:16612405 original size:228 final size:228
Alignment explanation
Indices: 16612062--16612501 Score: 589
Period size: 228 Copynumber: 1.9 Consensus size: 228
16612052 GCTATAAACT
* * * * **
16612062 TTATTTCCCTGAAGTTGTAGTGAAGCAGGTTGAAGTCACAAGTCTTATCTCCCTGAAGTTACAGT
1 TTATCTCCCTAAAGTTGTAGTGAAGCAGATTAAAACCACAAGTCTTATCTCCCTGAAGTTACAGT
* * * *
16612127 GGAGCAGACTGAAGATTACAAATCTTCTTTCCCAAAAGTTGCAATGGAACAGATTAAGCCAACAA
66 AGAGCAAACTGAAGATTACAAATCTTATTTCCCAAAAGCTGCAATGGAACAGATTAAGCCAACAA
* * * *
16612192 ATTACAAATCTGATCTCCCTGAAGTTGCAATGGAGTAAATTGAAGTTAC-AGATCTTATCCCCCT
131 ATTACAAATCTGATCTCCCTAAAGTTACAATGGA-AAAATTGAAGCTACTA-ATCTTATCCCCCT
16612256 GAAGTTACAGTGGAGTAGACCGAAGATAGCAAATC
194 GAAGTTACAGTGGAGTAGACCGAAGATAGCAAATC
* *
16612291 TTATCTCCCTAAAGTTGTAGTGGAGC-GATTAAAACCACAAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTAAAGTTGTAGTGAAGCAGATTAAAACCACAAGTCTTATCTCCCTGAAGTTACAGT
* * * * *
16612355 AGAGCAAACTGAAGA-TAGCGAATCTTATTTCCCTAAAGCTGCAGTGGAACAGATTAAGGCTACA
66 AGAGCAAACTGAAGATTA-CAAATCTTATTTCCCAAAAGCTGCAATGGAACAGATTAAGCCAACA
* * * * *
16612419 AATTACAAATTTTATTTCCCTAAAGTTACAGTGGAAAAATTGAAGCTACTAATCTTATCTCCCTG
130 AATTACAAATCTGATCTCCCTAAAGTTACAATGGAAAAATTGAAGCTACTAATCTTATCCCCCTG
*
16612484 AAGTTGCAGTGGAGTAGA
195 AAGTTACAGTGGAGTAGA
16612502 TTGAAGCGGC
Statistics
Matches: 182, Mismatches: 27, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
227 44 0.24
228 115 0.63
229 23 0.13
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (228 bp):
TTATCTCCCTAAAGTTGTAGTGAAGCAGATTAAAACCACAAGTCTTATCTCCCTGAAGTTACAGT
AGAGCAAACTGAAGATTACAAATCTTATTTCCCAAAAGCTGCAATGGAACAGATTAAGCCAACAA
ATTACAAATCTGATCTCCCTAAAGTTACAATGGAAAAATTGAAGCTACTAATCTTATCCCCCTGA
AGTTACAGTGGAGTAGACCGAAGATAGCAAATC
Found at i:16612820 original size:27 final size:26
Alignment explanation
Indices: 16612769--16612821 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
16612759 TTACAATATG
*
16612769 ACCCAATGGCCCAAATAACTAAAAAA
1 ACCCAATGGCCCAAATAACCAAAAAA
* *
16612795 ACCCTAATGGCCCAAATGACCCAAAAA
1 ACCC-AATGGCCCAAATAACCAAAAAA
16612822 CCTAAACATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.49, C:0.30, G:0.09, T:0.11
Consensus pattern (26 bp):
ACCCAATGGCCCAAATAACCAAAAAA
Found at i:16614380 original size:17 final size:17
Alignment explanation
Indices: 16614358--16614396 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16614348 TTCATGTGCA
*
16614358 TATTTTGTCATTATTAT
1 TATTTTGTCATCATTAT
* *
16614375 TATTTTTTTATCATTAT
1 TATTTTGTCATCATTAT
16614392 TATTT
1 TATTT
16614397 ACTTTATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (17 bp):
TATTTTGTCATCATTAT
Found at i:16616964 original size:132 final size:132
Alignment explanation
Indices: 16616706--16616964 Score: 310
Period size: 132 Copynumber: 2.0 Consensus size: 132
16616696 AATAGAAATA
* * * * *
16616706 AGAACCCATTCAAGGCCCACACACGAAAGTCCAGATAAGCTTTCTGATCTAATTGAGATTGCTTT
1 AGAACCCATTCAAGACCCACACACGAAAGCCCAGATAAGCTTTCTGACCCAATTGAAATTGCTTT
* * * * *
16616771 AAAAACTGACTTAATTTCCTCTTCTTCATAACAGGTCCACGAAGTCTTAGTGGGACTAAATCGGA
66 AAAAACTGACTTAATTTCCTCTTCTTCATAACAAGTCAACGAAGTCATAGTAGGACAAAATCGGA
16616836 TG
131 TG
* *
16616838 AGAACCCTTTCAAGACCCACACATGAAAGCCCA-AGTAAGCTTTCTGACCCAATT-AAACTTG-T
1 AGAACCCATTCAAGACCCACACACGAAAGCCCAGA-TAAGCTTTCTGACCCAATTGAAA-TTGCT
* * * *
16616900 TATAAAATCTGACTTAATTTCCTTTTCTTCACT-TCAAGTCAACGATGTCATAGTAGGACAAAAT
64 T-TAAAAACTGACTTAATTTCCTCTTCTTCA-TAACAAGTCAACGAAGTCATAGTAGGACAAAAT
16616964 C
127 C
16616965 AGACATAAAA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
131 5 0.05
132 101 0.94
133 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (132 bp):
AGAACCCATTCAAGACCCACACACGAAAGCCCAGATAAGCTTTCTGACCCAATTGAAATTGCTTT
AAAAACTGACTTAATTTCCTCTTCTTCATAACAAGTCAACGAAGTCATAGTAGGACAAAATCGGA
TG
Found at i:16620381 original size:10 final size:10
Alignment explanation
Indices: 16620364--16620402 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
16620354 TTAAATTCTA
16620364 AAAGATAAAT
1 AAAGATAAAT
* *
16620374 ACAGATAATT
1 AAAGATAAAT
16620384 AAAGATAAAT
1 AAAGATAAAT
16620394 AAAGATAAA
1 AAAGATAAA
16620403 AGCTAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:16620389 original size:20 final size:20
Alignment explanation
Indices: 16620364--16620401 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16620354 TTAAATTCTA
*
16620364 AAAGATAAATACAGATAATT
1 AAAGATAAATAAAGATAATT
16620384 AAAGATAAATAAAGATAA
1 AAAGATAAATAAAGATAA
16620402 AAGCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:16625752 original size:25 final size:25
Alignment explanation
Indices: 16625712--16625768 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
16625702 TTATTTCACT
16625712 ACTTTTTTTAACTTTTGAAGCA-TTA
1 ACTTTTTTTAACTTTT-AAGCATTTA
* * *
16625737 ACTTTTTTTTAGTTTTAAGTATTTA
1 ACTTTTTTTAACTTTTAAGCATTTA
16625762 A-TTTTTT
1 ACTTTTTT
16625769 AAAGCCCTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (25 bp):
ACTTTTTTTAACTTTTAAGCATTTA
Found at i:16625804 original size:30 final size:30
Alignment explanation
Indices: 16625764--16625821 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
16625754 AGTATTTAAT
*
16625764 TTTTTAAAGCCCTTGTTTAACTTTTTTTTA
1 TTTTTAAAGCCCTTATTTAACTTTTTTTTA
*
16625794 TTTTTGAAGCCCTTATTTAACTTTTTTT
1 TTTTTAAAGCCCTTATTTAACTTTTTTT
16625822 GCTTTTAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.60
Consensus pattern (30 bp):
TTTTTAAAGCCCTTATTTAACTTTTTTTTA
Found at i:16625835 original size:29 final size:30
Alignment explanation
Indices: 16625765--16625829 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
16625755 GTATTTAATT
* *
16625765 TTTTAAAGCCCTTGTTTAACTTTTTTTTAT
1 TTTTAAAGCCCTTATTTAACTTTTTTTTAC
* *
16625795 TTTTGAAGCCCTTATTTAAC-TTTTTTTGC
1 TTTTAAAGCCCTTATTTAACTTTTTTTTAC
16625824 TTTTAA
1 TTTTAA
16625830 GTCCCTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (30 bp):
TTTTAAAGCCCTTATTTAACTTTTTTTTAC
Found at i:16627756 original size:62 final size:62
Alignment explanation
Indices: 16627642--16627758 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 62
16627632 CTTGTCACTT
* * * * * * * *
16627642 GTAGCCGAAGCTACCACTATTCATTGATCAGGTAGCCGGAGCTGCTATTTTTCACAGATCAA
1 GTAGCCGAAGCTACCAATATTCACTGATCAGGTAACCGAAACTACCACTTTTCACAGATCAA
* *
16627704 GTAGTCGAAGCTACCAATTTTCACTGATCAGGTAACCGAAACTACCACTTTTCAC
1 GTAGCCGAAGCTACCAATATTCACTGATCAGGTAACCGAAACTACCACTTTTCAC
16627759 TTGTCATTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 45 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (62 bp):
GTAGCCGAAGCTACCAATATTCACTGATCAGGTAACCGAAACTACCACTTTTCACAGATCAA
Found at i:16627759 original size:31 final size:31
Alignment explanation
Indices: 16627642--16627759 Score: 128
Period size: 31 Copynumber: 3.8 Consensus size: 31
16627632 CTTGTCACTT
* *
16627642 GTAGCCGAAGCTACCACTATTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * * * *
16627673 GTAGCCGGAGCTGCTATTTTTCACAGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
16627704 GTAGTCGAAGCTACCAATTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
16627735 GTAACCGAAACTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
16627760 TGTCATTTGT
Statistics
Matches: 68, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:16627837 original size:50 final size:51
Alignment explanation
Indices: 16627739--16627863 Score: 171
Period size: 50 Copynumber: 2.5 Consensus size: 51
16627729 GATCAGGTAA
* * * * *
16627739 CCGAAACTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAG
1 CCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTAG
* *
16627790 CCGAAGCTATCACTTATCACTT-TCACTTATTCTTGATTAGATAAGTGTAG
1 CCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTAG
*
16627840 CTGAAGCTATCACTTATCACTTGT
1 CCGAAGCTATCACTTATCACTTGT
16627864 TGCCATGGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
50 45 0.69
51 20 0.31
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.37
Consensus pattern (51 bp):
CCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGTGTAG
Found at i:16631359 original size:39 final size:40
Alignment explanation
Indices: 16631282--16631360 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 40
16631272 TTTTATAACT
* *
16631282 TTTTTTTACTTTTTTAAAATAAATTTTAAATTTTAAAAATAG
1 TTTTTATACTTTTTTAAAAT--ATTTTAAAATTTAAAAATAG
*
16631324 TTTTTATAGTTTTTTAAAAT-TTTTAAAATTTAAAAAT
1 TTTTTATACTTTTTTAAAATATTTTAAAATTTAAAAAT
16631361 TAATTAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 16 0.47
42 18 0.53
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (40 bp):
TTTTTATACTTTTTTAAAATATTTTAAAATTTAAAAATAG
Found at i:16635500 original size:30 final size:30
Alignment explanation
Indices: 16635466--16635522 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
16635456 ATTTTATGAG
* *
16635466 AGGGGCCAAAGTGCAAATATGTGAAAGTTT
1 AGGGGCCAAAATGCAAATATGTAAAAGTTT
* *
16635496 AGGGGTCAAAATGCAAATTTGTAAAAG
1 AGGGGCCAAAATGCAAATATGTAAAAG
16635523 CATGATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (30 bp):
AGGGGCCAAAATGCAAATATGTAAAAGTTT
Found at i:16635780 original size:18 final size:20
Alignment explanation
Indices: 16635744--16635790 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
16635734 AGTTGTAAGT
16635744 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
16635764 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
16635783 ATGATATA
1 AT-ATATA
16635791 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:16636265 original size:50 final size:50
Alignment explanation
Indices: 16636145--16636585 Score: 413
Period size: 50 Copynumber: 8.7 Consensus size: 50
16636135 TGAGAACACA
*
16636145 TGTGTAGTACTATA-TGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGTCACG
1 TGTGTAGTACTA-AGTGCAGGCTACTATGTG--T-A-CCAGATTGTTAGGTCACG
* * * *
16636197 TGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
* ** * * * *
16636247 TGTGTAGTACTAAATGCAGGCTACTATGCATACCCGATAGTTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGTCACG
* ** *
16636298 TGTGTAGTACTAAGTGCAGGCTATTATGTGTATTAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
* * * * * *
16636348 TGTGTAGTACTAAGTCCAGGCTATTACGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
* * * * * *
16636398 TGTGTAGTACTAAGTGCTGGCTACTATGCGTACCCG-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATT--GTTAGGTCACG
* * * * * **
16636449 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCGTG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
* * ***
16636499 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
*
16636549 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
16636586 GAGCTTCAGT
Statistics
Matches: 317, Mismatches: 65, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
48 3 0.01
49 5 0.02
50 207 0.65
51 75 0.24
52 27 0.09
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
Found at i:16636421 original size:151 final size:151
Alignment explanation
Indices: 16636145--16636582 Score: 646
Period size: 151 Copynumber: 2.9 Consensus size: 151
16636135 TGAGAACACA
* * *
16636145 TGTGTAGTACTATA-TGCAGGCTACTATGTGT-TTAAGACAGTTTTAGGTCACGTGTATAGTACT
1 TGTGTAGTACTA-AGTGCAGGCTACTATGTGTATT-AGA-TG-GTTAGGTCACGTGTGTAGTACT
* *
16636208 AAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAATGCAGGCTACTA
62 AAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
* **
16636273 TGCATACCCGATAGTTTCGATCACG
127 TGCGTACCCGATAACTTCGATCACG
*
16636298 TGTGTAGTACTAAGTGCAGGCTATTATGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * *
16636363 CCAGGCTATTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCTGGCTACTATGCG
66 GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
*
16636428 TACCCGTTAACTTCGATCACG
131 TACCCGATAACTTCGATCACG
* * * * **
16636449 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCGTGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGT
*
16636514 GCAGGCTACTACGTGTACCAGATTGATAGGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
16636579 TACC
131 TACC
16636583 AGAGAGCTTC
Statistics
Matches: 259, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
151 224 0.86
152 2 0.01
153 31 0.12
154 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGATAACTTCGATCACG
Found at i:16636532 original size:101 final size:103
Alignment explanation
Indices: 16636201--16636585 Score: 344
Period size: 101 Copynumber: 3.8 Consensus size: 103
16636191 GTCACGTGTA
* * * *
16636201 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCG-CA--TGTGTAGTACTAAATG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATACGTCGTCACGTGTGTAGTACTAAGTG
* ** * * * ** * *
16636263 CAGGCTACTATGCATACCCGATAGTTTCGATCACGTGTG
66 CAGGCTACTACGTGTACCAGATGGATAAG-TCGCATGTG
* * * ** * * *
16636302 TAGTACTAAGTGCAGGCTATTATGTGTATTAGATGGTTA-G--GTCACGTGTGTAGTACTAAGTC
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATACGTCGTCACGTGTGTAGTACTAAGTG
* * *
16636364 CAGGCTATTACGTGTACCAGATTGATAGGTCGCATGTG
66 CAGGCTACTACGTGTACCAGATGGATAAGTCGCATGTG
* * * *
16636402 TAGTACTAAGTGCTGGCTACTATGCGTACCCG-TT-A-ACTTCGATCACGTGTGTAGTACTAAGT
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATACGTCG-TCACGTGTGTAGTACTAAGT
* **
16636464 GCAGGCTACTACGTGTATCAGATGGATAAGTCGTGTGTG
65 GCAGGCTACTACGTGTACCAGATGGATAAGTCGCATGTG
* *
16636503 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGT-A--TGTGTAGTACTAAGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATACGTCGTCACGTGTGTAGTACTAAGTG
* *
16636565 CAGGCTACTATGCGTACCAGA
66 CAGGCTACTACGTGTACCAGA
16636586 GAGCTTCAGT
Statistics
Matches: 231, Mismatches: 43, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
97 1 0.00
98 1 0.00
99 3 0.01
100 69 0.30
101 148 0.64
102 3 0.01
103 2 0.01
104 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (103 bp):
TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATACGTCGTCACGTGTGTAGTACTAAGTG
CAGGCTACTACGTGTACCAGATGGATAAGTCGCATGTG
Found at i:16636806 original size:16 final size:16
Alignment explanation
Indices: 16636785--16636816 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16636775 AGAATGGAGC
16636785 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
16636801 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
16636817 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:16640294 original size:31 final size:30
Alignment explanation
Indices: 16640231--16640294 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
16640221 TTACTTTCTT
* **
16640231 CCCAATACTTTTACTCCCTCCCACTTTCCC
1 CCCAAAACTTTTACTCCCTCCCACTCCCCC
16640261 CCCAAAACTTTTACTCCCCTCCCA-TCCCACC
1 CCCAAAACTTTTACT-CCCTCCCACTCCC-CC
16640292 CCC
1 CCC
16640295 CATCTACCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.19, C:0.55, G:0.00, T:0.27
Consensus pattern (30 bp):
CCCAAAACTTTTACTCCCTCCCACTCCCCC
Found at i:16643855 original size:20 final size:19
Alignment explanation
Indices: 16643825--16643863 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
16643815 CCAACATTAG
16643825 AAAGAAAAGAACGAAAGAA
1 AAAGAAAAGAACGAAAGAA
*
16643844 AAAGAGAAAGAAGGAAAGAA
1 AAAGA-AAAGAACGAAAGAA
16643864 GTAGACGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.72, C:0.03, G:0.26, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAACGAAAGAA
Done.